I: pbuilder: network access will be disabled during build I: Current time: Wed Apr 16 15:41:48 +14 2025 I: pbuilder-time-stamp: 1744767708 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/trixie-reproducible-base.tgz] I: copying local configuration W: --override-config is not set; not updating apt.conf Read the manpage for details. I: mounting /proc filesystem I: mounting /sys filesystem I: creating /{dev,run}/shm I: mounting /dev/pts filesystem I: redirecting /dev/ptmx to /dev/pts/ptmx I: policy-rc.d already exists I: Copying source file I: copying [sra-sdk_3.2.1+dfsg-3.dsc] I: copying [./sra-sdk_3.2.1+dfsg.orig.tar.xz] I: copying [./sra-sdk_3.2.1+dfsg-3.debian.tar.xz] I: Extracting source dpkg-source: warning: cannot verify inline signature for ./sra-sdk_3.2.1+dfsg-3.dsc: unsupported subcommand dpkg-source: info: extracting sra-sdk in sra-sdk-3.2.1+dfsg dpkg-source: info: unpacking sra-sdk_3.2.1+dfsg.orig.tar.xz dpkg-source: info: unpacking sra-sdk_3.2.1+dfsg-3.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying set_explicit_path_to_schemata.patch dpkg-source: info: applying python3 dpkg-source: info: applying skip_test_using_lots_of_memory.patch dpkg-source: info: applying find_ncbi-vdb-interfaces.patch dpkg-source: info: applying link_vdb_dynamically.patch dpkg-source: info: applying use_debian_packaged_re2.patch dpkg-source: info: applying use_debian_packaged_compression_libs.patch dpkg-source: info: applying use_soversions.patch dpkg-source: info: applying label_online_tests.patch dpkg-source: info: applying prefer_dynamic_libraries.patch dpkg-source: info: applying fix_ngs-c++-underlinkage.patch dpkg-source: info: applying use_c_locale_for_comma.patch dpkg-source: info: applying no_sse4.2.patch dpkg-source: info: applying fix_arm64_build.patch dpkg-source: info: applying support_libre2-11.patch dpkg-source: info: applying pyhon3.12-syntax.patch dpkg-source: info: applying setuptools.patch dpkg-source: info: applying auto-gitignore I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/2029758/tmp/hooks/D01_modify_environment starting debug: Running on ionos1-amd64. I: Changing host+domainname to test build reproducibility I: Adding a custom variable just for the fun of it... I: Changing /bin/sh to bash '/bin/sh' -> '/bin/bash' lrwxrwxrwx 1 root root 9 Apr 16 01:42 /bin/sh -> /bin/bash I: Setting pbuilder2's login shell to /bin/bash I: Setting pbuilder2's GECOS to second user,second room,second work-phone,second home-phone,second other I: user script /srv/workspace/pbuilder/2029758/tmp/hooks/D01_modify_environment finished I: user script /srv/workspace/pbuilder/2029758/tmp/hooks/D02_print_environment starting I: set BASH=/bin/sh BASHOPTS=checkwinsize:cmdhist:complete_fullquote:extquote:force_fignore:globasciiranges:globskipdots:hostcomplete:interactive_comments:patsub_replacement:progcomp:promptvars:sourcepath BASH_ALIASES=() BASH_ARGC=() BASH_ARGV=() BASH_CMDS=() BASH_LINENO=([0]="12" [1]="0") BASH_LOADABLES_PATH=/usr/local/lib/bash:/usr/lib/bash:/opt/local/lib/bash:/usr/pkg/lib/bash:/opt/pkg/lib/bash:. BASH_SOURCE=([0]="/tmp/hooks/D02_print_environment" [1]="/tmp/hooks/D02_print_environment") BASH_VERSINFO=([0]="5" [1]="2" [2]="37" [3]="1" [4]="release" [5]="x86_64-pc-linux-gnu") BASH_VERSION='5.2.37(1)-release' BUILDDIR=/build/reproducible-path BUILDUSERGECOS='second user,second room,second work-phone,second home-phone,second other' BUILDUSERNAME=pbuilder2 BUILD_ARCH=amd64 DEBIAN_FRONTEND=noninteractive DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=40 ' DIRSTACK=() DISTRIBUTION=trixie EUID=0 FUNCNAME=([0]="Echo" [1]="main") GROUPS=() HOME=/root HOSTNAME=i-capture-the-hostname HOSTTYPE=x86_64 HOST_ARCH=amd64 IFS=' ' INVOCATION_ID=063a1b6814674b71a1369e68722ef8a4 LANG=C LANGUAGE=et_EE:et LC_ALL=C MACHTYPE=x86_64-pc-linux-gnu MAIL=/var/mail/root OPTERR=1 OPTIND=1 OSTYPE=linux-gnu PATH=/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path PBCURRENTCOMMANDLINEOPERATION=build PBUILDER_OPERATION=build PBUILDER_PKGDATADIR=/usr/share/pbuilder PBUILDER_PKGLIBDIR=/usr/lib/pbuilder PBUILDER_SYSCONFDIR=/etc PIPESTATUS=([0]="0") POSIXLY_CORRECT=y PPID=2029758 PS4='+ ' PWD=/ SHELL=/bin/bash SHELLOPTS=braceexpand:errexit:hashall:interactive-comments:posix SHLVL=3 SUDO_COMMAND='/usr/bin/timeout -k 24.1h 24h /usr/bin/ionice -c 3 /usr/bin/nice -n 11 /usr/bin/unshare --uts -- /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/r-b-build.UnmWdb1k/pbuilderrc_Hb78 --distribution trixie --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/trixie-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.UnmWdb1k/b2 --logfile b2/build.log sra-sdk_3.2.1+dfsg-3.dsc' SUDO_GID=110 SUDO_UID=105 SUDO_USER=jenkins TERM=unknown TZ=/usr/share/zoneinfo/Etc/GMT-14 UID=0 USER=root _='I: set' http_proxy=http://46.16.76.132:3128 I: uname -a Linux i-capture-the-hostname 6.1.0-33-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.1.133-1 (2025-04-10) x86_64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 Mar 4 11:20 /bin -> usr/bin I: user script /srv/workspace/pbuilder/2029758/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy Version: 0.invalid.0 Architecture: amd64 Maintainer: Debian Pbuilder Team Description: Dummy package to satisfy dependencies with aptitude - created by pbuilder This package was created automatically by pbuilder to satisfy the build-dependencies of the package being currently built. Depends: debhelper-compat (= 13), cmake, d-shlibs, dh-python, javahelper, libabsl-dev, libncbi-vdb-dev (>= 3.2.1+dfsg~), libhdf5-dev, libmagic-dev, libre2-dev, libxml2-dev, libzstd-dev, liblzma-dev, libsam-extract-dev, maven-repo-helper, python3-all, python3-setuptools, python3-vdb, default-jdk, flex, bison dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19842 files and directories currently installed.) Preparing to unpack .../pbuilder-satisfydepends-dummy.deb ... Unpacking pbuilder-satisfydepends-dummy (0.invalid.0) ... dpkg: pbuilder-satisfydepends-dummy: dependency problems, but configuring anyway as you requested: pbuilder-satisfydepends-dummy depends on debhelper-compat (= 13); however: Package debhelper-compat is not installed. pbuilder-satisfydepends-dummy depends on cmake; however: Package cmake is not installed. pbuilder-satisfydepends-dummy depends on d-shlibs; however: Package d-shlibs is not installed. pbuilder-satisfydepends-dummy depends on dh-python; however: Package dh-python is not installed. pbuilder-satisfydepends-dummy depends on javahelper; however: Package javahelper is not installed. pbuilder-satisfydepends-dummy depends on libabsl-dev; however: Package libabsl-dev is not installed. pbuilder-satisfydepends-dummy depends on libncbi-vdb-dev (>= 3.2.1+dfsg~); however: Package libncbi-vdb-dev is not installed. pbuilder-satisfydepends-dummy depends on libhdf5-dev; however: Package libhdf5-dev is not installed. pbuilder-satisfydepends-dummy depends on libmagic-dev; however: Package libmagic-dev is not installed. pbuilder-satisfydepends-dummy depends on libre2-dev; however: Package libre2-dev is not installed. pbuilder-satisfydepends-dummy depends on libxml2-dev; however: Package libxml2-dev is not installed. pbuilder-satisfydepends-dummy depends on libzstd-dev; however: Package libzstd-dev is not installed. pbuilder-satisfydepends-dummy depends on liblzma-dev; however: Package liblzma-dev is not installed. pbuilder-satisfydepends-dummy depends on libsam-extract-dev; however: Package libsam-extract-dev is not installed. pbuilder-satisfydepends-dummy depends on maven-repo-helper; however: Package maven-repo-helper is not installed. pbuilder-satisfydepends-dummy depends on python3-all; however: Package python3-all is not installed. pbuilder-satisfydepends-dummy depends on python3-setuptools; however: Package python3-setuptools is not installed. pbuilder-satisfydepends-dummy depends on python3-vdb; however: Package python3-vdb is not installed. pbuilder-satisfydepends-dummy depends on default-jdk; however: Package default-jdk is not installed. pbuilder-satisfydepends-dummy depends on flex; however: Package flex is not installed. pbuilder-satisfydepends-dummy depends on bison; however: Package bison is not installed. Setting up pbuilder-satisfydepends-dummy (0.invalid.0) ... Reading package lists... Building dependency tree... Reading state information... Initializing package states... Writing extended state information... Building tag database... pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) The following NEW packages will be installed: adwaita-icon-theme{a} at-spi2-common{a} autoconf{a} automake{a} autopoint{a} autotools-dev{a} binfmt-support{a} bison{a} bsdextrautils{a} ca-certificates{a} ca-certificates-java{a} cmake{a} cmake-data{a} comerr-dev{a} d-shlibs{a} dbus{a} dbus-bin{a} dbus-daemon{a} dbus-session-bus-common{a} dbus-system-bus-common{a} dbus-user-session{a} dconf-gsettings-backend{a} dconf-service{a} dctrl-tools{a} debhelper{a} default-jdk{a} default-jdk-headless{a} default-jre{a} default-jre-headless{a} devscripts{a} dh-autoreconf{a} dh-python{a} dh-strip-nondeterminism{a} dwz{a} fastjar{a} file{a} flex{a} fontconfig{a} fontconfig-config{a} fonts-dejavu-core{a} fonts-dejavu-mono{a} gettext{a} gettext-base{a} gpg{a} gpg-agent{a} gpgconf{a} gpgv{a} groff-base{a} gtk-update-icon-cache{a} hdf5-helpers{a} hicolor-icon-theme{a} intltool-debian{a} jarwrapper{a} java-common{a} javahelper{a} krb5-multidev{a} libabsl-dev{a} libabsl20240722{a} libaec-dev{a} libaec0{a} libapparmor1{a} libarchive-zip-perl{a} libarchive13t64{a} libasound2-data{a} libasound2t64{a} libassuan9{a} libatk-bridge2.0-0t64{a} libatk1.0-0t64{a} libatspi2.0-0t64{a} libavahi-client3{a} libavahi-common-data{a} libavahi-common3{a} libb-hooks-op-check-perl{a} libbrotli-dev{a} libbrotli1{a} libbz2-dev{a} libcairo-gobject2{a} libcairo2{a} libclass-method-modifiers-perl{a} libclass-xsaccessor-perl{a} libclone-perl{a} libcloudproviders0{a} libcolord2{a} libcom-err2{a} libcups2t64{a} libcurl4-openssl-dev{a} libcurl4t64{a} libdatrie1{a} libdbus-1-3{a} libdconf1{a} libdebhelper-perl{a} libdeflate0{a} libdevel-callchecker-perl{a} libdrm-amdgpu1{a} libdrm-common{a} libdrm-intel1{a} libdrm2{a} libdynaloader-functions-perl{a} libedit2{a} libelf1t64{a} libencode-locale-perl{a} libepoxy0{a} libevent-2.1-7t64{a} libexpat1{a} libffi8{a} libfile-dirlist-perl{a} libfile-homedir-perl{a} libfile-listing-perl{a} libfile-stripnondeterminism-perl{a} libfile-touch-perl{a} libfile-which-perl{a} libfontconfig1{a} libfreetype6{a} libfribidi0{a} libgbm1{a} libgcrypt20{a} libgdk-pixbuf-2.0-0{a} libgdk-pixbuf2.0-common{a} libgfortran5{a} libgif7{a} libgl1{a} libgl1-mesa-dri{a} libglib2.0-0t64{a} libglvnd0{a} libglx-mesa0{a} libglx0{a} libgmp-dev{a} libgmpxx4ldbl{a} libgnutls-dane0t64{a} libgnutls-openssl27t64{a} libgnutls28-dev{a} libgnutls30t64{a} libgpg-error0{a} libgraphite2-3{a} libgssapi-krb5-2{a} libgssrpc4t64{a} libgtk-3-0t64{a} libgtk-3-common{a} libharfbuzz0b{a} libhdf5-310{a} libhdf5-cpp-310{a} libhdf5-dev{a} libhdf5-fortran-310{a} libhdf5-hl-310{a} libhdf5-hl-cpp-310{a} libhdf5-hl-fortran-310{a} libhtml-parser-perl{a} libhtml-tagset-perl{a} libhtml-tree-perl{a} libhttp-cookies-perl{a} libhttp-date-perl{a} libhttp-message-perl{a} libhttp-negotiate-perl{a} libidn2-0{a} libidn2-dev{a} libimport-into-perl{a} libio-html-perl{a} libio-socket-ssl-perl{a} libjbig0{a} libjpeg-dev{a} libjpeg62-turbo{a} libjpeg62-turbo-dev{a} libjsoncpp26{a} libk5crypto3{a} libkadm5clnt-mit12{a} libkadm5srv-mit12{a} libkdb5-10t64{a} libkeyutils1{a} libkrb5-3{a} libkrb5-dev{a} libkrb5support0{a} liblcms2-2{a} libldap-dev{a} libldap2{a} liblerc4{a} libllvm19{a} liblwp-mediatypes-perl{a} liblwp-protocol-https-perl{a} liblzma-dev{a} libmagic-dev{a} libmagic-mgc{a} libmagic1t64{a} libmbedcrypto16{a} libmbedtls-dev{a} libmbedtls21{a} libmbedx509-7{a} libmodule-runtime-perl{a} libmoo-perl{a} libncbi-vdb-dev{a} libncbi-vdb3{a} libncbi-wvdb-dev{a} libncbi-wvdb3{a} libnet-http-perl{a} libnet-ssleay-perl{a} libnghttp2-14{a} libnghttp2-dev{a} libnghttp3-9{a} libnghttp3-dev{a} libnpth0t64{a} libnspr4{a} libnss3{a} libp11-kit-dev{a} libp11-kit0{a} libpam-systemd{a} libpango-1.0-0{a} libpangocairo-1.0-0{a} libpangoft2-1.0-0{a} libparams-classify-perl{a} libpciaccess0{a} libpcsclite1{a} libpipeline1{a} libpixman-1-0{a} libpkgconf3{a} libpng16-16t64{a} libproc2-0{a} libpsl-dev{a} libpsl5t64{a} libpython3-stdlib{a} libpython3.13-minimal{a} libpython3.13-stdlib{a} libre2-11{a} libre2-dev{a} libreadline8t64{a} librhash1{a} librole-tiny-perl{a} librtmp-dev{a} librtmp1{a} libsam-extract-dev{a} libsam-extract3{a} libsasl2-2{a} libsasl2-modules-db{a} libsensors-config{a} libsensors5{a} libsharpyuv0{a} libssh2-1-dev{a} libssh2-1t64{a} libssl-dev{a} libsub-quote-perl{a} libsystemd-shared{a} libsz2{a} libtasn1-6{a} libtasn1-6-dev{a} libthai-data{a} libthai0{a} libtiff6{a} libtimedate-perl{a} libtool{a} libtry-tiny-perl{a} libuchardet0{a} libunbound8{a} libunistring5{a} liburi-perl{a} libuv1t64{a} libvulkan1{a} libwayland-client0{a} libwayland-cursor0{a} libwayland-egl1{a} libwayland-server0{a} libwebp7{a} libwww-perl{a} libwww-robotrules-perl{a} libx11-6{a} libx11-data{a} libx11-xcb1{a} libxau6{a} libxcb-dri3-0{a} libxcb-glx0{a} libxcb-present0{a} libxcb-randr0{a} libxcb-render0{a} libxcb-shm0{a} libxcb-sync1{a} libxcb-xfixes0{a} libxcb1{a} libxcomposite1{a} libxcursor1{a} libxdamage1{a} libxdmcp6{a} libxext6{a} libxfixes3{a} libxi6{a} libxinerama1{a} libxkbcommon0{a} libxml2{a} libxml2-dev{a} libxrandr2{a} libxrender1{a} libxshmfence1{a} libxtst6{a} libxxf86vm1{a} libz3-4{a} libzstd-dev{a} m4{a} man-db{a} maven-repo-helper{a} media-types{a} mesa-libgallium{a} ncbi-vdb-data{a} netbase{a} nettle-dev{a} openjdk-21-jdk{a} openjdk-21-jdk-headless{a} openjdk-21-jre{a} openjdk-21-jre-headless{a} openssl{a} patchutils{a} perl-openssl-defaults{a} pinentry-curses{a} pkgconf{a} pkgconf-bin{a} po-debconf{a} procps{a} python3{a} python3-all{a} python3-autocommand{a} python3-inflect{a} python3-jaraco.context{a} python3-jaraco.functools{a} python3-jaraco.text{a} python3-minimal{a} python3-more-itertools{a} python3-pkg-resources{a} python3-setuptools{a} python3-typeguard{a} python3-typing-extensions{a} python3-zipp{a} python3.13{a} python3.13-minimal{a} readline-common{a} sensible-utils{a} shared-mime-info{a} sopv-gpgv{a} systemd{a} systemd-sysv{a} tzdata{a} wdiff{a} x11-common{a} xkb-data{a} zlib1g-dev{a} The following packages are RECOMMENDED but will NOT be installed: alsa-topology-conf alsa-ucm-conf at-spi2-core bzip2-doc chrony curl debian-keyring dput dput-ng dupload equivs fonts-dejavu-extra gnupg krb5-locales libarchive-cpio-perl libatk-wrapper-java-jni libdata-dump-perl libdistro-info-perl libfl-dev libgdk-pixbuf2.0-bin libgit-wrapper-perl libgitlab-api-v4-perl libglib2.0-data libgmock-dev libgpg-error-l10n libgtk-3-bin libhtml-form-perl libhtml-format-perl libhttp-daemon-perl libio-compress-brotli-perl libjson-perl libkmod2 libldap-common liblist-compare-perl libltdl-dev libmail-sendmail-perl libmailtools-perl libnamespace-clean-perl libnss-systemd librsvg2-common libsasl2-modules libsoap-lite-perl libstring-shellquote-perl libtasn1-doc libxstring-perl libxt-dev licensecheck lintian linux-sysctl-defaults lynx lzip mesa-vulkan-drivers ntpsec openntpd pristine-tar psmisc publicsuffix python3-apt python3-argcomplete python3-debian python3-magic python3-requests python3-unidiff python3-xdg sopv-doc strace systemd-cryptsetup systemd-timesyncd unzip wget xdg-user-dirs 0 packages upgraded, 339 newly installed, 0 to remove and 0 not upgraded. Need to get 282 MB of archives. After unpacking 922 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian trixie/main amd64 libsystemd-shared amd64 257.5-2 [2142 kB] Get: 2 http://deb.debian.org/debian trixie/main amd64 libapparmor1 amd64 4.1.0~beta5-6 [43.5 kB] Get: 3 http://deb.debian.org/debian trixie/main amd64 systemd amd64 257.5-2 [3091 kB] Get: 4 http://deb.debian.org/debian trixie/main amd64 systemd-sysv amd64 257.5-2 [63.9 kB] Get: 5 http://deb.debian.org/debian trixie/main amd64 libdbus-1-3 amd64 1.16.2-2 [178 kB] Get: 6 http://deb.debian.org/debian trixie/main amd64 dbus-bin amd64 1.16.2-2 [80.0 kB] Get: 7 http://deb.debian.org/debian trixie/main amd64 dbus-session-bus-common all 1.16.2-2 [52.3 kB] Get: 8 http://deb.debian.org/debian trixie/main amd64 libexpat1 amd64 2.7.1-1 [108 kB] Get: 9 http://deb.debian.org/debian trixie/main amd64 dbus-daemon amd64 1.16.2-2 [159 kB] Get: 10 http://deb.debian.org/debian trixie/main amd64 dbus-system-bus-common all 1.16.2-2 [53.5 kB] Get: 11 http://deb.debian.org/debian trixie/main amd64 dbus amd64 1.16.2-2 [71.6 kB] Get: 12 http://deb.debian.org/debian trixie/main amd64 libpipeline1 amd64 1.5.8-1 [42.0 kB] Get: 13 http://deb.debian.org/debian trixie/main amd64 binfmt-support amd64 2.2.2-7 [64.3 kB] Get: 14 http://deb.debian.org/debian trixie/main amd64 m4 amd64 1.4.19-7 [294 kB] Get: 15 http://deb.debian.org/debian trixie/main amd64 flex amd64 2.6.4-8.2+b4 [423 kB] Get: 16 http://deb.debian.org/debian trixie/main amd64 libpython3.13-minimal amd64 3.13.2-3 [861 kB] Get: 17 http://deb.debian.org/debian trixie/main amd64 python3.13-minimal amd64 3.13.2-3 [2212 kB] Get: 18 http://deb.debian.org/debian trixie/main amd64 python3-minimal amd64 3.13.2-2 [27.1 kB] Get: 19 http://deb.debian.org/debian trixie/main amd64 media-types all 13.0.0 [29.3 kB] Get: 20 http://deb.debian.org/debian trixie/main amd64 netbase all 6.5 [12.4 kB] Get: 21 http://deb.debian.org/debian trixie/main amd64 tzdata all 2025b-2 [260 kB] Get: 22 http://deb.debian.org/debian trixie/main amd64 libffi8 amd64 3.4.7-1 [23.9 kB] Get: 23 http://deb.debian.org/debian trixie/main amd64 readline-common all 8.2-6 [69.4 kB] Get: 24 http://deb.debian.org/debian trixie/main amd64 libreadline8t64 amd64 8.2-6 [169 kB] Get: 25 http://deb.debian.org/debian trixie/main amd64 libpython3.13-stdlib amd64 3.13.2-3 [1952 kB] Get: 26 http://deb.debian.org/debian trixie/main amd64 python3.13 amd64 3.13.2-3 [746 kB] Get: 27 http://deb.debian.org/debian trixie/main amd64 libpython3-stdlib amd64 3.13.2-2 [10.1 kB] Get: 28 http://deb.debian.org/debian trixie/main amd64 python3 amd64 3.13.2-2 [28.1 kB] Get: 29 http://deb.debian.org/debian trixie/main amd64 libproc2-0 amd64 2:4.0.4-7 [64.9 kB] Get: 30 http://deb.debian.org/debian trixie/main amd64 procps amd64 2:4.0.4-7 [878 kB] Get: 31 http://deb.debian.org/debian trixie/main amd64 sensible-utils all 0.0.24 [24.8 kB] Get: 32 http://deb.debian.org/debian trixie/main amd64 openssl amd64 3.5.0-1 [1491 kB] Get: 33 http://deb.debian.org/debian trixie/main amd64 ca-certificates all 20241223 [164 kB] Get: 34 http://deb.debian.org/debian trixie/main amd64 libmagic-mgc amd64 1:5.45-3+b1 [314 kB] Get: 35 http://deb.debian.org/debian trixie/main amd64 libmagic1t64 amd64 1:5.45-3+b1 [108 kB] Get: 36 http://deb.debian.org/debian trixie/main amd64 file amd64 1:5.45-3+b1 [43.3 kB] Get: 37 http://deb.debian.org/debian trixie/main amd64 gettext-base amd64 0.23.1-1 [243 kB] Get: 38 http://deb.debian.org/debian trixie/main amd64 libuchardet0 amd64 0.0.8-1+b2 [68.9 kB] Get: 39 http://deb.debian.org/debian trixie/main amd64 groff-base amd64 1.23.0-7 [1185 kB] Get: 40 http://deb.debian.org/debian trixie/main amd64 libpam-systemd amd64 257.5-2 [296 kB] Get: 41 http://deb.debian.org/debian trixie/main amd64 bsdextrautils amd64 2.41-4 [94.6 kB] Get: 42 http://deb.debian.org/debian trixie/main amd64 man-db amd64 2.13.0-1 [1420 kB] Get: 43 http://deb.debian.org/debian trixie/main amd64 libgdk-pixbuf2.0-common all 2.42.12+dfsg-2 [311 kB] Get: 44 http://deb.debian.org/debian trixie/main amd64 libglib2.0-0t64 amd64 2.84.1-1 [1514 kB] Get: 45 http://deb.debian.org/debian trixie/main amd64 libxml2 amd64 2.12.7+dfsg+really2.9.14-0.4 [698 kB] Get: 46 http://deb.debian.org/debian trixie/main amd64 shared-mime-info amd64 2.4-5+b2 [760 kB] Get: 47 http://deb.debian.org/debian trixie/main amd64 libjpeg62-turbo amd64 1:2.1.5-3.1 [168 kB] Get: 48 http://deb.debian.org/debian trixie/main amd64 libpng16-16t64 amd64 1.6.47-1.1 [282 kB] Get: 49 http://deb.debian.org/debian trixie/main amd64 libdeflate0 amd64 1.23-1+b1 [47.5 kB] Get: 50 http://deb.debian.org/debian trixie/main amd64 libjbig0 amd64 2.1-6.1+b2 [32.1 kB] Get: 51 http://deb.debian.org/debian trixie/main amd64 liblerc4 amd64 4.0.0+ds-5 [183 kB] Get: 52 http://deb.debian.org/debian trixie/main amd64 libsharpyuv0 amd64 1.5.0-0.1 [116 kB] Get: 53 http://deb.debian.org/debian trixie/main amd64 libwebp7 amd64 1.5.0-0.1 [318 kB] Get: 54 http://deb.debian.org/debian trixie/main amd64 libtiff6 amd64 4.7.0-3 [346 kB] Get: 55 http://deb.debian.org/debian trixie/main amd64 libgdk-pixbuf-2.0-0 amd64 2.42.12+dfsg-2 [140 kB] Get: 56 http://deb.debian.org/debian trixie/main amd64 gtk-update-icon-cache amd64 4.18.4+ds-1 [51.7 kB] Get: 57 http://deb.debian.org/debian trixie/main amd64 hicolor-icon-theme all 0.18-2 [11.8 kB] Get: 58 http://deb.debian.org/debian trixie/main amd64 adwaita-icon-theme all 48.0-1 [504 kB] Get: 59 http://deb.debian.org/debian trixie/main amd64 at-spi2-common all 2.56.1-2 [171 kB] Get: 60 http://deb.debian.org/debian trixie/main amd64 autoconf all 2.72-3 [493 kB] Get: 61 http://deb.debian.org/debian trixie/main amd64 autotools-dev all 20240727.1 [60.2 kB] Get: 62 http://deb.debian.org/debian trixie/main amd64 automake all 1:1.17-4 [862 kB] Get: 63 http://deb.debian.org/debian trixie/main amd64 autopoint all 0.23.1-1 [770 kB] Get: 64 http://deb.debian.org/debian trixie/main amd64 bison amd64 2:3.8.2+dfsg-1+b2 [1170 kB] Get: 65 http://deb.debian.org/debian trixie/main amd64 ca-certificates-java all 20240118 [11.6 kB] Get: 66 http://deb.debian.org/debian trixie/main amd64 cmake-data all 3.31.6-2 [2268 kB] Get: 67 http://deb.debian.org/debian trixie/main amd64 libarchive13t64 amd64 3.7.4-1.1 [349 kB] Get: 68 http://deb.debian.org/debian trixie/main amd64 libbrotli1 amd64 1.1.0-2+b7 [307 kB] Get: 69 http://deb.debian.org/debian trixie/main amd64 libkrb5support0 amd64 1.21.3-5 [33.0 kB] Get: 70 http://deb.debian.org/debian trixie/main amd64 libcom-err2 amd64 1.47.2-1+b1 [24.3 kB] Get: 71 http://deb.debian.org/debian trixie/main amd64 libk5crypto3 amd64 1.21.3-5 [81.5 kB] Get: 72 http://deb.debian.org/debian trixie/main amd64 libkeyutils1 amd64 1.6.3-6 [9456 B] Get: 73 http://deb.debian.org/debian trixie/main amd64 libkrb5-3 amd64 1.21.3-5 [326 kB] Get: 74 http://deb.debian.org/debian trixie/main amd64 libgssapi-krb5-2 amd64 1.21.3-5 [138 kB] Get: 75 http://deb.debian.org/debian trixie/main amd64 libunistring5 amd64 1.3-2 [477 kB] Get: 76 http://deb.debian.org/debian trixie/main amd64 libidn2-0 amd64 2.3.8-2 [109 kB] Get: 77 http://deb.debian.org/debian trixie/main amd64 libsasl2-modules-db amd64 2.1.28+dfsg1-9 [19.8 kB] Get: 78 http://deb.debian.org/debian trixie/main amd64 libsasl2-2 amd64 2.1.28+dfsg1-9 [57.5 kB] Get: 79 http://deb.debian.org/debian trixie/main amd64 libldap2 amd64 2.6.9+dfsg-2 [194 kB] Get: 80 http://deb.debian.org/debian trixie/main amd64 libnghttp2-14 amd64 1.64.0-1 [75.5 kB] Get: 81 http://deb.debian.org/debian trixie/main amd64 libnghttp3-9 amd64 1.8.0-1 [67.7 kB] Get: 82 http://deb.debian.org/debian trixie/main amd64 libpsl5t64 amd64 0.21.2-1.1+b1 [57.2 kB] Get: 83 http://deb.debian.org/debian trixie/main amd64 libp11-kit0 amd64 0.25.5-3 [425 kB] Get: 84 http://deb.debian.org/debian trixie/main amd64 libtasn1-6 amd64 4.20.0-2 [49.9 kB] Get: 85 http://deb.debian.org/debian trixie/main amd64 libgnutls30t64 amd64 3.8.9-2 [1464 kB] Get: 86 http://deb.debian.org/debian trixie/main amd64 librtmp1 amd64 2.4+20151223.gitfa8646d.1-2+b5 [58.8 kB] Get: 87 http://deb.debian.org/debian trixie/main amd64 libssh2-1t64 amd64 1.11.1-1 [245 kB] Get: 88 http://deb.debian.org/debian trixie/main amd64 libcurl4t64 amd64 8.13.0-1 [381 kB] Get: 89 http://deb.debian.org/debian trixie/main amd64 libjsoncpp26 amd64 1.9.6-3 [81.7 kB] Get: 90 http://deb.debian.org/debian trixie/main amd64 librhash1 amd64 1.4.5-1 [132 kB] Get: 91 http://deb.debian.org/debian trixie/main amd64 libuv1t64 amd64 1.50.0-2 [154 kB] Get: 92 http://deb.debian.org/debian trixie/main amd64 cmake amd64 3.31.6-2 [12.0 MB] Get: 93 http://deb.debian.org/debian trixie/main amd64 comerr-dev amd64 2.1-1.47.2-1+b1 [56.0 kB] Get: 94 http://deb.debian.org/debian trixie/main amd64 d-shlibs all 0.109 [11.1 kB] Get: 95 http://deb.debian.org/debian trixie/main amd64 dbus-user-session amd64 1.16.2-2 [52.1 kB] Get: 96 http://deb.debian.org/debian trixie/main amd64 libdconf1 amd64 0.40.0-5 [41.8 kB] Get: 97 http://deb.debian.org/debian trixie/main amd64 dconf-service amd64 0.40.0-5 [32.4 kB] Get: 98 http://deb.debian.org/debian trixie/main amd64 dconf-gsettings-backend amd64 0.40.0-5 [28.6 kB] Get: 99 http://deb.debian.org/debian trixie/main amd64 dctrl-tools amd64 2.24-3+b1 [104 kB] Get: 100 http://deb.debian.org/debian trixie/main amd64 libdebhelper-perl all 13.24.2 [90.9 kB] Get: 101 http://deb.debian.org/debian trixie/main amd64 libtool all 2.5.4-4 [539 kB] Get: 102 http://deb.debian.org/debian trixie/main amd64 dh-autoreconf all 20 [17.1 kB] Get: 103 http://deb.debian.org/debian trixie/main amd64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 104 http://deb.debian.org/debian trixie/main amd64 libfile-stripnondeterminism-perl all 1.14.1-2 [19.7 kB] Get: 105 http://deb.debian.org/debian trixie/main amd64 dh-strip-nondeterminism all 1.14.1-2 [8620 B] Get: 106 http://deb.debian.org/debian trixie/main amd64 libelf1t64 amd64 0.192-4 [189 kB] Get: 107 http://deb.debian.org/debian trixie/main amd64 dwz amd64 0.15-1+b1 [110 kB] Get: 108 http://deb.debian.org/debian trixie/main amd64 gettext amd64 0.23.1-1 [1680 kB] Get: 109 http://deb.debian.org/debian trixie/main amd64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 110 http://deb.debian.org/debian trixie/main amd64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 111 http://deb.debian.org/debian trixie/main amd64 debhelper all 13.24.2 [919 kB] Get: 112 http://deb.debian.org/debian trixie/main amd64 java-common all 0.76 [6776 B] Get: 113 http://deb.debian.org/debian trixie/main amd64 liblcms2-2 amd64 2.16-2 [160 kB] Get: 114 http://deb.debian.org/debian trixie/main amd64 libnspr4 amd64 2:4.36-1 [110 kB] Get: 115 http://deb.debian.org/debian trixie/main amd64 libnss3 amd64 2:3.110-1 [1393 kB] Get: 116 http://deb.debian.org/debian trixie/main amd64 libpcsclite1 amd64 2.3.3-1 [55.2 kB] Get: 117 http://deb.debian.org/debian trixie/main amd64 openjdk-21-jre-headless amd64 21.0.7~8ea-1 [41.8 MB] Get: 118 http://deb.debian.org/debian trixie/main amd64 default-jre-headless amd64 2:1.21-76 [3192 B] Get: 119 http://deb.debian.org/debian trixie/main amd64 libatk1.0-0t64 amd64 2.56.1-2 [51.6 kB] Get: 120 http://deb.debian.org/debian trixie/main amd64 libxau6 amd64 1:1.0.11-1 [20.4 kB] Get: 121 http://deb.debian.org/debian trixie/main amd64 libxdmcp6 amd64 1:1.1.5-1 [27.8 kB] Get: 122 http://deb.debian.org/debian trixie/main amd64 libxcb1 amd64 1.17.0-2+b1 [144 kB] Get: 123 http://deb.debian.org/debian trixie/main amd64 libx11-data all 2:1.8.12-1 [343 kB] Get: 124 http://deb.debian.org/debian trixie/main amd64 libx11-6 amd64 2:1.8.12-1 [815 kB] Get: 125 http://deb.debian.org/debian trixie/main amd64 libxext6 amd64 2:1.3.4-1+b3 [50.4 kB] Get: 126 http://deb.debian.org/debian trixie/main amd64 libxi6 amd64 2:1.8.2-1 [78.9 kB] Get: 127 http://deb.debian.org/debian trixie/main amd64 libatspi2.0-0t64 amd64 2.56.1-2 [80.6 kB] Get: 128 http://deb.debian.org/debian trixie/main amd64 libatk-bridge2.0-0t64 amd64 2.56.1-2 [68.4 kB] Get: 129 http://deb.debian.org/debian trixie/main amd64 libfreetype6 amd64 2.13.3+dfsg-1 [452 kB] Get: 130 http://deb.debian.org/debian trixie/main amd64 fonts-dejavu-mono all 2.37-8 [489 kB] Get: 131 http://deb.debian.org/debian trixie/main amd64 fonts-dejavu-core all 2.37-8 [840 kB] Get: 132 http://deb.debian.org/debian trixie/main amd64 fontconfig-config amd64 2.15.0-2.3 [318 kB] Get: 133 http://deb.debian.org/debian trixie/main amd64 libfontconfig1 amd64 2.15.0-2.3 [392 kB] Get: 134 http://deb.debian.org/debian trixie/main amd64 libpixman-1-0 amd64 0.44.0-3 [248 kB] Get: 135 http://deb.debian.org/debian trixie/main amd64 libxcb-render0 amd64 1.17.0-2+b1 [115 kB] Get: 136 http://deb.debian.org/debian trixie/main amd64 libxcb-shm0 amd64 1.17.0-2+b1 [105 kB] Get: 137 http://deb.debian.org/debian trixie/main amd64 libxrender1 amd64 1:0.9.12-1 [27.9 kB] Get: 138 http://deb.debian.org/debian trixie/main amd64 libcairo2 amd64 1.18.4-1+b1 [538 kB] Get: 139 http://deb.debian.org/debian trixie/main amd64 libcairo-gobject2 amd64 1.18.4-1+b1 [130 kB] Get: 140 http://deb.debian.org/debian trixie/main amd64 libcloudproviders0 amd64 0.3.6-2 [29.2 kB] Get: 141 http://deb.debian.org/debian trixie/main amd64 libcolord2 amd64 1.4.7-3 [139 kB] Get: 142 http://deb.debian.org/debian trixie/main amd64 libavahi-common-data amd64 0.8-16 [112 kB] Get: 143 http://deb.debian.org/debian trixie/main amd64 libavahi-common3 amd64 0.8-16 [44.2 kB] Get: 144 http://deb.debian.org/debian trixie/main amd64 libavahi-client3 amd64 0.8-16 [48.4 kB] Get: 145 http://deb.debian.org/debian trixie/main amd64 libcups2t64 amd64 2.4.10-2+b1 [251 kB] Get: 146 http://deb.debian.org/debian trixie/main amd64 libepoxy0 amd64 1.5.10-2 [193 kB] Get: 147 http://deb.debian.org/debian trixie/main amd64 libfribidi0 amd64 1.0.16-1 [26.5 kB] Get: 148 http://deb.debian.org/debian trixie/main amd64 libgraphite2-3 amd64 1.3.14-2+b1 [75.4 kB] Get: 149 http://deb.debian.org/debian trixie/main amd64 libharfbuzz0b amd64 10.2.0-1+b1 [479 kB] Get: 150 http://deb.debian.org/debian trixie/main amd64 fontconfig amd64 2.15.0-2.3 [463 kB] Get: 151 http://deb.debian.org/debian trixie/main amd64 libthai-data all 0.1.29-2 [168 kB] Get: 152 http://deb.debian.org/debian trixie/main amd64 libdatrie1 amd64 0.2.13-3+b1 [38.1 kB] Get: 153 http://deb.debian.org/debian trixie/main amd64 libthai0 amd64 0.1.29-2+b1 [49.4 kB] Get: 154 http://deb.debian.org/debian trixie/main amd64 libpango-1.0-0 amd64 1.56.3-1 [226 kB] Get: 155 http://deb.debian.org/debian trixie/main amd64 libpangoft2-1.0-0 amd64 1.56.3-1 [55.6 kB] Get: 156 http://deb.debian.org/debian trixie/main amd64 libpangocairo-1.0-0 amd64 1.56.3-1 [35.7 kB] Get: 157 http://deb.debian.org/debian trixie/main amd64 libwayland-client0 amd64 1.23.1-3 [26.8 kB] Get: 158 http://deb.debian.org/debian trixie/main amd64 libwayland-cursor0 amd64 1.23.1-3 [11.9 kB] Get: 159 http://deb.debian.org/debian trixie/main amd64 libwayland-egl1 amd64 1.23.1-3 [5860 B] Get: 160 http://deb.debian.org/debian trixie/main amd64 libxcomposite1 amd64 1:0.4.6-1 [16.3 kB] Get: 161 http://deb.debian.org/debian trixie/main amd64 libxfixes3 amd64 1:6.0.0-2+b4 [20.2 kB] Get: 162 http://deb.debian.org/debian trixie/main amd64 libxcursor1 amd64 1:1.2.3-1 [39.7 kB] Get: 163 http://deb.debian.org/debian trixie/main amd64 libxdamage1 amd64 1:1.1.6-1+b2 [15.5 kB] Get: 164 http://deb.debian.org/debian trixie/main amd64 libxinerama1 amd64 2:1.1.4-3+b4 [16.0 kB] Get: 165 http://deb.debian.org/debian trixie/main amd64 xkb-data all 2.42-1 [790 kB] Get: 166 http://deb.debian.org/debian trixie/main amd64 libxkbcommon0 amd64 1.7.0-2 [113 kB] Get: 167 http://deb.debian.org/debian trixie/main amd64 libxrandr2 amd64 2:1.5.4-1+b3 [36.3 kB] Get: 168 http://deb.debian.org/debian trixie/main amd64 libgtk-3-common all 3.24.49-3 [4908 kB] Get: 169 http://deb.debian.org/debian trixie/main amd64 libgtk-3-0t64 amd64 3.24.49-3 [2769 kB] Get: 170 http://deb.debian.org/debian trixie/main amd64 libglvnd0 amd64 1.7.0-1+b2 [52.0 kB] Get: 171 http://deb.debian.org/debian trixie/main amd64 libdrm-common all 2.4.124-2 [8288 B] Get: 172 http://deb.debian.org/debian trixie/main amd64 libdrm2 amd64 2.4.124-2 [39.0 kB] Get: 173 http://deb.debian.org/debian trixie/main amd64 libx11-xcb1 amd64 2:1.8.12-1 [247 kB] Get: 174 http://deb.debian.org/debian trixie/main amd64 libxcb-dri3-0 amd64 1.17.0-2+b1 [107 kB] Get: 175 http://deb.debian.org/debian trixie/main amd64 libxcb-glx0 amd64 1.17.0-2+b1 [122 kB] Get: 176 http://deb.debian.org/debian trixie/main amd64 libxcb-present0 amd64 1.17.0-2+b1 [106 kB] Get: 177 http://deb.debian.org/debian trixie/main amd64 libxcb-xfixes0 amd64 1.17.0-2+b1 [109 kB] Get: 178 http://deb.debian.org/debian trixie/main amd64 libxxf86vm1 amd64 1:1.1.4-1+b4 [19.3 kB] Get: 179 http://deb.debian.org/debian trixie/main amd64 libdrm-amdgpu1 amd64 2.4.124-2 [22.6 kB] Get: 180 http://deb.debian.org/debian trixie/main amd64 libpciaccess0 amd64 0.17-3+b3 [51.9 kB] Get: 181 http://deb.debian.org/debian trixie/main amd64 libdrm-intel1 amd64 2.4.124-2 [64.1 kB] Get: 182 http://deb.debian.org/debian trixie/main amd64 libedit2 amd64 3.1-20250104-1 [93.8 kB] Get: 183 http://deb.debian.org/debian trixie/main amd64 libz3-4 amd64 4.13.3-1 [8560 kB] Get: 184 http://deb.debian.org/debian trixie/main amd64 libllvm19 amd64 1:19.1.7-3 [26.0 MB] Get: 185 http://deb.debian.org/debian trixie/main amd64 libsensors-config all 1:3.6.0-10 [14.6 kB] Get: 186 http://deb.debian.org/debian trixie/main amd64 libsensors5 amd64 1:3.6.0-10+b1 [35.1 kB] Get: 187 http://deb.debian.org/debian trixie/main amd64 libxcb-randr0 amd64 1.17.0-2+b1 [117 kB] Get: 188 http://deb.debian.org/debian trixie/main amd64 libxcb-sync1 amd64 1.17.0-2+b1 [109 kB] Get: 189 http://deb.debian.org/debian trixie/main amd64 libxshmfence1 amd64 1.3.3-1 [10.9 kB] Get: 190 http://deb.debian.org/debian trixie/main amd64 mesa-libgallium amd64 25.0.3-1 [9624 kB] Get: 191 http://deb.debian.org/debian trixie/main amd64 libwayland-server0 amd64 1.23.1-3 [34.4 kB] Get: 192 http://deb.debian.org/debian trixie/main amd64 libgbm1 amd64 25.0.3-1 [44.2 kB] Get: 193 http://deb.debian.org/debian trixie/main amd64 libvulkan1 amd64 1.4.309.0-1 [130 kB] Get: 194 http://deb.debian.org/debian trixie/main amd64 libgl1-mesa-dri amd64 25.0.3-1 [45.7 kB] Get: 195 http://deb.debian.org/debian trixie/main amd64 libglx-mesa0 amd64 25.0.3-1 [143 kB] Get: 196 http://deb.debian.org/debian trixie/main amd64 libglx0 amd64 1.7.0-1+b2 [34.9 kB] Get: 197 http://deb.debian.org/debian trixie/main amd64 libgl1 amd64 1.7.0-1+b2 [89.5 kB] Get: 198 http://deb.debian.org/debian trixie/main amd64 libasound2-data all 1.2.13-1 [21.1 kB] Get: 199 http://deb.debian.org/debian trixie/main amd64 libasound2t64 amd64 1.2.13-1+b1 [373 kB] Get: 200 http://deb.debian.org/debian trixie/main amd64 libgif7 amd64 5.2.2-1+b1 [44.2 kB] Get: 201 http://deb.debian.org/debian trixie/main amd64 x11-common all 1:7.7+24 [217 kB] Get: 202 http://deb.debian.org/debian trixie/main amd64 libxtst6 amd64 2:1.2.5-1 [25.8 kB] Get: 203 http://deb.debian.org/debian trixie/main amd64 openjdk-21-jre amd64 21.0.7~8ea-1 [205 kB] Get: 204 http://deb.debian.org/debian trixie/main amd64 default-jre amd64 2:1.21-76 [1068 B] Get: 205 http://deb.debian.org/debian trixie/main amd64 openjdk-21-jdk-headless amd64 21.0.7~8ea-1 [82.8 MB] Get: 206 http://deb.debian.org/debian trixie/main amd64 default-jdk-headless amd64 2:1.21-76 [1124 B] Get: 207 http://deb.debian.org/debian trixie/main amd64 openjdk-21-jdk amd64 21.0.7~8ea-1 [3541 kB] Get: 208 http://deb.debian.org/debian trixie/main amd64 default-jdk amd64 2:1.21-76 [1076 B] Get: 209 http://deb.debian.org/debian trixie/main amd64 libgpg-error0 amd64 1.51-4 [82.1 kB] Get: 210 http://deb.debian.org/debian trixie/main amd64 libassuan9 amd64 3.0.2-2 [61.5 kB] Get: 211 http://deb.debian.org/debian trixie/main amd64 libgcrypt20 amd64 1.11.0-7 [843 kB] Get: 212 http://deb.debian.org/debian trixie/main amd64 gpgconf amd64 2.2.46-6 [122 kB] Get: 213 http://deb.debian.org/debian trixie/main amd64 gpg amd64 2.2.46-6 [533 kB] Get: 214 http://deb.debian.org/debian trixie/main amd64 pinentry-curses amd64 1.3.1-2 [86.4 kB] Get: 215 http://deb.debian.org/debian trixie/main amd64 libnpth0t64 amd64 1.8-2 [22.9 kB] Get: 216 http://deb.debian.org/debian trixie/main amd64 gpg-agent amd64 2.2.46-6 [252 kB] Get: 217 http://deb.debian.org/debian trixie/main amd64 gpgv amd64 2.2.46-6 [221 kB] Get: 218 http://deb.debian.org/debian trixie/main amd64 sopv-gpgv all 0.1.4-1 [11.3 kB] Get: 219 http://deb.debian.org/debian trixie/main amd64 libfile-dirlist-perl all 0.05-3 [7600 B] Get: 220 http://deb.debian.org/debian trixie/main amd64 libfile-which-perl all 1.27-2 [15.1 kB] Get: 221 http://deb.debian.org/debian trixie/main amd64 libfile-homedir-perl all 1.006-2 [42.4 kB] Get: 222 http://deb.debian.org/debian trixie/main amd64 libfile-touch-perl all 0.12-2 [8816 B] Get: 223 http://deb.debian.org/debian trixie/main amd64 libclass-method-modifiers-perl all 2.15-1 [18.0 kB] Get: 224 http://deb.debian.org/debian trixie/main amd64 libclass-xsaccessor-perl amd64 1.19-4+b5 [36.1 kB] Get: 225 http://deb.debian.org/debian trixie/main amd64 libb-hooks-op-check-perl amd64 0.22-3+b2 [10.6 kB] Get: 226 http://deb.debian.org/debian trixie/main amd64 libdynaloader-functions-perl all 0.004-2 [12.2 kB] Get: 227 http://deb.debian.org/debian trixie/main amd64 libdevel-callchecker-perl amd64 0.009-1+b1 [16.2 kB] Get: 228 http://deb.debian.org/debian trixie/main amd64 libparams-classify-perl amd64 0.015-2+b4 [22.5 kB] Get: 229 http://deb.debian.org/debian trixie/main amd64 libmodule-runtime-perl all 0.017-1 [17.9 kB] Get: 230 http://deb.debian.org/debian trixie/main amd64 libimport-into-perl all 1.002005-2 [11.3 kB] Get: 231 http://deb.debian.org/debian trixie/main amd64 librole-tiny-perl all 2.002004-1 [21.4 kB] Get: 232 http://deb.debian.org/debian trixie/main amd64 libsub-quote-perl all 2.006008-1 [21.8 kB] Get: 233 http://deb.debian.org/debian trixie/main amd64 libmoo-perl all 2.005005-1 [58.0 kB] Get: 234 http://deb.debian.org/debian trixie/main amd64 libencode-locale-perl all 1.05-3 [12.9 kB] Get: 235 http://deb.debian.org/debian trixie/main amd64 libtimedate-perl all 2.3300-2 [39.3 kB] Get: 236 http://deb.debian.org/debian trixie/main amd64 libhttp-date-perl all 6.06-1 [10.7 kB] Get: 237 http://deb.debian.org/debian trixie/main amd64 libfile-listing-perl all 6.16-1 [12.4 kB] Get: 238 http://deb.debian.org/debian trixie/main amd64 libhtml-tagset-perl all 3.24-1 [14.7 kB] Get: 239 http://deb.debian.org/debian trixie/main amd64 liburi-perl all 5.30-1 [105 kB] Get: 240 http://deb.debian.org/debian trixie/main amd64 libhtml-parser-perl amd64 3.83-1+b2 [99.7 kB] Get: 241 http://deb.debian.org/debian trixie/main amd64 libhtml-tree-perl all 5.07-3 [211 kB] Get: 242 http://deb.debian.org/debian trixie/main amd64 libclone-perl amd64 0.47-1+b1 [13.9 kB] Get: 243 http://deb.debian.org/debian trixie/main amd64 libio-html-perl all 1.004-3 [16.2 kB] Get: 244 http://deb.debian.org/debian trixie/main amd64 liblwp-mediatypes-perl all 6.04-2 [20.2 kB] Get: 245 http://deb.debian.org/debian trixie/main amd64 libhttp-message-perl all 7.00-2 [79.8 kB] Get: 246 http://deb.debian.org/debian trixie/main amd64 libhttp-cookies-perl all 6.11-1 [19.1 kB] Get: 247 http://deb.debian.org/debian trixie/main amd64 libhttp-negotiate-perl all 6.01-2 [13.1 kB] Get: 248 http://deb.debian.org/debian trixie/main amd64 perl-openssl-defaults amd64 7+b2 [6724 B] Get: 249 http://deb.debian.org/debian trixie/main amd64 libnet-ssleay-perl amd64 1.94-3 [339 kB] Get: 250 http://deb.debian.org/debian trixie/main amd64 libio-socket-ssl-perl all 2.089-1 [223 kB] Get: 251 http://deb.debian.org/debian trixie/main amd64 libnet-http-perl all 6.23-1 [23.9 kB] Get: 252 http://deb.debian.org/debian trixie/main amd64 liblwp-protocol-https-perl all 6.14-1 [10.8 kB] Get: 253 http://deb.debian.org/debian trixie/main amd64 libtry-tiny-perl all 0.32-1 [22.9 kB] Get: 254 http://deb.debian.org/debian trixie/main amd64 libwww-robotrules-perl all 6.02-1 [12.9 kB] Get: 255 http://deb.debian.org/debian trixie/main amd64 libwww-perl all 6.78-1 [183 kB] Get: 256 http://deb.debian.org/debian trixie/main amd64 patchutils amd64 0.4.2-1 [77.5 kB] Get: 257 http://deb.debian.org/debian trixie/main amd64 wdiff amd64 1.2.2-8 [122 kB] Get: 258 http://deb.debian.org/debian trixie/main amd64 devscripts all 2.25.9 [1057 kB] Get: 259 http://deb.debian.org/debian trixie/main amd64 dh-python all 6.20250308 [115 kB] Get: 260 http://deb.debian.org/debian trixie/main amd64 fastjar amd64 2:0.98-7 [80.1 kB] Get: 261 http://deb.debian.org/debian trixie/main amd64 hdf5-helpers amd64 1.14.5+repack-3 [26.6 kB] Get: 262 http://deb.debian.org/debian trixie/main amd64 jarwrapper all 0.80 [9692 B] Get: 263 http://deb.debian.org/debian trixie/main amd64 javahelper all 0.80 [80.4 kB] Get: 264 http://deb.debian.org/debian trixie/main amd64 libgssrpc4t64 amd64 1.21.3-5 [60.0 kB] Get: 265 http://deb.debian.org/debian trixie/main amd64 libkadm5clnt-mit12 amd64 1.21.3-5 [42.5 kB] Get: 266 http://deb.debian.org/debian trixie/main amd64 libkdb5-10t64 amd64 1.21.3-5 [42.6 kB] Get: 267 http://deb.debian.org/debian trixie/main amd64 libkadm5srv-mit12 amd64 1.21.3-5 [54.2 kB] Get: 268 http://deb.debian.org/debian trixie/main amd64 krb5-multidev amd64 1.21.3-5 [126 kB] Get: 269 http://deb.debian.org/debian trixie/main amd64 libabsl20240722 amd64 20240722.0-3 [492 kB] Get: 270 http://deb.debian.org/debian trixie/main amd64 libabsl-dev amd64 20240722.0-3 [1250 kB] Get: 271 http://deb.debian.org/debian trixie/main amd64 libaec0 amd64 1.1.3-1+b1 [23.8 kB] Get: 272 http://deb.debian.org/debian trixie/main amd64 libsz2 amd64 1.1.3-1+b1 [8080 B] Get: 273 http://deb.debian.org/debian trixie/main amd64 libaec-dev amd64 1.1.3-1+b1 [21.5 kB] Get: 274 http://deb.debian.org/debian trixie/main amd64 libbrotli-dev amd64 1.1.0-2+b7 [316 kB] Get: 275 http://deb.debian.org/debian trixie/main amd64 libbz2-dev amd64 1.0.8-6 [31.4 kB] Get: 276 http://deb.debian.org/debian trixie/main amd64 libidn2-dev amd64 2.3.8-2 [103 kB] Get: 277 http://deb.debian.org/debian trixie/main amd64 libkrb5-dev amd64 1.21.3-5 [16.1 kB] Get: 278 http://deb.debian.org/debian trixie/main amd64 libldap-dev amd64 2.6.9+dfsg-2 [311 kB] Get: 279 http://deb.debian.org/debian trixie/main amd64 libpkgconf3 amd64 1.8.1-4 [36.4 kB] Get: 280 http://deb.debian.org/debian trixie/main amd64 pkgconf-bin amd64 1.8.1-4 [30.2 kB] Get: 281 http://deb.debian.org/debian trixie/main amd64 pkgconf amd64 1.8.1-4 [26.2 kB] Get: 282 http://deb.debian.org/debian trixie/main amd64 libnghttp2-dev amd64 1.64.0-1 [115 kB] Get: 283 http://deb.debian.org/debian trixie/main amd64 libnghttp3-dev amd64 1.8.0-1 [91.3 kB] Get: 284 http://deb.debian.org/debian trixie/main amd64 libpsl-dev amd64 0.21.2-1.1+b1 [77.6 kB] Get: 285 http://deb.debian.org/debian trixie/main amd64 libgmpxx4ldbl amd64 2:6.3.0+dfsg-3 [329 kB] Get: 286 http://deb.debian.org/debian trixie/main amd64 libgmp-dev amd64 2:6.3.0+dfsg-3 [642 kB] Get: 287 http://deb.debian.org/debian trixie/main amd64 libevent-2.1-7t64 amd64 2.1.12-stable-10+b1 [182 kB] Get: 288 http://deb.debian.org/debian trixie/main amd64 libunbound8 amd64 1.22.0-1+b1 [598 kB] Get: 289 http://deb.debian.org/debian trixie/main amd64 libgnutls-dane0t64 amd64 3.8.9-2 [455 kB] Get: 290 http://deb.debian.org/debian trixie/main amd64 libgnutls-openssl27t64 amd64 3.8.9-2 [455 kB] Get: 291 http://deb.debian.org/debian trixie/main amd64 libp11-kit-dev amd64 0.25.5-3 [208 kB] Get: 292 http://deb.debian.org/debian trixie/main amd64 libtasn1-6-dev amd64 4.20.0-2 [99.2 kB] Get: 293 http://deb.debian.org/debian trixie/main amd64 nettle-dev amd64 3.10.1-1 [1318 kB] Get: 294 http://deb.debian.org/debian trixie/main amd64 libgnutls28-dev amd64 3.8.9-2 [1401 kB] Get: 295 http://deb.debian.org/debian trixie/main amd64 zlib1g-dev amd64 1:1.3.dfsg+really1.3.1-1+b1 [920 kB] Get: 296 http://deb.debian.org/debian trixie/main amd64 librtmp-dev amd64 2.4+20151223.gitfa8646d.1-2+b5 [68.0 kB] Get: 297 http://deb.debian.org/debian trixie/main amd64 libssl-dev amd64 3.5.0-1 [2949 kB] Get: 298 http://deb.debian.org/debian trixie/main amd64 libssh2-1-dev amd64 1.11.1-1 [393 kB] Get: 299 http://deb.debian.org/debian trixie/main amd64 libzstd-dev amd64 1.5.7+dfsg-1 [371 kB] Get: 300 http://deb.debian.org/debian trixie/main amd64 libcurl4-openssl-dev amd64 8.13.0-1 [498 kB] Get: 301 http://deb.debian.org/debian trixie/main amd64 libgfortran5 amd64 14.2.0-19 [836 kB] Get: 302 http://deb.debian.org/debian trixie/main amd64 libhdf5-310 amd64 1.14.5+repack-3 [1344 kB] Get: 303 http://deb.debian.org/debian trixie/main amd64 libhdf5-cpp-310 amd64 1.14.5+repack-3 [133 kB] Get: 304 http://deb.debian.org/debian trixie/main amd64 libhdf5-fortran-310 amd64 1.14.5+repack-3 [111 kB] Get: 305 http://deb.debian.org/debian trixie/main amd64 libhdf5-hl-310 amd64 1.14.5+repack-3 [69.3 kB] Get: 306 http://deb.debian.org/debian trixie/main amd64 libhdf5-hl-fortran-310 amd64 1.14.5+repack-3 [43.9 kB] Get: 307 http://deb.debian.org/debian trixie/main amd64 libhdf5-hl-cpp-310 amd64 1.14.5+repack-3 [24.4 kB] Get: 308 http://deb.debian.org/debian trixie/main amd64 libjpeg62-turbo-dev amd64 1:2.1.5-3.1 [292 kB] Get: 309 http://deb.debian.org/debian trixie/main amd64 libjpeg-dev amd64 1:2.1.5-3.1 [72.0 kB] Get: 310 http://deb.debian.org/debian trixie/main amd64 libhdf5-dev amd64 1.14.5+repack-3 [3165 kB] Get: 311 http://deb.debian.org/debian trixie/main amd64 liblzma-dev amd64 5.8.1-1 [348 kB] Get: 312 http://deb.debian.org/debian trixie/main amd64 libmagic-dev amd64 1:5.45-3+b1 [121 kB] Get: 313 http://deb.debian.org/debian trixie/main amd64 libmbedcrypto16 amd64 3.6.3-1 [357 kB] Get: 314 http://deb.debian.org/debian trixie/main amd64 libmbedx509-7 amd64 3.6.3-1 [149 kB] Get: 315 http://deb.debian.org/debian trixie/main amd64 libmbedtls21 amd64 3.6.3-1 [236 kB] Get: 316 http://deb.debian.org/debian trixie/main amd64 libmbedtls-dev amd64 3.6.3-1 [827 kB] Get: 317 http://deb.debian.org/debian trixie/main amd64 ncbi-vdb-data all 3.2.1+dfsg-2 [88.5 kB] Get: 318 http://deb.debian.org/debian trixie/main amd64 libncbi-vdb3 amd64 3.2.1+dfsg-2 [1164 kB] Get: 319 http://deb.debian.org/debian trixie/main amd64 libncbi-wvdb3 amd64 3.2.1+dfsg-2 [1167 kB] Get: 320 http://deb.debian.org/debian trixie/main amd64 libncbi-wvdb-dev amd64 3.2.1+dfsg-2 [1286 kB] Get: 321 http://deb.debian.org/debian trixie/main amd64 libncbi-vdb-dev amd64 3.2.1+dfsg-2 [1588 kB] Get: 322 http://deb.debian.org/debian trixie/main amd64 libre2-11 amd64 20240702-3+b1 [169 kB] Get: 323 http://deb.debian.org/debian trixie/main amd64 libre2-dev amd64 20240702-3+b1 [228 kB] Get: 324 http://deb.debian.org/debian trixie/main amd64 libsam-extract3 amd64 3.2.1+dfsg-2 [45.8 kB] Get: 325 http://deb.debian.org/debian trixie/main amd64 libsam-extract-dev amd64 3.2.1+dfsg-2 [47.2 kB] Get: 326 http://deb.debian.org/debian trixie/main amd64 libxml2-dev amd64 2.12.7+dfsg+really2.9.14-0.4 [793 kB] Get: 327 http://deb.debian.org/debian trixie/main amd64 maven-repo-helper all 1.11 [142 kB] Get: 328 http://deb.debian.org/debian trixie/main amd64 python3-all amd64 3.13.2-2 [1044 B] Get: 329 http://deb.debian.org/debian trixie/main amd64 python3-autocommand all 2.2.2-3 [13.6 kB] Get: 330 http://deb.debian.org/debian trixie/main amd64 python3-more-itertools all 10.6.0-1 [65.3 kB] Get: 331 http://deb.debian.org/debian trixie/main amd64 python3-typing-extensions all 4.13.0-1 [90.1 kB] Get: 332 http://deb.debian.org/debian trixie/main amd64 python3-typeguard all 4.4.2-1 [37.3 kB] Get: 333 http://deb.debian.org/debian trixie/main amd64 python3-inflect all 7.3.1-2 [32.4 kB] Get: 334 http://deb.debian.org/debian trixie/main amd64 python3-jaraco.functools all 4.1.0-1 [12.0 kB] Get: 335 http://deb.debian.org/debian trixie/main amd64 python3-pkg-resources all 75.8.0-1 [222 kB] Get: 336 http://deb.debian.org/debian trixie/main amd64 python3-jaraco.text all 4.0.0-1 [11.4 kB] Get: 337 http://deb.debian.org/debian trixie/main amd64 python3-zipp all 3.21.0-1 [10.6 kB] Get: 338 http://deb.debian.org/debian trixie/main amd64 python3-setuptools all 75.8.0-1 [724 kB] Get: 339 http://deb.debian.org/debian trixie/main amd64 python3-jaraco.context all 6.0.1-1 [8276 B] Fetched 282 MB in 9s (32.2 MB/s) Preconfiguring packages ... Selecting previously unselected package libsystemd-shared:amd64. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 19842 files and directories currently installed.) Preparing to unpack .../libsystemd-shared_257.5-2_amd64.deb ... Unpacking libsystemd-shared:amd64 (257.5-2) ... Selecting previously unselected package libapparmor1:amd64. Preparing to unpack .../libapparmor1_4.1.0~beta5-6_amd64.deb ... Unpacking libapparmor1:amd64 (4.1.0~beta5-6) ... Setting up libsystemd-shared:amd64 (257.5-2) ... Selecting previously unselected package systemd. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 19855 files and directories currently installed.) Preparing to unpack .../systemd_257.5-2_amd64.deb ... Unpacking systemd (257.5-2) ... Setting up libapparmor1:amd64 (4.1.0~beta5-6) ... Setting up systemd (257.5-2) ... Created symlink '/etc/systemd/system/getty.target.wants/getty@tty1.service' -> '/usr/lib/systemd/system/getty@.service'. Created symlink '/etc/systemd/system/multi-user.target.wants/remote-fs.target' -> '/usr/lib/systemd/system/remote-fs.target'. Created symlink '/etc/systemd/system/sysinit.target.wants/systemd-pstore.service' -> '/usr/lib/systemd/system/systemd-pstore.service'. Initializing machine ID from random generator. Creating group 'systemd-journal' with GID 999. Creating group 'systemd-network' with GID 998. Creating user 'systemd-network' (systemd Network Management) with UID 998 and GID 998. /usr/lib/tmpfiles.d/legacy.conf:14: Duplicate line for path "/run/lock", ignoring. Selecting previously unselected package systemd-sysv. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 20793 files and directories currently installed.) Preparing to unpack .../00-systemd-sysv_257.5-2_amd64.deb ... Unpacking systemd-sysv (257.5-2) ... Selecting previously unselected package libdbus-1-3:amd64. Preparing to unpack .../01-libdbus-1-3_1.16.2-2_amd64.deb ... Unpacking libdbus-1-3:amd64 (1.16.2-2) ... Selecting previously unselected package dbus-bin. Preparing to unpack .../02-dbus-bin_1.16.2-2_amd64.deb ... Unpacking dbus-bin (1.16.2-2) ... 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Unpacking python3-pkg-resources (75.8.0-1) ... Selecting previously unselected package python3-jaraco.text. Preparing to unpack .../308-python3-jaraco.text_4.0.0-1_all.deb ... Unpacking python3-jaraco.text (4.0.0-1) ... Selecting previously unselected package python3-zipp. Preparing to unpack .../309-python3-zipp_3.21.0-1_all.deb ... Unpacking python3-zipp (3.21.0-1) ... Selecting previously unselected package python3-setuptools. Preparing to unpack .../310-python3-setuptools_75.8.0-1_all.deb ... Unpacking python3-setuptools (75.8.0-1) ... Selecting previously unselected package python3-jaraco.context. Preparing to unpack .../311-python3-jaraco.context_6.0.1-1_all.deb ... Unpacking python3-jaraco.context (6.0.1-1) ... Setting up media-types (13.0.0) ... Setting up libpipeline1:amd64 (1.5.8-1) ... Setting up fastjar (2:0.98-7) ... Setting up libgraphite2-3:amd64 (1.3.14-2+b1) ... Setting up liblcms2-2:amd64 (2.16-2) ... Setting up libpixman-1-0:amd64 (0.44.0-3) ... Setting up wdiff (1.2.2-8) ... Setting up libsharpyuv0:amd64 (1.5.0-0.1) ... Setting up libpciaccess0:amd64 (0.17-3+b3) ... Setting up libfile-which-perl (1.27-2) ... Setting up systemd-sysv (257.5-2) ... Setting up libxau6:amd64 (1:1.0.11-1) ... Setting up libxdmcp6:amd64 (1:1.1.5-1) ... Setting up libnpth0t64:amd64 (1.8-2) ... Setting up libkeyutils1:amd64 (1.6.3-6) ... Setting up libxcb1:amd64 (1.17.0-2+b1) ... Setting up libxcb-xfixes0:amd64 (1.17.0-2+b1) ... Setting up libzstd-dev:amd64 (1.5.7+dfsg-1) ... Setting up liblerc4:amd64 (4.0.0+ds-5) ... Setting up bsdextrautils (2.41-4) ... Setting up hdf5-helpers (1.14.5+repack-3) ... Setting up hicolor-icon-theme (0.18-2) ... Setting up libgpg-error0:amd64 (1.51-4) ... Setting up java-common (0.76) ... Setting up libdynaloader-functions-perl (0.004-2) ... Setting up libdatrie1:amd64 (0.2.13-3+b1) ... Setting up libclass-method-modifiers-perl (2.15-1) ... Setting up libmagic-mgc (1:5.45-3+b1) ... Setting up libxcb-render0:amd64 (1.17.0-2+b1) ... Setting up libclone-perl:amd64 (0.47-1+b1) ... Setting up libarchive-zip-perl (1.68-1) ... Setting up libglvnd0:amd64 (1.7.0-1+b2) ... Setting up libhtml-tagset-perl (3.24-1) ... Setting up libxcb-glx0:amd64 (1.17.0-2+b1) ... Setting up libdebhelper-perl (13.24.2) ... Setting up libbrotli1:amd64 (1.1.0-2+b7) ... Setting up libedit2:amd64 (3.1-20250104-1) ... Setting up liblwp-mediatypes-perl (6.04-2) ... Setting up libgdk-pixbuf2.0-common (2.42.12+dfsg-2) ... Setting up libuv1t64:amd64 (1.50.0-2) ... Setting up libmagic1t64:amd64 (1:5.45-3+b1) ... Setting up x11-common (1:7.7+24) ... Running in chroot, ignoring request. Setting up X socket directories... /tmp/.X11-unix /tmp/.ICE-unix. Setting up libtry-tiny-perl (0.32-1) ... Setting up libsensors-config (1:3.6.0-10) ... Setting up libnghttp2-14:amd64 (1.64.0-1) ... Setting up libdeflate0:amd64 (1.23-1+b1) ... Setting up perl-openssl-defaults:amd64 (7+b2) ... Setting up gettext-base (0.23.1-1) ... Setting up m4 (1.4.19-7) ... Setting up libevent-2.1-7t64:amd64 (2.1.12-stable-10+b1) ... Setting up libgcrypt20:amd64 (1.11.0-7) ... Setting up xkb-data (2.42-1) ... Setting up libencode-locale-perl (1.05-3) ... Setting up libxcb-shm0:amd64 (1.17.0-2+b1) ... Setting up libcom-err2:amd64 (1.47.2-1+b1) ... Setting up file (1:5.45-3+b1) ... Setting up libmagic-dev:amd64 (1:5.45-3+b1) ... Setting up libabsl20240722:amd64 (20240722.0-3) ... Setting up libjbig0:amd64 (2.1-6.1+b2) ... Setting up libaec0:amd64 (1.1.3-1+b1) ... Setting up libelf1t64:amd64 (0.192-4) ... Setting up libkrb5support0:amd64 (1.21.3-5) ... Setting up libsasl2-modules-db:amd64 (2.1.28+dfsg1-9) ... Setting up tzdata (2025b-2) ... Current default time zone: 'Etc/UTC' Local time is now: Wed Apr 16 01:44:01 UTC 2025. Universal Time is now: Wed Apr 16 01:44:01 UTC 2025. Run 'dpkg-reconfigure tzdata' if you wish to change it. Setting up libxcb-present0:amd64 (1.17.0-2+b1) ... Setting up libasound2-data (1.2.13-1) ... Setting up autotools-dev (20240727.1) ... Setting up libz3-4:amd64 (4.13.3-1) ... Setting up libunbound8:amd64 (1.22.0-1+b1) ... Setting up libpkgconf3:amd64 (1.8.1-4) ... Setting up libgmpxx4ldbl:amd64 (2:6.3.0+dfsg-3) ... Setting up libasound2t64:amd64 (1.2.13-1+b1) ... Setting up libjpeg62-turbo:amd64 (1:2.1.5-3.1) ... Setting up libx11-data (2:1.8.12-1) ... Setting up libjpeg62-turbo-dev:amd64 (1:2.1.5-3.1) ... Setting up libepoxy0:amd64 (1.5.10-2) ... Setting up libnspr4:amd64 (2:4.36-1) ... Setting up libxcb-sync1:amd64 (1.17.0-2+b1) ... Setting up libjsoncpp26:amd64 (1.9.6-3) ... Setting up libavahi-common-data:amd64 (0.8-16) ... Setting up libdbus-1-3:amd64 (1.16.2-2) ... Setting up libfribidi0:amd64 (1.0.16-1) ... Setting up libproc2-0:amd64 (2:4.0.4-7) ... Setting up comerr-dev:amd64 (2.1-1.47.2-1+b1) ... Setting up libunistring5:amd64 (1.3-2) ... Setting up fonts-dejavu-mono (2.37-8) ... Setting up libssl-dev:amd64 (3.5.0-1) ... Setting up libpng16-16t64:amd64 (1.6.47-1.1) ... Setting up libio-html-perl (1.004-3) ... Setting up autopoint (0.23.1-1) ... Setting up binfmt-support (2.2.2-7) ... Running in chroot, ignoring request. invoke-rc.d: policy-rc.d denied execution of start. Created symlink '/etc/systemd/system/multi-user.target.wants/binfmt-support.service' -> '/usr/lib/systemd/system/binfmt-support.service'. Setting up libb-hooks-op-check-perl:amd64 (0.22-3+b2) ... Setting up fonts-dejavu-core (2.37-8) ... Setting up d-shlibs (0.109) ... Setting up libpcsclite1:amd64 (2.3.3-1) ... Setting up pkgconf-bin (1.8.1-4) ... Setting up libsensors5:amd64 (1:3.6.0-10+b1) ... Setting up libk5crypto3:amd64 (1.21.3-5) ... Setting up libabsl-dev:amd64 (20240722.0-3) ... Setting up libsasl2-2:amd64 (2.1.28+dfsg1-9) ... Setting up libgfortran5:amd64 (14.2.0-19) ... Setting up libvulkan1:amd64 (1.4.309.0-1) ... Setting up autoconf (2.72-3) ... Setting up libnghttp3-9:amd64 (1.8.0-1) ... Setting up libwebp7:amd64 (1.5.0-0.1) ... Setting up libnghttp3-dev:amd64 (1.8.0-1) ... Setting up libtimedate-perl (2.3300-2) ... Setting up liblzma-dev:amd64 (5.8.1-1) ... Setting up libgif7:amd64 (5.2.2-1+b1) ... Setting up zlib1g-dev:amd64 (1:1.3.dfsg+really1.3.1-1+b1) ... Setting up libffi8:amd64 (3.4.7-1) ... Setting up dwz (0.15-1+b1) ... Setting up sensible-utils (0.0.24) ... Setting up libxshmfence1:amd64 (1.3.3-1) ... Setting up at-spi2-common (2.56.1-2) ... Setting up gpgv (2.2.46-6) ... Setting up libtiff6:amd64 (4.7.0-3) ... Setting up libxcb-randr0:amd64 (1.17.0-2+b1) ... Setting up dbus-session-bus-common (1.16.2-2) ... Setting up libuchardet0:amd64 (0.0.8-1+b2) ... Setting up libassuan9:amd64 (3.0.2-2) ... Setting up procps (2:4.0.4-7) ... Setting up bison (2:3.8.2+dfsg-1+b2) ... update-alternatives: using /usr/bin/bison.yacc to provide /usr/bin/yacc (yacc) in auto mode Setting up librole-tiny-perl (2.002004-1) ... Setting up libtasn1-6:amd64 (4.20.0-2) ... Setting up libx11-6:amd64 (2:1.8.12-1) ... Setting up ncbi-vdb-data (3.2.1+dfsg-2) ... Setting up libthai-data (0.1.29-2) ... Setting up netbase (6.5) ... Setting up libsub-quote-perl (2.006008-1) ... Setting up libclass-xsaccessor-perl (1.19-4+b5) ... Setting up libsam-extract3:amd64 (3.2.1+dfsg-2) ... Setting up cmake-data (3.31.6-2) ... Setting up librhash1:amd64 (1.4.5-1) ... Setting up libkrb5-3:amd64 (1.21.3-5) ... Setting up libwayland-egl1:amd64 (1.23.1-3) ... Setting up libmbedcrypto16:amd64 (3.6.3-1) ... Setting up libssh2-1t64:amd64 (1.11.1-1) ... Setting up libfile-dirlist-perl (0.05-3) ... Setting up dbus-system-bus-common (1.16.2-2) ... Creating group 'messagebus' with GID 997. Creating user 'messagebus' (System Message Bus) with UID 997 and GID 997. Setting up libfile-homedir-perl (1.006-2) ... Setting up libtasn1-6-dev:amd64 (4.20.0-2) ... Setting up openssl (3.5.0-1) ... Setting up libdrm-common (2.4.124-2) ... Setting up libxcomposite1:amd64 (1:0.4.6-1) ... Setting up readline-common (8.2-6) ... Setting up libxml2:amd64 (2.12.7+dfsg+really2.9.14-0.4) ... Setting up libldap2:amd64 (2.6.9+dfsg-2) ... Setting up liburi-perl (5.30-1) ... Setting up dbus-bin (1.16.2-2) ... Setting up libsam-extract-dev:amd64 (3.2.1+dfsg-2) ... Setting up libbrotli-dev:amd64 (1.1.0-2+b7) ... Setting up libfile-touch-perl (0.12-2) ... Setting up libsz2:amd64 (1.1.3-1+b1) ... Setting up dctrl-tools (2.24-3+b1) ... Setting up libbz2-dev:amd64 (1.0.8-6) ... Setting up libxkbcommon0:amd64 (1.7.0-2) ... Setting up libwayland-client0:amd64 (1.23.1-3) ... Setting up libnet-ssleay-perl:amd64 (1.94-3) ... Setting up automake (1:1.17-4) ... update-alternatives: using /usr/bin/automake-1.17 to provide /usr/bin/automake (automake) in auto mode Setting up pinentry-curses (1.3.1-2) ... Setting up libfile-stripnondeterminism-perl (1.14.1-2) ... Setting up libxcb-dri3-0:amd64 (1.17.0-2+b1) ... Setting up libllvm19:amd64 (1:19.1.7-3) ... Setting up libwayland-server0:amd64 (1.23.1-3) ... Setting up libx11-xcb1:amd64 (2:1.8.12-1) ... Setting up libhttp-date-perl (6.06-1) ... Setting up libre2-11:amd64 (20240702-3+b1) ... Setting up flex (2.6.4-8.2+b4) ... Setting up gettext (0.23.1-1) ... Setting up libxdamage1:amd64 (1:1.1.6-1+b2) ... Setting up libgmp-dev:amd64 (2:6.3.0+dfsg-3) ... Setting up libfile-listing-perl (6.16-1) ... Setting up nettle-dev:amd64 (3.10.1-1) ... Setting up libxrender1:amd64 (1:0.9.12-1) ... Setting up jarwrapper (0.80) ... Setting up libtool (2.5.4-4) ... Setting up fontconfig-config (2.15.0-2.3) ... Setting up libaec-dev:amd64 (1.1.3-1+b1) ... Setting up libavahi-common3:amd64 (0.8-16) ... Setting up libjpeg-dev:amd64 (1:2.1.5-3.1) ... Setting up libxext6:amd64 (2:1.3.4-1+b3) ... Setting up libnet-http-perl (6.23-1) ... Setting up libidn2-0:amd64 (2.3.8-2) ... Setting up libnss3:amd64 (2:3.110-1) ... Setting up dbus-daemon (1.16.2-2) ... Setting up libdevel-callchecker-perl:amd64 (0.009-1+b1) ... Setting up pkgconf:amd64 (1.8.1-4) ... Setting up libxxf86vm1:amd64 (1:1.1.4-1+b4) ... Setting up intltool-debian (0.35.0+20060710.6) ... Setting up dh-autoreconf (20) ... Setting up patchutils (0.4.2-1) ... Setting up libthai0:amd64 (0.1.29-2+b1) ... Setting up ca-certificates (20241223) ... Updating certificates in /etc/ssl/certs... 152 added, 0 removed; done. Setting up libxml2-dev:amd64 (2.12.7+dfsg+really2.9.14-0.4) ... Setting up libglib2.0-0t64:amd64 (2.84.1-1) ... Setting up libmbedx509-7:amd64 (3.6.3-1) ... Setting up libfreetype6:amd64 (2.13.3+dfsg-1) ... Setting up libxfixes3:amd64 (1:6.0.0-2+b4) ... Setting up libldap-dev:amd64 (2.6.9+dfsg-2) ... Setting up dbus (1.16.2-2) ... Running in chroot, ignoring request. invoke-rc.d: policy-rc.d denied execution of start. Setting up shared-mime-info (2.4-5+b2) ... Setting up libp11-kit0:amd64 (0.25.5-3) ... Setting up libxinerama1:amd64 (2:1.1.4-3+b4) ... Setting up libgssapi-krb5-2:amd64 (1.21.3-5) ... Setting up libxrandr2:amd64 (2:1.5.4-1+b3) ... Setting up libssh2-1-dev:amd64 (1.11.1-1) ... Setting up libidn2-dev:amd64 (2.3.8-2) ... Setting up libmbedtls21:amd64 (3.6.3-1) ... Setting up libreadline8t64:amd64 (8.2-6) ... Setting up dh-strip-nondeterminism (1.14.1-2) ... Setting up libwww-robotrules-perl (6.02-1) ... Setting up libdrm2:amd64 (2.4.124-2) ... Setting up groff-base (1.23.0-7) ... Setting up libwayland-cursor0:amd64 (1.23.1-3) ... Setting up libhtml-parser-perl:amd64 (3.83-1+b2) ... Setting up gpgconf (2.2.46-6) ... Setting up libpam-systemd:amd64 (257.5-2) ... Setting up libharfbuzz0b:amd64 (10.2.0-1+b1) ... Setting up libgdk-pixbuf-2.0-0:amd64 (2.42.12+dfsg-2) ... Setting up libfontconfig1:amd64 (2.15.0-2.3) ... Setting up ca-certificates-java (20240118) ... No JRE found. Skipping Java certificates setup. Setting up libre2-dev:amd64 (20240702-3+b1) ... Setting up libarchive13t64:amd64 (3.7.4-1.1) ... Setting up libpython3.13-stdlib:amd64 (3.13.2-3) ... Setting up libavahi-client3:amd64 (0.8-16) ... Setting up libio-socket-ssl-perl (2.089-1) ... Setting up gpg (2.2.46-6) ... Setting up libp11-kit-dev:amd64 (0.25.5-3) ... Setting up libpython3-stdlib:amd64 (3.13.2-2) ... Setting up libhttp-message-perl (7.00-2) ... Setting up libdrm-amdgpu1:amd64 (2.4.124-2) ... Setting up libgnutls30t64:amd64 (3.8.9-2) ... Setting up libgnutls-openssl27t64:amd64 (3.8.9-2) ... Setting up gtk-update-icon-cache (4.18.4+ds-1) ... Setting up libnghttp2-dev:amd64 (1.64.0-1) ... Setting up libhttp-negotiate-perl (6.01-2) ... Setting up fontconfig (2.15.0-2.3) ... Regenerating fonts cache... done. Setting up gpg-agent (2.2.46-6) ... Created symlink '/etc/systemd/user/sockets.target.wants/gpg-agent-browser.socket' -> '/usr/lib/systemd/user/gpg-agent-browser.socket'. Created symlink '/etc/systemd/user/sockets.target.wants/gpg-agent-extra.socket' -> '/usr/lib/systemd/user/gpg-agent-extra.socket'. Created symlink '/etc/systemd/user/sockets.target.wants/gpg-agent-ssh.socket' -> '/usr/lib/systemd/user/gpg-agent-ssh.socket'. Created symlink '/etc/systemd/user/sockets.target.wants/gpg-agent.socket' -> '/usr/lib/systemd/user/gpg-agent.socket'. Setting up libatk1.0-0t64:amd64 (2.56.1-2) ... Setting up openjdk-21-jre-headless:amd64 (21.0.7~8ea-1) ... update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/java to provide /usr/bin/java (java) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jpackage to provide /usr/bin/jpackage (jpackage) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/keytool to provide /usr/bin/keytool (keytool) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/rmiregistry to provide /usr/bin/rmiregistry (rmiregistry) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/lib/jexec to provide /usr/bin/jexec (jexec) in auto mode Setting up libxi6:amd64 (2:1.8.2-1) ... Setting up libhttp-cookies-perl (6.11-1) ... Setting up python3.13 (3.13.2-3) ... Setting up libxtst6:amd64 (2:1.2.5-1) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up libhtml-tree-perl (5.07-3) ... Setting up libxcursor1:amd64 (1:1.2.3-1) ... Setting up libparams-classify-perl:amd64 (0.015-2+b4) ... Setting up libpango-1.0-0:amd64 (1.56.3-1) ... Setting up libdrm-intel1:amd64 (2.4.124-2) ... Setting up libpsl5t64:amd64 (0.21.2-1.1+b1) ... Setting up libncbi-vdb3:amd64 (3.2.1+dfsg-2) ... Setting up libcloudproviders0:amd64 (0.3.6-2) ... Setting up python3 (3.13.2-2) ... Setting up libmbedtls-dev:amd64 (3.6.3-1) ... Setting up sopv-gpgv (0.1.4-1) ... update-alternatives: using /usr/bin/sopv-gpgv to provide /usr/bin/sopv (sopv) in auto mode Setting up python3-zipp (3.21.0-1) ... Setting up python3-autocommand (2.2.2-3) ... Setting up man-db (2.13.0-1) ... Not building database; man-db/auto-update is not 'true'. Created symlink '/etc/systemd/system/timers.target.wants/man-db.timer' -> '/usr/lib/systemd/system/man-db.timer'. Setting up libcairo2:amd64 (1.18.4-1+b1) ... Setting up libcolord2:amd64 (1.4.7-3) ... Setting up libpsl-dev:amd64 (0.21.2-1.1+b1) ... Setting up libdconf1:amd64 (0.40.0-5) ... Setting up dbus-user-session (1.16.2-2) ... Setting up libgnutls-dane0t64:amd64 (3.8.9-2) ... Setting up adwaita-icon-theme (48.0-1) ... update-alternatives: using /usr/share/icons/Adwaita/cursor.theme to provide /usr/share/icons/default/index.theme (x-cursor-theme) in auto mode Setting up libmodule-runtime-perl (0.017-1) ... Setting up librtmp1:amd64 (2.4+20151223.gitfa8646d.1-2+b5) ... Setting up libgssrpc4t64:amd64 (1.21.3-5) ... Setting up libatspi2.0-0t64:amd64 (2.56.1-2) ... Setting up libncbi-wvdb3:amd64 (3.2.1+dfsg-2) ... Setting up python3-typing-extensions (4.13.0-1) ... Setting up libcairo-gobject2:amd64 (1.18.4-1+b1) ... Setting up libncbi-wvdb-dev:amd64 (3.2.1+dfsg-2) ... Setting up libpangoft2-1.0-0:amd64 (1.56.3-1) ... Setting up libcups2t64:amd64 (2.4.10-2+b1) ... Setting up libpangocairo-1.0-0:amd64 (1.56.3-1) ... Setting up libkadm5clnt-mit12:amd64 (1.21.3-5) ... Setting up dh-python (6.20250308) ... Setting up libgnutls28-dev:amd64 (3.8.9-2) ... Setting up libatk-bridge2.0-0t64:amd64 (2.56.1-2) ... Setting up python3-more-itertools (10.6.0-1) ... Setting up mesa-libgallium:amd64 (25.0.3-1) ... Setting up python3-jaraco.functools (4.1.0-1) ... Setting up python3-jaraco.context (6.0.1-1) ... Setting up libcurl4t64:amd64 (8.13.0-1) ... Setting up libkdb5-10t64:amd64 (1.21.3-5) ... Setting up libgbm1:amd64 (25.0.3-1) ... Setting up libimport-into-perl (1.002005-2) ... Setting up libmoo-perl (2.005005-1) ... Setting up python3-typeguard (4.4.2-1) ... Setting up libgl1-mesa-dri:amd64 (25.0.3-1) ... Setting up python3-all (3.13.2-2) ... Setting up debhelper (13.24.2) ... Setting up dconf-service (0.40.0-5) ... Setting up python3-inflect (7.3.1-2) ... Setting up python3-jaraco.text (4.0.0-1) ... Setting up librtmp-dev:amd64 (2.4+20151223.gitfa8646d.1-2+b5) ... Setting up libhdf5-310:amd64 (1.14.5+repack-3) ... Setting up libkadm5srv-mit12:amd64 (1.21.3-5) ... Setting up cmake (3.31.6-2) ... Setting up libncbi-vdb-dev:amd64 (3.2.1+dfsg-2) ... Setting up libhdf5-fortran-310:amd64 (1.14.5+repack-3) ... Setting up krb5-multidev:amd64 (1.21.3-5) ... Setting up libhdf5-cpp-310:amd64 (1.14.5+repack-3) ... Setting up python3-pkg-resources (75.8.0-1) ... Setting up libhdf5-hl-310:amd64 (1.14.5+repack-3) ... Setting up libglx-mesa0:amd64 (25.0.3-1) ... Setting up python3-setuptools (75.8.0-1) ... Setting up libglx0:amd64 (1.7.0-1+b2) ... Setting up dconf-gsettings-backend:amd64 (0.40.0-5) ... Setting up libkrb5-dev:amd64 (1.21.3-5) ... Setting up libgl1:amd64 (1.7.0-1+b2) ... Setting up libcurl4-openssl-dev:amd64 (8.13.0-1) ... Setting up libgtk-3-common (3.24.49-3) ... Setting up libhdf5-hl-cpp-310:amd64 (1.14.5+repack-3) ... Setting up libhdf5-hl-fortran-310:amd64 (1.14.5+repack-3) ... Setting up libgtk-3-0t64:amd64 (3.24.49-3) ... Setting up libhdf5-dev (1.14.5+repack-3) ... update-alternatives: using /usr/lib/x86_64-linux-gnu/pkgconfig/hdf5-serial.pc to provide /usr/lib/x86_64-linux-gnu/pkgconfig/hdf5.pc (hdf5.pc) in auto mode Setting up liblwp-protocol-https-perl (6.14-1) ... Setting up libwww-perl (6.78-1) ... Setting up devscripts (2.25.9) ... Setting up javahelper (0.80) ... Processing triggers for libc-bin (2.41-6) ... Processing triggers for systemd (257.5-2) ... Processing triggers for ca-certificates-java (20240118) ... Adding debian:ACCVRAIZ1.pem Adding debian:AC_RAIZ_FNMT-RCM.pem Adding debian:AC_RAIZ_FNMT-RCM_SERVIDORES_SEGUROS.pem Adding debian:ANF_Secure_Server_Root_CA.pem Adding debian:Actalis_Authentication_Root_CA.pem Adding debian:AffirmTrust_Commercial.pem Adding debian:AffirmTrust_Networking.pem Adding debian:AffirmTrust_Premium.pem Adding debian:AffirmTrust_Premium_ECC.pem Adding debian:Amazon_Root_CA_1.pem Adding debian:Amazon_Root_CA_2.pem Adding debian:Amazon_Root_CA_3.pem Adding debian:Amazon_Root_CA_4.pem Adding debian:Atos_TrustedRoot_2011.pem Adding debian:Atos_TrustedRoot_Root_CA_ECC_TLS_2021.pem Adding debian:Atos_TrustedRoot_Root_CA_RSA_TLS_2021.pem Adding debian:Autoridad_de_Certificacion_Firmaprofesional_CIF_A62634068.pem Adding debian:BJCA_Global_Root_CA1.pem Adding debian:BJCA_Global_Root_CA2.pem Adding debian:Baltimore_CyberTrust_Root.pem Adding debian:Buypass_Class_2_Root_CA.pem Adding debian:Buypass_Class_3_Root_CA.pem Adding debian:CA_Disig_Root_R2.pem Adding debian:CFCA_EV_ROOT.pem Adding debian:COMODO_Certification_Authority.pem Adding debian:COMODO_ECC_Certification_Authority.pem Adding debian:COMODO_RSA_Certification_Authority.pem Adding debian:Certainly_Root_E1.pem Adding debian:Certainly_Root_R1.pem Adding debian:Certigna.pem Adding debian:Certigna_Root_CA.pem Adding debian:Certum_EC-384_CA.pem Adding debian:Certum_Trusted_Network_CA.pem Adding debian:Certum_Trusted_Network_CA_2.pem Adding debian:Certum_Trusted_Root_CA.pem Adding debian:CommScope_Public_Trust_ECC_Root-01.pem Adding debian:CommScope_Public_Trust_ECC_Root-02.pem Adding debian:CommScope_Public_Trust_RSA_Root-01.pem Adding debian:CommScope_Public_Trust_RSA_Root-02.pem Adding debian:Comodo_AAA_Services_root.pem Adding debian:D-TRUST_BR_Root_CA_1_2020.pem Adding debian:D-TRUST_EV_Root_CA_1_2020.pem Adding debian:D-TRUST_Root_Class_3_CA_2_2009.pem Adding debian:D-TRUST_Root_Class_3_CA_2_EV_2009.pem Adding debian:DigiCert_Assured_ID_Root_CA.pem Adding debian:DigiCert_Assured_ID_Root_G2.pem Adding debian:DigiCert_Assured_ID_Root_G3.pem Adding debian:DigiCert_Global_Root_CA.pem Adding debian:DigiCert_Global_Root_G2.pem Adding debian:DigiCert_Global_Root_G3.pem Adding debian:DigiCert_High_Assurance_EV_Root_CA.pem Adding debian:DigiCert_TLS_ECC_P384_Root_G5.pem Adding debian:DigiCert_TLS_RSA4096_Root_G5.pem Adding debian:DigiCert_Trusted_Root_G4.pem Adding debian:Entrust.net_Premium_2048_Secure_Server_CA.pem Adding debian:Entrust_Root_Certification_Authority.pem Adding debian:Entrust_Root_Certification_Authority_-_EC1.pem Adding debian:Entrust_Root_Certification_Authority_-_G2.pem Adding debian:Entrust_Root_Certification_Authority_-_G4.pem Adding debian:FIRMAPROFESIONAL_CA_ROOT-A_WEB.pem Adding debian:GDCA_TrustAUTH_R5_ROOT.pem Adding debian:GLOBALTRUST_2020.pem Adding debian:GTS_Root_R1.pem Adding debian:GTS_Root_R2.pem Adding debian:GTS_Root_R3.pem Adding debian:GTS_Root_R4.pem Adding debian:GlobalSign_ECC_Root_CA_-_R4.pem Adding debian:GlobalSign_ECC_Root_CA_-_R5.pem Adding debian:GlobalSign_Root_CA.pem Adding debian:GlobalSign_Root_CA_-_R3.pem Adding debian:GlobalSign_Root_CA_-_R6.pem Adding debian:GlobalSign_Root_E46.pem Adding debian:GlobalSign_Root_R46.pem Adding debian:Go_Daddy_Class_2_CA.pem Adding debian:Go_Daddy_Root_Certificate_Authority_-_G2.pem Adding debian:HARICA_TLS_ECC_Root_CA_2021.pem Adding debian:HARICA_TLS_RSA_Root_CA_2021.pem Adding debian:Hellenic_Academic_and_Research_Institutions_ECC_RootCA_2015.pem Adding debian:Hellenic_Academic_and_Research_Institutions_RootCA_2015.pem Adding debian:HiPKI_Root_CA_-_G1.pem Adding debian:Hongkong_Post_Root_CA_3.pem Adding debian:ISRG_Root_X1.pem Adding debian:ISRG_Root_X2.pem Adding debian:IdenTrust_Commercial_Root_CA_1.pem Adding debian:IdenTrust_Public_Sector_Root_CA_1.pem Adding debian:Izenpe.com.pem Adding debian:Microsec_e-Szigno_Root_CA_2009.pem Adding debian:Microsoft_ECC_Root_Certificate_Authority_2017.pem Adding debian:Microsoft_RSA_Root_Certificate_Authority_2017.pem Adding debian:NAVER_Global_Root_Certification_Authority.pem Adding debian:NetLock_Arany_=Class_Gold=_Főtanúsítvány.pem Adding debian:OISTE_WISeKey_Global_Root_GB_CA.pem Adding debian:OISTE_WISeKey_Global_Root_GC_CA.pem Adding debian:QuoVadis_Root_CA_1_G3.pem Adding debian:QuoVadis_Root_CA_2.pem Adding debian:QuoVadis_Root_CA_2_G3.pem Adding debian:QuoVadis_Root_CA_3.pem Adding debian:QuoVadis_Root_CA_3_G3.pem Adding debian:SSL.com_EV_Root_Certification_Authority_ECC.pem Adding debian:SSL.com_EV_Root_Certification_Authority_RSA_R2.pem Adding debian:SSL.com_Root_Certification_Authority_ECC.pem Adding debian:SSL.com_Root_Certification_Authority_RSA.pem Adding debian:SSL.com_TLS_ECC_Root_CA_2022.pem Adding debian:SSL.com_TLS_RSA_Root_CA_2022.pem Adding debian:SZAFIR_ROOT_CA2.pem Adding debian:Sectigo_Public_Server_Authentication_Root_E46.pem Adding debian:Sectigo_Public_Server_Authentication_Root_R46.pem Adding debian:SecureSign_RootCA11.pem Adding debian:SecureSign_Root_CA12.pem Adding debian:SecureSign_Root_CA14.pem Adding debian:SecureSign_Root_CA15.pem Adding debian:SecureTrust_CA.pem Adding debian:Secure_Global_CA.pem Adding debian:Security_Communication_ECC_RootCA1.pem Adding debian:Security_Communication_RootCA2.pem Adding debian:Security_Communication_RootCA3.pem Adding debian:Starfield_Class_2_CA.pem Adding debian:Starfield_Root_Certificate_Authority_-_G2.pem Adding debian:Starfield_Services_Root_Certificate_Authority_-_G2.pem Adding debian:SwissSign_Gold_CA_-_G2.pem Adding debian:SwissSign_Silver_CA_-_G2.pem Adding debian:T-TeleSec_GlobalRoot_Class_2.pem Adding debian:T-TeleSec_GlobalRoot_Class_3.pem Adding debian:TUBITAK_Kamu_SM_SSL_Kok_Sertifikasi_-_Surum_1.pem Adding debian:TWCA_CYBER_Root_CA.pem Adding debian:TWCA_Global_Root_CA.pem Adding debian:TWCA_Root_Certification_Authority.pem Adding debian:Telekom_Security_TLS_ECC_Root_2020.pem Adding debian:Telekom_Security_TLS_RSA_Root_2023.pem Adding debian:TeliaSonera_Root_CA_v1.pem Adding debian:Telia_Root_CA_v2.pem Adding debian:TrustAsia_Global_Root_CA_G3.pem Adding debian:TrustAsia_Global_Root_CA_G4.pem Adding debian:Trustwave_Global_Certification_Authority.pem Adding debian:Trustwave_Global_ECC_P256_Certification_Authority.pem Adding debian:Trustwave_Global_ECC_P384_Certification_Authority.pem Adding debian:TunTrust_Root_CA.pem Adding debian:UCA_Extended_Validation_Root.pem Adding debian:UCA_Global_G2_Root.pem Adding debian:USERTrust_ECC_Certification_Authority.pem Adding debian:USERTrust_RSA_Certification_Authority.pem Adding debian:XRamp_Global_CA_Root.pem Adding debian:certSIGN_ROOT_CA.pem Adding debian:certSIGN_Root_CA_G2.pem Adding debian:e-Szigno_Root_CA_2017.pem Adding debian:ePKI_Root_Certification_Authority.pem Adding debian:emSign_ECC_Root_CA_-_C3.pem Adding debian:emSign_ECC_Root_CA_-_G3.pem Adding debian:emSign_Root_CA_-_C1.pem Adding debian:emSign_Root_CA_-_G1.pem Adding debian:vTrus_ECC_Root_CA.pem Adding debian:vTrus_Root_CA.pem done. Setting up openjdk-21-jre:amd64 (21.0.7~8ea-1) ... Setting up openjdk-21-jdk-headless:amd64 (21.0.7~8ea-1) ... update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jar to provide /usr/bin/jar (jar) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jarsigner to provide /usr/bin/jarsigner (jarsigner) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/javac to provide /usr/bin/javac (javac) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/javadoc to provide /usr/bin/javadoc (javadoc) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/javap to provide /usr/bin/javap (javap) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jcmd to provide /usr/bin/jcmd (jcmd) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jdb to provide /usr/bin/jdb (jdb) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jdeprscan to provide /usr/bin/jdeprscan (jdeprscan) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jdeps to provide /usr/bin/jdeps (jdeps) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jfr to provide /usr/bin/jfr (jfr) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jimage to provide /usr/bin/jimage (jimage) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jinfo to provide /usr/bin/jinfo (jinfo) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jlink to provide /usr/bin/jlink (jlink) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jmap to provide /usr/bin/jmap (jmap) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jmod to provide /usr/bin/jmod (jmod) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jps to provide /usr/bin/jps (jps) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jrunscript to provide /usr/bin/jrunscript (jrunscript) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jshell to provide /usr/bin/jshell (jshell) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jstack to provide /usr/bin/jstack (jstack) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jstat to provide /usr/bin/jstat (jstat) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jstatd to provide /usr/bin/jstatd (jstatd) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jwebserver to provide /usr/bin/jwebserver (jwebserver) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/serialver to provide /usr/bin/serialver (serialver) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jhsdb to provide /usr/bin/jhsdb (jhsdb) in auto mode Setting up default-jre-headless (2:1.21-76) ... Setting up maven-repo-helper (1.11) ... Setting up default-jre (2:1.21-76) ... Setting up openjdk-21-jdk:amd64 (21.0.7~8ea-1) ... update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jconsole to provide /usr/bin/jconsole (jconsole) in auto mode Setting up default-jdk-headless (2:1.21-76) ... Setting up default-jdk (2:1.21-76) ... Processing triggers for ca-certificates (20241223) ... Updating certificates in /etc/ssl/certs... 0 added, 0 removed; done. Running hooks in /etc/ca-certificates/update.d... done. Processing triggers for ca-certificates-java (20240118) ... done. Reading package lists... Building dependency tree... Reading state information... Reading extended state information... Initializing package states... Writing extended state information... Building tag database... -> Finished parsing the build-deps I: Building the package I: user script /srv/workspace/pbuilder/2029758/tmp/hooks/A99_set_merged_usr starting Not re-configuring usrmerge for trixie I: user script /srv/workspace/pbuilder/2029758/tmp/hooks/A99_set_merged_usr finished hostname: Name or service not known I: Running cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-genchanges -S > ../sra-sdk_3.2.1+dfsg-3_source.changes dpkg-buildpackage: info: source package sra-sdk dpkg-buildpackage: info: source version 3.2.1+dfsg-3 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Aaron M. Ucko dpkg-source --before-build . dpkg-buildpackage: info: host architecture amd64 debian/rules clean dh clean --buildsystem=cmake \ --with python3,javahelper,jh_maven_repo_helper debian/rules override_dh_auto_clean make[1]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg' dh_auto_clean rm -rf ngs/ngs-java/x86_64-linux-gnu rm -rf ngs/ngs-bam/x86_64-linux-gnu rm -f ngs/ngs-bam/Makefile.config rm -f ngs/ngs-bam/Makefile.config.install.linux.x86_64.prl rm -f ngs/ngs-bam/Makefile.config.linux.x86_64 rm -f ngs/ngs-bam/reconfigure rm -rf ngs/ngs-sdk/ngs/unix/generic rm -rf ngs/ngs-sdk/x86_64-linux-gnu rm -rf ngs/ngs-python/build ngs/ngs-python/dist rm -rf ngs/ngs-python/ngs.egg-info find test tools -name actual -type d | xargs -rt rm -rf rm -rf ngs/ngs-*/examples/actual/* rm -fv test/*/*/tmp.kfg rm -rf libs/general-writer/test/actual rm -rf libs/ngs-vdb/test/data/SparseFragmentBlobs rm -rf test/external/vdb-dump/db test/loaders/bam-load/out.sra rm -rf test/schema/test_*.db test/vdb/db find tools/loaders/general-loader/test -name input | xargs -rt rm -rf rm -f ngs/ngs-sdk/examples/actual.txt rm -f debian/libngs-jni.links rm -rf .pybuild make[1]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg' dh_autoreconf_clean -O--buildsystem=cmake jh_clean -O--buildsystem=cmake Duplicate specification "u=s" for option "u" dh_clean -O--buildsystem=cmake debian/rules binary dh binary --buildsystem=cmake \ --with python3,javahelper,jh_maven_repo_helper dh_update_autotools_config -O--buildsystem=cmake dh_autoreconf -O--buildsystem=cmake debian/rules override_dh_auto_configure make[1]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg' dh_auto_configure -- -DVDB_LIBDIR=/usr/lib/x86_64-linux-gnu \ -DVDB_INCDIR=/usr/include/ncbi-vdb -DBUILD_TOOLS_LOADERS=ON \ -DBUILD_TOOLS_INTERNAL=ON -DBUILD_TOOLS_TEST_TOOLS=ON \ -DCMAKE_SKIP_RPATH=ON -DTOOLS_ONLY=OFF \ -DCOMPILER_OPTION_SSE42_SUPPORTED=FALSE cd obj-x86_64-linux-gnu && DEB_PYTHON_INSTALL_LAYOUT=deb PKG_CONFIG=/usr/bin/pkg-config cmake -DCMAKE_INSTALL_PREFIX=/usr -DCMAKE_BUILD_TYPE=None -DCMAKE_INSTALL_SYSCONFDIR=/etc -DCMAKE_INSTALL_LOCALSTATEDIR=/var -DCMAKE_EXPORT_NO_PACKAGE_REGISTRY=ON -DCMAKE_FIND_USE_PACKAGE_REGISTRY=OFF -DCMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY=ON -DFETCHCONTENT_FULLY_DISCONNECTED=ON -DCMAKE_INSTALL_RUNSTATEDIR=/run -DCMAKE_SKIP_INSTALL_ALL_DEPENDENCY=ON "-GUnix Makefiles" -DCMAKE_VERBOSE_MAKEFILE=ON -DCMAKE_INSTALL_LIBDIR=lib/x86_64-linux-gnu -DVDB_LIBDIR=/usr/lib/x86_64-linux-gnu -DVDB_INCDIR=/usr/include/ncbi-vdb -DBUILD_TOOLS_LOADERS=ON -DBUILD_TOOLS_INTERNAL=ON -DBUILD_TOOLS_TEST_TOOLS=ON -DCMAKE_SKIP_RPATH=ON -DTOOLS_ONLY=OFF -DCOMPILER_OPTION_SSE42_SUPPORTED=FALSE .. CMAKE_VERSION=3.31.6 -- The C compiler identification is GNU 14.2.0 -- The CXX compiler identification is GNU 14.2.0 -- Detecting C compiler ABI info -- Detecting C compiler ABI info - done -- Check for working C compiler: /usr/bin/cc - skipped -- Detecting C compile features -- Detecting C compile features - done -- Detecting CXX compiler ABI info -- Detecting CXX compiler ABI info - done -- Check for working CXX compiler: /usr/bin/c++ - skipped -- Detecting CXX compile features -- Detecting CXX compile features - done CMake Deprecation Warning at build/env.cmake:32 (cmake_policy): The OLD behavior for policy CMP0115 will be removed from a future version of CMake. The cmake-policies(7) manual explains that the OLD behaviors of all policies are deprecated and that a policy should be set to OLD only under specific short-term circumstances. Projects should be ported to the NEW behavior and not rely on setting a policy to OLD. Call Stack (most recent call first): CMakeLists.txt:62 (include) BUILD_TOOLS_INTERNAL=ON BUILD_TOOLS_LOADERS=ON BUILD_TOOLS_TEST_TOOLS=ON TOOLS_ONLY=OFF VERSION=3.2.1 -- Found FLEX: /usr/bin/flex (found suitable version "2.6.4", minimum required is "2.6") -- Found BISON: /usr/bin/bison (found suitable version "3.8.2", minimum required is "3") -- Found LibXml2: /usr/lib/x86_64-linux-gnu/libxml2.so (found version "2.9.14") LIBXML2_INCLUDE_DIR=/usr/include/libxml2 LIBXML2_LIBRARIES=/usr/lib/x86_64-linux-gnu/libxml2.so -- Found Java: /usr/bin/java (found version "21.0.7") found components: Development -- Found Python3: /usr/bin/python3 (found version "3.13.2") found components: Interpreter Using ncbi-vdb interfaces: /usr/include/ncbi-vdb Using ncbi-vdb binary libraries: /usr/lib/x86_64-linux-gnu -- Looking for C++ include mbedtls/md.h -- Looking for C++ include mbedtls/md.h - found -- Performing Test HAVE_MBEDTLS_F -- Performing Test HAVE_MBEDTLS_F - Failed RUN_SANITIZER_TESTS: OFF -- Found JNI: /usr/lib/jvm/default-java/include found components: AWT JVM -- Found ZLIB: /usr/lib/x86_64-linux-gnu/libz.so (found version "1.3.1") -- Found BZip2: /usr/lib/x86_64-linux-gnu/libbz2.so (found version "1.0.8") -- Looking for BZ2_bzCompressInit -- Looking for BZ2_bzCompressInit - found -- Performing Test CMAKE_HAVE_LIBC_PTHREAD -- Performing Test CMAKE_HAVE_LIBC_PTHREAD - Success -- Found Threads: TRUE RE2_FOUND=TRUE -- Found HDF5: /usr/lib/x86_64-linux-gnu/hdf5/serial/libhdf5.so;/usr/lib/x86_64-linux-gnu/libcrypto.so;/usr/lib/x86_64-linux-gnu/libcurl.so;/usr/lib/x86_64-linux-gnu/libpthread.a;/usr/lib/x86_64-linux-gnu/libsz.so;/usr/lib/x86_64-linux-gnu/libz.so;/usr/lib/x86_64-linux-gnu/libdl.a;/usr/lib/x86_64-linux-gnu/libm.so (found version "1.14.5") found components: C CMake Deprecation Warning at tools/test-tools/qa-stats/CMakeLists.txt:1 (cmake_minimum_required): Compatibility with CMake < 3.10 will be removed from a future version of CMake. Update the VERSION argument value. Or, use the ... syntax to tell CMake that the project requires at least but has been updated to work with policies introduced by or earlier. CMake Deprecation Warning at tools/test-tools/rnd2sra/CMakeLists.txt:25 (cmake_minimum_required): Compatibility with CMake < 3.10 will be removed from a future version of CMake. Update the VERSION argument value. Or, use the ... syntax to tell CMake that the project requires at least but has been updated to work with policies introduced by or earlier. RE2_FOUND=TRUE -- Configuring done (4.4s) -- Generating done (1.6s) CMake Warning: Manually-specified variables were not used by the project: CMAKE_EXPORT_NO_PACKAGE_REGISTRY CMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY CMAKE_INSTALL_LOCALSTATEDIR CMAKE_INSTALL_RUNSTATEDIR CMAKE_INSTALL_SYSCONFDIR FETCHCONTENT_FULLY_DISCONNECTED -- Build files have been written to: /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu make[1]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg' jh_linkjars -O--buildsystem=cmake Duplicate specification "unlink|u" for option "u" dh_auto_build -O--buildsystem=cmake cd obj-x86_64-linux-gnu && make -j40 "INSTALL=install --strip-program=true" VERBOSE=1 make[1]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' /usr/bin/cmake -S/build/reproducible-path/sra-sdk-3.2.1+dfsg -B/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/CMakeFiles /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu//CMakeFiles/progress.marks make -f CMakeFiles/Makefile2 all make[2]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f shared/CMakeFiles/tk-version.dir/build.make shared/CMakeFiles/tk-version.dir/depend make -f ngs/ncbi/ngs/CMakeFiles/ngs.dir/build.make ngs/ncbi/ngs/CMakeFiles/ngs.dir/depend make -f ngs/ncbi/ngs-jni/CMakeFiles/ngs-jni.dir/build.make ngs/ncbi/ngs-jni/CMakeFiles/ngs-jni.dir/depend make -f ngs/ncbi/ngs-py/CMakeFiles/ngs-py.dir/build.make ngs/ncbi/ngs-py/CMakeFiles/ngs-py.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg 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directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f ngs/ncbi/ngs-jni/CMakeFiles/ngs-jni.dir/build.make ngs/ncbi/ngs-jni/CMakeFiles/ngs-jni.dir/build make -f ngs/ncbi/ngs-py/CMakeFiles/ngs-py.dir/build.make ngs/ncbi/ngs-py/CMakeFiles/ngs-py.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/build.make ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/build.make ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/build make[3]: Leaving directory 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-fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs-jni/CMakeFiles/ngs-jni.dir/jni_Manager.c.o -MF CMakeFiles/ngs-jni.dir/jni_Manager.c.o.d -o CMakeFiles/ngs-jni.dir/jni_Manager.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ncbi/ngs-jni/jni_Manager.c cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/NCBI-NGS.c.o -MF CMakeFiles/ngs.dir/NCBI-NGS.c.o.d -o CMakeFiles/ngs.dir/NCBI-NGS.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ncbi/ngs/NCBI-NGS.c make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/build.make ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/build make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 0%] Building C object shared/CMakeFiles/tk-version.dir/toolkit.vers.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/shared && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"shared\" -Dx86_64 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CMakeFiles/ngs-jni.dir/jni_ErrorMsg.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ncbi/ngs-jni/jni_ErrorMsg.c [ 0%] Building CXX object ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/ReferenceSequence.cpp.o [ 0%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_Alignment.c.o [ 0%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_PileupEvent.c.o [ 0%] Building CXX object ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/ReferenceIterator.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_Alignment.c.o -MF CMakeFiles/ngs.dir/CSRA1_Alignment.c.o.d -o CMakeFiles/ngs.dir/CSRA1_Alignment.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ncbi/ngs/CSRA1_Alignment.c [ 0%] Building C object ngs/ncbi/ngs-py/CMakeFiles/ngs-py.dir/py_Manager.c.o make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs-py && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs-py\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ncbi/ngs-py -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ncbi/ngs -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs-py/CMakeFiles/ngs-py.dir/py_Manager.c.o -MF CMakeFiles/ngs-py.dir/py_Manager.c.o.d -o CMakeFiles/ngs-py.dir/py_Manager.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ncbi/ngs-py/py_Manager.c make -f ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/build.make ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/build cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/c++ && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/ReferenceSequence.cpp.o -MF CMakeFiles/ngs-bind-c++.dir/ReferenceSequence.cpp.o.d -o CMakeFiles/ngs-bind-c++.dir/ReferenceSequence.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk/language/c++/ReferenceSequence.cpp [ 0%] Building C object ngs/ncbi/ngs-jni/CMakeFiles/ngs-jni.dir/jni_String.c.o [ 1%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_Pileup.c.o [ 1%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_ReferenceWindow.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs-jni && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs-jni\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ncbi/ngs-jni -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ncbi/ngs -I/build/reproducible-path/sra-sdk-3.2.1+dfsg -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs-jni/CMakeFiles/ngs-jni.dir/jni_String.c.o -MF CMakeFiles/ngs-jni.dir/jni_String.c.o.d -o CMakeFiles/ngs-jni.dir/jni_String.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ncbi/ngs-jni/jni_String.c cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/c++ && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/ReferenceIterator.cpp.o -MF CMakeFiles/ngs-bind-c++.dir/ReferenceIterator.cpp.o.d -o CMakeFiles/ngs-bind-c++.dir/ReferenceIterator.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk/language/c++/ReferenceIterator.cpp [ 1%] Building CXX object ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/ReadCollectionItf.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_PileupEvent.c.o -MF CMakeFiles/ngs.dir/CSRA1_PileupEvent.c.o.d -o CMakeFiles/ngs.dir/CSRA1_PileupEvent.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ncbi/ngs/CSRA1_PileupEvent.c [ 1%] Building CXX object ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/Reference.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_Pileup.c.o -MF CMakeFiles/ngs.dir/CSRA1_Pileup.c.o.d -o CMakeFiles/ngs.dir/CSRA1_Pileup.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ncbi/ngs/CSRA1_Pileup.c cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/c++ && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/Reference.cpp.o -MF CMakeFiles/ngs-bind-c++.dir/Reference.cpp.o.d -o CMakeFiles/ngs-bind-c++.dir/Reference.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk/language/c++/Reference.cpp [ 1%] Building CXX object ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/ReadCollection.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/c++ && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/ReadCollection.cpp.o -MF CMakeFiles/ngs-bind-c++.dir/ReadCollection.cpp.o.d -o CMakeFiles/ngs-bind-c++.dir/ReadCollection.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk/language/c++/ReadCollection.cpp [ 1%] Building CXX object ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/PileupIterator.cpp.o make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/build.make ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/build cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/dispatch && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/ReadCollectionItf.cpp.o -MF CMakeFiles/ngs-disp.dir/ReadCollectionItf.cpp.o.d -o CMakeFiles/ngs-disp.dir/ReadCollectionItf.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk/dispatch/ReadCollectionItf.cpp [ 2%] Building CXX object ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/ReferenceItf.cpp.o [ 2%] Building CXX object ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/ReferenceSequenceItf.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_ReferenceWindow.c.o -MF CMakeFiles/ngs.dir/CSRA1_ReferenceWindow.c.o.d -o CMakeFiles/ngs.dir/CSRA1_ReferenceWindow.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ncbi/ngs/CSRA1_ReferenceWindow.c cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/c++ && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/PileupIterator.cpp.o -MF CMakeFiles/ngs-bind-c++.dir/PileupIterator.cpp.o.d -o CMakeFiles/ngs-bind-c++.dir/PileupIterator.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk/language/c++/PileupIterator.cpp make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f ngs/ngs-java/CMakeFiles/ngs-java.dir/build.make ngs/ngs-java/CMakeFiles/ngs-java.dir/depend cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/dispatch && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/ReferenceItf.cpp.o -MF CMakeFiles/ngs-disp.dir/ReferenceItf.cpp.o.d -o CMakeFiles/ngs-disp.dir/ReferenceItf.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk/dispatch/ReferenceItf.cpp [ 2%] Building CXX object ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/PileupItf.cpp.o [ 2%] Building CXX object ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_ReadCollectionItf.cpp.o make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f ngs/ngs-java/CMakeFiles/ngs-doc_javadoc.dir/build.make ngs/ngs-java/CMakeFiles/ngs-doc_javadoc.dir/depend [ 2%] Building CXX object ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_AlignmentItf.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-java /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/CMakeFiles/ngs-java.dir/DependInfo.cmake "--color=" [ 2%] Building CXX object ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/PileupEventItf.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/dispatch && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/ReferenceSequenceItf.cpp.o -MF CMakeFiles/ngs-disp.dir/ReferenceSequenceItf.cpp.o.d -o CMakeFiles/ngs-disp.dir/ReferenceSequenceItf.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk/dispatch/ReferenceSequenceItf.cpp [ 2%] Building CXX object ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_AlignmentIteratorItf.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/java && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ncbi/ngs-jni -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_ReadCollectionItf.cpp.o -MF CMakeFiles/ngs-bind-java.dir/jni_ReadCollectionItf.cpp.o.d -o CMakeFiles/ngs-bind-java.dir/jni_ReadCollectionItf.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk/language/java/jni_ReadCollectionItf.cpp cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/python && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ncbi/ngs-py -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_AlignmentItf.cpp.o -MF CMakeFiles/ngs-bind-python.dir/py_AlignmentItf.cpp.o.d -o CMakeFiles/ngs-bind-python.dir/py_AlignmentItf.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk/language/python/py_AlignmentItf.cpp cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/python && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ncbi/ngs-py -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_AlignmentIteratorItf.cpp.o -MF CMakeFiles/ngs-bind-python.dir/py_AlignmentIteratorItf.cpp.o.d -o CMakeFiles/ngs-bind-python.dir/py_AlignmentIteratorItf.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk/language/python/py_AlignmentIteratorItf.cpp make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-java /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/CMakeFiles/ngs-doc_javadoc.dir/DependInfo.cmake "--color=" make -f libs/kxml/CMakeFiles/kxml.dir/build.make libs/kxml/CMakeFiles/kxml.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/kxml /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/libs/kxml /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/libs/kxml/CMakeFiles/kxml.dir/DependInfo.cmake "--color=" [ 2%] Building CXX object ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_ReferenceIteratorItf.cpp.o [ 2%] Building CXX object ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/ReadCollectionItf.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/adapter && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/ReadCollectionItf.cpp.o -MF CMakeFiles/ngs-adapt-c++.dir/ReadCollectionItf.cpp.o.d -o CMakeFiles/ngs-adapt-c++.dir/ReadCollectionItf.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk/adapter/ReadCollectionItf.cpp make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f ngs/ngs-java/CMakeFiles/ngs-java.dir/build.make ngs/ngs-java/CMakeFiles/ngs-java.dir/build [ 2%] Building CXX object ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_FragmentItf.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/dispatch && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/PileupItf.cpp.o -MF CMakeFiles/ngs-disp.dir/PileupItf.cpp.o.d -o CMakeFiles/ngs-disp.dir/PileupItf.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk/dispatch/PileupItf.cpp [ 2%] Building CXX object ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_FragmentIteratorItf.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/java && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ncbi/ngs-jni -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_ReferenceIteratorItf.cpp.o -MF CMakeFiles/ngs-bind-java.dir/jni_ReferenceIteratorItf.cpp.o.d -o CMakeFiles/ngs-bind-java.dir/jni_ReferenceIteratorItf.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk/language/java/jni_ReferenceIteratorItf.cpp cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/python && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ncbi/ngs-py -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_FragmentItf.cpp.o -MF CMakeFiles/ngs-bind-python.dir/py_FragmentItf.cpp.o.d -o CMakeFiles/ngs-bind-python.dir/py_FragmentItf.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk/language/python/py_FragmentItf.cpp cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/dispatch && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/PileupEventItf.cpp.o -MF CMakeFiles/ngs-disp.dir/PileupEventItf.cpp.o.d -o CMakeFiles/ngs-disp.dir/PileupEventItf.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk/dispatch/PileupEventItf.cpp [ 2%] Building CXX object ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/PileupEventIterator.cpp.o [ 2%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_Reference.c.o [ 2%] Building CXX object ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/Pileup.cpp.o make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_Reference.c.o -MF CMakeFiles/ngs.dir/CSRA1_Reference.c.o.d -o CMakeFiles/ngs.dir/CSRA1_Reference.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ncbi/ngs/CSRA1_Reference.c cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/c++ && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/PileupEventIterator.cpp.o -MF CMakeFiles/ngs-bind-c++.dir/PileupEventIterator.cpp.o.d -o CMakeFiles/ngs-bind-c++.dir/PileupEventIterator.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk/language/c++/PileupEventIterator.cpp [ 2%] Building CXX object ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_ReferenceItf.cpp.o make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 2%] Building CXX object ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/PileupItf.cpp.o make -f ngs/ngs-java/CMakeFiles/ngs-doc_javadoc.dir/build.make ngs/ngs-java/CMakeFiles/ngs-doc_javadoc.dir/build [ 2%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_ReadCollection.c.o [ 2%] Building CXX object ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/PileupEventItf.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/adapter && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/PileupItf.cpp.o -MF CMakeFiles/ngs-adapt-c++.dir/PileupItf.cpp.o.d -o CMakeFiles/ngs-adapt-c++.dir/PileupItf.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk/adapter/PileupItf.cpp cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/c++ && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/Pileup.cpp.o -MF CMakeFiles/ngs-bind-c++.dir/Pileup.cpp.o.d -o CMakeFiles/ngs-bind-c++.dir/Pileup.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk/language/c++/Pileup.cpp make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-java && /usr/bin/javadoc -d /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc -sourcepath "/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-java" gov.nih.nlm.ncbi.ngs ngs cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/java && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ncbi/ngs-jni -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_ReferenceItf.cpp.o -MF CMakeFiles/ngs-bind-java.dir/jni_ReferenceItf.cpp.o.d -o CMakeFiles/ngs-bind-java.dir/jni_ReferenceItf.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk/language/java/jni_ReferenceItf.cpp cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/python && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ncbi/ngs-py -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_FragmentIteratorItf.cpp.o -MF CMakeFiles/ngs-bind-python.dir/py_FragmentIteratorItf.cpp.o.d -o CMakeFiles/ngs-bind-python.dir/py_FragmentIteratorItf.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk/language/python/py_FragmentIteratorItf.cpp cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/adapter && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/PileupEventItf.cpp.o -MF CMakeFiles/ngs-adapt-c++.dir/PileupEventItf.cpp.o.d -o CMakeFiles/ngs-adapt-c++.dir/PileupEventItf.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk/adapter/PileupEventItf.cpp make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f libs/kxml/CMakeFiles/kxml.dir/build.make libs/kxml/CMakeFiles/kxml.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_ReadCollection.c.o -MF CMakeFiles/ngs.dir/CSRA1_ReadCollection.c.o.d -o CMakeFiles/ngs.dir/CSRA1_ReadCollection.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ncbi/ngs/CSRA1_ReadCollection.c [ 3%] Building CXX object ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/PileupEvent.cpp.o [ 3%] Building Java objects for ngs-java.jar [ 3%] Building CXX object ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_ReferenceSequenceItf.cpp.o [ 3%] Building CXX object ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_PackageItf.cpp.o [ 3%] Linking C static library ../ilib/libtk-version.a cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/python && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ncbi/ngs-py -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_PackageItf.cpp.o -MF CMakeFiles/ngs-bind-python.dir/py_PackageItf.cpp.o.d -o CMakeFiles/ngs-bind-python.dir/py_PackageItf.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk/language/python/py_PackageItf.cpp cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/java && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ncbi/ngs-jni -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_ReferenceSequenceItf.cpp.o -MF CMakeFiles/ngs-bind-java.dir/jni_ReferenceSequenceItf.cpp.o.d -o CMakeFiles/ngs-bind-java.dir/jni_ReferenceSequenceItf.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk/language/java/jni_ReferenceSequenceItf.cpp cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-java && /usr/bin/cmake -DCMAKE_JAVA_CLASS_OUTPUT_PATH=/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/CMakeFiles/ngs-java.dir -DCMAKE_JAR_CLASSES_PREFIX= -P /usr/share/cmake-3.31/Modules/UseJava/ClearClassFiles.cmake --log-level STATUS cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/shared && /usr/bin/cmake -P CMakeFiles/tk-version.dir/cmake_clean_target.cmake cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/c++ && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/PileupEvent.cpp.o -MF CMakeFiles/ngs-bind-c++.dir/PileupEvent.cpp.o.d -o CMakeFiles/ngs-bind-c++.dir/PileupEvent.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk/language/c++/PileupEvent.cpp [ 4%] Building C object libs/kxml/CMakeFiles/kxml.dir/xml.c.o [ 4%] Building CXX object ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/AlignmentItf.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/libs/kxml && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__mod__=\"libs/kxml\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/usr/include/libxml2 -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT libs/kxml/CMakeFiles/kxml.dir/xml.c.o -MF CMakeFiles/kxml.dir/xml.c.o.d -o CMakeFiles/kxml.dir/xml.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/kxml/xml.c cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/dispatch && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/AlignmentItf.cpp.o -MF CMakeFiles/ngs-disp.dir/AlignmentItf.cpp.o.d -o CMakeFiles/ngs-disp.dir/AlignmentItf.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk/dispatch/AlignmentItf.cpp cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-java && /usr/bin/javac -classpath :/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-java:/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/lib -d /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/CMakeFiles/ngs-java.dir -h ./jni @/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/CMakeFiles/ngs-java.dir/java_sources cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/shared && /usr/bin/cmake -E cmake_link_script CMakeFiles/tk-version.dir/link.txt --verbose=1 [ 4%] Building CXX object ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/ReadGroupItf.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/dispatch && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/ReadGroupItf.cpp.o -MF CMakeFiles/ngs-disp.dir/ReadGroupItf.cpp.o.d -o CMakeFiles/ngs-disp.dir/ReadGroupItf.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk/dispatch/ReadGroupItf.cpp /usr/bin/ar qc ../ilib/libtk-version.a "CMakeFiles/tk-version.dir/toolkit.vers.c.o" /usr/bin/ranlib ../ilib/libtk-version.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 4%] Building C object libs/kxml/CMakeFiles/kxml.dir/xtoc-parsexml.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/libs/kxml && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__mod__=\"libs/kxml\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/usr/include/libxml2 -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT libs/kxml/CMakeFiles/kxml.dir/xtoc-parsexml.c.o -MF CMakeFiles/kxml.dir/xtoc-parsexml.c.o.d -o CMakeFiles/kxml.dir/xtoc-parsexml.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/kxml/xtoc-parsexml.c [ 4%] Linking C static library ../../../ilib/libngs-py.a [ 4%] Linking C static library ../../../ilib/libngs-jni.a cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs-py && /usr/bin/cmake -P CMakeFiles/ngs-py.dir/cmake_clean_target.cmake cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs-jni && /usr/bin/cmake -P CMakeFiles/ngs-jni.dir/cmake_clean_target.cmake [ 4%] Built target tk-version cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs-py && /usr/bin/cmake -E cmake_link_script CMakeFiles/ngs-py.dir/link.txt --verbose=1 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs-jni && /usr/bin/cmake -E cmake_link_script CMakeFiles/ngs-jni.dir/link.txt --verbose=1 /usr/bin/ar qc ../../../ilib/libngs-py.a "CMakeFiles/ngs-py.dir/py_Manager.c.o" /usr/bin/ranlib ../../../ilib/libngs-py.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 4%] Building C object libs/kxml/CMakeFiles/kxml.dir/xtoc.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/libs/kxml && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__mod__=\"libs/kxml\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/usr/include/libxml2 -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT libs/kxml/CMakeFiles/kxml.dir/xtoc.c.o -MF CMakeFiles/kxml.dir/xtoc.c.o.d -o CMakeFiles/kxml.dir/xtoc.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/kxml/xtoc.c [ 4%] Built target ngs-py make -f libs/loader/CMakeFiles/loader.dir/build.make libs/loader/CMakeFiles/loader.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/loader /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/libs/loader /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/libs/loader/CMakeFiles/loader.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f libs/loader/CMakeFiles/loader.dir/build.make libs/loader/CMakeFiles/loader.dir/build /usr/bin/ar qc ../../../ilib/libngs-jni.a "CMakeFiles/ngs-jni.dir/jni_Manager.c.o" "CMakeFiles/ngs-jni.dir/jni_String.c.o" "CMakeFiles/ngs-jni.dir/jni_ErrorMsg.c.o" /usr/bin/ranlib ../../../ilib/libngs-jni.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 4%] Built target ngs-jni [ 4%] Building C object libs/loader/CMakeFiles/loader.dir/progressbar.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/libs/loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__mod__=\"libs/loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT libs/loader/CMakeFiles/loader.dir/progressbar.c.o -MF CMakeFiles/loader.dir/progressbar.c.o.d -o CMakeFiles/loader.dir/progressbar.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/loader/progressbar.c [ 4%] Building C object libs/loader/CMakeFiles/loader.dir/loader-file.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/libs/loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__mod__=\"libs/loader\" -Dx86_64 -I/usr/include/ncbi-vdb 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ngs/ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_Read.c.o -MF CMakeFiles/ngs.dir/CSRA1_Read.c.o.d -o CMakeFiles/ngs.dir/CSRA1_Read.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ncbi/ngs/CSRA1_Read.c [ 5%] Building CXX object ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/AlignmentIterator.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/c++ && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API 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-fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/Alignment.cpp.o -MF CMakeFiles/ngs-bind-c++.dir/Alignment.cpp.o.d -o CMakeFiles/ngs-bind-c++.dir/Alignment.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk/language/c++/Alignment.cpp [ 6%] Building CXX object ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_PileupEventIteratorItf.cpp.o [ 6%] Building CXX object ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/ReadGroupIterator.cpp.o [ 6%] Building CXX object ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/ReferenceSequenceItf.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/adapter && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc 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CMakeFiles/ngs-bind-python.dir/py_PileupEventIteratorItf.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk/language/python/py_PileupEventIteratorItf.cpp cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/libs/loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__mod__=\"libs/loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT libs/loader/CMakeFiles/loader.dir/loader-meta.c.o -MF CMakeFiles/loader.dir/loader-meta.c.o.d -o CMakeFiles/loader.dir/loader-meta.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/loader/loader-meta.c cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/c++ && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/ReadGroupIterator.cpp.o -MF CMakeFiles/ngs-bind-c++.dir/ReadGroupIterator.cpp.o.d -o CMakeFiles/ngs-bind-c++.dir/ReadGroupIterator.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk/language/c++/ReadGroupIterator.cpp cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/adapter && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/ReferenceItf.cpp.o -MF CMakeFiles/ngs-adapt-c++.dir/ReferenceItf.cpp.o.d -o CMakeFiles/ngs-adapt-c++.dir/ReferenceItf.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk/adapter/ReferenceItf.cpp [ 7%] Building CXX object ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_PileupIteratorItf.cpp.o [ 7%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/EBI_ReferenceSequence.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/EBI_ReferenceSequence.c.o -MF CMakeFiles/ngs.dir/EBI_ReferenceSequence.c.o.d -o CMakeFiles/ngs.dir/EBI_ReferenceSequence.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ncbi/ngs/EBI_ReferenceSequence.c cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/java && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ncbi/ngs-jni -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_PileupIteratorItf.cpp.o -MF CMakeFiles/ngs-bind-java.dir/jni_PileupIteratorItf.cpp.o.d -o CMakeFiles/ngs-bind-java.dir/jni_PileupIteratorItf.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk/language/java/jni_PileupIteratorItf.cpp [ 7%] Building CXX object ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_PileupItf.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/python && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ncbi/ngs-py -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_PileupItf.cpp.o -MF CMakeFiles/ngs-bind-python.dir/py_PileupItf.cpp.o.d -o CMakeFiles/ngs-bind-python.dir/py_PileupItf.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk/language/python/py_PileupItf.cpp [ 7%] Building CXX object ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/FragmentItf.cpp.o [ 7%] Building CXX object ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/AlignmentItf.cpp.o [ 7%] Building CXX object ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/ReadGroup.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/dispatch && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/FragmentItf.cpp.o -MF CMakeFiles/ngs-disp.dir/FragmentItf.cpp.o.d -o CMakeFiles/ngs-disp.dir/FragmentItf.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk/dispatch/FragmentItf.cpp cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/adapter && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/AlignmentItf.cpp.o -MF CMakeFiles/ngs-adapt-c++.dir/AlignmentItf.cpp.o.d -o CMakeFiles/ngs-adapt-c++.dir/AlignmentItf.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk/adapter/AlignmentItf.cpp cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/c++ && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/ReadGroup.cpp.o -MF CMakeFiles/ngs-bind-c++.dir/ReadGroup.cpp.o.d -o CMakeFiles/ngs-bind-c++.dir/ReadGroup.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk/language/c++/ReadGroup.cpp [ 7%] Building CXX object ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/StatisticsItf.cpp.o [ 7%] Building CXX object ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/ReadIterator.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/dispatch && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/StatisticsItf.cpp.o -MF CMakeFiles/ngs-disp.dir/StatisticsItf.cpp.o.d -o CMakeFiles/ngs-disp.dir/StatisticsItf.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk/dispatch/StatisticsItf.cpp Loading source files for package gov.nih.nlm.ncbi.ngs... cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/c++ && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/ReadIterator.cpp.o -MF CMakeFiles/ngs-bind-c++.dir/ReadIterator.cpp.o.d -o CMakeFiles/ngs-bind-c++.dir/ReadIterator.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk/language/c++/ReadIterator.cpp [ 8%] Building CXX object ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/PackageItf.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/dispatch && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/PackageItf.cpp.o -MF CMakeFiles/ngs-disp.dir/PackageItf.cpp.o.d -o CMakeFiles/ngs-disp.dir/PackageItf.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk/dispatch/PackageItf.cpp [ 8%] Building CXX object ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_PileupItf.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/java && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ncbi/ngs-jni -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_PileupItf.cpp.o -MF CMakeFiles/ngs-bind-java.dir/jni_PileupItf.cpp.o.d -o CMakeFiles/ngs-bind-java.dir/jni_PileupItf.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk/language/java/jni_PileupItf.cpp Loading source files for package ngs... make -f libs/vdb-sqlite/CMakeFiles/vdb-sqlite.dir/build.make libs/vdb-sqlite/CMakeFiles/vdb-sqlite.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/vdb-sqlite /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/libs/vdb-sqlite /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/libs/vdb-sqlite/CMakeFiles/vdb-sqlite.dir/DependInfo.cmake "--color=" [ 8%] Building CXX object ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/Refcount.cpp.o [ 8%] Building CXX object ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_PileupIteratorItf.cpp.o [ 8%] Building CXX object ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/StringItf.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/dispatch && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/Refcount.cpp.o -MF CMakeFiles/ngs-disp.dir/Refcount.cpp.o.d -o CMakeFiles/ngs-disp.dir/Refcount.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk/dispatch/Refcount.cpp cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/python && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ncbi/ngs-py -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_PileupIteratorItf.cpp.o -MF CMakeFiles/ngs-bind-python.dir/py_PileupIteratorItf.cpp.o.d -o CMakeFiles/ngs-bind-python.dir/py_PileupIteratorItf.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk/language/python/py_PileupIteratorItf.cpp cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/dispatch && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/StringItf.cpp.o -MF CMakeFiles/ngs-disp.dir/StringItf.cpp.o.d -o CMakeFiles/ngs-disp.dir/StringItf.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk/dispatch/StringItf.cpp [ 8%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/SRA_Statistics.c.o [ 8%] Building CXX object ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_PileupEventIteratorItf.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/SRA_Statistics.c.o -MF CMakeFiles/ngs.dir/SRA_Statistics.c.o.d -o CMakeFiles/ngs.dir/SRA_Statistics.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ncbi/ngs/SRA_Statistics.c [ 8%] Building C object libs/loader/CMakeFiles/loader.dir/queue-file.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/libs/loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__mod__=\"libs/loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT libs/loader/CMakeFiles/loader.dir/queue-file.c.o -MF CMakeFiles/loader.dir/queue-file.c.o.d -o CMakeFiles/loader.dir/queue-file.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/loader/queue-file.c cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/java && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ncbi/ngs-jni -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_PileupEventIteratorItf.cpp.o -MF CMakeFiles/ngs-bind-java.dir/jni_PileupEventIteratorItf.cpp.o.d -o CMakeFiles/ngs-bind-java.dir/jni_PileupEventIteratorItf.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk/language/java/jni_PileupEventIteratorItf.cpp [ 9%] Building CXX object ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_PileupEventItf.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/java && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ncbi/ngs-jni -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_PileupEventItf.cpp.o -MF CMakeFiles/ngs-bind-java.dir/jni_PileupEventItf.cpp.o.d -o CMakeFiles/ngs-bind-java.dir/jni_PileupEventItf.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk/language/java/jni_PileupEventItf.cpp make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f libs/vdb-sqlite/CMakeFiles/vdb-sqlite.dir/build.make libs/vdb-sqlite/CMakeFiles/vdb-sqlite.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 9%] Building C object libs/vdb-sqlite/CMakeFiles/vdb-sqlite.dir/sqlite3.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/libs/vdb-sqlite && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__mod__=\"libs/vdb-sqlite\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT libs/vdb-sqlite/CMakeFiles/vdb-sqlite.dir/sqlite3.c.o -MF CMakeFiles/vdb-sqlite.dir/sqlite3.c.o.d -o CMakeFiles/vdb-sqlite.dir/sqlite3.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/vdb-sqlite/sqlite3.c [ 9%] Building CXX object ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/Read.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/c++ && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/Read.cpp.o -MF CMakeFiles/ngs-bind-c++.dir/Read.cpp.o.d -o CMakeFiles/ngs-bind-c++.dir/Read.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk/language/c++/Read.cpp [ 9%] Building C object libs/loader/CMakeFiles/loader.dir/alignment-writer.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/libs/loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__mod__=\"libs/loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT libs/loader/CMakeFiles/loader.dir/alignment-writer.c.o -MF CMakeFiles/loader.dir/alignment-writer.c.o.d -o CMakeFiles/loader.dir/alignment-writer.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/loader/alignment-writer.c [ 9%] Building CXX object ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/VTable.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/dispatch && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/VTable.cpp.o -MF CMakeFiles/ngs-disp.dir/VTable.cpp.o.d -o CMakeFiles/ngs-disp.dir/VTable.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk/dispatch/VTable.cpp [ 9%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/SRA_DB_ReadCollection.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/SRA_DB_ReadCollection.c.o -MF CMakeFiles/ngs.dir/SRA_DB_ReadCollection.c.o.d -o CMakeFiles/ngs.dir/SRA_DB_ReadCollection.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ncbi/ngs/SRA_DB_ReadCollection.c [ 9%] Building CXX object ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_AlignmentIteratorItf.cpp.o [ 9%] Building CXX object ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_ReadCollectionItf.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/python && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ncbi/ngs-py -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_ReadCollectionItf.cpp.o -MF CMakeFiles/ngs-bind-python.dir/py_ReadCollectionItf.cpp.o.d -o CMakeFiles/ngs-bind-python.dir/py_ReadCollectionItf.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk/language/python/py_ReadCollectionItf.cpp cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/java && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ncbi/ngs-jni -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_AlignmentIteratorItf.cpp.o -MF CMakeFiles/ngs-bind-java.dir/jni_AlignmentIteratorItf.cpp.o.d -o CMakeFiles/ngs-bind-java.dir/jni_AlignmentIteratorItf.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk/language/java/jni_AlignmentIteratorItf.cpp [ 9%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/SRA_Read.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/SRA_Read.c.o -MF CMakeFiles/ngs.dir/SRA_Read.c.o.d -o CMakeFiles/ngs.dir/SRA_Read.c.o -c 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[ 10%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/SRA_ReadGroupInfo.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/SRA_ReadGroupInfo.c.o -MF CMakeFiles/ngs.dir/SRA_ReadGroupInfo.c.o.d -o 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-D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT libs/loader/CMakeFiles/loader.dir/common-writer.c.o -MF CMakeFiles/loader.dir/common-writer.c.o.d -o CMakeFiles/loader.dir/common-writer.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/loader/common-writer.c [ 10%] Linking C static library ../../ilib/libkxml.a cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/libs/kxml && /usr/bin/cmake -P CMakeFiles/kxml.dir/cmake_clean_target.cmake cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/libs/kxml && /usr/bin/cmake -E cmake_link_script CMakeFiles/kxml.dir/link.txt --verbose=1 [ 10%] Building CXX object ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_ReadGroupItf.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/python && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ncbi/ngs-py -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_ReadGroupItf.cpp.o -MF CMakeFiles/ngs-bind-python.dir/py_ReadGroupItf.cpp.o.d -o CMakeFiles/ngs-bind-python.dir/py_ReadGroupItf.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk/language/python/py_ReadGroupItf.cpp [ 10%] Building CXX object ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_ReadGroupIteratorItf.cpp.o cd 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ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/ReadGroupItf.cpp.o -MF CMakeFiles/ngs-adapt-c++.dir/ReadGroupItf.cpp.o.d -o CMakeFiles/ngs-adapt-c++.dir/ReadGroupItf.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk/adapter/ReadGroupItf.cpp /usr/bin/ar qc ../../ilib/libkxml.a CMakeFiles/kxml.dir/xml.c.o "CMakeFiles/kxml.dir/xtoc-parsexml.c.o" CMakeFiles/kxml.dir/xtoc.c.o /usr/bin/ranlib ../../ilib/libkxml.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 10%] Built target kxml [ 10%] Building CXX object ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/ErrBlock.cpp.o [ 10%] Building CXX object ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_ReadGroupIteratorItf.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/python && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc 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-DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/ErrBlock.cpp.o -MF CMakeFiles/ngs-disp.dir/ErrBlock.cpp.o.d -o CMakeFiles/ngs-disp.dir/ErrBlock.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk/dispatch/ErrBlock.cpp [ 10%] Building CXX object ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/FragmentIterator.cpp.o [ 10%] Building CXX object ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/ErrorMsg.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/dispatch && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/ErrorMsg.cpp.o -MF CMakeFiles/ngs-disp.dir/ErrorMsg.cpp.o.d -o CMakeFiles/ngs-disp.dir/ErrorMsg.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk/dispatch/ErrorMsg.cpp cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/c++ && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/FragmentIterator.cpp.o -MF CMakeFiles/ngs-bind-c++.dir/FragmentIterator.cpp.o.d -o CMakeFiles/ngs-bind-c++.dir/FragmentIterator.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk/language/c++/FragmentIterator.cpp [ 10%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/SRA_ReadCollection.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/SRA_ReadCollection.c.o -MF CMakeFiles/ngs.dir/SRA_ReadCollection.c.o.d -o CMakeFiles/ngs.dir/SRA_ReadCollection.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ncbi/ngs/SRA_ReadCollection.c [ 10%] Building CXX object ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/ReadItf.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/adapter && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/ReadItf.cpp.o -MF CMakeFiles/ngs-adapt-c++.dir/ReadItf.cpp.o.d -o CMakeFiles/ngs-adapt-c++.dir/ReadItf.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk/adapter/ReadItf.cpp [ 10%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/SRA_ReferenceSequence.c.o [ 10%] Building CXX object ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/Fragment.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/c++ && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/Fragment.cpp.o -MF CMakeFiles/ngs-bind-c++.dir/Fragment.cpp.o.d -o CMakeFiles/ngs-bind-c++.dir/Fragment.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk/language/c++/Fragment.cpp cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/SRA_ReferenceSequence.c.o -MF CMakeFiles/ngs.dir/SRA_ReferenceSequence.c.o.d -o CMakeFiles/ngs.dir/SRA_ReferenceSequence.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ncbi/ngs/SRA_ReferenceSequence.c [ 10%] Building CXX object ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/StatisticsItf.cpp.o [ 10%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_Statistics.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/adapter && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/StatisticsItf.cpp.o -MF CMakeFiles/ngs-adapt-c++.dir/StatisticsItf.cpp.o.d -o CMakeFiles/ngs-adapt-c++.dir/StatisticsItf.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk/adapter/StatisticsItf.cpp cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_Statistics.c.o -MF CMakeFiles/ngs.dir/NGS_Statistics.c.o.d -o CMakeFiles/ngs.dir/NGS_Statistics.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ncbi/ngs/NGS_Statistics.c [ 10%] Building CXX object ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/FragmentItf.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/adapter && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/FragmentItf.cpp.o -MF CMakeFiles/ngs-adapt-c++.dir/FragmentItf.cpp.o.d -o CMakeFiles/ngs-adapt-c++.dir/FragmentItf.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk/adapter/FragmentItf.cpp [ 10%] Building CXX object ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/StringItf.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/adapter && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/StringItf.cpp.o -MF CMakeFiles/ngs-adapt-c++.dir/StringItf.cpp.o.d -o CMakeFiles/ngs-adapt-c++.dir/StringItf.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk/adapter/StringItf.cpp [ 10%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_ReadCollection.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_ReadCollection.c.o -MF CMakeFiles/ngs.dir/NGS_ReadCollection.c.o.d -o CMakeFiles/ngs.dir/NGS_ReadCollection.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ncbi/ngs/NGS_ReadCollection.c [ 10%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_PileupEvent.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_PileupEvent.c.o -MF CMakeFiles/ngs.dir/NGS_PileupEvent.c.o.d -o CMakeFiles/ngs.dir/NGS_PileupEvent.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ncbi/ngs/NGS_PileupEvent.c [ 10%] Building C object libs/loader/CMakeFiles/loader.dir/mmarray.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/libs/loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__mod__=\"libs/loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT libs/loader/CMakeFiles/loader.dir/mmarray.c.o -MF CMakeFiles/loader.dir/mmarray.c.o.d -o CMakeFiles/loader.dir/mmarray.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/loader/mmarray.c [ 10%] Building CXX object ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_ReadItf.cpp.o [ 10%] Building CXX object ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_ReadGroupItf.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/python && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ncbi/ngs-py -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_ReadItf.cpp.o -MF CMakeFiles/ngs-bind-python.dir/py_ReadItf.cpp.o.d -o CMakeFiles/ngs-bind-python.dir/py_ReadItf.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk/language/python/py_ReadItf.cpp cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/java && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ncbi/ngs-jni -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_ReadGroupItf.cpp.o -MF CMakeFiles/ngs-bind-java.dir/jni_ReadGroupItf.cpp.o.d -o CMakeFiles/ngs-bind-java.dir/jni_ReadGroupItf.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk/language/java/jni_ReadGroupItf.cpp [ 10%] Building CXX object ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_ReadIteratorItf.cpp.o [ 10%] Building CXX object ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/Statistics.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/python && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ncbi/ngs-py -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_ReadIteratorItf.cpp.o -MF CMakeFiles/ngs-bind-python.dir/py_ReadIteratorItf.cpp.o.d -o CMakeFiles/ngs-bind-python.dir/py_ReadIteratorItf.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk/language/python/py_ReadIteratorItf.cpp [ 10%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_Pileup.c.o [ 10%] Building CXX object ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/Refcount.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_Pileup.c.o -MF 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CMakeFiles/ngs-bind-c++.dir/Statistics.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk/language/c++/Statistics.cpp [ 11%] Building CXX object ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/StringRef.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/c++ && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/StringRef.cpp.o -MF CMakeFiles/ngs-bind-c++.dir/StringRef.cpp.o.d -o CMakeFiles/ngs-bind-c++.dir/StringRef.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk/language/c++/StringRef.cpp [ 12%] Building CXX object ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_ReferenceItf.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/python && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ncbi/ngs-py -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_ReferenceItf.cpp.o -MF CMakeFiles/ngs-bind-python.dir/py_ReferenceItf.cpp.o.d -o CMakeFiles/ngs-bind-python.dir/py_ReferenceItf.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk/language/python/py_ReferenceItf.cpp [ 12%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_ReadGroup.c.o [ 12%] Building CXX object ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_ReferenceIteratorItf.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_ReadGroup.c.o -MF CMakeFiles/ngs.dir/NGS_ReadGroup.c.o.d -o CMakeFiles/ngs.dir/NGS_ReadGroup.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ncbi/ngs/NGS_ReadGroup.c cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/python && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ncbi/ngs-py -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_ReferenceIteratorItf.cpp.o -MF CMakeFiles/ngs-bind-python.dir/py_ReferenceIteratorItf.cpp.o.d -o CMakeFiles/ngs-bind-python.dir/py_ReferenceIteratorItf.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk/language/python/py_ReferenceIteratorItf.cpp [ 12%] Building CXX object ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/ErrorMsg.cpp.o [ 12%] Building CXX object ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_ReadItf.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/adapter && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/ErrorMsg.cpp.o -MF CMakeFiles/ngs-adapt-c++.dir/ErrorMsg.cpp.o.d -o CMakeFiles/ngs-adapt-c++.dir/ErrorMsg.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk/adapter/ErrorMsg.cpp [ 12%] Building CXX object ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_ReadIteratorItf.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/java && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ncbi/ngs-jni -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_ReadIteratorItf.cpp.o -MF CMakeFiles/ngs-bind-java.dir/jni_ReadIteratorItf.cpp.o.d -o CMakeFiles/ngs-bind-java.dir/jni_ReadIteratorItf.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk/language/java/jni_ReadIteratorItf.cpp cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/java && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ncbi/ngs-jni -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_ReadItf.cpp.o -MF CMakeFiles/ngs-bind-java.dir/jni_ReadItf.cpp.o.d -o CMakeFiles/ngs-bind-java.dir/jni_ReadItf.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk/language/java/jni_ReadItf.cpp [ 13%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_Alignment.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_Alignment.c.o -MF CMakeFiles/ngs.dir/NGS_Alignment.c.o.d -o CMakeFiles/ngs.dir/NGS_Alignment.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ncbi/ngs/NGS_Alignment.c [ 13%] Building CXX object ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_FragmentItf.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/java && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ncbi/ngs-jni -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_FragmentItf.cpp.o -MF CMakeFiles/ngs-bind-java.dir/jni_FragmentItf.cpp.o.d -o CMakeFiles/ngs-bind-java.dir/jni_FragmentItf.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk/language/java/jni_FragmentItf.cpp [ 13%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_Reference.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_Reference.c.o -MF CMakeFiles/ngs.dir/NGS_Reference.c.o.d -o CMakeFiles/ngs.dir/NGS_Reference.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ncbi/ngs/NGS_Reference.c [ 13%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_ReferenceSequence.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_ReferenceSequence.c.o -MF CMakeFiles/ngs.dir/NGS_ReferenceSequence.c.o.d -o CMakeFiles/ngs.dir/NGS_ReferenceSequence.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ncbi/ngs/NGS_ReferenceSequence.c [ 14%] Building CXX object ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/ErrBlock.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/adapter && /usr/bin/c++ -DLINUX -DNDEBUG 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Building CXX object ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_StatisticsItf.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/java && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ncbi/ngs-jni -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_StatisticsItf.cpp.o -MF CMakeFiles/ngs-bind-java.dir/jni_StatisticsItf.cpp.o.d -o CMakeFiles/ngs-bind-java.dir/jni_StatisticsItf.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk/language/java/jni_StatisticsItf.cpp [ 15%] Building CXX object ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_Package.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/java && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ncbi/ngs-jni -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_Package.cpp.o -MF CMakeFiles/ngs-bind-java.dir/jni_Package.cpp.o.d -o CMakeFiles/ngs-bind-java.dir/jni_Package.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk/language/java/jni_Package.cpp [ 15%] Building CXX object ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_ReferenceSequenceItf.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/python && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ncbi/ngs-py -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_ReferenceSequenceItf.cpp.o -MF CMakeFiles/ngs-bind-python.dir/py_ReferenceSequenceItf.cpp.o.d -o CMakeFiles/ngs-bind-python.dir/py_ReferenceSequenceItf.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk/language/python/py_ReferenceSequenceItf.cpp [ 15%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_Cursor.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_Cursor.c.o -MF CMakeFiles/ngs.dir/NGS_Cursor.c.o.d -o CMakeFiles/ngs.dir/NGS_Cursor.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ncbi/ngs/NGS_Cursor.c Creating destination directory: "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/" [ 15%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_Refcount.c.o cd 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Building CXX object ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_String.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/java && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ncbi/ngs-jni -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_String.cpp.o -MF CMakeFiles/ngs-bind-java.dir/jni_String.cpp.o.d -o CMakeFiles/ngs-bind-java.dir/jni_String.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk/language/java/jni_String.cpp [ 15%] Building C object libs/vdb-sqlite/CMakeFiles/vdb-sqlite.dir/sqlite3vdb.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/libs/vdb-sqlite && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__mod__=\"libs/vdb-sqlite\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT libs/vdb-sqlite/CMakeFiles/vdb-sqlite.dir/sqlite3vdb.c.o -MF CMakeFiles/vdb-sqlite.dir/sqlite3vdb.c.o.d -o CMakeFiles/vdb-sqlite.dir/sqlite3vdb.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/vdb-sqlite/sqlite3vdb.c Building index for all the packages and classes... Standard Doclet version 21.0.7-ea+8-Debian-1 Building tree for all the packages and classes... [ 15%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_Id.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_Id.c.o -MF CMakeFiles/ngs.dir/NGS_Id.c.o.d -o CMakeFiles/ngs.dir/NGS_Id.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ncbi/ngs/NGS_Id.c [ 15%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_String.c.o [ 15%] Building CXX object ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_ErrorMsg.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/java && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ncbi/ngs-jni -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_ErrorMsg.cpp.o -MF CMakeFiles/ngs-bind-java.dir/jni_ErrorMsg.cpp.o.d -o CMakeFiles/ngs-bind-java.dir/jni_ErrorMsg.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk/language/java/jni_ErrorMsg.cpp cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_String.c.o -MF CMakeFiles/ngs.dir/NGS_String.c.o.d -o CMakeFiles/ngs.dir/NGS_String.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ncbi/ngs/NGS_String.c [ 15%] Building C object libs/loader/CMakeFiles/loader.dir/reference-writer.c.o [ 15%] Building CXX object ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_Refcount.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/libs/loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__mod__=\"libs/loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT libs/loader/CMakeFiles/loader.dir/reference-writer.c.o -MF CMakeFiles/loader.dir/reference-writer.c.o.d -o CMakeFiles/loader.dir/reference-writer.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/loader/reference-writer.c cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/java && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ncbi/ngs-jni -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_Refcount.cpp.o -MF CMakeFiles/ngs-bind-java.dir/jni_Refcount.cpp.o.d -o CMakeFiles/ngs-bind-java.dir/jni_Refcount.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk/language/java/jni_Refcount.cpp [ 15%] Building C object libs/loader/CMakeFiles/loader.dir/sequence-writer.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/libs/loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__mod__=\"libs/loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT libs/loader/CMakeFiles/loader.dir/sequence-writer.c.o -MF CMakeFiles/loader.dir/sequence-writer.c.o.d -o CMakeFiles/loader.dir/sequence-writer.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/loader/sequence-writer.c [ 15%] Building CXX object ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_StatisticsItf.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/python && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ncbi/ngs-py -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_StatisticsItf.cpp.o -MF CMakeFiles/ngs-bind-python.dir/py_StatisticsItf.cpp.o.d -o CMakeFiles/ngs-bind-python.dir/py_StatisticsItf.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk/language/python/py_StatisticsItf.cpp make -f libs/ngs-vdb/CMakeFiles/ngs-vdb.dir/build.make libs/ngs-vdb/CMakeFiles/ngs-vdb.dir/depend [ 15%] Building CXX object ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_Refcount.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/python && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ncbi/ngs-py -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_Refcount.cpp.o -MF CMakeFiles/ngs-bind-python.dir/py_Refcount.cpp.o.d -o CMakeFiles/ngs-bind-python.dir/py_Refcount.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk/language/python/py_Refcount.cpp make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/ngs-vdb /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/CMakeFiles/ngs-vdb.dir/DependInfo.cmake "--color=" [ 15%] Linking CXX static library ../../../ilib/libngs-disp.a cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/dispatch && /usr/bin/cmake -P CMakeFiles/ngs-disp.dir/cmake_clean_target.cmake Generating /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/ngs/Alignment.html... make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f libs/ngs-vdb/CMakeFiles/ngs-vdb.dir/build.make libs/ngs-vdb/CMakeFiles/ngs-vdb.dir/build cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/dispatch && /usr/bin/cmake -E cmake_link_script CMakeFiles/ngs-disp.dir/link.txt --verbose=1 make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 15%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_ErrBlock.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_ErrBlock.c.o -MF CMakeFiles/ngs.dir/NGS_ErrBlock.c.o.d -o CMakeFiles/ngs.dir/NGS_ErrBlock.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ncbi/ngs/NGS_ErrBlock.c make -f libs/ngs-vdb/test/CMakeFiles/ngs-makedb.dir/build.make libs/ngs-vdb/test/CMakeFiles/ngs-makedb.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test/CMakeFiles/ngs-makedb.dir/DependInfo.cmake "--color=" ngs/itf/Refcount.java:57: warning: [removal] finalize() in Object has been deprecated and marked for removal protected void finalize () ^ [ 16%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_FragmentBlob.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_FragmentBlob.c.o -MF CMakeFiles/ngs.dir/NGS_FragmentBlob.c.o.d -o CMakeFiles/ngs.dir/NGS_FragmentBlob.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ncbi/ngs/NGS_FragmentBlob.c [ 16%] Building CXX object libs/ngs-vdb/CMakeFiles/ngs-vdb.dir/VdbReadCollection.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -fPIC -rdynamic -MD -MT libs/ngs-vdb/CMakeFiles/ngs-vdb.dir/VdbReadCollection.cpp.o -MF CMakeFiles/ngs-vdb.dir/VdbReadCollection.cpp.o.d -o CMakeFiles/ngs-vdb.dir/VdbReadCollection.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/ngs-vdb/VdbReadCollection.cpp [ 16%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_FragmentBlobIterator.c.o make -f libs/ascp/CMakeFiles/ascp.dir/build.make libs/ascp/CMakeFiles/ascp.dir/depend make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 16%] Building CXX object ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_StringItf.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/python && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ncbi/ngs-py -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_StringItf.cpp.o -MF CMakeFiles/ngs-bind-python.dir/py_StringItf.cpp.o.d -o CMakeFiles/ngs-bind-python.dir/py_StringItf.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk/language/python/py_StringItf.cpp cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_FragmentBlobIterator.c.o -MF CMakeFiles/ngs.dir/NGS_FragmentBlobIterator.c.o.d -o CMakeFiles/ngs.dir/NGS_FragmentBlobIterator.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ncbi/ngs/NGS_FragmentBlobIterator.c make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/ascp /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/libs/ascp /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/libs/ascp/CMakeFiles/ascp.dir/DependInfo.cmake "--color=" make -f libs/ngs-vdb/test/CMakeFiles/ngs-makedb.dir/build.make libs/ngs-vdb/test/CMakeFiles/ngs-makedb.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 16%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_ReferenceBlob.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_ReferenceBlob.c.o -MF CMakeFiles/ngs.dir/NGS_ReferenceBlob.c.o.d -o CMakeFiles/ngs.dir/NGS_ReferenceBlob.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ncbi/ngs/NGS_ReferenceBlob.c [ 16%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_ReferenceBlobIterator.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_ReferenceBlobIterator.c.o -MF CMakeFiles/ngs.dir/NGS_ReferenceBlobIterator.c.o.d -o CMakeFiles/ngs.dir/NGS_ReferenceBlobIterator.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ncbi/ngs/NGS_ReferenceBlobIterator.c make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f libs/ascp/CMakeFiles/ascp.dir/build.make libs/ascp/CMakeFiles/ascp.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 16%] Building CXX object libs/ngs-vdb/test/CMakeFiles/ngs-makedb.dir/ngstest_makedb.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__fext__=\"cpp\" -D__file__=\"__FILE__\" -D__mod__=\"NGS_TEST\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg -I/usr/include/ncbi-vdb/../libs/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -fPIE -rdynamic -MD -MT libs/ngs-vdb/test/CMakeFiles/ngs-makedb.dir/ngstest_makedb.cpp.o -MF CMakeFiles/ngs-makedb.dir/ngstest_makedb.cpp.o.d -o CMakeFiles/ngs-makedb.dir/ngstest_makedb.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/ngs-vdb/test/ngstest_makedb.cpp [ 16%] Building CXX object libs/ngs-vdb/CMakeFiles/ngs-vdb.dir/FragmentBlobIterator.cpp.o /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-java/ngs/Alignment.java:140: warning: no comment static int all = primaryAlignment | secondaryAlignment; ^ cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -fPIC -rdynamic -MD -MT libs/ngs-vdb/CMakeFiles/ngs-vdb.dir/FragmentBlobIterator.cpp.o -MF CMakeFiles/ngs-vdb.dir/FragmentBlobIterator.cpp.o.d -o CMakeFiles/ngs-vdb.dir/FragmentBlobIterator.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/ngs-vdb/FragmentBlobIterator.cpp [ 16%] Building C object libs/ascp/CMakeFiles/ascp.dir/ascp.c.o [ 16%] Building CXX object libs/ngs-vdb/CMakeFiles/ngs-vdb.dir/FragmentBlob.cpp.o /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-java/ngs/Alignment.java:176: warning: no comment static int clipLeft = 0; ^ /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-java/ngs/Alignment.java:177: warning: no comment static int clipRight = 1; ^ cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/libs/ascp && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__mod__=\"libs/ascp\" -Dx86_64 -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/ascp -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT libs/ascp/CMakeFiles/ascp.dir/ascp.c.o -MF CMakeFiles/ascp.dir/ascp.c.o.d -o CMakeFiles/ascp.dir/ascp.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/ascp/ascp.c /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-java/ngs/Alignment.java:132: warning: no comment static int maxMapQuality = 8; // pass alignments with mappingQuality <= param ^ /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-java/ngs/Alignment.java:131: warning: no comment static int minMapQuality = 4; // pass alignments with mappingQuality >= param ^ /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-java/ngs/Alignment.java:133: warning: no comment static int noWraparound = 16; // do not include leading wrapped around alignments to circular references ^ /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-java/ngs/Alignment.java:130: warning: no comment static int passDuplicates = 2; // either a PCR or optical duplicate ^ /usr/bin/ar qc ../../../ilib/libngs-disp.a "CMakeFiles/ngs-disp.dir/ReadCollectionItf.cpp.o" "CMakeFiles/ngs-disp.dir/ReferenceItf.cpp.o" "CMakeFiles/ngs-disp.dir/ReferenceSequenceItf.cpp.o" "CMakeFiles/ngs-disp.dir/PileupItf.cpp.o" "CMakeFiles/ngs-disp.dir/PileupEventItf.cpp.o" "CMakeFiles/ngs-disp.dir/AlignmentItf.cpp.o" "CMakeFiles/ngs-disp.dir/ReadGroupItf.cpp.o" "CMakeFiles/ngs-disp.dir/ReadItf.cpp.o" "CMakeFiles/ngs-disp.dir/FragmentItf.cpp.o" "CMakeFiles/ngs-disp.dir/StatisticsItf.cpp.o" "CMakeFiles/ngs-disp.dir/PackageItf.cpp.o" "CMakeFiles/ngs-disp.dir/StringItf.cpp.o" "CMakeFiles/ngs-disp.dir/Refcount.cpp.o" "CMakeFiles/ngs-disp.dir/VTable.cpp.o" "CMakeFiles/ngs-disp.dir/ErrBlock.cpp.o" "CMakeFiles/ngs-disp.dir/ErrorMsg.cpp.o" /usr/bin/ranlib ../../../ilib/libngs-disp.a /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-java/ngs/Alignment.java:129: warning: no comment static int passFailed = 1; // reads rejected due to platform/vendor quality criteria ^ /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-java/ngs/Alignment.java:138: warning: no comment static int primaryAlignment = 1; ^ /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-java/ngs/Alignment.java:139: warning: no comment static int secondaryAlignment = 2; ^ /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-java/ngs/Alignment.java:134: warning: no comment static int startWithinSlice = 32; // change slice intersection criteria so that start pos is within slice ^ cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -fPIC -rdynamic -MD -MT libs/ngs-vdb/CMakeFiles/ngs-vdb.dir/FragmentBlob.cpp.o -MF CMakeFiles/ngs-vdb.dir/FragmentBlob.cpp.o.d -o CMakeFiles/ngs-vdb.dir/FragmentBlob.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/ngs-vdb/FragmentBlob.cpp make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 17%] Building C object libs/ascp/CMakeFiles/ascp.dir/unix/connect.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/libs/ascp && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__mod__=\"libs/ascp\" -Dx86_64 -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/ascp -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -Wno-unused-result -MD -MT libs/ascp/CMakeFiles/ascp.dir/unix/connect.c.o -MF CMakeFiles/ascp.dir/unix/connect.c.o.d -o CMakeFiles/ascp.dir/unix/connect.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/ascp/unix/connect.c [ 17%] Built target ngs-disp make -f libs/diagnose/CMakeFiles/diagnose.dir/build.make libs/diagnose/CMakeFiles/diagnose.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/diagnose /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/libs/diagnose /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/libs/diagnose/CMakeFiles/diagnose.dir/DependInfo.cmake "--color=" make -f libs/schema/CMakeFiles/sra.dir/build.make libs/schema/CMakeFiles/sra.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/schema /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/libs/schema /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/libs/schema/CMakeFiles/sra.dir/DependInfo.cmake "--color=" [ 17%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/VByteBlob.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/VByteBlob.c.o -MF CMakeFiles/ngs.dir/VByteBlob.c.o.d -o CMakeFiles/ngs.dir/VByteBlob.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ncbi/ngs/VByteBlob.c make -f libs/search/CMakeFiles/ksrch.dir/build.make libs/search/CMakeFiles/ksrch.dir/depend make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f libs/diagnose/CMakeFiles/diagnose.dir/build.make libs/diagnose/CMakeFiles/diagnose.dir/build cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/search /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/libs/search /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/libs/search/CMakeFiles/ksrch.dir/DependInfo.cmake "--color=" [ 17%] Building C object libs/ascp/CMakeFiles/ascp.dir/linux/ascp-path.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/libs/ascp && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__mod__=\"libs/ascp\" -Dx86_64 -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/ascp -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT libs/ascp/CMakeFiles/ascp.dir/linux/ascp-path.c.o -MF CMakeFiles/ascp.dir/linux/ascp-path.c.o.d -o 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-I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -fPIC -rdynamic -MD -MT libs/ngs-vdb/CMakeFiles/ngs-vdb.dir/VdbReference.cpp.o -MF CMakeFiles/ngs-vdb.dir/VdbReference.cpp.o.d -o CMakeFiles/ngs-vdb.dir/VdbReference.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/ngs-vdb/VdbReference.cpp [ 17%] Building CXX object libs/ngs-vdb/CMakeFiles/ngs-vdb.dir/ReferenceBlob.cpp.o [ 17%] Linking CXX static library ../../../ilib/libngs-adapt-c++.a cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/adapter && /usr/bin/cmake -P CMakeFiles/ngs-adapt-c++.dir/cmake_clean_target.cmake cd 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-Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT libs/diagnose/CMakeFiles/diagnose.dir/diagnose.c.o -MF CMakeFiles/diagnose.dir/diagnose.c.o.d -o CMakeFiles/diagnose.dir/diagnose.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/diagnose/diagnose.c [ 17%] Building CXX object libs/schema/CMakeFiles/sra.dir/SraSchema.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/libs/schema && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -fPIC -rdynamic -MD -MT libs/schema/CMakeFiles/sra.dir/SraSchema.cpp.o -MF CMakeFiles/sra.dir/SraSchema.cpp.o.d -o CMakeFiles/sra.dir/SraSchema.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/schema/SraSchema.cpp [ 17%] Building C object libs/diagnose/CMakeFiles/diagnose.dir/endpoint.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/libs/diagnose && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__mod__=\"libs/ascp\" -Dx86_64 -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/diagnose -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT libs/diagnose/CMakeFiles/diagnose.dir/endpoint.c.o -MF CMakeFiles/diagnose.dir/endpoint.c.o.d -o CMakeFiles/diagnose.dir/endpoint.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/diagnose/endpoint.c [ 17%] Building C object libs/search/CMakeFiles/ksrch.dir/agrep-dp.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/libs/search && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__mod__=\"libs/search\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT libs/search/CMakeFiles/ksrch.dir/agrep-dp.c.o -MF CMakeFiles/ksrch.dir/agrep-dp.c.o.d -o CMakeFiles/ksrch.dir/agrep-dp.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/search/agrep-dp.c cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/adapter && /usr/bin/cmake -E cmake_link_script CMakeFiles/ngs-adapt-c++.dir/link.txt --verbose=1 make -f libs/general-writer/CMakeFiles/general-writer.dir/build.make libs/general-writer/CMakeFiles/general-writer.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/general-writer /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/libs/general-writer /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/libs/general-writer/CMakeFiles/general-writer.dir/DependInfo.cmake "--color=" make -f tools/loaders/bam-loader/CMakeFiles/samview.dir/build.make tools/loaders/bam-loader/CMakeFiles/samview.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd 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-I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT libs/search/CMakeFiles/ksrch.dir/agrep-myers.c.o -MF CMakeFiles/ksrch.dir/agrep-myers.c.o.d -o CMakeFiles/ksrch.dir/agrep-myers.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/search/agrep-myers.c cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -fPIC -rdynamic -MD -MT libs/ngs-vdb/CMakeFiles/ngs-vdb.dir/ReferenceBlobIterator.cpp.o -MF CMakeFiles/ngs-vdb.dir/ReferenceBlobIterator.cpp.o.d -o CMakeFiles/ngs-vdb.dir/ReferenceBlobIterator.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/ngs-vdb/ReferenceBlobIterator.cpp make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 19%] Building CXX object libs/ngs-vdb/CMakeFiles/ngs-vdb.dir/VdbAlignment.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -fPIC -rdynamic -MD -MT libs/ngs-vdb/CMakeFiles/ngs-vdb.dir/VdbAlignment.cpp.o -MF 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'/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f libs/general-writer/CMakeFiles/general-writer.dir/build.make libs/general-writer/CMakeFiles/general-writer.dir/build [ 19%] Building C object libs/search/CMakeFiles/ksrch.dir/agrep-myersunltd.c.o [ 19%] Building CXX object libs/ngs-vdb/CMakeFiles/ngs-vdb.dir/NGS-VDB.cpp.o make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f tools/loaders/bam-loader/CMakeFiles/samview.dir/build.make tools/loaders/bam-loader/CMakeFiles/samview.dir/build cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -fPIC -rdynamic -MD -MT libs/ngs-vdb/CMakeFiles/ngs-vdb.dir/NGS-VDB.cpp.o -MF CMakeFiles/ngs-vdb.dir/NGS-VDB.cpp.o.d -o CMakeFiles/ngs-vdb.dir/NGS-VDB.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/ngs-vdb/NGS-VDB.cpp make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/kar /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/kar /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/kar/CMakeFiles/kar.dir/DependInfo.cmake "--color=" [ 19%] Built target ngs-adapt-c++ make -f tools/loaders/kar/CMakeFiles/kar+.dir/build.make tools/loaders/kar/CMakeFiles/kar+.dir/depend [ 19%] Building CXX object libs/general-writer/CMakeFiles/general-writer.dir/general-writer.cpp.o make -f tools/loaders/kar/CMakeFiles/kar+meta.dir/build.make tools/loaders/kar/CMakeFiles/kar+meta.dir/depend Generating /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/ngs/AlignmentIterator.html... make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/kar /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/kar /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/kar/CMakeFiles/kar+.dir/DependInfo.cmake "--color=" [ 20%] Building C object tools/loaders/bam-loader/CMakeFiles/samview.dir/bam.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/libs/search && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__mod__=\"libs/search\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT libs/search/CMakeFiles/ksrch.dir/agrep-myersunltd.c.o -MF CMakeFiles/ksrch.dir/agrep-myersunltd.c.o.d -o CMakeFiles/ksrch.dir/agrep-myersunltd.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/search/agrep-myersunltd.c make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/kar /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/kar /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/kar/CMakeFiles/kar+meta.dir/DependInfo.cmake "--color=" make -f tools/loaders/sra-sort/CMakeFiles/dump-blob-boundaries.dir/build.make tools/loaders/sra-sort/CMakeFiles/dump-blob-boundaries.dir/depend cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/libs/general-writer && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -fPIC -rdynamic -MD -MT libs/general-writer/CMakeFiles/general-writer.dir/general-writer.cpp.o -MF CMakeFiles/general-writer.dir/general-writer.cpp.o.d -o CMakeFiles/general-writer.dir/general-writer.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/general-writer/general-writer.cpp make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/sra-sort /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort/CMakeFiles/dump-blob-boundaries.dir/DependInfo.cmake "--color=" cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/bam-loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/bam-loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/usr/include/ncbi-vdb/interfaces/ext -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/bam-loader/. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/bam-loader/CMakeFiles/samview.dir/bam.c.o -MF 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[ 20%] Building C object libs/general-writer/CMakeFiles/general-writer.dir/utf8-like-int-codec.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/libs/general-writer && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT libs/general-writer/CMakeFiles/general-writer.dir/utf8-like-int-codec.c.o -MF CMakeFiles/general-writer.dir/utf8-like-int-codec.c.o.d -o CMakeFiles/general-writer.dir/utf8-like-int-codec.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/general-writer/utf8-like-int-codec.c cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/bam-loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/bam-loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/usr/include/ncbi-vdb/interfaces/ext -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/bam-loader/. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/bam-loader/CMakeFiles/samview.dir/sam.c.o -MF CMakeFiles/samview.dir/sam.c.o.d -o CMakeFiles/samview.dir/sam.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/bam-loader/sam.c make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 20%] Building C object libs/search/CMakeFiles/ksrch.dir/agrep-wumanber.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/libs/search && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__mod__=\"libs/search\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT libs/search/CMakeFiles/ksrch.dir/agrep-wumanber.c.o -MF CMakeFiles/ksrch.dir/agrep-wumanber.c.o.d -o CMakeFiles/ksrch.dir/agrep-wumanber.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/search/agrep-wumanber.c make -f tools/loaders/kar/CMakeFiles/kar.dir/build.make tools/loaders/kar/CMakeFiles/kar.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/build.make tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/depend make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 20%] Building C object tools/loaders/bam-loader/CMakeFiles/samview.dir/samview.c.o make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-java/ngs/ErrorMsg.java:38: warning: no main description make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/sra-sort /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/DependInfo.cmake "--color=" make -f tools/loaders/kar/CMakeFiles/kar+.dir/build.make tools/loaders/kar/CMakeFiles/kar+.dir/build cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/bam-loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/bam-loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/usr/include/ncbi-vdb/interfaces/ext -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/bam-loader/. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/bam-loader/CMakeFiles/samview.dir/samview.c.o -MF CMakeFiles/samview.dir/samview.c.o.d -o CMakeFiles/samview.dir/samview.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/bam-loader/samview.c [ 20%] Linking C static library ../../../ilib/libngs.a cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cmake -P CMakeFiles/ngs.dir/cmake_clean_target.cmake * @return What went wrong ^ make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f tools/loaders/kar/CMakeFiles/kar+meta.dir/build.make tools/loaders/kar/CMakeFiles/kar+meta.dir/build /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-java/ngs/ErrorMsg.java:49: warning: no comment public ErrorMsg () ^ /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-java/ngs/ErrorMsg.java:53: warning: no comment public ErrorMsg ( String message ) ^ /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-java/ngs/ErrorMsg.java:58: warning: no comment public ErrorMsg ( ErrorMsg obj ) ^ make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f tools/loaders/sra-sort/CMakeFiles/dump-blob-boundaries.dir/build.make tools/loaders/sra-sort/CMakeFiles/dump-blob-boundaries.dir/build [ 20%] Building C object tools/loaders/kar/CMakeFiles/kar.dir/kar-path.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/kar && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/kar\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/kar/CMakeFiles/kar.dir/kar-path.c.o -MF CMakeFiles/kar.dir/kar-path.c.o.d -o CMakeFiles/kar.dir/kar-path.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/kar/kar-path.c [ 20%] Building C object libs/search/CMakeFiles/ksrch.dir/fgrep-aho.c.o make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/libs/search && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__mod__=\"libs/search\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT libs/search/CMakeFiles/ksrch.dir/fgrep-aho.c.o -MF CMakeFiles/ksrch.dir/fgrep-aho.c.o.d -o CMakeFiles/ksrch.dir/fgrep-aho.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/search/fgrep-aho.c [ 20%] Linking CXX static library ../../../../ilib/libngs-bind-c++.a Generating /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/ngs/Fragment.html... [ 20%] Building C object libs/search/CMakeFiles/ksrch.dir/fgrep-boyermoore.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/c++ && /usr/bin/cmake -P CMakeFiles/ngs-bind-c++.dir/cmake_clean_target.cmake [ 20%] Building C object tools/loaders/kar/CMakeFiles/kar+.dir/kar-path.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cmake -E cmake_link_script CMakeFiles/ngs.dir/link.txt --verbose=1 make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/kar && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/kar\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/kar/CMakeFiles/kar+.dir/kar-path.c.o -MF CMakeFiles/kar+.dir/kar-path.c.o.d -o CMakeFiles/kar+.dir/kar-path.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/kar/kar-path.c cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/libs/search && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__mod__=\"libs/search\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT libs/search/CMakeFiles/ksrch.dir/fgrep-boyermoore.c.o -MF CMakeFiles/ksrch.dir/fgrep-boyermoore.c.o.d -o CMakeFiles/ksrch.dir/fgrep-boyermoore.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/search/fgrep-boyermoore.c make -f tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/build.make tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/build [ 20%] Building C object tools/loaders/kar/CMakeFiles/kar+meta.dir/kar+util.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/kar && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/kar\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/kar/CMakeFiles/kar+meta.dir/kar+util.c.o -MF CMakeFiles/kar+meta.dir/kar+util.c.o.d -o CMakeFiles/kar+meta.dir/kar+util.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/kar/kar+util.c make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 20%] Building C object tools/loaders/sra-sort/CMakeFiles/dump-blob-boundaries.dir/dump-blob-boundaries.c.o Generating /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/ngs/FragmentIterator.html... cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/dump-blob-boundaries.dir/dump-blob-boundaries.c.o -MF CMakeFiles/dump-blob-boundaries.dir/dump-blob-boundaries.c.o.d -o CMakeFiles/dump-blob-boundaries.dir/dump-blob-boundaries.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/sra-sort/dump-blob-boundaries.c cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/c++ && /usr/bin/cmake -E cmake_link_script CMakeFiles/ngs-bind-c++.dir/link.txt --verbose=1 [ 20%] Building C object tools/loaders/kar/CMakeFiles/kar+meta.dir/kar+meta.c.o Generating /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/gov/nih/nlm/ncbi/ngs/LibDependencies.html... cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/kar && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/kar\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/kar/CMakeFiles/kar+meta.dir/kar+meta.c.o -MF CMakeFiles/kar+meta.dir/kar+meta.c.o.d -o CMakeFiles/kar+meta.dir/kar+meta.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/kar/kar+meta.c [ 20%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/caps.c.o /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-java/gov/nih/nlm/ncbi/ngs/LibDependencies.java:29: warning: no comment public class LibDependencies { ^ /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-java/gov/nih/nlm/ncbi/ngs/LibDependencies.java:34: warning: no comment cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/caps.c.o -MF CMakeFiles/sra-sort.dir/caps.c.o.d -o CMakeFiles/sra-sort.dir/caps.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/sra-sort/caps.c public final static String NCBI_VDB = "ncbi-ngs"; ^ /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-java/gov/nih/nlm/ncbi/ngs/LibDependencies.java:30: warning: no comment public final static String NGS_SDK = "ngs-sdk"; ^ /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-java/gov/nih/nlm/ncbi/ngs/LibDependencies.java:29: warning: use of default constructor, which does not provide a comment public class LibDependencies { ^ [ 20%] Building C object tools/loaders/kar/CMakeFiles/kar.dir/kar.c.o [ 20%] Building C object tools/loaders/kar/CMakeFiles/kar.dir/kar-args.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/kar && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/kar\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/kar/CMakeFiles/kar.dir/kar.c.o -MF CMakeFiles/kar.dir/kar.c.o.d -o CMakeFiles/kar.dir/kar.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/kar/kar.c cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/kar && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/kar\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/kar/CMakeFiles/kar.dir/kar-args.c.o -MF CMakeFiles/kar.dir/kar-args.c.o.d -o CMakeFiles/kar.dir/kar-args.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/kar/kar-args.c Generating /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/gov/nih/nlm/ncbi/ngs/NGS.html... /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-java/gov/nih/nlm/ncbi/ngs/NGS.java:40: warning: no comment public class NGS ^ /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-java/gov/nih/nlm/ncbi/ngs/NGS.java:40: warning: use of default constructor, which does not provide a comment public class NGS ^ /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-java/gov/nih/nlm/ncbi/ngs/NGS.java:133: warning: no comment public static void main(String[] args) { ^ [ 20%] Linking CXX static library ../../../../ilib/libngs-bind-java.a cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/java && /usr/bin/cmake -P CMakeFiles/ngs-bind-java.dir/cmake_clean_target.cmake cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/java && /usr/bin/cmake -E cmake_link_script CMakeFiles/ngs-bind-java.dir/link.txt --verbose=1 Generating /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/ngs/Package.html... [ 20%] Linking CXX static library ../../../../ilib/libngs-bind-python.a /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-java/ngs/Package.java:37: warning: no main description cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/python && /usr/bin/cmake -P CMakeFiles/ngs-bind-python.dir/cmake_clean_target.cmake * @return package version as a 1..3 part string ^ /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-java/ngs/Package.java:33: warning: use of default constructor, which does not provide a comment public class Package ^ [ 20%] Linking CXX static library ../../ilib/libsra.a /usr/bin/ar qc ../../../ilib/libngs.a "CMakeFiles/ngs.dir/NCBI-NGS.c.o" CMakeFiles/ngs.dir/CSRA1_PileupEvent.c.o CMakeFiles/ngs.dir/CSRA1_Pileup.c.o CMakeFiles/ngs.dir/CSRA1_Alignment.c.o CMakeFiles/ngs.dir/CSRA1_ReferenceWindow.c.o CMakeFiles/ngs.dir/CSRA1_Reference.c.o CMakeFiles/ngs.dir/CSRA1_ReadCollection.c.o CMakeFiles/ngs.dir/CSRA1_Read.c.o CMakeFiles/ngs.dir/EBI_ReferenceSequence.c.o CMakeFiles/ngs.dir/SRA_Statistics.c.o CMakeFiles/ngs.dir/SRA_DB_ReadCollection.c.o CMakeFiles/ngs.dir/SRA_Read.c.o CMakeFiles/ngs.dir/SRA_ReadGroup.c.o CMakeFiles/ngs.dir/SRA_ReadGroupInfo.c.o CMakeFiles/ngs.dir/SRA_ReadCollection.c.o CMakeFiles/ngs.dir/SRA_ReferenceSequence.c.o CMakeFiles/ngs.dir/NGS_Statistics.c.o CMakeFiles/ngs.dir/NGS_ReadCollection.c.o CMakeFiles/ngs.dir/NGS_PileupEvent.c.o CMakeFiles/ngs.dir/NGS_Pileup.c.o CMakeFiles/ngs.dir/NGS_ReadGroup.c.o CMakeFiles/ngs.dir/NGS_Alignment.c.o CMakeFiles/ngs.dir/NGS_Reference.c.o CMakeFiles/ngs.dir/NGS_ReferenceSequence.c.o CMakeFiles/ngs.dir/NGS_Read.c.o CMakeFiles/ngs.dir/NGS_Fragment.c.o CMakeFiles/ngs.dir/NGS_Cursor.c.o CMakeFiles/ngs.dir/NGS_Refcount.c.o CMakeFiles/ngs.dir/NGS_String.c.o CMakeFiles/ngs.dir/NGS_Id.c.o CMakeFiles/ngs.dir/NGS_ErrBlock.c.o CMakeFiles/ngs.dir/NGS_FragmentBlob.c.o CMakeFiles/ngs.dir/NGS_FragmentBlobIterator.c.o CMakeFiles/ngs.dir/NGS_ReferenceBlob.c.o CMakeFiles/ngs.dir/NGS_ReferenceBlobIterator.c.o CMakeFiles/ngs.dir/VByteBlob.c.o /usr/bin/ranlib ../../../ilib/libngs.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/libs/schema && /usr/bin/cmake -P CMakeFiles/sra.dir/cmake_clean_target.cmake Generating /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/ngs/Pileup.html... /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-java/ngs/Pileup.java:58: warning: no main description * @return base at current Reference position ^ /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/ngs-vdb/FragmentBlob.cpp: In member function 'void ncbi::ngs::vdb::FragmentBlob::GetFragmentInfo(uint64_t, std::string*, uint64_t*, uint64_t*, bool*) const': /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/ngs-vdb/FragmentBlob.cpp:125:24: warning: ignoring return value of 'bool std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::empty() const [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]', declared with attribute 'nodiscard' [-Wunused-result] 125 | fragId . empty (); | ~~~~~~~~~~~~~~~^~ In file included from /usr/include/c++/14/string:54, from /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk/ngs/itf/ErrorMsg.hpp:35, from /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk/ngs/ErrorMsg.hpp:31, from /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc/ngs-vdb/FragmentBlob.hpp:30, from /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/ngs-vdb/FragmentBlob.cpp:27: /usr/include/c++/14/bits/basic_string.h:1231:7: note: declared here 1231 | empty() const _GLIBCXX_NOEXCEPT | ^~~~~ [ 20%] Built target ngs make -f tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/build.make tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/depend cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/libs/schema && /usr/bin/cmake -E cmake_link_script CMakeFiles/sra.dir/link.txt --verbose=1 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/python && /usr/bin/cmake -E cmake_link_script CMakeFiles/ngs-bind-python.dir/link.txt --verbose=1 /usr/bin/ar qc ../../../../ilib/libngs-bind-c++.a "CMakeFiles/ngs-bind-c++.dir/ReadCollection.cpp.o" "CMakeFiles/ngs-bind-c++.dir/ReferenceSequence.cpp.o" "CMakeFiles/ngs-bind-c++.dir/ReferenceIterator.cpp.o" "CMakeFiles/ngs-bind-c++.dir/Reference.cpp.o" "CMakeFiles/ngs-bind-c++.dir/PileupIterator.cpp.o" "CMakeFiles/ngs-bind-c++.dir/Pileup.cpp.o" "CMakeFiles/ngs-bind-c++.dir/PileupEventIterator.cpp.o" "CMakeFiles/ngs-bind-c++.dir/PileupEvent.cpp.o" "CMakeFiles/ngs-bind-c++.dir/AlignmentIterator.cpp.o" "CMakeFiles/ngs-bind-c++.dir/Alignment.cpp.o" "CMakeFiles/ngs-bind-c++.dir/ReadGroupIterator.cpp.o" "CMakeFiles/ngs-bind-c++.dir/ReadGroup.cpp.o" "CMakeFiles/ngs-bind-c++.dir/ReadIterator.cpp.o" "CMakeFiles/ngs-bind-c++.dir/Read.cpp.o" "CMakeFiles/ngs-bind-c++.dir/FragmentIterator.cpp.o" "CMakeFiles/ngs-bind-c++.dir/Fragment.cpp.o" "CMakeFiles/ngs-bind-c++.dir/Statistics.cpp.o" "CMakeFiles/ngs-bind-c++.dir/StringRef.cpp.o" /usr/bin/ranlib ../../../../ilib/libngs-bind-c++.a make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/sra-sort /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' Generating /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/ngs/PileupEvent.html... /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-java/ngs/PileupEvent.java:118: warning: no comment [ 20%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/mem.c.o static int alignment_minus_strand = 0x20; ^ /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-java/ngs/PileupEvent.java:116: warning: no comment static int alignment_start = 0x80; ^ /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-java/ngs/PileupEvent.java:117: warning: no comment static int alignment_stop = 0x40; ^ /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-java/ngs/PileupEvent.java:98: warning: no comment static int deletion = 2; ^ /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-java/ngs/PileupEvent.java:104: warning: no comment cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/mem.c.o -MF CMakeFiles/sra-sort.dir/mem.c.o.d -o CMakeFiles/sra-sort.dir/mem.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/sra-sort/mem.c static int insertion = 0x08; ^ [ 20%] Building C object tools/loaders/kar/CMakeFiles/kar+.dir/kar+args.c.o /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-java/ngs/PileupEvent.java:112: warning: no comment static int insertion_before_deletion = insertion | deletion; ^ [ 20%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/membank.c.o /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-java/ngs/PileupEvent.java:107: warning: no comment static int insertion_before_match = insertion | match; ^ /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-java/ngs/PileupEvent.java:108: warning: no comment static int insertion_before_mismatch = insertion | mismatch; ^ /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-java/ngs/PileupEvent.java:180: warning: no comment static int intron_minus = 2; ^ /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-java/ngs/PileupEvent.java:179: warning: no comment static int intron_plus = 1; ^ cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/membank.c.o -MF CMakeFiles/sra-sort.dir/membank.c.o.d -o CMakeFiles/sra-sort.dir/membank.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/sra-sort/membank.c /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-java/ngs/PileupEvent.java:181: warning: no comment static int intron_unknown = 3; ^ /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-java/ngs/PileupEvent.java:97: warning: no comment static int mismatch = 1; ^ /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-java/ngs/PileupEvent.java:191: warning: no comment cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/kar && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/kar\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/kar/CMakeFiles/kar+.dir/kar+args.c.o -MF CMakeFiles/kar+.dir/kar+args.c.o.d -o CMakeFiles/kar+.dir/kar+args.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/kar/kar+args.c static int read_gap = 5; ^ /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-java/ngs/PileupEvent.java:186: warning: no comment static int read_overlap = 4; ^ /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-java/ngs/PileupEvent.java:113: warning: no comment static int replacement = insertion_before_deletion; ^ make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/build.make tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/build /usr/bin/ar qc ../../../../ilib/libngs-bind-java.a "CMakeFiles/ngs-bind-java.dir/jni_ReadCollectionItf.cpp.o" "CMakeFiles/ngs-bind-java.dir/jni_ReferenceIteratorItf.cpp.o" "CMakeFiles/ngs-bind-java.dir/jni_ReferenceItf.cpp.o" "CMakeFiles/ngs-bind-java.dir/jni_ReferenceSequenceItf.cpp.o" "CMakeFiles/ngs-bind-java.dir/jni_PileupIteratorItf.cpp.o" "CMakeFiles/ngs-bind-java.dir/jni_PileupItf.cpp.o" "CMakeFiles/ngs-bind-java.dir/jni_PileupEventIteratorItf.cpp.o" "CMakeFiles/ngs-bind-java.dir/jni_PileupEventItf.cpp.o" "CMakeFiles/ngs-bind-java.dir/jni_AlignmentIteratorItf.cpp.o" "CMakeFiles/ngs-bind-java.dir/jni_AlignmentItf.cpp.o" "CMakeFiles/ngs-bind-java.dir/jni_ReadGroupIteratorItf.cpp.o" "CMakeFiles/ngs-bind-java.dir/jni_ReadGroupItf.cpp.o" "CMakeFiles/ngs-bind-java.dir/jni_ReadIteratorItf.cpp.o" "CMakeFiles/ngs-bind-java.dir/jni_ReadItf.cpp.o" "CMakeFiles/ngs-bind-java.dir/jni_FragmentItf.cpp.o" "CMakeFiles/ngs-bind-java.dir/jni_StatisticsItf.cpp.o" "CMakeFiles/ngs-bind-java.dir/jni_Package.cpp.o" "CMakeFiles/ngs-bind-java.dir/jni_String.cpp.o" "CMakeFiles/ngs-bind-java.dir/jni_Refcount.cpp.o" "CMakeFiles/ngs-bind-java.dir/jni_ErrorMsg.cpp.o" /usr/bin/ranlib ../../../../ilib/libngs-bind-java.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 20%] Built target ngs-bind-c++ [ 20%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/paged-membank.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/paged-membank.c.o -MF CMakeFiles/sra-sort.dir/paged-membank.c.o.d -o CMakeFiles/sra-sort.dir/paged-membank.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/sra-sort/paged-membank.c /usr/bin/ar qc ../../ilib/libsra.a CMakeFiles/sra.dir/SraSchema.cpp.o /usr/bin/ranlib ../../ilib/libsra.a make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 20%] Building C object libs/search/CMakeFiles/ksrch.dir/fgrep-dumb.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/libs/search && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__mod__=\"libs/search\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT libs/search/CMakeFiles/ksrch.dir/fgrep-dumb.c.o -MF CMakeFiles/ksrch.dir/fgrep-dumb.c.o.d -o CMakeFiles/ksrch.dir/fgrep-dumb.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/search/fgrep-dumb.c [ 20%] Building C object tools/loaders/kar/CMakeFiles/kar+.dir/kar+print.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/kar && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/kar\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/kar/CMakeFiles/kar+.dir/kar+print.c.o -MF CMakeFiles/kar+.dir/kar+print.c.o.d -o CMakeFiles/kar+.dir/kar+print.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/kar/kar+print.c make -f tools/loaders/fastq-loader/CMakeFiles/fastqloader.dir/build.make tools/loaders/fastq-loader/CMakeFiles/fastqloader.dir/depend Generating /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/ngs/PileupEventIterator.html... make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/fastq-loader /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/fastq-loader /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/fastq-loader/CMakeFiles/fastqloader.dir/DependInfo.cmake "--color=" Generating /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/ngs/PileupIterator.html... /usr/bin/ar qc ../../../../ilib/libngs-bind-python.a "CMakeFiles/ngs-bind-python.dir/py_AlignmentItf.cpp.o" "CMakeFiles/ngs-bind-python.dir/py_AlignmentIteratorItf.cpp.o" "CMakeFiles/ngs-bind-python.dir/py_FragmentItf.cpp.o" "CMakeFiles/ngs-bind-python.dir/py_FragmentIteratorItf.cpp.o" "CMakeFiles/ngs-bind-python.dir/py_PackageItf.cpp.o" "CMakeFiles/ngs-bind-python.dir/py_PileupEventItf.cpp.o" "CMakeFiles/ngs-bind-python.dir/py_PileupEventIteratorItf.cpp.o" "CMakeFiles/ngs-bind-python.dir/py_PileupItf.cpp.o" "CMakeFiles/ngs-bind-python.dir/py_PileupIteratorItf.cpp.o" "CMakeFiles/ngs-bind-python.dir/py_ReadCollectionItf.cpp.o" "CMakeFiles/ngs-bind-python.dir/py_ReadGroupItf.cpp.o" "CMakeFiles/ngs-bind-python.dir/py_ReadGroupIteratorItf.cpp.o" "CMakeFiles/ngs-bind-python.dir/py_ReadItf.cpp.o" "CMakeFiles/ngs-bind-python.dir/py_ReadIteratorItf.cpp.o" "CMakeFiles/ngs-bind-python.dir/py_ReferenceItf.cpp.o" "CMakeFiles/ngs-bind-python.dir/py_ReferenceIteratorItf.cpp.o" "CMakeFiles/ngs-bind-python.dir/py_ReferenceSequenceItf.cpp.o" "CMakeFiles/ngs-bind-python.dir/py_StatisticsItf.cpp.o" "CMakeFiles/ngs-bind-python.dir/py_Refcount.cpp.o" "CMakeFiles/ngs-bind-python.dir/py_StringItf.cpp.o" /usr/bin/ranlib ../../../../ilib/libngs-bind-python.a make -f tools/loaders/sharq/CMakeFiles/sharq.py.dir/build.make tools/loaders/sharq/CMakeFiles/sharq.py.dir/depend make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/sharq /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/sharq /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/sharq/CMakeFiles/sharq.py.dir/DependInfo.cmake "--color=" [ 20%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/caps.c.o [ 20%] Built target ngs-bind-java Generating /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/ngs/Read.html... [ 20%] Built target sra /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-java/ngs/Read.java:35: warning: no comment public interface Read ^ make -f tools/external/kdbmeta/CMakeFiles/kdbmeta.dir/build.make tools/external/kdbmeta/CMakeFiles/kdbmeta.dir/depend /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-java/ngs/Read.java:79: warning: no comment static int aligned = fullyAligned | partiallyAligned; ^ cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/caps.c.o -MF CMakeFiles/sra-sort-cg.dir/caps.c.o.d -o CMakeFiles/sra-sort-cg.dir/caps.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/sra-sort/caps.c /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-java/ngs/Read.java:81: warning: no comment static int all = aligned | unaligned; ^ /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-java/ngs/Read.java:78: warning: no comment static int partiallyAligned = 2; ^ /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-java/ngs/Read.java:80: warning: no comment static int unaligned = 4; ^ make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 20%] Linking CXX executable ../../../bin/dump-blob-boundaries cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cmake -E cmake_link_script CMakeFiles/dump-blob-boundaries.dir/link.txt --verbose=1 [ 21%] Built target ngs-bind-python [ 21%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/paged-mmapbank.c.o make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f tools/loaders/fastq-loader/CMakeFiles/fastqloader.dir/build.make tools/loaders/fastq-loader/CMakeFiles/fastqloader.dir/build cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/kdbmeta /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/kdbmeta /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/kdbmeta/CMakeFiles/kdbmeta.dir/DependInfo.cmake "--color=" cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/paged-mmapbank.c.o -MF CMakeFiles/sra-sort.dir/paged-mmapbank.c.o.d -o CMakeFiles/sra-sort.dir/paged-mmapbank.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/sra-sort/paged-mmapbank.c make -f tools/loaders/general-loader/test/vschema/CMakeFiles/idx-text-checklookup.dir/build.make tools/loaders/general-loader/test/vschema/CMakeFiles/idx-text-checklookup.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 21%] Linking C static library ../../ilib/libascp.a make -f tools/loaders/sharq/CMakeFiles/sharq.py.dir/build.make tools/loaders/sharq/CMakeFiles/sharq.py.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test/vschema /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader/test/vschema /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader/test/vschema/CMakeFiles/idx-text-checklookup.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 21%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/except.c.o [ 21%] Building C object tools/loaders/fastq-loader/CMakeFiles/fastqloader.dir/spot-assembler.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/sharq && /usr/bin/cmake -E copy /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/sharq/sharq.py /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sharq.py cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/fastq-loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fastq-loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/fastq-loader/CMakeFiles/fastqloader.dir/spot-assembler.c.o -MF CMakeFiles/fastqloader.dir/spot-assembler.c.o.d -o CMakeFiles/fastqloader.dir/spot-assembler.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/fastq-loader/spot-assembler.c cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/libs/ascp && /usr/bin/cmake -P CMakeFiles/ascp.dir/cmake_clean_target.cmake cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/except.c.o -MF CMakeFiles/sra-sort.dir/except.c.o.d -o CMakeFiles/sra-sort.dir/except.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/sra-sort/except.c Generating /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/ngs/ReadCollection.html... /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-java/ngs/ReadCollection.java:88: warning: no main description * @param spec the name of a contained read group ^ /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-java/ngs/ReadCollection.java:121: warning: no main description * @param spec the name of a contained Reference ^ make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 21%] Building C object libs/search/CMakeFiles/ksrch.dir/nucstrstr.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/libs/search && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__mod__=\"libs/search\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT libs/search/CMakeFiles/ksrch.dir/nucstrstr.c.o -MF CMakeFiles/ksrch.dir/nucstrstr.c.o.d -o CMakeFiles/ksrch.dir/nucstrstr.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/search/nucstrstr.c cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/libs/ascp && /usr/bin/cmake -E cmake_link_script CMakeFiles/ascp.dir/link.txt --verbose=1 [ 21%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/mem.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/mem.c.o -MF CMakeFiles/sra-sort-cg.dir/mem.c.o.d -o CMakeFiles/sra-sort-cg.dir/mem.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/sra-sort/mem.c make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f tools/external/kdbmeta/CMakeFiles/kdbmeta.dir/build.make tools/external/kdbmeta/CMakeFiles/kdbmeta.dir/build [ 21%] Built target sharq.py make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f tools/loaders/general-loader/test/vschema/CMakeFiles/idx-text-checklookup.dir/build.make tools/loaders/general-loader/test/vschema/CMakeFiles/idx-text-checklookup.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f tools/loaders/vdb-lock/CMakeFiles/vdb-lock.dir/build.make tools/loaders/vdb-lock/CMakeFiles/vdb-lock.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 21%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/idx-mapping.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/vdb-lock /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/vdb-lock /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/vdb-lock/CMakeFiles/vdb-lock.dir/DependInfo.cmake "--color=" cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/idx-mapping.c.o -MF CMakeFiles/sra-sort.dir/idx-mapping.c.o.d -o CMakeFiles/sra-sort.dir/idx-mapping.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/sra-sort/idx-mapping.c [ 21%] Building C object tools/external/kdbmeta/CMakeFiles/kdbmeta.dir/kdbmeta.c.o Generating /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/ngs/ReadGroup.html... cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/kdbmeta && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/util\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/kdbmeta/CMakeFiles/kdbmeta.dir/kdbmeta.c.o -MF CMakeFiles/kdbmeta.dir/kdbmeta.c.o.d -o CMakeFiles/kdbmeta.dir/kdbmeta.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/kdbmeta/kdbmeta.c [ 21%] Building CXX object tools/loaders/general-loader/test/vschema/CMakeFiles/idx-text-checklookup.dir/idx-text/checklookup.cpp.o [ 21%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/membank.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader/test/vschema && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test/.. -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT tools/loaders/general-loader/test/vschema/CMakeFiles/idx-text-checklookup.dir/idx-text/checklookup.cpp.o -MF CMakeFiles/idx-text-checklookup.dir/idx-text/checklookup.cpp.o.d -o CMakeFiles/idx-text-checklookup.dir/idx-text/checklookup.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test/vschema/idx-text/checklookup.cpp cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/membank.c.o -MF CMakeFiles/sra-sort-cg.dir/membank.c.o.d -o CMakeFiles/sra-sort-cg.dir/membank.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/sra-sort/membank.c [ 21%] Building C object libs/search/CMakeFiles/ksrch.dir/search.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/libs/search && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__mod__=\"libs/search\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT libs/search/CMakeFiles/ksrch.dir/search.c.o -MF CMakeFiles/ksrch.dir/search.c.o.d -o CMakeFiles/ksrch.dir/search.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/search/search.c Generating /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/ngs/ReadGroupIterator.html... /usr/bin/ar qc ../../ilib/libascp.a CMakeFiles/ascp.dir/ascp.c.o CMakeFiles/ascp.dir/unix/connect.c.o "CMakeFiles/ascp.dir/linux/ascp-path.c.o" /usr/bin/ranlib ../../ilib/libascp.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' Generating /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/ngs/ReadIterator.html... [ 21%] Linking C static library ../../ilib/libloader.a /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-java/ngs/ReadIterator.java:34: warning: no comment public interface ReadIterator ^ Generating /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/ngs/Reference.html... cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/libs/loader && /usr/bin/cmake -P CMakeFiles/loader.dir/cmake_clean_target.cmake make -f tools/loaders/vdb-unlock/CMakeFiles/vdb-unlock.dir/build.make tools/loaders/vdb-unlock/CMakeFiles/vdb-unlock.dir/depend make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/vdb-unlock /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/vdb-unlock /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/vdb-unlock/CMakeFiles/vdb-unlock.dir/DependInfo.cmake "--color=" make -f tools/loaders/vdb-lock/CMakeFiles/vdb-lock.dir/build.make tools/loaders/vdb-lock/CMakeFiles/vdb-lock.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 21%] Building C object libs/search/CMakeFiles/ksrch.dir/sw-search.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/libs/search && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__mod__=\"libs/search\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT libs/search/CMakeFiles/ksrch.dir/sw-search.c.o -MF CMakeFiles/ksrch.dir/sw-search.c.o.d -o CMakeFiles/ksrch.dir/sw-search.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/search/sw-search.c [ 21%] Built target ascp make -f tools/external/vdb-config/tui/CMakeFiles/tui_cpp.dir/build.make tools/external/vdb-config/tui/CMakeFiles/tui_cpp.dir/depend [ 21%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/map-file.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/map-file.c.o -MF CMakeFiles/sra-sort.dir/map-file.c.o.d -o CMakeFiles/sra-sort.dir/map-file.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/sra-sort/map-file.c make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/vdb-config/tui /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui/CMakeFiles/tui_cpp.dir/DependInfo.cmake "--color=" [ 21%] Building C object tools/loaders/kar/CMakeFiles/kar+.dir/kar+util.c.o [ 21%] Building C object tools/loaders/vdb-lock/CMakeFiles/vdb-lock.dir/vdb-lock.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/vdb-lock && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-lock\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/vdb-lock/CMakeFiles/vdb-lock.dir/vdb-lock.c.o -MF CMakeFiles/vdb-lock.dir/vdb-lock.c.o.d -o CMakeFiles/vdb-lock.dir/vdb-lock.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/vdb-lock/vdb-lock.c cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/kar && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/kar\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/kar/CMakeFiles/kar+.dir/kar+util.c.o -MF CMakeFiles/kar+.dir/kar+util.c.o.d -o CMakeFiles/kar+.dir/kar+util.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/kar/kar+util.c make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f tools/loaders/vdb-unlock/CMakeFiles/vdb-unlock.dir/build.make tools/loaders/vdb-unlock/CMakeFiles/vdb-unlock.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/libs/loader && /usr/bin/cmake -E cmake_link_script CMakeFiles/loader.dir/link.txt --verbose=1 [ 22%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/paged-membank.c.o make -f tools/external/vdb-config/tui/CMakeFiles/tui.dir/build.make tools/external/vdb-config/tui/CMakeFiles/tui.dir/depend [ 22%] Building C object tools/loaders/kar/CMakeFiles/kar+.dir/kar+.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/kar && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/kar\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/kar/CMakeFiles/kar+.dir/kar+.c.o -MF CMakeFiles/kar+.dir/kar+.c.o.d -o CMakeFiles/kar+.dir/kar+.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/kar/kar+.c make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/paged-membank.c.o -MF CMakeFiles/sra-sort-cg.dir/paged-membank.c.o.d -o CMakeFiles/sra-sort-cg.dir/paged-membank.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/sra-sort/paged-membank.c make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/vdb-config/tui /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui/CMakeFiles/tui.dir/DependInfo.cmake "--color=" make -f tools/external/vdb-config/tui/CMakeFiles/tui_cpp.dir/build.make tools/external/vdb-config/tui/CMakeFiles/tui_cpp.dir/build /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/dump-blob-boundaries.dir/link.d "CMakeFiles/dump-blob-boundaries.dir/dump-blob-boundaries.c.o" -o ../../../bin/dump-blob-boundaries /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -lmbedx509 -lmbedtls -lmbedcrypto cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && rm -f dump-blob-boundaries.3.2.1 [ 22%] Building C object tools/loaders/vdb-unlock/CMakeFiles/vdb-unlock.dir/vdb-unlock.c.o make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/vdb-unlock && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-unlock\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/vdb-unlock/CMakeFiles/vdb-unlock.dir/vdb-unlock.c.o -MF CMakeFiles/vdb-unlock.dir/vdb-unlock.c.o.d -o CMakeFiles/vdb-unlock.dir/vdb-unlock.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/vdb-unlock/vdb-unlock.c make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f tools/external/vdb-config/tui/CMakeFiles/tui.dir/build.make tools/external/vdb-config/tui/CMakeFiles/tui.dir/build [ 22%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/paged-mmapbank.c.o make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && mv dump-blob-boundaries dump-blob-boundaries.3.2.1 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/paged-mmapbank.c.o -MF CMakeFiles/sra-sort-cg.dir/paged-mmapbank.c.o.d -o CMakeFiles/sra-sort-cg.dir/paged-mmapbank.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/sra-sort/paged-mmapbank.c cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s dump-blob-boundaries.3.2.1 dump-blob-boundaries.3 [ 22%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/col-pair.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/col-pair.c.o -MF CMakeFiles/sra-sort.dir/col-pair.c.o.d -o CMakeFiles/sra-sort.dir/col-pair.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/sra-sort/col-pair.c cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s dump-blob-boundaries.3 dump-blob-boundaries [ 22%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/simple-row-set.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/simple-row-set.c.o -MF CMakeFiles/sra-sort.dir/simple-row-set.c.o.d -o CMakeFiles/sra-sort.dir/simple-row-set.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/sra-sort/simple-row-set.c [ 22%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/except.c.o [ 22%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/row-set.c.o make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/except.c.o -MF CMakeFiles/sra-sort-cg.dir/except.c.o.d -o CMakeFiles/sra-sort-cg.dir/except.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/sra-sort/except.c [ 22%] Building C object tools/external/vdb-config/tui/CMakeFiles/tui.dir/dir_dlg.c.o [ 22%] Building C object tools/loaders/fastq-loader/CMakeFiles/fastqloader.dir/common-writer.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"libs/tui\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/vdb-config/tui/.. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-config/tui/CMakeFiles/tui.dir/dir_dlg.c.o -MF CMakeFiles/tui.dir/dir_dlg.c.o.d -o CMakeFiles/tui.dir/dir_dlg.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/vdb-config/tui/dir_dlg.c cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/fastq-loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fastq-loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/fastq-loader/CMakeFiles/fastqloader.dir/common-writer.c.o -MF CMakeFiles/fastqloader.dir/common-writer.c.o.d -o CMakeFiles/fastqloader.dir/common-writer.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/fastq-loader/common-writer.c cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/row-set.c.o -MF CMakeFiles/sra-sort.dir/row-set.c.o.d -o CMakeFiles/sra-sort.dir/row-set.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/sra-sort/row-set.c Generating /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/ngs/ReferenceIterator.html... [ 22%] Building CXX object tools/external/vdb-config/tui/CMakeFiles/tui_cpp.dir/tui_cpp.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"libs/tui\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/vdb-config/tui/.. -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT tools/external/vdb-config/tui/CMakeFiles/tui_cpp.dir/tui_cpp.cpp.o -MF CMakeFiles/tui_cpp.dir/tui_cpp.cpp.o.d -o CMakeFiles/tui_cpp.dir/tui_cpp.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/vdb-config/tui/tui_cpp.cpp make -f tools/external/sra-dump/CMakeFiles/fastq-dump.dir/build.make tools/external/sra-dump/CMakeFiles/fastq-dump.dir/depend Generating /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/ngs/ReferenceSequence.html... /usr/bin/ar qc ../../ilib/libloader.a CMakeFiles/loader.dir/progressbar.c.o "CMakeFiles/loader.dir/loader-file.c.o" "CMakeFiles/loader.dir/loader-meta.c.o" "CMakeFiles/loader.dir/queue-file.c.o" "CMakeFiles/loader.dir/alignment-writer.c.o" "CMakeFiles/loader.dir/common-reader.c.o" "CMakeFiles/loader.dir/common-writer.c.o" CMakeFiles/loader.dir/mmarray.c.o "CMakeFiles/loader.dir/reference-writer.c.o" "CMakeFiles/loader.dir/sequence-writer.c.o" /usr/bin/ranlib ../../ilib/libloader.a make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/sra-dump /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/sra-dump /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/sra-dump/CMakeFiles/fastq-dump.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 22%] Built target dump-blob-boundaries make -f tools/external/sra-dump/CMakeFiles/sff-dump.dir/build.make tools/external/sra-dump/CMakeFiles/sff-dump.dir/depend Generating /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/ngs/Statistics.html... make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/sra-dump /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/sra-dump /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/sra-dump/CMakeFiles/sff-dump.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f tools/external/sra-dump/CMakeFiles/fastq-dump.dir/build.make tools/external/sra-dump/CMakeFiles/fastq-dump.dir/build [ 22%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/idx-mapping.c.o /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-java/ngs/Statistics.java:41: warning: no comment static int int64 = 2; ^ cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/idx-mapping.c.o -MF CMakeFiles/sra-sort-cg.dir/idx-mapping.c.o.d -o CMakeFiles/sra-sort-cg.dir/idx-mapping.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/sra-sort/idx-mapping.c /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-java/ngs/Statistics.java:43: warning: no comment static int real = 4; ^ /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-java/ngs/Statistics.java:40: warning: no comment static int string = 1; ^ /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-java/ngs/Statistics.java:42: warning: no comment static int uint64 = 3; ^ [ 22%] Built target loader make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f tools/external/sra-dump/CMakeFiles/illumina-dump.dir/build.make tools/external/sra-dump/CMakeFiles/illumina-dump.dir/depend [ 22%] Building C object tools/external/vdb-config/tui/CMakeFiles/tui.dir/eventring.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"libs/tui\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/vdb-config/tui/.. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-config/tui/CMakeFiles/tui.dir/eventring.c.o -MF CMakeFiles/tui.dir/eventring.c.o.d -o CMakeFiles/tui.dir/eventring.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/vdb-config/tui/eventring.c make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/sra-dump /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/sra-dump /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/sra-dump/CMakeFiles/illumina-dump.dir/DependInfo.cmake "--color=" [ 22%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/map-file.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/map-file.c.o -MF CMakeFiles/sra-sort-cg.dir/map-file.c.o.d -o CMakeFiles/sra-sort-cg.dir/map-file.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/sra-sort/map-file.c make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f tools/external/sra-dump/CMakeFiles/sff-dump.dir/build.make tools/external/sra-dump/CMakeFiles/sff-dump.dir/build [ 22%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/mapping-row-set.c.o [ 22%] Building C object tools/external/sra-dump/CMakeFiles/fastq-dump.dir/factory.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/mapping-row-set.c.o -MF CMakeFiles/sra-sort.dir/mapping-row-set.c.o.d -o CMakeFiles/sra-sort.dir/mapping-row-set.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/sra-sort/mapping-row-set.c cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/sra-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-dump/CMakeFiles/fastq-dump.dir/factory.c.o -MF CMakeFiles/fastq-dump.dir/factory.c.o.d -o CMakeFiles/fastq-dump.dir/factory.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/sra-dump/factory.c make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' Generating /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/gov/nih/nlm/ncbi/ngs/package-summary.html... make -f tools/external/sra-dump/CMakeFiles/illumina-dump.dir/build.make tools/external/sra-dump/CMakeFiles/illumina-dump.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 22%] Building C object tools/external/vdb-config/tui/CMakeFiles/tui.dir/file_dlg.c.o [ 22%] Linking CXX executable ../../../bin/vdb-lock cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"libs/tui\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/vdb-config/tui/.. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-config/tui/CMakeFiles/tui.dir/file_dlg.c.o -MF CMakeFiles/tui.dir/file_dlg.c.o.d -o CMakeFiles/tui.dir/file_dlg.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/vdb-config/tui/file_dlg.c cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/vdb-lock && /usr/bin/cmake -E cmake_link_script CMakeFiles/vdb-lock.dir/link.txt --verbose=1 [ 22%] Building C object tools/external/sra-dump/CMakeFiles/sff-dump.dir/factory.c.o Generating /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/gov/nih/nlm/ncbi/ngs/package-tree.html... cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/sra-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-dump/CMakeFiles/sff-dump.dir/factory.c.o -MF CMakeFiles/sff-dump.dir/factory.c.o.d -o CMakeFiles/sff-dump.dir/factory.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/sra-dump/factory.c [ 22%] Linking CXX executable ../../../bin/vdb-unlock cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/vdb-unlock && /usr/bin/cmake -E cmake_link_script CMakeFiles/vdb-unlock.dir/link.txt --verbose=1 [ 22%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/col-pair.c.o Generating /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/ngs/package-summary.html... cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/col-pair.c.o -MF CMakeFiles/sra-sort-cg.dir/col-pair.c.o.d -o CMakeFiles/sra-sort-cg.dir/col-pair.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/sra-sort/col-pair.c [ 22%] Building C object tools/external/sra-dump/CMakeFiles/illumina-dump.dir/factory.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/sra-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-dump/CMakeFiles/illumina-dump.dir/factory.c.o -MF CMakeFiles/illumina-dump.dir/factory.c.o.d -o CMakeFiles/illumina-dump.dir/factory.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/sra-dump/factory.c Generating /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/ngs/package-tree.html... Generating /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/constant-values.html... Generating /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/serialized-form.html... [ 22%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/sorting-row-set.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/sorting-row-set.c.o -MF CMakeFiles/sra-sort.dir/sorting-row-set.c.o.d -o CMakeFiles/sra-sort.dir/sorting-row-set.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/sra-sort/sorting-row-set.c [ 22%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/row-set.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/row-set.c.o -MF CMakeFiles/sra-sort-cg.dir/row-set.c.o.d -o CMakeFiles/sra-sort-cg.dir/row-set.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/sra-sort/row-set.c [ 22%] Building C object tools/external/vdb-config/tui/CMakeFiles/tui.dir/line_policy.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"libs/tui\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/vdb-config/tui/.. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-config/tui/CMakeFiles/tui.dir/line_policy.c.o -MF CMakeFiles/tui.dir/line_policy.c.o.d -o CMakeFiles/tui.dir/line_policy.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/vdb-config/tui/line_policy.c [ 23%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/meta-pair.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/meta-pair.c.o -MF CMakeFiles/sra-sort.dir/meta-pair.c.o.d -o CMakeFiles/sra-sort.dir/meta-pair.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/sra-sort/meta-pair.c In function 'nss_unary_expr', inlined from 'nss_expr' at /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/search/nucstrstr.c:1415:13: /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/search/nucstrstr.c:1387:29: warning: array subscript 'NucStrExpr {aka NucStrstr}[0]' is partly outside array bounds of 'unsigned char[16]' [-Warray-bounds=] 1387 | e -> sub . type = type_EXPR; | ~~~~~~~~~~~~~~~~^~~~~~~~~~~ /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/search/nucstrstr.c:1382:25: note: object of size 16 allocated by 'malloc' 1382 | NucStrExpr *e = malloc ( sizeof e -> sub ); | ^~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/search/nucstrstr.c:1388:27: warning: array subscript 'NucStrExpr {aka NucStrstr}[0]' is partly outside array bounds of 'unsigned char[16]' [-Warray-bounds=] 1388 | e -> sub . op = op_NOT; | ~~~~~~~~~~~~~~^~~~~~~~ /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/search/nucstrstr.c:1382:25: note: object of size 16 allocated by 'malloc' 1382 | NucStrExpr *e = malloc ( sizeof e -> sub ); | ^~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/search/nucstrstr.c:1389:29: warning: array subscript 'NucStrExpr {aka NucStrstr}[0]' is partly outside array bounds of 'unsigned char[16]' [-Warray-bounds=] 1389 | e -> sub . expr = NULL; | ^ Generating /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/overview-tree.html... /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/search/nucstrstr.c:1382:25: note: object of size 16 allocated by 'malloc' 1382 | NucStrExpr *e = malloc ( sizeof e -> sub ); | ^~~~~~~~~~~~~~~~~~~~~~~~~~ In function 'nss_primary_expr', inlined from 'nss_unary_expr' at /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/search/nucstrstr.c:1367:16, inlined from 'nss_expr' at /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/search/nucstrstr.c:1415:13: /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/search/nucstrstr.c:1306:29: warning: array subscript 'NucStrExpr {aka NucStrstr}[0]' is partly outside array bounds of 'unsigned char[16]' [-Warray-bounds=] 1306 | e -> sub . type = type_EXPR; | ~~~~~~~~~~~~~~~~^~~~~~~~~~~ /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/search/nucstrstr.c:1301:13: note: object of size 16 allocated by 'malloc' 1301 | e = malloc ( sizeof e -> sub ); | ^~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/search/nucstrstr.c:1307:27: warning: array subscript 'NucStrExpr {aka NucStrstr}[0]' is partly outside array bounds of 'unsigned char[16]' [-Warray-bounds=] 1307 | e -> sub . op = op_HEAD; | ~~~~~~~~~~~~~~^~~~~~~~~ /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/search/nucstrstr.c:1301:13: note: object of size 16 allocated by 'malloc' 1301 | e = malloc ( sizeof e -> sub ); | ^~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/search/nucstrstr.c:1308:29: warning: array subscript 'NucStrExpr {aka NucStrstr}[0]' is partly outside array bounds of 'unsigned char[16]' [-Warray-bounds=] 1308 | e -> sub . expr = NULL; | ^ /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/search/nucstrstr.c:1301:13: note: object of size 16 allocated by 'malloc' 1301 | e = malloc ( sizeof e -> sub ); | ^~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/search/nucstrstr.c:1321:29: warning: array subscript 'NucStrExpr {aka NucStrstr}[0]' is partly outside array bounds of 'unsigned char[16]' [-Warray-bounds=] 1321 | e -> sub . type = type_EXPR; | ~~~~~~~~~~~~~~~~^~~~~~~~~~~ /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/search/nucstrstr.c:1316:13: note: object of size 16 allocated by 'malloc' 1316 | e = malloc ( sizeof e -> sub ); | ^~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/search/nucstrstr.c:1322:27: warning: array subscript 'NucStrExpr {aka NucStrstr}[0]' is partly outside array bounds of 'unsigned char[16]' [-Warray-bounds=] 1322 | e -> sub . op = 0; | ~~~~~~~~~~~~~~^~~ /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/search/nucstrstr.c:1316:13: note: object of size 16 allocated by 'malloc' 1316 | e = malloc ( sizeof e -> sub ); | ^~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/search/nucstrstr.c:1328:31: warning: array subscript 'NucStrExpr {aka NucStrstr}[0]' is partly outside array bounds of 'unsigned char[16]' [-Warray-bounds=] 1328 | if ( e -> sub . expr == NULL || p == end || * p ++ != ')' ) | ~~~~~~~~~^~~~~~ /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/search/nucstrstr.c:1316:13: note: object of size 16 allocated by 'malloc' 1316 | e = malloc ( sizeof e -> sub ); | ^~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/search/nucstrstr.c:1348:33: warning: array subscript 'NucStrExpr {aka NucStrstr}[0]' is partly outside array bounds of 'unsigned char[16]' [-Warray-bounds=] 1348 | e -> sub . type = type_EXPR; | ~~~~~~~~~~~~~~~~^~~~~~~~~~~ /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/search/nucstrstr.c:1343:17: note: object of size 16 allocated by 'malloc' 1343 | e = malloc ( sizeof e -> sub ); | ^~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/search/nucstrstr.c:1349:31: warning: array subscript 'NucStrExpr {aka NucStrstr}[0]' is partly outside array bounds of 'unsigned char[16]' [-Warray-bounds=] 1349 | e -> sub . op = op_TAIL; | ~~~~~~~~~~~~~~^~~~~~~~~ /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/search/nucstrstr.c:1343:17: note: object of size 16 allocated by 'malloc' 1343 | e = malloc ( sizeof e -> sub ); | ^~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/search/nucstrstr.c:1350:33: warning: array subscript 'NucStrExpr {aka NucStrstr}[0]' is partly outside array bounds of 'unsigned char[16]' [-Warray-bounds=] 1350 | e -> sub . expr = * expr; | ~~~~~~~~~~~~~~~~^~~~~~~~ [ 23%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/simple-row-set.c.o /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/search/nucstrstr.c:1343:17: note: object of size 16 allocated by 'malloc' 1343 | e = malloc ( sizeof e -> sub ); | ^~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/search/nucstrstr.c: In function 'nss_expr': /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/search/nucstrstr.c:1461:19: warning: array subscript 'NucStrExpr {aka NucStrstr}[0]' is partly outside array bounds of 'unsigned char[24]' [-Warray-bounds=] 1461 | e -> boolean . type = type_OP; | ^~ /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/search/nucstrstr.c:1454:21: note: object of size 24 allocated by 'malloc' 1454 | e = malloc ( sizeof e -> boolean ); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/search/nucstrstr.c:1462:19: warning: array subscript 'NucStrExpr {aka NucStrstr}[0]' is partly outside array bounds of 'unsigned char[24]' [-Warray-bounds=] 1462 | e -> boolean . op = op; | ^~ /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/search/nucstrstr.c:1454:21: note: object of size 24 allocated by 'malloc' 1454 | e = malloc ( sizeof e -> boolean ); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/simple-row-set.c.o -MF CMakeFiles/sra-sort-cg.dir/simple-row-set.c.o.d -o CMakeFiles/sra-sort-cg.dir/simple-row-set.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/sra-sort/simple-row-set.c /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/search/nucstrstr.c:1463:19: warning: array subscript 'NucStrExpr {aka NucStrstr}[0]' is partly outside array bounds of 'unsigned char[24]' [-Warray-bounds=] 1463 | e -> boolean . left = * expr; | ^~ /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/search/nucstrstr.c:1454:21: note: object of size 24 allocated by 'malloc' 1454 | e = malloc ( sizeof e -> boolean ); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Generating /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/index.html... [ 23%] Building C object tools/external/sra-dump/CMakeFiles/illumina-dump.dir/fasta_dump.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/sra-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-dump/CMakeFiles/illumina-dump.dir/fasta_dump.c.o -MF CMakeFiles/illumina-dump.dir/fasta_dump.c.o.d -o CMakeFiles/illumina-dump.dir/fasta_dump.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/sra-dump/fasta_dump.c [ 23%] Building C object tools/external/vdb-config/tui/CMakeFiles/tui.dir/screen.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"libs/tui\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/vdb-config/tui/.. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-config/tui/CMakeFiles/tui.dir/screen.c.o -MF CMakeFiles/tui.dir/screen.c.o.d -o CMakeFiles/tui.dir/screen.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/vdb-config/tui/screen.c Building index for all classes... Generating /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/allclasses-index.html... [ 23%] Linking CXX static library ../../ilib/libngs-vdb.a cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb && /usr/bin/cmake -P CMakeFiles/ngs-vdb.dir/cmake_clean_target.cmake Generating /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/allpackages-index.html... [ 23%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/mapping-row-set.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/mapping-row-set.c.o -MF CMakeFiles/sra-sort-cg.dir/mapping-row-set.c.o.d -o CMakeFiles/sra-sort-cg.dir/mapping-row-set.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/sra-sort/mapping-row-set.c Generating /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/index-all.html... /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/vdb-lock.dir/link.d "CMakeFiles/vdb-lock.dir/vdb-lock.c.o" -o ../../../bin/vdb-lock /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm -lmbedx509 -lmbedtls -lmbedcrypto cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && rm -f vdb-lock.3.2.1 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb && /usr/bin/cmake -E cmake_link_script CMakeFiles/ngs-vdb.dir/link.txt --verbose=1 [ 23%] Linking CXX executable ../../../bin/kar+meta cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/kar && /usr/bin/cmake -E cmake_link_script CMakeFiles/kar+meta.dir/link.txt --verbose=1 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && mv vdb-lock vdb-lock.3.2.1 [ 24%] Building C object tools/external/vdb-config/tui/CMakeFiles/tui.dir/string_cache.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"libs/tui\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/vdb-config/tui/.. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-config/tui/CMakeFiles/tui.dir/string_cache.c.o -MF CMakeFiles/tui.dir/string_cache.c.o.d -o CMakeFiles/tui.dir/string_cache.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/vdb-config/tui/string_cache.c [ 24%] Building C object tools/external/sra-dump/CMakeFiles/illumina-dump.dir/core.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/sra-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-dump/CMakeFiles/illumina-dump.dir/core.c.o -MF CMakeFiles/illumina-dump.dir/core.c.o.d -o CMakeFiles/illumina-dump.dir/core.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/sra-dump/core.c cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s vdb-lock.3.2.1 vdb-lock.3 [ 24%] Building C object tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s vdb-lock.3 vdb-lock cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"libs/tui\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/vdb-config/tui/.. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui.c.o -MF CMakeFiles/tui.dir/tui.c.o.d -o CMakeFiles/tui.dir/tui.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/vdb-config/tui/tui.c [ 25%] Building C object tools/loaders/fastq-loader/CMakeFiles/fastqloader.dir/sequence-writer.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/fastq-loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fastq-loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/fastq-loader/CMakeFiles/fastqloader.dir/sequence-writer.c.o -MF CMakeFiles/fastqloader.dir/sequence-writer.c.o.d -o CMakeFiles/fastqloader.dir/sequence-writer.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/fastq-loader/sequence-writer.c make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 25%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/dir-pair.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/dir-pair.c.o -MF CMakeFiles/sra-sort.dir/dir-pair.c.o.d -o CMakeFiles/sra-sort.dir/dir-pair.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/sra-sort/dir-pair.c [ 25%] Linking CXX executable ../../../bin/kar cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/kar && /usr/bin/cmake -E cmake_link_script CMakeFiles/kar.dir/link.txt --verbose=1 [ 25%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/sorting-row-set.c.o [ 25%] Built target vdb-lock cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/sorting-row-set.c.o -MF CMakeFiles/sra-sort-cg.dir/sorting-row-set.c.o.d -o CMakeFiles/sra-sort-cg.dir/sorting-row-set.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/sra-sort/sorting-row-set.c /usr/bin/ar qc ../../ilib/libngs-vdb.a "CMakeFiles/ngs-vdb.dir/VdbReadCollection.cpp.o" "CMakeFiles/ngs-vdb.dir/FragmentBlobIterator.cpp.o" "CMakeFiles/ngs-vdb.dir/FragmentBlob.cpp.o" "CMakeFiles/ngs-vdb.dir/VdbReference.cpp.o" "CMakeFiles/ngs-vdb.dir/ReferenceBlob.cpp.o" "CMakeFiles/ngs-vdb.dir/ReferenceBlobIterator.cpp.o" "CMakeFiles/ngs-vdb.dir/VdbAlignment.cpp.o" "CMakeFiles/ngs-vdb.dir/NGS-VDB.cpp.o" /usr/bin/ranlib ../../ilib/libngs-vdb.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' Note: Some input files use or override a deprecated API. Note: Recompile with -Xlint:deprecation for details. 1 warning Generating /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/search.html... [ 25%] Building C object tools/loaders/fastq-loader/CMakeFiles/fastqloader.dir/common-reader.c.o [ 26%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/meta-pair.c.o Generating /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/overview-summary.html... [ 26%] Built target ngs-vdb cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/meta-pair.c.o -MF CMakeFiles/sra-sort-cg.dir/meta-pair.c.o.d -o CMakeFiles/sra-sort-cg.dir/meta-pair.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/sra-sort/meta-pair.c cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/fastq-loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fastq-loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/fastq-loader/CMakeFiles/fastqloader.dir/common-reader.c.o -MF CMakeFiles/fastqloader.dir/common-reader.c.o.d -o CMakeFiles/fastqloader.dir/common-reader.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/fastq-loader/common-reader.c Generating /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/help-doc.html... [ 26%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/tbl-pair.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/tbl-pair.c.o -MF CMakeFiles/sra-sort.dir/tbl-pair.c.o.d -o CMakeFiles/sra-sort.dir/tbl-pair.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/sra-sort/tbl-pair.c [ 26%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/db-pair.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/db-pair.c.o -MF CMakeFiles/sra-sort.dir/db-pair.c.o.d -o CMakeFiles/sra-sort.dir/db-pair.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/sra-sort/db-pair.c [ 26%] Building C object tools/loaders/fastq-loader/CMakeFiles/fastqloader.dir/fastq-reader.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/fastq-loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fastq-loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/fastq-loader/CMakeFiles/fastqloader.dir/fastq-reader.c.o -MF CMakeFiles/fastqloader.dir/fastq-reader.c.o.d -o CMakeFiles/fastqloader.dir/fastq-reader.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/fastq-loader/fastq-reader.c cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-java && /usr/bin/cmake -E touch /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/CMakeFiles/ngs-java.dir/java_compiled_ngs-java 52 warnings /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/vdb-unlock.dir/link.d "CMakeFiles/vdb-unlock.dir/vdb-unlock.c.o" -o ../../../bin/vdb-unlock /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm -lmbedx509 -lmbedtls -lmbedcrypto cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && rm -f vdb-unlock.3.2.1 /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/sra-dump/core.c: In function 'KMain': /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/sra-dump/core.c:1011:23: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 1011 | ReportBuildDate ( __DATE__ ); | ^~~~~~~~ cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && mv vdb-unlock vdb-unlock.3.2.1 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s vdb-unlock.3.2.1 vdb-unlock.3 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s vdb-unlock.3 vdb-unlock [ 26%] Building C object tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_dlg.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"libs/tui\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/vdb-config/tui/.. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_dlg.c.o -MF CMakeFiles/tui.dir/tui_dlg.c.o.d -o CMakeFiles/tui.dir/tui_dlg.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/vdb-config/tui/tui_dlg.c make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 26%] Building C object tools/loaders/fastq-loader/CMakeFiles/fastqloader.dir/zz_fastq-grammar.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/fastq-loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fastq-loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/fastq-loader/CMakeFiles/fastqloader.dir/zz_fastq-grammar.c.o -MF CMakeFiles/fastqloader.dir/zz_fastq-grammar.c.o.d -o CMakeFiles/fastqloader.dir/zz_fastq-grammar.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/fastq-loader/zz_fastq-grammar.c [ 26%] Generating CMakeFiles/ngs-java.dir/java_class_filelist cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-java && /usr/bin/cmake -DCMAKE_JAVA_CLASS_OUTPUT_PATH=/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/CMakeFiles/ngs-java.dir -DCMAKE_JAR_CLASSES_PREFIX= -P /usr/share/cmake-3.31/Modules/UseJava/ClassFilelist.cmake [ 26%] Building C object tools/loaders/fastq-loader/CMakeFiles/fastqloader.dir/zz_fastq-lex.c.o [ 26%] Built target vdb-unlock [ 26%] Built target ngs-doc_javadoc cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/fastq-loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fastq-loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -Wno-misleading-indentation -MD -MT tools/loaders/fastq-loader/CMakeFiles/fastqloader.dir/zz_fastq-lex.c.o -MF CMakeFiles/fastqloader.dir/zz_fastq-lex.c.o.d -o CMakeFiles/fastqloader.dir/zz_fastq-lex.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/fastq-loader/zz_fastq-lex.c make -f tools/external/sra-dump/CMakeFiles/abi-dump.dir/build.make tools/external/sra-dump/CMakeFiles/abi-dump.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/sra-dump /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/sra-dump /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/sra-dump/CMakeFiles/abi-dump.dir/DependInfo.cmake "--color=" /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/kar+meta.dir/link.d CMakeFiles/kar+meta.dir/kar+util.c.o CMakeFiles/kar+meta.dir/kar+meta.c.o -o ../../../bin/kar+meta /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm -lmbedx509 -lmbedtls -lmbedcrypto [ 26%] Building C object tools/external/sra-dump/CMakeFiles/illumina-dump.dir/illumina.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && rm -f kar+meta.3.2.1 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/sra-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-dump/CMakeFiles/illumina-dump.dir/illumina.c.o -MF CMakeFiles/illumina-dump.dir/illumina.c.o.d -o CMakeFiles/illumina-dump.dir/illumina.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/sra-dump/illumina.c cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && mv kar+meta kar+meta.3.2.1 [ 26%] Linking CXX executable ../../../bin/kdbmeta cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/kdbmeta && /usr/bin/cmake -E cmake_link_script CMakeFiles/kdbmeta.dir/link.txt --verbose=1 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s kar+meta.3.2.1 kar+meta.3 [ 26%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/glob-poslen.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s kar+meta.3 kar+meta cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/glob-poslen.c.o -MF CMakeFiles/sra-sort.dir/glob-poslen.c.o.d -o CMakeFiles/sra-sort.dir/glob-poslen.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/sra-sort/glob-poslen.c [ 26%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/dir-pair.c.o make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/dir-pair.c.o -MF CMakeFiles/sra-sort-cg.dir/dir-pair.c.o.d -o CMakeFiles/sra-sort-cg.dir/dir-pair.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/sra-sort/dir-pair.c make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/kar.dir/link.d "CMakeFiles/kar.dir/kar-path.c.o" "CMakeFiles/kar.dir/kar-args.c.o" CMakeFiles/kar.dir/kar.c.o -o ../../../bin/kar /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -lmbedx509 -lmbedtls -lmbedcrypto cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && rm -f kar.3.2.1 [ 27%] Creating Java archive ngs-java.jar cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && mv kar kar.3.2.1 [ 27%] Building C object tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_dlg_helper.c.o [ 27%] Building C object tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_menu.c.o make -f tools/external/sra-dump/CMakeFiles/abi-dump.dir/build.make tools/external/sra-dump/CMakeFiles/abi-dump.dir/build cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/CMakeFiles/ngs-java.dir && /usr/bin/jar -cf /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/lib/ngs-java.jar @java_class_filelist [ 27%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/poslen-col-pair.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/poslen-col-pair.c.o -MF CMakeFiles/sra-sort.dir/poslen-col-pair.c.o.d -o CMakeFiles/sra-sort.dir/poslen-col-pair.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/sra-sort/poslen-col-pair.c cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"libs/tui\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/vdb-config/tui/.. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_dlg_helper.c.o -MF CMakeFiles/tui.dir/tui_dlg_helper.c.o.d -o CMakeFiles/tui.dir/tui_dlg_helper.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/vdb-config/tui/tui_dlg_helper.c cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s kar.3.2.1 kar.3 make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"libs/tui\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/vdb-config/tui/.. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_menu.c.o -MF CMakeFiles/tui.dir/tui_menu.c.o.d -o CMakeFiles/tui.dir/tui_menu.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/vdb-config/tui/tui_menu.c [ 27%] Built target kar+meta [ 27%] Building C object tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_palette.c.o make -f tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/build.make tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/depend cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"libs/tui\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/vdb-config/tui/.. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_palette.c.o -MF CMakeFiles/tui.dir/tui_palette.c.o.d -o CMakeFiles/tui.dir/tui_palette.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/vdb-config/tui/tui_palette.c cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s kar.3 kar [ 27%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/tbl-pair.c.o [ 27%] Building C object tools/external/sra-dump/CMakeFiles/abi-dump.dir/factory.c.o [ 27%] Building C object tools/loaders/fastq-loader/CMakeFiles/fastqloader.dir/id2name.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/tbl-pair.c.o -MF CMakeFiles/sra-sort-cg.dir/tbl-pair.c.o.d -o CMakeFiles/sra-sort-cg.dir/tbl-pair.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/sra-sort/tbl-pair.c cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/sra-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-dump/CMakeFiles/abi-dump.dir/factory.c.o -MF CMakeFiles/abi-dump.dir/factory.c.o.d -o CMakeFiles/abi-dump.dir/factory.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/sra-dump/factory.c make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/sra-pileup /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/DependInfo.cmake "--color=" cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/fastq-loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fastq-loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/fastq-loader/CMakeFiles/fastqloader.dir/id2name.c.o -MF CMakeFiles/fastqloader.dir/id2name.c.o.d -o CMakeFiles/fastqloader.dir/id2name.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/fastq-loader/id2name.c make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 27%] Linking CXX executable ../../../test-bin/ngs-makedb cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/ngs-makedb.dir/link.txt --verbose=1 /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/bam-loader/bam.c: In function 'BAM_FileMakeAlignment': /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/bam-loader/bam.c:1777:14: warning: '' may be used uninitialized [-Wmaybe-uninitialized] 1777 | if (!BAM_AlignmentInit(y, rsltsize, datasize, &y->extra[numExtra])) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 27%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/db-pair.c.o /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/bam-loader/bam.c:1697:13: note: by argument 4 of type 'const void * const' to 'BAM_AlignmentInit' declared here 1697 | static bool BAM_AlignmentInit(BAM_Alignment *const self, unsigned const maxsize, | ^~~~~~~~~~~~~~~~~ cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/db-pair.c.o -MF CMakeFiles/sra-sort-cg.dir/db-pair.c.o.d -o CMakeFiles/sra-sort-cg.dir/db-pair.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/sra-sort/db-pair.c make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 27%] Built target kar make -f tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/build.make tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/build [ 27%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/ref-alignid-col.c.o make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f tools/external/sra-pileup/CMakeFiles/sam-dump.dir/build.make tools/external/sra-pileup/CMakeFiles/sam-dump.dir/depend cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/ref-alignid-col.c.o -MF CMakeFiles/sra-sort.dir/ref-alignid-col.c.o.d -o CMakeFiles/sra-sort.dir/ref-alignid-col.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/sra-sort/ref-alignid-col.c make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/sra-pileup /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup/CMakeFiles/sam-dump.dir/DependInfo.cmake "--color=" [ 27%] Building C object tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/dyn_string.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/dyn_string.c.o -MF CMakeFiles/sra-pileup.dir/dyn_string.c.o.d -o CMakeFiles/sra-pileup.dir/dyn_string.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/sra-pileup/dyn_string.c [ 28%] Building C object tools/external/sra-dump/CMakeFiles/sff-dump.dir/fasta_dump.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/sra-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-dump/CMakeFiles/sff-dump.dir/fasta_dump.c.o -MF CMakeFiles/sff-dump.dir/fasta_dump.c.o.d -o CMakeFiles/sff-dump.dir/fasta_dump.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/sra-dump/fasta_dump.c [ 28%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/buff-writer.c.o [ 29%] Linking CXX executable ../../../bin/kar+ cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/buff-writer.c.o -MF CMakeFiles/sra-sort.dir/buff-writer.c.o.d -o CMakeFiles/sra-sort.dir/buff-writer.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/sra-sort/buff-writer.c cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/kar && /usr/bin/cmake -E cmake_link_script CMakeFiles/kar+.dir/link.txt --verbose=1 make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f tools/external/sra-pileup/CMakeFiles/sam-dump.dir/build.make tools/external/sra-pileup/CMakeFiles/sam-dump.dir/build [ 29%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/glob-poslen.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/glob-poslen.c.o -MF CMakeFiles/sra-sort-cg.dir/glob-poslen.c.o.d -o CMakeFiles/sra-sort-cg.dir/glob-poslen.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/sra-sort/glob-poslen.c make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f tools/external/vdb-dump/CMakeFiles/vdb-dump.dir/build.make tools/external/vdb-dump/CMakeFiles/vdb-dump.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/vdb-dump /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-dump /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-dump/CMakeFiles/vdb-dump.dir/DependInfo.cmake "--color=" [ 29%] Building C object tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/cmdline_cmn.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/cmdline_cmn.c.o -MF CMakeFiles/sra-pileup.dir/cmdline_cmn.c.o.d -o CMakeFiles/sra-pileup.dir/cmdline_cmn.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/sra-pileup/cmdline_cmn.c [ 29%] Building C object tools/external/sra-dump/CMakeFiles/fastq-dump.dir/core.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/sra-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-dump/CMakeFiles/fastq-dump.dir/core.c.o -MF CMakeFiles/fastq-dump.dir/core.c.o.d -o CMakeFiles/fastq-dump.dir/core.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/sra-dump/core.c [ 29%] Building C object tools/external/sra-dump/CMakeFiles/fastq-dump.dir/fasta_dump.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/sra-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-dump/CMakeFiles/fastq-dump.dir/fasta_dump.c.o -MF CMakeFiles/fastq-dump.dir/fasta_dump.c.o.d -o CMakeFiles/fastq-dump.dir/fasta_dump.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/sra-dump/fasta_dump.c [ 29%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/id-mapper-col.c.o [ 30%] Building C object tools/external/sra-pileup/CMakeFiles/sam-dump.dir/inputfiles.c.o make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/id-mapper-col.c.o -MF CMakeFiles/sra-sort.dir/id-mapper-col.c.o.d -o CMakeFiles/sra-sort.dir/id-mapper-col.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/sra-sort/id-mapper-col.c make -f tools/external/vdb-dump/CMakeFiles/vdb-dump.dir/build.make tools/external/vdb-dump/CMakeFiles/vdb-dump.dir/build cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sam-dump.dir/inputfiles.c.o -MF CMakeFiles/sam-dump.dir/inputfiles.c.o.d -o CMakeFiles/sam-dump.dir/inputfiles.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/sra-pileup/inputfiles.c [ 30%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/capture-first-half-aligned.c.o make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/capture-first-half-aligned.c.o -MF CMakeFiles/sra-sort.dir/capture-first-half-aligned.c.o.d -o CMakeFiles/sra-sort.dir/capture-first-half-aligned.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/sra-sort/capture-first-half-aligned.c [ 30%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/poslen-col-pair.c.o [ 30%] Building C object tools/external/sra-pileup/CMakeFiles/sam-dump.dir/perf_log.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux 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-I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/poslen-col-pair.c.o -MF CMakeFiles/sra-sort-cg.dir/poslen-col-pair.c.o.d -o CMakeFiles/sra-sort-cg.dir/poslen-col-pair.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/sra-sort/poslen-col-pair.c [ 30%] Building C object tools/external/vdb-dump/CMakeFiles/vdb-dump.dir/vdb-dump-context.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-dump/CMakeFiles/vdb-dump.dir/vdb-dump-context.c.o -MF CMakeFiles/vdb-dump.dir/vdb-dump-context.c.o.d -o CMakeFiles/vdb-dump.dir/vdb-dump-context.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/vdb-dump/vdb-dump-context.c [ 30%] Building C object tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_std_dlg.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"libs/tui\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/vdb-config/tui/.. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 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../../../bin/kdbmeta /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm -lmbedx509 -lmbedtls -lmbedcrypto cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && rm -f kdbmeta.3.2.1 [ 30%] Building C object tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_widget.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"libs/tui\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/vdb-config/tui/.. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_widget.c.o -MF CMakeFiles/tui.dir/tui_widget.c.o.d -o CMakeFiles/tui.dir/tui_widget.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/vdb-config/tui/tui_widget.c cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && mv kdbmeta kdbmeta.3.2.1 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s kdbmeta.3.2.1 kdbmeta.3 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s kdbmeta.3 kdbmeta [ 31%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/run.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/run.c.o -MF CMakeFiles/sra-sort.dir/run.c.o.d -o CMakeFiles/sra-sort.dir/run.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/sra-sort/run.c make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/ngs-makedb.dir/link.d "CMakeFiles/ngs-makedb.dir/ngstest_makedb.cpp.o" -o ../../../test-bin/ngs-makedb -Wl,-Bstatic -lktst -lkapp -Wl,-Bdynamic /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm -lmbedx509 -lmbedtls -lmbedcrypto make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 32%] Building C object tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/out_redir.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/out_redir.c.o -MF CMakeFiles/sra-pileup.dir/out_redir.c.o.d -o CMakeFiles/sra-pileup.dir/out_redir.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/sra-pileup/out_redir.c [ 32%] Built target kdbmeta make -f tools/external/vdb-validate/CMakeFiles/vdb-validate.dir/build.make tools/external/vdb-validate/CMakeFiles/vdb-validate.dir/depend [ 32%] Building C object tools/external/vdb-dump/CMakeFiles/vdb-dump.dir/vdb-dump-coldefs.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 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/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && rm -f kar+.3.2.1 [ 32%] Built target ngs-makedb [ 32%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/ref-alignid-col.c.o make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/vdb-validate /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-validate /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-validate/CMakeFiles/vdb-validate.dir/DependInfo.cmake "--color=" cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/ref-alignid-col.c.o -MF CMakeFiles/sra-sort-cg.dir/ref-alignid-col.c.o.d -o CMakeFiles/sra-sort-cg.dir/ref-alignid-col.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/sra-sort/ref-alignid-col.c make -f tools/external/vdb-validate/CMakeFiles/check-corrupt.dir/build.make tools/external/vdb-validate/CMakeFiles/check-corrupt.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/vdb-validate /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-validate /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-validate/CMakeFiles/check-corrupt.dir/DependInfo.cmake "--color=" cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && mv kar+ kar+.3.2.1 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s kar+.3.2.1 kar+.3 [ 32%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/sra-sort.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/sra-sort.c.o -MF CMakeFiles/sra-sort.dir/sra-sort.c.o.d -o CMakeFiles/sra-sort.dir/sra-sort.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/sra-sort/sra-sort.c [ 32%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/xcheck-ref-align.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function 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make -f tools/external/vdb-validate/CMakeFiles/check-corrupt.dir/build.make tools/external/vdb-validate/CMakeFiles/check-corrupt.dir/build cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sam-dump.dir/rna_splice_log.c.o -MF CMakeFiles/sam-dump.dir/rna_splice_log.c.o.d -o CMakeFiles/sam-dump.dir/rna_splice_log.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/sra-pileup/rna_splice_log.c make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/buff-writer.c.o -MF CMakeFiles/sra-sort-cg.dir/buff-writer.c.o.d -o CMakeFiles/sra-sort-cg.dir/buff-writer.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/sra-sort/buff-writer.c cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/csra-tbl.c.o -MF CMakeFiles/sra-sort.dir/csra-tbl.c.o.d -o CMakeFiles/sra-sort.dir/csra-tbl.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/sra-sort/csra-tbl.c make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 32%] Building C object tools/external/vdb-validate/CMakeFiles/vdb-validate.dir/main.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-validate && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-validate\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-validate/CMakeFiles/vdb-validate.dir/main.c.o -MF CMakeFiles/vdb-validate.dir/main.c.o.d -o CMakeFiles/vdb-validate.dir/main.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/vdb-validate/main.c [ 32%] Building CXX object tools/external/vdb-validate/CMakeFiles/check-corrupt.dir/check-corrupt.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-validate && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-validate\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT tools/external/vdb-validate/CMakeFiles/check-corrupt.dir/check-corrupt.cpp.o -MF CMakeFiles/check-corrupt.dir/check-corrupt.cpp.o.d -o CMakeFiles/check-corrupt.dir/check-corrupt.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/vdb-validate/check-corrupt.cpp [ 32%] Building C object tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/perf_log.c.o [ 32%] Built target kar+ cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/perf_log.c.o -MF CMakeFiles/sra-pileup.dir/perf_log.c.o.d -o CMakeFiles/sra-pileup.dir/perf_log.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/sra-pileup/perf_log.c make -f tools/external/vdb-decrypt/CMakeFiles/vdb-decrypt.dir/build.make tools/external/vdb-decrypt/CMakeFiles/vdb-decrypt.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/vdb-decrypt /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-decrypt /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-decrypt/CMakeFiles/vdb-decrypt.dir/DependInfo.cmake "--color=" [ 32%] Building C object tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/reref.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/reref.c.o -MF CMakeFiles/sra-pileup.dir/reref.c.o.d 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-g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-dump/CMakeFiles/sff-dump.dir/core.c.o -MF CMakeFiles/sff-dump.dir/core.c.o.d -o CMakeFiles/sff-dump.dir/core.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/sra-dump/core.c [ 32%] Linking CXX static library ../../../../ilib/libtui_cpp.a [ 32%] Building C object tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_widget_button.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui && /usr/bin/cmake -P CMakeFiles/tui_cpp.dir/cmake_clean_target.cmake cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"libs/tui\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/vdb-config/tui/.. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_widget_button.c.o -MF CMakeFiles/tui.dir/tui_widget_button.c.o.d -o CMakeFiles/tui.dir/tui_widget_button.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/vdb-config/tui/tui_widget_button.c [ 32%] Building C object tools/external/vdb-decrypt/CMakeFiles/vdb-decrypt.dir/vdb-decrypt.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-decrypt && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-decrypt\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-decrypt/CMakeFiles/vdb-decrypt.dir/vdb-decrypt.c.o -MF CMakeFiles/vdb-decrypt.dir/vdb-decrypt.c.o.d -o CMakeFiles/vdb-decrypt.dir/vdb-decrypt.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/vdb-decrypt/vdb-decrypt.c cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui && /usr/bin/cmake -E cmake_link_script CMakeFiles/tui_cpp.dir/link.txt --verbose=1 [ 32%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/id-mapper-col.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/id-mapper-col.c.o -MF CMakeFiles/sra-sort-cg.dir/id-mapper-col.c.o.d -o CMakeFiles/sra-sort-cg.dir/id-mapper-col.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/sra-sort/id-mapper-col.c [ 32%] Building C object tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_widget_checkbox.c.o [ 32%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/csra-pair.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/csra-pair.c.o -MF CMakeFiles/sra-sort.dir/csra-pair.c.o.d -o CMakeFiles/sra-sort.dir/csra-pair.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/sra-sort/csra-pair.c cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"libs/tui\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/vdb-config/tui/.. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_widget_checkbox.c.o -MF CMakeFiles/tui.dir/tui_widget_checkbox.c.o.d -o CMakeFiles/tui.dir/tui_widget_checkbox.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/vdb-config/tui/tui_widget_checkbox.c [ 32%] Building C object tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/cg_tools.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/cg_tools.c.o -MF CMakeFiles/sra-pileup.dir/cg_tools.c.o.d -o CMakeFiles/sra-pileup.dir/cg_tools.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/sra-pileup/cg_tools.c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/sra-dump/core.c: In function 'KMain': /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/sra-dump/core.c:1011:23: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 1011 | ReportBuildDate ( __DATE__ ); | ^~~~~~~~ [ 33%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/capture-first-half-aligned.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/capture-first-half-aligned.c.o -MF CMakeFiles/sra-sort-cg.dir/capture-first-half-aligned.c.o.d -o CMakeFiles/sra-sort-cg.dir/capture-first-half-aligned.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/sra-sort/capture-first-half-aligned.c [ 33%] Building C object tools/external/sra-pileup/CMakeFiles/sam-dump.dir/sam-dump-opts.c.o [ 33%] Building C object tools/external/vdb-decrypt/CMakeFiles/vdb-decrypt.dir/shared.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sam-dump.dir/sam-dump-opts.c.o -MF CMakeFiles/sam-dump.dir/sam-dump-opts.c.o.d -o CMakeFiles/sam-dump.dir/sam-dump-opts.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/sra-pileup/sam-dump-opts.c [ 33%] Building C object tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/report_deletes.c.o [ 33%] Linking CXX executable ../../../bin/illumina-dump cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-decrypt && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-decrypt\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-decrypt/CMakeFiles/vdb-decrypt.dir/shared.c.o -MF CMakeFiles/vdb-decrypt.dir/shared.c.o.d -o CMakeFiles/vdb-decrypt.dir/shared.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/vdb-decrypt/shared.c cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/report_deletes.c.o -MF CMakeFiles/sra-pileup.dir/report_deletes.c.o.d -o CMakeFiles/sra-pileup.dir/report_deletes.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/sra-pileup/report_deletes.c cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/sra-dump && /usr/bin/cmake -E cmake_link_script CMakeFiles/illumina-dump.dir/link.txt --verbose=1 /usr/bin/ar qc ../../../../ilib/libtui_cpp.a CMakeFiles/tui_cpp.dir/tui_cpp.cpp.o /usr/bin/ranlib ../../../../ilib/libtui_cpp.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 33%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/run.c.o [ 33%] Building C object tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/ref_regions.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/run.c.o -MF CMakeFiles/sra-sort-cg.dir/run.c.o.d -o CMakeFiles/sra-sort-cg.dir/run.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/sra-sort/run.c cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/ref_regions.c.o -MF CMakeFiles/sra-pileup.dir/ref_regions.c.o.d -o CMakeFiles/sra-pileup.dir/ref_regions.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/sra-pileup/ref_regions.c [ 34%] Building C object tools/external/vdb-dump/CMakeFiles/vdb-dump.dir/vdb-dump-tools.c.o [ 34%] Building C object tools/external/sra-dump/CMakeFiles/abi-dump.dir/fasta_dump.c.o [ 34%] Built target tui_cpp [ 34%] Linking C static library ../../../ilib/libfastqloader.a cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/fastq-loader && /usr/bin/cmake -P CMakeFiles/fastqloader.dir/cmake_clean_target.cmake make -f tools/external/vdb-decrypt/CMakeFiles/vdb-encrypt.dir/build.make tools/external/vdb-decrypt/CMakeFiles/vdb-encrypt.dir/depend cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/CMakeFiles/ngs-java.dir && /usr/bin/cmake -D_JAVA_TARGET_DIR=/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/lib -D_JAVA_TARGET_OUTPUT_NAME=ngs-java.jar -D_JAVA_TARGET_OUTPUT_LINK= -P /usr/share/cmake-3.31/Modules/UseJava/Symlinks.cmake cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/sra-dump && /usr/bin/cc -DLINUX 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/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/vdb-dump/vdb-dump-tools.c make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/vdb-decrypt /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-decrypt /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-decrypt/CMakeFiles/vdb-encrypt.dir/DependInfo.cmake "--color=" cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/fastq-loader && /usr/bin/cmake -E cmake_link_script CMakeFiles/fastqloader.dir/link.txt --verbose=1 [ 34%] Linking C static library ../../ilib/libksrch.a cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/libs/search && /usr/bin/cmake -P CMakeFiles/ksrch.dir/cmake_clean_target.cmake make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 35%] Building C object tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_widget_grid.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"libs/tui\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/vdb-config/tui/.. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_widget_grid.c.o -MF CMakeFiles/tui.dir/tui_widget_grid.c.o.d -o CMakeFiles/tui.dir/tui_widget_grid.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/vdb-config/tui/tui_widget_grid.c [ 35%] Building C object tools/external/vdb-validate/CMakeFiles/vdb-validate.dir/vdb-validate.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-validate && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-validate\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-validate/CMakeFiles/vdb-validate.dir/vdb-validate.c.o -MF CMakeFiles/vdb-validate.dir/vdb-validate.c.o.d -o CMakeFiles/vdb-validate.dir/vdb-validate.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/vdb-validate/vdb-validate.c [ 35%] Building C object tools/external/sra-pileup/CMakeFiles/sam-dump.dir/out_redir.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sam-dump.dir/out_redir.c.o -MF CMakeFiles/sam-dump.dir/out_redir.c.o.d -o CMakeFiles/sam-dump.dir/out_redir.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/sra-pileup/out_redir.c cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/libs/search && /usr/bin/cmake -E cmake_link_script CMakeFiles/ksrch.dir/link.txt --verbose=1 make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f tools/external/vdb-decrypt/CMakeFiles/vdb-encrypt.dir/build.make tools/external/vdb-decrypt/CMakeFiles/vdb-encrypt.dir/build [ 35%] Built target ngs-java [ 35%] Building C object tools/external/sra-dump/CMakeFiles/abi-dump.dir/core.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/sra-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-dump/CMakeFiles/abi-dump.dir/core.c.o -MF CMakeFiles/abi-dump.dir/core.c.o.d -o CMakeFiles/abi-dump.dir/core.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/sra-dump/core.c make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f tools/external/srapath/CMakeFiles/srapath.dir/build.make tools/external/srapath/CMakeFiles/srapath.dir/depend [ 35%] Building C object tools/external/vdb-validate/CMakeFiles/vdb-validate.dir/check-redact.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-validate && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-validate\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-validate/CMakeFiles/vdb-validate.dir/check-redact.c.o -MF CMakeFiles/vdb-validate.dir/check-redact.c.o.d -o CMakeFiles/vdb-validate.dir/check-redact.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/vdb-validate/check-redact.c [ 35%] Building C object tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_widget_inputline.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"libs/tui\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/vdb-config/tui/.. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_widget_inputline.c.o -MF CMakeFiles/tui.dir/tui_widget_inputline.c.o.d -o CMakeFiles/tui.dir/tui_widget_inputline.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/vdb-config/tui/tui_widget_inputline.c [ 35%] Building C object tools/external/vdb-decrypt/CMakeFiles/vdb-encrypt.dir/vdb-encrypt.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-decrypt && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-decrypt\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-decrypt/CMakeFiles/vdb-encrypt.dir/vdb-encrypt.c.o -MF CMakeFiles/vdb-encrypt.dir/vdb-encrypt.c.o.d -o CMakeFiles/vdb-encrypt.dir/vdb-encrypt.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/vdb-decrypt/vdb-encrypt.c make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/srapath /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/srapath /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/srapath/CMakeFiles/srapath.dir/DependInfo.cmake "--color=" /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/illumina-dump.dir/link.d "CMakeFiles/illumina-dump.dir/factory.c.o" "CMakeFiles/illumina-dump.dir/fasta_dump.c.o" "CMakeFiles/illumina-dump.dir/core.c.o" "CMakeFiles/illumina-dump.dir/illumina.c.o" -o ../../../bin/illumina-dump /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -lmbedx509 -lmbedtls -lmbedcrypto make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && rm -f illumina-dump.3.2.1 make -f tools/external/srapath/CMakeFiles/srapath.dir/build.make tools/external/srapath/CMakeFiles/srapath.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && mv illumina-dump illumina-dump.3.2.1 [ 35%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/sra-sort.c.o [ 35%] Building C object tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_widget_label.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"libs/tui\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/vdb-config/tui/.. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API 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-D__mod__=\"tools/srapath\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/srapath/CMakeFiles/srapath.dir/helper.c.o -MF CMakeFiles/srapath.dir/helper.c.o.d -o CMakeFiles/srapath.dir/helper.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/srapath/helper.c cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/4na_ascii.c.o -MF CMakeFiles/sra-pileup.dir/4na_ascii.c.o.d -o CMakeFiles/sra-pileup.dir/4na_ascii.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/sra-pileup/4na_ascii.c make -f tools/external/sra-stat/CMakeFiles/sra-stat.dir/build.make tools/external/sra-stat/CMakeFiles/sra-stat.dir/depend cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/sra-sort.c.o -MF 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illumina-dump.3 illumina-dump /usr/bin/ar qc ../../../ilib/libfastqloader.a "CMakeFiles/fastqloader.dir/spot-assembler.c.o" "CMakeFiles/fastqloader.dir/common-writer.c.o" "CMakeFiles/fastqloader.dir/sequence-writer.c.o" "CMakeFiles/fastqloader.dir/common-reader.c.o" "CMakeFiles/fastqloader.dir/fastq-reader.c.o" "CMakeFiles/fastqloader.dir/zz_fastq-grammar.c.o" "CMakeFiles/fastqloader.dir/zz_fastq-lex.c.o" CMakeFiles/fastqloader.dir/id2name.c.o /usr/bin/ranlib ../../../ilib/libfastqloader.a cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/xcheck-ref-align.c.o -MF CMakeFiles/sra-sort-cg.dir/xcheck-ref-align.c.o.d -o CMakeFiles/sra-sort-cg.dir/xcheck-ref-align.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/sra-sort/xcheck-ref-align.c make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/sra-dump/core.c: In function 'KMain': /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/sra-dump/core.c:1011:23: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 1011 | ReportBuildDate ( __DATE__ ); | ^~~~~~~~ make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 36%] Building C object tools/external/sra-dump/CMakeFiles/abi-dump.dir/abi.c.o [ 36%] Building C object tools/external/sra-pileup/CMakeFiles/sam-dump.dir/sam-hdr.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/sra-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-dump/CMakeFiles/abi-dump.dir/abi.c.o -MF CMakeFiles/abi-dump.dir/abi.c.o.d -o CMakeFiles/abi-dump.dir/abi.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/sra-dump/abi.c [ 36%] Building C object tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/ref_walker_0.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sam-dump.dir/sam-hdr.c.o -MF CMakeFiles/sam-dump.dir/sam-hdr.c.o.d -o CMakeFiles/sam-dump.dir/sam-hdr.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/sra-pileup/sam-hdr.c cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/ref_walker_0.c.o -MF CMakeFiles/sra-pileup.dir/ref_walker_0.c.o.d -o CMakeFiles/sra-pileup.dir/ref_walker_0.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/sra-pileup/ref_walker_0.c [ 36%] Building C object tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/ref_walker.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/ref_walker.c.o -MF CMakeFiles/sra-pileup.dir/ref_walker.c.o.d -o CMakeFiles/sra-pileup.dir/ref_walker.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/sra-pileup/ref_walker.c make -f tools/external/sra-stat/CMakeFiles/sra-stat.dir/build.make tools/external/sra-stat/CMakeFiles/sra-stat.dir/build [ 36%] Built target fastqloader /usr/bin/ar qc ../../ilib/libksrch.a "CMakeFiles/ksrch.dir/agrep-dp.c.o" "CMakeFiles/ksrch.dir/agrep-myers.c.o" "CMakeFiles/ksrch.dir/agrep-myersunltd.c.o" "CMakeFiles/ksrch.dir/agrep-wumanber.c.o" "CMakeFiles/ksrch.dir/fgrep-aho.c.o" "CMakeFiles/ksrch.dir/fgrep-boyermoore.c.o" "CMakeFiles/ksrch.dir/fgrep-dumb.c.o" CMakeFiles/ksrch.dir/nucstrstr.c.o CMakeFiles/ksrch.dir/search.c.o "CMakeFiles/ksrch.dir/sw-search.c.o" /usr/bin/ranlib ../../ilib/libksrch.a make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f tools/external/rcexplain/CMakeFiles/rcexplain.dir/build.make tools/external/rcexplain/CMakeFiles/rcexplain.dir/depend make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg 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tools/external/align-info/CMakeFiles/align-info.dir/depend cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/sra-stat && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-stat\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-stat/CMakeFiles/sra-stat.dir/assembly-statistics.c.o -MF CMakeFiles/sra-stat.dir/assembly-statistics.c.o.d -o 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tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_widget_radiobox.c.o [ 36%] Building C object tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/walk_debug.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT 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-fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_widget_radiobox.c.o -MF CMakeFiles/tui.dir/tui_widget_radiobox.c.o.d -o CMakeFiles/tui.dir/tui_widget_radiobox.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/vdb-config/tui/tui_widget_radiobox.c [ 36%] Building C object tools/external/rcexplain/CMakeFiles/rcexplain.dir/rcexplain.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/rcexplain && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/util\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/rcexplain/CMakeFiles/rcexplain.dir/rcexplain.c.o -MF CMakeFiles/rcexplain.dir/rcexplain.c.o.d -o CMakeFiles/rcexplain.dir/rcexplain.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/rcexplain/rcexplain.c make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f tools/external/align-info/CMakeFiles/align-info.dir/build.make tools/external/align-info/CMakeFiles/align-info.dir/build [ 36%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/csra-tbl.c.o make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd 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-c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/sra-sort/csra-tbl.c [ 36%] Building C object tools/external/align-info/CMakeFiles/align-info.dir/align-info.c.o [ 36%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/csra-pair.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/csra-pair.c.o -MF CMakeFiles/sra-sort-cg.dir/csra-pair.c.o.d -o CMakeFiles/sra-sort-cg.dir/csra-pair.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/sra-sort/csra-pair.c cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/align-info && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/align-info\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/align-info/CMakeFiles/align-info.dir/align-info.c.o -MF CMakeFiles/align-info.dir/align-info.c.o.d -o CMakeFiles/align-info.dir/align-info.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/align-info/align-info.c [ 37%] Building C object tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/pileup_counters.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/pileup_counters.c.o -MF CMakeFiles/sra-pileup.dir/pileup_counters.c.o.d -o CMakeFiles/sra-pileup.dir/pileup_counters.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/sra-pileup/pileup_counters.c [ 38%] Building C object tools/external/sra-dump/CMakeFiles/fastq-dump.dir/fastq.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/sra-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-dump/CMakeFiles/fastq-dump.dir/fastq.c.o -MF CMakeFiles/fastq-dump.dir/fastq.c.o.d -o CMakeFiles/fastq-dump.dir/fastq.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/sra-dump/fastq.c [ 38%] Building C object tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_widget_spin_edit.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"libs/tui\" -Dx86_64 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tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/pileup_index.c.o [ 38%] Building C object tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_widget_string_list.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"libs/tui\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/vdb-config/tui/.. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API 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-fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/pileup_index.c.o -MF CMakeFiles/sra-pileup.dir/pileup_index.c.o.d -o CMakeFiles/sra-pileup.dir/pileup_index.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/sra-pileup/pileup_index.c [ 38%] Building C object tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/pileup_indels.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/pileup_indels.c.o -MF CMakeFiles/sra-pileup.dir/pileup_indels.c.o.d -o CMakeFiles/sra-pileup.dir/pileup_indels.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/sra-pileup/pileup_indels.c [ 38%] Building C object tools/external/srapath/CMakeFiles/srapath.dir/line_iter.c.o [ 38%] Building C object tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/pileup_varcount.c.o [ 38%] Building C object tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/pileup_stat.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/srapath && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/srapath\" 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-D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/pileup_varcount.c.o -MF CMakeFiles/sra-pileup.dir/pileup_varcount.c.o.d -o CMakeFiles/sra-pileup.dir/pileup_varcount.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/sra-pileup/pileup_varcount.c [ 38%] Building C object tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_widget_tabhdr.c.o cd 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tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_widget_tabhdr.c.o -MF CMakeFiles/tui.dir/tui_widget_tabhdr.c.o.d -o CMakeFiles/tui.dir/tui_widget_tabhdr.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/vdb-config/tui/tui_widget_tabhdr.c [ 39%] Linking C static library ../../ilib/libdiagnose.a cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/libs/diagnose && /usr/bin/cmake -P CMakeFiles/diagnose.dir/cmake_clean_target.cmake [ 39%] Building C object tools/external/vdb-decrypt/CMakeFiles/vdb-encrypt.dir/shared.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-decrypt && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-decrypt\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-decrypt/CMakeFiles/vdb-encrypt.dir/shared.c.o -MF CMakeFiles/vdb-encrypt.dir/shared.c.o.d -o CMakeFiles/vdb-encrypt.dir/shared.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/vdb-decrypt/shared.c cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/libs/diagnose && /usr/bin/cmake -E cmake_link_script CMakeFiles/diagnose.dir/link.txt --verbose=1 [ 39%] Building C object tools/external/srapath/CMakeFiles/srapath.dir/repository-mgr.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/srapath && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX 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../../../bin/vdb-decrypt cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-decrypt && /usr/bin/cmake -E cmake_link_script CMakeFiles/vdb-decrypt.dir/link.txt --verbose=1 [ 39%] Building C object tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/sra-pileup.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/rcexplain && /usr/bin/cmake -E cmake_link_script CMakeFiles/rcexplain.dir/link.txt --verbose=1 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/sra-pileup.c.o -MF CMakeFiles/sra-pileup.dir/sra-pileup.c.o.d -o CMakeFiles/sra-pileup.dir/sra-pileup.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/sra-pileup/sra-pileup.c [ 39%] Building C object tools/external/vdb-dump/CMakeFiles/vdb-dump.dir/vdb-dump-str.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-dump/CMakeFiles/vdb-dump.dir/vdb-dump-str.c.o -MF CMakeFiles/vdb-dump.dir/vdb-dump-str.c.o.d -o CMakeFiles/vdb-dump.dir/vdb-dump-str.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/vdb-dump/vdb-dump-str.c [ 39%] Building C object tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/pileup_v2.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/pileup_v2.c.o -MF CMakeFiles/sra-pileup.dir/pileup_v2.c.o.d -o CMakeFiles/sra-pileup.dir/pileup_v2.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/sra-pileup/pileup_v2.c [ 39%] Building C object tools/external/vdb-config/tui/CMakeFiles/tui.dir/linux/systui.c.o cd 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CMakeFiles/tui.dir/linux/systui.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/vdb-config/tui/linux/systui.c [ 39%] Building C object tools/external/sra-stat/CMakeFiles/sra-stat.dir/sra.c.o [ 39%] Linking CXX executable ../../../bin/samview cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/bam-loader && /usr/bin/cmake -E cmake_link_script CMakeFiles/samview.dir/link.txt --verbose=1 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/sra-stat && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-stat\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-stat/CMakeFiles/sra-stat.dir/sra.c.o -MF CMakeFiles/sra-stat.dir/sra.c.o.d -o CMakeFiles/sra-stat.dir/sra.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/sra-stat/sra.c make -f tools/external/cache-mgr/CMakeFiles/cache-mgr.dir/build.make tools/external/cache-mgr/CMakeFiles/cache-mgr.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/cache-mgr /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu 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/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/srapath/services.c make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/sra-sort.dir/link.d "CMakeFiles/sra-sort.dir/caps.c.o" "CMakeFiles/sra-sort.dir/mem.c.o" "CMakeFiles/sra-sort.dir/membank.c.o" "CMakeFiles/sra-sort.dir/paged-membank.c.o" "CMakeFiles/sra-sort.dir/paged-mmapbank.c.o" "CMakeFiles/sra-sort.dir/except.c.o" "CMakeFiles/sra-sort.dir/idx-mapping.c.o" "CMakeFiles/sra-sort.dir/map-file.c.o" "CMakeFiles/sra-sort.dir/col-pair.c.o" "CMakeFiles/sra-sort.dir/row-set.c.o" "CMakeFiles/sra-sort.dir/simple-row-set.c.o" "CMakeFiles/sra-sort.dir/mapping-row-set.c.o" "CMakeFiles/sra-sort.dir/sorting-row-set.c.o" "CMakeFiles/sra-sort.dir/meta-pair.c.o" "CMakeFiles/sra-sort.dir/dir-pair.c.o" "CMakeFiles/sra-sort.dir/tbl-pair.c.o" "CMakeFiles/sra-sort.dir/db-pair.c.o" "CMakeFiles/sra-sort.dir/glob-poslen.c.o" "CMakeFiles/sra-sort.dir/poslen-col-pair.c.o" "CMakeFiles/sra-sort.dir/ref-alignid-col.c.o" "CMakeFiles/sra-sort.dir/buff-writer.c.o" "CMakeFiles/sra-sort.dir/id-mapper-col.c.o" "CMakeFiles/sra-sort.dir/capture-first-half-aligned.c.o" "CMakeFiles/sra-sort.dir/run.c.o" "CMakeFiles/sra-sort.dir/sra-sort.c.o" "CMakeFiles/sra-sort.dir/xcheck-ref-align.c.o" "CMakeFiles/sra-sort.dir/csra-tbl.c.o" "CMakeFiles/sra-sort.dir/csra-pair.c.o" -o ../../../bin/sra-sort /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm -lmbedx509 -lmbedtls -lmbedcrypto -lbz2 -llzma cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && rm -f sra-sort.3.2.1 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/srapath && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/srapath\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/srapath/CMakeFiles/srapath.dir/cgi_request.c.o -MF CMakeFiles/srapath.dir/cgi_request.c.o.d -o CMakeFiles/srapath.dir/cgi_request.c.o -c 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/usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/srapath\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/srapath/CMakeFiles/srapath.dir/srapath.c.o -MF CMakeFiles/srapath.dir/srapath.c.o.d -o CMakeFiles/srapath.dir/srapath.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/srapath/srapath.c cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sra-sort.3 sra-sort cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-dump/CMakeFiles/vdb-dump.dir/vdb-dump-helper.c.o -MF CMakeFiles/vdb-dump.dir/vdb-dump-helper.c.o.d -o CMakeFiles/vdb-dump.dir/vdb-dump-helper.c.o -c 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-I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-dump/CMakeFiles/vdb-dump.dir/vdb-dump-formats.c.o -MF CMakeFiles/vdb-dump.dir/vdb-dump-formats.c.o.d -o CMakeFiles/vdb-dump.dir/vdb-dump-formats.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/vdb-dump/vdb-dump-formats.c [ 39%] Building C object tools/external/sra-dump/CMakeFiles/sff-dump.dir/sff.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/sra-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-dump/CMakeFiles/sff-dump.dir/sff.c.o -MF CMakeFiles/sff-dump.dir/sff.c.o.d -o CMakeFiles/sff-dump.dir/sff.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/sra-dump/sff.c [ 39%] Building C object tools/external/cache-mgr/CMakeFiles/cache-mgr.dir/cache-mgr.c.o make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/driver-tool /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/driver-tool /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/driver-tool/CMakeFiles/sratools.dir/DependInfo.cmake "--color=" cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/cache-mgr && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/cache-mgr\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/cache-mgr/CMakeFiles/cache-mgr.dir/cache-mgr.c.o -MF CMakeFiles/cache-mgr.dir/cache-mgr.c.o.d -o CMakeFiles/cache-mgr.dir/cache-mgr.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/cache-mgr/cache-mgr.c /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/rcexplain.dir/link.d CMakeFiles/rcexplain.dir/rcexplain.c.o -o ../../../bin/rcexplain /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -lmbedx509 -lmbedtls -lmbedcrypto cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && rm -f rcexplain.3.2.1 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && mv rcexplain rcexplain.3.2.1 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s rcexplain.3.2.1 rcexplain.3 [ 39%] Built target sra-sort make -f tools/external/sra-info/CMakeFiles/sra-info.dir/build.make tools/external/sra-info/CMakeFiles/sra-info.dir/depend cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s rcexplain.3 rcexplain [ 39%] Building C object tools/external/vdb-dump/CMakeFiles/vdb-dump.dir/vdb-dump-redir.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-dump/CMakeFiles/vdb-dump.dir/vdb-dump-redir.c.o -MF CMakeFiles/vdb-dump.dir/vdb-dump-redir.c.o.d -o CMakeFiles/vdb-dump.dir/vdb-dump-redir.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/vdb-dump/vdb-dump-redir.c make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/sra-info /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/sra-info /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/sra-info/CMakeFiles/sra-info.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f tools/internal/align-cache/CMakeFiles/align-cache.dir/build.make tools/internal/align-cache/CMakeFiles/align-cache.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/internal/align-cache /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/internal/align-cache /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/internal/align-cache/CMakeFiles/align-cache.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f tools/external/driver-tool/CMakeFiles/sratools.dir/build.make tools/external/driver-tool/CMakeFiles/sratools.dir/build /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/samview.dir/link.d CMakeFiles/samview.dir/bam.c.o CMakeFiles/samview.dir/sam.c.o CMakeFiles/samview.dir/samview.c.o -o ../../../bin/samview /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -lmbedx509 -lmbedtls -lmbedcrypto -lz cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && rm -f samview.3.2.1 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && mv samview samview.3.2.1 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s samview.3.2.1 samview.3 make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f tools/internal/align-cache/CMakeFiles/align-cache.dir/build.make tools/internal/align-cache/CMakeFiles/align-cache.dir/build cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s samview.3 samview /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/sra-stat/sra-stat.c: In function 'print_results': /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/sra-stat/sra-stat.c:3263:22: warning: unused variable 'rc_fmt' [-Wunused-variable] 3263 | rc_t rc_fmt = formatLoadTime(ctx->info->loadTimestamp, buf, sizeof(buf), &sz); | ^~~~~~ [ 39%] Built target rcexplain make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 39%] Building CXX object tools/external/driver-tool/CMakeFiles/sratools.dir/sratools.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/driver-tool && /usr/bin/c++ -DBUILD_PATH=\"/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin\" -DLINUX -DNDEBUG -DPREFIX_PATH=\"\" -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/driver-tool\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT tools/external/driver-tool/CMakeFiles/sratools.dir/sratools.cpp.o -MF CMakeFiles/sratools.dir/sratools.cpp.o.d -o CMakeFiles/sratools.dir/sratools.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/driver-tool/sratools.cpp [ 40%] Building C object tools/external/vdb-dump/CMakeFiles/vdb-dump.dir/vdb-dump-fastq.c.o [ 40%] Building C object tools/external/sra-pileup/CMakeFiles/sam-dump.dir/sam-aligned.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sam-dump.dir/sam-aligned.c.o -MF CMakeFiles/sam-dump.dir/sam-aligned.c.o.d -o CMakeFiles/sam-dump.dir/sam-aligned.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/sra-pileup/sam-aligned.c cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-dump/CMakeFiles/vdb-dump.dir/vdb-dump-fastq.c.o -MF CMakeFiles/vdb-dump.dir/vdb-dump-fastq.c.o.d -o CMakeFiles/vdb-dump.dir/vdb-dump-fastq.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/vdb-dump/vdb-dump-fastq.c make -f tools/external/sra-info/CMakeFiles/sra-info.dir/build.make tools/external/sra-info/CMakeFiles/sra-info.dir/build /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/cache-mgr/cache-mgr.c: In function 'perform_report': /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/cache-mgr/cache-mgr.c:702:16: warning: storing the address of local variable 'data' in '*octx.data' [-Wdangling-pointer=] 702 | octx->data = &data; | ~~~~~~~~~~~^~~~~~~ /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/cache-mgr/cache-mgr.c:699:17: note: 'data' declared here 699 | report_data data; | ^~~~ /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/cache-mgr/cache-mgr.c:696:41: note: 'octx' declared here 696 | static rc_t perform_report( visit_ctx * octx ) | ~~~~~~~~~~~~^~~~ /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/cache-mgr/cache-mgr.c: In function 'perform_unlock': /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/cache-mgr/cache-mgr.c:905:16: warning: storing the address of local variable 'data' in '*octx.data' [-Wdangling-pointer=] 905 | octx->data = &data; | ~~~~~~~~~~~^~~~~~~ make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/cache-mgr/cache-mgr.c:902:17: note: 'data' declared here 902 | unlock_data data; | ^~~~ make -f tools/internal/ccextract/CMakeFiles/ccextract.dir/build.make tools/internal/ccextract/CMakeFiles/ccextract.dir/depend /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/cache-mgr/cache-mgr.c:899:41: note: 'octx' declared here 899 | static rc_t perform_unlock( visit_ctx * octx ) | ~~~~~~~~~~~~^~~~ /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/cache-mgr/cache-mgr.c: In function 'perform_clear': /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/cache-mgr/cache-mgr.c:990:16: warning: storing the address of local variable 'data' in '*octx.data' [-Wdangling-pointer=] 990 | octx->data = &data; | ~~~~~~~~~~~^~~~~~~ /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/cache-mgr/cache-mgr.c:987:16: note: 'data' declared here 987 | clear_data data; | ^~~~ [ 40%] Linking CXX executable ../../../bin/sra-sort-cg /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/cache-mgr/cache-mgr.c:984:40: note: 'octx' declared here 984 | static rc_t perform_clear( visit_ctx * octx ) | ~~~~~~~~~~~~^~~~ [ 40%] Building CXX object tools/internal/align-cache/CMakeFiles/align-cache.dir/align-cache.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cmake -E cmake_link_script CMakeFiles/sra-sort-cg.dir/link.txt --verbose=1 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/internal/align-cache && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/internal/align-cache\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT tools/internal/align-cache/CMakeFiles/align-cache.dir/align-cache.cpp.o -MF CMakeFiles/align-cache.dir/align-cache.cpp.o.d -o CMakeFiles/align-cache.dir/align-cache.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/internal/align-cache/align-cache.cpp make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/internal/ccextract /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/internal/ccextract /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/internal/ccextract/CMakeFiles/ccextract.dir/DependInfo.cmake "--color=" make -f tools/internal/check-redact/CMakeFiles/check-redact.dir/build.make tools/internal/check-redact/CMakeFiles/check-redact.dir/depend [ 40%] Built target samview [ 40%] Building C object tools/external/sra-pileup/CMakeFiles/sam-dump.dir/sam-unaligned.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sam-dump.dir/sam-unaligned.c.o -MF CMakeFiles/sam-dump.dir/sam-unaligned.c.o.d -o CMakeFiles/sam-dump.dir/sam-unaligned.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/sra-pileup/sam-unaligned.c make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/internal/check-redact /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/internal/check-redact /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/internal/check-redact/CMakeFiles/check-redact.dir/DependInfo.cmake "--color=" make -f tools/internal/compute-coverage/CMakeFiles/compute-coverage.dir/build.make tools/internal/compute-coverage/CMakeFiles/compute-coverage.dir/depend [ 40%] Building CXX object tools/internal/align-cache/CMakeFiles/align-cache.dir/helper.cpp.o [ 40%] Building CXX object tools/external/sra-info/CMakeFiles/sra-info.dir/main.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/sra-info && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-info\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT tools/external/sra-info/CMakeFiles/sra-info.dir/main.cpp.o -MF CMakeFiles/sra-info.dir/main.cpp.o.d -o CMakeFiles/sra-info.dir/main.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/sra-info/main.cpp /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/vdb-decrypt.dir/link.d "CMakeFiles/vdb-decrypt.dir/vdb-decrypt.c.o" "CMakeFiles/vdb-decrypt.dir/shared.c.o" -o ../../../bin/vdb-decrypt /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -lmbedx509 -lmbedtls -lmbedcrypto make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/internal/compute-coverage /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/internal/compute-coverage /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/internal/compute-coverage/CMakeFiles/compute-coverage.dir/DependInfo.cmake "--color=" cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/internal/align-cache && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/internal/align-cache\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT tools/internal/align-cache/CMakeFiles/align-cache.dir/helper.cpp.o -MF CMakeFiles/align-cache.dir/helper.cpp.o.d -o CMakeFiles/align-cache.dir/helper.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/internal/align-cache/helper.cpp cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && rm -f vdb-decrypt.3.2.1 [ 40%] Building CXX object tools/external/sra-info/CMakeFiles/sra-info.dir/sra-info.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/sra-info && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-info\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT tools/external/sra-info/CMakeFiles/sra-info.dir/sra-info.cpp.o -MF CMakeFiles/sra-info.dir/sra-info.cpp.o.d -o CMakeFiles/sra-info.dir/sra-info.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/sra-info/sra-info.cpp cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && mv vdb-decrypt vdb-decrypt.3.2.1 make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f tools/internal/ccextract/CMakeFiles/ccextract.dir/build.make tools/internal/ccextract/CMakeFiles/ccextract.dir/build make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f tools/internal/check-redact/CMakeFiles/check-redact.dir/build.make tools/internal/check-redact/CMakeFiles/check-redact.dir/build [ 40%] Building C object tools/external/sra-pileup/CMakeFiles/sam-dump.dir/md_flag.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sam-dump.dir/md_flag.c.o -MF CMakeFiles/sam-dump.dir/md_flag.c.o.d -o CMakeFiles/sam-dump.dir/md_flag.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/sra-pileup/md_flag.c cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s vdb-decrypt.3.2.1 vdb-decrypt.3 make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 40%] Building C object tools/internal/ccextract/CMakeFiles/ccextract.dir/ccextract.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s vdb-decrypt.3 vdb-decrypt cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/internal/ccextract && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/ccextract\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/ccextract/CMakeFiles/ccextract.dir/ccextract.c.o -MF CMakeFiles/ccextract.dir/ccextract.c.o.d -o CMakeFiles/ccextract.dir/ccextract.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/internal/ccextract/ccextract.c [ 40%] Linking CXX executable ../../../bin/align-info make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/align-info && /usr/bin/cmake -E cmake_link_script CMakeFiles/align-info.dir/link.txt --verbose=1 make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 40%] Linking CXX executable ../../../bin/sff-dump cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/sra-dump && /usr/bin/cmake -E cmake_link_script CMakeFiles/sff-dump.dir/link.txt --verbose=1 make -f tools/internal/compute-coverage/CMakeFiles/compute-coverage.dir/build.make tools/internal/compute-coverage/CMakeFiles/compute-coverage.dir/build [ 40%] Building C object tools/internal/check-redact/CMakeFiles/check-redact.dir/check-redact.c.o cd 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/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/internal/check-redact/check-redact.c make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 40%] Built target vdb-decrypt [ 40%] Building C object tools/external/vdb-dump/CMakeFiles/vdb-dump.dir/vdb-dump-view-spec.c.o make -f tools/internal/copycat/CMakeFiles/copycat.dir/build.make tools/internal/copycat/CMakeFiles/copycat.dir/depend cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-dump/CMakeFiles/vdb-dump.dir/vdb-dump-view-spec.c.o -MF CMakeFiles/vdb-dump.dir/vdb-dump-view-spec.c.o.d -o CMakeFiles/vdb-dump.dir/vdb-dump-view-spec.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/vdb-dump/vdb-dump-view-spec.c make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/internal/copycat /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/internal/copycat /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/internal/copycat/CMakeFiles/copycat.dir/DependInfo.cmake "--color=" [ 40%] Building CXX object tools/internal/compute-coverage/CMakeFiles/compute-coverage.dir/compute-coverage.cpp.o [ 40%] Building C object tools/external/sra-pileup/CMakeFiles/sam-dump.dir/cg_tools.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/internal/compute-coverage && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT tools/internal/compute-coverage/CMakeFiles/compute-coverage.dir/compute-coverage.cpp.o -MF CMakeFiles/compute-coverage.dir/compute-coverage.cpp.o.d -o CMakeFiles/compute-coverage.dir/compute-coverage.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/internal/compute-coverage/compute-coverage.cpp cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sam-dump.dir/cg_tools.c.o -MF CMakeFiles/sam-dump.dir/cg_tools.c.o.d -o CMakeFiles/sam-dump.dir/cg_tools.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/sra-pileup/cg_tools.c [ 40%] Linking CXX executable ../../../bin/vdb-encrypt cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-decrypt && /usr/bin/cmake -E cmake_link_script CMakeFiles/vdb-encrypt.dir/link.txt --verbose=1 make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 40%] Building C object tools/external/sra-pileup/CMakeFiles/sam-dump.dir/sam-dump.c.o make -f tools/internal/copycat/CMakeFiles/copycat.dir/build.make tools/internal/copycat/CMakeFiles/copycat.dir/build cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sam-dump.dir/sam-dump.c.o -MF CMakeFiles/sam-dump.dir/sam-dump.c.o.d -o CMakeFiles/sam-dump.dir/sam-dump.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/sra-pileup/sam-dump.c make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 40%] Building C object tools/external/vdb-dump/CMakeFiles/vdb-dump.dir/vdb-dump-inspect.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-dump/CMakeFiles/vdb-dump.dir/vdb-dump-inspect.c.o -MF CMakeFiles/vdb-dump.dir/vdb-dump-inspect.c.o.d -o CMakeFiles/vdb-dump.dir/vdb-dump-inspect.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/vdb-dump/vdb-dump-inspect.c [ 40%] Building C object tools/internal/copycat/CMakeFiles/copycat.dir/copycat.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/internal/copycat && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/internal/copycat\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/internal/copycat -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/copycat/CMakeFiles/copycat.dir/copycat.c.o -MF CMakeFiles/copycat.dir/copycat.c.o.d -o CMakeFiles/copycat.dir/copycat.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/internal/copycat/copycat.c [ 41%] Linking C static library ../../../../ilib/libtui.a cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui && /usr/bin/cmake -P CMakeFiles/tui.dir/cmake_clean_target.cmake cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui && /usr/bin/cmake -E cmake_link_script CMakeFiles/tui.dir/link.txt --verbose=1 [ 41%] Building C object tools/external/sra-pileup/CMakeFiles/sam-dump.dir/dyn_string.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sam-dump.dir/dyn_string.c.o -MF CMakeFiles/sam-dump.dir/dyn_string.c.o.d -o CMakeFiles/sam-dump.dir/dyn_string.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/sra-pileup/dyn_string.c /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/sra-sort-cg.dir/link.d "CMakeFiles/sra-sort-cg.dir/caps.c.o" "CMakeFiles/sra-sort-cg.dir/mem.c.o" "CMakeFiles/sra-sort-cg.dir/membank.c.o" "CMakeFiles/sra-sort-cg.dir/paged-membank.c.o" "CMakeFiles/sra-sort-cg.dir/paged-mmapbank.c.o" "CMakeFiles/sra-sort-cg.dir/except.c.o" "CMakeFiles/sra-sort-cg.dir/idx-mapping.c.o" "CMakeFiles/sra-sort-cg.dir/map-file.c.o" "CMakeFiles/sra-sort-cg.dir/col-pair.c.o" "CMakeFiles/sra-sort-cg.dir/row-set.c.o" "CMakeFiles/sra-sort-cg.dir/simple-row-set.c.o" "CMakeFiles/sra-sort-cg.dir/mapping-row-set.c.o" "CMakeFiles/sra-sort-cg.dir/sorting-row-set.c.o" "CMakeFiles/sra-sort-cg.dir/meta-pair.c.o" "CMakeFiles/sra-sort-cg.dir/dir-pair.c.o" "CMakeFiles/sra-sort-cg.dir/tbl-pair.c.o" "CMakeFiles/sra-sort-cg.dir/db-pair.c.o" "CMakeFiles/sra-sort-cg.dir/glob-poslen.c.o" "CMakeFiles/sra-sort-cg.dir/poslen-col-pair.c.o" "CMakeFiles/sra-sort-cg.dir/ref-alignid-col.c.o" "CMakeFiles/sra-sort-cg.dir/buff-writer.c.o" "CMakeFiles/sra-sort-cg.dir/id-mapper-col.c.o" "CMakeFiles/sra-sort-cg.dir/capture-first-half-aligned.c.o" "CMakeFiles/sra-sort-cg.dir/run.c.o" "CMakeFiles/sra-sort-cg.dir/sra-sort.c.o" "CMakeFiles/sra-sort-cg.dir/xcheck-ref-align.c.o" "CMakeFiles/sra-sort-cg.dir/csra-tbl.c.o" "CMakeFiles/sra-sort-cg.dir/csra-pair.c.o" -o ../../../bin/sra-sort-cg /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm -lmbedx509 -lmbedtls -lmbedcrypto -lbz2 -llzma [ 41%] Building C object tools/external/sra-pileup/CMakeFiles/sam-dump.dir/sam-dump3.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && rm -f sra-sort-cg.3.2.1 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sam-dump.dir/sam-dump3.c.o -MF CMakeFiles/sam-dump.dir/sam-dump3.c.o.d -o CMakeFiles/sam-dump.dir/sam-dump3.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/sra-pileup/sam-dump3.c cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && mv sra-sort-cg sra-sort-cg.3.2.1 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sra-sort-cg.3.2.1 sra-sort-cg.3 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sra-sort-cg.3 sra-sort-cg /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/align-info.dir/link.d "CMakeFiles/align-info.dir/align-info.c.o" -o ../../../bin/align-info /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -lmbedx509 -lmbedtls -lmbedcrypto make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && rm -f align-info.3.2.1 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && mv align-info align-info.3.2.1 /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/sra-pileup/sam-dump.c: In function 'SAM_Dump_Main': /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/sra-pileup/sam-dump.c:4387:22: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 4387 | ReportBuildDate( __DATE__ ); | ^~~~~~~~ make -f tools/internal/make-read-filter/CMakeFiles/make-read-filter.dir/build.make tools/internal/make-read-filter/CMakeFiles/make-read-filter.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/internal/make-read-filter /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/internal/make-read-filter /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/internal/make-read-filter/CMakeFiles/make-read-filter.dir/DependInfo.cmake "--color=" /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/sff-dump.dir/link.d "CMakeFiles/sff-dump.dir/factory.c.o" "CMakeFiles/sff-dump.dir/fasta_dump.c.o" "CMakeFiles/sff-dump.dir/core.c.o" "CMakeFiles/sff-dump.dir/sff.c.o" -o ../../../bin/sff-dump /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -lmbedx509 -lmbedtls -lmbedcrypto cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s align-info.3.2.1 align-info.3 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && rm -f sff-dump.3.2.1 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s align-info.3 align-info cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && mv sff-dump sff-dump.3.2.1 make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 41%] Built target sra-sort-cg cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sff-dump.3.2.1 sff-dump.3 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sff-dump.3 sff-dump make -f tools/internal/make-read-filter/CMakeFiles/make-read-filter.dir/build.make tools/internal/make-read-filter/CMakeFiles/make-read-filter.dir/build [ 41%] Linking CXX executable ../../../bin/abi-dump make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/sra-dump && /usr/bin/cmake -E cmake_link_script CMakeFiles/abi-dump.dir/link.txt --verbose=1 /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/sra-pileup/sam-dump3.c: In function 'KMain': /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/sra-pileup/sam-dump3.c:557:38: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 557 | ReportBuildDate( __DATE__ ); | ^~~~~~~~ [ 41%] Built target align-info make -f tools/internal/md5cp/CMakeFiles/md5cp.dir/build.make tools/internal/md5cp/CMakeFiles/md5cp.dir/depend [ 42%] Building C object tools/internal/copycat/CMakeFiles/copycat.dir/ccfileformat.c.o [ 42%] Building C object tools/internal/make-read-filter/CMakeFiles/make-read-filter.dir/make-read-filter.c.o make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/internal/md5cp /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu 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-Wno-unused-result -MD -MT tools/internal/make-read-filter/CMakeFiles/make-read-filter.dir/make-read-filter.c.o -MF CMakeFiles/make-read-filter.dir/make-read-filter.c.o.d -o CMakeFiles/make-read-filter.dir/make-read-filter.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/internal/make-read-filter/make-read-filter.c cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/internal/copycat && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/internal/copycat\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/internal/copycat -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/copycat/CMakeFiles/copycat.dir/ccfileformat.c.o -MF CMakeFiles/copycat.dir/ccfileformat.c.o.d -o CMakeFiles/copycat.dir/ccfileformat.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/internal/copycat/ccfileformat.c [ 42%] Building CXX object tools/external/sra-info/CMakeFiles/sra-info.dir/formatter.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/sra-info && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-info\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT tools/external/sra-info/CMakeFiles/sra-info.dir/formatter.cpp.o -MF CMakeFiles/sra-info.dir/formatter.cpp.o.d -o CMakeFiles/sra-info.dir/formatter.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/sra-info/formatter.cpp [ 42%] Building C object tools/external/vdb-dump/CMakeFiles/vdb-dump.dir/vdb_info.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-dump/CMakeFiles/vdb-dump.dir/vdb_info.c.o -MF CMakeFiles/vdb-dump.dir/vdb_info.c.o.d -o CMakeFiles/vdb-dump.dir/vdb_info.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/vdb-dump/vdb_info.c [ 43%] Linking CXX executable ../../../../../test-bin/idx-text-checklookup cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader/test/vschema && /usr/bin/cmake -E cmake_link_script CMakeFiles/idx-text-checklookup.dir/link.txt --verbose=1 make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f tools/internal/md5cp/CMakeFiles/md5cp.dir/build.make tools/internal/md5cp/CMakeFiles/md5cp.dir/build /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/vdb-encrypt.dir/link.d "CMakeFiles/vdb-encrypt.dir/vdb-encrypt.c.o" "CMakeFiles/vdb-encrypt.dir/shared.c.o" -o ../../../bin/vdb-encrypt /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -lmbedx509 -lmbedtls -lmbedcrypto cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && rm -f vdb-encrypt.3.2.1 make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 44%] Linking CXX executable ../../../bin/ccextract cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/internal/ccextract && /usr/bin/cmake -E cmake_link_script CMakeFiles/ccextract.dir/link.txt --verbose=1 make -f tools/internal/meta-cmp/CMakeFiles/meta-cmp.dir/build.make tools/internal/meta-cmp/CMakeFiles/meta-cmp.dir/depend cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && mv vdb-encrypt vdb-encrypt.3.2.1 make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/internal/meta-cmp /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu 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CMakeFiles/tui.dir/tui_widget_label.c.o CMakeFiles/tui.dir/tui_widget_progress.c.o CMakeFiles/tui.dir/tui_widget_radiobox.c.o CMakeFiles/tui.dir/tui_widget_spin_edit.c.o CMakeFiles/tui.dir/tui_widget_string_list.c.o CMakeFiles/tui.dir/tui_widget_tabhdr.c.o CMakeFiles/tui.dir/linux/systui.c.o /usr/bin/ranlib ../../../../ilib/libtui.a [ 44%] Built target sff-dump make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 44%] Building C object tools/internal/md5cp/CMakeFiles/md5cp.dir/md5cp.c.o make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/internal/meta-copy /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu 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/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/internal/meta-cmp/meta-cmp.c [ 44%] Built target tui make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-dump/CMakeFiles/vdb-dump.dir/vdb-dump.c.o -MF CMakeFiles/vdb-dump.dir/vdb-dump.c.o.d -o CMakeFiles/vdb-dump.dir/vdb-dump.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/vdb-dump/vdb-dump.c make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f tools/internal/meta-repair/CMakeFiles/meta-repair.dir/build.make tools/internal/meta-repair/CMakeFiles/meta-repair.dir/build [ 44%] Built target vdb-encrypt make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 44%] Building C object tools/internal/copycat/CMakeFiles/copycat.dir/cccat.c.o make -f tools/internal/rd-filter-redact/CMakeFiles/test-read-write-cursor.dir/build.make tools/internal/rd-filter-redact/CMakeFiles/test-read-write-cursor.dir/depend cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/internal/copycat && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/internal/copycat\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/internal/copycat -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/copycat/CMakeFiles/copycat.dir/cccat.c.o -MF CMakeFiles/copycat.dir/cccat.c.o.d -o CMakeFiles/copycat.dir/cccat.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/internal/copycat/cccat.c [ 44%] Building C object tools/internal/copycat/CMakeFiles/copycat.dir/cctree-dump.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/internal/copycat && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/internal/copycat\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/internal/copycat -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/copycat/CMakeFiles/copycat.dir/cctree-dump.c.o -MF CMakeFiles/copycat.dir/cctree-dump.c.o.d -o CMakeFiles/copycat.dir/cctree-dump.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/internal/copycat/cctree-dump.c make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/internal/rd-filter-redact /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/internal/rd-filter-redact /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/internal/rd-filter-redact/CMakeFiles/test-read-write-cursor.dir/DependInfo.cmake "--color=" [ 44%] Building C object tools/internal/copycat/CMakeFiles/copycat.dir/cctree.c.o [ 44%] Building C object tools/internal/meta-copy/CMakeFiles/meta-copy.dir/meta-copy.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/internal/meta-copy && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/internal/meta-copy\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/meta-copy/CMakeFiles/meta-copy.dir/meta-copy.c.o -MF CMakeFiles/meta-copy.dir/meta-copy.c.o.d -o CMakeFiles/meta-copy.dir/meta-copy.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/internal/meta-copy/meta-copy.c cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/internal/copycat && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/internal/copycat\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/internal/copycat -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/copycat/CMakeFiles/copycat.dir/cctree.c.o -MF CMakeFiles/copycat.dir/cctree.c.o.d -o CMakeFiles/copycat.dir/cctree.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/internal/copycat/cctree.c [ 44%] Building C object tools/internal/meta-repair/CMakeFiles/meta-repair.dir/meta-repair.c.o make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/internal/meta-repair && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/meta-repair\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/meta-repair/CMakeFiles/meta-repair.dir/meta-repair.c.o -MF CMakeFiles/meta-repair.dir/meta-repair.c.o.d -o CMakeFiles/meta-repair.dir/meta-repair.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/internal/meta-repair/meta-repair.c make -f tools/internal/rd-filter-redact/CMakeFiles/test-read-write-cursor.dir/build.make tools/internal/rd-filter-redact/CMakeFiles/test-read-write-cursor.dir/build /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/abi-dump.dir/link.d "CMakeFiles/abi-dump.dir/factory.c.o" "CMakeFiles/abi-dump.dir/fasta_dump.c.o" "CMakeFiles/abi-dump.dir/core.c.o" "CMakeFiles/abi-dump.dir/abi.c.o" -o ../../../bin/abi-dump /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -lmbedx509 -lmbedtls -lmbedcrypto make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && rm -f abi-dump.3.2.1 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && mv abi-dump abi-dump.3.2.1 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s abi-dump.3.2.1 abi-dump.3 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s abi-dump.3 abi-dump [ 44%] Building C object tools/internal/rd-filter-redact/CMakeFiles/test-read-write-cursor.dir/test-read-write-cursor.c.o /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/internal/copycat/cctree-dump.c:39:9: warning: "__USE_POSIX" redefined 39 | #define __USE_POSIX | ^~~~~~~~~~~ In file included from /usr/include/x86_64-linux-gnu/bits/libc-header-start.h:33, from /usr/include/stdint.h:26, from /usr/lib/gcc/x86_64-linux-gnu/14/include/stdint.h:9, from /usr/include/ncbi-vdb/kfc/defs.h:34, from /usr/include/ncbi-vdb/klib/defs.h:31, from /usr/include/ncbi-vdb/klib/container.h:35, from /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/internal/copycat/cctree-priv.h:31, from /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/internal/copycat/cctree-dump.c:27: /usr/include/features.h:348:10: note: this is the location of the previous definition 348 | # define __USE_POSIX 1 | ^~~~~~~~~~~ make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/internal/rd-filter-redact && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/internal/rd-filter-redact\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/rd-filter-redact/CMakeFiles/test-read-write-cursor.dir/test-read-write-cursor.c.o -MF CMakeFiles/test-read-write-cursor.dir/test-read-write-cursor.c.o.d -o CMakeFiles/test-read-write-cursor.dir/test-read-write-cursor.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/internal/rd-filter-redact/test-read-write-cursor.c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/internal/copycat/ccfileformat.c: In function 'CCFileFormatIsFastq': /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/internal/copycat/ccfileformat.c:277:27: warning: 'seq_len' may be used uninitialized [-Wmaybe-uninitialized] 277 | if(quality_values_len != seq_len) | ^ /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/internal/copycat/ccfileformat.c:195:12: note: 'seq_len' was declared here 195 | size_t seq_len,quality_values_len,seq_id_len; | ^~~~~~~ [ 44%] Linking CXX static library ../../ilib/libgeneral-writer.a make -f tools/internal/rd-filter-redact/CMakeFiles/read-filter-redact.dir/build.make tools/internal/rd-filter-redact/CMakeFiles/read-filter-redact.dir/depend cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/libs/general-writer && /usr/bin/cmake -P CMakeFiles/general-writer.dir/cmake_clean_target.cmake make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/internal/rd-filter-redact /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/internal/rd-filter-redact /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/internal/rd-filter-redact/CMakeFiles/read-filter-redact.dir/DependInfo.cmake "--color=" /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/idx-text-checklookup.dir/link.d "CMakeFiles/idx-text-checklookup.dir/idx-text/checklookup.cpp.o" -o ../../../../../test-bin/idx-text-checklookup /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -lmbedx509 -lmbedtls -lmbedcrypto make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/sra-pileup.dir/link.d "CMakeFiles/sra-pileup.dir/dyn_string.c.o" "CMakeFiles/sra-pileup.dir/cmdline_cmn.c.o" "CMakeFiles/sra-pileup.dir/out_redir.c.o" "CMakeFiles/sra-pileup.dir/perf_log.c.o" "CMakeFiles/sra-pileup.dir/reref.c.o" "CMakeFiles/sra-pileup.dir/cg_tools.c.o" "CMakeFiles/sra-pileup.dir/report_deletes.c.o" "CMakeFiles/sra-pileup.dir/ref_regions.c.o" "CMakeFiles/sra-pileup.dir/4na_ascii.c.o" "CMakeFiles/sra-pileup.dir/ref_walker_0.c.o" "CMakeFiles/sra-pileup.dir/ref_walker.c.o" "CMakeFiles/sra-pileup.dir/walk_debug.c.o" "CMakeFiles/sra-pileup.dir/pileup_counters.c.o" "CMakeFiles/sra-pileup.dir/pileup_index.c.o" "CMakeFiles/sra-pileup.dir/pileup_indels.c.o" "CMakeFiles/sra-pileup.dir/pileup_varcount.c.o" "CMakeFiles/sra-pileup.dir/pileup_stat.c.o" "CMakeFiles/sra-pileup.dir/pileup_v2.c.o" "CMakeFiles/sra-pileup.dir/sra-pileup.c.o" -o ../../../bin/sra-pileup /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -lmbedx509 -lmbedtls -lmbedcrypto cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && rm -f sra-pileup.3.2.1 make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && mv sra-pileup sra-pileup.3.2.1 make -f tools/internal/rd-filter-redact/CMakeFiles/read-filter-redact.dir/build.make tools/internal/rd-filter-redact/CMakeFiles/read-filter-redact.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/check-redact.dir/link.d "CMakeFiles/check-redact.dir/check-redact.c.o" -o ../../../bin/check-redact /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -lmbedx509 -lmbedtls -lmbedcrypto cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sra-pileup.3.2.1 sra-pileup.3 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/libs/general-writer && /usr/bin/cmake -E cmake_link_script CMakeFiles/general-writer.dir/link.txt --verbose=1 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && rm -f check-redact.3.2.1 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sra-pileup.3 sra-pileup cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sratools.3.2.1 sra-pileup-driver [ 44%] Built target abi-dump [ 44%] Linking CXX executable ../../../bin/check-corrupt [ 44%] Built target idx-text-checklookup make -f tools/internal/vdb-copy/CMakeFiles/vdb-copy.dir/build.make tools/internal/vdb-copy/CMakeFiles/vdb-copy.dir/depend cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && mv check-redact check-redact.3.2.1 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-validate && /usr/bin/cmake -E cmake_link_script CMakeFiles/check-corrupt.dir/link.txt --verbose=1 make -f tools/internal/vdb-diff/CMakeFiles/vdb-diff.dir/build.make tools/internal/vdb-diff/CMakeFiles/vdb-diff.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/internal/vdb-copy /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-copy /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-copy/CMakeFiles/vdb-copy.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/internal/vdb-diff /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-diff /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-diff/CMakeFiles/vdb-diff.dir/DependInfo.cmake "--color=" [ 44%] Building C object tools/internal/rd-filter-redact/CMakeFiles/read-filter-redact.dir/read-filter-redact.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s check-redact.3.2.1 check-redact.3 /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/ccextract.dir/link.d CMakeFiles/ccextract.dir/ccextract.c.o -o ../../../bin/ccextract /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a ../../../ilib/libkxml.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -lmbedx509 -lmbedtls -lmbedcrypto /usr/lib/x86_64-linux-gnu/libxml2.so cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && rm -f ccextract.3.2.1 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/internal/rd-filter-redact && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/internal/rd-filter-redact\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/rd-filter-redact/CMakeFiles/read-filter-redact.dir/read-filter-redact.c.o -MF CMakeFiles/read-filter-redact.dir/read-filter-redact.c.o.d -o CMakeFiles/read-filter-redact.dir/read-filter-redact.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/internal/rd-filter-redact/read-filter-redact.c [ 45%] Building CXX object tools/external/driver-tool/CMakeFiles/sratools.dir/config.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && mv ccextract ccextract.3.2.1 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/driver-tool && /usr/bin/c++ -DBUILD_PATH=\"/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin\" -DLINUX -DNDEBUG -DPREFIX_PATH=\"\" -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/driver-tool\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT tools/external/driver-tool/CMakeFiles/sratools.dir/config.cpp.o -MF CMakeFiles/sratools.dir/config.cpp.o.d -o CMakeFiles/sratools.dir/config.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/driver-tool/config.cpp /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/cache-mgr.dir/link.d "CMakeFiles/cache-mgr.dir/cache-mgr.c.o" -o ../../../bin/cache-mgr /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -lmbedx509 -lmbedtls -lmbedcrypto cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s ccextract.3.2.1 ccextract.3 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && rm -f cache-mgr.3.2.1 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s check-redact.3 check-redact cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s ccextract.3 ccextract cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && mv cache-mgr cache-mgr.3.2.1 make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f tools/internal/vdb-copy/CMakeFiles/vdb-copy.dir/build.make tools/internal/vdb-copy/CMakeFiles/vdb-copy.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f tools/internal/vdb-diff/CMakeFiles/vdb-diff.dir/build.make tools/internal/vdb-diff/CMakeFiles/vdb-diff.dir/build cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s cache-mgr.3.2.1 cache-mgr.3 make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s cache-mgr.3 cache-mgr make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 45%] Linking CXX executable ../../../bin/meta-cmp cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/internal/meta-cmp && /usr/bin/cmake -E cmake_link_script CMakeFiles/meta-cmp.dir/link.txt --verbose=1 [ 45%] Built target ccextract [ 45%] Built target sra-pileup [ 45%] Building C object tools/internal/vdb-diff/CMakeFiles/vdb-diff.dir/namelist_tools.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-diff && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/internal/vdb-diff\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/vdb-diff/CMakeFiles/vdb-diff.dir/namelist_tools.c.o -MF CMakeFiles/vdb-diff.dir/namelist_tools.c.o.d -o CMakeFiles/vdb-diff.dir/namelist_tools.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/internal/vdb-diff/namelist_tools.c make -f tools/test-tools/crc32sum/CMakeFiles/crc32sum.dir/build.make tools/test-tools/crc32sum/CMakeFiles/crc32sum.dir/depend [ 45%] Building C object tools/internal/vdb-copy/CMakeFiles/vdb-copy.dir/context.c.o [ 45%] Built target check-redact cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-copy && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-copy\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/vdb-copy/CMakeFiles/vdb-copy.dir/context.c.o -MF CMakeFiles/vdb-copy.dir/context.c.o.d -o CMakeFiles/vdb-copy.dir/context.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/internal/vdb-copy/context.c make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/test-tools/crc32sum /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/test-tools/crc32sum /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/test-tools/crc32sum/CMakeFiles/crc32sum.dir/DependInfo.cmake "--color=" make -f tools/test-tools/test-download/CMakeFiles/test-download.dir/build.make tools/test-tools/test-download/CMakeFiles/test-download.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/test-tools/test-download /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/test-tools/test-download /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/test-tools/test-download/CMakeFiles/test-download.dir/DependInfo.cmake "--color=" [ 45%] Built target cache-mgr [ 45%] Building CXX object tools/external/driver-tool/CMakeFiles/sratools.dir/command-line.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/driver-tool && /usr/bin/c++ -DBUILD_PATH=\"/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin\" -DLINUX -DNDEBUG -DPREFIX_PATH=\"\" -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/driver-tool\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT tools/external/driver-tool/CMakeFiles/sratools.dir/command-line.cpp.o -MF CMakeFiles/sratools.dir/command-line.cpp.o.d -o CMakeFiles/sratools.dir/command-line.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/driver-tool/command-line.cpp make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f tools/test-tools/crc32sum/CMakeFiles/crc32sum.dir/build.make tools/test-tools/crc32sum/CMakeFiles/crc32sum.dir/build make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f tools/test-tools/test-download/CMakeFiles/test-download.dir/build.make tools/test-tools/test-download/CMakeFiles/test-download.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/internal/rd-filter-redact/read-filter-redact.c: In function 'enter_date_name_vers': /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/internal/rd-filter-redact/read-filter-redact.c:755:59: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 755 | rc = KMDataNodeWriteAttr ( node, "build", __DATE__ ); | ^~~~~~~~ /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/srapath.dir/link.d CMakeFiles/srapath.dir/helper.c.o CMakeFiles/srapath.dir/line_iter.c.o "CMakeFiles/srapath.dir/repository-mgr.c.o" CMakeFiles/srapath.dir/services.c.o CMakeFiles/srapath.dir/cgi_request.c.o CMakeFiles/srapath.dir/srapath.c.o -o ../../../bin/srapath /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -lmbedx509 -lmbedtls -lmbedcrypto /usr/bin/ar qc ../../ilib/libgeneral-writer.a "CMakeFiles/general-writer.dir/general-writer.cpp.o" "CMakeFiles/general-writer.dir/utf8-like-int-codec.c.o" /usr/bin/ranlib ../../ilib/libgeneral-writer.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && rm -f srapath.3.2.1 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && mv srapath srapath.3.2.1 [ 46%] Linking CXX executable ../../../bin/meta-copy cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/internal/meta-copy && /usr/bin/cmake -E cmake_link_script CMakeFiles/meta-copy.dir/link.txt --verbose=1 [ 46%] Building C object tools/internal/vdb-copy/CMakeFiles/vdb-copy.dir/helper.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-copy && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-copy\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/vdb-copy/CMakeFiles/vdb-copy.dir/helper.c.o -MF CMakeFiles/vdb-copy.dir/helper.c.o.d -o CMakeFiles/vdb-copy.dir/helper.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/internal/vdb-copy/helper.c [ 46%] Building C object tools/test-tools/crc32sum/CMakeFiles/crc32sum.dir/crc32sum.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s srapath.3.2.1 srapath.3 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/test-tools/crc32sum && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/test-tools/crc32sum/CMakeFiles/crc32sum.dir/crc32sum.c.o -MF CMakeFiles/crc32sum.dir/crc32sum.c.o.d -o CMakeFiles/crc32sum.dir/crc32sum.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/test-tools/crc32sum/crc32sum.c cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s srapath.3 srapath [ 46%] Linking CXX executable ../../../bin/md5cp cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/internal/md5cp && /usr/bin/cmake -E cmake_link_script CMakeFiles/md5cp.dir/link.txt --verbose=1 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sratools.3.2.1 srapath-driver [ 46%] Built target general-writer make -f tools/test-tools/kdb-index/CMakeFiles/kdb-index.dir/build.make tools/test-tools/kdb-index/CMakeFiles/kdb-index.dir/depend [ 46%] Building C object tools/test-tools/test-download/CMakeFiles/test-download.dir/test-download.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/test-tools/test-download && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/test-tools/test-download/CMakeFiles/test-download.dir/test-download.c.o -MF CMakeFiles/test-download.dir/test-download.c.o.d -o CMakeFiles/test-download.dir/test-download.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/test-tools/test-download/test-download.c make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/test-tools/kdb-index /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/test-tools/kdb-index /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/test-tools/kdb-index/CMakeFiles/kdb-index.dir/DependInfo.cmake "--color=" [ 46%] Building C object tools/internal/copycat/CMakeFiles/copycat.dir/cctar.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/internal/copycat && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/internal/copycat\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/internal/copycat -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/copycat/CMakeFiles/copycat.dir/cctar.c.o -MF CMakeFiles/copycat.dir/cctar.c.o.d -o CMakeFiles/copycat.dir/cctar.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/internal/copycat/cctar.c [ 46%] Building C object tools/internal/copycat/CMakeFiles/copycat.dir/ccsra.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/internal/copycat && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/internal/copycat\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/internal/copycat -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/copycat/CMakeFiles/copycat.dir/ccsra.c.o -MF CMakeFiles/copycat.dir/ccsra.c.o.d -o CMakeFiles/copycat.dir/ccsra.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/internal/copycat/ccsra.c [ 46%] Building CXX object tools/external/driver-tool/CMakeFiles/sratools.dir/run-source.cpp.o make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f tools/test-tools/kdb-index/CMakeFiles/kdb-index.dir/build.make tools/test-tools/kdb-index/CMakeFiles/kdb-index.dir/build [ 46%] Built target srapath make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f tools/test-tools/pacbio-correct/CMakeFiles/pacbio-correct.dir/build.make tools/test-tools/pacbio-correct/CMakeFiles/pacbio-correct.dir/depend cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/driver-tool && /usr/bin/c++ -DBUILD_PATH=\"/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin\" -DLINUX -DNDEBUG -DPREFIX_PATH=\"\" -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/driver-tool\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT tools/external/driver-tool/CMakeFiles/sratools.dir/run-source.cpp.o -MF CMakeFiles/sratools.dir/run-source.cpp.o.d -o CMakeFiles/sratools.dir/run-source.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/driver-tool/run-source.cpp [ 46%] Linking CXX executable ../../../bin/test-read-write-cursor /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/check-corrupt.dir/link.d "CMakeFiles/check-corrupt.dir/check-corrupt.cpp.o" -o ../../../bin/check-corrupt /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -lmbedx509 -lmbedtls -lmbedcrypto cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && rm -f check-corrupt.3.2.1 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/internal/rd-filter-redact && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-read-write-cursor.dir/link.txt --verbose=1 make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/test-tools/pacbio-correct /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/test-tools/pacbio-correct /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/test-tools/pacbio-correct/CMakeFiles/pacbio-correct.dir/DependInfo.cmake "--color=" cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && mv check-corrupt check-corrupt.3.2.1 [ 47%] Linking CXX executable ../../../bin/vdb-validate cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-validate && /usr/bin/cmake -E cmake_link_script CMakeFiles/vdb-validate.dir/link.txt --verbose=1 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s check-corrupt.3.2.1 check-corrupt.3 /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/meta-cmp.dir/link.d "CMakeFiles/meta-cmp.dir/meta-cmp.c.o" -o ../../../bin/meta-cmp /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -lmbedx509 -lmbedtls -lmbedcrypto cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && rm -f meta-cmp.3.2.1 [ 47%] Building C object tools/test-tools/kdb-index/CMakeFiles/kdb-index.dir/kdb-index.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && mv meta-cmp meta-cmp.3.2.1 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s check-corrupt.3 check-corrupt cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s meta-cmp.3.2.1 meta-cmp.3 make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/test-tools/kdb-index && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/test-tools/kdb-index/CMakeFiles/kdb-index.dir/kdb-index.c.o -MF CMakeFiles/kdb-index.dir/kdb-index.c.o.d -o CMakeFiles/kdb-index.dir/kdb-index.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/test-tools/kdb-index/kdb-index.c cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s meta-cmp.3 meta-cmp make -f tools/test-tools/pacbio-correct/CMakeFiles/pacbio-correct.dir/build.make tools/test-tools/pacbio-correct/CMakeFiles/pacbio-correct.dir/build make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 47%] Building C object tools/test-tools/pacbio-correct/CMakeFiles/pacbio-correct.dir/pacbio-correct.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/test-tools/pacbio-correct && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/test-tools/pacbio-correct/CMakeFiles/pacbio-correct.dir/pacbio-correct.c.o -MF CMakeFiles/pacbio-correct.dir/pacbio-correct.c.o.d -o CMakeFiles/pacbio-correct.dir/pacbio-correct.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/test-tools/pacbio-correct/pacbio-correct.c [ 47%] Built target meta-cmp [ 47%] Building C object tools/internal/copycat/CMakeFiles/copycat.dir/ccsubchunk.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/internal/copycat && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/internal/copycat\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/internal/copycat -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/copycat/CMakeFiles/copycat.dir/ccsubchunk.c.o -MF CMakeFiles/copycat.dir/ccsubchunk.c.o.d -o CMakeFiles/copycat.dir/ccsubchunk.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/internal/copycat/ccsubchunk.c make -f tools/test-tools/schema-replace/CMakeFiles/schema-replace.dir/build.make tools/test-tools/schema-replace/CMakeFiles/schema-replace.dir/depend [ 47%] Built target check-corrupt /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/md5cp.dir/link.d CMakeFiles/md5cp.dir/md5cp.c.o -o ../../../bin/md5cp /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -lmbedx509 -lmbedtls -lmbedcrypto cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && rm -f md5cp.3.2.1 make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/test-tools/schema-replace /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/test-tools/schema-replace /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/test-tools/schema-replace/CMakeFiles/schema-replace.dir/DependInfo.cmake "--color=" cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && mv md5cp md5cp.3.2.1 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s md5cp.3.2.1 md5cp.3 make -f tools/test-tools/sortreadtest/CMakeFiles/sortreadtest.dir/build.make tools/test-tools/sortreadtest/CMakeFiles/sortreadtest.dir/depend [ 47%] Linking CXX executable ../../../bin/crc32sum cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s md5cp.3 md5cp cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/test-tools/crc32sum && /usr/bin/cmake -E cmake_link_script CMakeFiles/crc32sum.dir/link.txt --verbose=1 make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/meta-copy.dir/link.d "CMakeFiles/meta-copy.dir/meta-copy.c.o" -o ../../../bin/meta-copy /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm -lmbedx509 -lmbedtls -lmbedcrypto cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && rm -f meta-copy.3.2.1 [ 48%] Building C object tools/internal/copycat/CMakeFiles/copycat.dir/ccfile.c.o make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/test-tools/sortreadtest /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/test-tools/sortreadtest /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/test-tools/sortreadtest/CMakeFiles/sortreadtest.dir/DependInfo.cmake "--color=" cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/internal/copycat && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/internal/copycat\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/internal/copycat -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/copycat/CMakeFiles/copycat.dir/ccfile.c.o -MF CMakeFiles/copycat.dir/ccfile.c.o.d -o CMakeFiles/copycat.dir/ccfile.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/internal/copycat/ccfile.c cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && mv meta-copy meta-copy.3.2.1 [ 48%] Building C object tools/internal/copycat/CMakeFiles/copycat.dir/kff/fileformat.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/internal/copycat && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/internal/copycat\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/internal/copycat -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/copycat/CMakeFiles/copycat.dir/kff/fileformat.c.o -MF CMakeFiles/copycat.dir/kff/fileformat.c.o.d -o CMakeFiles/copycat.dir/kff/fileformat.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/internal/copycat/kff/fileformat.c make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f tools/test-tools/schema-replace/CMakeFiles/schema-replace.dir/build.make tools/test-tools/schema-replace/CMakeFiles/schema-replace.dir/build cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s meta-copy.3.2.1 meta-copy.3 make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 48%] Built target md5cp cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s meta-copy.3 meta-copy [ 48%] Building C object tools/internal/copycat/CMakeFiles/copycat.dir/kff/ffext.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/internal/copycat && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/internal/copycat\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/internal/copycat -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/copycat/CMakeFiles/copycat.dir/kff/ffext.c.o -MF CMakeFiles/copycat.dir/kff/ffext.c.o.d -o CMakeFiles/copycat.dir/kff/ffext.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/internal/copycat/kff/ffext.c make -f tools/test-tools/rowwritetest/CMakeFiles/rowwritetest.dir/build.make tools/test-tools/rowwritetest/CMakeFiles/rowwritetest.dir/depend [ 49%] Building C object tools/internal/vdb-diff/CMakeFiles/vdb-diff.dir/coldefs.c.o /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/test-read-write-cursor.dir/link.d "CMakeFiles/test-read-write-cursor.dir/test-read-write-cursor.c.o" -o ../../../bin/test-read-write-cursor /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm -lmbedx509 -lmbedtls -lmbedcrypto cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-diff && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/internal/vdb-diff\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/vdb-diff/CMakeFiles/vdb-diff.dir/coldefs.c.o -MF CMakeFiles/vdb-diff.dir/coldefs.c.o.d -o CMakeFiles/vdb-diff.dir/coldefs.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/internal/vdb-diff/coldefs.c make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && rm -f test-read-write-cursor.3.2.1 make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/test-tools/rowwritetest /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/test-tools/rowwritetest /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/test-tools/rowwritetest/CMakeFiles/rowwritetest.dir/DependInfo.cmake "--color=" cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && mv test-read-write-cursor test-read-write-cursor.3.2.1 [ 49%] Building C object tools/internal/vdb-copy/CMakeFiles/vdb-copy.dir/coldefs.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s test-read-write-cursor.3.2.1 test-read-write-cursor.3 [ 49%] Building C object tools/test-tools/schema-replace/CMakeFiles/schema-replace.dir/schema-replace.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/test-tools/schema-replace && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/test-tools/schema-replace/CMakeFiles/schema-replace.dir/schema-replace.c.o -MF CMakeFiles/schema-replace.dir/schema-replace.c.o.d -o CMakeFiles/schema-replace.dir/schema-replace.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/test-tools/schema-replace/schema-replace.c cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s test-read-write-cursor.3 test-read-write-cursor cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-copy && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-copy\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/vdb-copy/CMakeFiles/vdb-copy.dir/coldefs.c.o -MF CMakeFiles/vdb-copy.dir/coldefs.c.o.d -o CMakeFiles/vdb-copy.dir/coldefs.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/internal/vdb-copy/coldefs.c make -f tools/test-tools/sortreadtest/CMakeFiles/sortreadtest.dir/build.make tools/test-tools/sortreadtest/CMakeFiles/sortreadtest.dir/build make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f tools/test-tools/rowwritetest/CMakeFiles/rowwritetest.dir/build.make tools/test-tools/rowwritetest/CMakeFiles/rowwritetest.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 49%] Built target test-read-write-cursor [ 49%] Building C object tools/test-tools/sortreadtest/CMakeFiles/sortreadtest.dir/sortreadtest.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/test-tools/sortreadtest && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/test-tools/sortreadtest/CMakeFiles/sortreadtest.dir/sortreadtest.c.o -MF CMakeFiles/sortreadtest.dir/sortreadtest.c.o.d -o CMakeFiles/sortreadtest.dir/sortreadtest.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/test-tools/sortreadtest/sortreadtest.c make -f tools/test-tools/samview-util/CMakeFiles/samview-util.dir/build.make tools/test-tools/samview-util/CMakeFiles/samview-util.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/test-tools/samview-util /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/test-tools/samview-util /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/test-tools/samview-util/CMakeFiles/samview-util.dir/DependInfo.cmake "--color=" In file included from /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/driver-tool/sratools.hpp:31, from /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/driver-tool/sratools.cpp:59: /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/driver-tool/accession.hpp: In static member function 'static const char* sratools::Accession::qualityTypeFor(const char*)': /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/driver-tool/accession.hpp:82:56: warning: possibly dangling reference to a temporary [-Wdangling-reference] 82 | for (auto ext : make_sequence(&extensions[1], 3)) { | ^ /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/driver-tool/accession.hpp:82:38: note: the temporary was destroyed at the end of the full expression 'make_sequence((& sratools::Accession::extensions[1]), 3)' 82 | for (auto ext : make_sequence(&extensions[1], 3)) { | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~ [ 49%] Building C object tools/test-tools/rowwritetest/CMakeFiles/rowwritetest.dir/rowwritetest.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/test-tools/rowwritetest && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/test-tools/rowwritetest/CMakeFiles/rowwritetest.dir/rowwritetest.c.o -MF CMakeFiles/rowwritetest.dir/rowwritetest.c.o.d -o CMakeFiles/rowwritetest.dir/rowwritetest.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/test-tools/rowwritetest/rowwritetest.c [ 49%] Built target meta-copy make -f tools/test-tools/testld/CMakeFiles/testld.dir/build.make tools/test-tools/testld/CMakeFiles/testld.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/test-tools/testld /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/test-tools/testld /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/test-tools/testld/CMakeFiles/testld.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f tools/test-tools/samview-util/CMakeFiles/samview-util.dir/build.make tools/test-tools/samview-util/CMakeFiles/samview-util.dir/build make -f tools/test-tools/txt2kdb/CMakeFiles/txt2kdb.dir/build.make tools/test-tools/txt2kdb/CMakeFiles/txt2kdb.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/test-tools/txt2kdb /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/test-tools/txt2kdb /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/test-tools/txt2kdb/CMakeFiles/txt2kdb.dir/DependInfo.cmake "--color=" [ 49%] Building C object tools/test-tools/samview-util/CMakeFiles/samview-util.dir/samview.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/test-tools/samview-util && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/test-tools/samview-util/CMakeFiles/samview-util.dir/samview.c.o -MF CMakeFiles/samview-util.dir/samview.c.o.d -o CMakeFiles/samview-util.dir/samview.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/test-tools/samview-util/samview.c make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f tools/test-tools/txt2kdb/CMakeFiles/txt2kdb.dir/build.make tools/test-tools/txt2kdb/CMakeFiles/txt2kdb.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/vdb-validate.dir/link.d "CMakeFiles/vdb-validate.dir/main.c.o" "CMakeFiles/vdb-validate.dir/vdb-validate.c.o" "CMakeFiles/vdb-validate.dir/check-redact.c.o" -o ../../../bin/vdb-validate /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -lmbedx509 -lmbedtls -lmbedcrypto cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && rm -f vdb-validate.3.2.1 make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f tools/test-tools/testld/CMakeFiles/testld.dir/build.make tools/test-tools/testld/CMakeFiles/testld.dir/build [ 49%] Linking CXX executable ../../../bin/pacbio-correct make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/test-tools/pacbio-correct && /usr/bin/cmake -E cmake_link_script CMakeFiles/pacbio-correct.dir/link.txt --verbose=1 [ 49%] Building C object tools/test-tools/txt2kdb/CMakeFiles/txt2kdb.dir/txt2kdb.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/test-tools/txt2kdb && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/test-tools/txt2kdb/CMakeFiles/txt2kdb.dir/txt2kdb.c.o -MF CMakeFiles/txt2kdb.dir/txt2kdb.c.o.d -o CMakeFiles/txt2kdb.dir/txt2kdb.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/test-tools/txt2kdb/txt2kdb.c cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && mv vdb-validate vdb-validate.3.2.1 /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/vdb-sqlite/sqlite3.c: In function 'sqlite3DefaultRowEst': [ 49%] Linking CXX executable ../../../bin/kdb-index [ 49%] Building C object tools/internal/copycat/CMakeFiles/copycat.dir/kff/ffkey.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/test-tools/kdb-index && /usr/bin/cmake -E cmake_link_script CMakeFiles/kdb-index.dir/link.txt --verbose=1 [ 49%] Building C object tools/internal/copycat/CMakeFiles/copycat.dir/kff/ffmagic.c.o make -f tools/test-tools/sam-factory/CMakeFiles/sam-factory.dir/build.make tools/test-tools/sam-factory/CMakeFiles/sam-factory.dir/depend cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/internal/copycat && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/internal/copycat\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/internal/copycat -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/copycat/CMakeFiles/copycat.dir/kff/ffmagic.c.o -MF CMakeFiles/copycat.dir/kff/ffmagic.c.o.d -o CMakeFiles/copycat.dir/kff/ffmagic.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/internal/copycat/kff/ffmagic.c cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s vdb-validate.3.2.1 vdb-validate.3 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/internal/copycat && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/internal/copycat\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/internal/copycat -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/copycat/CMakeFiles/copycat.dir/kff/ffkey.c.o -MF CMakeFiles/copycat.dir/kff/ffkey.c.o.d -o CMakeFiles/copycat.dir/kff/ffkey.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/internal/copycat/kff/ffkey.c [ 49%] Building C object tools/test-tools/testld/CMakeFiles/testld.dir/testld.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/test-tools/testld && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/test-tools/testld/CMakeFiles/testld.dir/testld.c.o -MF CMakeFiles/testld.dir/testld.c.o.d -o CMakeFiles/testld.dir/testld.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/test-tools/testld/testld.c make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/test-tools/sam-factory /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/test-tools/sam-factory /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/test-tools/sam-factory/CMakeFiles/sam-factory.dir/DependInfo.cmake "--color=" cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s vdb-validate.3 vdb-validate [ 49%] Linking CXX executable ../../../bin/read-filter-redact cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/internal/rd-filter-redact && /usr/bin/cmake -E cmake_link_script CMakeFiles/read-filter-redact.dir/link.txt --verbose=1 make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/crc32sum.dir/link.d CMakeFiles/crc32sum.dir/crc32sum.c.o -o ../../../bin/crc32sum /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -lmbedx509 -lmbedtls -lmbedcrypto cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && rm -f crc32sum.3.2.1 /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/vdb-sqlite/sqlite3.c:102377:3: warning: this 'if' clause does not guard... [-Wmisleading-indentation] 102377 | if( pIdx->pPartIdxWhere!=0 ) a[0] -= 10; assert( 10==sqlite3LogEst(2) ); | ^~ make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f tools/test-tools/sam-factory/CMakeFiles/sam-factory.dir/build.make tools/test-tools/sam-factory/CMakeFiles/sam-factory.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 49%] Linking CXX executable ../../../bin/fastq-dump cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/sra-dump && /usr/bin/cmake -E cmake_link_script CMakeFiles/fastq-dump.dir/link.txt --verbose=1 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && mv crc32sum crc32sum.3.2.1 [ 49%] Linking CXX executable ../../../bin/make-read-filter cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/internal/make-read-filter && /usr/bin/cmake -E cmake_link_script CMakeFiles/make-read-filter.dir/link.txt --verbose=1 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s crc32sum.3.2.1 crc32sum.3 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s crc32sum.3 crc32sum [ 49%] Building C object tools/internal/vdb-diff/CMakeFiles/vdb-diff.dir/vdb-diff-context.c.o make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-diff && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/internal/vdb-diff\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/vdb-diff/CMakeFiles/vdb-diff.dir/vdb-diff-context.c.o -MF CMakeFiles/vdb-diff.dir/vdb-diff-context.c.o.d -o CMakeFiles/vdb-diff.dir/vdb-diff-context.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/internal/vdb-diff/vdb-diff-context.c [ 49%] Building CXX object tools/test-tools/sam-factory/CMakeFiles/sam-factory.dir/sam-factory.cpp.o make -f tools/test-tools/sam-analyze/CMakeFiles/sam-analyze.dir/build.make tools/test-tools/sam-analyze/CMakeFiles/sam-analyze.dir/depend cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/test-tools/sam-factory && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT tools/test-tools/sam-factory/CMakeFiles/sam-factory.dir/sam-factory.cpp.o -MF CMakeFiles/sam-factory.dir/sam-factory.cpp.o.d -o CMakeFiles/sam-factory.dir/sam-factory.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/test-tools/sam-factory/sam-factory.cpp In file included from /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/vdb-sqlite/sqlite3.c:11540: /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/vdb-sqlite/sqlite3.c:102377:45: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'if' 102377 | if( pIdx->pPartIdxWhere!=0 ) a[0] -= 10; assert( 10==sqlite3LogEst(2) ); | ^~~~~~ make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/test-tools/sam-analyze /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/test-tools/sam-analyze /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/test-tools/sam-analyze/CMakeFiles/sam-analyze.dir/DependInfo.cmake "--color=" [ 49%] Linking CXX executable ../../../bin/meta-repair [ 49%] Built target crc32sum make -f tools/test-tools/qa-stats/CMakeFiles/qa-stats.dir/build.make tools/test-tools/qa-stats/CMakeFiles/qa-stats.dir/depend [ 49%] Linking CXX executable ../../../bin/schema-replace [ 49%] Linking CXX executable ../../../bin/samview-util cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/internal/meta-repair && /usr/bin/cmake -E cmake_link_script CMakeFiles/meta-repair.dir/link.txt --verbose=1 [ 49%] Built target vdb-validate make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/test-tools/qa-stats /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/test-tools/qa-stats /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/test-tools/qa-stats/CMakeFiles/qa-stats.dir/DependInfo.cmake "--color=" make -f tools/test-tools/rnd2sra/CMakeFiles/rnd2sra.dir/build.make tools/test-tools/rnd2sra/CMakeFiles/rnd2sra.dir/depend cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/test-tools/samview-util && /usr/bin/cmake -E cmake_link_script CMakeFiles/samview-util.dir/link.txt --verbose=1 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/test-tools/schema-replace && /usr/bin/cmake -E cmake_link_script CMakeFiles/schema-replace.dir/link.txt --verbose=1 make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/test-tools/rnd2sra /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/test-tools/rnd2sra /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/test-tools/rnd2sra/CMakeFiles/rnd2sra.dir/DependInfo.cmake "--color=" [ 49%] Building C object tools/internal/vdb-copy/CMakeFiles/vdb-copy.dir/get_platform.c.o [ 49%] Linking CXX executable ../../../bin/test-download cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/test-tools/test-download && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-download.dir/link.txt --verbose=1 [ 49%] Building CXX object tools/external/driver-tool/CMakeFiles/sratools.dir/proc.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/driver-tool && /usr/bin/c++ -DBUILD_PATH=\"/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin\" -DLINUX -DNDEBUG -DPREFIX_PATH=\"\" -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/driver-tool\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT tools/external/driver-tool/CMakeFiles/sratools.dir/proc.cpp.o -MF CMakeFiles/sratools.dir/proc.cpp.o.d -o CMakeFiles/sratools.dir/proc.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/driver-tool/proc.cpp make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-copy && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-copy\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/vdb-copy/CMakeFiles/vdb-copy.dir/get_platform.c.o -MF CMakeFiles/vdb-copy.dir/get_platform.c.o.d -o CMakeFiles/vdb-copy.dir/get_platform.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/internal/vdb-copy/get_platform.c make -f tools/test-tools/qa-stats/CMakeFiles/qa-stats.dir/build.make tools/test-tools/qa-stats/CMakeFiles/qa-stats.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f tools/test-tools/sam-analyze/CMakeFiles/sam-analyze.dir/build.make tools/test-tools/sam-analyze/CMakeFiles/sam-analyze.dir/build [ 50%] Building C object tools/internal/vdb-copy/CMakeFiles/vdb-copy.dir/copy_meta.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-copy && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-copy\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/vdb-copy/CMakeFiles/vdb-copy.dir/copy_meta.c.o -MF CMakeFiles/vdb-copy.dir/copy_meta.c.o.d -o CMakeFiles/vdb-copy.dir/copy_meta.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/internal/vdb-copy/copy_meta.c make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/vdb-sqlite/sqlite3.c:102378:3: warning: this 'if' clause does not guard... [-Wmisleading-indentation] 102378 | if( a[0]<33 ) a[0] = 33; assert( 33==sqlite3LogEst(10) ); | ^~ make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f tools/test-tools/rnd2sra/CMakeFiles/rnd2sra.dir/build.make tools/test-tools/rnd2sra/CMakeFiles/rnd2sra.dir/build [ 50%] Building CXX object tools/test-tools/qa-stats/CMakeFiles/qa-stats.dir/main.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/test-tools/qa-stats && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT tools/test-tools/qa-stats/CMakeFiles/qa-stats.dir/main.cpp.o -MF CMakeFiles/qa-stats.dir/main.cpp.o.d -o CMakeFiles/qa-stats.dir/main.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/test-tools/qa-stats/main.cpp [ 50%] Building C object tools/internal/vdb-copy/CMakeFiles/vdb-copy.dir/type_matcher.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-copy && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-copy\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/vdb-copy/CMakeFiles/vdb-copy.dir/type_matcher.c.o -MF CMakeFiles/vdb-copy.dir/type_matcher.c.o.d -o CMakeFiles/vdb-copy.dir/type_matcher.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/internal/vdb-copy/type_matcher.c make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 50%] Building CXX object tools/test-tools/sam-analyze/CMakeFiles/sam-analyze.dir/main.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/test-tools/sam-analyze && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT tools/test-tools/sam-analyze/CMakeFiles/sam-analyze.dir/main.cpp.o -MF CMakeFiles/sam-analyze.dir/main.cpp.o.d -o CMakeFiles/sam-analyze.dir/main.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/test-tools/sam-analyze/main.cpp /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/vdb-sqlite/sqlite3.c:102378:45: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'if' 102378 | if( a[0]<33 ) a[0] = 33; assert( 33==sqlite3LogEst(10) ); | ^~~~~~ [ 50%] Linking CXX executable ../../../bin/align-cache [ 50%] Building CXX object tools/test-tools/qa-stats/CMakeFiles/qa-stats.dir/input.cpp.o /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/pacbio-correct.dir/link.d "CMakeFiles/pacbio-correct.dir/pacbio-correct.c.o" -o ../../../bin/pacbio-correct /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm -lmbedx509 -lmbedtls -lmbedcrypto [ 50%] Building CXX object tools/test-tools/rnd2sra/CMakeFiles/rnd2sra.dir/src/rnd2sra.cpp.o [ 51%] Linking CXX executable ../../../bin/sortreadtest cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && rm -f pacbio-correct.3.2.1 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/test-tools/rnd2sra && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT tools/test-tools/rnd2sra/CMakeFiles/rnd2sra.dir/src/rnd2sra.cpp.o -MF CMakeFiles/rnd2sra.dir/src/rnd2sra.cpp.o.d -o CMakeFiles/rnd2sra.dir/src/rnd2sra.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/test-tools/rnd2sra/src/rnd2sra.cpp /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/internal/vdb-copy/copy_meta.c: In function 'enter_date_name_vers': /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/internal/vdb-copy/copy_meta.c:301:59: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 301 | rc = KMDataNodeWriteAttr ( node, "build", __DATE__ ); | ^~~~~~~~ cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/internal/align-cache && /usr/bin/cmake -E cmake_link_script CMakeFiles/align-cache.dir/link.txt --verbose=1 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/test-tools/sortreadtest && /usr/bin/cmake -E cmake_link_script CMakeFiles/sortreadtest.dir/link.txt --verbose=1 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/test-tools/qa-stats && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT tools/test-tools/qa-stats/CMakeFiles/qa-stats.dir/input.cpp.o -MF CMakeFiles/qa-stats.dir/input.cpp.o.d -o CMakeFiles/qa-stats.dir/input.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/test-tools/qa-stats/input.cpp cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && mv pacbio-correct pacbio-correct.3.2.1 [ 51%] Linking CXX executable ../../../bin/testld cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/test-tools/testld && /usr/bin/cmake -E cmake_link_script CMakeFiles/testld.dir/link.txt --verbose=1 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s pacbio-correct.3.2.1 pacbio-correct.3 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s pacbio-correct.3 pacbio-correct make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/kdb-index.dir/link.d "CMakeFiles/kdb-index.dir/kdb-index.c.o" -o ../../../bin/kdb-index /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -lmbedx509 -lmbedtls -lmbedcrypto cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && rm -f kdb-index.3.2.1 /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/read-filter-redact.dir/link.d "CMakeFiles/read-filter-redact.dir/read-filter-redact.c.o" -o ../../../bin/read-filter-redact /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm -lmbedx509 -lmbedtls -lmbedcrypto [ 51%] Building C object tools/internal/vdb-copy/CMakeFiles/vdb-copy.dir/redactval.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && rm -f read-filter-redact.3.2.1 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-copy && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-copy\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/vdb-copy/CMakeFiles/vdb-copy.dir/redactval.c.o -MF CMakeFiles/vdb-copy.dir/redactval.c.o.d -o CMakeFiles/vdb-copy.dir/redactval.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/internal/vdb-copy/redactval.c make -f test/libs/kfile_stream/CMakeFiles/Test_KFile_Stream.dir/build.make test/libs/kfile_stream/CMakeFiles/Test_KFile_Stream.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/libs/kfile_stream /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/libs/kfile_stream /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/libs/kfile_stream/CMakeFiles/Test_KFile_Stream.dir/DependInfo.cmake "--color=" [ 51%] Linking CXX executable ../../../bin/txt2kdb cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && mv read-filter-redact read-filter-redact.3.2.1 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && mv kdb-index kdb-index.3.2.1 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/test-tools/txt2kdb && /usr/bin/cmake -E cmake_link_script CMakeFiles/txt2kdb.dir/link.txt --verbose=1 [ 51%] Built target pacbio-correct cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s read-filter-redact.3.2.1 read-filter-redact.3 /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/make-read-filter.dir/link.d "CMakeFiles/make-read-filter.dir/make-read-filter.c.o" -o ../../../bin/make-read-filter /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm -lmbedx509 -lmbedtls -lmbedcrypto cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s kdb-index.3.2.1 kdb-index.3 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s read-filter-redact.3 read-filter-redact make -f test/vdb/CMakeFiles/Test_VDB.dir/build.make test/vdb/CMakeFiles/Test_VDB.dir/depend make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && rm -f make-read-filter.3.2.1 make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/vdb /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/vdb /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/vdb/CMakeFiles/Test_VDB.dir/DependInfo.cmake "--color=" make -f test/libs/kfile_stream/CMakeFiles/Test_KFile_Stream.dir/build.make test/libs/kfile_stream/CMakeFiles/Test_KFile_Stream.dir/build cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s kdb-index.3 kdb-index [ 51%] Building C object tools/internal/vdb-copy/CMakeFiles/vdb-copy.dir/config_values.c.o [ 51%] Linking CXX executable ../../../bin/compute-coverage make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/schema-replace.dir/link.d "CMakeFiles/schema-replace.dir/schema-replace.c.o" -o ../../../bin/schema-replace /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm -lmbedx509 -lmbedtls -lmbedcrypto cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && mv make-read-filter make-read-filter.3.2.1 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/internal/compute-coverage && /usr/bin/cmake -E cmake_link_script CMakeFiles/compute-coverage.dir/link.txt --verbose=1 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && rm -f schema-replace.3.2.1 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-copy && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-copy\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/vdb-copy/CMakeFiles/vdb-copy.dir/config_values.c.o -MF CMakeFiles/vdb-copy.dir/config_values.c.o.d -o CMakeFiles/vdb-copy.dir/config_values.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/internal/vdb-copy/config_values.c [ 51%] Building C object tools/internal/vdb-diff/CMakeFiles/vdb-diff.dir/cmn.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s make-read-filter.3.2.1 make-read-filter.3 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s make-read-filter.3 make-read-filter cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-diff && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/internal/vdb-diff\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/vdb-diff/CMakeFiles/vdb-diff.dir/cmn.c.o -MF CMakeFiles/vdb-diff.dir/cmn.c.o.d -o CMakeFiles/vdb-diff.dir/cmn.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/internal/vdb-diff/cmn.c make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/meta-repair.dir/link.d "CMakeFiles/meta-repair.dir/meta-repair.c.o" -o ../../../bin/meta-repair /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -lmbedx509 -lmbedtls -lmbedcrypto make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && rm -f meta-repair.3.2.1 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && mv schema-replace schema-replace.3.2.1 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && mv meta-repair meta-repair.3.2.1 make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s meta-repair.3.2.1 meta-repair.3 [ 51%] Linking CXX executable ../../../bin/copycat cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s meta-repair.3 meta-repair cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/internal/copycat && /usr/bin/cmake -E cmake_link_script CMakeFiles/copycat.dir/link.txt --verbose=1 make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s schema-replace.3.2.1 schema-replace.3 /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/samview-util.dir/link.d "CMakeFiles/samview-util.dir/samview.c.o" -o ../../../bin/samview-util /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -lmbedx509 -lmbedtls -lmbedcrypto [ 51%] Building CXX object test/libs/kfile_stream/CMakeFiles/Test_KFile_Stream.dir/custom_stream.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s schema-replace.3 schema-replace cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && rm -f samview-util.3.2.1 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/libs/kfile_stream && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT test/libs/kfile_stream/CMakeFiles/Test_KFile_Stream.dir/custom_stream.cpp.o -MF CMakeFiles/Test_KFile_Stream.dir/custom_stream.cpp.o.d -o CMakeFiles/Test_KFile_Stream.dir/custom_stream.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/libs/kfile_stream/custom_stream.cpp [ 51%] Building C object tools/internal/vdb-diff/CMakeFiles/vdb-diff.dir/row_by_row.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-diff && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/internal/vdb-diff\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/vdb-diff/CMakeFiles/vdb-diff.dir/row_by_row.c.o -MF CMakeFiles/vdb-diff.dir/row_by_row.c.o.d -o CMakeFiles/vdb-diff.dir/row_by_row.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/internal/vdb-diff/row_by_row.c [ 51%] Built target read-filter-redact cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && mv samview-util samview-util.3.2.1 make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/test-download.dir/link.d "CMakeFiles/test-download.dir/test-download.c.o" -o ../../../bin/test-download /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -lmbedx509 -lmbedtls -lmbedcrypto cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && rm -f test-download.3.2.1 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s samview-util.3.2.1 samview-util.3 [ 51%] Built target make-read-filter [ 51%] Built target meta-repair make -f test/vdb/CMakeFiles/Test_VDB.dir/build.make test/vdb/CMakeFiles/Test_VDB.dir/build cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s samview-util.3 samview-util make -f test/vdb/CMakeFiles/Test_WVDB.dir/build.make test/vdb/CMakeFiles/Test_WVDB.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && mv test-download test-download.3.2.1 /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/fastq-dump.dir/link.d "CMakeFiles/fastq-dump.dir/factory.c.o" "CMakeFiles/fastq-dump.dir/fasta_dump.c.o" "CMakeFiles/fastq-dump.dir/core.c.o" "CMakeFiles/fastq-dump.dir/fastq.c.o" -o ../../../bin/fastq-dump /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -lmbedx509 -lmbedtls -lmbedcrypto cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s test-download.3.2.1 test-download.3 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && rm -f fastq-dump.3.2.1 [ 51%] Built target schema-replace [ 51%] Linking CXX executable ../../../bin/rowwritetest make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/vdb /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/vdb /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/vdb/CMakeFiles/Test_WVDB.dir/DependInfo.cmake "--color=" [ 51%] Built target kdb-index cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && mv fastq-dump fastq-dump.3.2.1 make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f test/schema/CMakeFiles/Test_SraSchema_Unit.dir/build.make test/schema/CMakeFiles/Test_SraSchema_Unit.dir/depend cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/test-tools/rowwritetest && /usr/bin/cmake -E cmake_link_script CMakeFiles/rowwritetest.dir/link.txt --verbose=1 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s fastq-dump.3.2.1 fastq-dump.3 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s test-download.3 test-download make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/schema /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/schema /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/schema/CMakeFiles/Test_SraSchema_Unit.dir/DependInfo.cmake "--color=" [ 51%] Building CXX object test/vdb/CMakeFiles/Test_VDB.dir/test-vdb.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/vdb && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT test/vdb/CMakeFiles/Test_VDB.dir/test-vdb.cpp.o -MF CMakeFiles/Test_VDB.dir/test-vdb.cpp.o.d -o CMakeFiles/Test_VDB.dir/test-vdb.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/vdb/test-vdb.cpp make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s fastq-dump.3 fastq-dump /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/sortreadtest.dir/link.d CMakeFiles/sortreadtest.dir/sortreadtest.c.o -o ../../../bin/sortreadtest /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm -lmbedx509 -lmbedtls -lmbedcrypto cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && rm -f sortreadtest.3.2.1 /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/testld.dir/link.d CMakeFiles/testld.dir/testld.c.o -o ../../../bin/testld /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -lmbedx509 -lmbedtls -lmbedcrypto cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && rm -f testld.3.2.1 [ 51%] Building C object tools/internal/vdb-diff/CMakeFiles/vdb-diff.dir/col_by_col.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && mv sortreadtest sortreadtest.3.2.1 make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f test/vdb/CMakeFiles/Test_WVDB.dir/build.make test/vdb/CMakeFiles/Test_WVDB.dir/build cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-diff && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/internal/vdb-diff\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/vdb-diff/CMakeFiles/vdb-diff.dir/col_by_col.c.o -MF CMakeFiles/vdb-diff.dir/col_by_col.c.o.d -o CMakeFiles/vdb-diff.dir/col_by_col.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/internal/vdb-diff/col_by_col.c cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sratools.3.2.1 fastq-dump-driver [ 51%] Building C object tools/test-tools/sam-analyze/CMakeFiles/sam-analyze.dir/sqlite3.c.o [ 51%] Building C object tools/internal/vdb-diff/CMakeFiles/vdb-diff.dir/vdb-diff.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sortreadtest.3.2.1 sortreadtest.3 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/test-tools/sam-analyze && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/test-tools/sam-analyze/CMakeFiles/sam-analyze.dir/sqlite3.c.o -MF CMakeFiles/sam-analyze.dir/sqlite3.c.o.d -o CMakeFiles/sam-analyze.dir/sqlite3.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/test-tools/sam-analyze/sqlite3.c cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sortreadtest.3 sortreadtest cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && mv testld testld.3.2.1 make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/align-cache.dir/link.d "CMakeFiles/align-cache.dir/align-cache.cpp.o" "CMakeFiles/align-cache.dir/helper.cpp.o" -o ../../../bin/align-cache /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a ../../../ilib/libloader.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm -lmbedx509 -lmbedtls -lmbedcrypto cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && rm -f align-cache.3.2.1 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-diff && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/internal/vdb-diff\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/vdb-diff/CMakeFiles/vdb-diff.dir/vdb-diff.c.o -MF CMakeFiles/vdb-diff.dir/vdb-diff.c.o.d -o CMakeFiles/vdb-diff.dir/vdb-diff.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/internal/vdb-diff/vdb-diff.c [ 51%] Built target samview-util cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s testld.3.2.1 testld.3 make -f test/search/CMakeFiles/Test_SEARCH_agrep.dir/build.make test/search/CMakeFiles/Test_SEARCH_agrep.dir/depend make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/search /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/search /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/search/CMakeFiles/Test_SEARCH_agrep.dir/DependInfo.cmake "--color=" [ 51%] Built target test-download cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s testld.3 testld make -f test/schema/CMakeFiles/Test_SraSchema_Unit.dir/build.make test/schema/CMakeFiles/Test_SraSchema_Unit.dir/build cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && mv align-cache align-cache.3.2.1 [ 51%] Building C object tools/internal/vdb-copy/CMakeFiles/vdb-copy.dir/vdb-copy.c.o [ 51%] Building CXX object tools/external/driver-tool/CMakeFiles/sratools.dir/uuid.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/driver-tool && /usr/bin/c++ -DBUILD_PATH=\"/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin\" -DLINUX -DNDEBUG -DPREFIX_PATH=\"\" -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/driver-tool\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT tools/external/driver-tool/CMakeFiles/sratools.dir/uuid.cpp.o -MF CMakeFiles/sratools.dir/uuid.cpp.o.d -o CMakeFiles/sratools.dir/uuid.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/driver-tool/uuid.cpp cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-copy && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-copy\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/vdb-copy/CMakeFiles/vdb-copy.dir/vdb-copy.c.o -MF CMakeFiles/vdb-copy.dir/vdb-copy.c.o.d -o CMakeFiles/vdb-copy.dir/vdb-copy.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/internal/vdb-copy/vdb-copy.c make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f test/external/ngs/ngs-java/CMakeFiles/test-ngs-java.dir/build.make test/external/ngs/ngs-java/CMakeFiles/test-ngs-java.dir/depend cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s align-cache.3.2.1 align-cache.3 make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 51%] Building CXX object test/vdb/CMakeFiles/Test_WVDB.dir/test-wvdb.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/vdb && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT test/vdb/CMakeFiles/Test_WVDB.dir/test-wvdb.cpp.o -MF CMakeFiles/Test_WVDB.dir/test-wvdb.cpp.o.d -o CMakeFiles/Test_WVDB.dir/test-wvdb.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/vdb/test-wvdb.cpp cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s align-cache.3 align-cache make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/ngs/ngs-java /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/external/ngs/ngs-java /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/external/ngs/ngs-java/CMakeFiles/test-ngs-java.dir/DependInfo.cmake "--color=" [ 51%] Built target fastq-dump make -f test/external/align-info/CMakeFiles/Build-align-info.dir/build.make test/external/align-info/CMakeFiles/Build-align-info.dir/depend make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 51%] Built target sortreadtest make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/txt2kdb.dir/link.d CMakeFiles/txt2kdb.dir/txt2kdb.c.o -o ../../../bin/txt2kdb /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm -lmbedx509 -lmbedtls -lmbedcrypto cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && rm -f txt2kdb.3.2.1 make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/align-info /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/external/align-info /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/external/align-info/CMakeFiles/Build-align-info.dir/DependInfo.cmake "--color=" cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && mv txt2kdb txt2kdb.3.2.1 [ 51%] Building CXX object test/schema/CMakeFiles/Test_SraSchema_Unit.dir/test-schema.cpp.o [ 51%] Built target testld cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/schema && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT test/schema/CMakeFiles/Test_SraSchema_Unit.dir/test-schema.cpp.o -MF CMakeFiles/Test_SraSchema_Unit.dir/test-schema.cpp.o.d -o CMakeFiles/Test_SraSchema_Unit.dir/test-schema.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/schema/test-schema.cpp make -f test/search/CMakeFiles/Test_SEARCH_agrep.dir/build.make test/search/CMakeFiles/Test_SEARCH_agrep.dir/build [ 51%] Built target align-cache make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 51%] Building CXX object tools/external/driver-tool/CMakeFiles/sratools.dir/accession.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/driver-tool && /usr/bin/c++ -DBUILD_PATH=\"/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin\" -DLINUX -DNDEBUG -DPREFIX_PATH=\"\" -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/driver-tool\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT tools/external/driver-tool/CMakeFiles/sratools.dir/accession.cpp.o -MF CMakeFiles/sratools.dir/accession.cpp.o.d -o CMakeFiles/sratools.dir/accession.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/driver-tool/accession.cpp make -f test/external/driver-tool/CMakeFiles/Test_Drivertool_BuildVersion.dir/build.make test/external/driver-tool/CMakeFiles/Test_Drivertool_BuildVersion.dir/depend cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s txt2kdb.3.2.1 txt2kdb.3 [ 51%] Building CXX object tools/external/driver-tool/CMakeFiles/sratools.dir/service.cpp.o [ 51%] Building CXX object tools/external/driver-tool/CMakeFiles/sratools.dir/json-parse.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/driver-tool && /usr/bin/c++ -DBUILD_PATH=\"/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin\" -DLINUX -DNDEBUG -DPREFIX_PATH=\"\" -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/driver-tool\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT tools/external/driver-tool/CMakeFiles/sratools.dir/service.cpp.o -MF CMakeFiles/sratools.dir/service.cpp.o.d -o CMakeFiles/sratools.dir/service.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/driver-tool/service.cpp make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f test/external/ngs/ngs-java/CMakeFiles/test-ngs-java.dir/build.make test/external/ngs/ngs-java/CMakeFiles/test-ngs-java.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/driver-tool /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool/CMakeFiles/Test_Drivertool_BuildVersion.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s txt2kdb.3 txt2kdb cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/driver-tool && /usr/bin/c++ -DBUILD_PATH=\"/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin\" -DLINUX -DNDEBUG -DPREFIX_PATH=\"\" -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/driver-tool\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT tools/external/driver-tool/CMakeFiles/sratools.dir/json-parse.cpp.o -MF CMakeFiles/sratools.dir/json-parse.cpp.o.d -o CMakeFiles/sratools.dir/json-parse.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/driver-tool/json-parse.cpp [ 51%] Building CXX object test/search/CMakeFiles/Test_SEARCH_agrep.dir/test-agrep.cpp.o make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f test/external/align-info/CMakeFiles/Build-align-info.dir/build.make test/external/align-info/CMakeFiles/Build-align-info.dir/build cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/search && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"test/search\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT test/search/CMakeFiles/Test_SEARCH_agrep.dir/test-agrep.cpp.o -MF CMakeFiles/Test_SEARCH_agrep.dir/test-agrep.cpp.o.d -o CMakeFiles/Test_SEARCH_agrep.dir/test-agrep.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/search/test-agrep.cpp make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'test/external/align-info/CMakeFiles/Build-align-info.dir/build'. make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/compute-coverage.dir/link.d "CMakeFiles/compute-coverage.dir/compute-coverage.cpp.o" -o ../../../bin/compute-coverage ../../../ilib/libtk-version.a -lkapp /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -lmbedx509 -lmbedtls -lmbedcrypto /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && rm -f compute-coverage.3.2.1 make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 51%] Building C object test/search/CMakeFiles/Test_SEARCH_agrep.dir/agrep-main.c.o /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/copycat.dir/link.d CMakeFiles/copycat.dir/copycat.c.o CMakeFiles/copycat.dir/ccfileformat.c.o CMakeFiles/copycat.dir/cccat.c.o CMakeFiles/copycat.dir/cctree.c.o "CMakeFiles/copycat.dir/cctree-dump.c.o" CMakeFiles/copycat.dir/cctar.c.o CMakeFiles/copycat.dir/ccsra.c.o CMakeFiles/copycat.dir/ccsubchunk.c.o CMakeFiles/copycat.dir/ccfile.c.o CMakeFiles/copycat.dir/kff/fileformat.c.o CMakeFiles/copycat.dir/kff/ffext.c.o CMakeFiles/copycat.dir/kff/ffkey.c.o CMakeFiles/copycat.dir/kff/ffmagic.c.o -o ../../../bin/copycat /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -lmbedx509 -lmbedtls -lmbedcrypto /usr/lib/x86_64-linux-gnu/libmagic.so cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && rm -f copycat.3.2.1 make -f test/external/driver-tool/CMakeFiles/Test_Drivertool_BuildVersion.dir/build.make test/external/driver-tool/CMakeFiles/Test_Drivertool_BuildVersion.dir/build cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && mv compute-coverage compute-coverage.3.2.1 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/search && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"test/search\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT test/search/CMakeFiles/Test_SEARCH_agrep.dir/agrep-main.c.o -MF CMakeFiles/Test_SEARCH_agrep.dir/agrep-main.c.o.d -o CMakeFiles/Test_SEARCH_agrep.dir/agrep-main.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/search/agrep-main.c [ 52%] Building Java objects for test-ngs-java.jar cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/ngs/ngs-java && /usr/bin/cmake -DCMAKE_JAVA_CLASS_OUTPUT_PATH=/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/external/ngs/ngs-java/CMakeFiles/test-ngs-java.dir -DCMAKE_JAR_CLASSES_PREFIX= -P /usr/share/cmake-3.31/Modules/UseJava/ClearClassFiles.cmake --log-level STATUS cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && mv copycat copycat.3.2.1 [ 52%] Building CXX object test/search/CMakeFiles/Test_SEARCH_agrep.dir/search-vdb.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s compute-coverage.3.2.1 compute-coverage.3 make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/search && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"test/search\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT test/search/CMakeFiles/Test_SEARCH_agrep.dir/search-vdb.cpp.o -MF CMakeFiles/Test_SEARCH_agrep.dir/search-vdb.cpp.o.d -o CMakeFiles/Test_SEARCH_agrep.dir/search-vdb.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/search/search-vdb.cpp [ 52%] Building CXX object tools/external/driver-tool/CMakeFiles/sratools.dir/SDL-response.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/driver-tool && /usr/bin/c++ -DBUILD_PATH=\"/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin\" -DLINUX -DNDEBUG -DPREFIX_PATH=\"\" -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/driver-tool\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT tools/external/driver-tool/CMakeFiles/sratools.dir/SDL-response.cpp.o -MF CMakeFiles/sratools.dir/SDL-response.cpp.o.d -o CMakeFiles/sratools.dir/SDL-response.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/driver-tool/SDL-response.cpp [ 52%] Built target Build-align-info make -f test/external/driver-tool/CMakeFiles/Test_Drivertool_FilePath.dir/build.make test/external/driver-tool/CMakeFiles/Test_Drivertool_FilePath.dir/depend cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s compute-coverage.3 compute-coverage cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s copycat.3.2.1 copycat.3 [ 52%] Built target txt2kdb /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/rowwritetest.dir/link.d CMakeFiles/rowwritetest.dir/rowwritetest.c.o -o ../../../bin/rowwritetest /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm -lmbedx509 -lmbedtls -lmbedcrypto cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && rm -f rowwritetest.3.2.1 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/ngs/ngs-java && /usr/bin/javac -classpath :/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/lib/ngs-java.jar:/build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/ngs/ngs-java/junit-4.11.jar:/build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/ngs/ngs-java:/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/lib:/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/lib/ngs-java.jar:/build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/ngs/ngs-java/junit-4.11.jar -d /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/external/ngs/ngs-java/CMakeFiles/test-ngs-java.dir @/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/external/ngs/ngs-java/CMakeFiles/test-ngs-java.dir/java_sources make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/driver-tool /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool/CMakeFiles/Test_Drivertool_FilePath.dir/DependInfo.cmake "--color=" make -f test/external/driver-tool/CMakeFiles/Test_Drivertool_CommandLine.dir/build.make test/external/driver-tool/CMakeFiles/Test_Drivertool_CommandLine.dir/depend cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && mv rowwritetest rowwritetest.3.2.1 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s copycat.3 copycat make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 52%] Building CXX object test/external/driver-tool/CMakeFiles/Test_Drivertool_BuildVersion.dir/test-build-version.cpp.o [ 52%] Building CXX object tools/external/driver-tool/CMakeFiles/sratools.dir/tool-args.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/driver-tool/../../../tools/external/driver-tool -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT test/external/driver-tool/CMakeFiles/Test_Drivertool_BuildVersion.dir/test-build-version.cpp.o -MF CMakeFiles/Test_Drivertool_BuildVersion.dir/test-build-version.cpp.o.d -o CMakeFiles/Test_Drivertool_BuildVersion.dir/test-build-version.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/driver-tool/test-build-version.cpp cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/driver-tool && /usr/bin/c++ -DBUILD_PATH=\"/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin\" -DLINUX -DNDEBUG -DPREFIX_PATH=\"\" -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/driver-tool\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT tools/external/driver-tool/CMakeFiles/sratools.dir/tool-args.cpp.o -MF CMakeFiles/sratools.dir/tool-args.cpp.o.d -o CMakeFiles/sratools.dir/tool-args.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/driver-tool/tool-args.cpp make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/driver-tool /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool/CMakeFiles/Test_Drivertool_CommandLine.dir/DependInfo.cmake "--color=" cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s rowwritetest.3.2.1 rowwritetest.3 make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s rowwritetest.3 rowwritetest make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 52%] Built target compute-coverage /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/search/agrep-main.c: In function 'main_agrep_test': /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/search/agrep-main.c:229:13: warning: variable 'slow' set but not used [-Wunused-but-set-variable] 229 | int32_t slow = 0; | ^~~~ /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/search/agrep-main.c:228:13: warning: variable 'count' set but not used [-Wunused-but-set-variable] 228 | int32_t count; | ^~~~~ make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f test/external/driver-tool/CMakeFiles/Test_Drivertool_FilePath.dir/build.make test/external/driver-tool/CMakeFiles/Test_Drivertool_FilePath.dir/build [ 52%] Built target rowwritetest make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f test/external/driver-tool/CMakeFiles/Test_Drivertool_CommandLine.dir/build.make test/external/driver-tool/CMakeFiles/Test_Drivertool_CommandLine.dir/build [ 52%] Built target copycat make -f test/external/driver-tool/CMakeFiles/Test_Drivertool_JsonParsing.dir/build.make test/external/driver-tool/CMakeFiles/Test_Drivertool_JsonParsing.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 52%] Linking CXX executable ../../../bin/vdb-diff cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-diff && /usr/bin/cmake -E cmake_link_script CMakeFiles/vdb-diff.dir/link.txt --verbose=1 make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/driver-tool /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool/CMakeFiles/Test_Drivertool_JsonParsing.dir/DependInfo.cmake "--color=" [ 52%] Building CXX object test/external/driver-tool/CMakeFiles/Test_Drivertool_FilePath.dir/test-filepath.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/driver-tool/../../../tools/external/driver-tool -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT test/external/driver-tool/CMakeFiles/Test_Drivertool_FilePath.dir/test-filepath.cpp.o -MF CMakeFiles/Test_Drivertool_FilePath.dir/test-filepath.cpp.o.d -o CMakeFiles/Test_Drivertool_FilePath.dir/test-filepath.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/driver-tool/test-filepath.cpp [ 52%] Building CXX object test/external/driver-tool/CMakeFiles/Test_Drivertool_CommandLine.dir/test-command-line.cpp.o [ 53%] Building CXX object tools/external/driver-tool/CMakeFiles/sratools.dir/build-version.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/driver-tool && /usr/bin/c++ -DBUILD_PATH=\"/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin\" -DLINUX -DNDEBUG -DPREFIX_PATH=\"\" -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/driver-tool\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT tools/external/driver-tool/CMakeFiles/sratools.dir/build-version.cpp.o -MF CMakeFiles/sratools.dir/build-version.cpp.o.d -o CMakeFiles/sratools.dir/build-version.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/driver-tool/build-version.cpp cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/driver-tool/../../../tools/external/driver-tool -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT test/external/driver-tool/CMakeFiles/Test_Drivertool_CommandLine.dir/test-command-line.cpp.o -MF CMakeFiles/Test_Drivertool_CommandLine.dir/test-command-line.cpp.o.d -o CMakeFiles/Test_Drivertool_CommandLine.dir/test-command-line.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/driver-tool/test-command-line.cpp [ 54%] Linking CXX executable ../../../bin/vdb-dump cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-dump && /usr/bin/cmake -E cmake_link_script CMakeFiles/vdb-dump.dir/link.txt --verbose=1 [ 54%] Building CXX object tools/external/driver-tool/CMakeFiles/sratools.dir/file-path.posix.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/driver-tool && /usr/bin/c++ -DBUILD_PATH=\"/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin\" -DLINUX -DNDEBUG -DPREFIX_PATH=\"\" -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/driver-tool\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT tools/external/driver-tool/CMakeFiles/sratools.dir/file-path.posix.cpp.o -MF CMakeFiles/sratools.dir/file-path.posix.cpp.o.d -o CMakeFiles/sratools.dir/file-path.posix.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/driver-tool/file-path.posix.cpp make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f test/external/driver-tool/CMakeFiles/Test_Drivertool_JsonParsing.dir/build.make test/external/driver-tool/CMakeFiles/Test_Drivertool_JsonParsing.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 54%] Building CXX object tools/external/driver-tool/CMakeFiles/sratools.dir/proc.posix.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/driver-tool && /usr/bin/c++ -DBUILD_PATH=\"/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin\" -DLINUX -DNDEBUG -DPREFIX_PATH=\"\" -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/driver-tool\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT tools/external/driver-tool/CMakeFiles/sratools.dir/proc.posix.cpp.o -MF CMakeFiles/sratools.dir/proc.posix.cpp.o.d -o CMakeFiles/sratools.dir/proc.posix.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/driver-tool/proc.posix.cpp [ 55%] Building CXX object test/external/driver-tool/CMakeFiles/Test_Drivertool_JsonParsing.dir/test-json-parse.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/driver-tool/../../../tools/external/driver-tool -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT test/external/driver-tool/CMakeFiles/Test_Drivertool_JsonParsing.dir/test-json-parse.cpp.o -MF CMakeFiles/Test_Drivertool_JsonParsing.dir/test-json-parse.cpp.o.d -o CMakeFiles/Test_Drivertool_JsonParsing.dir/test-json-parse.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/driver-tool/test-json-parse.cpp make -f test/external/driver-tool/CMakeFiles/Test_Drivertool_SDLResponse.dir/build.make test/external/driver-tool/CMakeFiles/Test_Drivertool_SDLResponse.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/driver-tool /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool/CMakeFiles/Test_Drivertool_SDLResponse.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f test/external/driver-tool/CMakeFiles/Test_Drivertool_SDLResponse.dir/build.make test/external/driver-tool/CMakeFiles/Test_Drivertool_SDLResponse.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' In file included from /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/driver-tool/sratools.hpp:31, from /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/driver-tool/run-source.hpp:39, from /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/driver-tool/run-source.cpp:51: /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/driver-tool/accession.hpp: In static member function 'static const char* sratools::Accession::qualityTypeFor(const char*)': /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/driver-tool/accession.hpp:82:56: warning: possibly dangling reference to a temporary [-Wdangling-reference] 82 | for (auto ext : make_sequence(&extensions[1], 3)) { | ^ [ 55%] Building CXX object test/external/driver-tool/CMakeFiles/Test_Drivertool_SDLResponse.dir/test-sdl-response.cpp.o /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/driver-tool/accession.hpp:82:38: note: the temporary was destroyed at the end of the full expression 'make_sequence((& sratools::Accession::extensions[1]), 3)' 82 | for (auto ext : make_sequence(&extensions[1], 3)) { | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~ /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/vdb-diff.dir/link.d "CMakeFiles/vdb-diff.dir/namelist_tools.c.o" "CMakeFiles/vdb-diff.dir/coldefs.c.o" "CMakeFiles/vdb-diff.dir/vdb-diff-context.c.o" "CMakeFiles/vdb-diff.dir/cmn.c.o" "CMakeFiles/vdb-diff.dir/row_by_row.c.o" "CMakeFiles/vdb-diff.dir/col_by_col.c.o" "CMakeFiles/vdb-diff.dir/vdb-diff.c.o" -o ../../../bin/vdb-diff /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -lmbedx509 -lmbedtls -lmbedcrypto cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/driver-tool/../../../tools/external/driver-tool -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT test/external/driver-tool/CMakeFiles/Test_Drivertool_SDLResponse.dir/test-sdl-response.cpp.o -MF CMakeFiles/Test_Drivertool_SDLResponse.dir/test-sdl-response.cpp.o.d -o CMakeFiles/Test_Drivertool_SDLResponse.dir/test-sdl-response.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/driver-tool/test-sdl-response.cpp cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && rm -f vdb-diff.3.2.1 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && mv vdb-diff vdb-diff.3.2.1 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s vdb-diff.3.2.1 vdb-diff.3 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s vdb-diff.3 vdb-diff make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 55%] Built target vdb-diff make -f test/external/driver-tool/CMakeFiles/Test_Drivertool_Accession.dir/build.make test/external/driver-tool/CMakeFiles/Test_Drivertool_Accession.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/driver-tool /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool/CMakeFiles/Test_Drivertool_Accession.dir/DependInfo.cmake "--color=" /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/vdb-dump.dir/link.d "CMakeFiles/vdb-dump.dir/vdb-dump-context.c.o" "CMakeFiles/vdb-dump.dir/vdb-dump-coldefs.c.o" "CMakeFiles/vdb-dump.dir/vdb-dump-tools.c.o" "CMakeFiles/vdb-dump.dir/vdb-dump-str.c.o" "CMakeFiles/vdb-dump.dir/vdb-dump-helper.c.o" "CMakeFiles/vdb-dump.dir/vdb-dump-formats.c.o" "CMakeFiles/vdb-dump.dir/vdb-dump-redir.c.o" "CMakeFiles/vdb-dump.dir/vdb-dump-fastq.c.o" "CMakeFiles/vdb-dump.dir/vdb-dump-view-spec.c.o" "CMakeFiles/vdb-dump.dir/vdb-dump-inspect.c.o" "CMakeFiles/vdb-dump.dir/vdb_info.c.o" "CMakeFiles/vdb-dump.dir/vdb-dump.c.o" -o ../../../bin/vdb-dump /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -lmbedx509 -lmbedtls -lmbedcrypto cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && rm -f vdb-dump.3.2.1 make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && mv vdb-dump vdb-dump.3.2.1 make -f test/external/driver-tool/CMakeFiles/Test_Drivertool_Accession.dir/build.make test/external/driver-tool/CMakeFiles/Test_Drivertool_Accession.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s vdb-dump.3.2.1 vdb-dump.3 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s vdb-dump.3 vdb-dump make -f test/external/driver-tool/CMakeFiles/Test_Drivertool_UUID.dir/build.make test/external/driver-tool/CMakeFiles/Test_Drivertool_UUID.dir/depend cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sratools.3.2.1 vdb-dump-driver make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/driver-tool /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool/CMakeFiles/Test_Drivertool_UUID.dir/DependInfo.cmake "--color=" [ 55%] Linking CXX executable ../../../bin/vdb-copy cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-copy && /usr/bin/cmake -E cmake_link_script CMakeFiles/vdb-copy.dir/link.txt --verbose=1 [ 55%] Building CXX object test/external/driver-tool/CMakeFiles/Test_Drivertool_Accession.dir/test-accession.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/driver-tool/../../../tools/external/driver-tool -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT test/external/driver-tool/CMakeFiles/Test_Drivertool_Accession.dir/test-accession.cpp.o -MF CMakeFiles/Test_Drivertool_Accession.dir/test-accession.cpp.o.d -o CMakeFiles/Test_Drivertool_Accession.dir/test-accession.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/driver-tool/test-accession.cpp make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f test/external/driver-tool/CMakeFiles/Test_Drivertool_UUID.dir/build.make test/external/driver-tool/CMakeFiles/Test_Drivertool_UUID.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 55%] Built target vdb-dump make -f test/external/driver-tool/CMakeFiles/Test_Drivertool_RunSource.dir/build.make test/external/driver-tool/CMakeFiles/Test_Drivertool_RunSource.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/driver-tool /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool/CMakeFiles/Test_Drivertool_RunSource.dir/DependInfo.cmake "--color=" [ 56%] Building CXX object test/external/driver-tool/CMakeFiles/Test_Drivertool_UUID.dir/test-uuid.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/driver-tool/../../../tools/external/driver-tool -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT test/external/driver-tool/CMakeFiles/Test_Drivertool_UUID.dir/test-uuid.cpp.o -MF CMakeFiles/Test_Drivertool_UUID.dir/test-uuid.cpp.o.d -o CMakeFiles/Test_Drivertool_UUID.dir/test-uuid.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/driver-tool/test-uuid.cpp make -f test/external/driver-tool/CMakeFiles/Test_Drivertool_ToolArgs.dir/build.make test/external/driver-tool/CMakeFiles/Test_Drivertool_ToolArgs.dir/depend make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f test/external/driver-tool/CMakeFiles/Test_Drivertool_RunSource.dir/build.make test/external/driver-tool/CMakeFiles/Test_Drivertool_RunSource.dir/build cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/driver-tool /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool/CMakeFiles/Test_Drivertool_ToolArgs.dir/DependInfo.cmake "--color=" /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/driver-tool/proc.cpp: In function 'void printEnvironment(bool)': /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/driver-tool/proc.cpp:68:93: warning: possibly dangling reference to a temporary [-Wdangling-reference] 68 | for (auto name : make_sequence(constants::env_var::names(), constants::env_var::END_ENUM)) | ^ /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/driver-tool/proc.cpp:68:35: note: the temporary was destroyed at the end of the full expression 'make_sequence(constants::env_var::names(), ((size_t)constants::env_var::END_ENUM))' 68 | for (auto name : make_sequence(constants::env_var::names(), constants::env_var::END_ENUM)) | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/driver-tool/proc.cpp: In function 'std::ostream& jsonPrintEnvVars(std::ostream&)': /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/driver-tool/proc.cpp:183:93: warning: possibly dangling reference to a temporary [-Wdangling-reference] 183 | for (auto name : make_sequence(constants::env_var::names(), constants::env_var::END_ENUM)) | ^ /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/driver-tool/proc.cpp:183:35: note: the temporary was destroyed at the end of the full expression 'make_sequence(constants::env_var::names(), ((size_t)constants::env_var::END_ENUM))' 183 | for (auto name : make_sequence(constants::env_var::names(), constants::env_var::END_ENUM)) | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/driver-tool/proc.cpp: In function 'void testing_5()': /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/driver-tool/proc.cpp:228:93: warning: possibly dangling reference to a temporary [-Wdangling-reference] 228 | for (auto name : make_sequence(constants::env_var::names(), constants::env_var::END_ENUM)) { | ^ /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/driver-tool/proc.cpp:228:35: note: the temporary was destroyed at the end of the full expression 'make_sequence(constants::env_var::names(), ((size_t)constants::env_var::END_ENUM))' 228 | for (auto name : make_sequence(constants::env_var::names(), constants::env_var::END_ENUM)) { | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 56%] Building CXX object test/external/driver-tool/CMakeFiles/Test_Drivertool_RunSource.dir/test-run-source.cpp.o make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/driver-tool/../../../tools/external/driver-tool -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT test/external/driver-tool/CMakeFiles/Test_Drivertool_RunSource.dir/test-run-source.cpp.o -MF CMakeFiles/Test_Drivertool_RunSource.dir/test-run-source.cpp.o.d -o CMakeFiles/Test_Drivertool_RunSource.dir/test-run-source.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/driver-tool/test-run-source.cpp make -f test/external/driver-tool/CMakeFiles/Test_Drivertool_ToolArgs.dir/build.make test/external/driver-tool/CMakeFiles/Test_Drivertool_ToolArgs.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 56%] Building CXX object test/external/driver-tool/CMakeFiles/Test_Drivertool_ToolArgs.dir/test-tool-args.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/driver-tool/../../../tools/external/driver-tool -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT test/external/driver-tool/CMakeFiles/Test_Drivertool_ToolArgs.dir/test-tool-args.cpp.o -MF CMakeFiles/Test_Drivertool_ToolArgs.dir/test-tool-args.cpp.o.d -o CMakeFiles/Test_Drivertool_ToolArgs.dir/test-tool-args.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/driver-tool/test-tool-args.cpp /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/vdb-copy.dir/link.d "CMakeFiles/vdb-copy.dir/context.c.o" "CMakeFiles/vdb-copy.dir/helper.c.o" "CMakeFiles/vdb-copy.dir/coldefs.c.o" "CMakeFiles/vdb-copy.dir/get_platform.c.o" "CMakeFiles/vdb-copy.dir/copy_meta.c.o" "CMakeFiles/vdb-copy.dir/type_matcher.c.o" "CMakeFiles/vdb-copy.dir/redactval.c.o" "CMakeFiles/vdb-copy.dir/config_values.c.o" "CMakeFiles/vdb-copy.dir/vdb-copy.c.o" -o ../../../bin/vdb-copy /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm -lmbedx509 -lmbedtls -lmbedcrypto cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && rm -f vdb-copy.3.2.1 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && mv vdb-copy vdb-copy.3.2.1 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s vdb-copy.3.2.1 vdb-copy.3 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s vdb-copy.3 vdb-copy cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-copy && /usr/bin/cmake -E copy /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/internal/vdb-copy/vdb-copy.kfg /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/ncbi/vdb-copy.kfg make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 56%] Built target vdb-copy make -f test/external/kdbmeta/CMakeFiles/Build-kdbmeta.dir/build.make test/external/kdbmeta/CMakeFiles/Build-kdbmeta.dir/depend [ 56%] Linking CXX executable ../../../bin/sam-dump make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/kdbmeta /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/external/kdbmeta /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/external/kdbmeta/CMakeFiles/Build-kdbmeta.dir/DependInfo.cmake "--color=" cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cmake -E cmake_link_script CMakeFiles/sam-dump.dir/link.txt --verbose=1 make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f test/external/kdbmeta/CMakeFiles/Build-kdbmeta.dir/build.make test/external/kdbmeta/CMakeFiles/Build-kdbmeta.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'test/external/kdbmeta/CMakeFiles/Build-kdbmeta.dir/build'. make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 56%] Built target Build-kdbmeta make -f test/external/prefetch/CMakeFiles/test-quality.dir/build.make test/external/prefetch/CMakeFiles/test-quality.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/prefetch /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/external/prefetch /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/external/prefetch/CMakeFiles/test-quality.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f test/external/prefetch/CMakeFiles/test-quality.dir/build.make test/external/prefetch/CMakeFiles/test-quality.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/sam-dump.dir/link.d "CMakeFiles/sam-dump.dir/inputfiles.c.o" "CMakeFiles/sam-dump.dir/perf_log.c.o" "CMakeFiles/sam-dump.dir/rna_splice_log.c.o" "CMakeFiles/sam-dump.dir/sam-dump-opts.c.o" "CMakeFiles/sam-dump.dir/out_redir.c.o" "CMakeFiles/sam-dump.dir/sam-hdr.c.o" "CMakeFiles/sam-dump.dir/sam-hdr1.c.o" "CMakeFiles/sam-dump.dir/matecache.c.o" "CMakeFiles/sam-dump.dir/read_fkt.c.o" "CMakeFiles/sam-dump.dir/sam-aligned.c.o" "CMakeFiles/sam-dump.dir/sam-unaligned.c.o" "CMakeFiles/sam-dump.dir/md_flag.c.o" "CMakeFiles/sam-dump.dir/cg_tools.c.o" "CMakeFiles/sam-dump.dir/sam-dump.c.o" "CMakeFiles/sam-dump.dir/sam-dump3.c.o" "CMakeFiles/sam-dump.dir/dyn_string.c.o" -o ../../../bin/sam-dump /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -lmbedx509 -lmbedtls -lmbedcrypto [ 56%] Building CXX object test/external/prefetch/CMakeFiles/test-quality.dir/test-quality.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && rm -f sam-dump.3.2.1 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/external/prefetch && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"test/external/prefetch\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT test/external/prefetch/CMakeFiles/test-quality.dir/test-quality.cpp.o -MF CMakeFiles/test-quality.dir/test-quality.cpp.o.d -o CMakeFiles/test-quality.dir/test-quality.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/prefetch/test-quality.cpp cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && mv sam-dump sam-dump.3.2.1 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sam-dump.3.2.1 sam-dump.3 In file included from /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/driver-tool/accession.cpp:36: /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/driver-tool/accession.hpp: In static member function 'static const char* sratools::Accession::qualityTypeFor(const char*)': /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/driver-tool/accession.hpp:82:56: warning: possibly dangling reference to a temporary [-Wdangling-reference] 82 | for (auto ext : make_sequence(&extensions[1], 3)) { | ^ /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/driver-tool/accession.hpp:82:38: note: the temporary was destroyed at the end of the full expression 'make_sequence((& sratools::Accession::extensions[1]), 3)' 82 | for (auto ext : make_sequence(&extensions[1], 3)) { | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~ cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sam-dump.3 sam-dump cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sratools.3.2.1 sam-dump-driver make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f test/external/srapath/CMakeFiles/Build-srapath.dir/build.make test/external/srapath/CMakeFiles/Build-srapath.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/srapath /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/external/srapath /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/external/srapath/CMakeFiles/Build-srapath.dir/DependInfo.cmake "--color=" [ 56%] Built target sam-dump make -f test/external/sra-pileup/CMakeFiles/Build-sra-pileup.dir/build.make test/external/sra-pileup/CMakeFiles/Build-sra-pileup.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/sra-pileup /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/external/sra-pileup /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/external/sra-pileup/CMakeFiles/Build-sra-pileup.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f test/external/srapath/CMakeFiles/Build-srapath.dir/build.make test/external/srapath/CMakeFiles/Build-srapath.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'test/external/srapath/CMakeFiles/Build-srapath.dir/build'. make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f test/external/sra-pileup/CMakeFiles/Build-sra-pileup.dir/build.make test/external/sra-pileup/CMakeFiles/Build-sra-pileup.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'test/external/sra-pileup/CMakeFiles/Build-sra-pileup.dir/build'. make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 56%] Built target Build-srapath make -f test/external/sra-stat/CMakeFiles/testAssemblyStatistics.dir/build.make test/external/sra-stat/CMakeFiles/testAssemblyStatistics.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/sra-stat /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/external/sra-stat /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/external/sra-stat/CMakeFiles/testAssemblyStatistics.dir/DependInfo.cmake "--color=" [ 56%] Built target Build-sra-pileup make -f test/external/vdb-config/CMakeFiles/test-vdb-config-model.dir/build.make test/external/vdb-config/CMakeFiles/test-vdb-config-model.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/vdb-config /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/external/vdb-config /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/external/vdb-config/CMakeFiles/test-vdb-config-model.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f test/external/sra-stat/CMakeFiles/testAssemblyStatistics.dir/build.make test/external/sra-stat/CMakeFiles/testAssemblyStatistics.dir/build [ 57%] Linking CXX executable ../../../bin/sra-stat cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/sra-stat && /usr/bin/cmake -E cmake_link_script CMakeFiles/sra-stat.dir/link.txt --verbose=1 make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f test/external/vdb-config/CMakeFiles/test-vdb-config-model.dir/build.make test/external/vdb-config/CMakeFiles/test-vdb-config-model.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f test/external/vdb-dump/CMakeFiles/Test_Vdb_dump_view-spec.dir/build.make test/external/vdb-dump/CMakeFiles/Test_Vdb_dump_view-spec.dir/depend [ 57%] Building CXX object test/external/sra-stat/CMakeFiles/testAssemblyStatistics.dir/testAssemblyStatistics.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/external/sra-stat && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"test/external/sra-stat\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT test/external/sra-stat/CMakeFiles/testAssemblyStatistics.dir/testAssemblyStatistics.cpp.o -MF CMakeFiles/testAssemblyStatistics.dir/testAssemblyStatistics.cpp.o.d -o CMakeFiles/testAssemblyStatistics.dir/testAssemblyStatistics.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/sra-stat/testAssemblyStatistics.cpp [ 57%] Linking CXX executable ../../../test-bin/test-quality make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/external/prefetch && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-quality.dir/link.txt --verbose=1 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/vdb-dump /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/external/vdb-dump /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/external/vdb-dump/CMakeFiles/Test_Vdb_dump_view-spec.dir/DependInfo.cmake "--color=" [ 57%] Building CXX object test/external/vdb-config/CMakeFiles/test-vdb-config-model.dir/test-vdb-config-model.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/external/vdb-config && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"test/external/vdb-config\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT test/external/vdb-config/CMakeFiles/test-vdb-config-model.dir/test-vdb-config-model.cpp.o -MF CMakeFiles/test-vdb-config-model.dir/test-vdb-config-model.cpp.o.d -o CMakeFiles/test-vdb-config-model.dir/test-vdb-config-model.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/vdb-config/test-vdb-config-model.cpp make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f test/external/vdb-dump/CMakeFiles/Test_Vdb_dump_view-spec.dir/build.make test/external/vdb-dump/CMakeFiles/Test_Vdb_dump_view-spec.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 57%] Building CXX object test/external/vdb-dump/CMakeFiles/Test_Vdb_dump_view-spec.dir/test-view-spec.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/external/vdb-dump && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"test/external/vdb-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/vdb-dump -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT test/external/vdb-dump/CMakeFiles/Test_Vdb_dump_view-spec.dir/test-view-spec.cpp.o -MF CMakeFiles/Test_Vdb_dump_view-spec.dir/test-view-spec.cpp.o.d -o CMakeFiles/Test_Vdb_dump_view-spec.dir/test-view-spec.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/vdb-dump/test-view-spec.cpp make -f test/external/vdb-dump/CMakeFiles/vdb-dump-makedb.dir/build.make test/external/vdb-dump/CMakeFiles/vdb-dump-makedb.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/vdb-dump /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/external/vdb-dump /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/external/vdb-dump/CMakeFiles/vdb-dump-makedb.dir/DependInfo.cmake "--color=" make -f test/external/vdb-dump/CMakeFiles/Test_Vdb_dump_view-alias.dir/build.make test/external/vdb-dump/CMakeFiles/Test_Vdb_dump_view-alias.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/vdb-dump /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/external/vdb-dump /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/external/vdb-dump/CMakeFiles/Test_Vdb_dump_view-alias.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f test/external/vdb-dump/CMakeFiles/vdb-dump-makedb.dir/build.make test/external/vdb-dump/CMakeFiles/vdb-dump-makedb.dir/build /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/sra-stat.dir/link.d "CMakeFiles/sra-stat.dir/assembly-statistics.c.o" "CMakeFiles/sra-stat.dir/sra.c.o" "CMakeFiles/sra-stat.dir/sra-stat.c.o" -o ../../../bin/sra-stat ../../../ilib/libloader.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -lmbedx509 -lmbedtls -lmbedcrypto cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && rm -f sra-stat.3.2.1 make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && mv sra-stat sra-stat.3.2.1 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sra-stat.3.2.1 sra-stat.3 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sra-stat.3 sra-stat make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f test/external/vdb-dump/CMakeFiles/Test_Vdb_dump_view-alias.dir/build.make test/external/vdb-dump/CMakeFiles/Test_Vdb_dump_view-alias.dir/build make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 57%] Building CXX object test/external/vdb-dump/CMakeFiles/vdb-dump-makedb.dir/makedb.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/external/vdb-dump && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"test/external/vdb-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT test/external/vdb-dump/CMakeFiles/vdb-dump-makedb.dir/makedb.cpp.o -MF CMakeFiles/vdb-dump-makedb.dir/makedb.cpp.o.d -o CMakeFiles/vdb-dump-makedb.dir/makedb.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/vdb-dump/makedb.cpp make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 57%] Built target sra-stat make -f test/external/vdb-validate/CMakeFiles/Test_VdbValidate_Unit.dir/build.make test/external/vdb-validate/CMakeFiles/Test_VdbValidate_Unit.dir/depend [ 57%] Building CXX object test/external/vdb-dump/CMakeFiles/Test_Vdb_dump_view-alias.dir/test-view-alias.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/external/vdb-dump && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"test/external/vdb-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/vdb-dump -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT test/external/vdb-dump/CMakeFiles/Test_Vdb_dump_view-alias.dir/test-view-alias.cpp.o -MF CMakeFiles/Test_Vdb_dump_view-alias.dir/test-view-alias.cpp.o.d -o CMakeFiles/Test_Vdb_dump_view-alias.dir/test-view-alias.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/vdb-dump/test-view-alias.cpp make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/vdb-validate /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/external/vdb-validate /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/external/vdb-validate/CMakeFiles/Test_VdbValidate_Unit.dir/DependInfo.cmake "--color=" /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/test-quality.dir/link.d "CMakeFiles/test-quality.dir/test-quality.cpp.o" -o ../../../test-bin/test-quality /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libktst.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -lmbedx509 -lmbedtls -lmbedcrypto make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 57%] Linking CXX executable ../../../test-bin/Test_Drivertool_BuildVersion make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f test/external/vdb-validate/CMakeFiles/Test_VdbValidate_Unit.dir/build.make test/external/vdb-validate/CMakeFiles/Test_VdbValidate_Unit.dir/build cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/cmake -E cmake_link_script CMakeFiles/Test_Drivertool_BuildVersion.dir/link.txt --verbose=1 make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 57%] Built target test-quality make -f test/external/sra-info/CMakeFiles/Test_SraInfo_Unit.dir/build.make test/external/sra-info/CMakeFiles/Test_SraInfo_Unit.dir/depend [ 57%] Building CXX object test/external/vdb-validate/CMakeFiles/Test_VdbValidate_Unit.dir/test-vdb-validate.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/external/vdb-validate && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"test/external/vdb-validate\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/vdb-validate -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT test/external/vdb-validate/CMakeFiles/Test_VdbValidate_Unit.dir/test-vdb-validate.cpp.o -MF CMakeFiles/Test_VdbValidate_Unit.dir/test-vdb-validate.cpp.o.d -o CMakeFiles/Test_VdbValidate_Unit.dir/test-vdb-validate.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/vdb-validate/test-vdb-validate.cpp [ 57%] Linking CXX executable ../../test-bin/Test_SraSchema_Unit make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/sra-info /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/external/sra-info /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/external/sra-info/CMakeFiles/Test_SraInfo_Unit.dir/DependInfo.cmake "--color=" cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/schema && /usr/bin/cmake -E cmake_link_script CMakeFiles/Test_SraSchema_Unit.dir/link.txt --verbose=1 In file included from /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/driver-tool/../../../tools/external/driver-tool/accession.cpp:36, from /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/driver-tool/test-accession.cpp:39: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/driver-tool/../../../tools/external/driver-tool/accession.hpp: In static member function 'static const char* sratools::Accession::qualityTypeFor(const char*)': /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/driver-tool/../../../tools/external/driver-tool/accession.hpp:82:56: warning: possibly dangling reference to a temporary [-Wdangling-reference] 82 | for (auto ext : make_sequence(&extensions[1], 3)) { | ^ /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/driver-tool/../../../tools/external/driver-tool/accession.hpp:82:38: note: the temporary was destroyed at the end of the full expression 'make_sequence((& sratools::Accession::extensions[1]), 3)' 82 | for (auto ext : make_sequence(&extensions[1], 3)) { | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~ make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f test/external/sra-info/CMakeFiles/Test_SraInfo_Unit.dir/build.make test/external/sra-info/CMakeFiles/Test_SraInfo_Unit.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 58%] Building CXX object test/external/sra-info/CMakeFiles/Test_SraInfo_Unit.dir/test-sra-info.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/external/sra-info && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"test/external/sra-info\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/sra-info -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT test/external/sra-info/CMakeFiles/Test_SraInfo_Unit.dir/test-sra-info.cpp.o -MF CMakeFiles/Test_SraInfo_Unit.dir/test-sra-info.cpp.o.d -o CMakeFiles/Test_SraInfo_Unit.dir/test-sra-info.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/sra-info/test-sra-info.cpp [ 58%] Building CXX object test/external/driver-tool/CMakeFiles/Test_Drivertool_ToolArgs.dir/__/__/__/tools/external/driver-tool/tool-args.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/driver-tool/../../../tools/external/driver-tool -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT test/external/driver-tool/CMakeFiles/Test_Drivertool_ToolArgs.dir/__/__/__/tools/external/driver-tool/tool-args.cpp.o -MF CMakeFiles/Test_Drivertool_ToolArgs.dir/__/__/__/tools/external/driver-tool/tool-args.cpp.o.d -o CMakeFiles/Test_Drivertool_ToolArgs.dir/__/__/__/tools/external/driver-tool/tool-args.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/driver-tool/tool-args.cpp make -f test/loaders/bam-load/CMakeFiles/Test_BamLoader_platform.dir/build.make test/loaders/bam-load/CMakeFiles/Test_BamLoader_platform.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/bam-load /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/loaders/bam-load /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/loaders/bam-load/CMakeFiles/Test_BamLoader_platform.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f test/loaders/bam-load/CMakeFiles/Test_BamLoader_platform.dir/build.make test/loaders/bam-load/CMakeFiles/Test_BamLoader_platform.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 59%] Building CXX object test/loaders/bam-load/CMakeFiles/Test_BamLoader_platform.dir/sam-platform.cpp.o /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/Test_Drivertool_BuildVersion.dir/link.d "CMakeFiles/Test_Drivertool_BuildVersion.dir/test-build-version.cpp.o" -o ../../../test-bin/Test_Drivertool_BuildVersion cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/loaders/bam-load && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT test/loaders/bam-load/CMakeFiles/Test_BamLoader_platform.dir/sam-platform.cpp.o -MF CMakeFiles/Test_BamLoader_platform.dir/sam-platform.cpp.o.d -o CMakeFiles/Test_BamLoader_platform.dir/sam-platform.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/bam-load/sam-platform.cpp make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 59%] Built target Test_Drivertool_BuildVersion make -f test/loaders/loader/CMakeFiles/Test_KAPP_qfile.dir/build.make test/loaders/loader/CMakeFiles/Test_KAPP_qfile.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/loader /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/loaders/loader /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/loaders/loader/CMakeFiles/Test_KAPP_qfile.dir/DependInfo.cmake "--color=" /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/Test_SraSchema_Unit.dir/link.d "CMakeFiles/Test_SraSchema_Unit.dir/test-schema.cpp.o" -o ../../test-bin/Test_SraSchema_Unit ../../ilib/libsra.a -lkapp /usr/lib/x86_64-linux-gnu/libkapp.a ../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libktst.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm -lmbedx509 -lmbedtls -lmbedcrypto make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f test/loaders/loader/CMakeFiles/Test_KAPP_qfile.dir/build.make test/loaders/loader/CMakeFiles/Test_KAPP_qfile.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 59%] Built target Test_SraSchema_Unit make -f test/loaders/loader/CMakeFiles/Test_LOADERFILE.dir/build.make test/loaders/loader/CMakeFiles/Test_LOADERFILE.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/loader /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/loaders/loader /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/loaders/loader/CMakeFiles/Test_LOADERFILE.dir/DependInfo.cmake "--color=" [ 59%] Building C object test/loaders/loader/CMakeFiles/Test_KAPP_qfile.dir/qfiletest.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/loaders/loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"test/loaders/loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT test/loaders/loader/CMakeFiles/Test_KAPP_qfile.dir/qfiletest.c.o -MF CMakeFiles/Test_KAPP_qfile.dir/qfiletest.c.o.d -o CMakeFiles/Test_KAPP_qfile.dir/qfiletest.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/loader/qfiletest.c make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f test/loaders/loader/CMakeFiles/Test_LOADERFILE.dir/build.make test/loaders/loader/CMakeFiles/Test_LOADERFILE.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 59%] Building CXX object test/loaders/loader/CMakeFiles/Test_LOADERFILE.dir/test-loaderfile.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/loaders/loader && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"test/loaders/loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT test/loaders/loader/CMakeFiles/Test_LOADERFILE.dir/test-loaderfile.cpp.o -MF CMakeFiles/Test_LOADERFILE.dir/test-loaderfile.cpp.o.d -o CMakeFiles/Test_LOADERFILE.dir/test-loaderfile.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/loader/test-loaderfile.cpp In file included from /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/driver-tool/../../../tools/external/driver-tool/sratools.hpp:31, from /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/driver-tool/../../../tools/external/driver-tool/run-source.hpp:39, from /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/driver-tool/test-run-source.cpp:38: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/driver-tool/../../../tools/external/driver-tool/accession.hpp: In static member function 'static const char* sratools::Accession::qualityTypeFor(const char*)': /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/driver-tool/../../../tools/external/driver-tool/accession.hpp:82:56: warning: possibly dangling reference to a temporary [-Wdangling-reference] 82 | for (auto ext : make_sequence(&extensions[1], 3)) { | ^ /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/driver-tool/../../../tools/external/driver-tool/accession.hpp:82:38: note: the temporary was destroyed at the end of the full expression 'make_sequence((& sratools::Accession::extensions[1]), 3)' 82 | for (auto ext : make_sequence(&extensions[1], 3)) { | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~ [ 59%] Building CXX object test/external/driver-tool/CMakeFiles/Test_Drivertool_ToolArgs.dir/__/__/__/tools/external/driver-tool/command-line.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/driver-tool/../../../tools/external/driver-tool -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT test/external/driver-tool/CMakeFiles/Test_Drivertool_ToolArgs.dir/__/__/__/tools/external/driver-tool/command-line.cpp.o -MF CMakeFiles/Test_Drivertool_ToolArgs.dir/__/__/__/tools/external/driver-tool/command-line.cpp.o.d -o CMakeFiles/Test_Drivertool_ToolArgs.dir/__/__/__/tools/external/driver-tool/command-line.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/driver-tool/command-line.cpp [ 60%] Linking CXX executable ../../../test-bin/Test_KAPP_qfile make -f test/loaders/loader/CMakeFiles/Test_LOADER.dir/build.make test/loaders/loader/CMakeFiles/Test_LOADER.dir/depend cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/loaders/loader && /usr/bin/cmake -E cmake_link_script CMakeFiles/Test_KAPP_qfile.dir/link.txt --verbose=1 make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/loader /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/loaders/loader /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/loaders/loader/CMakeFiles/Test_LOADER.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f test/loaders/loader/CMakeFiles/Test_LOADER.dir/build.make test/loaders/loader/CMakeFiles/Test_LOADER.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 60%] Building CXX object test/loaders/loader/CMakeFiles/Test_LOADER.dir/loadertest.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/loaders/loader && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"test/loaders/loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT test/loaders/loader/CMakeFiles/Test_LOADER.dir/loadertest.cpp.o -MF CMakeFiles/Test_LOADER.dir/loadertest.cpp.o.d -o CMakeFiles/Test_LOADER.dir/loadertest.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/loader/loadertest.cpp /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/loader/loadertest.cpp:307:117: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 307 | REQUIRE_RC ( KLoaderMeta_Write ( node, LoaderName.c_str(), __DATE__, FormatterName.c_str(), KAppVersion() ) ); | ^ /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/loader/loadertest.cpp:321:80: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 321 | REQUIRE_EQ ( string ( __DATE__), GetMetadata ( "SOFTWARE/loader", "date" ) ); | ^ /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/loader/loadertest.cpp:350:143: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 350 | REQUIRE_RC ( KLoaderMeta_WriteWithVersion ( node, LoaderName.c_str(), __DATE__, LoaderVersion, FormatterName.c_str(), KAppVersion() ) ); | ^ /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/loader/loadertest.cpp:364:80: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 364 | REQUIRE_EQ ( string ( __DATE__), GetMetadata ( "SOFTWARE/loader", "date" ) ); | ^ /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/Test_KAPP_qfile.dir/link.d CMakeFiles/Test_KAPP_qfile.dir/qfiletest.c.o -o ../../../test-bin/Test_KAPP_qfile ../../../ilib/libloader.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libktst.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -lmbedx509 -lmbedtls -lmbedcrypto make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f test/loaders/sharq/CMakeFiles/test-regexpr.dir/build.make test/loaders/sharq/CMakeFiles/test-regexpr.dir/depend Note: ngs_test_lib_load.java uses unchecked or unsafe operations. Note: Recompile with -Xlint:unchecked for details. [ 60%] Built target Test_KAPP_qfile make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f test/internal/align/CMakeFiles/Test_Align_samextract.dir/build.make test/internal/align/CMakeFiles/Test_Align_samextract.dir/depend cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/loaders/sharq /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/loaders/sharq/CMakeFiles/test-regexpr.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/internal/align /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/internal/align /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/internal/align/CMakeFiles/Test_Align_samextract.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f test/internal/align/CMakeFiles/Test_Align_samextract.dir/build.make test/internal/align/CMakeFiles/Test_Align_samextract.dir/build make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f test/loaders/sharq/CMakeFiles/test-regexpr.dir/build.make test/loaders/sharq/CMakeFiles/test-regexpr.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/ngs/ngs-java && /usr/bin/cmake -E touch /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/external/ngs/ngs-java/CMakeFiles/test-ngs-java.dir/java_compiled_test-ngs-java [ 60%] Building CXX object test/internal/align/CMakeFiles/Test_Align_samextract.dir/test-samextract.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/internal/align && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"test/internal/align\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/usr/include/ncbi-vdb/ext -I/build/reproducible-path/sra-sdk-3.2.1+dfsg -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/../ncbi-vdb/interfaces/ext -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT test/internal/align/CMakeFiles/Test_Align_samextract.dir/test-samextract.cpp.o -MF CMakeFiles/Test_Align_samextract.dir/test-samextract.cpp.o.d -o CMakeFiles/Test_Align_samextract.dir/test-samextract.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/internal/align/test-samextract.cpp [ 60%] Building CXX object test/loaders/sharq/CMakeFiles/test-regexpr.dir/test-regexpr.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/loaders/sharq && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/lib/include -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT test/loaders/sharq/CMakeFiles/test-regexpr.dir/test-regexpr.cpp.o -MF CMakeFiles/test-regexpr.dir/test-regexpr.cpp.o.d -o CMakeFiles/test-regexpr.dir/test-regexpr.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/test-regexpr.cpp [ 60%] Generating CMakeFiles/test-ngs-java.dir/java_class_filelist cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/ngs/ngs-java && /usr/bin/cmake -DCMAKE_JAVA_CLASS_OUTPUT_PATH=/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/external/ngs/ngs-java/CMakeFiles/test-ngs-java.dir -DCMAKE_JAR_CLASSES_PREFIX= -P /usr/share/cmake-3.31/Modules/UseJava/ClassFilelist.cmake [ 60%] Creating Java archive test-ngs-java.jar cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/external/ngs/ngs-java/CMakeFiles/test-ngs-java.dir && /usr/bin/jar -cf /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/lib/test-ngs-java.jar @java_class_filelist [ 60%] Linking CXX executable ../../../test-bin/vdb-dump-makedb cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/external/vdb-dump && /usr/bin/cmake -E cmake_link_script CMakeFiles/vdb-dump-makedb.dir/link.txt --verbose=1 [ 60%] Linking CXX executable ../../../test-bin/Test_Drivertool_Accession cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/cmake -E cmake_link_script CMakeFiles/Test_Drivertool_Accession.dir/link.txt --verbose=1 [ 60%] Linking CXX executable ../../../test-bin/Test_BamLoader_platform cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/loaders/bam-load && /usr/bin/cmake -E cmake_link_script CMakeFiles/Test_BamLoader_platform.dir/link.txt --verbose=1 [ 60%] Building CXX object test/external/driver-tool/CMakeFiles/Test_Drivertool_ToolArgs.dir/__/__/__/tools/external/driver-tool/build-version.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/driver-tool/../../../tools/external/driver-tool -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT test/external/driver-tool/CMakeFiles/Test_Drivertool_ToolArgs.dir/__/__/__/tools/external/driver-tool/build-version.cpp.o -MF CMakeFiles/Test_Drivertool_ToolArgs.dir/__/__/__/tools/external/driver-tool/build-version.cpp.o.d -o CMakeFiles/Test_Drivertool_ToolArgs.dir/__/__/__/tools/external/driver-tool/build-version.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/driver-tool/build-version.cpp /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/vdb-dump-makedb.dir/link.d "CMakeFiles/vdb-dump-makedb.dir/makedb.cpp.o" -o ../../../test-bin/vdb-dump-makedb /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libktst.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm -lmbedx509 -lmbedtls -lmbedcrypto make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 60%] Built target vdb-dump-makedb [ 60%] Linking CXX executable ../../test-bin/Test_WVDB cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/vdb && /usr/bin/cmake -E cmake_link_script CMakeFiles/Test_WVDB.dir/link.txt --verbose=1 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/external/ngs/ngs-java/CMakeFiles/test-ngs-java.dir && /usr/bin/cmake -D_JAVA_TARGET_DIR=/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/lib -D_JAVA_TARGET_OUTPUT_NAME=test-ngs-java.jar -D_JAVA_TARGET_OUTPUT_LINK= -P /usr/share/cmake-3.31/Modules/UseJava/Symlinks.cmake [ 60%] Building CXX object test/external/driver-tool/CMakeFiles/Test_Drivertool_ToolArgs.dir/__/__/__/tools/external/driver-tool/file-path.posix.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/driver-tool/../../../tools/external/driver-tool -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT test/external/driver-tool/CMakeFiles/Test_Drivertool_ToolArgs.dir/__/__/__/tools/external/driver-tool/file-path.posix.cpp.o -MF CMakeFiles/Test_Drivertool_ToolArgs.dir/__/__/__/tools/external/driver-tool/file-path.posix.cpp.o.d -o CMakeFiles/Test_Drivertool_ToolArgs.dir/__/__/__/tools/external/driver-tool/file-path.posix.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/driver-tool/file-path.posix.cpp [ 60%] Linking CXX executable ../../../test-bin/Test_Drivertool_UUID cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/cmake -E cmake_link_script CMakeFiles/Test_Drivertool_UUID.dir/link.txt --verbose=1 /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/Test_Drivertool_Accession.dir/link.d "CMakeFiles/Test_Drivertool_Accession.dir/test-accession.cpp.o" -o ../../../test-bin/Test_Drivertool_Accession make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/Test_BamLoader_platform.dir/link.d "CMakeFiles/Test_BamLoader_platform.dir/sam-platform.cpp.o" -o ../../../test-bin/Test_BamLoader_platform make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 60%] Linking CXX executable ../../../test-bin/Test_Vdb_dump_view-alias cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/external/vdb-dump && /usr/bin/cmake -E cmake_link_script CMakeFiles/Test_Vdb_dump_view-alias.dir/link.txt --verbose=1 [ 60%] Built target Test_Drivertool_Accession make -f test/internal/align-cache/CMakeFiles/Build-align-cache.dir/build.make test/internal/align-cache/CMakeFiles/Build-align-cache.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/internal/align-cache /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/internal/align-cache /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/internal/align-cache/CMakeFiles/Build-align-cache.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f test/internal/align-cache/CMakeFiles/Build-align-cache.dir/build.make test/internal/align-cache/CMakeFiles/Build-align-cache.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'test/internal/align-cache/CMakeFiles/Build-align-cache.dir/build'. make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 60%] Built target test-ngs-java [ 60%] Built target Test_BamLoader_platform make -f test/internal/copycat/CMakeFiles/Build-copycat.dir/build.make test/internal/copycat/CMakeFiles/Build-copycat.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/internal/copycat /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/internal/copycat /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/internal/copycat/CMakeFiles/Build-copycat.dir/DependInfo.cmake "--color=" [ 60%] Building C object test/external/vdb-dump/CMakeFiles/Test_Vdb_dump_view-spec.dir/__/__/__/tools/external/vdb-dump/vdb-dump-view-spec.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/external/vdb-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"test/external/vdb-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/vdb-dump -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT test/external/vdb-dump/CMakeFiles/Test_Vdb_dump_view-spec.dir/__/__/__/tools/external/vdb-dump/vdb-dump-view-spec.c.o -MF CMakeFiles/Test_Vdb_dump_view-spec.dir/__/__/__/tools/external/vdb-dump/vdb-dump-view-spec.c.o.d -o CMakeFiles/Test_Vdb_dump_view-spec.dir/__/__/__/tools/external/vdb-dump/vdb-dump-view-spec.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/vdb-dump/vdb-dump-view-spec.c [ 60%] Built target Build-align-cache make -f test/internal/copycat/CMakeFiles/Test_KFF.dir/build.make test/internal/copycat/CMakeFiles/Test_KFF.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/internal/copycat /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/internal/copycat /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/internal/copycat/CMakeFiles/Test_KFF.dir/DependInfo.cmake "--color=" [ 60%] Linking CXX executable ../../../test-bin/Test_KFile_Stream cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/libs/kfile_stream && /usr/bin/cmake -E cmake_link_script CMakeFiles/Test_KFile_Stream.dir/link.txt --verbose=1 make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f test/internal/copycat/CMakeFiles/Build-copycat.dir/build.make test/internal/copycat/CMakeFiles/Build-copycat.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'test/internal/copycat/CMakeFiles/Build-copycat.dir/build'. make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 60%] Linking CXX executable ../../../test-bin/Test_Drivertool_CommandLine make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/cmake -E cmake_link_script CMakeFiles/Test_Drivertool_CommandLine.dir/link.txt --verbose=1 make -f test/internal/copycat/CMakeFiles/Test_KFF.dir/build.make test/internal/copycat/CMakeFiles/Test_KFF.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 60%] Built target Build-copycat make -f test/internal/make-read-filter/CMakeFiles/Build-make-read-filter.dir/build.make test/internal/make-read-filter/CMakeFiles/Build-make-read-filter.dir/depend [ 60%] Building CXX object test/internal/copycat/CMakeFiles/Test_KFF.dir/kfftest.cpp.o make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/internal/copycat && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"test/internal/copycat\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/internal/copycat -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT test/internal/copycat/CMakeFiles/Test_KFF.dir/kfftest.cpp.o -MF CMakeFiles/Test_KFF.dir/kfftest.cpp.o.d -o CMakeFiles/Test_KFF.dir/kfftest.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/internal/copycat/kfftest.cpp cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/internal/make-read-filter /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/internal/make-read-filter /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/internal/make-read-filter/CMakeFiles/Build-make-read-filter.dir/DependInfo.cmake "--color=" /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/Test_Drivertool_UUID.dir/link.d "CMakeFiles/Test_Drivertool_UUID.dir/test-uuid.cpp.o" -o ../../../test-bin/Test_Drivertool_UUID make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f test/internal/make-read-filter/CMakeFiles/Build-make-read-filter.dir/build.make test/internal/make-read-filter/CMakeFiles/Build-make-read-filter.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'test/internal/make-read-filter/CMakeFiles/Build-make-read-filter.dir/build'. make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/Test_WVDB.dir/link.d "CMakeFiles/Test_WVDB.dir/test-wvdb.cpp.o" -o ../../test-bin/Test_WVDB -lkapp /usr/lib/x86_64-linux-gnu/libkapp.a ../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libktst.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm -lmbedx509 -lmbedtls -lmbedcrypto make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 60%] Built target Build-make-read-filter make -f test/internal/read-filter-redact/CMakeFiles/Build-read-filter-redact.dir/build.make test/internal/read-filter-redact/CMakeFiles/Build-read-filter-redact.dir/depend [ 60%] Built target Test_Drivertool_UUID make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/internal/read-filter-redact /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/internal/read-filter-redact /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/internal/read-filter-redact/CMakeFiles/Build-read-filter-redact.dir/DependInfo.cmake "--color=" make -f test/internal/vdb-copy/CMakeFiles/Build-vdb-copy.dir/build.make test/internal/vdb-copy/CMakeFiles/Build-vdb-copy.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/internal/vdb-copy /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/internal/vdb-copy /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/internal/vdb-copy/CMakeFiles/Build-vdb-copy.dir/DependInfo.cmake "--color=" /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/Test_Vdb_dump_view-alias.dir/link.d "CMakeFiles/Test_Vdb_dump_view-alias.dir/test-view-alias.cpp.o" -o ../../../test-bin/Test_Vdb_dump_view-alias /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libktst.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -lmbedx509 -lmbedtls -lmbedcrypto make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 60%] Built target Test_WVDB make -f test/internal/vdb-diff/CMakeFiles/Build-vdb-diff.dir/build.make test/internal/vdb-diff/CMakeFiles/Build-vdb-diff.dir/depend make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/internal/vdb-diff /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/internal/vdb-diff /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/internal/vdb-diff/CMakeFiles/Build-vdb-diff.dir/DependInfo.cmake "--color=" make -f test/internal/read-filter-redact/CMakeFiles/Build-read-filter-redact.dir/build.make test/internal/read-filter-redact/CMakeFiles/Build-read-filter-redact.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'test/internal/read-filter-redact/CMakeFiles/Build-read-filter-redact.dir/build'. make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f test/internal/vdb-copy/CMakeFiles/Build-vdb-copy.dir/build.make test/internal/vdb-copy/CMakeFiles/Build-vdb-copy.dir/build [ 60%] Built target Test_Vdb_dump_view-alias make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'test/internal/vdb-copy/CMakeFiles/Build-vdb-copy.dir/build'. make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f test/internal/vdb-diff/CMakeFiles/Build-vdb-diff.dir/build.make test/internal/vdb-diff/CMakeFiles/Build-vdb-diff.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'test/internal/vdb-diff/CMakeFiles/Build-vdb-diff.dir/build'. make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 60%] Built target Build-vdb-copy /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/Test_Drivertool_CommandLine.dir/link.d "CMakeFiles/Test_Drivertool_CommandLine.dir/test-command-line.cpp.o" -o ../../../test-bin/Test_Drivertool_CommandLine [ 60%] Built target Build-read-filter-redact make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/Test_KFile_Stream.dir/link.d CMakeFiles/Test_KFile_Stream.dir/custom_stream.cpp.o -o ../../../test-bin/Test_KFile_Stream /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libktst.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -lmbedx509 -lmbedtls -lmbedcrypto make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f test/test-tools/qa-stats/CMakeFiles/Test_qa-stats_Input.dir/build.make test/test-tools/qa-stats/CMakeFiles/Test_qa-stats_Input.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/test-tools/qa-stats /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/test-tools/qa-stats/CMakeFiles/Test_qa-stats_Input.dir/DependInfo.cmake "--color=" [ 60%] Built target Build-vdb-diff [ 60%] Building C object test/internal/copycat/CMakeFiles/Test_KFF.dir/__/__/__/tools/internal/copycat/kff/ffext.c.o make -f test/test-tools/qa-stats/CMakeFiles/Test_qa-stats_Output.dir/build.make test/test-tools/qa-stats/CMakeFiles/Test_qa-stats_Output.dir/depend [ 60%] Built target Test_Drivertool_CommandLine make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/test-tools/qa-stats /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/test-tools/qa-stats/CMakeFiles/Test_qa-stats_Output.dir/DependInfo.cmake "--color=" cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/internal/copycat && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"test/internal/copycat\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/internal/copycat -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT test/internal/copycat/CMakeFiles/Test_KFF.dir/__/__/__/tools/internal/copycat/kff/ffext.c.o -MF CMakeFiles/Test_KFF.dir/__/__/__/tools/internal/copycat/kff/ffext.c.o.d -o CMakeFiles/Test_KFF.dir/__/__/__/tools/internal/copycat/kff/ffext.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/internal/copycat/kff/ffext.c make -f test/test-tools/qa-stats/CMakeFiles/Test_qa-stats_Fingerprint.dir/build.make test/test-tools/qa-stats/CMakeFiles/Test_qa-stats_Fingerprint.dir/depend [ 60%] Built target Test_KFile_Stream make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/test-tools/qa-stats /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/test-tools/qa-stats/CMakeFiles/Test_qa-stats_Fingerprint.dir/DependInfo.cmake "--color=" make -f test/test-tools/qa-stats/CMakeFiles/Test_qa-stats_Hashing.dir/build.make test/test-tools/qa-stats/CMakeFiles/Test_qa-stats_Hashing.dir/depend [ 60%] Building C object test/internal/copycat/CMakeFiles/Test_KFF.dir/__/__/__/tools/internal/copycat/kff/ffkey.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/internal/copycat && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"test/internal/copycat\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/internal/copycat -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT test/internal/copycat/CMakeFiles/Test_KFF.dir/__/__/__/tools/internal/copycat/kff/ffkey.c.o -MF CMakeFiles/Test_KFF.dir/__/__/__/tools/internal/copycat/kff/ffkey.c.o.d -o CMakeFiles/Test_KFF.dir/__/__/__/tools/internal/copycat/kff/ffkey.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/internal/copycat/kff/ffkey.c make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/test-tools/qa-stats /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/test-tools/qa-stats/CMakeFiles/Test_qa-stats_Hashing.dir/DependInfo.cmake "--color=" make -f test/test-tools/qa-stats/CMakeFiles/Test_qa-stats_Output.dir/build.make test/test-tools/qa-stats/CMakeFiles/Test_qa-stats_Output.dir/build make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f test/test-tools/qa-stats/CMakeFiles/Test_qa-stats_Input.dir/build.make test/test-tools/qa-stats/CMakeFiles/Test_qa-stats_Input.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f test/test-tools/qa-stats/CMakeFiles/Test_qa-stats_Fingerprint.dir/build.make test/test-tools/qa-stats/CMakeFiles/Test_qa-stats_Fingerprint.dir/build make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f test/test-tools/qa-stats/CMakeFiles/Test_qa-stats_Hashing.dir/build.make test/test-tools/qa-stats/CMakeFiles/Test_qa-stats_Hashing.dir/build [ 60%] Building CXX object test/test-tools/qa-stats/CMakeFiles/Test_qa-stats_Output.dir/test-output.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/test-tools/qa-stats && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT test/test-tools/qa-stats/CMakeFiles/Test_qa-stats_Output.dir/test-output.cpp.o -MF CMakeFiles/Test_qa-stats_Output.dir/test-output.cpp.o.d -o CMakeFiles/Test_qa-stats_Output.dir/test-output.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats/test-output.cpp make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 60%] Building CXX object test/test-tools/qa-stats/CMakeFiles/Test_qa-stats_Input.dir/test-input.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/test-tools/qa-stats && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT test/test-tools/qa-stats/CMakeFiles/Test_qa-stats_Input.dir/test-input.cpp.o -MF CMakeFiles/Test_qa-stats_Input.dir/test-input.cpp.o.d -o CMakeFiles/Test_qa-stats_Input.dir/test-input.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats/test-input.cpp [ 61%] Building C object test/external/vdb-dump/CMakeFiles/Test_Vdb_dump_view-spec.dir/__/__/__/tools/external/vdb-dump/vdb-dump-helper.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/external/vdb-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"test/external/vdb-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/vdb-dump -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT test/external/vdb-dump/CMakeFiles/Test_Vdb_dump_view-spec.dir/__/__/__/tools/external/vdb-dump/vdb-dump-helper.c.o -MF CMakeFiles/Test_Vdb_dump_view-spec.dir/__/__/__/tools/external/vdb-dump/vdb-dump-helper.c.o.d -o CMakeFiles/Test_Vdb_dump_view-spec.dir/__/__/__/tools/external/vdb-dump/vdb-dump-helper.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/vdb-dump/vdb-dump-helper.c [ 60%] Building CXX object test/test-tools/qa-stats/CMakeFiles/Test_qa-stats_Fingerprint.dir/test-finger.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/test-tools/qa-stats && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT test/test-tools/qa-stats/CMakeFiles/Test_qa-stats_Fingerprint.dir/test-finger.cpp.o -MF CMakeFiles/Test_qa-stats_Fingerprint.dir/test-finger.cpp.o.d -o CMakeFiles/Test_qa-stats_Fingerprint.dir/test-finger.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats/test-finger.cpp [ 62%] Building CXX object test/test-tools/qa-stats/CMakeFiles/Test_qa-stats_Hashing.dir/test-hashing.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/test-tools/qa-stats && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT test/test-tools/qa-stats/CMakeFiles/Test_qa-stats_Hashing.dir/test-hashing.cpp.o -MF CMakeFiles/Test_qa-stats_Hashing.dir/test-hashing.cpp.o.d -o CMakeFiles/Test_qa-stats_Hashing.dir/test-hashing.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats/test-hashing.cpp [ 62%] Building C object test/internal/copycat/CMakeFiles/Test_KFF.dir/__/__/__/tools/internal/copycat/kff/fileformat.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/internal/copycat && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"test/internal/copycat\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/internal/copycat -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT test/internal/copycat/CMakeFiles/Test_KFF.dir/__/__/__/tools/internal/copycat/kff/fileformat.c.o -MF CMakeFiles/Test_KFF.dir/__/__/__/tools/internal/copycat/kff/fileformat.c.o.d -o CMakeFiles/Test_KFF.dir/__/__/__/tools/internal/copycat/kff/fileformat.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/internal/copycat/kff/fileformat.c [ 62%] Building C object test/internal/copycat/CMakeFiles/Test_KFF.dir/__/__/__/tools/internal/copycat/kff/ffmagic.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/internal/copycat && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"test/internal/copycat\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/internal/copycat -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT test/internal/copycat/CMakeFiles/Test_KFF.dir/__/__/__/tools/internal/copycat/kff/ffmagic.c.o -MF CMakeFiles/Test_KFF.dir/__/__/__/tools/internal/copycat/kff/ffmagic.c.o.d -o CMakeFiles/Test_KFF.dir/__/__/__/tools/internal/copycat/kff/ffmagic.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/internal/copycat/kff/ffmagic.c make -f ngs/ncbi/ngs-c++/CMakeFiles/ncbi-ngs-c++.dir/build.make ngs/ncbi/ngs-c++/CMakeFiles/ncbi-ngs-c++.dir/depend [ 62%] Building C object test/external/vdb-dump/CMakeFiles/Test_Vdb_dump_view-spec.dir/__/__/__/tools/external/vdb-dump/vdb-dump-context.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/external/vdb-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"test/external/vdb-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/vdb-dump -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT test/external/vdb-dump/CMakeFiles/Test_Vdb_dump_view-spec.dir/__/__/__/tools/external/vdb-dump/vdb-dump-context.c.o -MF CMakeFiles/Test_Vdb_dump_view-spec.dir/__/__/__/tools/external/vdb-dump/vdb-dump-context.c.o.d -o CMakeFiles/Test_Vdb_dump_view-spec.dir/__/__/__/tools/external/vdb-dump/vdb-dump-context.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/vdb-dump/vdb-dump-context.c make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ncbi/ngs-c++ /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs-c++ /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs-c++/CMakeFiles/ncbi-ngs-c++.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f ngs/ncbi/ngs-c++/CMakeFiles/ncbi-ngs-c++.dir/build.make ngs/ncbi/ngs-c++/CMakeFiles/ncbi-ngs-c++.dir/build [ 62%] Building C object test/external/vdb-dump/CMakeFiles/Test_Vdb_dump_view-spec.dir/__/__/__/tools/external/vdb-dump/vdb-dump-coldefs.c.o make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/external/vdb-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"test/external/vdb-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/vdb-dump -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT test/external/vdb-dump/CMakeFiles/Test_Vdb_dump_view-spec.dir/__/__/__/tools/external/vdb-dump/vdb-dump-coldefs.c.o -MF CMakeFiles/Test_Vdb_dump_view-spec.dir/__/__/__/tools/external/vdb-dump/vdb-dump-coldefs.c.o.d -o CMakeFiles/Test_Vdb_dump_view-spec.dir/__/__/__/tools/external/vdb-dump/vdb-dump-coldefs.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/vdb-dump/vdb-dump-coldefs.c [ 62%] Building CXX object ngs/ncbi/ngs-c++/CMakeFiles/ncbi-ngs-c++.dir/NCBI-NGS.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs-c++ && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs-c++\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ncbi/ngs -I/build/reproducible-path/sra-sdk-3.2.1+dfsg -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs-c++/CMakeFiles/ncbi-ngs-c++.dir/NCBI-NGS.cpp.o -MF CMakeFiles/ncbi-ngs-c++.dir/NCBI-NGS.cpp.o.d -o CMakeFiles/ncbi-ngs-c++.dir/NCBI-NGS.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ncbi/ngs-c++/NCBI-NGS.cpp [ 62%] Building C object test/external/vdb-dump/CMakeFiles/Test_Vdb_dump_view-spec.dir/__/__/__/tools/external/vdb-dump/vdb-dump-str.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/external/vdb-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"test/external/vdb-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/vdb-dump -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT test/external/vdb-dump/CMakeFiles/Test_Vdb_dump_view-spec.dir/__/__/__/tools/external/vdb-dump/vdb-dump-str.c.o -MF CMakeFiles/Test_Vdb_dump_view-spec.dir/__/__/__/tools/external/vdb-dump/vdb-dump-str.c.o.d -o CMakeFiles/Test_Vdb_dump_view-spec.dir/__/__/__/tools/external/vdb-dump/vdb-dump-str.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/vdb-dump/vdb-dump-str.c [ 62%] Building CXX object test/test-tools/qa-stats/CMakeFiles/Test_qa-stats_Input.dir/__/__/__/tools/test-tools/qa-stats/input.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/test-tools/qa-stats && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT test/test-tools/qa-stats/CMakeFiles/Test_qa-stats_Input.dir/__/__/__/tools/test-tools/qa-stats/input.cpp.o -MF CMakeFiles/Test_qa-stats_Input.dir/__/__/__/tools/test-tools/qa-stats/input.cpp.o.d -o CMakeFiles/Test_qa-stats_Input.dir/__/__/__/tools/test-tools/qa-stats/input.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/test-tools/qa-stats/input.cpp [ 62%] Building CXX object test/external/driver-tool/CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/run-source.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/driver-tool/../../../tools/external/driver-tool -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT test/external/driver-tool/CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/run-source.cpp.o -MF CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/run-source.cpp.o.d -o CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/run-source.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/driver-tool/run-source.cpp make -f ngs/ngs-java/CMakeFiles/ngs-doc-jar.dir/build.make ngs/ngs-java/CMakeFiles/ngs-doc-jar.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-java /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/CMakeFiles/ngs-doc-jar.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f ngs/ngs-java/CMakeFiles/ngs-doc-jar.dir/build.make ngs/ngs-java/CMakeFiles/ngs-doc-jar.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc && sh -c /usr/bin/jar\ -cf\ /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/lib/ngs-doc.jar\ . [ 62%] Building CXX object test/external/driver-tool/CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/command-line.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/driver-tool/../../../tools/external/driver-tool -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT test/external/driver-tool/CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/command-line.cpp.o -MF CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/command-line.cpp.o.d -o CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/command-line.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/driver-tool/command-line.cpp [ 62%] Linking CXX executable ../../../test-bin/testAssemblyStatistics cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/external/sra-stat && /usr/bin/cmake -E cmake_link_script CMakeFiles/testAssemblyStatistics.dir/link.txt --verbose=1 [ 62%] Linking CXX static library ../../../lib/libncbi-ngs-c++.a cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs-c++ && /usr/bin/cmake -P CMakeFiles/ncbi-ngs-c++.dir/cmake_clean_target.cmake cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs-c++ && /usr/bin/cmake -E cmake_link_script CMakeFiles/ncbi-ngs-c++.dir/link.txt --verbose=1 /usr/bin/ar qc ../../../lib/libncbi-ngs-c++.a "CMakeFiles/ncbi-ngs-c++.dir/NCBI-NGS.cpp.o" /usr/bin/ranlib ../../../lib/libncbi-ngs-c++.a cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/lib && rm -f libncbi-ngs-c++.a.3.2.1 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/lib && mv libncbi-ngs-c++.a libncbi-ngs-c++.a.3.2.1 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/lib && ln -f -s libncbi-ngs-c++.a.3.2.1 libncbi-ngs-c++.a.3 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/lib && ln -f -s libncbi-ngs-c++.a.3 libncbi-ngs-c++.a cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/lib && ln -f -s libncbi-ngs-c++.a libncbi-ngs-c++-static.a [ 62%] Building CXX object test/external/driver-tool/CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/SDL-response.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/driver-tool/../../../tools/external/driver-tool -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT test/external/driver-tool/CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/SDL-response.cpp.o -MF CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/SDL-response.cpp.o.d -o CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/SDL-response.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/driver-tool/SDL-response.cpp make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 62%] Built target ncbi-ngs-c++ make -f ngs/ngs-java/CMakeFiles/ngs-src-jar.dir/build.make ngs/ngs-java/CMakeFiles/ngs-src-jar.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-java /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/CMakeFiles/ngs-src-jar.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f ngs/ngs-java/CMakeFiles/ngs-src-jar.dir/build.make ngs/ngs-java/CMakeFiles/ngs-src-jar.dir/build /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/testAssemblyStatistics.dir/link.d CMakeFiles/testAssemblyStatistics.dir/testAssemblyStatistics.cpp.o -o ../../../test-bin/testAssemblyStatistics /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libktst.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -lmbedx509 -lmbedtls -lmbedcrypto make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-java && sh -c /usr/bin/jar\ -cf\ /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/lib/ngs-src.jar\ \ ngs/ErrorMsg.java\ ngs/Statistics.java\ ngs/Fragment.java\ ngs/FragmentIterator.java\ ngs/Read.java\ ngs/ReadIterator.java\ ngs/ReadGroup.java\ ngs/ReadGroupIterator.java\ ngs/Alignment.java\ ngs/AlignmentIterator.java\ ngs/PileupEvent.java\ ngs/PileupEventIterator.java\ ngs/Pileup.java\ ngs/PileupIterator.java\ ngs/Reference.java\ ngs/ReferenceIterator.java\ ngs/ReadCollection.java\ ngs/Package.java\ ngs/itf/Refcount.java\ ngs/itf/StatisticsItf.java\ ngs/itf/FragmentItf.java\ ngs/itf/FragmentIteratorItf.java\ ngs/itf/ReadItf.java\ ngs/itf/ReadIteratorItf.java\ ngs/itf/ReadGroupItf.java\ ngs/itf/ReadGroupIteratorItf.java\ ngs/itf/AlignmentItf.java\ ngs/itf/AlignmentIteratorItf.java\ ngs/itf/PileupEventItf.java\ ngs/itf/PileupEventIteratorItf.java\ ngs/itf/PileupItf.java\ ngs/itf/PileupIteratorItf.java\ ngs/itf/ReferenceItf.java\ ngs/itf/ReferenceIteratorItf.java\ ngs/itf/ReadCollectionItf.java\ gov/nih/nlm/ncbi/ngs/DownloadManager.java\ gov/nih/nlm/ncbi/ngs/FileCreator.java\ gov/nih/nlm/ncbi/ngs/HttpManager.java\ gov/nih/nlm/ncbi/ngs/LibDependencies.java\ gov/nih/nlm/ncbi/ngs/LibManager.java\ gov/nih/nlm/ncbi/ngs/LibPathIterator.java\ gov/nih/nlm/ncbi/ngs/LibVersionChecker.java\ gov/nih/nlm/ncbi/ngs/LMProperties.java\ gov/nih/nlm/ncbi/ngs/Logger.java\ gov/nih/nlm/ncbi/ngs/Manager.java\ gov/nih/nlm/ncbi/ngs/NGS.java\ gov/nih/nlm/ncbi/ngs/Version.java\ gov/nih/nlm/ncbi/ngs/error/LibraryLoadError.java\ gov/nih/nlm/ncbi/ngs/error/LibraryNotFoundError.java\ gov/nih/nlm/ncbi/ngs/error/LibraryIncompatibleVersionError.java\ gov/nih/nlm/ncbi/ngs/error/cause/ConnectionProblemCause.java\ gov/nih/nlm/ncbi/ngs/error/cause/DownloadDisabledCause.java\ gov/nih/nlm/ncbi/ngs/error/cause/InvalidLibraryCause.java\ gov/nih/nlm/ncbi/ngs/error/cause/JvmErrorCause.java\ gov/nih/nlm/ncbi/ngs/error/cause/LibraryLoadCause.java\ gov/nih/nlm/ncbi/ngs/error/cause/OutdatedJarCause.java\ gov/nih/nlm/ncbi/ngs/error/cause/PrereleaseReqLibCause.java\ gov/nih/nlm/ncbi/ngs/error/cause/UnsupportedArchCause.java make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 62%] Building CXX object test/external/driver-tool/CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/file-path.posix.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/driver-tool/../../../tools/external/driver-tool -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT test/external/driver-tool/CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/file-path.posix.cpp.o -MF CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/file-path.posix.cpp.o.d -o CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/file-path.posix.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/driver-tool/file-path.posix.cpp [ 62%] Built target testAssemblyStatistics make -f ngs/ngs-java/examples/CMakeFiles/ngs-examples.dir/build.make ngs/ngs-java/examples/CMakeFiles/ngs-examples.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-java/examples /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/examples /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/examples/CMakeFiles/ngs-examples.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f ngs/ngs-java/examples/CMakeFiles/ngs-examples.dir/build.make ngs/ngs-java/examples/CMakeFiles/ngs-examples.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 62%] Built target ngs-doc-jar make -f libs/general-writer/CMakeFiles/gw-dumper.dir/build.make libs/general-writer/CMakeFiles/gw-dumper.dir/depend [ 62%] Building Java objects for ngs-examples.jar cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-java/examples && /usr/bin/cmake -DCMAKE_JAVA_CLASS_OUTPUT_PATH=/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/examples/CMakeFiles/ngs-examples.dir -DCMAKE_JAR_CLASSES_PREFIX= -P /usr/share/cmake-3.31/Modules/UseJava/ClearClassFiles.cmake --log-level STATUS [ 62%] Building CXX object test/external/driver-tool/CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/json-parse.cpp.o make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/general-writer /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/libs/general-writer /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/libs/general-writer/CMakeFiles/gw-dumper.dir/DependInfo.cmake "--color=" cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/driver-tool/../../../tools/external/driver-tool -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT test/external/driver-tool/CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/json-parse.cpp.o -MF CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/json-parse.cpp.o.d -o CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/json-parse.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/driver-tool/json-parse.cpp cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-java/examples && /usr/bin/javac -classpath :/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-java/examples:/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/lib:/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/lib/ngs-java.jar -d /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/examples/CMakeFiles/ngs-examples.dir @/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/examples/CMakeFiles/ngs-examples.dir/java_sources make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f libs/general-writer/CMakeFiles/gw-dumper.dir/build.make libs/general-writer/CMakeFiles/gw-dumper.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 62%] Building CXX object libs/general-writer/CMakeFiles/gw-dumper.dir/gw-dumper.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/libs/general-writer && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -fPIE -rdynamic -MD -MT libs/general-writer/CMakeFiles/gw-dumper.dir/gw-dumper.cpp.o -MF CMakeFiles/gw-dumper.dir/gw-dumper.cpp.o.d -o CMakeFiles/gw-dumper.dir/gw-dumper.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/general-writer/gw-dumper.cpp [ 62%] Linking CXX executable ../../../test-bin/Test_LOADERFILE cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/loaders/loader && /usr/bin/cmake -E cmake_link_script CMakeFiles/Test_LOADERFILE.dir/link.txt --verbose=1 make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 62%] Built target ngs-src-jar make -f libs/general-writer/test/CMakeFiles/test-general-writer.dir/build.make libs/general-writer/test/CMakeFiles/test-general-writer.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/general-writer/test /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/libs/general-writer/test /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/libs/general-writer/test/CMakeFiles/test-general-writer.dir/DependInfo.cmake "--color=" /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/Test_LOADERFILE.dir/link.d "CMakeFiles/Test_LOADERFILE.dir/test-loaderfile.cpp.o" -o ../../../test-bin/Test_LOADERFILE ../../../ilib/libloader.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libktst.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -lmbedx509 -lmbedtls -lmbedcrypto make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f libs/general-writer/test/CMakeFiles/test-general-writer.dir/build.make libs/general-writer/test/CMakeFiles/test-general-writer.dir/build [ 62%] Built target Test_LOADERFILE [ 62%] Linking CXX executable ../../../test-bin/test-regexpr cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/loaders/sharq && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-regexpr.dir/link.txt --verbose=1 make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f tools/loaders/bam-loader/CMakeFiles/bam-load.dir/build.make tools/loaders/bam-loader/CMakeFiles/bam-load.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/bam-loader /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/bam-loader /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/bam-loader/CMakeFiles/bam-load.dir/DependInfo.cmake "--color=" [ 62%] Building CXX object libs/general-writer/test/CMakeFiles/test-general-writer.dir/test-general-writer.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/libs/general-writer/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -fPIE -rdynamic -MD -MT libs/general-writer/test/CMakeFiles/test-general-writer.dir/test-general-writer.cpp.o -MF CMakeFiles/test-general-writer.dir/test-general-writer.cpp.o.d -o CMakeFiles/test-general-writer.dir/test-general-writer.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/general-writer/test/test-general-writer.cpp make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f tools/loaders/bam-loader/CMakeFiles/bam-load.dir/build.make tools/loaders/bam-loader/CMakeFiles/bam-load.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 62%] Building CXX object tools/loaders/bam-loader/CMakeFiles/bam-load.dir/bam-loader.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/bam-loader && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/bam-loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/usr/include/ncbi-vdb/interfaces/ext -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/bam-loader/. -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT tools/loaders/bam-loader/CMakeFiles/bam-load.dir/bam-loader.c.o -MF CMakeFiles/bam-load.dir/bam-loader.c.o.d -o CMakeFiles/bam-load.dir/bam-loader.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/bam-loader/bam-loader.c In file included from /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/driver-tool/sratools.hpp:31, from /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/driver-tool/run-source.hpp:39, from /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/driver-tool/run-source.cpp:51: /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/driver-tool/accession.hpp: In static member function 'static const char* sratools::Accession::qualityTypeFor(const char*)': /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/driver-tool/accession.hpp:82:56: warning: possibly dangling reference to a temporary [-Wdangling-reference] 82 | for (auto ext : make_sequence(&extensions[1], 3)) { | ^ /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/driver-tool/accession.hpp:82:38: note: the temporary was destroyed at the end of the full expression 'make_sequence((& sratools::Accession::extensions[1]), 3)' 82 | for (auto ext : make_sequence(&extensions[1], 3)) { | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~ [ 62%] Linking CXX executable ../../../test-bin/Test_VdbValidate_Unit cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/external/vdb-validate && /usr/bin/cmake -E cmake_link_script CMakeFiles/Test_VdbValidate_Unit.dir/link.txt --verbose=1 [ 62%] Building CXX object test/external/driver-tool/CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/build-version.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/driver-tool/../../../tools/external/driver-tool -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT test/external/driver-tool/CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/build-version.cpp.o -MF CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/build-version.cpp.o.d -o CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/build-version.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/driver-tool/build-version.cpp /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/test-regexpr.dir/link.d "CMakeFiles/test-regexpr.dir/test-regexpr.cpp.o" -o ../../../test-bin/test-regexpr /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libktst.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -lmbedx509 -lmbedtls -lmbedcrypto -lre2 -labsl_string_view make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 62%] Built target test-regexpr make -f tools/loaders/fastq-loader/CMakeFiles/latf-load.dir/build.make tools/loaders/fastq-loader/CMakeFiles/latf-load.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/fastq-loader /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/fastq-loader /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/fastq-loader/CMakeFiles/latf-load.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f tools/loaders/fastq-loader/CMakeFiles/latf-load.dir/build.make tools/loaders/fastq-loader/CMakeFiles/latf-load.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 62%] Building C object tools/loaders/fastq-loader/CMakeFiles/latf-load.dir/spot-assembler.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/fastq-loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fastq-loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/fastq-loader/CMakeFiles/latf-load.dir/spot-assembler.c.o -MF CMakeFiles/latf-load.dir/spot-assembler.c.o.d -o CMakeFiles/latf-load.dir/spot-assembler.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/fastq-loader/spot-assembler.c /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/Test_VdbValidate_Unit.dir/link.d "CMakeFiles/Test_VdbValidate_Unit.dir/test-vdb-validate.cpp.o" -o ../../../test-bin/Test_VdbValidate_Unit /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libktst.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -lmbedx509 -lmbedtls -lmbedcrypto make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 62%] Built target Test_VdbValidate_Unit make -f tools/loaders/sharq/CMakeFiles/sharq.dir/build.make tools/loaders/sharq/CMakeFiles/sharq.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/sharq /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/sharq /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/sharq/CMakeFiles/sharq.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f tools/loaders/sharq/CMakeFiles/sharq.dir/build.make tools/loaders/sharq/CMakeFiles/sharq.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 62%] Building CXX object tools/loaders/sharq/CMakeFiles/sharq.dir/fastq_parse.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/sharq && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/lib/include -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/sharq/. -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/sharq/../../.. -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT tools/loaders/sharq/CMakeFiles/sharq.dir/fastq_parse.cpp.o -MF CMakeFiles/sharq.dir/fastq_parse.cpp.o.d -o CMakeFiles/sharq.dir/fastq_parse.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/sharq/fastq_parse.cpp [ 62%] Linking CXX executable ../../../test-bin/Test_KFF cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/internal/copycat && /usr/bin/cmake -E cmake_link_script CMakeFiles/Test_KFF.dir/link.txt --verbose=1 make -f tools/loaders/sra-load/CMakeFiles/sff-load.dir/build.make tools/loaders/sra-load/CMakeFiles/sff-load.dir/depend [ 63%] Linking CXX executable ../../../test-bin/Test_LOADER cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/loaders/loader && /usr/bin/cmake -E cmake_link_script CMakeFiles/Test_LOADER.dir/link.txt --verbose=1 make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/sra-load /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load/CMakeFiles/sff-load.dir/DependInfo.cmake "--color=" [ 63%] Building C object tools/loaders/bam-loader/CMakeFiles/bam-load.dir/bam.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/bam-loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/bam-loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/usr/include/ncbi-vdb/interfaces/ext -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/bam-loader/. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/bam-loader/CMakeFiles/bam-load.dir/bam.c.o -MF CMakeFiles/bam-load.dir/bam.c.o.d -o CMakeFiles/bam-load.dir/bam.c.o -c 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-Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/fastq-loader/CMakeFiles/latf-load.dir/common-writer.c.o -MF CMakeFiles/latf-load.dir/common-writer.c.o.d -o CMakeFiles/latf-load.dir/common-writer.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/fastq-loader/common-writer.c [ 63%] Building C object tools/loaders/sra-load/CMakeFiles/sff-load.dir/pstring.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/sff-load.dir/pstring.c.o -MF CMakeFiles/sff-load.dir/pstring.c.o.d -o CMakeFiles/sff-load.dir/pstring.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/sra-load/pstring.c [ 63%] Linking CXX executable ../../../test-bin/Test_Drivertool_JsonParsing cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/cmake -E cmake_link_script CMakeFiles/Test_Drivertool_JsonParsing.dir/link.txt --verbose=1 [ 63%] Linking CXX executable 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-lmbedtls -lmbedcrypto -lmagic make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/sra-load /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load/CMakeFiles/fastq-load.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 64%] Building CXX object test/external/driver-tool/CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/tool-args.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && 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/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load/CMakeFiles/srf-load.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f tools/loaders/sra-load/CMakeFiles/abi-load.dir/build.make tools/loaders/sra-load/CMakeFiles/abi-load.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/sra-load /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load 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-I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/fastq-load.dir/pstring.c.o -MF CMakeFiles/fastq-load.dir/pstring.c.o.d -o CMakeFiles/fastq-load.dir/pstring.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/sra-load/pstring.c make -f tools/loaders/sra-load/CMakeFiles/abi-load.dir/build.make tools/loaders/sra-load/CMakeFiles/abi-load.dir/build [ 64%] Building C object tools/loaders/sra-load/CMakeFiles/srf-load.dir/pstring.c.o make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd 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/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/sra-load/pstring.c [ 64%] Building C object tools/loaders/sra-load/CMakeFiles/sff-load.dir/common-xml.c.o [ 64%] Building C object tools/loaders/sra-load/CMakeFiles/abi-load.dir/pstring.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/sff-load.dir/common-xml.c.o -MF CMakeFiles/sff-load.dir/common-xml.c.o.d -o CMakeFiles/sff-load.dir/common-xml.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/sra-load/common-xml.c cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/abi-load.dir/pstring.c.o -MF CMakeFiles/abi-load.dir/pstring.c.o.d -o CMakeFiles/abi-load.dir/pstring.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/sra-load/pstring.c /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/Test_Drivertool_JsonParsing.dir/link.d "CMakeFiles/Test_Drivertool_JsonParsing.dir/test-json-parse.cpp.o" -o ../../../test-bin/Test_Drivertool_JsonParsing make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 64%] Built target Test_Drivertool_JsonParsing make -f tools/loaders/sra-load/CMakeFiles/illumina-load.dir/build.make tools/loaders/sra-load/CMakeFiles/illumina-load.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/sra-load /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load/CMakeFiles/illumina-load.dir/DependInfo.cmake "--color=" /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/Test_Drivertool_ToolArgs.dir/link.d "CMakeFiles/Test_Drivertool_ToolArgs.dir/test-tool-args.cpp.o" "CMakeFiles/Test_Drivertool_ToolArgs.dir/__/__/__/tools/external/driver-tool/tool-args.cpp.o" "CMakeFiles/Test_Drivertool_ToolArgs.dir/__/__/__/tools/external/driver-tool/command-line.cpp.o" "CMakeFiles/Test_Drivertool_ToolArgs.dir/__/__/__/tools/external/driver-tool/build-version.cpp.o" "CMakeFiles/Test_Drivertool_ToolArgs.dir/__/__/__/tools/external/driver-tool/file-path.posix.cpp.o" -o ../../../test-bin/Test_Drivertool_ToolArgs /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libktst.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -lmbedx509 -lmbedtls -lmbedcrypto make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make 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/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load/CMakeFiles/helicos-load.dir/DependInfo.cmake "--color=" [ 64%] Building C object tools/loaders/sra-load/CMakeFiles/illumina-load.dir/pstring.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function 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-I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/srf-load.dir/common-xml.c.o -MF CMakeFiles/srf-load.dir/common-xml.c.o.d -o CMakeFiles/srf-load.dir/common-xml.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/sra-load/common-xml.c [ 64%] Building C object tools/loaders/sra-load/CMakeFiles/helicos-load.dir/pstring.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/helicos-load.dir/pstring.c.o -MF CMakeFiles/helicos-load.dir/pstring.c.o.d -o CMakeFiles/helicos-load.dir/pstring.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/sra-load/pstring.c [ 64%] Building C object tools/loaders/sra-load/CMakeFiles/sff-load.dir/experiment-xml.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/sff-load.dir/experiment-xml.c.o -MF CMakeFiles/sff-load.dir/experiment-xml.c.o.d -o CMakeFiles/sff-load.dir/experiment-xml.c.o -c 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tools/loaders/sra-load/CMakeFiles/fastq-load.dir/common-xml.c.o -MF CMakeFiles/fastq-load.dir/common-xml.c.o.d -o CMakeFiles/fastq-load.dir/common-xml.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/sra-load/common-xml.c [ 64%] Building C object tools/loaders/sra-load/CMakeFiles/abi-load.dir/common-xml.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/abi-load.dir/common-xml.c.o -MF CMakeFiles/abi-load.dir/common-xml.c.o.d -o CMakeFiles/abi-load.dir/common-xml.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/sra-load/common-xml.c /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/general-writer/test/test-general-writer.cpp: In function 'void ncbi::runTest(int, const char**, const char*, const char*)': /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/general-writer/test/test-general-writer.cpp:295:20: warning: 'gw' may be used uninitialized [-Wmaybe-uninitialized] 295 | delete gw; | ^~ /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/general-writer/test/test-general-writer.cpp:232:24: note: 'gw' was declared here 232 | GeneralWriter *gw; | ^~ cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-java/examples && /usr/bin/cmake -E touch /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/examples/CMakeFiles/ngs-examples.dir/java_compiled_ngs-examples [ 64%] Generating CMakeFiles/ngs-examples.dir/java_class_filelist cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-java/examples && /usr/bin/cmake -DCMAKE_JAVA_CLASS_OUTPUT_PATH=/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/examples/CMakeFiles/ngs-examples.dir -DCMAKE_JAR_CLASSES_PREFIX= -P /usr/share/cmake-3.31/Modules/UseJava/ClassFilelist.cmake [ 65%] Building C object tools/loaders/sra-load/CMakeFiles/illumina-load.dir/common-xml.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/illumina-load.dir/common-xml.c.o -MF CMakeFiles/illumina-load.dir/common-xml.c.o.d -o CMakeFiles/illumina-load.dir/common-xml.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/sra-load/common-xml.c [ 65%] Building C object tools/loaders/fastq-loader/CMakeFiles/latf-load.dir/sequence-writer.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/fastq-loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fastq-loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/fastq-loader/CMakeFiles/latf-load.dir/sequence-writer.c.o -MF CMakeFiles/latf-load.dir/sequence-writer.c.o.d -o CMakeFiles/latf-load.dir/sequence-writer.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/fastq-loader/sequence-writer.c [ 65%] Creating Java archive ngs-examples.jar cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/examples/CMakeFiles/ngs-examples.dir && /usr/bin/jar -cf /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/lib/ngs-examples.jar @java_class_filelist [ 65%] Building C object tools/loaders/sra-load/CMakeFiles/helicos-load.dir/common-xml.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/helicos-load.dir/common-xml.c.o -MF CMakeFiles/helicos-load.dir/common-xml.c.o.d -o CMakeFiles/helicos-load.dir/common-xml.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/sra-load/common-xml.c [ 66%] Building C object tools/loaders/sra-load/CMakeFiles/helicos-load.dir/experiment-xml.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/helicos-load.dir/experiment-xml.c.o -MF CMakeFiles/helicos-load.dir/experiment-xml.c.o.d -o CMakeFiles/helicos-load.dir/experiment-xml.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/sra-load/experiment-xml.c [ 66%] Linking CXX executable ../../../test-bin/Test_Align_samextract cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/internal/align && /usr/bin/cmake -E cmake_link_script CMakeFiles/Test_Align_samextract.dir/link.txt --verbose=1 [ 67%] Building C object tools/loaders/fastq-loader/CMakeFiles/latf-load.dir/common-reader.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/fastq-loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fastq-loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/fastq-loader/CMakeFiles/latf-load.dir/common-reader.c.o -MF CMakeFiles/latf-load.dir/common-reader.c.o.d -o CMakeFiles/latf-load.dir/common-reader.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/fastq-loader/common-reader.c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/bam-loader/bam.c: In function 'BAM_FileMakeAlignment': /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/bam-loader/bam.c:1777:14: warning: '' may be used uninitialized [-Wmaybe-uninitialized] 1777 | if (!BAM_AlignmentInit(y, rsltsize, datasize, &y->extra[numExtra])) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/bam-loader/bam.c:1697:13: note: by argument 4 of type 'const void * const' to 'BAM_AlignmentInit' declared here 1697 | static bool BAM_AlignmentInit(BAM_Alignment *const self, unsigned const maxsize, | ^~~~~~~~~~~~~~~~~ [ 67%] Building C object tools/loaders/sra-load/CMakeFiles/srf-load.dir/experiment-xml.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/srf-load.dir/experiment-xml.c.o -MF CMakeFiles/srf-load.dir/experiment-xml.c.o.d -o CMakeFiles/srf-load.dir/experiment-xml.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/sra-load/experiment-xml.c [ 67%] Linking CXX executable ../../../test-bin/test-general-writer cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/libs/general-writer/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-general-writer.dir/link.txt --verbose=1 [ 67%] Building C object tools/loaders/sra-load/CMakeFiles/fastq-load.dir/experiment-xml.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/fastq-load.dir/experiment-xml.c.o -MF CMakeFiles/fastq-load.dir/experiment-xml.c.o.d -o CMakeFiles/fastq-load.dir/experiment-xml.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/sra-load/experiment-xml.c cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/examples/CMakeFiles/ngs-examples.dir && /usr/bin/cmake -D_JAVA_TARGET_DIR=/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/lib -D_JAVA_TARGET_OUTPUT_NAME=ngs-examples.jar -D_JAVA_TARGET_OUTPUT_LINK= -P /usr/share/cmake-3.31/Modules/UseJava/Symlinks.cmake /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/Test_Align_samextract.dir/link.d "CMakeFiles/Test_Align_samextract.dir/test-samextract.cpp.o" -o ../../../test-bin/Test_Align_samextract -lsam-extract /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libktst.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -lmbedx509 -lmbedtls -lmbedcrypto make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 67%] Building C object tools/loaders/fastq-loader/CMakeFiles/latf-load.dir/fastq-reader.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/fastq-loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fastq-loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/fastq-loader/CMakeFiles/latf-load.dir/fastq-reader.c.o -MF CMakeFiles/latf-load.dir/fastq-reader.c.o.d -o CMakeFiles/latf-load.dir/fastq-reader.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/fastq-loader/fastq-reader.c [ 67%] Built target Test_Align_samextract make -f tools/loaders/sra-load/CMakeFiles/pacbio-loadxml.dir/build.make tools/loaders/sra-load/CMakeFiles/pacbio-loadxml.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/sra-load /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load/CMakeFiles/pacbio-loadxml.dir/DependInfo.cmake "--color=" [ 67%] Built target ngs-examples make -f tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/build.make tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/pacbio-load /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/pacbio-load /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f tools/loaders/sra-load/CMakeFiles/pacbio-loadxml.dir/build.make tools/loaders/sra-load/CMakeFiles/pacbio-loadxml.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/build.make tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/build [ 67%] Building C object tools/loaders/sra-load/CMakeFiles/sff-load.dir/run-xml.c.o make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/sff-load.dir/run-xml.c.o -MF CMakeFiles/sff-load.dir/run-xml.c.o.d -o CMakeFiles/sff-load.dir/run-xml.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/sra-load/run-xml.c [ 67%] Building C object tools/loaders/sra-load/CMakeFiles/pacbio-loadxml.dir/pstring.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/pacbio-loadxml.dir/pstring.c.o -MF CMakeFiles/pacbio-loadxml.dir/pstring.c.o.d -o CMakeFiles/pacbio-loadxml.dir/pstring.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/sra-load/pstring.c /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/test-general-writer.dir/link.d "CMakeFiles/test-general-writer.dir/test-general-writer.cpp.o" -o ../../../test-bin/test-general-writer ../../../ilib/libgeneral-writer.a -Wl,-Bstatic -lktst -Wl,-Bdynamic /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -lmbedx509 -lmbedtls -lmbedcrypto [ 67%] Building C object tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/hdf5/hdf5arrayfile.c.o make[3]: Leaving directory 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"--color=" [ 67%] Building C object tools/loaders/sra-load/CMakeFiles/abi-load.dir/experiment-xml.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/abi-load.dir/experiment-xml.c.o -MF 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tools/loaders/sra-load/CMakeFiles/helicos-load.dir/loader-file.c.o -MF CMakeFiles/helicos-load.dir/loader-file.c.o.d -o CMakeFiles/helicos-load.dir/loader-file.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/sra-load/loader-file.c [ 67%] Linking CXX executable ../../../test-bin/Test_qa-stats_Fingerprint cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/test-tools/qa-stats && /usr/bin/cmake -E cmake_link_script CMakeFiles/Test_qa-stats_Fingerprint.dir/link.txt --verbose=1 [ 68%] Building C object tools/loaders/sra-load/CMakeFiles/sff-load.dir/loader-fmt.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/sff-load.dir/loader-fmt.c.o -MF CMakeFiles/sff-load.dir/loader-fmt.c.o.d -o CMakeFiles/sff-load.dir/loader-fmt.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/sra-load/loader-fmt.c [ 68%] Building C object tools/loaders/sra-load/CMakeFiles/pacbio-loadxml.dir/common-xml.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb 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make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 68%] Building C object tools/loaders/sra-load/CMakeFiles/helicos-load.dir/loader-fmt.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/helicos-load.dir/loader-fmt.c.o -MF CMakeFiles/helicos-load.dir/loader-fmt.c.o.d -o CMakeFiles/helicos-load.dir/loader-fmt.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/sra-load/loader-fmt.c [ 68%] Building C object tools/loaders/sra-load/CMakeFiles/srf-load.dir/run-xml.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security 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tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/hdf5/hdf5file.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/pacbio-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/pacbio-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/pacbio-load -I/usr/include/hdf5/serial -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -DH5_USE_110_API -std=c11 -rdynamic -MD -MT tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/hdf5/hdf5file.c.o -MF CMakeFiles/pacbio-load.dir/hdf5/hdf5file.c.o.d -o CMakeFiles/pacbio-load.dir/hdf5/hdf5file.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/pacbio-load/hdf5/hdf5file.c [ 68%] Building C object tools/loaders/sra-load/CMakeFiles/helicos-load.dir/sra-writer.c.o [ 68%] Building C object tools/loaders/sra-load/CMakeFiles/fastq-load.dir/run-xml.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/fastq-load.dir/run-xml.c.o -MF CMakeFiles/fastq-load.dir/run-xml.c.o.d -o CMakeFiles/fastq-load.dir/run-xml.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/sra-load/run-xml.c cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -Wno-stringop-truncation -MD -MT tools/loaders/sra-load/CMakeFiles/helicos-load.dir/sra-writer.c.o -MF CMakeFiles/helicos-load.dir/sra-writer.c.o.d -o CMakeFiles/helicos-load.dir/sra-writer.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/sra-load/sra-writer.c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/sra-load/loader.c: In function 'WriteSoftwareVersionsMeta': /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/sra-load/loader.c:889:45: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 889 | rc = KLoaderMeta_Write(node, argv0, __DATE__, fe_name, fe_version); | ^~~~~~~~ [ 68%] Building C object tools/loaders/cg-load/CMakeFiles/cg-load.dir/factory-evidence-intervals.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/cg-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/cg-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/cg-load/CMakeFiles/cg-load.dir/factory-evidence-intervals.c.o -MF CMakeFiles/cg-load.dir/factory-evidence-intervals.c.o.d -o CMakeFiles/cg-load.dir/factory-evidence-intervals.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/cg-load/factory-evidence-intervals.c [ 68%] Building C object tools/loaders/sra-load/CMakeFiles/sff-load.dir/writer-454.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/sff-load.dir/writer-454.c.o -MF CMakeFiles/sff-load.dir/writer-454.c.o.d -o CMakeFiles/sff-load.dir/writer-454.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/sra-load/writer-454.c [ 68%] Building C object tools/loaders/sra-load/CMakeFiles/helicos-load.dir/loader.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/helicos-load.dir/loader.c.o -MF CMakeFiles/helicos-load.dir/loader.c.o.d -o CMakeFiles/helicos-load.dir/loader.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/sra-load/loader.c [ 68%] Building C object tools/loaders/bam-loader/CMakeFiles/bam-load.dir/sam.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/bam-loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/bam-loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/usr/include/ncbi-vdb/interfaces/ext -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/bam-loader/. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/bam-loader/CMakeFiles/bam-load.dir/sam.c.o -MF CMakeFiles/bam-load.dir/sam.c.o.d -o CMakeFiles/bam-load.dir/sam.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/bam-loader/sam.c [ 68%] Building C object tools/loaders/sra-load/CMakeFiles/abi-load.dir/run-xml.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/abi-load.dir/run-xml.c.o -MF CMakeFiles/abi-load.dir/run-xml.c.o.d -o CMakeFiles/abi-load.dir/run-xml.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/sra-load/run-xml.c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/sra-load/loader.c: In function 'WriteSoftwareVersionsMeta': /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/sra-load/loader.c:889:45: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 889 | rc = KLoaderMeta_Write(node, argv0, __DATE__, fe_name, fe_version); | ^~~~~~~~ [ 68%] Building C object tools/loaders/sra-load/CMakeFiles/helicos-load.dir/writer-helicos.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/helicos-load.dir/writer-helicos.c.o -MF CMakeFiles/helicos-load.dir/writer-helicos.c.o.d -o CMakeFiles/helicos-load.dir/writer-helicos.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/sra-load/writer-helicos.c [ 69%] Building C object tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/pl-context.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/pacbio-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/pacbio-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/pacbio-load -I/usr/include/hdf5/serial -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -DH5_USE_110_API -std=c11 -rdynamic -MD -MT tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/pl-context.c.o -MF CMakeFiles/pacbio-load.dir/pl-context.c.o.d -o CMakeFiles/pacbio-load.dir/pl-context.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/pacbio-load/pl-context.c [ 69%] Building C object tools/loaders/fastq-loader/CMakeFiles/latf-load.dir/id2name.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/fastq-loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fastq-loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/fastq-loader/CMakeFiles/latf-load.dir/id2name.c.o -MF CMakeFiles/latf-load.dir/id2name.c.o.d -o CMakeFiles/latf-load.dir/id2name.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/fastq-loader/id2name.c [ 69%] Building C object tools/loaders/fastq-loader/CMakeFiles/latf-load.dir/zz_fastq-lex.c.o [ 69%] Building C object tools/loaders/sra-load/CMakeFiles/pacbio-loadxml.dir/experiment-xml.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/fastq-loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX 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/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/pacbio-loadxml.dir/experiment-xml.c.o -MF CMakeFiles/pacbio-loadxml.dir/experiment-xml.c.o.d -o CMakeFiles/pacbio-loadxml.dir/experiment-xml.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/sra-load/experiment-xml.c [ 69%] Building C object tools/loaders/sra-load/CMakeFiles/illumina-load.dir/run-xml.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/illumina-load.dir/run-xml.c.o -MF CMakeFiles/illumina-load.dir/run-xml.c.o.d -o CMakeFiles/illumina-load.dir/run-xml.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/sra-load/run-xml.c [ 69%] Linking CXX executable ../../../test-bin/Test_Vdb_dump_view-spec cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/external/vdb-dump && /usr/bin/cmake -E cmake_link_script CMakeFiles/Test_Vdb_dump_view-spec.dir/link.txt --verbose=1 [ 69%] Building C object tools/loaders/sra-load/CMakeFiles/sff-load.dir/writer-ion-torrent.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/sff-load.dir/writer-ion-torrent.c.o -MF CMakeFiles/sff-load.dir/writer-ion-torrent.c.o.d -o CMakeFiles/sff-load.dir/writer-ion-torrent.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/sra-load/writer-ion-torrent.c [ 69%] Building C object tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/pl-tools.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/pacbio-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/pacbio-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/pacbio-load -I/usr/include/hdf5/serial -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -DH5_USE_110_API -std=c11 -rdynamic -MD -MT tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/pl-tools.c.o -MF CMakeFiles/pacbio-load.dir/pl-tools.c.o.d -o CMakeFiles/pacbio-load.dir/pl-tools.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/pacbio-load/pl-tools.c [ 69%] Building C object tools/loaders/sra-load/CMakeFiles/sff-load.dir/sff-fmt.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/sff-load.dir/sff-fmt.c.o -MF CMakeFiles/sff-load.dir/sff-fmt.c.o.d -o CMakeFiles/sff-load.dir/sff-fmt.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/sra-load/sff-fmt.c [ 69%] Building C object tools/loaders/fastq-loader/CMakeFiles/latf-load.dir/fastq-loader.c.o [ 69%] Building C object tools/loaders/sra-load/CMakeFiles/abi-load.dir/loader-file.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/fastq-loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fastq-loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 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-lmbedx509 -lmbedtls -lmbedcrypto make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 69%] Building C object tools/loaders/sra-load/CMakeFiles/fastq-load.dir/loader-file.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 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-I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/srf-load.dir/loader-file.c.o -MF CMakeFiles/srf-load.dir/loader-file.c.o.d -o CMakeFiles/srf-load.dir/loader-file.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/sra-load/loader-file.c make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test/vschema 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-I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/abi-load.dir/loader-fmt.c.o -MF CMakeFiles/abi-load.dir/loader-fmt.c.o.d -o CMakeFiles/abi-load.dir/loader-fmt.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/sra-load/loader-fmt.c make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 69%] Building CXX object tools/loaders/general-loader/CMakeFiles/general-loader.dir/protocol-parser.cpp.o cd 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-I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/fastq-loader/CMakeFiles/latf-load.dir/loader-imp.c.o -MF CMakeFiles/latf-load.dir/loader-imp.c.o.d -o CMakeFiles/latf-load.dir/loader-imp.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/fastq-loader/loader-imp.c cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/bam-loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/bam-loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/usr/include/ncbi-vdb/interfaces/ext -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/bam-loader/. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/bam-loader/CMakeFiles/bam-load.dir/alignment-writer.c.o -MF CMakeFiles/bam-load.dir/alignment-writer.c.o.d -o CMakeFiles/bam-load.dir/alignment-writer.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/bam-loader/alignment-writer.c [ 69%] Building CXX object tools/loaders/general-loader/CMakeFiles/general-loader.dir/database-loader.cpp.o cd 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/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/database-loader.cpp [ 69%] Building C object tools/loaders/sra-load/CMakeFiles/illumina-load.dir/loader-file.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/illumina-load.dir/loader-file.c.o -MF CMakeFiles/illumina-load.dir/loader-file.c.o.d -o CMakeFiles/illumina-load.dir/loader-file.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/sra-load/loader-file.c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/fastq-loader/loader-imp.c: In function 'WriteLoaderSignature': /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/fastq-loader/loader-imp.c:180:48: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 180 | rc = KLoaderMeta_Write(node, progName, __DATE__, "FASTQ", KAppVersion()); | ^~~~~~~~ [ 69%] Building C object tools/loaders/sra-load/CMakeFiles/fastq-load.dir/loader-fmt.c.o [ 69%] Linking CXX executable ../../../bin/helicos-load cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/fastq-load.dir/loader-fmt.c.o -MF CMakeFiles/fastq-load.dir/loader-fmt.c.o.d -o CMakeFiles/fastq-load.dir/loader-fmt.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/sra-load/loader-fmt.c cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cmake -E cmake_link_script CMakeFiles/helicos-load.dir/link.txt --verbose=1 [ 69%] Building C object tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/pl-zmw.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/pacbio-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/pacbio-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/pacbio-load -I/usr/include/hdf5/serial -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -DH5_USE_110_API -std=c11 -rdynamic -MD -MT tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/pl-zmw.c.o -MF CMakeFiles/pacbio-load.dir/pl-zmw.c.o.d -o CMakeFiles/pacbio-load.dir/pl-zmw.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/pacbio-load/pl-zmw.c [ 69%] Linking CXX executable ../../../test-bin/Test_qa-stats_Output cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/test-tools/qa-stats && /usr/bin/cmake -E cmake_link_script CMakeFiles/Test_qa-stats_Output.dir/link.txt --verbose=1 /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/sra-info.dir/link.d "CMakeFiles/sra-info.dir/main.cpp.o" "CMakeFiles/sra-info.dir/sra-info.cpp.o" "CMakeFiles/sra-info.dir/formatter.cpp.o" -o ../../../bin/sra-info /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -lmbedx509 -lmbedtls -lmbedcrypto cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && rm -f sra-info.3.2.1 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && mv sra-info sra-info.3.2.1 /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/database-loader.cpp:833:90: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 833 | rc = KLoaderMeta_WriteWithVersion ( node, m_programName.c_str(), __DATE__, KAppVersion(), m_softwareName.c_str(), m_softwareVersion ); | ^~~~~~~~ cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sra-info.3.2.1 sra-info.3 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sra-info.3 sra-info make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 70%] Building C object tools/loaders/sra-load/CMakeFiles/srf-load.dir/loader-fmt.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/srf-load.dir/loader-fmt.c.o -MF CMakeFiles/srf-load.dir/loader-fmt.c.o.d -o CMakeFiles/srf-load.dir/loader-fmt.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/sra-load/loader-fmt.c make -f tools/loaders/general-loader/test/vschema/CMakeFiles/idx-text-makeinputs.dir/build.make tools/loaders/general-loader/test/vschema/CMakeFiles/idx-text-makeinputs.dir/depend [ 70%] Built target sra-info [ 70%] Linking CXX executable ../../../bin/sam-factory make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test/vschema /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader/test/vschema 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/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/prefetch/CMakeFiles/prefetch.dir/DependInfo.cmake "--color=" [ 70%] Building C object tools/loaders/sra-load/CMakeFiles/srf-load.dir/sra-writer.c.o [ 70%] Building C object tools/loaders/sra-load/CMakeFiles/abi-load.dir/sra-writer.c.o make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -Wno-stringop-truncation -MD -MT tools/loaders/sra-load/CMakeFiles/srf-load.dir/sra-writer.c.o -MF CMakeFiles/srf-load.dir/sra-writer.c.o.d -o CMakeFiles/srf-load.dir/sra-writer.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/sra-load/sra-writer.c make -f tools/loaders/general-loader/test/vschema/CMakeFiles/idx-text-makeinputs.dir/build.make tools/loaders/general-loader/test/vschema/CMakeFiles/idx-text-makeinputs.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -Wno-stringop-truncation -MD -MT tools/loaders/sra-load/CMakeFiles/abi-load.dir/sra-writer.c.o -MF CMakeFiles/abi-load.dir/sra-writer.c.o.d -o CMakeFiles/abi-load.dir/sra-writer.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/sra-load/sra-writer.c make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f tools/external/prefetch/CMakeFiles/prefetch.dir/build.make tools/external/prefetch/CMakeFiles/prefetch.dir/build [ 70%] Building C object tools/loaders/sra-load/CMakeFiles/pacbio-loadxml.dir/run-xml.c.o [ 70%] Linking CXX executable ../../../bin/latf-load make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time 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-I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test/.. -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT tools/loaders/general-loader/test/vschema/CMakeFiles/idx-text-makeinputs.dir/idx-text/makeinputs.cpp.o -MF CMakeFiles/idx-text-makeinputs.dir/idx-text/makeinputs.cpp.o.d -o CMakeFiles/idx-text-makeinputs.dir/idx-text/makeinputs.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test/vschema/idx-text/makeinputs.cpp [ 70%] Building C object tools/loaders/bam-loader/CMakeFiles/bam-load.dir/reference-writer.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/bam-loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/bam-loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/usr/include/ncbi-vdb/interfaces/ext -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/bam-loader/. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/bam-loader/CMakeFiles/bam-load.dir/reference-writer.c.o -MF CMakeFiles/bam-load.dir/reference-writer.c.o.d -o CMakeFiles/bam-load.dir/reference-writer.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/bam-loader/reference-writer.c [ 70%] Building C object tools/external/prefetch/CMakeFiles/prefetch.dir/kfile-no-q.c.o [ 70%] Linking CXX executable ../../../bin/sff-load [ 70%] Building C object tools/loaders/sra-load/CMakeFiles/illumina-load.dir/loader-fmt.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cmake -E cmake_link_script CMakeFiles/sff-load.dir/link.txt --verbose=1 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/illumina-load.dir/loader-fmt.c.o -MF CMakeFiles/illumina-load.dir/loader-fmt.c.o.d -o CMakeFiles/illumina-load.dir/loader-fmt.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/sra-load/loader-fmt.c cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/prefetch && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/prefetch\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/prefetch/CMakeFiles/prefetch.dir/kfile-no-q.c.o -MF CMakeFiles/prefetch.dir/kfile-no-q.c.o.d -o CMakeFiles/prefetch.dir/kfile-no-q.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/prefetch/kfile-no-q.c [ 70%] Linking CXX executable ../../../test-bin/test-vdb-config-model cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/external/vdb-config && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-vdb-config-model.dir/link.txt --verbose=1 /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/Test_qa-stats_Output.dir/link.d "CMakeFiles/Test_qa-stats_Output.dir/test-output.cpp.o" -o ../../../test-bin/Test_qa-stats_Output /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libktst.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -lmbedx509 -lmbedtls -lmbedcrypto make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 70%] Building C object tools/loaders/sra-load/CMakeFiles/illumina-load.dir/sra-writer.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -Wno-stringop-truncation -MD -MT tools/loaders/sra-load/CMakeFiles/illumina-load.dir/sra-writer.c.o -MF CMakeFiles/illumina-load.dir/sra-writer.c.o.d -o CMakeFiles/illumina-load.dir/sra-writer.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/sra-load/sra-writer.c make -f tools/external/vdb-config/CMakeFiles/vdb-config.dir/build.make tools/external/vdb-config/CMakeFiles/vdb-config.dir/depend /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/helicos-load.dir/link.d "CMakeFiles/helicos-load.dir/pstring.c.o" "CMakeFiles/helicos-load.dir/common-xml.c.o" "CMakeFiles/helicos-load.dir/experiment-xml.c.o" "CMakeFiles/helicos-load.dir/run-xml.c.o" "CMakeFiles/helicos-load.dir/loader-file.c.o" "CMakeFiles/helicos-load.dir/loader-fmt.c.o" "CMakeFiles/helicos-load.dir/sra-writer.c.o" "CMakeFiles/helicos-load.dir/loader.c.o" "CMakeFiles/helicos-load.dir/writer-helicos.c.o" "CMakeFiles/helicos-load.dir/helicos-fmt.c.o" -o ../../../bin/helicos-load ../../../ilib/libloader.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm -lmbedx509 -lmbedtls -lmbedcrypto ../../../ilib/libkxml.a /usr/lib/x86_64-linux-gnu/libxml2.so ../../../ilib/libksrch.a cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && rm -f helicos-load.3.2.1 [ 70%] Building C object tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/pl-basecalls_cmn.c.o [ 70%] Building C object tools/loaders/sra-load/CMakeFiles/fastq-load.dir/sra-writer.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/pacbio-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/pacbio-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/pacbio-load -I/usr/include/hdf5/serial -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -DH5_USE_110_API -std=c11 -rdynamic -MD -MT tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/pl-basecalls_cmn.c.o -MF CMakeFiles/pacbio-load.dir/pl-basecalls_cmn.c.o.d -o CMakeFiles/pacbio-load.dir/pl-basecalls_cmn.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/pacbio-load/pl-basecalls_cmn.c make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/vdb-config /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/CMakeFiles/vdb-config.dir/DependInfo.cmake "--color=" cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -Wno-stringop-truncation -MD -MT tools/loaders/sra-load/CMakeFiles/fastq-load.dir/sra-writer.c.o -MF CMakeFiles/fastq-load.dir/sra-writer.c.o.d -o CMakeFiles/fastq-load.dir/sra-writer.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/sra-load/sra-writer.c cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && mv helicos-load helicos-load.3.2.1 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s helicos-load.3.2.1 helicos-load.3 [ 70%] Built target Test_qa-stats_Output make -f tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/build.make tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/depend cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s helicos-load.3 helicos-load make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/fasterq-dump /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f tools/external/vdb-config/CMakeFiles/vdb-config.dir/build.make tools/external/vdb-config/CMakeFiles/vdb-config.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/build.make tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/build [ 70%] Built target helicos-load /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/sam-factory.dir/link.d "CMakeFiles/sam-factory.dir/sam-factory.cpp.o" -o ../../../bin/sam-factory /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -lmbedx509 -lmbedtls -lmbedcrypto make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f tools/external/test-sra/CMakeFiles/test-sra.dir/build.make tools/external/test-sra/CMakeFiles/test-sra.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/test-sra /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/test-sra /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/test-sra/CMakeFiles/test-sra.dir/DependInfo.cmake "--color=" [ 70%] Building CXX object tools/external/vdb-config/CMakeFiles/vdb-config.dir/configure.cpp.o /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/latf-load.dir/link.d "CMakeFiles/latf-load.dir/spot-assembler.c.o" "CMakeFiles/latf-load.dir/common-writer.c.o" "CMakeFiles/latf-load.dir/sequence-writer.c.o" "CMakeFiles/latf-load.dir/common-reader.c.o" "CMakeFiles/latf-load.dir/fastq-reader.c.o" "CMakeFiles/latf-load.dir/zz_fastq-grammar.c.o" "CMakeFiles/latf-load.dir/zz_fastq-lex.c.o" "CMakeFiles/latf-load.dir/id2name.c.o" "CMakeFiles/latf-load.dir/fastq-loader.c.o" "CMakeFiles/latf-load.dir/loader-imp.c.o" -o ../../../bin/latf-load ../../../ilib/libloader.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm -lmbedx509 -lmbedtls -lmbedcrypto cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && rm -f latf-load.3.2.1 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-config\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/vdb-config -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT tools/external/vdb-config/CMakeFiles/vdb-config.dir/configure.cpp.o -MF CMakeFiles/vdb-config.dir/configure.cpp.o.d -o CMakeFiles/vdb-config.dir/configure.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/vdb-config/configure.cpp cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && mv latf-load latf-load.3.2.1 [ 70%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/helper.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/helper.c.o -MF CMakeFiles/fasterq-dump.dir/helper.c.o.d -o CMakeFiles/fasterq-dump.dir/helper.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/fasterq-dump/helper.c [ 70%] Built target sam-factory cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s latf-load.3.2.1 latf-load.3 make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f test/external/sra-stat/CMakeFiles/Build-sra-stat.dir/build.make test/external/sra-stat/CMakeFiles/Build-sra-stat.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/sra-stat /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/external/sra-stat /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/external/sra-stat/CMakeFiles/Build-sra-stat.dir/DependInfo.cmake "--color=" make -f tools/external/test-sra/CMakeFiles/test-sra.dir/build.make tools/external/test-sra/CMakeFiles/test-sra.dir/build cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s latf-load.3 latf-load [ 70%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/arg_helper.c.o make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/arg_helper.c.o -MF CMakeFiles/fasterq-dump.dir/arg_helper.c.o.d -o CMakeFiles/fasterq-dump.dir/arg_helper.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/fasterq-dump/arg_helper.c make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f test/external/sra-stat/CMakeFiles/Build-sra-stat.dir/build.make test/external/sra-stat/CMakeFiles/Build-sra-stat.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'test/external/sra-stat/CMakeFiles/Build-sra-stat.dir/build'. make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/test-vdb-config-model.dir/link.d "CMakeFiles/test-vdb-config-model.dir/test-vdb-config-model.cpp.o" -o ../../../test-bin/test-vdb-config-model /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libktst.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -lmbedx509 -lmbedtls -lmbedcrypto make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 70%] Building C object tools/external/test-sra/CMakeFiles/test-sra.dir/test-sra.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/test-sra && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/test-sra\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/test-sra/. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/test-sra/CMakeFiles/test-sra.dir/test-sra.c.o -MF CMakeFiles/test-sra.dir/test-sra.c.o.d -o CMakeFiles/test-sra.dir/test-sra.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/test-sra/test-sra.c [ 70%] Building C object tools/external/prefetch/CMakeFiles/prefetch.dir/PrfMain.c.o [ 70%] Built target latf-load [ 70%] Building C object tools/loaders/sra-load/CMakeFiles/illumina-load.dir/loader.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/prefetch && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/prefetch\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/prefetch/CMakeFiles/prefetch.dir/PrfMain.c.o -MF CMakeFiles/prefetch.dir/PrfMain.c.o.d -o CMakeFiles/prefetch.dir/PrfMain.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/prefetch/PrfMain.c [ 70%] Building C object tools/loaders/sra-load/CMakeFiles/srf-load.dir/loader.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/illumina-load.dir/loader.c.o -MF CMakeFiles/illumina-load.dir/loader.c.o.d -o CMakeFiles/illumina-load.dir/loader.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/sra-load/loader.c cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/srf-load.dir/loader.c.o -MF CMakeFiles/srf-load.dir/loader.c.o.d -o CMakeFiles/srf-load.dir/loader.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/sra-load/loader.c make -f test/external/sra-info/CMakeFiles/Build-sra-info.dir/build.make test/external/sra-info/CMakeFiles/Build-sra-info.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/sra-info /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/external/sra-info /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/external/sra-info/CMakeFiles/Build-sra-info.dir/DependInfo.cmake "--color=" [ 70%] Building C object tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/pl-sequence.c.o [ 70%] Built target Build-sra-stat cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/pacbio-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/pacbio-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/pacbio-load -I/usr/include/hdf5/serial -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -DH5_USE_110_API -std=c11 -rdynamic -MD -MT tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/pl-sequence.c.o -MF CMakeFiles/pacbio-load.dir/pl-sequence.c.o.d -o CMakeFiles/pacbio-load.dir/pl-sequence.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/pacbio-load/pl-sequence.c make -f test/loaders/fastq-loader/CMakeFiles/Build-latf-load.dir/build.make test/loaders/fastq-loader/CMakeFiles/Build-latf-load.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/loaders/fastq-loader /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/loaders/fastq-loader/CMakeFiles/Build-latf-load.dir/DependInfo.cmake "--color=" [ 70%] Built target test-vdb-config-model make -f test/loaders/fastq-loader/CMakeFiles/SlowTest_FastqLoader_id2name.dir/build.make test/loaders/fastq-loader/CMakeFiles/SlowTest_FastqLoader_id2name.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/loaders/fastq-loader /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/loaders/fastq-loader/CMakeFiles/SlowTest_FastqLoader_id2name.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f test/external/sra-info/CMakeFiles/Build-sra-info.dir/build.make test/external/sra-info/CMakeFiles/Build-sra-info.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'test/external/sra-info/CMakeFiles/Build-sra-info.dir/build'. make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f test/loaders/fastq-loader/CMakeFiles/Build-latf-load.dir/build.make test/loaders/fastq-loader/CMakeFiles/Build-latf-load.dir/build [ 71%] Building C object tools/loaders/sra-load/CMakeFiles/abi-load.dir/loader.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/abi-load.dir/loader.c.o -MF CMakeFiles/abi-load.dir/loader.c.o.d -o CMakeFiles/abi-load.dir/loader.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/sra-load/loader.c make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f test/loaders/fastq-loader/CMakeFiles/SlowTest_FastqLoader_id2name.dir/build.make test/loaders/fastq-loader/CMakeFiles/SlowTest_FastqLoader_id2name.dir/build make[3]: Nothing to be done for 'test/loaders/fastq-loader/CMakeFiles/Build-latf-load.dir/build'. make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 71%] Building C object tools/loaders/cg-load/CMakeFiles/cg-load.dir/factory-mappings.c.o [ 71%] Building CXX object test/loaders/fastq-loader/CMakeFiles/SlowTest_FastqLoader_id2name.dir/test-id2name.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/cg-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/cg-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/cg-load/CMakeFiles/cg-load.dir/factory-mappings.c.o -MF CMakeFiles/cg-load.dir/factory-mappings.c.o.d -o CMakeFiles/cg-load.dir/factory-mappings.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/cg-load/factory-mappings.c [ 71%] Built target Build-sra-info cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/loaders/fastq-loader && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT test/loaders/fastq-loader/CMakeFiles/SlowTest_FastqLoader_id2name.dir/test-id2name.cpp.o -MF CMakeFiles/SlowTest_FastqLoader_id2name.dir/test-id2name.cpp.o.d -o CMakeFiles/SlowTest_FastqLoader_id2name.dir/test-id2name.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader/test-id2name.cpp make -f test/loaders/fastq-loader/CMakeFiles/Test_FastqLoader_WbFastq_dflt.dir/build.make test/loaders/fastq-loader/CMakeFiles/Test_FastqLoader_WbFastq_dflt.dir/depend /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/sra-load/loader.c: In function 'WriteSoftwareVersionsMeta': /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/sra-load/loader.c:889:45: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 889 | rc = KLoaderMeta_Write(node, argv0, __DATE__, fe_name, fe_version); | ^~~~~~~~ make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/loaders/fastq-loader /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/loaders/fastq-loader/CMakeFiles/Test_FastqLoader_WbFastq_dflt.dir/DependInfo.cmake "--color=" [ 71%] Built target Build-latf-load make -f test/loaders/fastq-loader/CMakeFiles/Test_FastqLoader_WbFastqParse.dir/build.make test/loaders/fastq-loader/CMakeFiles/Test_FastqLoader_WbFastqParse.dir/depend /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/sra-load/loader.c: In function 'WriteSoftwareVersionsMeta': make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/loaders/fastq-loader /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/loaders/fastq-loader/CMakeFiles/Test_FastqLoader_WbFastqParse.dir/DependInfo.cmake "--color=" /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/sra-load/loader.c:889:45: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 889 | rc = KLoaderMeta_Write(node, argv0, __DATE__, fe_name, fe_version); | ^~~~~~~~ [ 72%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/dflt_defline.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/dflt_defline.c.o -MF CMakeFiles/fasterq-dump.dir/dflt_defline.c.o.d -o CMakeFiles/fasterq-dump.dir/dflt_defline.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/fasterq-dump/dflt_defline.c [ 72%] Building C object tools/loaders/bam-loader/CMakeFiles/bam-load.dir/sequence-writer.c.o make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/bam-loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/bam-loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/usr/include/ncbi-vdb/interfaces/ext -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/bam-loader/. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/bam-loader/CMakeFiles/bam-load.dir/sequence-writer.c.o -MF CMakeFiles/bam-load.dir/sequence-writer.c.o.d -o CMakeFiles/bam-load.dir/sequence-writer.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/bam-loader/sequence-writer.c make -f test/loaders/fastq-loader/CMakeFiles/Test_FastqLoader_WbFastq_dflt.dir/build.make test/loaders/fastq-loader/CMakeFiles/Test_FastqLoader_WbFastq_dflt.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f test/loaders/fastq-loader/CMakeFiles/Test_FastqLoader_WbFastqParse.dir/build.make test/loaders/fastq-loader/CMakeFiles/Test_FastqLoader_WbFastqParse.dir/build /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/sff-load.dir/link.d "CMakeFiles/sff-load.dir/pstring.c.o" "CMakeFiles/sff-load.dir/common-xml.c.o" "CMakeFiles/sff-load.dir/experiment-xml.c.o" "CMakeFiles/sff-load.dir/run-xml.c.o" "CMakeFiles/sff-load.dir/loader-file.c.o" "CMakeFiles/sff-load.dir/loader-fmt.c.o" "CMakeFiles/sff-load.dir/sra-writer.c.o" "CMakeFiles/sff-load.dir/loader.c.o" "CMakeFiles/sff-load.dir/writer-454.c.o" "CMakeFiles/sff-load.dir/writer-ion-torrent.c.o" "CMakeFiles/sff-load.dir/sff-fmt.c.o" -o ../../../bin/sff-load ../../../ilib/libloader.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm -lmbedx509 -lmbedtls -lmbedcrypto ../../../ilib/libkxml.a /usr/lib/x86_64-linux-gnu/libxml2.so ../../../ilib/libksrch.a cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && rm -f sff-load.3.2.1 make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/sra-load/loader.c: In function 'WriteSoftwareVersionsMeta': [ 72%] Building C object tools/loaders/sra-load/CMakeFiles/illumina-load.dir/writer-illumina.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/illumina-load.dir/writer-illumina.c.o -MF CMakeFiles/illumina-load.dir/writer-illumina.c.o.d -o CMakeFiles/illumina-load.dir/writer-illumina.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/sra-load/writer-illumina.c cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && mv sff-load sff-load.3.2.1 /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/sra-load/loader.c:889:45: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 889 | rc = KLoaderMeta_Write(node, argv0, __DATE__, fe_name, fe_version); | ^~~~~~~~ cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sff-load.3.2.1 sff-load.3 [ 72%] Building C object tools/loaders/sra-load/CMakeFiles/fastq-load.dir/loader.c.o [ 72%] Building CXX object test/loaders/fastq-loader/CMakeFiles/Test_FastqLoader_WbFastq_dflt.dir/wb-test-fastq.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/fastq-load.dir/loader.c.o -MF CMakeFiles/fastq-load.dir/loader.c.o.d -o CMakeFiles/fastq-load.dir/loader.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/sra-load/loader.c cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/loaders/fastq-loader && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT test/loaders/fastq-loader/CMakeFiles/Test_FastqLoader_WbFastq_dflt.dir/wb-test-fastq.cpp.o -MF CMakeFiles/Test_FastqLoader_WbFastq_dflt.dir/wb-test-fastq.cpp.o.d -o CMakeFiles/Test_FastqLoader_WbFastq_dflt.dir/wb-test-fastq.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader/wb-test-fastq.cpp cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sff-load.3 sff-load [ 72%] Building CXX object test/loaders/fastq-loader/CMakeFiles/Test_FastqLoader_WbFastqParse.dir/wb-test-fastq-parse.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/loaders/fastq-loader && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT test/loaders/fastq-loader/CMakeFiles/Test_FastqLoader_WbFastqParse.dir/wb-test-fastq-parse.cpp.o -MF CMakeFiles/Test_FastqLoader_WbFastqParse.dir/wb-test-fastq-parse.cpp.o.d -o CMakeFiles/Test_FastqLoader_WbFastqParse.dir/wb-test-fastq-parse.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader/wb-test-fastq-parse.cpp make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 72%] Built target sff-load make -f test/loaders/fastq-loader/CMakeFiles/Test_FastqLoader_WbFastqLoader.dir/build.make test/loaders/fastq-loader/CMakeFiles/Test_FastqLoader_WbFastqLoader.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/loaders/fastq-loader /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/loaders/fastq-loader/CMakeFiles/Test_FastqLoader_WbFastqLoader.dir/DependInfo.cmake "--color=" [ 72%] Building CXX object tools/loaders/general-loader/test/CMakeFiles/makeinputs.dir/testsource.cpp.o [ 72%] Linking CXX executable ../../test-bin/Test_VDB cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/vdb && /usr/bin/cmake -E cmake_link_script CMakeFiles/Test_VDB.dir/link.txt --verbose=1 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test/.. -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT tools/loaders/general-loader/test/CMakeFiles/makeinputs.dir/testsource.cpp.o -MF CMakeFiles/makeinputs.dir/testsource.cpp.o.d -o CMakeFiles/makeinputs.dir/testsource.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test/testsource.cpp make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f test/loaders/fastq-loader/CMakeFiles/Test_FastqLoader_WbFastqLoader.dir/build.make test/loaders/fastq-loader/CMakeFiles/Test_FastqLoader_WbFastqLoader.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test/vschema/bio-end/makeinputs.cpp: In function 'void run(const char*, bool, const int32_t*, const int32_t*, const int8_t*, int)': /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test/vschema/bio-end/makeinputs.cpp:76:16: warning: 'gw' may be used uninitialized [-Wmaybe-uninitialized] 76 | delete gw; | ^~ /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test/vschema/bio-end/makeinputs.cpp:45:20: note: 'gw' was declared here 45 | GeneralWriter *gw; | ^~ [ 72%] Building CXX object test/loaders/fastq-loader/CMakeFiles/Test_FastqLoader_WbFastqLoader.dir/test-fastq-loader.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/loaders/fastq-loader && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT test/loaders/fastq-loader/CMakeFiles/Test_FastqLoader_WbFastqLoader.dir/test-fastq-loader.cpp.o -MF CMakeFiles/Test_FastqLoader_WbFastqLoader.dir/test-fastq-loader.cpp.o.d -o CMakeFiles/Test_FastqLoader_WbFastqLoader.dir/test-fastq-loader.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader/test-fastq-loader.cpp /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/cg-load/factory-mappings.c: In function 'CGMappings15_Read': /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/cg-load/factory-mappings.c:248:16: warning: 'tmp' may be used uninitialized [-Wmaybe-uninitialized] 248 | if( tmp[0] < 33 || tmp[0] > 126 ) { | ~~~^~~ /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/cg-load/factory-mappings.c:225:14: note: 'tmp' declared here 225 | char tmp[2]; | ^~~ /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/sra-load/loader.c: In function 'WriteSoftwareVersionsMeta': /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/sra-load/loader.c:889:45: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 889 | rc = KLoaderMeta_Write(node, argv0, __DATE__, fe_name, fe_version); | ^~~~~~~~ [ 73%] Building CXX object tools/external/vdb-config/CMakeFiles/vdb-config.dir/util.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-config\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/vdb-config -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT tools/external/vdb-config/CMakeFiles/vdb-config.dir/util.cpp.o -MF CMakeFiles/vdb-config.dir/util.cpp.o.d -o CMakeFiles/vdb-config.dir/util.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/vdb-config/util.cpp [ 73%] Building C object tools/loaders/sra-load/CMakeFiles/pacbio-loadxml.dir/loader-file.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/pacbio-loadxml.dir/loader-file.c.o -MF CMakeFiles/pacbio-loadxml.dir/loader-file.c.o.d -o CMakeFiles/pacbio-loadxml.dir/loader-file.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/sra-load/loader-file.c [ 73%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/tool_ctx.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/tool_ctx.c.o -MF CMakeFiles/fasterq-dump.dir/tool_ctx.c.o.d -o CMakeFiles/fasterq-dump.dir/tool_ctx.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/fasterq-dump/tool_ctx.c [ 73%] Linking CXX executable ../../../test-bin/Test_Drivertool_FilePath [ 73%] Linking CXX executable ../../../test-bin/Test_qa-stats_Input cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/test-tools/qa-stats && /usr/bin/cmake -E cmake_link_script CMakeFiles/Test_qa-stats_Input.dir/link.txt --verbose=1 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/cmake -E cmake_link_script CMakeFiles/Test_Drivertool_FilePath.dir/link.txt --verbose=1 [ 73%] Building C object tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/pl-consensus.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/pacbio-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/pacbio-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/pacbio-load -I/usr/include/hdf5/serial -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -DH5_USE_110_API -std=c11 -rdynamic -MD -MT tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/pl-consensus.c.o -MF CMakeFiles/pacbio-load.dir/pl-consensus.c.o.d -o CMakeFiles/pacbio-load.dir/pl-consensus.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/pacbio-load/pl-consensus.c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/fasterq-dump/tool_ctx.c: In function 'tctx_extract_short_accession': /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/fasterq-dump/tool_ctx.c:362:22: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 362 | ReportBuildDate( __DATE__ ); | ^~~~~~~~ /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/Test_VDB.dir/link.d "CMakeFiles/Test_VDB.dir/test-vdb.cpp.o" -o ../../test-bin/Test_VDB -lkapp /usr/lib/x86_64-linux-gnu/libkapp.a ../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libktst.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -lmbedx509 -lmbedtls -lmbedcrypto make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 74%] Building CXX object tools/loaders/bam-loader/CMakeFiles/bam-load.dir/loader-imp.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/bam-loader && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/bam-loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/usr/include/ncbi-vdb/interfaces/ext -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/bam-loader/. -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT tools/loaders/bam-loader/CMakeFiles/bam-load.dir/loader-imp.c.o -MF CMakeFiles/bam-load.dir/loader-imp.c.o.d -o CMakeFiles/bam-load.dir/loader-imp.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/bam-loader/loader-imp.c [ 74%] Built target Test_VDB make -f ngs/ngs-sdk/CMakeFiles/ngs-c++.dir/build.make ngs/ngs-sdk/CMakeFiles/ngs-c++.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/CMakeFiles/ngs-c++.dir/DependInfo.cmake "--color=" /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/cg-load/factory-mappings.c: In function 'CGMappings22_Read': /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/cg-load/factory-mappings.c:311:16: warning: 'tmp' may be used uninitialized [-Wmaybe-uninitialized] 311 | if( tmp[0] < 33 || tmp[0] > 126 ) { | ~~~^~~ /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/cg-load/factory-mappings.c:287:14: note: 'tmp' declared here 287 | char tmp[2]; | ^~~ make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f ngs/ngs-sdk/CMakeFiles/ngs-c++.dir/build.make ngs/ngs-sdk/CMakeFiles/ngs-c++.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 74%] Linking CXX static library ../../lib/libngs-c++.a cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk && /usr/bin/cmake -P CMakeFiles/ngs-c++.dir/cmake_clean_target.cmake /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/Test_qa-stats_Input.dir/link.d "CMakeFiles/Test_qa-stats_Input.dir/test-input.cpp.o" "CMakeFiles/Test_qa-stats_Input.dir/__/__/__/tools/test-tools/qa-stats/input.cpp.o" -o ../../../test-bin/Test_qa-stats_Input /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libktst.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -lmbedx509 -lmbedtls -lmbedcrypto make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 74%] Linking CXX executable ../../../bin/sratools cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/driver-tool && /usr/bin/cmake -E cmake_link_script CMakeFiles/sratools.dir/link.txt --verbose=1 [ 74%] Building C object tools/loaders/sra-load/CMakeFiles/pacbio-loadxml.dir/loader-fmt.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk && /usr/bin/cmake -E cmake_link_script CMakeFiles/ngs-c++.dir/link.txt --verbose=1 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/pacbio-loadxml.dir/loader-fmt.c.o -MF CMakeFiles/pacbio-loadxml.dir/loader-fmt.c.o.d -o CMakeFiles/pacbio-loadxml.dir/loader-fmt.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/sra-load/loader-fmt.c [ 74%] Built target Test_qa-stats_Input make -f ngs/ngs-sdk/CMakeFiles/ngs-c++-shared.dir/build.make ngs/ngs-sdk/CMakeFiles/ngs-c++-shared.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/CMakeFiles/ngs-c++-shared.dir/DependInfo.cmake "--color=" /usr/bin/ar qc ../../lib/libngs-c++.a "language/c++/CMakeFiles/ngs-bind-c++.dir/ReadCollection.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/ReferenceSequence.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/ReferenceIterator.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/Reference.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/PileupIterator.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/Pileup.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/PileupEventIterator.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/PileupEvent.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/AlignmentIterator.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/Alignment.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/ReadGroupIterator.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/ReadGroup.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/ReadIterator.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/Read.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/FragmentIterator.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/Fragment.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/Statistics.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/StringRef.cpp.o" "dispatch/CMakeFiles/ngs-disp.dir/ReadCollectionItf.cpp.o" "dispatch/CMakeFiles/ngs-disp.dir/ReferenceItf.cpp.o" "dispatch/CMakeFiles/ngs-disp.dir/ReferenceSequenceItf.cpp.o" "dispatch/CMakeFiles/ngs-disp.dir/PileupItf.cpp.o" "dispatch/CMakeFiles/ngs-disp.dir/PileupEventItf.cpp.o" "dispatch/CMakeFiles/ngs-disp.dir/AlignmentItf.cpp.o" "dispatch/CMakeFiles/ngs-disp.dir/ReadGroupItf.cpp.o" "dispatch/CMakeFiles/ngs-disp.dir/ReadItf.cpp.o" "dispatch/CMakeFiles/ngs-disp.dir/FragmentItf.cpp.o" "dispatch/CMakeFiles/ngs-disp.dir/StatisticsItf.cpp.o" "dispatch/CMakeFiles/ngs-disp.dir/PackageItf.cpp.o" "dispatch/CMakeFiles/ngs-disp.dir/StringItf.cpp.o" "dispatch/CMakeFiles/ngs-disp.dir/Refcount.cpp.o" "dispatch/CMakeFiles/ngs-disp.dir/VTable.cpp.o" "dispatch/CMakeFiles/ngs-disp.dir/ErrBlock.cpp.o" "dispatch/CMakeFiles/ngs-disp.dir/ErrorMsg.cpp.o" "../ncbi/ngs/CMakeFiles/ngs.dir/NCBI-NGS.c.o" ../ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_PileupEvent.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_Pileup.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_Alignment.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_ReferenceWindow.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_Reference.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_ReadCollection.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_Read.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/EBI_ReferenceSequence.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/SRA_Statistics.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/SRA_DB_ReadCollection.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/SRA_Read.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/SRA_ReadGroup.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/SRA_ReadGroupInfo.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/SRA_ReadCollection.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/SRA_ReferenceSequence.c.o 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"../ncbi/ngs-c++/CMakeFiles/ncbi-ngs-c++.dir/NCBI-NGS.cpp.o" "../ncbi/ngs-py/CMakeFiles/ngs-py.dir/py_Manager.c.o" "../ncbi/ngs-jni/CMakeFiles/ngs-jni.dir/jni_Manager.c.o" "../ncbi/ngs-jni/CMakeFiles/ngs-jni.dir/jni_String.c.o" "../ncbi/ngs-jni/CMakeFiles/ngs-jni.d[ 74%] Linking CXX executable ../../../../../test-bin/bio-end-makeinputs cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader/test/vschema && /usr/bin/cmake -E cmake_link_script CMakeFiles/bio-end-makeinputs.dir/link.txt --verbose=1 make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f ngs/ngs-sdk/CMakeFiles/ngs-c++-shared.dir/build.make ngs/ngs-sdk/CMakeFiles/ngs-c++-shared.dir/build [ 74%] Building C object tools/external/prefetch/CMakeFiles/prefetch.dir/prefetch.c.o [ 74%] Linking CXX executable ../../../test-bin/Test_qa-stats_Hashing cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/test-tools/qa-stats && /usr/bin/cmake -E cmake_link_script CMakeFiles/Test_qa-stats_Hashing.dir/link.txt --verbose=1 make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/prefetch && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/prefetch\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT 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/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/cg-load/factory-mappings.c: In function 'CGMappings25_Read': /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/cg-load/factory-mappings.c:382:16: warning: 'tmp' may be used uninitialized [-Wmaybe-uninitialized] 382 | if( tmp[0] < 33 || tmp[0] > 126 ) { | ~~~^~~ /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/cg-load/factory-mappings.c:358:14: note: 'tmp' declared here 358 | char tmp[2]; | ^~~ [ 74%] Linking CXX shared library ../../lib/libngs-c++.so cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk && /usr/bin/cmake -E cmake_link_script CMakeFiles/ngs-c++-shared.dir/link.txt --verbose=1 [ 74%] Built target Test_Drivertool_FilePath [ 74%] Building C object tools/loaders/sra-load/CMakeFiles/illumina-load.dir/illumina-fmt.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE 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"dispatch/CMakeFiles/ngs-disp.dir/StatisticsItf.cpp.o" "dispatch/CMakeFiles/ngs-disp.dir/PackageItf.cpp.o" "dispatch/CMakeFiles/ngs-disp.dir/StringItf.cpp.o" "dispatch/CMakeFiles/ngs-disp.dir/Refcount.cpp.o" "dispatch/CMakeFiles/ngs-disp.dir/VTable.cpp.o" "dispatch/CMakeFiles/ngs-disp.dir/ErrBlock.cpp.o" "dispatch/CMakeFiles/ngs-disp.dir/ErrorMsg.cpp.o" "../ncbi/ngs/CMakeFiles/ngs.dir/NCBI-NGS.c.o" ../ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_PileupEvent.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_Pileup.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_Alignment.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_ReferenceWindow.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_Reference.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_ReadCollection.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_Read.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/EBI_ReferenceSequence.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/SRA_Statistics.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/SRA_DB_ReadCollection.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/SRA_Read.c.o 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../ncbi/ngs/CMakeFiles/ngs.dir/NGS_FragmentBlobIterator.c.o ../ncbi/ngs/CMakeFiles/ngs.dir[ 75%] Building CXX object tools/loaders/general-loader/CMakeFiles/general-loader.dir/main.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT tools/loaders/general-loader/CMakeFiles/general-loader.dir/main.cpp.o -MF CMakeFiles/general-loader.dir/main.cpp.o.d -o CMakeFiles/general-loader.dir/main.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/main.cpp [ 75%] Building CXX object tools/loaders/bam-loader/CMakeFiles/bam-load.dir/mem-bank.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/bam-loader && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/bam-loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/usr/include/ncbi-vdb/interfaces/ext -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/bam-loader/. -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT tools/loaders/bam-loader/CMakeFiles/bam-load.dir/mem-bank.cpp.o -MF CMakeFiles/bam-load.dir/mem-bank.cpp.o.d -o CMakeFiles/bam-load.dir/mem-bank.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/bam-loader/mem-bank.cpp [ 75%] Building C object tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/pl-passes.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/pacbio-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/pacbio-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/pacbio-load -I/usr/include/hdf5/serial -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -DH5_USE_110_API -std=c11 -rdynamic -MD -MT tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/pl-passes.c.o -MF CMakeFiles/pacbio-load.dir/pl-passes.c.o.d -o CMakeFiles/pacbio-load.dir/pl-passes.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/pacbio-load/pl-passes.c [ 75%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/inspector.c.o ir/jni_ErrorMsg.c.o" /usr/bin/ranlib ../../lib/libngs-c++.a cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/lib && rm -f libngs-c++.a.3.2.1 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/inspector.c.o -MF CMakeFiles/fasterq-dump.dir/inspector.c.o.d -o CMakeFiles/fasterq-dump.dir/inspector.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/fasterq-dump/inspector.c cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/lib && mv libngs-c++.a libngs-c++.a.3.2.1 [ 75%] Building C object tools/loaders/sra-load/CMakeFiles/pacbio-loadxml.dir/sra-writer.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -Wno-stringop-truncation -MD -MT tools/loaders/sra-load/CMakeFiles/pacbio-loadxml.dir/sra-writer.c.o -MF CMakeFiles/pacbio-loadxml.dir/sra-writer.c.o.d -o CMakeFiles/pacbio-loadxml.dir/sra-writer.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/sra-load/sra-writer.c cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/lib && ln -f -s libngs-c++.a.3.2.1 libngs-c++.a.3 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/lib && ln -f -s libngs-c++.a.3 libngs-c++.a cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/lib && ln -f -s libngs-c++.a libngs-c++-static.a /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/bio-end-makeinputs.dir/link.d "CMakeFiles/bio-end-makeinputs.dir/bio-end/makeinputs.cpp.o" -o ../../../../../test-bin/bio-end-makeinputs ../../../../../ilib/libgeneral-writer.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 75%] Linking CXX executable ../../test-bin/Test_SEARCH_agrep cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/search && /usr/bin/cmake -E cmake_link_script CMakeFiles/Test_SEARCH_agrep.dir/link.txt --verbose=1 [ 75%] Built target bio-end-makeinputs make -f ngs/ngs-sdk/CMakeFiles/ncbi-ngs.dir/build.make ngs/ngs-sdk/CMakeFiles/ncbi-ngs.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/CMakeFiles/ncbi-ngs.dir/DependInfo.cmake "--color=" [ 75%] Built target ngs-c++ /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/Test_qa-stats_Hashing.dir/link.d "CMakeFiles/Test_qa-stats_Hashing.dir/test-hashing.cpp.o" -o ../../../test-bin/Test_qa-stats_Hashing /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libktst.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -lmbedx509 -lmbedtls -lmbedcrypto make -f ngs/ngs-sdk/CMakeFiles/ncbi-ngs-shared.dir/build.make ngs/ngs-sdk/CMakeFiles/ncbi-ngs-shared.dir/depend make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/CMakeFiles/ncbi-ngs-shared.dir/DependInfo.cmake "--color=" [ 75%] Building C object tools/loaders/cg-load/CMakeFiles/cg-load.dir/factory-reads.c.o make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/cg-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/cg-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/cg-load/CMakeFiles/cg-load.dir/factory-reads.c.o -MF CMakeFiles/cg-load.dir/factory-reads.c.o.d -o CMakeFiles/cg-load.dir/factory-reads.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/cg-load/factory-reads.c make -f ngs/ngs-sdk/CMakeFiles/ncbi-ngs.dir/build.make ngs/ngs-sdk/CMakeFiles/ncbi-ngs.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 75%] Built target Test_qa-stats_Hashing make -f ngs/ngs-sdk/CMakeFiles/ncbi-ngs-shared.dir/build.make ngs/ngs-sdk/CMakeFiles/ncbi-ngs-shared.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' In file included from /usr/include/c++/14/ios:42, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc/general-writer/general-writer.hpp:34, from /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test/vschema/idx-text/makeinputs.cpp:30: In static member function 'static constexpr std::size_t std::char_traits::length(const char_type*)', inlined from 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::basic_string(const _CharT*, const _Alloc&) [with = std::allocator; _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]' at /usr/include/c++/14/bits/basic_string.h:653:49, inlined from 'void run(const char*, TestCaseType, const std::string*, int)' at /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test/vschema/idx-text/makeinputs.cpp:77:25: /usr/include/c++/14/bits/char_traits.h:391:32: warning: 'db_schema' may be used uninitialized [-Wmaybe-uninitialized] 391 | return __builtin_strlen(__s); | ~~~~~~~~~~~~~~~~^~~~~ /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test/vschema/idx-text/makeinputs.cpp: In function 'void run(const char*, TestCaseType, const std::string*, int)': /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test/vschema/idx-text/makeinputs.cpp:57:21: note: 'db_schema' was declared here 57 | const char* db_schema; | ^~~~~~~~~ /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test/vschema/idx-text/makeinputs.cpp:101:16: warning: 'gw' may be used uninitialized [-Wmaybe-uninitialized] 101 | delete gw; | ^~ /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test/vschema/idx-text/makeinputs.cpp:54:20: note: 'gw' was declared here 54 | GeneralWriter *gw; | ^~ [ 75%] Linking CXX static library ../../lib/libncbi-ngs.a cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk && /usr/bin/cmake -P CMakeFiles/ncbi-ngs.dir/cmake_clean_target.cmake [ 75%] Building C object tools/loaders/cg-load/CMakeFiles/cg-load.dir/factory-tag-lfr.c.o [ 75%] Linking CXX shared library ../../lib/libncbi-ngs.so cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk && /usr/bin/cmake -E cmake_link_script CMakeFiles/ncbi-ngs-shared.dir/link.txt --verbose=1 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/cg-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/cg-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/cg-load/CMakeFiles/cg-load.dir/factory-tag-lfr.c.o -MF CMakeFiles/cg-load.dir/factory-tag-lfr.c.o.d -o CMakeFiles/cg-load.dir/factory-tag-lfr.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/cg-load/factory-tag-lfr.c /NGS_ReferenceBlob.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_ReferenceBlobIterator.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/VByteBlob.c.o "../ncbi/ngs-c++/CMakeFiles/ncbi-ngs-c++.dir/NCBI-NGS.cpp.o" "../ncbi/ngs-py/CMakeFiles/ngs-py.dir/py_Manager.c.o" "../ncbi/ngs-jni/CMakeFiles/ngs-jni.dir/jni_Manager.c.o" "../ncbi/ngs-jni/CMakeFiles/ngs-jni.dir/jni_String.c.o" "../ncbi/ngs-jni/CMakeFiles/ngs-jni.dir/jni_ErrorMsg.c.o" cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk && /usr/bin/cmake -E cmake_symlink_library ../../lib/libngs-c++.so.3.2.1 ../../lib/libngs-c++.so.3 ../../lib/libngs-c++.so cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk && /usr/bin/cmake -E cmake_link_script CMakeFiles/ncbi-ngs.dir/link.txt --verbose=1 [ 75%] Building C object tools/loaders/sra-load/CMakeFiles/abi-load.dir/writer-absolid.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/abi-load.dir/writer-absolid.c.o -MF CMakeFiles/abi-load.dir/writer-absolid.c.o.d -o CMakeFiles/abi-load.dir/writer-absolid.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/sra-load/writer-absolid.c [ 75%] Building C object tools/loaders/sra-load/CMakeFiles/srf-load.dir/srf.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/srf-load.dir/srf.c.o -MF CMakeFiles/srf-load.dir/srf.c.o.d -o CMakeFiles/srf-load.dir/srf.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/sra-load/srf.c /usr/bin/c++ -fPIC -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,--dependency-file=CMakeFiles/ncbi-ngs-shared.dir/link.d -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libncbi-ngs.so.3 -o ../../lib/libncbi-ngs.so.3.2.1 "dispatch/CMakeFiles/ngs-disp.dir/ReadCollectionItf.cpp.o" "dispatch/CMakeFiles/ngs-disp.dir/ReferenceItf.cpp.o" "dispatch/CMakeFiles/ngs-disp.dir/ReferenceSequenceItf.cpp.o" "dispatch/CMakeFiles/ngs-disp.dir/PileupItf.cpp.o" "dispatch/CMakeFiles/ngs-disp.dir/PileupEventItf.cpp.o" "dispatch/CMakeFiles/ngs-disp.dir/AlignmentItf.cpp.o" "dispatch/CMakeFiles/ngs-disp.dir/ReadGroupItf.cpp.o" "dispatch/CMakeFiles/ngs-disp.dir/ReadItf.cpp.o" "dispatch/CMakeFiles/ngs-disp.dir/FragmentItf.cpp.o" "dispatch/CMakeFiles/ngs-disp.dir/StatisticsItf.cpp.o" "dispatch/CMakeFiles/ngs-disp.dir/PackageItf.cpp.o" "dispatch/CMakeFiles/ngs-disp.dir/StringItf.cpp.o" "dispatch/CMakeFiles/ngs-disp.dir/Refcount.cpp.o" "dispatch/CMakeFiles/ngs-disp.dir/VTable.cpp.o" "dispatch/CMakeFiles/ngs-disp.dir/ErrBlock.cpp.o" "dispatch/CMakeFiles/ngs-disp.dir/ErrorMsg.cpp.o" "language/python/CMakeFiles/ngs-bind-python.dir/py_AlignmentItf.cpp.o" "language/python/CMakeFiles/ngs-bind-python.dir/py_AlignmentIteratorItf.cpp.o" "language/python/CMakeFiles/ngs-bind-python.dir/py_FragmentItf.cpp.o" "language/python/CMakeFiles/ngs-bind-python.dir/py_FragmentIteratorItf.cpp.o" "language/python/CMakeFiles/ngs-bind-python.dir/py_PackageItf.cpp.o" "language/python/CMakeFiles/ngs-bind-python.dir/py_PileupEventItf.cpp.o" "language/python/CMakeFiles/ngs-bind-python.dir/py_PileupEventIteratorItf.cpp.o" "language/python/CMakeFiles/ngs-bind-python.dir/py_PileupItf.cpp.o" "language/python/CMakeFiles/ngs-bind-python.dir/py_PileupIteratorItf.cpp.o" "language/python/CMakeFiles/ngs-bind-python.dir/py_ReadCollectionItf.cpp.o" "language/python/CMakeFiles/ngs-bind-python.dir/py_ReadGroupItf.cpp.o" "language/python/CMakeFiles/ngs-bind-python.dir/py_ReadGroupIteratorItf.cpp.o" "language/python/CMakeFiles/ngs-bind-python.dir/py_ReadItf.cpp.o" "language/python/CMakeFiles/ngs-bind-python.dir/py_ReadIteratorItf.cpp.o" "language/python/CMakeFiles/ngs-bind-python.dir/py_ReferenceItf.cpp.o" "language/python/CMakeFiles/ngs-bind-python.dir/py_ReferenceIteratorItf.cpp.o" "language/python/CMakeFiles/ngs-bind-python.dir/py_ReferenceSequenceItf.cpp.o" "language/python/CMakeFiles/ngs-bind-python.dir/py_StatisticsItf.cpp.o" 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"language/python/CMakeFiles/ngs-bind-python.dir/py_PileupItf.cpp.o" "language/python/CMakeFiles/ngs-bind-python.dir/py_PileupIteratorItf.cpp.o" "language/python/CMakeFiles/ngs-bind-python.dir/py_ReadCollectionItf.cpp.o" "language/python/CMakeFiles/ngs-bind-python.dir/py_ReadGroupItf.cpp.o" "language/python/CMakeFiles/ngs-bind-python.dir/py_ReadGroupIteratorItf.cpp.o" "language/python/CMakeFiles/ngs-bind-python.dir/py_ReadItf.cpp.o" "language/python/CMakeFiles/ngs-bind-python.dir/py_ReadIteratorItf.cpp.o" "language/python/CMakeFiles/ngs-bind-python.dir/py_ReferenceItf.cpp.o" "language/python/CMakeFiles/ngs-bind-python.dir/py_ReferenceIteratorItf.cpp.o" "language/python/CMakeFiles/ngs-bind-python.dir/py_ReferenceSequenceItf.cpp.o" "language/python/CMakeFiles/ngs-bind-python.dir/py_StatisticsItf.cpp.o" "language/python/CMakeFiles/ngs-bind-python.dir/py_Refcount.cpp.o" "language/python/CMakeFiles/ngs-bind-python.dir/py_StringItf.cpp.o" "language/java/CMakeFiles/ngs-bind-java.dir/jni_ReadCollectionItf.cpp.o" "language/java/CMakeFiles/ngs-bind-java.dir/jni_ReferenceIteratorItf.cpp.o" "language/java/CMakeFiles/ngs-bind-java.dir/jni_ReferenceItf.cpp.o" "language/java/CMakeFiles/ngs-bind-java.dir/jni_ReferenceSequenceItf.cpp.o" "language/java/CMakeFiles/ngs-bind-java.dir/jni_PileupIteratorItf.cpp.o" "language/java/CMakeFiles/ngs-bind-java.dir/jni_PileupItf.cpp.o" "language/java/CMakeFiles/ngs-bind-java.dir/jni_PileupEventIteratorItf.cpp.o" "language/java/CMakeFiles/ngs-bind-java.dir/jni_PileupEventItf.cpp.o" "language/java/CMakeFiles/ngs-bind-java.dir/jni_AlignmentIteratorItf.cpp.o" "language/java/CMakeFiles/ngs-bind-java.dir/jni_AlignmentItf.cpp.o" "language/java/CMakeFiles/ngs-bind-java.dir/jni_ReadGroupIteratorItf.cpp.o" "language/java/CMakeFiles/ngs-bind-java.dir/jni_ReadGroupItf.cpp.o" "language/java/CMakeFiles/ngs-bind-java.dir/jni_ReadIteratorItf.cpp.o" "language/java/CMakeFiles/ngs-bind-java.dir/jni_ReadItf.cpp.o" "language/java/CMakeFiles/ngs-bind-java.dir/jni_FragmentItf.cpp.o" "language/java/CMakeFiles/ngs-bind-java.dir/jni_StatisticsItf.cpp.o" "language/java/CMakeFiles/ngs-bind-java.dir/jni_Package.cpp.o" "language/java/CMakeFiles/ngs-bind-java.dir/jni_String.cpp.o" "language/java/CMakeFiles/ngs-bind-java.dir/jni_Refcount.cpp.o" "language/java/CMakeFiles/ngs-bind-java.dir/jni_ErrorMsg.cpp.o" "../ncbi/ngs/CMakeFiles/ngs.dir/NCBI-NGS.c.o" ../ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_PileupEvent.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_Pileup.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_Alignment.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_ReferenceWindow.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_Reference.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_ReadColle/usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/sratools.dir/link.d CMakeFiles/sratools.dir/sratools.cpp.o CMakeFiles/sratools.dir/config.cpp.o "CMakeFiles/sratools.dir/command-line.cpp.o" "CMakeFiles/sratools.dir/run-source.cpp.o" CMakeFiles/sratools.dir/proc.cpp.o CMakeFiles/sratools.dir/uuid.cpp.o CMakeFiles/sratools.dir/accession.cpp.o CMakeFiles/sratools.dir/service.cpp.o "CMakeFiles/sratools.dir/json-parse.cpp.o" "CMakeFiles/sratools.dir/SDL-response.cpp.o" "CMakeFiles/sratools.dir/tool-args.cpp.o" "CMakeFiles/sratools.dir/build-version.cpp.o" "CMakeFiles/sratools.dir/file-path.posix.cpp.o" CMakeFiles/sratools.dir/proc.posix.cpp.o -o ../../../bin/sratools /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -lmbedx509 -lmbedtls -lmbedcrypto cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && rm -f sratools.3.2.1 make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && mv sratools sratools.3.2.1 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sratools.3.2.1 sratools.3 [ 75%] Built target ngs-c++-shared make -f tools/external/ngs-pileup/CMakeFiles/ngs-pileup.dir/build.make tools/external/ngs-pileup/CMakeFiles/ngs-pileup.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/ngs-pileup /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/ngs-pileup /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/ngs-pileup/CMakeFiles/ngs-pileup.dir/DependInfo.cmake "--color=" cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sratools.3 sratools [ 76%] Building C object tools/loaders/sra-load/CMakeFiles/pacbio-loadxml.dir/loader.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/pacbio-loadxml.dir/loader.c.o -MF CMakeFiles/pacbio-loadxml.dir/loader.c.o.d -o CMakeFiles/pacbio-loadxml.dir/loader.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/sra-load/loader.c make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f tools/external/ngs-pileup/CMakeFiles/ngs-pileup.dir/build.make tools/external/ngs-pileup/CMakeFiles/ngs-pileup.dir/build [ 76%] Building C object tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/pl-metrics.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/pacbio-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/pacbio-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/pacbio-load -I/usr/include/hdf5/serial -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -DH5_USE_110_API -std=c11 -rdynamic -MD -MT tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/pl-metrics.c.o -MF CMakeFiles/pacbio-load.dir/pl-metrics.c.o.d -o CMakeFiles/pacbio-load.dir/pl-metrics.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/pacbio-load/pl-metrics.c make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 76%] Built target sratools [ 77%] Building CXX object tools/external/ngs-pileup/CMakeFiles/ngs-pileup.dir/ngs-pileup.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/ngs-pileup && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/ngs-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ncbi/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT tools/external/ngs-pileup/CMakeFiles/ngs-pileup.dir/ngs-pileup.cpp.o -MF CMakeFiles/ngs-pileup.dir/ngs-pileup.cpp.o.d -o CMakeFiles/ngs-pileup.dir/ngs-pileup.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/ngs-pileup/ngs-pileup.cpp make -f test/external/ngs-pileup/CMakeFiles/Test_Ngs_Pileup.dir/build.make test/external/ngs-pileup/CMakeFiles/Test_Ngs_Pileup.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/ngs-pileup /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/external/ngs-pileup /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/external/ngs-pileup/CMakeFiles/Test_Ngs_Pileup.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f test/external/ngs-pileup/CMakeFiles/Test_Ngs_Pileup.dir/build.make test/external/ngs-pileup/CMakeFiles/Test_Ngs_Pileup.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 77%] Building CXX object test/external/ngs-pileup/CMakeFiles/Test_Ngs_Pileup.dir/test-ngs-pileup.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/external/ngs-pileup && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ncbi/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT test/external/ngs-pileup/CMakeFiles/Test_Ngs_Pileup.dir/test-ngs-pileup.cpp.o -MF CMakeFiles/Test_Ngs_Pileup.dir/test-ngs-pileup.cpp.o.d -o CMakeFiles/Test_Ngs_Pileup.dir/test-ngs-pileup.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/ngs-pileup/test-ngs-pileup.cpp /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/sra-load/loader.c: In function 'WriteSoftwareVersionsMeta': /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/sra-load/loader.c:889:45: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 889 | rc = KLoaderMeta_Write(node, argv0, __DATE__, fe_name, fe_version); | ^~~~~~~~ [ 78%] Building C object tools/loaders/sra-load/CMakeFiles/fastq-load.dir/writer-illumina.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/fastq-load.dir/writer-illumina.c.o -MF CMakeFiles/fastq-load.dir/writer-illumina.c.o.d -o CMakeFiles/fastq-load.dir/writer-illumina.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/sra-load/writer-illumina.c [ 79%] Linking CXX executable ../../../bin/illumina-load cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cmake -E cmake_link_script CMakeFiles/illumina-load.dir/link.txt --verbose=1 [ 79%] Linking CXX executable ../../../test-bin/Test_Drivertool_SDLResponse cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/cmake -E cmake_link_script CMakeFiles/Test_Drivertool_SDLResponse.dir/link.txt --verbose=1 Files/ngs-bind-java.dir/jni_ErrorMsg.cpp.o" "../ncbi/ngs/CMakeFiles/ngs.dir/NCBI-NGS.c.o" ../ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_PileupEvent.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_Pileup.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_Alignment.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_ReferenceWindow.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_Reference.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_ReadCollection.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_Read.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/EBI_ReferenceSequence.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/SRA_Statistics.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/SRA_DB_ReadCollection.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/SRA_Read.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/SRA_ReadGroup.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/SRA_ReadGroupInfo.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/SRA_ReadCollection.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/SRA_ReferenceSequence.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_Statistics.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_ReadCollection.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_PileupEvent.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_Pileup.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_ReadGroup.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_Alignment.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_Reference.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_ReferenceSequence.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_Read.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_Fragment.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_Cursor.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_Refcount.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_String.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_Id.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_ErrBlock.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_FragmentBlob.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_FragmentBlobIterator.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_ReferenceBlob.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_ReferenceBlobIterator.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/VByteBlob.c.o "../ncbi/ngs-c++/CMakeFiles/ncbi-ngs-c++.dir/NCBI-NGS.cpp.o" "../ncbi/ngs-py/CMakeFiles/ngs-py.dir/py_Manager.c.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/ReadCollection.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/ReferenceSequence.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/ReferenceIterator.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/Reference.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/PileupIterator.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/Pileup.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/PileupEventIterator.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/PileupEvent.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/AlignmentIterator.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/Alignment.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/ReadGroupIterator.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/ReadGroup.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/ReadIterator.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/Read.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/FragmentIterator.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/Fragment.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/Statistics.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/StringRef.cpp.o" "../ncbi/ngs-jni/CMakeFiles/ngs-jni.dir/jni_Manager.c.o" "../ncbi/ngs-jni/CMakeFiles/ngs-jni.dir/jni_String.c.o" "../ncbi/ngs-jni/CMakeFiles/ngs-jni.dir/jni_ErrorMsg.c.o" /usr/lib/x86_64-linux-gnu/libkapp.a ../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -lmbedx509 -lmbedtls -lmbedcrypto cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk && /usr/bin/cmake -E cmake_symlink_library ../../lib/libncbi-ngs.so.3.2.1 ../../lib/libncbi-ngs.so.3 ../../lib/libncbi-ngs.so /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/Test_SEARCH_agrep.dir/link.d "CMakeFiles/Test_SEARCH_agrep.dir/test-agrep.cpp.o" "CMakeFiles/Test_SEARCH_agrep.dir/agrep-main.c.o" "CMakeFiles/Test_SEARCH_agrep.dir/search-vdb.cpp.o" -o ../../test-bin/Test_SEARCH_agrep /usr/lib/x86_64-linux-gnu/libkapp.a ../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libktst.a -lncbi-vdb ../../ilib/libksrch.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 79%] Building C object tools/loaders/sra-load/CMakeFiles/srf-load.dir/srf-fmt.c.o [ 79%] Built target Test_SEARCH_agrep cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/srf-load.dir/srf-fmt.c.o -MF CMakeFiles/srf-load.dir/srf-fmt.c.o.d -o CMakeFiles/srf-load.dir/srf-fmt.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/sra-load/srf-fmt.c make -f test/internal/align/CMakeFiles/SlowTest_Align_estimator.dir/build.make test/internal/align/CMakeFiles/SlowTest_Align_estimator.dir/depend /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/fasterq-dump/inspector.c: In function 'insp_report': /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/fasterq-dump/inspector.c:1155:14: warning: 'res' may be used uninitialized [-Wmaybe-uninitialized] 1155 | rc = KOutMsg( "... is %s\n", s_acc_type ); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/fasterq-dump/inspector.c:248:18: note: 'res' was declared here 248 | const char * res; | ^~~ make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/internal/align /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/internal/align /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/internal/align/CMakeFiles/SlowTest_Align_estimator.dir/DependInfo.cmake "--color=" [ 79%] Building C object tools/loaders/sra-load/CMakeFiles/abi-load.dir/absolid-fmt.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/abi-load.dir/absolid-fmt.c.o -MF CMakeFiles/abi-load.dir/absolid-fmt.c.o.d -o CMakeFiles/abi-load.dir/absolid-fmt.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/sra-load/absolid-fmt.c make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 79%] Building C object tools/loaders/cg-load/CMakeFiles/cg-load.dir/f1_3.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/cg-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/cg-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/cg-load/CMakeFiles/cg-load.dir/f1_3.c.o -MF CMakeFiles/cg-load.dir/f1_3.c.o.d -o CMakeFiles/cg-load.dir/f1_3.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/cg-load/f1_3.c make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f test/internal/align/CMakeFiles/SlowTest_Align_estimator.dir/build.make test/internal/align/CMakeFiles/SlowTest_Align_estimator.dir/build [ 79%] Building C object tools/loaders/cg-load/CMakeFiles/cg-load.dir/f1_5.c.o make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/cg-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/cg-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/cg-load/CMakeFiles/cg-load.dir/f1_5.c.o -MF CMakeFiles/cg-load.dir/f1_5.c.o.d -o CMakeFiles/cg-load.dir/f1_5.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/cg-load/f1_5.c [ 79%] Built target ncbi-ngs-shared ction.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_Read.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/EBI_ReferenceSequence.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/SRA_Statistics.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/SRA_DB_ReadCollection.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/SRA_Read.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/SRA_ReadGroup.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/SRA_ReadGroupInfo.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/SRA_ReadCollection.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/SRA_ReferenceSequence.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_Statistics.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_ReadCollection.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_PileupEvent.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_Pileup.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_ReadGroup.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_Alignment.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_Reference.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_ReferenceSequence.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_Read.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_Fragment.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_Cursor.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_Refcount.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_String.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_Id.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_ErrBlock.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_FragmentBlob.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_FragmentBlobIterator.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_ReferenceBlob.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_ReferenceBlobIterator.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/VByteBlob.c.o "../ncbi/ngs-c++/CMakeFiles/ncbi-ngs-c++.dir/NCBI-NGS.cpp.o" "../ncbi/ngs-py/CMakeFiles/ngs-py.dir/py_Manager.c.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/ReadCollection.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/ReferenceSequence.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/ReferenceIterator.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/Reference.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/PileupIterator.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/Pileup.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/PileupEventIterator.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/PileupEvent.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/AlignmentIterator.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/Alignment.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/ReadGroupIterator.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/ReadGroup.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/ReadIterator.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/Read.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/FragmentIterator.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/Fragment.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/Statistics.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/StringRef.cpp.o" "../ncbi/ngs-jni/CMakeFiles/ngs-jni.dir/jni_Manager.c.o" "../ncbi/ngs-jni/CMakeFiles/ngs-jni.dir/jni_String.c.o" "../ncbi/ngs-jni/CMakeFiles/ngs-jni.dir/jni_ErrorMsg.c.o" /usr/bin/ranlib ../../lib/libncbi-ngs.a cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/lib && rm -f libncbi-ngs.a.3.2.1 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/lib && mv libncbi-ngs.a libncbi-ngs.a.3.2.1 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/lib && ln -f -s libncbi-ngs.a.3.2.1 libncbi-ngs.a.3 [ 79%] Building C object tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/pl-regions.c.o [ 79%] Building CXX object test/internal/align/CMakeFiles/SlowTest_Align_estimator.dir/pileup_estimator.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/lib && ln -f -s libncbi-ngs.a.3 libncbi-ngs.a cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/pacbio-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/pacbio-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/pacbio-load -I/usr/include/hdf5/serial -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -DH5_USE_110_API -std=c11 -rdynamic -MD -MT tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/pl-regions.c.o -MF CMakeFiles/pacbio-load.dir/pl-regions.c.o.d -o CMakeFiles/pacbio-load.dir/pl-regions.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/pacbio-load/pl-regions.c cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/internal/align && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"test/internal/align\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/usr/include/ncbi-vdb/ext -I/build/reproducible-path/sra-sdk-3.2.1+dfsg -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/../ncbi-vdb/interfaces/ext -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ncbi/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT test/internal/align/CMakeFiles/SlowTest_Align_estimator.dir/pileup_estimator.cpp.o -MF CMakeFiles/SlowTest_Align_estimator.dir/pileup_estimator.cpp.o.d -o CMakeFiles/SlowTest_Align_estimator.dir/pileup_estimator.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/internal/align/pileup_estimator.cpp /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/illumina-load.dir/link.d "CMakeFiles/illumina-load.dir/pstring.c.o" "CMakeFiles/illumina-load.dir/common-xml.c.o" "CMakeFiles/illumina-load.dir/experiment-xml.c.o" "CMakeFiles/illumina-load.dir/run-xml.c.o" "CMakeFiles/illumina-load.dir/loader-file.c.o" "CMakeFiles/illumina-load.dir/loader-fmt.c.o" "CMakeFiles/illumina-load.dir/sra-writer.c.o" "CMakeFiles/illumina-load.dir/loader.c.o" "CMakeFiles/illumina-load.dir/writer-illumina.c.o" "CMakeFiles/illumina-load.dir/illumina-fmt.c.o" -o ../../../bin/illumina-load ../../../ilib/libloader.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm -lmbedx509 -lmbedtls -lmbedcrypto ../../../ilib/libkxml.a /usr/lib/x86_64-linux-gnu/libxml2.so ../../../ilib/libksrch.a cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && rm -f illumina-load.3.2.1 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/lib && ln -f -s libncbi-ngs.a libncbi-ngs-static.a [ 79%] Linking CXX executable ../../../../../test-bin/idx-text-makeinputs cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader/test/vschema && /usr/bin/cmake -E cmake_link_script CMakeFiles/idx-text-makeinputs.dir/link.txt --verbose=1 make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && mv illumina-load illumina-load.3.2.1 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s illumina-load.3.2.1 illumina-load.3 [ 79%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/sbuffer.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s illumina-load.3 illumina-load cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/sbuffer.c.o -MF CMakeFiles/fasterq-dump.dir/sbuffer.c.o.d -o CMakeFiles/fasterq-dump.dir/sbuffer.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/fasterq-dump/sbuffer.c make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 79%] Built target ncbi-ngs /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/Test_Drivertool_SDLResponse.dir/link.d "CMakeFiles/Test_Drivertool_SDLResponse.dir/test-sdl-response.cpp.o" -o ../../../test-bin/Test_Drivertool_SDLResponse /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test/testsource.cpp: In constructor 'TestSource::Buffer::Buffer(const std::string&, uint32_t, uint32_t, bool)': /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test/testsource.cpp:47:13: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' specified bound 8 equals destination size [-Wstringop-truncation] 47 | strncpy ( m_header . dad . signature, p_signature . c_str(), sizeof m_header . dad . signature ); | ^ make -f ngs/ngs-sdk/examples/CMakeFiles/FragTest.dir/build.make ngs/ngs-sdk/examples/CMakeFiles/FragTest.dir/depend make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk/examples /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/examples /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/examples/CMakeFiles/FragTest.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f ngs/ngs-sdk/examples/CMakeFiles/FragTest.dir/build.make ngs/ngs-sdk/examples/CMakeFiles/FragTest.dir/build [ 79%] Building C object tools/loaders/sra-load/CMakeFiles/srf-load.dir/writer-illumina.c.o [ 79%] Built target illumina-load make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/srf-load.dir/writer-illumina.c.o -MF CMakeFiles/srf-load.dir/writer-illumina.c.o.d -o CMakeFiles/srf-load.dir/writer-illumina.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/sra-load/writer-illumina.c make -f ngs/ngs-sdk/examples/CMakeFiles/AlignTest.dir/build.make ngs/ngs-sdk/examples/CMakeFiles/AlignTest.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk/examples /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/examples /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/examples/CMakeFiles/AlignTest.dir/DependInfo.cmake "--color=" [ 79%] Built target Test_Drivertool_SDLResponse [ 79%] Building C object tools/loaders/cg-load/CMakeFiles/cg-load.dir/f1_7.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/cg-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/cg-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/cg-load/CMakeFiles/cg-load.dir/f1_7.c.o -MF CMakeFiles/cg-load.dir/f1_7.c.o.d -o CMakeFiles/cg-load.dir/f1_7.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/cg-load/f1_7.c [ 80%] Building C object tools/loaders/cg-load/CMakeFiles/cg-load.dir/f2_0.c.o [ 80%] Building CXX object ngs/ngs-sdk/examples/CMakeFiles/FragTest.dir/FragTest.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/cg-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/cg-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/cg-load/CMakeFiles/cg-load.dir/f2_0.c.o -MF CMakeFiles/cg-load.dir/f2_0.c.o.d -o CMakeFiles/cg-load.dir/f2_0.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/cg-load/f2_0.c cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/examples && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ncbi -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -fPIE -rdynamic -MD -MT ngs/ngs-sdk/examples/CMakeFiles/FragTest.dir/FragTest.cpp.o -MF CMakeFiles/FragTest.dir/FragTest.cpp.o.d -o CMakeFiles/FragTest.dir/FragTest.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk/examples/FragTest.cpp [ 80%] Building C object tools/loaders/sra-load/CMakeFiles/pacbio-loadxml.dir/pacbio-fmt.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/pacbio-loadxml.dir/pacbio-fmt.c.o -MF CMakeFiles/pacbio-loadxml.dir/pacbio-fmt.c.o.d -o CMakeFiles/pacbio-loadxml.dir/pacbio-fmt.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/sra-load/pacbio-fmt.c make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f ngs/ngs-sdk/examples/CMakeFiles/AlignTest.dir/build.make ngs/ngs-sdk/examples/CMakeFiles/AlignTest.dir/build [ 80%] Building C object tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/pl-progress.c.o make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/pacbio-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/pacbio-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/pacbio-load -I/usr/include/hdf5/serial -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -DH5_USE_110_API -std=c11 -rdynamic -MD -MT tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/pl-progress.c.o -MF CMakeFiles/pacbio-load.dir/pl-progress.c.o.d -o CMakeFiles/pacbio-load.dir/pl-progress.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/pacbio-load/pl-progress.c [ 80%] Linking CXX executable ../../bin/gw-dumper cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/libs/general-writer && /usr/bin/cmake -E cmake_link_script CMakeFiles/gw-dumper.dir/link.txt --verbose=1 [ 80%] Building CXX object ngs/ngs-sdk/examples/CMakeFiles/AlignTest.dir/AlignTest.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/examples && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ncbi -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -fPIE -rdynamic -MD -MT ngs/ngs-sdk/examples/CMakeFiles/AlignTest.dir/AlignTest.cpp.o -MF CMakeFiles/AlignTest.dir/AlignTest.cpp.o.d -o CMakeFiles/AlignTest.dir/AlignTest.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk/examples/AlignTest.cpp /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/idx-text-makeinputs.dir/link.d "CMakeFiles/idx-text-makeinputs.dir/idx-text/makeinputs.cpp.o" -o ../../../../../test-bin/idx-text-makeinputs ../../../../../ilib/libgeneral-writer.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 81%] Building C object tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/pacbio-load.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/pacbio-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/pacbio-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/pacbio-load -I/usr/include/hdf5/serial -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -DH5_USE_110_API -std=c11 -rdynamic -MD -MT tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/pacbio-load.c.o -MF CMakeFiles/pacbio-load.dir/pacbio-load.c.o.d -o CMakeFiles/pacbio-load.dir/pacbio-load.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/pacbio-load/pacbio-load.c [ 81%] Built target idx-text-makeinputs make -f ngs/ngs-sdk/examples/CMakeFiles/AlignSliceTest.dir/build.make ngs/ngs-sdk/examples/CMakeFiles/AlignSliceTest.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk/examples /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/examples /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/examples/CMakeFiles/AlignSliceTest.dir/DependInfo.cmake "--color=" [ 81%] Building C object tools/loaders/cg-load/CMakeFiles/cg-load.dir/f2_2.c.o [ 81%] Building C object tools/loaders/sra-load/CMakeFiles/fastq-load.dir/writer-454.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/fastq-load.dir/writer-454.c.o -MF CMakeFiles/fastq-load.dir/writer-454.c.o.d -o CMakeFiles/fastq-load.dir/writer-454.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/sra-load/writer-454.c make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f ngs/ngs-sdk/examples/CMakeFiles/AlignSliceTest.dir/build.make ngs/ngs-sdk/examples/CMakeFiles/AlignSliceTest.dir/build cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/cg-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/cg-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/cg-load/CMakeFiles/cg-load.dir/f2_2.c.o -MF CMakeFiles/cg-load.dir/f2_2.c.o.d -o CMakeFiles/cg-load.dir/f2_2.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/cg-load/f2_2.c make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 81%] Building C object tools/loaders/cg-load/CMakeFiles/cg-load.dir/f2_4.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/cg-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/cg-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/cg-load/CMakeFiles/cg-load.dir/f2_4.c.o -MF CMakeFiles/cg-load.dir/f2_4.c.o.d -o CMakeFiles/cg-load.dir/f2_4.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/cg-load/f2_4.c [ 81%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/err_msg.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/err_msg.c.o -MF CMakeFiles/fasterq-dump.dir/err_msg.c.o.d -o CMakeFiles/fasterq-dump.dir/err_msg.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/fasterq-dump/err_msg.c [ 81%] Building CXX object ngs/ngs-sdk/examples/CMakeFiles/AlignSliceTest.dir/AlignSliceTest.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/examples && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ncbi -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -fPIE -rdynamic -MD -MT ngs/ngs-sdk/examples/CMakeFiles/AlignSliceTest.dir/AlignSliceTest.cpp.o -MF CMakeFiles/AlignSliceTest.dir/AlignSliceTest.cpp.o.d -o CMakeFiles/AlignSliceTest.dir/AlignSliceTest.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk/examples/AlignSliceTest.cpp [ 81%] Building C object tools/loaders/sra-load/CMakeFiles/fastq-load.dir/writer-ion-torrent.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/fastq-load.dir/writer-ion-torrent.c.o -MF CMakeFiles/fastq-load.dir/writer-ion-torrent.c.o.d -o CMakeFiles/fastq-load.dir/writer-ion-torrent.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/sra-load/writer-ion-torrent.c [ 81%] Building C object tools/external/vdb-config/CMakeFiles/vdb-config.dir/vdb-config.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-config\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/vdb-config -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-config/CMakeFiles/vdb-config.dir/vdb-config.c.o -MF CMakeFiles/vdb-config.dir/vdb-config.c.o.d -o CMakeFiles/vdb-config.dir/vdb-config.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/vdb-config/vdb-config.c [ 81%] Linking CXX executable ../../../bin/abi-load [ 81%] Building C object tools/loaders/sra-load/CMakeFiles/srf-load.dir/ztr-illumina.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 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/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/test-tools/qa-stats && /usr/bin/cmake -E cmake_link_script CMakeFiles/qa-stats.dir/link.txt --verbose=1 [ 81%] Building C object tools/external/prefetch/CMakeFiles/prefetch.dir/PrfRetrier.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/prefetch && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/prefetch\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 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-DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/file_tools.c.o -MF CMakeFiles/fasterq-dump.dir/file_tools.c.o.d -o CMakeFiles/fasterq-dump.dir/file_tools.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/fasterq-dump/file_tools.c [ 81%] Building C object tools/loaders/cg-load/CMakeFiles/cg-load.dir/f2_5.c.o /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/gw-dumper.dir/link.d "CMakeFiles/gw-dumper.dir/gw-dumper.cpp.o" -o ../../bin/gw-dumper ../../ilib/libgeneral-writer.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -lmbedx509 -lmbedtls -lmbedcrypto make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/cg-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/cg-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 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tools/loaders/sra-load/CMakeFiles/srf-load.dir/srf-illumina.c.o make -f ngs/ngs-sdk/examples/CMakeFiles/PileupTest.dir/build.make ngs/ngs-sdk/examples/CMakeFiles/PileupTest.dir/depend cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT 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-Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/cg-load/CMakeFiles/cg-load.dir/file-version-factory.c.o -MF CMakeFiles/cg-load.dir/file-version-factory.c.o.d -o CMakeFiles/cg-load.dir/file-version-factory.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/cg-load/file-version-factory.c make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 81%] Building C object tools/loaders/sra-load/CMakeFiles/fastq-load.dir/fastq-fmt.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb 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Building CXX object tools/external/vdb-config/CMakeFiles/vdb-config.dir/interactive2.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-config\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/vdb-config -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT tools/external/vdb-config/CMakeFiles/vdb-config.dir/interactive2.cpp.o 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/usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm -lmbedx509 -lmbedtls -lmbedcrypto ../../../ilib/libkxml.a /usr/lib/x86_64-linux-gnu/libxml2.so ../../../ilib/libksrch.a cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && rm -f abi-load.3.2.1 /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/qa-stats.dir/link.d "CMakeFiles/qa-stats.dir/main.cpp.o" "CMakeFiles/qa-stats.dir/input.cpp.o" -o ../../../bin/qa-stats [ 81%] Building C object tools/loaders/sra-load/CMakeFiles/srf-load.dir/writer-absolid.c.o make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd 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/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/examples /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/examples/CMakeFiles/DumpReferenceFASTA.dir/DependInfo.cmake "--color=" [ 81%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/flex_printer.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat 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CMakeFiles/DumpReferenceFASTA.dir/DumpReferenceFASTA.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk/examples/DumpReferenceFASTA.cpp [ 81%] Linking CXX executable ../../../bin/pacbio-load [ 81%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/temp_dir.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/pacbio-load && /usr/bin/cmake -E cmake_link_script CMakeFiles/pacbio-load.dir/link.txt --verbose=1 [ 81%] Building C object tools/loaders/cg-load/CMakeFiles/cg-load.dir/writer-algn.c.o [ 81%] Building CXX object tools/external/vdb-config/CMakeFiles/vdb-config.dir/vdb-config-model.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/temp_dir.c.o -MF CMakeFiles/fasterq-dump.dir/temp_dir.c.o.d -o CMakeFiles/fasterq-dump.dir/temp_dir.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/fasterq-dump/temp_dir.c cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/cg-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/cg-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/cg-load/CMakeFiles/cg-load.dir/writer-algn.c.o -MF CMakeFiles/cg-load.dir/writer-algn.c.o.d -o CMakeFiles/cg-load.dir/writer-algn.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/cg-load/writer-algn.c cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-config\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/vdb-config -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT tools/external/vdb-config/CMakeFiles/vdb-config.dir/vdb-config-model.cpp.o -MF CMakeFiles/vdb-config.dir/vdb-config-model.cpp.o.d -o CMakeFiles/vdb-config.dir/vdb-config-model.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/vdb-config/vdb-config-model.cpp /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/pacbio-loadxml.dir/link.d "CMakeFiles/pacbio-loadxml.dir/pstring.c.o" "CMakeFiles/pacbio-loadxml.dir/common-xml.c.o" "CMakeFiles/pacbio-loadxml.dir/experiment-xml.c.o" "CMakeFiles/pacbio-loadxml.dir/run-xml.c.o" "CMakeFiles/pacbio-loadxml.dir/loader-file.c.o" "CMakeFiles/pacbio-loadxml.dir/loader-fmt.c.o" "CMakeFiles/pacbio-loadxml.dir/sra-writer.c.o" "CMakeFiles/pacbio-loadxml.dir/loader.c.o" "CMakeFiles/pacbio-loadxml.dir/pacbio-fmt.c.o" -o ../../../bin/pacbio-loadxml ../../../ilib/libloader.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm -lmbedx509 -lmbedtls -lmbedcrypto ../../../ilib/libkxml.a /usr/lib/x86_64-linux-gnu/libxml2.so ../../../ilib/libksrch.a [ 81%] Building C object tools/external/test-sra/CMakeFiles/test-sra.dir/unix/PrintOS.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && rm -f pacbio-loadxml.3.2.1 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/test-sra && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/test-sra\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/test-sra/. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/test-sra/CMakeFiles/test-sra.dir/unix/PrintOS.c.o -MF CMakeFiles/test-sra.dir/unix/PrintOS.c.o.d -o CMakeFiles/test-sra.dir/unix/PrintOS.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/test-sra/unix/PrintOS.c cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && mv pacbio-loadxml pacbio-loadxml.3.2.1 make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f ngs/ngs-sdk/examples/CMakeFiles/RefTest.dir/build.make ngs/ngs-sdk/examples/CMakeFiles/RefTest.dir/build [ 82%] Building C object tools/loaders/sra-load/CMakeFiles/srf-load.dir/ztr-huffman.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/srf-load.dir/ztr-huffman.c.o -MF CMakeFiles/srf-load.dir/ztr-huffman.c.o.d -o CMakeFiles/srf-load.dir/ztr-huffman.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/sra-load/ztr-huffman.c cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s pacbio-loadxml.3.2.1 pacbio-loadxml.3 make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s pacbio-loadxml.3 pacbio-loadxml make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 82%] Building C object tools/loaders/cg-load/CMakeFiles/cg-load.dir/writer-evidence-dnbs.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/cg-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/cg-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/cg-load/CMakeFiles/cg-load.dir/writer-evidence-dnbs.c.o -MF CMakeFiles/cg-load.dir/writer-evidence-dnbs.c.o.d -o CMakeFiles/cg-load.dir/writer-evidence-dnbs.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/cg-load/writer-evidence-dnbs.c [ 82%] Building CXX object ngs/ngs-sdk/examples/CMakeFiles/RefTest.dir/RefTest.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/examples && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ncbi -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -fPIE -rdynamic -MD -MT ngs/ngs-sdk/examples/CMakeFiles/RefTest.dir/RefTest.cpp.o -MF CMakeFiles/RefTest.dir/RefTest.cpp.o.d -o CMakeFiles/RefTest.dir/RefTest.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk/examples/RefTest.cpp [ 82%] Built target pacbio-loadxml make -f libs/ngs-vdb/test/CMakeFiles/test-ngs.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-ngs.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test/CMakeFiles/test-ngs.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f libs/ngs-vdb/test/CMakeFiles/test-ngs.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-ngs.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 82%] Linking CXX executable ../../../bin/test-sra cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/test-sra && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-sra.dir/link.txt --verbose=1 [ 82%] Building CXX object tools/loaders/bam-loader/CMakeFiles/bam-load.dir/low-match-count.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/bam-loader 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-I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/progress_thread.c.o -MF CMakeFiles/fasterq-dump.dir/progress_thread.c.o.d -o CMakeFiles/fasterq-dump.dir/progress_thread.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/fasterq-dump/progress_thread.c [ 82%] Linking CXX executable ../../../../test-bin/makeinputs cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/makeinputs.dir/link.txt --verbose=1 [ 82%] Building C object tools/loaders/sra-load/CMakeFiles/srf-load.dir/srf-absolid.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/srf-load.dir/srf-absolid.c.o -MF CMakeFiles/srf-load.dir/srf-absolid.c.o.d -o 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-fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/index.c.o -MF CMakeFiles/fasterq-dump.dir/index.c.o.d -o CMakeFiles/fasterq-dump.dir/index.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/fasterq-dump/index.c [ 84%] Building C object tools/loaders/cg-load/CMakeFiles/cg-load.dir/writer-evidence-intervals.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/cg-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/cg-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/cg-load/CMakeFiles/cg-load.dir/writer-evidence-intervals.c.o -MF CMakeFiles/cg-load.dir/writer-evidence-intervals.c.o.d -o CMakeFiles/cg-load.dir/writer-evidence-intervals.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/cg-load/writer-evidence-intervals.c /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/test-sra.dir/link.d "CMakeFiles/test-sra.dir/test-sra.c.o" "CMakeFiles/test-sra.dir/unix/PrintOS.c.o" -o ../../../bin/test-sra ../../../ilib/libascp.a ../../../ilib/libdiagnose.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -lmbedx509 -lmbedtls -lmbedcrypto cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && rm -f test-sra.3.2.1 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && mv test-sra test-sra.3.2.1 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s test-sra.3.2.1 test-sra.3 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s test-sra.3 test-sra make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/fastq-load.dir/link.d "CMakeFiles/fastq-load.dir/pstring.c.o" "CMakeFiles/fastq-load.dir/common-xml.c.o" "CMakeFiles/fastq-load.dir/experiment-xml.c.o" "CMakeFiles/fastq-load.dir/run-xml.c.o" "CMakeFiles/fastq-load.dir/loader-file.c.o" "CMakeFiles/fastq-load.dir/loader-fmt.c.o" "CMakeFiles/fastq-load.dir/sra-writer.c.o" "CMakeFiles/fastq-load.dir/loader.c.o" "CMakeFiles/fastq-load.dir/writer-illumina.c.o" "CMakeFiles/fastq-load.dir/writer-454.c.o" "CMakeFiles/fastq-load.dir/writer-ion-torrent.c.o" "CMakeFiles/fastq-load.dir/fastq-fmt.c.o" -o ../../../bin/fastq-load ../../../ilib/libloader.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm -lmbedx509 -lmbedtls -lmbedcrypto ../../../ilib/libkxml.a /usr/lib/x86_64-linux-gnu/libxml2.so ../../../ilib/libksrch.a [ 84%] Built target test-sra make -f libs/ngs-vdb/test/CMakeFiles/test-ngs_sra.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-ngs_sra.dir/depend cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && rm -f fastq-load.3.2.1 make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test/CMakeFiles/test-ngs_sra.dir/DependInfo.cmake "--color=" cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && mv fastq-load fastq-load.3.2.1 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s fastq-load.3.2.1 fastq-load.3 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s fastq-load.3 fastq-load /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/makeinputs.dir/link.d CMakeFiles/makeinputs.dir/makeinputs.cpp.o CMakeFiles/makeinputs.dir/testsource.cpp.o -o ../../../../test-bin/makeinputs ../../../../ilib/libgeneral-writer.a -lncbi-vdb make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f libs/ngs-vdb/test/CMakeFiles/test-ngs_sra.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-ngs_sra.dir/build make[3]: Leaving directory 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/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test/CMakeFiles/test-ngs_sradb.dir/DependInfo.cmake "--color=" [ 84%] Building CXX object libs/ngs-vdb/test/CMakeFiles/test-ngs_sra.dir/ngstest_sra.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__fext__=\"cpp\" -D__file__=\"__FILE__\" -D__mod__=\"NGS_TEST\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg -I/usr/include/ncbi-vdb/../libs/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -fPIE -rdynamic -MD -MT libs/ngs-vdb/test/CMakeFiles/test-ngs_sra.dir/ngstest_sra.cpp.o -MF CMakeFiles/test-ngs_sra.dir/ngstest_sra.cpp.o.d -o CMakeFiles/test-ngs_sra.dir/ngstest_sra.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/ngs-vdb/test/ngstest_sra.cpp [ 84%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/lookup_writer.c.o make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f libs/ngs-vdb/test/CMakeFiles/test-ngs_sradb.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-ngs_sradb.dir/build [ 84%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/lookup_reader.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX 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/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/lookup_reader.c.o -MF CMakeFiles/fasterq-dump.dir/lookup_reader.c.o.d -o CMakeFiles/fasterq-dump.dir/lookup_reader.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/fasterq-dump/lookup_reader.c make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 84%] Built target fastq-load make -f libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1.dir/DependInfo.cmake "--color=" [ 84%] Building CXX object libs/ngs-vdb/test/CMakeFiles/test-ngs_sradb.dir/ngstest_sradb.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__fext__=\"cpp\" -D__file__=\"__FILE__\" -D__mod__=\"NGS_TEST\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg -I/usr/include/ncbi-vdb/../libs/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -fPIE -rdynamic -MD -MT libs/ngs-vdb/test/CMakeFiles/test-ngs_sradb.dir/ngstest_sradb.cpp.o -MF CMakeFiles/test-ngs_sradb.dir/ngstest_sradb.cpp.o.d -o CMakeFiles/test-ngs_sradb.dir/ngstest_sradb.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/ngs-vdb/test/ngstest_sradb.cpp [ 84%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/locked_file_list.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/locked_file_list.c.o -MF CMakeFiles/fasterq-dump.dir/locked_file_list.c.o.d -o CMakeFiles/fasterq-dump.dir/locked_file_list.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/fasterq-dump/locked_file_list.c make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 84%] Building C object tools/loaders/cg-load/CMakeFiles/cg-load.dir/writer-seq.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/cg-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/cg-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/cg-load/CMakeFiles/cg-load.dir/writer-seq.c.o -MF CMakeFiles/cg-load.dir/writer-seq.c.o.d -o CMakeFiles/cg-load.dir/writer-seq.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/cg-load/writer-seq.c /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/pacbio-load.dir/link.d "CMakeFiles/pacbio-load.dir/hdf5/hdf5arrayfile.c.o" "CMakeFiles/pacbio-load.dir/hdf5/hdf5dir.c.o" "CMakeFiles/pacbio-load.dir/hdf5/hdf5file.c.o" "CMakeFiles/pacbio-load.dir/pl-context.c.o" "CMakeFiles/pacbio-load.dir/pl-tools.c.o" "CMakeFiles/pacbio-load.dir/pl-zmw.c.o" "CMakeFiles/pacbio-load.dir/pl-basecalls_cmn.c.o" "CMakeFiles/pacbio-load.dir/pl-sequence.c.o" "CMakeFiles/pacbio-load.dir/pl-consensus.c.o" "CMakeFiles/pacbio-load.dir/pl-passes.c.o" "CMakeFiles/pacbio-load.dir/pl-metrics.c.o" "CMakeFiles/pacbio-load.dir/pl-regions.c.o" "CMakeFiles/pacbio-load.dir/pl-progress.c.o" "CMakeFiles/pacbio-load.dir/pacbio-load.c.o" -o ../../../bin/pacbio-load ../../../ilib/libloader.a /usr/lib/x86_64-linux-gnu/hdf5/serial/libhdf5.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libpthread.a /usr/lib/x86_64-linux-gnu/libsz.so /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libdl.a -lm /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm -lmbedx509 -lmbedtls -lmbedcrypto cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && rm -f pacbio-load.3.2.1 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && mv pacbio-load pacbio-load.3.2.1 [ 84%] Linking CXX executable ../../../test-bin/FragTest cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s pacbio-load.3.2.1 pacbio-load.3 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/FragTest.dir/link.txt --verbose=1 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s pacbio-load.3 pacbio-load make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 84%] Building CXX object libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1.dir/ngstest_csra1.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__fext__=\"cpp\" -D__file__=\"__FILE__\" -D__mod__=\"NGS_TEST\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg -I/usr/include/ncbi-vdb/../libs/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -fPIE -rdynamic -MD -MT libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1.dir/ngstest_csra1.cpp.o -MF CMakeFiles/test-ngs_csra1.dir/ngstest_csra1.cpp.o.d -o CMakeFiles/test-ngs_csra1.dir/ngstest_csra1.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/ngs-vdb/test/ngstest_csra1.cpp [ 84%] Building CXX object tools/external/ngs-pileup/CMakeFiles/ngs-pileup.dir/main.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/ngs-pileup && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/ngs-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ncbi/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT tools/external/ngs-pileup/CMakeFiles/ngs-pileup.dir/main.cpp.o -MF CMakeFiles/ngs-pileup.dir/main.cpp.o.d -o CMakeFiles/ngs-pileup.dir/main.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/ngs-pileup/main.cpp [ 84%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/file_printer.c.o [ 84%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/locked_value.c.o [ 84%] Linking CXX executable ../../../bin/srf-load cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/locked_value.c.o -MF CMakeFiles/fasterq-dump.dir/locked_value.c.o.d -o CMakeFiles/fasterq-dump.dir/locked_value.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/fasterq-dump/locked_value.c cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cmake -E cmake_link_script CMakeFiles/srf-load.dir/link.txt --verbose=1 /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/Test_SraInfo_Unit.dir/link.d "CMakeFiles/Test_SraInfo_Unit.dir/test-sra-info.cpp.o" -o ../../../test-bin/Test_SraInfo_Unit /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libktst.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -lmbedx509 -lmbedtls -lmbedcrypto make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/file_printer.c.o -MF CMakeFiles/fasterq-dump.dir/file_printer.c.o.d -o CMakeFiles/fasterq-dump.dir/file_printer.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/fasterq-dump/file_printer.c [ 84%] Built target pacbio-load [ 84%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/merge_sorter.c.o make -f libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_readcollection.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_readcollection.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_readcollection.dir/DependInfo.cmake "--color=" cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/merge_sorter.c.o -MF CMakeFiles/fasterq-dump.dir/merge_sorter.c.o.d -o CMakeFiles/fasterq-dump.dir/merge_sorter.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/fasterq-dump/merge_sorter.c make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_readcollection.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_readcollection.dir/build [ 84%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/sorter.c.o make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/sorter.c.o -MF CMakeFiles/fasterq-dump.dir/sorter.c.o.d -o CMakeFiles/fasterq-dump.dir/sorter.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/fasterq-dump/sorter.c [ 84%] Built target Test_SraInfo_Unit make -f libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_refwin.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_refwin.dir/depend [ 84%] Building CXX object libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_readcollection.dir/ngstest_csra1_readcollection.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__fext__=\"cpp\" -D__file__=\"__FILE__\" -D__mod__=\"NGS_TEST\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg -I/usr/include/ncbi-vdb/../libs/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -fPIE -rdynamic -MD -MT libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_readcollection.dir/ngstest_csra1_readcollection.cpp.o -MF CMakeFiles/test-ngs_csra1_readcollection.dir/ngstest_csra1_readcollection.cpp.o.d -o CMakeFiles/test-ngs_csra1_readcollection.dir/ngstest_csra1_readcollection.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/ngs-vdb/test/ngstest_csra1_readcollection.cpp make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_refwin.dir/DependInfo.cmake "--color=" [ 84%] Linking CXX executable ../../../bin/cg-load cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/cg-load && /usr/bin/cmake -E cmake_link_script CMakeFiles/cg-load.dir/link.txt --verbose=1 make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_refwin.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_refwin.dir/build [ 85%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/cmn_iter.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/cmn_iter.c.o -MF CMakeFiles/fasterq-dump.dir/cmn_iter.c.o.d -o CMakeFiles/fasterq-dump.dir/cmn_iter.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/fasterq-dump/cmn_iter.c [ 85%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/raw_read_iter.c.o make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/raw_read_iter.c.o -MF CMakeFiles/fasterq-dump.dir/raw_read_iter.c.o.d -o CMakeFiles/fasterq-dump.dir/raw_read_iter.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/fasterq-dump/raw_read_iter.c [ 85%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/special_iter.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/special_iter.c.o -MF CMakeFiles/fasterq-dump.dir/special_iter.c.o.d -o CMakeFiles/fasterq-dump.dir/special_iter.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/fasterq-dump/special_iter.c make -f libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_pileup.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_pileup.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_pileup.dir/DependInfo.cmake "--color=" [ 85%] Building CXX object libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_refwin.dir/ngstest_csra1_refwin.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__fext__=\"cpp\" -D__file__=\"__FILE__\" -D__mod__=\"NGS_TEST\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg -I/usr/include/ncbi-vdb/../libs/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -fPIE -rdynamic -MD -MT libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_refwin.dir/ngstest_csra1_refwin.cpp.o -MF CMakeFiles/test-ngs_csra1_refwin.dir/ngstest_csra1_refwin.cpp.o.d -o CMakeFiles/test-ngs_csra1_refwin.dir/ngstest_csra1_refwin.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/ngs-vdb/test/ngstest_csra1_refwin.cpp [ 85%] Building C object tools/external/prefetch/CMakeFiles/prefetch.dir/PrfOutFile.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/prefetch && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/prefetch\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection 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Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/srf-load.dir/link.d "CMakeFiles/srf-load.dir/pstring.c.o" "CMakeFiles/srf-load.dir/common-xml.c.o" "CMakeFiles/srf-load.dir/experiment-xml.c.o" "CMakeFiles/srf-load.dir/run-xml.c.o" "CMakeFiles/srf-load.dir/loader-file.c.o" "CMakeFiles/srf-load.dir/loader-fmt.c.o" "CMakeFiles/srf-load.dir/sra-writer.c.o" "CMakeFiles/srf-load.dir/loader.c.o" "CMakeFiles/srf-load.dir/srf.c.o" "CMakeFiles/srf-load.dir/srf-fmt.c.o" "CMakeFiles/srf-load.dir/writer-illumina.c.o" "CMakeFiles/srf-load.dir/ztr-illumina.c.o" "CMakeFiles/srf-load.dir/srf-illumina.c.o" "CMakeFiles/srf-load.dir/writer-absolid.c.o" "CMakeFiles/srf-load.dir/ztr-absolid.c.o" "CMakeFiles/srf-load.dir/ztr-huffman.c.o" "CMakeFiles/srf-load.dir/srf-absolid.c.o" -o ../../../bin/srf-load ../../../ilib/libloader.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm -lmbedx509 -lmbedtls -lmbedcrypto ../../../ilib/libkxml.a /usr/lib/x86_64-linux-gnu/libxml2.so ../../../ilib/libksrch.a cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && rm -f srf-load.3.2.1 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && mv srf-load srf-load.3.2.1 make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_pileup.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_pileup.dir/build [ 85%] Built target FragTest cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s srf-load.3.2.1 srf-load.3 make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f libs/ngs-vdb/test/CMakeFiles/test-ngs_reference.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-ngs_reference.dir/depend cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s srf-load.3 srf-load make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test/CMakeFiles/test-ngs_reference.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 85%] Building CXX object libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_pileup.dir/ngstest_csra1_pileup.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__fext__=\"cpp\" -D__file__=\"__FILE__\" -D__mod__=\"NGS_TEST\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg -I/usr/include/ncbi-vdb/../libs/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -fPIE -rdynamic -MD -MT libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_pileup.dir/ngstest_csra1_pileup.cpp.o -MF CMakeFiles/test-ngs_csra1_pileup.dir/ngstest_csra1_pileup.cpp.o.d -o CMakeFiles/test-ngs_csra1_pileup.dir/ngstest_csra1_pileup.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/ngs-vdb/test/ngstest_csra1_pileup.cpp [ 85%] Linking CXX executable ../../../test-bin/RefTest cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/RefTest.dir/link.txt --verbose=1 make -f libs/ngs-vdb/test/CMakeFiles/test-fragmentblob.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-fragmentblob.dir/depend make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test/CMakeFiles/test-fragmentblob.dir/DependInfo.cmake "--color=" make -f libs/ngs-vdb/test/CMakeFiles/test-ngs_reference.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-ngs_reference.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f libs/ngs-vdb/test/CMakeFiles/test-referenceblob.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-referenceblob.dir/depend [ 85%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/fq_seq_ua_iter.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/fq_seq_ua_iter.c.o -MF CMakeFiles/fasterq-dump.dir/fq_seq_ua_iter.c.o.d -o CMakeFiles/fasterq-dump.dir/fq_seq_ua_iter.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/fasterq-dump/fq_seq_ua_iter.c make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test/CMakeFiles/test-referenceblob.dir/DependInfo.cmake "--color=" [ 85%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/fq_seq_csra_iter.c.o [ 85%] Building CXX object libs/ngs-vdb/test/CMakeFiles/test-ngs_reference.dir/ngstest_reference.cpp.o make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/fq_seq_csra_iter.c.o -MF CMakeFiles/fasterq-dump.dir/fq_seq_csra_iter.c.o.d -o CMakeFiles/fasterq-dump.dir/fq_seq_csra_iter.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/fasterq-dump/fq_seq_csra_iter.c make -f libs/ngs-vdb/test/CMakeFiles/test-fragmentblob.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-fragmentblob.dir/build cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__fext__=\"cpp\" -D__file__=\"__FILE__\" -D__mod__=\"NGS_TEST\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg -I/usr/include/ncbi-vdb/../libs/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -fPIE -rdynamic -MD -MT libs/ngs-vdb/test/CMakeFiles/test-ngs_reference.dir/ngstest_reference.cpp.o -MF CMakeFiles/test-ngs_reference.dir/ngstest_reference.cpp.o.d -o CMakeFiles/test-ngs_reference.dir/ngstest_reference.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/ngs-vdb/test/ngstest_reference.cpp make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 85%] Linking CXX executable ../../../test-bin/AlignSliceTest cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/AlignSliceTest.dir/link.txt --verbose=1 [ 85%] Built target srf-load make -f libs/ngs-vdb/test/CMakeFiles/test-byteblob.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-byteblob.dir/depend make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/cg-load.dir/link.d "CMakeFiles/cg-load.dir/cg-load.c.o" "CMakeFiles/cg-load.dir/factory-evidence-intervals.c.o" "CMakeFiles/cg-load.dir/factory-evidence-dnbs.c.o" "CMakeFiles/cg-load.dir/factory-mappings.c.o" "CMakeFiles/cg-load.dir/factory-reads.c.o" "CMakeFiles/cg-load.dir/factory-tag-lfr.c.o" "CMakeFiles/cg-load.dir/f1_3.c.o" "CMakeFiles/cg-load.dir/f1_5.c.o" "CMakeFiles/cg-load.dir/f1_7.c.o" "CMakeFiles/cg-load.dir/f2_0.c.o" "CMakeFiles/cg-load.dir/f2_2.c.o" "CMakeFiles/cg-load.dir/f2_4.c.o" "CMakeFiles/cg-load.dir/f2_5.c.o" "CMakeFiles/cg-load.dir/file.c.o" "CMakeFiles/cg-load.dir/file-version-factory.c.o" "CMakeFiles/cg-load.dir/formats.c.o" "CMakeFiles/cg-load.dir/writer-algn.c.o" "CMakeFiles/cg-load.dir/writer-evidence-dnbs.c.o" "CMakeFiles/cg-load.dir/writer-evidence-intervals.c.o" "CMakeFiles/cg-load.dir/writer-seq.c.o" -o ../../../bin/cg-load ../../../ilib/libloader.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm -lmbedx509 -lmbedtls -lmbedcrypto cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && rm -f cg-load.3.2.1 make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test/CMakeFiles/test-byteblob.dir/DependInfo.cmake "--color=" make -f libs/ngs-vdb/test/CMakeFiles/test-referenceblob.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-referenceblob.dir/build cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && mv cg-load cg-load.3.2.1 make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s cg-load.3.2.1 cg-load.3 [ 85%] Building CXX object libs/ngs-vdb/test/CMakeFiles/test-fragmentblob.dir/ngstest_fragmentblob.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__fext__=\"cpp\" -D__file__=\"__FILE__\" -D__mod__=\"NGS_TEST\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg -I/usr/include/ncbi-vdb/../libs/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -fPIE -rdynamic -MD -MT libs/ngs-vdb/test/CMakeFiles/test-fragmentblob.dir/ngstest_fragmentblob.cpp.o -MF CMakeFiles/test-fragmentblob.dir/ngstest_fragmentblob.cpp.o.d -o CMakeFiles/test-fragmentblob.dir/ngstest_fragmentblob.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/ngs-vdb/test/ngstest_fragmentblob.cpp cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s cg-load.3 cg-load make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 85%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/align_iter.c.o make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/align_iter.c.o -MF CMakeFiles/fasterq-dump.dir/align_iter.c.o.d -o CMakeFiles/fasterq-dump.dir/align_iter.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/fasterq-dump/align_iter.c [ 86%] Building CXX object libs/ngs-vdb/test/CMakeFiles/test-referenceblob.dir/ngstest_referenceblob.cpp.o make -f libs/ngs-vdb/test/CMakeFiles/test-byteblob.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-byteblob.dir/build cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__fext__=\"cpp\" -D__file__=\"__FILE__\" -D__mod__=\"NGS_TEST\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg -I/usr/include/ncbi-vdb/../libs/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -fPIE -rdynamic -MD -MT libs/ngs-vdb/test/CMakeFiles/test-referenceblob.dir/ngstest_referenceblob.cpp.o -MF CMakeFiles/test-referenceblob.dir/ngstest_referenceblob.cpp.o.d -o CMakeFiles/test-referenceblob.dir/ngstest_referenceblob.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/ngs-vdb/test/ngstest_referenceblob.cpp make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 86%] Linking CXX executable ../../../test-bin/SlowTest_FastqLoader_id2name cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/loaders/fastq-loader && /usr/bin/cmake -E cmake_link_script CMakeFiles/SlowTest_FastqLoader_id2name.dir/link.txt --verbose=1 [ 86%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/simple_fasta_iter.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/simple_fasta_iter.c.o -MF CMakeFiles/fasterq-dump.dir/simple_fasta_iter.c.o.d -o CMakeFiles/fasterq-dump.dir/simple_fasta_iter.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/fasterq-dump/simple_fasta_iter.c [ 86%] Building CXX object libs/ngs-vdb/test/CMakeFiles/test-byteblob.dir/ngstest_byteblob.cpp.o [ 86%] Linking CXX executable ../../../test-bin/AlignTest cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/AlignTest.dir/link.txt --verbose=1 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__fext__=\"cpp\" -D__file__=\"__FILE__\" -D__mod__=\"NGS_TEST\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg -I/usr/include/ncbi-vdb/../libs/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -fPIE -rdynamic -MD -MT libs/ngs-vdb/test/CMakeFiles/test-byteblob.dir/ngstest_byteblob.cpp.o -MF CMakeFiles/test-byteblob.dir/ngstest_byteblob.cpp.o.d -o CMakeFiles/test-byteblob.dir/ngstest_byteblob.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/ngs-vdb/test/ngstest_byteblob.cpp [ 86%] Built target cg-load make -f libs/ngs-vdb/test/CMakeFiles/test-ngs_sra_c++.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-ngs_sra_c++.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/RefTest.dir/link.d CMakeFiles/RefTest.dir/RefTest.cpp.o -o ../../../test-bin/RefTest ../../../lib/libncbi-ngs.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -lmbedx509 -lmbedtls -lmbedcrypto -lmbedx509 -lmbedtls -lmbedcrypto cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test/CMakeFiles/test-ngs_sra_c++.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f libs/ngs-vdb/test/CMakeFiles/test-ngs_sra_c++.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-ngs_sra_c++.dir/build [ 86%] Built target RefTest make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f libs/ngs-vdb/test/CMakeFiles/test-ngs_sradb_c++.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-ngs_sradb_c++.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test/CMakeFiles/test-ngs_sradb_c++.dir/DependInfo.cmake "--color=" [ 86%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/db_join.c.o [ 87%] Building CXX object libs/ngs-vdb/test/CMakeFiles/test-ngs_sra_c++.dir/SRAtest.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__fext__=\"cpp\" -D__file__=\"__FILE__\" -D__mod__=\"NGS_TEST\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg -I/usr/include/ncbi-vdb/../libs/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -fPIE -rdynamic -MD -MT libs/ngs-vdb/test/CMakeFiles/test-ngs_sra_c++.dir/SRAtest.cpp.o -MF CMakeFiles/test-ngs_sra_c++.dir/SRAtest.cpp.o.d -o CMakeFiles/test-ngs_sra_c++.dir/SRAtest.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/ngs-vdb/test/SRAtest.cpp cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/db_join.c.o -MF CMakeFiles/fasterq-dump.dir/db_join.c.o.d -o CMakeFiles/fasterq-dump.dir/db_join.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/fasterq-dump/db_join.c make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f libs/ngs-vdb/test/CMakeFiles/test-ngs_sradb_c++.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-ngs_sradb_c++.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 87%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/tbl_join.c.o [ 88%] Linking CXX executable ../../../test-bin/PileupTest [ 88%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/temp_registry.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/tbl_join.c.o -MF CMakeFiles/fasterq-dump.dir/tbl_join.c.o.d -o CMakeFiles/fasterq-dump.dir/tbl_join.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/fasterq-dump/tbl_join.c cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/PileupTest.dir/link.txt --verbose=1 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/temp_registry.c.o -MF CMakeFiles/fasterq-dump.dir/temp_registry.c.o.d -o CMakeFiles/fasterq-dump.dir/temp_registry.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/fasterq-dump/temp_registry.c [ 88%] Building CXX object libs/ngs-vdb/test/CMakeFiles/test-ngs_sradb_c++.dir/SRADBtest.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__fext__=\"cpp\" -D__file__=\"__FILE__\" -D__mod__=\"NGS_TEST\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg -I/usr/include/ncbi-vdb/../libs/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -fPIE -rdynamic -MD -MT libs/ngs-vdb/test/CMakeFiles/test-ngs_sradb_c++.dir/SRADBtest.cpp.o -MF CMakeFiles/test-ngs_sradb_c++.dir/SRADBtest.cpp.o.d -o CMakeFiles/test-ngs_sradb_c++.dir/SRADBtest.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/ngs-vdb/test/SRADBtest.cpp [ 89%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/copy_machine.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/copy_machine.c.o -MF CMakeFiles/fasterq-dump.dir/copy_machine.c.o.d -o CMakeFiles/fasterq-dump.dir/copy_machine.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/fasterq-dump/copy_machine.c [ 89%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/multi_writer.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/multi_writer.c.o -MF CMakeFiles/fasterq-dump.dir/multi_writer.c.o.d -o CMakeFiles/fasterq-dump.dir/multi_writer.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/fasterq-dump/multi_writer.c /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/AlignSliceTest.dir/link.d CMakeFiles/AlignSliceTest.dir/AlignSliceTest.cpp.o -o ../../../test-bin/AlignSliceTest ../../../lib/libncbi-ngs.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -lmbedx509 -lmbedtls -lmbedcrypto -lmbedx509 -lmbedtls -lmbedcrypto make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/SlowTest_FastqLoader_id2name.dir/link.d "CMakeFiles/SlowTest_FastqLoader_id2name.dir/test-id2name.cpp.o" -o ../../../test-bin/SlowTest_FastqLoader_id2name ../../../ilib/libfastqloader.a ../../../ilib/libloader.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libktst.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -lmbedx509 -lmbedtls -lmbedcrypto make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 89%] Linking CXX executable ../../../test-bin/DumpReferenceFASTA [ 89%] Built target AlignSliceTest make -f libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_c++.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_c++.dir/depend cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/DumpReferenceFASTA.dir/link.txt --verbose=1 make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_c++.dir/DependInfo.cmake "--color=" [ 89%] Linking CXX executable ../../../test-bin/test-ngs cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-ngs.dir/link.txt --verbose=1 [ 89%] Built target SlowTest_FastqLoader_id2name make -f libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1pileup++.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1pileup++.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1pileup++.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_c++.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_c++.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1pileup++.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1pileup++.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 89%] Building CXX object libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_c++.dir/CSRA1test.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__fext__=\"cpp\" -D__file__=\"__FILE__\" -D__mod__=\"NGS_TEST\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg -I/usr/include/ncbi-vdb/../libs/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -fPIE -rdynamic -MD -MT libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_c++.dir/CSRA1test.cpp.o -MF CMakeFiles/test-ngs_csra1_c++.dir/CSRA1test.cpp.o.d -o CMakeFiles/test-ngs_csra1_c++.dir/CSRA1test.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/ngs-vdb/test/CSRA1test.cpp [ 89%] Building CXX object libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1pileup++.dir/CSRA1PileupTest.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__fext__=\"cpp\" -D__file__=\"__FILE__\" -D__mod__=\"NGS_TEST\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg -I/usr/include/ncbi-vdb/../libs/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -fPIE -rdynamic -MD -MT libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1pileup++.dir/CSRA1PileupTest.cpp.o -MF CMakeFiles/test-ngs_csra1pileup++.dir/CSRA1PileupTest.cpp.o.d -o CMakeFiles/test-ngs_csra1pileup++.dir/CSRA1PileupTest.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/ngs-vdb/test/CSRA1PileupTest.cpp [ 90%] Linking CXX executable ../../../bin/prefetch cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/prefetch && /usr/bin/cmake -E cmake_link_script CMakeFiles/prefetch.dir/link.txt --verbose=1 /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/AlignTest.dir/link.d CMakeFiles/AlignTest.dir/AlignTest.cpp.o -o ../../../test-bin/AlignTest ../../../lib/libncbi-ngs.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -lmbedx509 -lmbedtls -lmbedcrypto -lmbedx509 -lmbedtls -lmbedcrypto make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 90%] Built target AlignTest make -f libs/ngs-vdb/test/CMakeFiles/test-ngs-vdb.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-ngs-vdb.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test/CMakeFiles/test-ngs-vdb.dir/DependInfo.cmake "--color=" /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/test-ngs.dir/link.d "CMakeFiles/test-ngs.dir/ngstest.cpp.o" -o ../../../test-bin/test-ngs -Wl,-Bstatic -lktst -lkapp ../../../lib/libncbi-ngs.a -Wl,-Bdynamic /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -lmbedx509 -lmbedtls -lmbedcrypto /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f libs/ngs-vdb/test/CMakeFiles/test-ngs-vdb.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-ngs-vdb.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/PileupTest.dir/link.d CMakeFiles/PileupTest.dir/PileupTest.cpp.o -o ../../../test-bin/PileupTest ../../../lib/libncbi-ngs.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -lmbedx509 -lmbedtls -lmbedcrypto -lmbedx509 -lmbedtls -lmbedcrypto make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 90%] Built target test-ngs make -f libs/general-writer/test/CMakeFiles/Build-gw-dumper.dir/build.make libs/general-writer/test/CMakeFiles/Build-gw-dumper.dir/depend [ 90%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/concatenator.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/concatenator.c.o -MF CMakeFiles/fasterq-dump.dir/concatenator.c.o.d -o CMakeFiles/fasterq-dump.dir/concatenator.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/fasterq-dump/concatenator.c make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/general-writer/test /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/libs/general-writer/test /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/libs/general-writer/test/CMakeFiles/Build-gw-dumper.dir/DependInfo.cmake "--color=" [ 90%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/ref_inventory.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/ref_inventory.c.o -MF CMakeFiles/fasterq-dump.dir/ref_inventory.c.o.d -o CMakeFiles/fasterq-dump.dir/ref_inventory.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/fasterq-dump/ref_inventory.c [ 90%] Building CXX object libs/ngs-vdb/test/CMakeFiles/test-ngs-vdb.dir/test-ngs-vdb.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__fext__=\"cpp\" -D__file__=\"__FILE__\" -D__mod__=\"NGS_TEST\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg -I/usr/include/ncbi-vdb/../libs/ngs -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -fPIE -rdynamic -MD -MT libs/ngs-vdb/test/CMakeFiles/test-ngs-vdb.dir/test-ngs-vdb.cpp.o -MF CMakeFiles/test-ngs-vdb.dir/test-ngs-vdb.cpp.o.d -o CMakeFiles/test-ngs-vdb.dir/test-ngs-vdb.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/ngs-vdb/test/test-ngs-vdb.cpp make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f libs/general-writer/test/CMakeFiles/Build-gw-dumper.dir/build.make libs/general-writer/test/CMakeFiles/Build-gw-dumper.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'libs/general-writer/test/CMakeFiles/Build-gw-dumper.dir/build'. make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/DumpReferenceFASTA.dir/link.d CMakeFiles/DumpReferenceFASTA.dir/DumpReferenceFASTA.cpp.o -o ../../../test-bin/DumpReferenceFASTA ../../../lib/libncbi-ngs.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -lmbedx509 -lmbedtls -lmbedcrypto -lmbedx509 -lmbedtls -lmbedcrypto make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 90%] Built target PileupTest make -f tools/loaders/general-loader/test/CMakeFiles/test-general-loader.dir/build.make tools/loaders/general-loader/test/CMakeFiles/test-general-loader.dir/depend [ 90%] Built target Build-gw-dumper make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader/test /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader/test/CMakeFiles/test-general-loader.dir/DependInfo.cmake "--color=" make -f tools/external/ref-variation/CMakeFiles/ref-variation.dir/build.make tools/external/ref-variation/CMakeFiles/ref-variation.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/ref-variation /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/ref-variation /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/ref-variation/CMakeFiles/ref-variation.dir/DependInfo.cmake "--color=" [ 90%] Built target DumpReferenceFASTA make -f tools/external/ref-variation/CMakeFiles/var-expand.dir/build.make tools/external/ref-variation/CMakeFiles/var-expand.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/ref-variation /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/ref-variation /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/ref-variation/CMakeFiles/var-expand.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f tools/loaders/general-loader/test/CMakeFiles/test-general-loader.dir/build.make tools/loaders/general-loader/test/CMakeFiles/test-general-loader.dir/build make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 90%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/fasterq-dump.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/fasterq-dump.c.o -MF CMakeFiles/fasterq-dump.dir/fasterq-dump.c.o.d -o CMakeFiles/fasterq-dump.dir/fasterq-dump.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/fasterq-dump/fasterq-dump.c make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f tools/external/ref-variation/CMakeFiles/ref-variation.dir/build.make tools/external/ref-variation/CMakeFiles/ref-variation.dir/build make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f tools/external/ref-variation/CMakeFiles/var-expand.dir/build.make tools/external/ref-variation/CMakeFiles/var-expand.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 91%] Building CXX object tools/loaders/general-loader/test/CMakeFiles/test-general-loader.dir/test-general-loader.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test/.. -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT tools/loaders/general-loader/test/CMakeFiles/test-general-loader.dir/test-general-loader.cpp.o -MF CMakeFiles/test-general-loader.dir/test-general-loader.cpp.o.d -o CMakeFiles/test-general-loader.dir/test-general-loader.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test/test-general-loader.cpp /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/prefetch.dir/link.d "CMakeFiles/prefetch.dir/kfile-no-q.c.o" CMakeFiles/prefetch.dir/PrfMain.c.o CMakeFiles/prefetch.dir/prefetch.c.o CMakeFiles/prefetch.dir/PrfRetrier.c.o CMakeFiles/prefetch.dir/PrfOutFile.c.o -o ../../../bin/prefetch ../../../ilib/libascp.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -lmbedx509 -lmbedtls -lmbedcrypto [ 91%] Building CXX object tools/external/ref-variation/CMakeFiles/var-expand.dir/common.cpp.o [ 91%] Building CXX object tools/external/ref-variation/CMakeFiles/var-expand.dir/helper.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && rm -f prefetch.3.2.1 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/ref-variation && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/var-expand\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT tools/external/ref-variation/CMakeFiles/var-expand.dir/common.cpp.o -MF CMakeFiles/var-expand.dir/common.cpp.o.d -o CMakeFiles/var-expand.dir/common.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/ref-variation/common.cpp [ 91%] Building CXX object tools/external/ref-variation/CMakeFiles/ref-variation.dir/common.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && mv prefetch prefetch.3.2.1 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/ref-variation && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/ref-variation\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT tools/external/ref-variation/CMakeFiles/ref-variation.dir/common.cpp.o -MF CMakeFiles/ref-variation.dir/common.cpp.o.d -o CMakeFiles/ref-variation.dir/common.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/ref-variation/common.cpp cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s prefetch.3.2.1 prefetch.3 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/ref-variation && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/var-expand\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT tools/external/ref-variation/CMakeFiles/var-expand.dir/helper.cpp.o -MF CMakeFiles/var-expand.dir/helper.cpp.o.d -o CMakeFiles/var-expand.dir/helper.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/ref-variation/helper.cpp cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s prefetch.3 prefetch cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sratools.3.2.1 prefetch-driver [ 91%] Building CXX object tools/external/ref-variation/CMakeFiles/var-expand.dir/var-expand.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/ref-variation && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/var-expand\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT tools/external/ref-variation/CMakeFiles/var-expand.dir/var-expand.cpp.o -MF CMakeFiles/var-expand.dir/var-expand.cpp.o.d -o CMakeFiles/var-expand.dir/var-expand.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/ref-variation/var-expand.cpp make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 91%] Linking CXX executable ../../../bin/ngs-pileup cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/ngs-pileup && /usr/bin/cmake -E cmake_link_script CMakeFiles/ngs-pileup.dir/link.txt --verbose=1 /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/ngs-vdb/test/ngstest_csra1_refwin.cpp: In member function 'void CSRA1_NGS_ReferenceWindow_Slice_Filtered::Instance::test_method()': /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/ngs-vdb/test/ngstest_csra1_refwin.cpp:591:196: note: '#pragma message: filtering did not work prior to today's changes. I have set filter bits to allow this test to pass. the test should be fixed so that filters are set to the two desired flags.' 591 | #pragma message ( "filtering did not work prior to today's changes. I have set filter bits to allow this test to pass. the test should be fixed so that filters are set to the two desired flags." ) | ^ [ 91%] Built target prefetch make -f tools/external/sra-search/CMakeFiles/sra-search.dir/build.make tools/external/sra-search/CMakeFiles/sra-search.dir/depend /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/ngs-vdb/test/ngstest_csra1_refwin.cpp: In member function 'void CSRA1_NGS_ReferenceGetFilteredAlignmentSlice_Wraparound::Instance::test_method()': /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/ngs-vdb/test/ngstest_csra1_refwin.cpp:669:196: note: '#pragma message: filtering did not work prior to today's changes. I have set filter bits to allow this test to pass. the test should be fixed so that filters are set to the two desired flags.' 669 | #pragma message ( "filtering did not work prior to today's changes. I have set filter bits to allow this test to pass. the test should be fixed so that filters are set to the two desired flags." ) | ^ /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/ngs-vdb/test/ngstest_csra1_refwin.cpp: In member function 'void CSRA1_NGS_ReferenceGetFilteredAlignmentSlice_Wraparound_StartInWindow::Instance::test_method()': /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/ngs-vdb/test/ngstest_csra1_refwin.cpp:696:196: note: '#pragma message: filtering did not work prior to today's changes. I have set filter bits to allow this test to pass. the test should be fixed so that filters are set to the two desired flags.' 696 | #pragma message ( "filtering did not work prior to today's changes. I have set filter bits to allow this test to pass. the test should be fixed so that filters are set to the two desired flags." ) | ^ make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/ngs-vdb/test/ngstest_csra1_refwin.cpp: In member function 'void CSRA1_NGS_ReferenceGetFilteredAlignmentSlice_NoWraparound::Instance::test_method()': /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/ngs-vdb/test/ngstest_csra1_refwin.cpp:719:196: note: '#pragma message: filtering did not work prior to today's changes. I have set filter bits to allow this test to pass. the test should be fixed so that filters are set to the two desired flags.' 719 | #pragma message ( "filtering did not work prior to today's changes. I have set filter bits to allow this test to pass. the test should be fixed so that filters are set to the two desired flags." ) | ^ cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/sra-search /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/CMakeFiles/sra-search.dir/DependInfo.cmake "--color=" /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/ngs-vdb/test/ngstest_csra1_refwin.cpp: In member function 'void CSRA1_NGS_ReferenceGetFilteredAlignmentSlice_NoWraparound_StartInWindow::Instance::test_method()': /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/ngs-vdb/test/ngstest_csra1_refwin.cpp:740:196: note: '#pragma message: filtering did not work prior to today's changes. I have set filter bits to allow this test to pass. the test should be fixed so that filters are set to the two desired flags.' 740 | #pragma message ( "filtering did not work prior to today's changes. I have set filter bits to allow this test to pass. the test should be fixed so that filters are set to the two desired flags." ) | ^ [ 92%] Building CXX object tools/external/ref-variation/CMakeFiles/ref-variation.dir/helper.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/ref-variation && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/ref-variation\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT tools/external/ref-variation/CMakeFiles/ref-variation.dir/helper.cpp.o -MF CMakeFiles/ref-variation.dir/helper.cpp.o.d -o CMakeFiles/ref-variation.dir/helper.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/ref-variation/helper.cpp In file included from /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test/test-general-loader.cpp:32: /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test/../database-loader.cpp:833:90: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 833 | rc = KLoaderMeta_WriteWithVersion ( node, m_programName.c_str(), __DATE__, KAppVersion(), m_softwareName.c_str(), m_softwareVersion ); | ^~~~~~~~ [ 92%] Linking CXX executable ../../../bin/general-loader cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader && /usr/bin/cmake -E cmake_link_script CMakeFiles/general-loader.dir/link.txt --verbose=1 make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f tools/external/sra-search/CMakeFiles/sra-search.dir/build.make tools/external/sra-search/CMakeFiles/sra-search.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test/test-general-loader.cpp:636:92: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 636 | REQUIRE_EQ ( string ( __DATE__), GetDbMetadataAttr ( m_db, "SOFTWARE/loader", "date" ) ); | ^ [ 92%] Building CXX object tools/external/sra-search/CMakeFiles/sra-search.dir/main.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-search\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT tools/external/sra-search/CMakeFiles/sra-search.dir/main.cpp.o -MF CMakeFiles/sra-search.dir/main.cpp.o.d -o CMakeFiles/sra-search.dir/main.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/sra-search/main.cpp make -f tools/external/sra-search/test/CMakeFiles/Test_SraSearch.dir/build.make tools/external/sra-search/test/CMakeFiles/Test_SraSearch.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/sra-search/test /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test/CMakeFiles/Test_SraSearch.dir/DependInfo.cmake "--color=" /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/ngs-pileup.dir/link.d "CMakeFiles/ngs-pileup.dir/ngs-pileup.cpp.o" "CMakeFiles/ngs-pileup.dir/main.cpp.o" -o ../../../bin/ngs-pileup ../../../lib/libncbi-ngs-c++.a ../../../lib/libngs-c++.a ../../../ilib/libngs.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -lmbedx509 -lmbedtls -lmbedcrypto /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && rm -f ngs-pileup.3.2.1 make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f tools/external/sra-search/test/CMakeFiles/Test_SraSearch.dir/build.make tools/external/sra-search/test/CMakeFiles/Test_SraSearch.dir/build cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && mv ngs-pileup ngs-pileup.3.2.1 make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s ngs-pileup.3.2.1 ngs-pileup.3 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s ngs-pileup.3 ngs-pileup /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/general-loader.dir/link.d "CMakeFiles/general-loader.dir/general-loader.cpp.o" "CMakeFiles/general-loader.dir/protocol-parser.cpp.o" "CMakeFiles/general-loader.dir/database-loader.cpp.o" "CMakeFiles/general-loader.dir/main.cpp.o" -o ../../../bin/general-loader ../../../ilib/libgeneral-writer.a ../../../ilib/libloader.a -lkapp ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm -lmbedx509 -lmbedtls -lmbedcrypto cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && rm -f general-loader.3.2.1 make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && mv general-loader general-loader.3.2.1 [ 92%] Building CXX object tools/external/sra-search/test/CMakeFiles/Test_SraSearch.dir/test-sra-search.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/sra-search/test/.. -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT tools/external/sra-search/test/CMakeFiles/Test_SraSearch.dir/test-sra-search.cpp.o -MF CMakeFiles/Test_SraSearch.dir/test-sra-search.cpp.o.d -o CMakeFiles/Test_SraSearch.dir/test-sra-search.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/sra-search/test/test-sra-search.cpp cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s general-loader.3.2.1 general-loader.3 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s general-loader.3 general-loader [ 92%] Built target ngs-pileup make -f tools/external/sra-search/test/CMakeFiles/Test_SraSearchSlow.dir/build.make tools/external/sra-search/test/CMakeFiles/Test_SraSearchSlow.dir/depend make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/sra-search/test /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test/CMakeFiles/Test_SraSearchSlow.dir/DependInfo.cmake "--color=" make -f tools/external/sra-search/test/CMakeFiles/Test_SraSearch_SearchBlock.dir/build.make tools/external/sra-search/test/CMakeFiles/Test_SraSearch_SearchBlock.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/sra-search/test /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test/CMakeFiles/Test_SraSearch_SearchBlock.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f tools/external/sra-search/test/CMakeFiles/Test_SraSearch_SearchBlock.dir/build.make tools/external/sra-search/test/CMakeFiles/Test_SraSearch_SearchBlock.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 92%] Built target general-loader make -f tools/external/sra-search/test/CMakeFiles/Test_SraSearchSlow.dir/build.make tools/external/sra-search/test/CMakeFiles/Test_SraSearchSlow.dir/build [ 92%] Building CXX object tools/external/sra-search/test/CMakeFiles/Test_SraSearch_SearchBlock.dir/test-searchblock.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/sra-search/test/.. -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT tools/external/sra-search/test/CMakeFiles/Test_SraSearch_SearchBlock.dir/test-searchblock.cpp.o -MF CMakeFiles/Test_SraSearch_SearchBlock.dir/test-searchblock.cpp.o.d -o CMakeFiles/Test_SraSearch_SearchBlock.dir/test-searchblock.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/sra-search/test/test-searchblock.cpp make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 92%] Linking CXX executable ../../../bin/fasterq-dump [ 93%] Building CXX object tools/external/sra-search/test/CMakeFiles/Test_SraSearch_SearchBlock.dir/__/searchblock.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cmake -E cmake_link_script CMakeFiles/fasterq-dump.dir/link.txt --verbose=1 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/sra-search/test/.. -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT tools/external/sra-search/test/CMakeFiles/Test_SraSearch_SearchBlock.dir/__/searchblock.cpp.o -MF CMakeFiles/Test_SraSearch_SearchBlock.dir/__/searchblock.cpp.o.d -o CMakeFiles/Test_SraSearch_SearchBlock.dir/__/searchblock.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/sra-search/searchblock.cpp [ 93%] Building CXX object tools/external/sra-search/test/CMakeFiles/Test_SraSearchSlow.dir/test-sra-search-slow.cpp.o [ 93%] Building CXX object tools/external/sra-search/test/CMakeFiles/Test_SraSearchSlow.dir/__/vdb-search.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/sra-search/test/.. -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT tools/external/sra-search/test/CMakeFiles/Test_SraSearchSlow.dir/__/vdb-search.cpp.o -MF CMakeFiles/Test_SraSearchSlow.dir/__/vdb-search.cpp.o.d -o CMakeFiles/Test_SraSearchSlow.dir/__/vdb-search.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/sra-search/vdb-search.cpp cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/sra-search/test/.. -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT tools/external/sra-search/test/CMakeFiles/Test_SraSearchSlow.dir/test-sra-search-slow.cpp.o -MF CMakeFiles/Test_SraSearchSlow.dir/test-sra-search-slow.cpp.o.d -o CMakeFiles/Test_SraSearchSlow.dir/test-sra-search-slow.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/sra-search/test/test-sra-search-slow.cpp [ 93%] Building CXX object tools/external/ref-variation/CMakeFiles/ref-variation.dir/ref-variation.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/ref-variation && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/ref-variation\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT tools/external/ref-variation/CMakeFiles/ref-variation.dir/ref-variation.cpp.o -MF CMakeFiles/ref-variation.dir/ref-variation.cpp.o.d -o CMakeFiles/ref-variation.dir/ref-variation.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/ref-variation/ref-variation.cpp [ 93%] Linking CXX executable ../../../test-bin/Test_Drivertool_RunSource cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/cmake -E cmake_link_script CMakeFiles/Test_Drivertool_RunSource.dir/link.txt --verbose=1 /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/fasterq-dump.dir/link.d "CMakeFiles/fasterq-dump.dir/helper.c.o" "CMakeFiles/fasterq-dump.dir/arg_helper.c.o" "CMakeFiles/fasterq-dump.dir/dflt_defline.c.o" "CMakeFiles/fasterq-dump.dir/tool_ctx.c.o" "CMakeFiles/fasterq-dump.dir/inspector.c.o" "CMakeFiles/fasterq-dump.dir/sbuffer.c.o" "CMakeFiles/fasterq-dump.dir/err_msg.c.o" "CMakeFiles/fasterq-dump.dir/file_tools.c.o" "CMakeFiles/fasterq-dump.dir/var_fmt.c.o" "CMakeFiles/fasterq-dump.dir/flex_printer.c.o" "CMakeFiles/fasterq-dump.dir/temp_dir.c.o" "CMakeFiles/fasterq-dump.dir/progress_thread.c.o" "CMakeFiles/fasterq-dump.dir/cleanup_task.c.o" "CMakeFiles/fasterq-dump.dir/index.c.o" "CMakeFiles/fasterq-dump.dir/lookup_writer.c.o" "CMakeFiles/fasterq-dump.dir/lookup_reader.c.o" "CMakeFiles/fasterq-dump.dir/locked_file_list.c.o" "CMakeFiles/fasterq-dump.dir/locked_value.c.o" "CMakeFiles/fasterq-dump.dir/file_printer.c.o" "CMakeFiles/fasterq-dump.dir/merge_sorter.c.o" "CMakeFiles/fasterq-dump.dir/sorter.c.o" "CMakeFiles/fasterq-dump.dir/cmn_iter.c.o" "CMakeFiles/fasterq-dump.dir/raw_read_iter.c.o" "CMakeFiles/fasterq-dump.dir/special_iter.c.o" "CMakeFiles/fasterq-dump.dir/fq_seq_ua_iter.c.o" "CMakeFiles/fasterq-dump.dir/fq_seq_csra_iter.c.o" "CMakeFiles/fasterq-dump.dir/align_iter.c.o" "CMakeFiles/fasterq-dump.dir/simple_fasta_iter.c.o" "CMakeFiles/fasterq-dump.dir/db_join.c.o" "CMakeFiles/fasterq-dump.dir/tbl_join.c.o" "CMakeFiles/fasterq-dump.dir/temp_registry.c.o" "CMakeFiles/fasterq-dump.dir/copy_machine.c.o" "CMakeFiles/fasterq-dump.dir/multi_writer.c.o" "CMakeFiles/fasterq-dump.dir/concatenator.c.o" "CMakeFiles/fasterq-dump.dir/ref_inventory.c.o" "CMakeFiles/fasterq-dump.dir/fasterq-dump.c.o" -o ../../../bin/fasterq-dump /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -lmbedx509 -lmbedtls -lmbedcrypto ../../../ilib/libksrch.a cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && rm -f fasterq-dump.3.2.1 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && mv fasterq-dump fasterq-dump.3.2.1 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s fasterq-dump.3.2.1 fasterq-dump.3 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s fasterq-dump.3 fasterq-dump cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sratools.3.2.1 fasterq-dump-driver make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 93%] Built target fasterq-dump make -f tools/internal/compute-coverage/CMakeFiles/compute-coverage-ngs.dir/build.make tools/internal/compute-coverage/CMakeFiles/compute-coverage-ngs.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/internal/compute-coverage /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/internal/compute-coverage /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/internal/compute-coverage/CMakeFiles/compute-coverage-ngs.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f tools/internal/compute-coverage/CMakeFiles/compute-coverage-ngs.dir/build.make tools/internal/compute-coverage/CMakeFiles/compute-coverage-ngs.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 93%] Building CXX object tools/internal/compute-coverage/CMakeFiles/compute-coverage-ngs.dir/compute-coverage-ngs.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/internal/compute-coverage && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT tools/internal/compute-coverage/CMakeFiles/compute-coverage-ngs.dir/compute-coverage-ngs.cpp.o -MF CMakeFiles/compute-coverage-ngs.dir/compute-coverage-ngs.cpp.o.d -o CMakeFiles/compute-coverage-ngs.dir/compute-coverage-ngs.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/internal/compute-coverage/compute-coverage-ngs.cpp /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/Test_Drivertool_RunSource.dir/link.d "CMakeFiles/Test_Drivertool_RunSource.dir/test-run-source.cpp.o" "CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/run-source.cpp.o" "CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/command-line.cpp.o" "CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/SDL-response.cpp.o" "CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/file-path.posix.cpp.o" "CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/json-parse.cpp.o" "CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/build-version.cpp.o" "CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/tool-args.cpp.o" -o ../../../test-bin/Test_Drivertool_RunSource /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libktst.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -lmbedx509 -lmbedtls -lmbedcrypto make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 93%] Built target Test_Drivertool_RunSource [ 94%] Building CXX object tools/external/sra-search/CMakeFiles/sra-search.dir/searchblock.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-search\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT tools/external/sra-search/CMakeFiles/sra-search.dir/searchblock.cpp.o -MF CMakeFiles/sra-search.dir/searchblock.cpp.o.d -o CMakeFiles/sra-search.dir/searchblock.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/sra-search/searchblock.cpp make -f tools/internal/dump_ref_fasta/CMakeFiles/dump-ref-fasta.dir/build.make tools/internal/dump_ref_fasta/CMakeFiles/dump-ref-fasta.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/internal/dump_ref_fasta /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/internal/dump_ref_fasta /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/internal/dump_ref_fasta/CMakeFiles/dump-ref-fasta.dir/DependInfo.cmake "--color=" [ 94%] Building CXX object tools/external/sra-search/test/CMakeFiles/Test_SraSearchSlow.dir/__/searchblock.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/sra-search/test/.. -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT tools/external/sra-search/test/CMakeFiles/Test_SraSearchSlow.dir/__/searchblock.cpp.o -MF CMakeFiles/Test_SraSearchSlow.dir/__/searchblock.cpp.o.d -o CMakeFiles/Test_SraSearchSlow.dir/__/searchblock.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/sra-search/searchblock.cpp make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f tools/internal/dump_ref_fasta/CMakeFiles/dump-ref-fasta.dir/build.make tools/internal/dump_ref_fasta/CMakeFiles/dump-ref-fasta.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 94%] Linking CXX executable ../../../bin/vdb-config cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config && /usr/bin/cmake -E cmake_link_script CMakeFiles/vdb-config.dir/link.txt --verbose=1 [ 94%] Building CXX object tools/internal/dump_ref_fasta/CMakeFiles/dump-ref-fasta.dir/DumpReferenceFASTA.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/internal/dump_ref_fasta && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT tools/internal/dump_ref_fasta/CMakeFiles/dump-ref-fasta.dir/DumpReferenceFASTA.cpp.o -MF CMakeFiles/dump-ref-fasta.dir/DumpReferenceFASTA.cpp.o.d -o CMakeFiles/dump-ref-fasta.dir/DumpReferenceFASTA.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/internal/dump_ref_fasta/DumpReferenceFASTA.cpp [ 94%] Linking CXX executable ../../../test-bin/SlowTest_Align_estimator cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/internal/align && /usr/bin/cmake -E cmake_link_script CMakeFiles/SlowTest_Align_estimator.dir/link.txt --verbose=1 make -f tools/test-tools/pileup-stats/CMakeFiles/pileup-stats.dir/build.make tools/test-tools/pileup-stats/CMakeFiles/pileup-stats.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/test-tools/pileup-stats /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/test-tools/pileup-stats /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/test-tools/pileup-stats/CMakeFiles/pileup-stats.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f tools/test-tools/pileup-stats/CMakeFiles/pileup-stats.dir/build.make tools/test-tools/pileup-stats/CMakeFiles/pileup-stats.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 94%] Building CXX object tools/test-tools/pileup-stats/CMakeFiles/pileup-stats.dir/pileup-stats.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/test-tools/pileup-stats && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT tools/test-tools/pileup-stats/CMakeFiles/pileup-stats.dir/pileup-stats.cpp.o -MF CMakeFiles/pileup-stats.dir/pileup-stats.cpp.o.d -o CMakeFiles/pileup-stats.dir/pileup-stats.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/test-tools/pileup-stats/pileup-stats.cpp make -f test/external/ngs/testy-the-bear/CMakeFiles/testy-the-bear.dir/build.make test/external/ngs/testy-the-bear/CMakeFiles/testy-the-bear.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/ngs/testy-the-bear /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/external/ngs/testy-the-bear /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/external/ngs/testy-the-bear/CMakeFiles/testy-the-bear.dir/DependInfo.cmake "--color=" /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/vdb-config.dir/link.d "CMakeFiles/vdb-config.dir/configure.cpp.o" "CMakeFiles/vdb-config.dir/util.cpp.o" "CMakeFiles/vdb-config.dir/vdb-config.c.o" "CMakeFiles/vdb-config.dir/interactive2.cpp.o" "CMakeFiles/vdb-config.dir/vdb-config-model.cpp.o" -o ../../../bin/vdb-config ../../../ilib/libtui_cpp.a ../../../ilib/libtui.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -lmbedx509 -lmbedtls -lmbedcrypto cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && rm -f vdb-config.3.2.1 [ 94%] Linking CXX executable ../../../bin/var-expand In file included from /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc/spdlog/fmt/fmt.h:27, from /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/sharq/fastq_parse.cpp:40: /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc/spdlog/fmt/bundled/core.h: In instantiation of 'constexpr fmt::v9::detail::value fmt::v9::detail::make_value(T&&) [with Context = fmt::v9::basic_format_context; T = fmt::v9::basic_string_view&]': /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc/spdlog/fmt/bundled/core.h:1777:29: required from 'constexpr fmt::v9::detail::value fmt::v9::detail::make_arg(T&&) [with bool IS_PACKED = true; Context = fmt::v9::basic_format_context; type = fmt::v9::detail::type::string_type; T = fmt::v9::basic_string_view&; typename std::enable_if::type = 0]' 1777 | return make_value(val); | ~~~~~~~~~~~~~~~~~~~^~~~~ /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc/spdlog/fmt/bundled/core.h:1901:77: required from 'constexpr fmt::v9::format_arg_store::format_arg_store(T&& ...) [with T = {fmt::v9::basic_string_view&, const char (&)[3]}; Context = fmt::v9::basic_format_context; Args = {fmt::v9::basic_string_view, char [3]}]' 1899 | data_{detail::make_arg< | ~~~~~~~~~~~~~~~~~ 1900 | is_packed, Context, | ~~~~~~~~~~~~~~~~~~~ 1901 | detail::mapped_type_constant, Context>::value>( | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^ 1902 | FMT_FORWARD(args))...} { | ~~~~~~~~~~~~~~~~~~ /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc/spdlog/fmt/bundled/core.h:1918:31: required from 'OutputIt fmt::v9::format_to(OutputIt, format_string, T&& ...) [with OutputIt = appender; T = {basic_string_view&, const char (&)[3]}; typename std::enable_if::value, int>::type = 0; format_string = basic_format_string&, const char (&)[3]>]' 1918 | return {FMT_FORWARD(args)...}; | ^ /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc/spdlog/fmt/bundled/format-inl.h:65:14: required from here 65 | format_to(it, FMT_STRING("{}{}"), message, SEP); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc/spdlog/fmt/bundled/core.h:3235:52: in 'constexpr' expansion of 'fmt::v9::make_format_args<>(args#0, args#1)' /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc/spdlog/fmt/bundled/core.h:1735:15: warning: possibly dangling reference to a temporary [-Wdangling-reference] 1735 | const auto& arg = arg_mapper().map(FMT_FORWARD(val)); | ^~~ cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/ref-variation && /usr/bin/cmake -E cmake_link_script CMakeFiles/var-expand.dir/link.txt --verbose=1 /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc/spdlog/fmt/bundled/core.h:1735:46: note: the temporary was destroyed at the end of the full expression 'fmt::v9::detail::arg_mapper >().fmt::v9::detail::arg_mapper >::map >((*(const fmt::v9::basic_string_view*)(& val)))' 1735 | const auto& arg = arg_mapper().map(FMT_FORWARD(val)); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && mv vdb-config vdb-config.3.2.1 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s vdb-config.3.2.1 vdb-config.3 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s vdb-config.3 vdb-config make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f test/external/ngs/testy-the-bear/CMakeFiles/testy-the-bear.dir/build.make test/external/ngs/testy-the-bear/CMakeFiles/testy-the-bear.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config && /usr/bin/cmake -E copy /usr/include/ncbi-vdb/kfg/ncbi/default.kfg /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/ncbi/default.kfg [ 95%] Building CXX object test/external/ngs/testy-the-bear/CMakeFiles/testy-the-bear.dir/testy-the-bear.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/external/ngs/testy-the-bear && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"test/ngs/testy-the-bear\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ncbi/ngs -I/build/reproducible-path/sra-sdk-3.2.1+dfsg -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT test/external/ngs/testy-the-bear/CMakeFiles/testy-the-bear.dir/testy-the-bear.cpp.o -MF CMakeFiles/testy-the-bear.dir/testy-the-bear.cpp.o.d -o CMakeFiles/testy-the-bear.dir/testy-the-bear.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/ngs/testy-the-bear/testy-the-bear.cpp make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 95%] Built target vdb-config make -f test/external/ngs-pileup/CMakeFiles/Build-ngs-pileup.dir/build.make test/external/ngs-pileup/CMakeFiles/Build-ngs-pileup.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/ngs-pileup /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/external/ngs-pileup /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/external/ngs-pileup/CMakeFiles/Build-ngs-pileup.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f test/external/ngs-pileup/CMakeFiles/Build-ngs-pileup.dir/build.make test/external/ngs-pileup/CMakeFiles/Build-ngs-pileup.dir/build /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc/spdlog/fmt/bundled/core.h: In instantiation of 'constexpr fmt::v9::detail::value fmt::v9::detail::make_value(T&&) [with Context = fmt::v9::basic_format_context; T = std::__cxx11::basic_string&]': /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc/spdlog/fmt/bundled/core.h:1777:29: required from 'constexpr fmt::v9::detail::value fmt::v9::detail::make_arg(T&&) [with bool IS_PACKED = true; Context = fmt::v9::basic_format_context; type = fmt::v9::detail::type::string_type; T = std::__cxx11::basic_string&; typename std::enable_if::type = 0]' 1777 | return make_value(val); | ~~~~~~~~~~~~~~~~~~~^~~~~ /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc/spdlog/fmt/bundled/core.h:1901:77: required from 'constexpr fmt::v9::format_arg_store::format_arg_store(T&& ...) [with T = {std::__cxx11::basic_string, std::allocator >&, int&}; Context = fmt::v9::basic_format_context; Args = {std::__cxx11::basic_string, std::allocator >, int}]' 1899 | data_{detail::make_arg< | ~~~~~~~~~~~~~~~~~ 1900 | is_packed, Context, | ~~~~~~~~~~~~~~~~~~~ 1901 | detail::mapped_type_constant, Context>::value>( | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^ 1902 | FMT_FORWARD(args))...} { | ~~~~~~~~~~~~~~~~~~ /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc/spdlog/fmt/bundled/core.h:1918:31: required from 'std::string fmt::v9::format(format_string, T&& ...) [with T = {std::__cxx11::basic_string, std::allocator >&, int&}; std::string = std::__cxx11::basic_string; format_string = basic_format_string, std::allocator >&, int&>]' 1918 | return {FMT_FORWARD(args)...}; | ^ /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/sharq/fastq_error.hpp:115:36: required from here 115 | mMessage += fmt::format(" [{}:{}]", fname, line_number); | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc/spdlog/fmt/bundled/core.h:3206:44: in 'constexpr' expansion of 'fmt::v9::make_format_args<>(args#0, args#1)' /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc/spdlog/fmt/bundled/core.h:1735:15: warning: possibly dangling reference to a temporary [-Wdangling-reference] 1735 | const auto& arg = arg_mapper().map(FMT_FORWARD(val)); | ^~~ /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc/spdlog/fmt/bundled/core.h:1735:46: note: the temporary was destroyed at the end of the full expression 'fmt::v9::detail::arg_mapper >().fmt::v9::detail::arg_mapper >::map >((*(const std::__cxx11::basic_string*)(& val)))' 1735 | const auto& arg = arg_mapper().map(FMT_FORWARD(val)); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'test/external/ngs-pileup/CMakeFiles/Build-ngs-pileup.dir/build'. make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc/spdlog/fmt/bundled/core.h: In instantiation of 'constexpr fmt::v9::detail::value fmt::v9::detail::make_value(T&&) [with Context = fmt::v9::basic_format_context; T = const std::__cxx11::basic_string&]': /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc/spdlog/fmt/bundled/core.h:1777:29: required from 'constexpr fmt::v9::detail::value fmt::v9::detail::make_arg(T&&) [with bool IS_PACKED = true; Context = fmt::v9::basic_format_context; type = fmt::v9::detail::type::string_type; T = const std::__cxx11::basic_string&; typename std::enable_if::type = 0]' 1777 | return make_value(val); | ~~~~~~~~~~~~~~~~~~~^~~~~ /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc/spdlog/fmt/bundled/core.h:1901:77: required from 'constexpr fmt::v9::format_arg_store::format_arg_store(T&& ...) [with T = {const std::__cxx11::basic_string, std::allocator >&}; Context = fmt::v9::basic_format_context; Args = {std::__cxx11::basic_string, std::allocator >}]' 1899 | data_{detail::make_arg< | ~~~~~~~~~~~~~~~~~ 1900 | is_packed, Context, | ~~~~~~~~~~~~~~~~~~~ 1901 | detail::mapped_type_constant, Context>::value>( | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^ 1902 | FMT_FORWARD(args))...} { | ~~~~~~~~~~~~~~~~~~ /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc/spdlog/fmt/bundled/core.h:1918:31: required from 'std::string fmt::v9::format(format_string, T&& ...) [with T = {const std::__cxx11::basic_string, std::allocator >&}; std::string = std::__cxx11::basic_string; format_string = basic_format_string, std::allocator >&>]' 1918 | return {FMT_FORWARD(args)...}; | ^ /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/sharq/fastq_error.hpp:131:30: required from here 131 | os << fmt::format("{:<70}", std::get<1>(it.second)); | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc/spdlog/fmt/bundled/core.h:3206:44: in 'constexpr' expansion of 'fmt::v9::make_format_args<>(args#0)' /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc/spdlog/fmt/bundled/core.h:1735:15: warning: possibly dangling reference to a temporary [-Wdangling-reference] 1735 | const auto& arg = arg_mapper().map(FMT_FORWARD(val)); | ^~~ /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc/spdlog/fmt/bundled/core.h:1735:46: note: the temporary was destroyed at the end of the full expression 'fmt::v9::detail::arg_mapper >().fmt::v9::detail::arg_mapper >::map >((* & val))' 1735 | const auto& arg = arg_mapper().map(FMT_FORWARD(val)); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ [ 95%] Building CXX object tools/external/sra-search/test/CMakeFiles/Test_SraSearchSlow.dir/__/blobmatchiterator.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/sra-search/test/.. -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT tools/external/sra-search/test/CMakeFiles/Test_SraSearchSlow.dir/__/blobmatchiterator.cpp.o -MF CMakeFiles/Test_SraSearchSlow.dir/__/blobmatchiterator.cpp.o.d -o CMakeFiles/Test_SraSearchSlow.dir/__/blobmatchiterator.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/sra-search/blobmatchiterator.cpp [ 95%] Built target Build-ngs-pileup make -f test/external/prefetch/CMakeFiles/Build-prefetch.dir/build.make test/external/prefetch/CMakeFiles/Build-prefetch.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/prefetch /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/external/prefetch /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/external/prefetch/CMakeFiles/Build-prefetch.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f test/external/prefetch/CMakeFiles/Build-prefetch.dir/build.make test/external/prefetch/CMakeFiles/Build-prefetch.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'test/external/prefetch/CMakeFiles/Build-prefetch.dir/build'. make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 95%] Built target Build-prefetch make -f test/external/vdb-config/CMakeFiles/Build-vdb-config.dir/build.make test/external/vdb-config/CMakeFiles/Build-vdb-config.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/vdb-config /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/external/vdb-config /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/external/vdb-config/CMakeFiles/Build-vdb-config.dir/DependInfo.cmake "--color=" /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/SlowTest_Align_estimator.dir/link.d CMakeFiles/SlowTest_Align_estimator.dir/pileup_estimator.cpp.o -o ../../../test-bin/SlowTest_Align_estimator ../../../lib/libncbi-ngs-c++.a ../../../lib/libngs-c++.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libktst.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -lmbedx509 -lmbedtls -lmbedcrypto ../../../ilib/libngs.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -lmbedx509 -lmbedtls -lmbedcrypto make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f test/external/vdb-config/CMakeFiles/Build-vdb-config.dir/build.make test/external/vdb-config/CMakeFiles/Build-vdb-config.dir/build [ 95%] Built target SlowTest_Align_estimator make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'test/external/vdb-config/CMakeFiles/Build-vdb-config.dir/build'. make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 95%] Built target Build-vdb-config make -f test/external/vdb-validate/CMakeFiles/Build-vdb-validate.dir/build.make test/external/vdb-validate/CMakeFiles/Build-vdb-validate.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/vdb-validate /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/external/vdb-validate /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/external/vdb-validate/CMakeFiles/Build-vdb-validate.dir/DependInfo.cmake "--color=" [ 95%] Building CXX object tools/external/sra-search/CMakeFiles/sra-search.dir/fragmentmatchiterator.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-search\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT tools/external/sra-search/CMakeFiles/sra-search.dir/fragmentmatchiterator.cpp.o -MF CMakeFiles/sra-search.dir/fragmentmatchiterator.cpp.o.d -o CMakeFiles/sra-search.dir/fragmentmatchiterator.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/sra-search/fragmentmatchiterator.cpp [ 95%] Building CXX object tools/external/sra-search/CMakeFiles/sra-search.dir/blobmatchiterator.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-search\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT tools/external/sra-search/CMakeFiles/sra-search.dir/blobmatchiterator.cpp.o -MF CMakeFiles/sra-search.dir/blobmatchiterator.cpp.o.d -o CMakeFiles/sra-search.dir/blobmatchiterator.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/sra-search/blobmatchiterator.cpp make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f test/external/vdb-validate/CMakeFiles/Build-vdb-validate.dir/build.make test/external/vdb-validate/CMakeFiles/Build-vdb-validate.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'test/external/vdb-validate/CMakeFiles/Build-vdb-validate.dir/build'. make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/var-expand.dir/link.d "CMakeFiles/var-expand.dir/common.cpp.o" "CMakeFiles/var-expand.dir/helper.cpp.o" "CMakeFiles/var-expand.dir/var-expand.cpp.o" -o ../../../bin/var-expand ../../../ilib/libtk-version.a -lkapp ../../../ilib/libngs-vdb.a ../../../lib/libncbi-ngs.a ../../../ilib/libloader.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -lmbedx509 -lmbedtls -lmbedcrypto /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a ../../../ilib/libksrch.a cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && rm -f var-expand.3.2.1 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && mv var-expand var-expand.3.2.1 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s var-expand.3.2.1 var-expand.3 [ 95%] Built target Build-vdb-validate make -f test/loaders/kar/CMakeFiles/Build-kar.dir/build.make test/loaders/kar/CMakeFiles/Build-kar.dir/depend cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s var-expand.3 var-expand make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/kar /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/loaders/kar /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/loaders/kar/CMakeFiles/Build-kar.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 95%] Built target var-expand make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f test/loaders/kar/CMakeFiles/Build-kar.dir/build.make test/loaders/kar/CMakeFiles/Build-kar.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'test/loaders/kar/CMakeFiles/Build-kar.dir/build'. make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 95%] Built target Build-kar make -f tools/loaders/general-loader/test/CMakeFiles/Build-general-loader.dir/build.make tools/loaders/general-loader/test/CMakeFiles/Build-general-loader.dir/depend [ 95%] Building CXX object tools/external/sra-search/test/CMakeFiles/Test_SraSearch.dir/__/vdb-search.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/sra-search/test/.. -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT tools/external/sra-search/test/CMakeFiles/Test_SraSearch.dir/__/vdb-search.cpp.o -MF CMakeFiles/Test_SraSearch.dir/__/vdb-search.cpp.o.d -o CMakeFiles/Test_SraSearch.dir/__/vdb-search.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/sra-search/vdb-search.cpp make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader/test /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader/test/CMakeFiles/Build-general-loader.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f tools/loaders/general-loader/test/CMakeFiles/Build-general-loader.dir/build.make tools/loaders/general-loader/test/CMakeFiles/Build-general-loader.dir/build /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/internal/dump_ref_fasta/DumpReferenceFASTA.cpp: In static member function 'static void DumpReferenceFASTA::process(const ngs::Reference&, const Range&)': /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/internal/dump_ref_fasta/DumpReferenceFASTA.cpp:184:30: warning: catching polymorphic type 'class ngs::ErrorMsg' by value [-Wcatch-value=] 184 | catch ( ErrorMsg x ) | ^ make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'tools/loaders/general-loader/test/CMakeFiles/Build-general-loader.dir/build'. make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 95%] Built target Build-general-loader [ 95%] Building CXX object tools/loaders/general-loader/test/CMakeFiles/test-general-loader.dir/testsource.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test/.. -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT tools/loaders/general-loader/test/CMakeFiles/test-general-loader.dir/testsource.cpp.o -MF CMakeFiles/test-general-loader.dir/testsource.cpp.o.d -o CMakeFiles/test-general-loader.dir/testsource.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test/testsource.cpp [ 95%] Linking CXX executable ../../../test-bin/Test_Ngs_Pileup cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/external/ngs-pileup && /usr/bin/cmake -E cmake_link_script CMakeFiles/Test_Ngs_Pileup.dir/link.txt --verbose=1 [ 96%] Linking CXX executable ../../../bin/compute-coverage-ngs cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/internal/compute-coverage && /usr/bin/cmake -E cmake_link_script CMakeFiles/compute-coverage-ngs.dir/link.txt --verbose=1 [ 96%] Linking CXX executable ../../../../test-bin/testy-the-bear cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/external/ngs/testy-the-bear && /usr/bin/cmake -E cmake_link_script CMakeFiles/testy-the-bear.dir/link.txt --verbose=1 [ 96%] Building CXX object tools/external/sra-search/test/CMakeFiles/Test_SraSearchSlow.dir/__/fragmentmatchiterator.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/sra-search/test/.. -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT tools/external/sra-search/test/CMakeFiles/Test_SraSearchSlow.dir/__/fragmentmatchiterator.cpp.o -MF CMakeFiles/Test_SraSearchSlow.dir/__/fragmentmatchiterator.cpp.o.d -o CMakeFiles/Test_SraSearchSlow.dir/__/fragmentmatchiterator.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/sra-search/fragmentmatchiterator.cpp /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/compute-coverage-ngs.dir/link.d "CMakeFiles/compute-coverage-ngs.dir/compute-coverage-ngs.cpp.o" -o ../../../bin/compute-coverage-ngs ../../../lib/libncbi-ngs.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -lmbedx509 -lmbedtls -lmbedcrypto /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a [ 96%] Linking CXX executable ../../../test-bin/Test_FastqLoader_WbFastqParse cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && rm -f compute-coverage-ngs.3.2.1 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && mv compute-coverage-ngs compute-coverage-ngs.3.2.1 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/loaders/fastq-loader && /usr/bin/cmake -E cmake_link_script CMakeFiles/Test_FastqLoader_WbFastqParse.dir/link.txt --verbose=1 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s compute-coverage-ngs.3.2.1 compute-coverage-ngs.3 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s compute-coverage-ngs.3 compute-coverage-ngs make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/Test_Ngs_Pileup.dir/link.d "CMakeFiles/Test_Ngs_Pileup.dir/test-ngs-pileup.cpp.o" -o ../../../test-bin/Test_Ngs_Pileup ../../../lib/libncbi-ngs-c++.a ../../../lib/libngs-c++.a ../../../ilib/libngs.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libktst.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -lmbedx509 -lmbedtls -lmbedcrypto make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 96%] Linking CXX executable ../../../bin/dump-ref-fasta cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/internal/dump_ref_fasta && /usr/bin/cmake -E cmake_link_script CMakeFiles/dump-ref-fasta.dir/link.txt --verbose=1 [ 96%] Built target Test_Ngs_Pileup [ 96%] Built target compute-coverage-ngs [ 96%] Building CXX object tools/external/sra-search/CMakeFiles/sra-search.dir/referencematchiterator.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-search\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT tools/external/sra-search/CMakeFiles/sra-search.dir/referencematchiterator.cpp.o -MF CMakeFiles/sra-search.dir/referencematchiterator.cpp.o.d -o CMakeFiles/sra-search.dir/referencematchiterator.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/sra-search/referencematchiterator.cpp [ 96%] Building CXX object tools/external/sra-search/CMakeFiles/sra-search.dir/vdb-search.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-search\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT tools/external/sra-search/CMakeFiles/sra-search.dir/vdb-search.cpp.o -MF CMakeFiles/sra-search.dir/vdb-search.cpp.o.d -o CMakeFiles/sra-search.dir/vdb-search.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/sra-search/vdb-search.cpp /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/testy-the-bear.dir/link.d "CMakeFiles/testy-the-bear.dir/testy-the-bear.cpp.o" -o ../../../../test-bin/testy-the-bear /usr/lib/x86_64-linux-gnu/libkapp.a ../../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libktst.a ../../../../lib/libncbi-ngs-c++.a ../../../../lib/libncbi-ngs.a ../../../../ilib/libngs.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -lmbedx509 -lmbedtls -lmbedcrypto make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 96%] Built target testy-the-bear [ 96%] Building CXX object tools/external/sra-search/test/CMakeFiles/Test_SraSearchSlow.dir/__/referencematchiterator.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/sra-search/test/.. -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT tools/external/sra-search/test/CMakeFiles/Test_SraSearchSlow.dir/__/referencematchiterator.cpp.o -MF CMakeFiles/Test_SraSearchSlow.dir/__/referencematchiterator.cpp.o.d -o CMakeFiles/Test_SraSearchSlow.dir/__/referencematchiterator.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/sra-search/referencematchiterator.cpp [ 96%] Building CXX object tools/external/sra-search/test/CMakeFiles/Test_SraSearch.dir/__/searchblock.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/sra-search/test/.. -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT tools/external/sra-search/test/CMakeFiles/Test_SraSearch.dir/__/searchblock.cpp.o -MF CMakeFiles/Test_SraSearch.dir/__/searchblock.cpp.o.d -o CMakeFiles/Test_SraSearch.dir/__/searchblock.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/sra-search/searchblock.cpp [ 96%] Building CXX object tools/external/sra-search/test/CMakeFiles/Test_SraSearch.dir/__/blobmatchiterator.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/sra-search/test/.. -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT tools/external/sra-search/test/CMakeFiles/Test_SraSearch.dir/__/blobmatchiterator.cpp.o -MF CMakeFiles/Test_SraSearch.dir/__/blobmatchiterator.cpp.o.d -o CMakeFiles/Test_SraSearch.dir/__/blobmatchiterator.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/sra-search/blobmatchiterator.cpp [ 96%] Building CXX object tools/external/sra-search/test/CMakeFiles/Test_SraSearch.dir/__/fragmentmatchiterator.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/sra-search/test/.. -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT tools/external/sra-search/test/CMakeFiles/Test_SraSearch.dir/__/fragmentmatchiterator.cpp.o -MF CMakeFiles/Test_SraSearch.dir/__/fragmentmatchiterator.cpp.o.d -o CMakeFiles/Test_SraSearch.dir/__/fragmentmatchiterator.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/sra-search/fragmentmatchiterator.cpp /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/dump-ref-fasta.dir/link.d "CMakeFiles/dump-ref-fasta.dir/DumpReferenceFASTA.cpp.o" -o ../../../bin/dump-ref-fasta ../../../lib/libncbi-ngs.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -lmbedx509 -lmbedtls -lmbedcrypto /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && rm -f dump-ref-fasta.3.2.1 /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/Test_FastqLoader_WbFastqParse.dir/link.d "CMakeFiles/Test_FastqLoader_WbFastqParse.dir/wb-test-fastq-parse.cpp.o" -o ../../../test-bin/Test_FastqLoader_WbFastqParse ../../../ilib/libfastqloader.a ../../../ilib/libloader.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libktst.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -lmbedx509 -lmbedtls -lmbedcrypto cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && mv dump-ref-fasta dump-ref-fasta.3.2.1 make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s dump-ref-fasta.3.2.1 dump-ref-fasta.3 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s dump-ref-fasta.3 dump-ref-fasta make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 96%] Built target Test_FastqLoader_WbFastqParse [ 96%] Built target dump-ref-fasta In file included from /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/bam-loader/loader-imp.c:113: /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/bam-loader/hashing.hpp:214:7: warning: 'sha1_filter' has a base 'sha_filter' which has internal linkage [-Wsubobject-linkage] 214 | class sha1_filter : public sha_filter | ^~~~~~~~~~~ [ 96%] Building CXX object tools/external/sra-search/test/CMakeFiles/Test_SraSearch.dir/__/referencematchiterator.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/sra-search/test/.. -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT tools/external/sra-search/test/CMakeFiles/Test_SraSearch.dir/__/referencematchiterator.cpp.o -MF CMakeFiles/Test_SraSearch.dir/__/referencematchiterator.cpp.o.d -o CMakeFiles/Test_SraSearch.dir/__/referencematchiterator.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/sra-search/referencematchiterator.cpp /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/bam-loader/hashing.hpp:218:7: warning: 'sha224_filter' has a base 'sha_filter' which has internal linkage [-Wsubobject-linkage] 218 | class sha224_filter : public sha_filter | ^~~~~~~~~~~~~ /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/bam-loader/hashing.hpp:222:7: warning: 'sha256_filter' has a base 'sha_filter' which has internal linkage [-Wsubobject-linkage] 222 | class sha256_filter : public sha_filter | ^~~~~~~~~~~~~ /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test/testsource.cpp: In constructor 'TestSource::Buffer::Buffer(const std::string&, uint32_t, uint32_t, bool)': /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test/testsource.cpp:47:13: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' specified bound 8 equals destination size [-Wstringop-truncation] 47 | strncpy ( m_header . dad . signature, p_signature . c_str(), sizeof m_header . dad . signature ); | ^ [ 96%] Linking CXX executable ../../../test-bin/Test_FastqLoader_WbFastqLoader cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/loaders/fastq-loader && /usr/bin/cmake -E cmake_link_script CMakeFiles/Test_FastqLoader_WbFastqLoader.dir/link.txt --verbose=1 [ 96%] Linking CXX executable ../../../../test-bin/Test_SraSearch_SearchBlock cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/Test_SraSearch_SearchBlock.dir/link.txt --verbose=1 /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/Test_FastqLoader_WbFastqLoader.dir/link.d "CMakeFiles/Test_FastqLoader_WbFastqLoader.dir/test-fastq-loader.cpp.o" -o ../../../test-bin/Test_FastqLoader_WbFastqLoader ../../../ilib/libfastqloader.a ../../../ilib/libloader.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libktst.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm -lmbedx509 -lmbedtls -lmbedcrypto make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 96%] Built target Test_FastqLoader_WbFastqLoader /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/Test_SraSearch_SearchBlock.dir/link.d "CMakeFiles/Test_SraSearch_SearchBlock.dir/test-searchblock.cpp.o" CMakeFiles/Test_SraSearch_SearchBlock.dir/__/searchblock.cpp.o -o ../../../../test-bin/Test_SraSearch_SearchBlock ../../../../ilib/libngs-vdb.a ../../../../lib/libncbi-ngs.a -Wl,-Bstatic -lktst -Wl,-Bdynamic /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -lmbedx509 -lmbedtls -lmbedcrypto /usr/lib/x86_64-linux-gnu/libkapp.a ../../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -lmbedx509 -lmbedtls -lmbedcrypto -lncbi-vdb ../../../../ilib/libksrch.a /usr/lib/x86_64-linux-gnu/libkapp.a -lncbi-vdb make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 96%] Built target Test_SraSearch_SearchBlock [ 96%] Linking CXX executable ../../../bin/pileup-stats cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/test-tools/pileup-stats && /usr/bin/cmake -E cmake_link_script CMakeFiles/pileup-stats.dir/link.txt --verbose=1 [ 96%] Linking CXX executable ../../../bin/rnd2sra cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/test-tools/rnd2sra && /usr/bin/cmake -E cmake_link_script CMakeFiles/rnd2sra.dir/link.txt --verbose=1 /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/pileup-stats.dir/link.d "CMakeFiles/pileup-stats.dir/pileup-stats.cpp.o" -o ../../../bin/pileup-stats ../../../ilib/libgeneral-writer.a ../../../lib/libncbi-ngs.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm -lmbedx509 -lmbedtls -lmbedcrypto cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && rm -f pileup-stats.3.2.1 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && mv pileup-stats pileup-stats.3.2.1 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s pileup-stats.3.2.1 pileup-stats.3 In file included from /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc/spdlog/fmt/fmt.h:27, from /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/bam-loader/loader-imp.c:100: /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc/spdlog/fmt/bundled/core.h: In instantiation of 'constexpr fmt::v9::detail::value fmt::v9::detail::make_value(T&&) [with Context = fmt::v9::basic_format_context; T = fmt::v9::basic_string_view&]': /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc/spdlog/fmt/bundled/core.h:1777:29: required from 'constexpr fmt::v9::detail::value fmt::v9::detail::make_arg(T&&) [with bool IS_PACKED = true; Context = fmt::v9::basic_format_context; type = fmt::v9::detail::type::string_type; T = fmt::v9::basic_string_view&; typename std::enable_if::type = 0]' 1777 | return make_value(val); | ~~~~~~~~~~~~~~~~~~~^~~~~ /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc/spdlog/fmt/bundled/core.h:1901:77: required from 'constexpr fmt::v9::format_arg_store::format_arg_store(T&& ...) [with T = {fmt::v9::basic_string_view&, const char (&)[3]}; Context = fmt::v9::basic_format_context; Args = {fmt::v9::basic_string_view, char [3]}]' 1899 | data_{detail::make_arg< | ~~~~~~~~~~~~~~~~~ 1900 | is_packed, Context, | ~~~~~~~~~~~~~~~~~~~ 1901 | detail::mapped_type_constant, Context>::value>( | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^ 1902 | FMT_FORWARD(args))...} { | ~~~~~~~~~~~~~~~~~~ /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc/spdlog/fmt/bundled/core.h:1918:31: required from 'OutputIt fmt::v9::format_to(OutputIt, format_string, T&& ...) [with OutputIt = appender; T = {basic_string_view&, const char (&)[3]}; typename std::enable_if::value, int>::type = 0; format_string = basic_format_string&, const char (&)[3]>]' 1918 | return {FMT_FORWARD(args)...}; | ^ /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc/spdlog/fmt/bundled/format-inl.h:65:14: required from here 65 | format_to(it, FMT_STRING("{}{}"), message, SEP); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc/spdlog/fmt/bundled/core.h:3235:52: in 'constexpr' expansion of 'fmt::v9::make_format_args<>(args#0, args#1)' /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc/spdlog/fmt/bundled/core.h:1735:15: warning: possibly dangling reference to a temporary [-Wdangling-reference] 1735 | const auto& arg = arg_mapper().map(FMT_FORWARD(val)); | ^~~ /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc/spdlog/fmt/bundled/core.h:1735:46: note: the temporary was destroyed at the end of the full expression 'fmt::v9::detail::arg_mapper >().fmt::v9::detail::arg_mapper >::map >((*(const fmt::v9::basic_string_view*)(& val)))' 1735 | const auto& arg = arg_mapper().map(FMT_FORWARD(val)); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s pileup-stats.3 pileup-stats make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 96%] Built target pileup-stats /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/rnd2sra.dir/link.d CMakeFiles/rnd2sra.dir/src/rnd2sra.cpp.o -o ../../../bin/rnd2sra /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm -lmbedx509 -lmbedtls -lmbedcrypto -lstdc++fs make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 96%] Built target rnd2sra [ 96%] Linking CXX executable ../../../test-bin/test-byteblob cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-byteblob.dir/link.txt --verbose=1 [ 96%] Linking CXX executable ../../../bin/ref-variation cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/ref-variation && /usr/bin/cmake -E cmake_link_script CMakeFiles/ref-variation.dir/link.txt --verbose=1 /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/test-byteblob.dir/link.d "CMakeFiles/test-byteblob.dir/ngstest_byteblob.cpp.o" -o ../../../test-bin/test-byteblob -Wl,-Bstatic -lktst -lkapp ../../../lib/libncbi-ngs.a -Wl,-Bdynamic /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -lmbedx509 -lmbedtls -lmbedcrypto /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 96%] Built target test-byteblob [ 96%] Linking CXX executable ../../../bin/sra-search cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search && /usr/bin/cmake -E cmake_link_script CMakeFiles/sra-search.dir/link.txt --verbose=1 /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/ref-variation.dir/link.d "CMakeFiles/ref-variation.dir/common.cpp.o" "CMakeFiles/ref-variation.dir/helper.cpp.o" "CMakeFiles/ref-variation.dir/ref-variation.cpp.o" -o ../../../bin/ref-variation ../../../ilib/libtk-version.a -lkapp ../../../ilib/libngs-vdb.a ../../../lib/libncbi-ngs.a ../../../ilib/libloader.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -lmbedx509 -lmbedtls -lmbedcrypto /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a ../../../ilib/libksrch.a cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && rm -f ref-variation.3.2.1 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && mv ref-variation ref-variation.3.2.1 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s ref-variation.3.2.1 ref-variation.3 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s ref-variation.3 ref-variation make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 96%] Built target ref-variation /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/sra-search.dir/link.d "CMakeFiles/sra-search.dir/main.cpp.o" "CMakeFiles/sra-search.dir/searchblock.cpp.o" "CMakeFiles/sra-search.dir/fragmentmatchiterator.cpp.o" "CMakeFiles/sra-search.dir/blobmatchiterator.cpp.o" "CMakeFiles/sra-search.dir/referencematchiterator.cpp.o" "CMakeFiles/sra-search.dir/vdb-search.cpp.o" -o ../../../bin/sra-search ../../../ilib/libngs-vdb.a ../../../lib/libncbi-ngs.a ../../../ilib/libtk-version.a -Wl,-Bstatic -lkapp -Wl,-Bdynamic /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -lmbedx509 -lmbedtls -lmbedcrypto /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a ../../../ilib/libksrch.a cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && rm -f sra-search.3.2.1 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && mv sra-search sra-search.3.2.1 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sra-search.3.2.1 sra-search.3 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sra-search.3 sra-search make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 96%] Built target sra-search make -f tools/external/sra-search/test/CMakeFiles/Build-sra-search.dir/build.make tools/external/sra-search/test/CMakeFiles/Build-sra-search.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/sra-search/test /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test/CMakeFiles/Build-sra-search.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f tools/external/sra-search/test/CMakeFiles/Build-sra-search.dir/build.make tools/external/sra-search/test/CMakeFiles/Build-sra-search.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'tools/external/sra-search/test/CMakeFiles/Build-sra-search.dir/build'. make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 96%] Built target Build-sra-search [ 96%] Linking CXX executable ../../../test-bin/test-fragmentblob cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-fragmentblob.dir/link.txt --verbose=1 /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/test-fragmentblob.dir/link.d "CMakeFiles/test-fragmentblob.dir/ngstest_fragmentblob.cpp.o" -o ../../../test-bin/test-fragmentblob -Wl,-Bstatic -lktst -lkapp ../../../lib/libncbi-ngs.a -Wl,-Bdynamic /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -lmbedx509 -lmbedtls -lmbedcrypto /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 96%] Built target test-fragmentblob [ 96%] Linking CXX executable ../../../../test-bin/Test_SraSearchSlow cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/Test_SraSearchSlow.dir/link.txt --verbose=1 /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/Test_SraSearchSlow.dir/link.d "CMakeFiles/Test_SraSearchSlow.dir/test-sra-search-slow.cpp.o" "CMakeFiles/Test_SraSearchSlow.dir/__/vdb-search.cpp.o" CMakeFiles/Test_SraSearchSlow.dir/__/searchblock.cpp.o CMakeFiles/Test_SraSearchSlow.dir/__/blobmatchiterator.cpp.o CMakeFiles/Test_SraSearchSlow.dir/__/fragmentmatchiterator.cpp.o CMakeFiles/Test_SraSearchSlow.dir/__/referencematchiterator.cpp.o -o ../../../../test-bin/Test_SraSearchSlow ../../../../ilib/libngs-vdb.a ../../../../lib/libncbi-ngs.a -Wl,-Bstatic -lktst -Wl,-Bdynamic /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -lmbedx509 -lmbedtls -lmbedcrypto /usr/lib/x86_64-linux-gnu/libkapp.a ../../../../ilib/libtk-version.a ../../../../ilib/libksrch.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 96%] Built target Test_SraSearchSlow [ 96%] Linking CXX executable ../../../test-bin/test-ngs_csra1pileup++ cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-ngs_csra1pileup++.dir/link.txt --verbose=1 [ 97%] Linking CXX executable ../../../../test-bin/Test_SraSearch cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/Test_SraSearch.dir/link.txt --verbose=1 /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/test-ngs_csra1pileup++.dir/link.d "CMakeFiles/test-ngs_csra1pileup++.dir/CSRA1PileupTest.cpp.o" -o ../../../test-bin/test-ngs_csra1pileup++ -Wl,-Bstatic -lktst -lkapp ../../../lib/libncbi-ngs.a -Wl,-Bdynamic /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -lmbedx509 -lmbedtls -lmbedcrypto /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 97%] Built target test-ngs_csra1pileup++ [ 97%] Linking CXX executable ../../../test-bin/test-ngs_csra1_pileup cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-ngs_csra1_pileup.dir/link.txt --verbose=1 /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/Test_SraSearch.dir/link.d "CMakeFiles/Test_SraSearch.dir/test-sra-search.cpp.o" "CMakeFiles/Test_SraSearch.dir/__/vdb-search.cpp.o" CMakeFiles/Test_SraSearch.dir/__/searchblock.cpp.o CMakeFiles/Test_SraSearch.dir/__/blobmatchiterator.cpp.o CMakeFiles/Test_SraSearch.dir/__/fragmentmatchiterator.cpp.o CMakeFiles/Test_SraSearch.dir/__/referencematchiterator.cpp.o -o ../../../../test-bin/Test_SraSearch ../../../../ilib/libngs-vdb.a ../../../../lib/libncbi-ngs.a -Wl,-Bstatic -lktst -Wl,-Bdynamic /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -lmbedx509 -lmbedtls -lmbedcrypto /usr/lib/x86_64-linux-gnu/libkapp.a ../../../../ilib/libtk-version.a ../../../../ilib/libksrch.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 97%] Built target Test_SraSearch [ 97%] Linking CXX executable ../../../test-bin/test-ngs_csra1_refwin cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-ngs_csra1_refwin.dir/link.txt --verbose=1 /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/test-ngs_csra1_pileup.dir/link.d "CMakeFiles/test-ngs_csra1_pileup.dir/ngstest_csra1_pileup.cpp.o" -o ../../../test-bin/test-ngs_csra1_pileup -Wl,-Bstatic -lktst -lkapp ../../../lib/libncbi-ngs.a -Wl,-Bdynamic /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -lmbedx509 -lmbedtls -lmbedcrypto /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 97%] Built target test-ngs_csra1_pileup /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/test-ngs_csra1_refwin.dir/link.d "CMakeFiles/test-ngs_csra1_refwin.dir/ngstest_csra1_refwin.cpp.o" -o ../../../test-bin/test-ngs_csra1_refwin -Wl,-Bstatic -lktst -lkapp ../../../lib/libncbi-ngs.a -Wl,-Bdynamic /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -lmbedx509 -lmbedtls -lmbedcrypto /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 97%] Built target test-ngs_csra1_refwin [ 97%] Linking CXX executable ../../../test-bin/test-ngs-vdb cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-ngs-vdb.dir/link.txt --verbose=1 /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/test-ngs-vdb.dir/link.d "CMakeFiles/test-ngs-vdb.dir/test-ngs-vdb.cpp.o" -o ../../../test-bin/test-ngs-vdb ../../../ilib/libtk-version.a ../../../ilib/libngs-vdb.a -Wl,-Bstatic -lktst -lkapp ../../../lib/libncbi-ngs.a -Wl,-Bdynamic /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -lmbedx509 -lmbedtls -lmbedcrypto /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 97%] Built target test-ngs-vdb [ 97%] Linking CXX executable ../../../test-bin/test-ngs_sra_c++ cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-ngs_sra_c++.dir/link.txt --verbose=1 /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc/spdlog/fmt/bundled/core.h: In instantiation of 'constexpr fmt::v9::detail::value fmt::v9::detail::make_value(T&&) [with Context = fmt::v9::basic_format_context; T = const std::__cxx11::basic_string&]': /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc/spdlog/fmt/bundled/core.h:1777:29: required from 'constexpr fmt::v9::detail::value fmt::v9::detail::make_arg(T&&) [with bool IS_PACKED = true; Context = fmt::v9::basic_format_context; type = fmt::v9::detail::type::string_type; T = const std::__cxx11::basic_string&; typename std::enable_if::type = 0]' 1777 | return make_value(val); | ~~~~~~~~~~~~~~~~~~~^~~~~ /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc/spdlog/fmt/bundled/core.h:1901:77: required from 'constexpr fmt::v9::format_arg_store::format_arg_store(T&& ...) [with T = {const std::__cxx11::basic_string, std::allocator >&, spdlog::stopwatch&, long unsigned int&}; Context = fmt::v9::basic_format_context; Args = {std::__cxx11::basic_string, std::allocator >, spdlog::stopwatch, long unsigned int}]' 1899 | data_{detail::make_arg< | ~~~~~~~~~~~~~~~~~ 1900 | is_packed, Context, | ~~~~~~~~~~~~~~~~~~~ 1901 | detail::mapped_type_constant, Context>::value>( | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^ 1902 | FMT_FORWARD(args))...} { | ~~~~~~~~~~~~~~~~~~ /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc/spdlog/fmt/bundled/core.h:1918:31: required from 'void spdlog::logger::log_(spdlog::source_loc, spdlog::level::level_enum, spdlog::string_view_t, Args&& ...) [with Args = {const std::__cxx11::basic_string, std::allocator >&, spdlog::stopwatch&, long unsigned int}; spdlog::string_view_t = fmt::v9::basic_string_view]' 1918 | return {FMT_FORWARD(args)...}; | ^ /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc/spdlog/logger.h:90:13: required from 'void spdlog::logger::log(spdlog::source_loc, spdlog::level::level_enum, fmt::v9::format_string, Args&& ...) [with Args = {const std::__cxx11::basic_string, std::allocator >&, spdlog::stopwatch&, long unsigned int}; fmt::v9::format_string = fmt::v9::basic_format_string, std::allocator >&, spdlog::stopwatch&, long unsigned int>]' 90 | log_(loc, lvl, details::to_string_view(fmt), std::forward(args)...); | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc/spdlog/logger.h:96:12: required from 'void spdlog::logger::log(spdlog::level::level_enum, fmt::v9::format_string, Args&& ...) [with Args = {const std::__cxx11::basic_string, std::allocator >&, spdlog::stopwatch&, long unsigned int}; fmt::v9::format_string = fmt::v9::basic_format_string, std::allocator >&, spdlog::stopwatch&, long unsigned int>]' 96 | log(source_loc{}, lvl, fmt, std::forward(args)...); | ~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc/spdlog/logger.h:158:12: required from 'void spdlog::logger::info(fmt::v9::format_string, Args&& ...) [with Args = {const std::__cxx11::basic_string, std::allocator >&, spdlog::stopwatch&, long unsigned int}; fmt::v9::format_string = fmt::v9::basic_format_string, std::allocator >&, spdlog::stopwatch&, long unsigned int>]' 158 | log(level::info, fmt, std::forward(args)...); | ~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc/spdlog/spdlog.h:170:31: required from 'void spdlog::info(fmt::v9::format_string, Args&& ...) [with Args = {const std::__cxx11::basic_string, std::allocator >&, stopwatch&, long unsigned int}; fmt::v9::format_string = fmt::v9::basic_format_string, std::allocator >&, stopwatch&, long unsigned int>]' 170 | default_logger_raw()->info(fmt, std::forward(args)...); | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/bam-loader/spot_assembly.hpp:406:21: required from here 406 | spdlog::info("{} Batch insert: {:.3}, {:L} reads", batch_idx, sw, new_batch.m_spot_map->size()); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc/spdlog/logger.h:374:75: in 'constexpr' expansion of 'fmt::v9::make_format_args<>(args#0, args#1, ((long unsigned int&)args#2))' /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc/spdlog/fmt/bundled/core.h:1735:15: warning: possibly dangling reference to a temporary [-Wdangling-reference] 1735 | const auto& arg = arg_mapper().map(FMT_FORWARD(val)); | ^~~ /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc/spdlog/fmt/bundled/core.h:1735:46: note: the temporary was destroyed at the end of the full expression 'fmt::v9::detail::arg_mapper >().fmt::v9::detail::arg_mapper >::map >((* & val))' 1735 | const auto& arg = arg_mapper().map(FMT_FORWARD(val)); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ [ 97%] Linking CXX executable ../../../test-bin/test-referenceblob cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-referenceblob.dir/link.txt --verbose=1 /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/test-ngs_sra_c++.dir/link.d "CMakeFiles/test-ngs_sra_c++.dir/SRAtest.cpp.o" -o ../../../test-bin/test-ngs_sra_c++ -Wl,-Bstatic -lktst -lkapp ../../../lib/libncbi-ngs.a -Wl,-Bdynamic /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -lmbedx509 -lmbedtls -lmbedcrypto /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 97%] Built target test-ngs_sra_c++ /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/test-referenceblob.dir/link.d "CMakeFiles/test-referenceblob.dir/ngstest_referenceblob.cpp.o" -o ../../../test-bin/test-referenceblob -Wl,-Bstatic -lktst -lkapp ../../../lib/libncbi-ngs.a -Wl,-Bdynamic /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -lmbedx509 -lmbedtls -lmbedcrypto /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 97%] Built target test-referenceblob [ 97%] Linking CXX executable ../../../test-bin/test-ngs_reference cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-ngs_reference.dir/link.txt --verbose=1 /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/vdb-sqlite/sqlite3.c: In function 'sqlite3SelectNew': /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/vdb-sqlite/sqlite3.c:115649:10: warning: function may return address of local variable [-Wreturn-local-addr] 115649 | return pNew; | ^~~~ /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/vdb-sqlite/sqlite3.c:115609:10: note: declared here 115609 | Select standin; | ^~~~~~~ /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/test-ngs_reference.dir/link.d "CMakeFiles/test-ngs_reference.dir/ngstest_reference.cpp.o" -o ../../../test-bin/test-ngs_reference -Wl,-Bstatic -lktst -lkapp ../../../lib/libncbi-ngs.a -Wl,-Bdynamic /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -lmbedx509 -lmbedtls -lmbedcrypto /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 97%] Built target test-ngs_reference [ 97%] Linking CXX executable ../../../test-bin/test-ngs_sradb_c++ cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-ngs_sradb_c++.dir/link.txt --verbose=1 /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/test-ngs_sradb_c++.dir/link.d "CMakeFiles/test-ngs_sradb_c++.dir/SRADBtest.cpp.o" -o ../../../test-bin/test-ngs_sradb_c++ -Wl,-Bstatic -lktst -lkapp ../../../lib/libncbi-ngs.a -Wl,-Bdynamic /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -lmbedx509 -lmbedtls -lmbedcrypto /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 97%] Built target test-ngs_sradb_c++ [ 98%] Linking CXX executable ../../../test-bin/test-ngs_csra1_readcollection cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-ngs_csra1_readcollection.dir/link.txt --verbose=1 [ 98%] Linking CXX executable ../../../test-bin/test-ngs_sradb cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-ngs_sradb.dir/link.txt --verbose=1 /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/test-ngs_sradb.dir/link.d "CMakeFiles/test-ngs_sradb.dir/ngstest_sradb.cpp.o" -o ../../../test-bin/test-ngs_sradb -Wl,-Bstatic -lktst -lkapp ../../../lib/libncbi-ngs.a -Wl,-Bdynamic /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -lmbedx509 -lmbedtls -lmbedcrypto /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 98%] Built target test-ngs_sradb /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/test-ngs_csra1_readcollection.dir/link.d "CMakeFiles/test-ngs_csra1_readcollection.dir/ngstest_csra1_readcollection.cpp.o" -o ../../../test-bin/test-ngs_csra1_readcollection -Wl,-Bstatic -lktst -lkapp ../../../lib/libncbi-ngs.a -Wl,-Bdynamic /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -lmbedx509 -lmbedtls -lmbedcrypto /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 98%] Built target test-ngs_csra1_readcollection [ 98%] Linking CXX executable ../../../test-bin/test-ngs_sra cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-ngs_sra.dir/link.txt --verbose=1 /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/test-ngs_sra.dir/link.d "CMakeFiles/test-ngs_sra.dir/ngstest_sra.cpp.o" -o ../../../test-bin/test-ngs_sra -Wl,-Bstatic -lktst -lkapp ../../../lib/libncbi-ngs.a -Wl,-Bdynamic /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -lmbedx509 -lmbedtls -lmbedcrypto /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 98%] Built target test-ngs_sra [ 98%] Linking CXX executable ../../../test-bin/Test_FastqLoader_WbFastq_dflt cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/loaders/fastq-loader && /usr/bin/cmake -E cmake_link_script CMakeFiles/Test_FastqLoader_WbFastq_dflt.dir/link.txt --verbose=1 /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/Test_FastqLoader_WbFastq_dflt.dir/link.d "CMakeFiles/Test_FastqLoader_WbFastq_dflt.dir/wb-test-fastq.cpp.o" -o ../../../test-bin/Test_FastqLoader_WbFastq_dflt ../../../ilib/libfastqloader.a ../../../ilib/libloader.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libktst.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -lmbedx509 -lmbedtls -lmbedcrypto make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 98%] Built target Test_FastqLoader_WbFastq_dflt /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/vdb-sqlite/sqlite3.c: In function 'sqlite3VdbeExpandSql': /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/vdb-sqlite/sqlite3.c:77729:10: warning: function may return address of local variable [-Wreturn-local-addr] 77729 | return sqlite3StrAccumFinish(&out); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/vdb-sqlite/sqlite3.c:77625:8: note: declared here 77625 | char zBase[100]; /* Initial working space */ | ^~~~~ /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/vdb-sqlite/sqlite3.c:77729:10: warning: function may return address of local variable [-Wreturn-local-addr] 77729 | return sqlite3StrAccumFinish(&out); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/vdb-sqlite/sqlite3.c:77625:8: note: declared here 77625 | char zBase[100]; /* Initial working space */ | ^~~~~ /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/vdb-sqlite/sqlite3.c:77625:8: note: declared here /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/vdb-sqlite/sqlite3.c:77625:8: note: declared here /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/vdb-sqlite/sqlite3.c:77625:8: note: declared here [ 98%] Linking CXX executable ../../../test-bin/test-ngs_csra1 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-ngs_csra1.dir/link.txt --verbose=1 /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/test-ngs_csra1.dir/link.d "CMakeFiles/test-ngs_csra1.dir/ngstest_csra1.cpp.o" -o ../../../test-bin/test-ngs_csra1 -Wl,-Bstatic -lktst -lkapp ../../../lib/libncbi-ngs.a -Wl,-Bdynamic /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -lmbedx509 -lmbedtls -lmbedcrypto /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 98%] Built target test-ngs_csra1 [ 98%] Linking CXX executable ../../../../test-bin/test-general-loader cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-general-loader.dir/link.txt --verbose=1 /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/test-general-loader.dir/link.d "CMakeFiles/test-general-loader.dir/test-general-loader.cpp.o" "CMakeFiles/test-general-loader.dir/testsource.cpp.o" -o ../../../../test-bin/test-general-loader ../../../../ilib/libgeneral-writer.a -lkapp -lktst ../../../../ilib/libloader.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm -lmbedx509 -lmbedtls -lmbedcrypto make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 98%] Built target test-general-loader [ 98%] Linking CXX executable ../../../test-bin/test-ngs_csra1_c++ cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-ngs_csra1_c++.dir/link.txt --verbose=1 /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/test-ngs_csra1_c++.dir/link.d "CMakeFiles/test-ngs_csra1_c++.dir/CSRA1test.cpp.o" -o ../../../test-bin/test-ngs_csra1_c++ -Wl,-Bstatic -lktst -lkapp ../../../lib/libncbi-ngs.a -Wl,-Bdynamic /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -lmbedx509 -lmbedtls -lmbedcrypto /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 98%] Built target test-ngs_csra1_c++ [ 98%] Linking C static library ../../ilib/libvdb-sqlite.a cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/libs/vdb-sqlite && /usr/bin/cmake -P CMakeFiles/vdb-sqlite.dir/cmake_clean_target.cmake cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/libs/vdb-sqlite && /usr/bin/cmake -E cmake_link_script CMakeFiles/vdb-sqlite.dir/link.txt --verbose=1 /usr/bin/ar qc ../../ilib/libvdb-sqlite.a "CMakeFiles/vdb-sqlite.dir/sqlite3.c.o" "CMakeFiles/vdb-sqlite.dir/sqlite3vdb.c.o" /usr/bin/ranlib ../../ilib/libvdb-sqlite.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 98%] Built target vdb-sqlite make -f tools/internal/vdb-sql/CMakeFiles/vdb-sql.dir/build.make tools/internal/vdb-sql/CMakeFiles/vdb-sql.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/internal/vdb-sql /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-sql /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-sql/CMakeFiles/vdb-sql.dir/DependInfo.cmake "--color=" make -f tools/internal/vdb-sql/CMakeFiles/fastconv.dir/build.make tools/internal/vdb-sql/CMakeFiles/fastconv.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/internal/vdb-sql /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-sql /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-sql/CMakeFiles/fastconv.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f tools/internal/vdb-sql/CMakeFiles/vdb-sql.dir/build.make tools/internal/vdb-sql/CMakeFiles/vdb-sql.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f tools/internal/vdb-sql/CMakeFiles/fastconv.dir/build.make tools/internal/vdb-sql/CMakeFiles/fastconv.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 98%] Building C object tools/internal/vdb-sql/CMakeFiles/vdb-sql.dir/vdb_shell.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-sql && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/internal/vdb-sql\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/vdb-sql/CMakeFiles/vdb-sql.dir/vdb_shell.c.o -MF CMakeFiles/vdb-sql.dir/vdb_shell.c.o.d -o CMakeFiles/vdb-sql.dir/vdb_shell.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/internal/vdb-sql/vdb_shell.c [ 98%] Building C object tools/internal/vdb-sql/CMakeFiles/fastconv.dir/fastconv.c.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-sql && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/internal/vdb-sql\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/vdb-sql/CMakeFiles/fastconv.dir/fastconv.c.o -MF CMakeFiles/fastconv.dir/fastconv.c.o.d -o CMakeFiles/fastconv.dir/fastconv.c.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/internal/vdb-sql/fastconv.c [ 98%] Linking CXX executable ../../../bin/fastconv cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-sql && /usr/bin/cmake -E cmake_link_script CMakeFiles/fastconv.dir/link.txt --verbose=1 /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/fastconv.dir/link.d CMakeFiles/fastconv.dir/fastconv.c.o -o ../../../bin/fastconv /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a ../../../ilib/libvdb-sqlite.a ../../../ilib/libngs.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -lmbedx509 -lmbedtls -lmbedcrypto cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && rm -f fastconv.3.2.1 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && mv fastconv fastconv.3.2.1 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s fastconv.3.2.1 fastconv.3 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s fastconv.3 fastconv make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 98%] Built target fastconv [ 99%] Linking CXX executable ../../../bin/vdb-sql cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-sql && /usr/bin/cmake -E cmake_link_script CMakeFiles/vdb-sql.dir/link.txt --verbose=1 /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/vdb-sql.dir/link.d "CMakeFiles/vdb-sql.dir/vdb_shell.c.o" -o ../../../bin/vdb-sql ../../../ilib/libvdb-sqlite.a ../../../ilib/libngs.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -lmbedx509 -lmbedtls -lmbedcrypto /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && rm -f vdb-sql.3.2.1 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && mv vdb-sql vdb-sql.3.2.1 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s vdb-sql.3.2.1 vdb-sql.3 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s vdb-sql.3 vdb-sql make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 99%] Built target vdb-sql [ 99%] Linking CXX executable ../../../bin/bam-load cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/bam-loader && /usr/bin/cmake -E cmake_link_script CMakeFiles/bam-load.dir/link.txt --verbose=1 /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/bam-load.dir/link.d "CMakeFiles/bam-load.dir/bam-loader.c.o" "CMakeFiles/bam-load.dir/bam.c.o" "CMakeFiles/bam-load.dir/sam.c.o" "CMakeFiles/bam-load.dir/alignment-writer.c.o" "CMakeFiles/bam-load.dir/reference-writer.c.o" "CMakeFiles/bam-load.dir/sequence-writer.c.o" "CMakeFiles/bam-load.dir/loader-imp.c.o" "CMakeFiles/bam-load.dir/mem-bank.cpp.o" "CMakeFiles/bam-load.dir/low-match-count.cpp.o" -o ../../../bin/bam-load ../../../ilib/libloader.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm -lmbedx509 -lmbedtls -lmbedcrypto ../../../ilib/libloader.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm -lmbedx509 -lmbedtls -lmbedcrypto -lz cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && rm -f bam-load.3.2.1 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && mv bam-load bam-load.3.2.1 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s bam-load.3.2.1 bam-load.3 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s bam-load.3 bam-load make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 99%] Built target bam-load make -f test/external/fasterq-dump/CMakeFiles/Build-fasterq-dump.dir/build.make test/external/fasterq-dump/CMakeFiles/Build-fasterq-dump.dir/depend make -f test/external/sam-dump/CMakeFiles/Build-sam-dump.dir/build.make test/external/sam-dump/CMakeFiles/Build-sam-dump.dir/depend make -f test/loaders/bam-load/CMakeFiles/Build-bam-load.dir/build.make test/loaders/bam-load/CMakeFiles/Build-bam-load.dir/depend make -f test/loaders/sra-sort/CMakeFiles/Build-sra-sort.dir/build.make test/loaders/sra-sort/CMakeFiles/Build-sra-sort.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/fasterq-dump /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/external/fasterq-dump /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/external/fasterq-dump/CMakeFiles/Build-fasterq-dump.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/sam-dump /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/external/sam-dump /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/external/sam-dump/CMakeFiles/Build-sam-dump.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/bam-load /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/loaders/bam-load /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/loaders/bam-load/CMakeFiles/Build-bam-load.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sra-sort /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/loaders/sra-sort /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/loaders/sra-sort/CMakeFiles/Build-sra-sort.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f test/loaders/sra-sort/CMakeFiles/Build-sra-sort.dir/build.make test/loaders/sra-sort/CMakeFiles/Build-sra-sort.dir/build make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f test/external/fasterq-dump/CMakeFiles/Build-fasterq-dump.dir/build.make test/external/fasterq-dump/CMakeFiles/Build-fasterq-dump.dir/build make -f test/external/sam-dump/CMakeFiles/Build-sam-dump.dir/build.make test/external/sam-dump/CMakeFiles/Build-sam-dump.dir/build make -f test/loaders/bam-load/CMakeFiles/Build-bam-load.dir/build.make test/loaders/bam-load/CMakeFiles/Build-bam-load.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'test/loaders/sra-sort/CMakeFiles/Build-sra-sort.dir/build'. make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'test/external/fasterq-dump/CMakeFiles/Build-fasterq-dump.dir/build'. make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'test/external/sam-dump/CMakeFiles/Build-sam-dump.dir/build'. make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'test/loaders/bam-load/CMakeFiles/Build-bam-load.dir/build'. make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 99%] Built target Build-fasterq-dump [ 99%] Built target Build-sam-dump [ 99%] Built target Build-sra-sort [ 99%] Built target Build-bam-load [ 99%] Linking CXX executable ../../../bin/sam-analyze cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/test-tools/sam-analyze && /usr/bin/cmake -E cmake_link_script CMakeFiles/sam-analyze.dir/link.txt --verbose=1 /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/sam-analyze.dir/link.d "CMakeFiles/sam-analyze.dir/main.cpp.o" "CMakeFiles/sam-analyze.dir/sqlite3.c.o" -o ../../../bin/sam-analyze /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -lmbedx509 -lmbedtls -lmbedcrypto make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 99%] Built target sam-analyze [ 99%] Linking CXX executable ../../../bin/sharq cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/loaders/sharq && /usr/bin/cmake -E cmake_link_script CMakeFiles/sharq.dir/link.txt --verbose=1 /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/sharq.dir/link.d CMakeFiles/sharq.dir/fastq_parse.cpp.o -o ../../../bin/sharq -lstdc++fs /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libbz2.so -lre2 -labsl_string_view /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -lmbedx509 -lmbedtls -lmbedcrypto cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && rm -f sharq.3.2.1 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && mv sharq sharq.3.2.1 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sharq.3.2.1 sharq.3 cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sharq.3 sharq make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 99%] Built target sharq make -f test/loaders/sharq/CMakeFiles/test-sharq-reader.dir/build.make test/loaders/sharq/CMakeFiles/test-sharq-reader.dir/depend make -f test/loaders/sharq/CMakeFiles/test-sharq-parser.dir/build.make test/loaders/sharq/CMakeFiles/test-sharq-parser.dir/depend make -f test/loaders/sharq/CMakeFiles/test-sharq-writer.dir/build.make test/loaders/sharq/CMakeFiles/test-sharq-writer.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/loaders/sharq /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/loaders/sharq/CMakeFiles/test-sharq-reader.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/loaders/sharq /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/loaders/sharq/CMakeFiles/test-sharq-parser.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.2.1+dfsg /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/loaders/sharq /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/loaders/sharq/CMakeFiles/test-sharq-writer.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f test/loaders/sharq/CMakeFiles/test-sharq-reader.dir/build.make test/loaders/sharq/CMakeFiles/test-sharq-reader.dir/build make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make -f test/loaders/sharq/CMakeFiles/test-sharq-parser.dir/build.make test/loaders/sharq/CMakeFiles/test-sharq-parser.dir/build make -f test/loaders/sharq/CMakeFiles/test-sharq-writer.dir/build.make test/loaders/sharq/CMakeFiles/test-sharq-writer.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [ 99%] Building CXX object test/loaders/sharq/CMakeFiles/test-sharq-parser.dir/test-sharq-parser.cpp.o [ 99%] Building CXX object test/loaders/sharq/CMakeFiles/test-sharq-reader.dir/test-sharq-reader.cpp.o [ 99%] Building CXX object test/loaders/sharq/CMakeFiles/test-sharq-writer.dir/test-sharq-writer.cpp.o cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/loaders/sharq && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/lib/include -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/../../../tools/loaders/sharq -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT test/loaders/sharq/CMakeFiles/test-sharq-reader.dir/test-sharq-reader.cpp.o -MF CMakeFiles/test-sharq-reader.dir/test-sharq-reader.cpp.o.d -o CMakeFiles/test-sharq-reader.dir/test-sharq-reader.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/test-sharq-reader.cpp cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/loaders/sharq && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/lib/include -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/../../../tools/loaders/sharq -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT test/loaders/sharq/CMakeFiles/test-sharq-writer.dir/test-sharq-writer.cpp.o -MF CMakeFiles/test-sharq-writer.dir/test-sharq-writer.cpp.o.d -o CMakeFiles/test-sharq-writer.dir/test-sharq-writer.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/test-sharq-writer.cpp cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/loaders/sharq && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/lib/include -I/build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/../../../tools/loaders/sharq -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT test/loaders/sharq/CMakeFiles/test-sharq-parser.dir/test-sharq-parser.cpp.o -MF CMakeFiles/test-sharq-parser.dir/test-sharq-parser.cpp.o.d -o CMakeFiles/test-sharq-parser.dir/test-sharq-parser.cpp.o -c /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/test-sharq-parser.cpp In file included from /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc/spdlog/fmt/fmt.h:27, from /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/../../../tools/loaders/sharq/fastq_error.hpp:12, from /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/../../../tools/loaders/sharq/fastq_read.hpp:9, from /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/../../../tools/loaders/sharq/fastq_writer.hpp:42, from /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/test-sharq-writer.cpp:31: /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc/spdlog/fmt/bundled/core.h: In instantiation of 'constexpr fmt::v9::detail::value fmt::v9::detail::make_value(T&&) [with Context = fmt::v9::basic_format_context; T = fmt::v9::basic_string_view&]': /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc/spdlog/fmt/bundled/core.h:1777:29: required from 'constexpr fmt::v9::detail::value fmt::v9::detail::make_arg(T&&) [with bool IS_PACKED = true; Context = fmt::v9::basic_format_context; type = fmt::v9::detail::type::string_type; T = fmt::v9::basic_string_view&; typename std::enable_if::type = 0]' 1777 | return make_value(val); | ~~~~~~~~~~~~~~~~~~~^~~~~ /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc/spdlog/fmt/bundled/core.h:1901:77: required from 'constexpr fmt::v9::format_arg_store::format_arg_store(T&& ...) [with T = {fmt::v9::basic_string_view&, const char (&)[3]}; Context = fmt::v9::basic_format_context; Args = {fmt::v9::basic_string_view, char [3]}]' 1899 | data_{detail::make_arg< | ~~~~~~~~~~~~~~~~~ 1900 | is_packed, Context, | ~~~~~~~~~~~~~~~~~~~ 1901 | detail::mapped_type_constant, Context>::value>( | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^ 1902 | FMT_FORWARD(args))...} { | ~~~~~~~~~~~~~~~~~~ /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc/spdlog/fmt/bundled/core.h:1918:31: required from 'OutputIt fmt::v9::format_to(OutputIt, format_string, T&& ...) [with OutputIt = appender; T = {basic_string_view&, const char (&)[3]}; typename std::enable_if::value, int>::type = 0; format_string = basic_format_string&, const char (&)[3]>]' 1918 | return {FMT_FORWARD(args)...}; | ^ /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc/spdlog/fmt/bundled/format-inl.h:65:14: required from here 65 | format_to(it, FMT_STRING("{}{}"), message, SEP); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc/spdlog/fmt/bundled/core.h:3235:52: in 'constexpr' expansion of 'fmt::v9::make_format_args<>(args#0, args#1)' /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc/spdlog/fmt/bundled/core.h:1735:15: warning: possibly dangling reference to a temporary [-Wdangling-reference] 1735 | const auto& arg = arg_mapper().map(FMT_FORWARD(val)); | ^~~ /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc/spdlog/fmt/bundled/core.h:1735:46: note: the temporary was destroyed at the end of the full expression 'fmt::v9::detail::arg_mapper >().fmt::v9::detail::arg_mapper >::map >((*(const fmt::v9::basic_string_view*)(& val)))' 1735 | const auto& arg = arg_mapper().map(FMT_FORWARD(val)); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc/spdlog/fmt/bundled/core.h: In instantiation of 'constexpr fmt::v9::detail::value fmt::v9::detail::make_value(T&&) [with Context = fmt::v9::basic_format_context; T = std::__cxx11::basic_string&]': /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc/spdlog/fmt/bundled/core.h:1777:29: required from 'constexpr fmt::v9::detail::value fmt::v9::detail::make_arg(T&&) [with bool IS_PACKED = true; Context = fmt::v9::basic_format_context; type = fmt::v9::detail::type::string_type; T = std::__cxx11::basic_string&; typename std::enable_if::type = 0]' 1777 | return make_value(val); | ~~~~~~~~~~~~~~~~~~~^~~~~ /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc/spdlog/fmt/bundled/core.h:1901:77: required from 'constexpr fmt::v9::format_arg_store::format_arg_store(T&& ...) [with T = {std::__cxx11::basic_string, std::allocator >&, int&}; Context = fmt::v9::basic_format_context; Args = {std::__cxx11::basic_string, std::allocator >, int}]' 1899 | data_{detail::make_arg< | ~~~~~~~~~~~~~~~~~ 1900 | is_packed, Context, | ~~~~~~~~~~~~~~~~~~~ 1901 | detail::mapped_type_constant, Context>::value>( | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^ 1902 | FMT_FORWARD(args))...} { | ~~~~~~~~~~~~~~~~~~ /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc/spdlog/fmt/bundled/core.h:1918:31: required from 'std::string fmt::v9::format(format_string, T&& ...) [with T = {std::__cxx11::basic_string, std::allocator >&, int&}; std::string = std::__cxx11::basic_string; format_string = basic_format_string, std::allocator >&, int&>]' 1918 | return {FMT_FORWARD(args)...}; | ^ /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/../../../tools/loaders/sharq/fastq_error.hpp:115:36: required from here 115 | mMessage += fmt::format(" [{}:{}]", fname, line_number); | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc/spdlog/fmt/bundled/core.h:3206:44: in 'constexpr' expansion of 'fmt::v9::make_format_args<>(args#0, args#1)' /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc/spdlog/fmt/bundled/core.h:1735:15: warning: possibly dangling reference to a temporary [-Wdangling-reference] 1735 | const auto& arg = arg_mapper().map(FMT_FORWARD(val)); | ^~~ /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc/spdlog/fmt/bundled/core.h:1735:46: note: the temporary was destroyed at the end of the full expression 'fmt::v9::detail::arg_mapper >().fmt::v9::detail::arg_mapper >::map >((*(const std::__cxx11::basic_string*)(& val)))' 1735 | const auto& arg = arg_mapper().map(FMT_FORWARD(val)); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc/spdlog/fmt/bundled/core.h: In instantiation of 'constexpr fmt::v9::detail::value fmt::v9::detail::make_value(T&&) [with Context = fmt::v9::basic_format_context; T = const std::__cxx11::basic_string&]': /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc/spdlog/fmt/bundled/core.h:1777:29: required from 'constexpr fmt::v9::detail::value fmt::v9::detail::make_arg(T&&) [with bool IS_PACKED = true; Context = fmt::v9::basic_format_context; type = fmt::v9::detail::type::string_type; T = const std::__cxx11::basic_string&; typename std::enable_if::type = 0]' 1777 | return make_value(val); | ~~~~~~~~~~~~~~~~~~~^~~~~ /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc/spdlog/fmt/bundled/core.h:1901:77: required from 'constexpr fmt::v9::format_arg_store::format_arg_store(T&& ...) [with T = {const std::__cxx11::basic_string, std::allocator >&}; Context = fmt::v9::basic_format_context; Args = {std::__cxx11::basic_string, std::allocator >}]' 1899 | data_{detail::make_arg< | ~~~~~~~~~~~~~~~~~ 1900 | is_packed, Context, | ~~~~~~~~~~~~~~~~~~~ 1901 | detail::mapped_type_constant, Context>::value>( | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^ 1902 | FMT_FORWARD(args))...} { | ~~~~~~~~~~~~~~~~~~ /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc/spdlog/fmt/bundled/core.h:1918:31: required from 'std::string fmt::v9::format(format_string, T&& ...) [with T = {const std::__cxx11::basic_string, std::allocator >&}; std::string = std::__cxx11::basic_string; format_string = basic_format_string, std::allocator >&>]' 1918 | return {FMT_FORWARD(args)...}; | ^ /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/../../../tools/loaders/sharq/fastq_error.hpp:131:30: required from here 131 | os << fmt::format("{:<70}", std::get<1>(it.second)); | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc/spdlog/fmt/bundled/core.h:3206:44: in 'constexpr' expansion of 'fmt::v9::make_format_args<>(args#0)' /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc/spdlog/fmt/bundled/core.h:1735:15: warning: possibly dangling reference to a temporary [-Wdangling-reference] 1735 | const auto& arg = arg_mapper().map(FMT_FORWARD(val)); | ^~~ /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc/spdlog/fmt/bundled/core.h:1735:46: note: the temporary was destroyed at the end of the full expression 'fmt::v9::detail::arg_mapper >().fmt::v9::detail::arg_mapper >::map >((* & val))' 1735 | const auto& arg = arg_mapper().map(FMT_FORWARD(val)); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc/spdlog/fmt/fmt.h:27, from /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk/../../tools/loaders/sharq/fastq_error.hpp:12, from /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk/../../tools/loaders/sharq/fastq_read.hpp:9, from /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk/../../tools/loaders/sharq/fastq_parser.hpp:45, from /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/test-sharq-parser.cpp:32: /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc/spdlog/fmt/bundled/core.h: In instantiation of 'constexpr fmt::v9::detail::value fmt::v9::detail::make_value(T&&) [with Context = fmt::v9::basic_format_context; T = fmt::v9::basic_string_view&]': /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc/spdlog/fmt/bundled/core.h:1777:29: required from 'constexpr fmt::v9::detail::value fmt::v9::detail::make_arg(T&&) [with bool IS_PACKED = true; Context = fmt::v9::basic_format_context; type = fmt::v9::detail::type::string_type; T = fmt::v9::basic_string_view&; typename std::enable_if::type = 0]' 1777 | return make_value(val); | ~~~~~~~~~~~~~~~~~~~^~~~~ /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc/spdlog/fmt/bundled/core.h:1901:77: required from 'constexpr fmt::v9::format_arg_store::format_arg_store(T&& ...) [with T = {fmt::v9::basic_string_view&, const char (&)[3]}; Context = fmt::v9::basic_format_context; Args = {fmt::v9::basic_string_view, char [3]}]' 1899 | data_{detail::make_arg< | ~~~~~~~~~~~~~~~~~ 1900 | is_packed, Context, | ~~~~~~~~~~~~~~~~~~~ 1901 | detail::mapped_type_constant, Context>::value>( | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^ 1902 | FMT_FORWARD(args))...} { | ~~~~~~~~~~~~~~~~~~ /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc/spdlog/fmt/bundled/core.h:1918:31: required from 'OutputIt fmt::v9::format_to(OutputIt, format_string, T&& ...) [with OutputIt = appender; T = {basic_string_view&, const char (&)[3]}; typename std::enable_if::value, int>::type = 0; format_string = basic_format_string&, const char (&)[3]>]' 1918 | return {FMT_FORWARD(args)...}; | ^ /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc/spdlog/fmt/bundled/format-inl.h:65:14: required from here 65 | format_to(it, FMT_STRING("{}{}"), message, SEP); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc/spdlog/fmt/bundled/core.h:3235:52: in 'constexpr' expansion of 'fmt::v9::make_format_args<>(args#0, args#1)' /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc/spdlog/fmt/bundled/core.h:1735:15: warning: possibly dangling reference to a temporary [-Wdangling-reference] 1735 | const auto& arg = arg_mapper().map(FMT_FORWARD(val)); | ^~~ /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc/spdlog/fmt/bundled/core.h:1735:46: note: the temporary was destroyed at the end of the full expression 'fmt::v9::detail::arg_mapper >().fmt::v9::detail::arg_mapper >::map >((*(const fmt::v9::basic_string_view*)(& val)))' 1735 | const auto& arg = arg_mapper().map(FMT_FORWARD(val)); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc/spdlog/fmt/bundled/core.h: In instantiation of 'constexpr fmt::v9::detail::value fmt::v9::detail::make_value(T&&) [with Context = fmt::v9::basic_format_context; T = std::__cxx11::basic_string&]': /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc/spdlog/fmt/bundled/core.h:1777:29: required from 'constexpr fmt::v9::detail::value fmt::v9::detail::make_arg(T&&) [with bool IS_PACKED = true; Context = fmt::v9::basic_format_context; type = fmt::v9::detail::type::string_type; T = std::__cxx11::basic_string&; typename std::enable_if::type = 0]' 1777 | return make_value(val); | ~~~~~~~~~~~~~~~~~~~^~~~~ /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc/spdlog/fmt/bundled/core.h:1901:77: required from 'constexpr fmt::v9::format_arg_store::format_arg_store(T&& ...) [with T = {std::__cxx11::basic_string, std::allocator >&, int&}; Context = fmt::v9::basic_format_context; Args = {std::__cxx11::basic_string, std::allocator >, int}]' 1899 | data_{detail::make_arg< | ~~~~~~~~~~~~~~~~~ 1900 | is_packed, Context, | ~~~~~~~~~~~~~~~~~~~ 1901 | detail::mapped_type_constant, Context>::value>( | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^ 1902 | FMT_FORWARD(args))...} { | ~~~~~~~~~~~~~~~~~~ /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc/spdlog/fmt/bundled/core.h:1918:31: required from 'std::string fmt::v9::format(format_string, T&& ...) [with T = {std::__cxx11::basic_string, std::allocator >&, int&}; std::string = std::__cxx11::basic_string; format_string = basic_format_string, std::allocator >&, int&>]' 1918 | return {FMT_FORWARD(args)...}; | ^ /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk/../../tools/loaders/sharq/fastq_error.hpp:115:36: required from here 115 | mMessage += fmt::format(" [{}:{}]", fname, line_number); | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc/spdlog/fmt/bundled/core.h:3206:44: in 'constexpr' expansion of 'fmt::v9::make_format_args<>(args#0, args#1)' /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc/spdlog/fmt/bundled/core.h:1735:15: warning: possibly dangling reference to a temporary [-Wdangling-reference] 1735 | const auto& arg = arg_mapper().map(FMT_FORWARD(val)); | ^~~ /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc/spdlog/fmt/bundled/core.h:1735:46: note: the temporary was destroyed at the end of the full expression 'fmt::v9::detail::arg_mapper >().fmt::v9::detail::arg_mapper >::map >((*(const std::__cxx11::basic_string*)(& val)))' 1735 | const auto& arg = arg_mapper().map(FMT_FORWARD(val)); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc/spdlog/fmt/bundled/core.h: In instantiation of 'constexpr fmt::v9::detail::value fmt::v9::detail::make_value(T&&) [with Context = fmt::v9::basic_format_context; T = const std::__cxx11::basic_string&]': /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc/spdlog/fmt/bundled/core.h:1777:29: required from 'constexpr fmt::v9::detail::value fmt::v9::detail::make_arg(T&&) [with bool IS_PACKED = true; Context = fmt::v9::basic_format_context; type = fmt::v9::detail::type::string_type; T = const std::__cxx11::basic_string&; typename std::enable_if::type = 0]' 1777 | return make_value(val); | ~~~~~~~~~~~~~~~~~~~^~~~~ /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc/spdlog/fmt/bundled/core.h:1901:77: required from 'constexpr fmt::v9::format_arg_store::format_arg_store(T&& ...) [with T = {const std::__cxx11::basic_string, std::allocator >&}; Context = fmt::v9::basic_format_context; Args = {std::__cxx11::basic_string, std::allocator >}]' 1899 | data_{detail::make_arg< | ~~~~~~~~~~~~~~~~~ 1900 | is_packed, Context, | ~~~~~~~~~~~~~~~~~~~ 1901 | detail::mapped_type_constant, Context>::value>( | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^ 1902 | FMT_FORWARD(args))...} { | ~~~~~~~~~~~~~~~~~~ /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc/spdlog/fmt/bundled/core.h:1918:31: required from 'std::string fmt::v9::format(format_string, T&& ...) [with T = {const std::__cxx11::basic_string, std::allocator >&}; std::string = std::__cxx11::basic_string; format_string = basic_format_string, std::allocator >&>]' 1918 | return {FMT_FORWARD(args)...}; | ^ /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk/../../tools/loaders/sharq/fastq_error.hpp:131:30: required from here 131 | os << fmt::format("{:<70}", std::get<1>(it.second)); | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc/spdlog/fmt/bundled/core.h:3206:44: in 'constexpr' expansion of 'fmt::v9::make_format_args<>(args#0)' /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc/spdlog/fmt/bundled/core.h:1735:15: warning: possibly dangling reference to a temporary [-Wdangling-reference] 1735 | const auto& arg = arg_mapper().map(FMT_FORWARD(val)); | ^~~ /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc/spdlog/fmt/bundled/core.h:1735:46: note: the temporary was destroyed at the end of the full expression 'fmt::v9::detail::arg_mapper >().fmt::v9::detail::arg_mapper >::map >((* & val))' 1735 | const auto& arg = arg_mapper().map(FMT_FORWARD(val)); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc/spdlog/fmt/fmt.h:27, from /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk/../../tools/loaders/sharq/fastq_error.hpp:12, from /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk/../../tools/loaders/sharq/fastq_read.hpp:9, from /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk/../../tools/loaders/sharq/fastq_parser.hpp:45, from /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/test-sharq-reader.cpp:40: /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc/spdlog/fmt/bundled/core.h: In instantiation of 'constexpr fmt::v9::detail::value fmt::v9::detail::make_value(T&&) [with Context = fmt::v9::basic_format_context; T = fmt::v9::basic_string_view&]': /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc/spdlog/fmt/bundled/core.h:1777:29: required from 'constexpr fmt::v9::detail::value fmt::v9::detail::make_arg(T&&) [with bool IS_PACKED = true; Context = fmt::v9::basic_format_context; type = fmt::v9::detail::type::string_type; T = fmt::v9::basic_string_view&; typename std::enable_if::type = 0]' 1777 | return make_value(val); | ~~~~~~~~~~~~~~~~~~~^~~~~ /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc/spdlog/fmt/bundled/core.h:1901:77: required from 'constexpr fmt::v9::format_arg_store::format_arg_store(T&& ...) [with T = {fmt::v9::basic_string_view&, const char (&)[3]}; Context = fmt::v9::basic_format_context; Args = {fmt::v9::basic_string_view, char [3]}]' 1899 | data_{detail::make_arg< | ~~~~~~~~~~~~~~~~~ 1900 | is_packed, Context, | ~~~~~~~~~~~~~~~~~~~ 1901 | detail::mapped_type_constant, Context>::value>( | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^ 1902 | FMT_FORWARD(args))...} { | ~~~~~~~~~~~~~~~~~~ /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc/spdlog/fmt/bundled/core.h:1918:31: required from 'OutputIt fmt::v9::format_to(OutputIt, format_string, T&& ...) [with OutputIt = appender; T = {basic_string_view&, const char (&)[3]}; typename std::enable_if::value, int>::type = 0; format_string = basic_format_string&, const char (&)[3]>]' 1918 | return {FMT_FORWARD(args)...}; | ^ /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc/spdlog/fmt/bundled/format-inl.h:65:14: required from here 65 | format_to(it, FMT_STRING("{}{}"), message, SEP); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc/spdlog/fmt/bundled/core.h:3235:52: in 'constexpr' expansion of 'fmt::v9::make_format_args<>(args#0, args#1)' /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc/spdlog/fmt/bundled/core.h:1735:15: warning: possibly dangling reference to a temporary [-Wdangling-reference] 1735 | const auto& arg = arg_mapper().map(FMT_FORWARD(val)); | ^~~ /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc/spdlog/fmt/bundled/core.h:1735:46: note: the temporary was destroyed at the end of the full expression 'fmt::v9::detail::arg_mapper >().fmt::v9::detail::arg_mapper >::map >((*(const fmt::v9::basic_string_view*)(& val)))' 1735 | const auto& arg = arg_mapper().map(FMT_FORWARD(val)); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc/spdlog/fmt/bundled/core.h: In instantiation of 'constexpr fmt::v9::detail::value fmt::v9::detail::make_value(T&&) [with Context = fmt::v9::basic_format_context; T = std::__cxx11::basic_string&]': /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc/spdlog/fmt/bundled/core.h:1777:29: required from 'constexpr fmt::v9::detail::value fmt::v9::detail::make_arg(T&&) [with bool IS_PACKED = true; Context = fmt::v9::basic_format_context; type = fmt::v9::detail::type::string_type; T = std::__cxx11::basic_string&; typename std::enable_if::type = 0]' 1777 | return make_value(val); | ~~~~~~~~~~~~~~~~~~~^~~~~ /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc/spdlog/fmt/bundled/core.h:1901:77: required from 'constexpr fmt::v9::format_arg_store::format_arg_store(T&& ...) [with T = {std::__cxx11::basic_string, std::allocator >&, int&}; Context = fmt::v9::basic_format_context; Args = {std::__cxx11::basic_string, std::allocator >, int}]' 1899 | data_{detail::make_arg< | ~~~~~~~~~~~~~~~~~ 1900 | is_packed, Context, | ~~~~~~~~~~~~~~~~~~~ 1901 | detail::mapped_type_constant, Context>::value>( | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^ 1902 | FMT_FORWARD(args))...} { | ~~~~~~~~~~~~~~~~~~ /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc/spdlog/fmt/bundled/core.h:1918:31: required from 'std::string fmt::v9::format(format_string, T&& ...) [with T = {std::__cxx11::basic_string, std::allocator >&, int&}; std::string = std::__cxx11::basic_string; format_string = basic_format_string, std::allocator >&, int&>]' 1918 | return {FMT_FORWARD(args)...}; | ^ /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk/../../tools/loaders/sharq/fastq_error.hpp:115:36: required from here 115 | mMessage += fmt::format(" [{}:{}]", fname, line_number); | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc/spdlog/fmt/bundled/core.h:3206:44: in 'constexpr' expansion of 'fmt::v9::make_format_args<>(args#0, args#1)' /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc/spdlog/fmt/bundled/core.h:1735:15: warning: possibly dangling reference to a temporary [-Wdangling-reference] 1735 | const auto& arg = arg_mapper().map(FMT_FORWARD(val)); | ^~~ /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc/spdlog/fmt/bundled/core.h:1735:46: note: the temporary was destroyed at the end of the full expression 'fmt::v9::detail::arg_mapper >().fmt::v9::detail::arg_mapper >::map >((*(const std::__cxx11::basic_string*)(& val)))' 1735 | const auto& arg = arg_mapper().map(FMT_FORWARD(val)); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc/spdlog/fmt/bundled/core.h: In instantiation of 'constexpr fmt::v9::detail::value fmt::v9::detail::make_value(T&&) [with Context = fmt::v9::basic_format_context; T = const std::__cxx11::basic_string&]': /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc/spdlog/fmt/bundled/core.h:1777:29: required from 'constexpr fmt::v9::detail::value fmt::v9::detail::make_arg(T&&) [with bool IS_PACKED = true; Context = fmt::v9::basic_format_context; type = fmt::v9::detail::type::string_type; T = const std::__cxx11::basic_string&; typename std::enable_if::type = 0]' 1777 | return make_value(val); | ~~~~~~~~~~~~~~~~~~~^~~~~ /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc/spdlog/fmt/bundled/core.h:1901:77: required from 'constexpr fmt::v9::format_arg_store::format_arg_store(T&& ...) [with T = {const std::__cxx11::basic_string, std::allocator >&}; Context = fmt::v9::basic_format_context; Args = {std::__cxx11::basic_string, std::allocator >}]' 1899 | data_{detail::make_arg< | ~~~~~~~~~~~~~~~~~ 1900 | is_packed, Context, | ~~~~~~~~~~~~~~~~~~~ 1901 | detail::mapped_type_constant, Context>::value>( | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^ 1902 | FMT_FORWARD(args))...} { | ~~~~~~~~~~~~~~~~~~ /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc/spdlog/fmt/bundled/core.h:1918:31: required from 'std::string fmt::v9::format(format_string, T&& ...) [with T = {const std::__cxx11::basic_string, std::allocator >&}; std::string = std::__cxx11::basic_string; format_string = basic_format_string, std::allocator >&>]' 1918 | return {FMT_FORWARD(args)...}; | ^ /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-sdk/../../tools/loaders/sharq/fastq_error.hpp:131:30: required from here 131 | os << fmt::format("{:<70}", std::get<1>(it.second)); | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc/spdlog/fmt/bundled/core.h:3206:44: in 'constexpr' expansion of 'fmt::v9::make_format_args<>(args#0)' /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc/spdlog/fmt/bundled/core.h:1735:15: warning: possibly dangling reference to a temporary [-Wdangling-reference] 1735 | const auto& arg = arg_mapper().map(FMT_FORWARD(val)); | ^~~ /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/inc/spdlog/fmt/bundled/core.h:1735:46: note: the temporary was destroyed at the end of the full expression 'fmt::v9::detail::arg_mapper >().fmt::v9::detail::arg_mapper >::map >((* & val))' 1735 | const auto& arg = arg_mapper().map(FMT_FORWARD(val)); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ [100%] Linking CXX executable ../../../test-bin/test-sharq-writer cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/loaders/sharq && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-sharq-writer.dir/link.txt --verbose=1 /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/test-sharq-writer.dir/link.d "CMakeFiles/test-sharq-writer.dir/test-sharq-writer.cpp.o" -o ../../../test-bin/test-sharq-writer /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libktst.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -lmbedx509 -lmbedtls -lmbedcrypto make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [100%] Built target test-sharq-writer [100%] Linking CXX executable ../../../test-bin/test-sharq-parser cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/loaders/sharq && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-sharq-parser.dir/link.txt --verbose=1 /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/test-sharq-parser.dir/link.d "CMakeFiles/test-sharq-parser.dir/test-sharq-parser.cpp.o" -o ../../../test-bin/test-sharq-parser -lstdc++fs /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libktst.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -lmbedx509 -lmbedtls -lmbedcrypto /usr/lib/x86_64-linux-gnu/libbz2.so -lre2 -labsl_string_view make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [100%] Built target test-sharq-parser [100%] Linking CXX executable ../../../test-bin/test-sharq-reader cd /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/loaders/sharq && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-sharq-reader.dir/link.txt --verbose=1 /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.2.1+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/test-sharq-reader.dir/link.d "CMakeFiles/test-sharq-reader.dir/test-sharq-reader.cpp.o" -o ../../../test-bin/test-sharq-reader -lstdc++fs /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libktst.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -lmbedx509 -lmbedtls -lmbedcrypto /usr/lib/x86_64-linux-gnu/libbz2.so -lre2 -labsl_string_view make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' [100%] Built target test-sharq-reader make[2]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' /usr/bin/cmake -E cmake_progress_start /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/CMakeFiles 0 make[1]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' jh_build -O--buildsystem=cmake debian/rules override_dh_auto_test make[1]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg' cd obj-x86_64-linux-gnu && \ ctest --force-new-ctest-process --verbose -j1 -LE online UpdateCTestConfiguration from :/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/DartConfiguration.tcl Parse Config file:/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/DartConfiguration.tcl UpdateCTestConfiguration from :/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/DartConfiguration.tcl Parse Config file:/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/DartConfiguration.tcl Test project /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu Constructing a list of tests Done constructing a list of tests Updating test list for fixtures Added 0 tests to meet fixture requirements Checking test dependency graph... Checking test dependency graph end test 9 Start 9: Test_NGS_Python_install 9: Test command: /usr/bin/python3 "/build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-python/setup.py" "-q" "install" "--user" 9: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/ngs/ngs-python 9: Environment variables: 9: PYTHONUSERBASE=/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test-bin/tmp/python 9: Test timeout computed to be: 1500 9: /usr/lib/python3/dist-packages/setuptools/_distutils/cmd.py:79: SetuptoolsDeprecationWarning: setup.py install is deprecated. 9: !! 9: 9: ******************************************************************************** 9: Please avoid running ``setup.py`` directly. 9: Instead, use pypa/build, pypa/installer or other 9: standards-based tools. 9: 9: See https://blog.ganssle.io/articles/2021/10/setup-py-deprecated.html for details. 9: ******************************************************************************** 9: 9: !! 9: self.initialize_options() 9: /usr/lib/python3/dist-packages/setuptools/_distutils/cmd.py:79: EasyInstallDeprecationWarning: easy_install command is deprecated. 9: !! 9: 9: ******************************************************************************** 9: Please avoid running ``setup.py`` and ``easy_install``. 9: Instead, use pypa/build, pypa/installer or other 9: standards-based tools. 9: 9: See https://github.com/pypa/setuptools/issues/917 for details. 9: ******************************************************************************** 9: 9: !! 9: self.initialize_options() 9: zip_safe flag not set; analyzing archive contents... 1/426 Test #9: Test_NGS_Python_install ................................ Passed 0.34 sec test 15 Start 15: Ngs_MakeDB 15: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test-bin/ngs-makedb 15: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/ngs-vdb/test/data 15: Test timeout computed to be: 1500 15: Running 1 test case... 15: SparseFragmentBlobs (0 s) 15: 15: *** No errors detected (0 s total) 2/426 Test #15: Ngs_MakeDB ............................................. Passed 0.05 sec test 16 Start 16: Test_Ngs 16: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test-bin/test-ngs 16: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/ngs-vdb/test 16: Test timeout computed to be: 1500 16: 16: *** No errors detected (0 s total) 3/426 Test #16: Test_Ngs ............................................... Passed 0.01 sec test 32 Start 32: Test_GeneralWriter_RoundTrip 32: Test command: /usr/bin/sh "-c" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test-bin/test-general-writer && /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/gw-dumper -v ./actual/test-general-writer.gw | grep --text -v timestamp | grep --text -v pid >./actual/test-general-writer.stdout && diff ./actual/test-general-writer.stdout ./expected/test-general-writer.stdout" 32: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/general-writer/test 32: Test timeout computed to be: 1500 32: CreateGw Success 32: --------------------------------- 32: addTable Success 32: --------------------------------- 32: addColumn Success 32: --------------------------------- 32: dbAddDatabase Success 32: --------------------------------- 32: dbAddTable Success 32: --------------------------------- 32: write Success 32: --------------------------------- 32: setDBMetadataNode Success 32: --------------------------------- 32: setTblMetadataNode Success 32: --------------------------------- 32: setColMetadataNode Success 32: --------------------------------- 32: setProgMsg Success 32: --------------------------------- 32: Attempting add table after endStream 32: state violation adding table 32: addTable correctly failed 32: endStream Success 32: --------------------------------- 4/426 Test #32: Test_GeneralWriter_RoundTrip ........................... Passed 0.01 sec test 33 Start 33: GeneralLoaderWhiteBox 33: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test-bin/test-general-loader 33: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test 33: Test timeout computed to be: 1500 33: Unpacked protocol: Running 65 test cases... 33: EmptyInput (0 s) 33: ShortInput (0 s) 33: BadSignature (0 s) 33: BadEndianness (0 s) 33: ReverseEndianness (0 s) 33: LaterVersion (0 s) 33: BadSchemaFileName (0 s) 33: BadSchemaFileName_Long (0 s) 33: BadSchemaName (0 s) 33: BadSchemaName_Long (0 s) 33: BadTableName (0 s) 33: BadTableName_Long (0 s) 33: DuplicateTableId (0 s) 33: BadColumnName (0 s) 33: BadTableId (0 s) 33: DuplicateColumnName (0 s) 33: DuplicateColumnId (0 s) 33: NoOpenStreamEvent (0 s) 33: NoCloseStreamEvent (0 s) 33: NoColumns (0 s) 33: SoftwareName (0 s) 33: SoftwareName_BadVersion (0 s) 33: DBAddDatabase (0 s) 33: DBAddSubDatabase (0 s) 33: DBAddTable (0 s) 33: DBAddTableToSubDb (0 s) 33: DBMetadataNode (0 s) 33: DBMetadataNodeAttr (0 s) 33: SubDBMetadataNode (0 s) 33: TblMetadataNode (0 s) 33: TblMetadataNodeAttr (0 s) 33: ColMetadataNode (0 s) 33: ColMetadataNodeAttr (0 s) 33: NoData (0 s) 33: Chunk_BadColumnId (0 s) 33: WriteNoCommit (0 s) 33: CommitBadTableId (0 s) 33: OneColumnOneCellOneChunk (0 s) 33: OneColumnOneCellOneChunk_Long (0 s) 33: OneColumnOneCellManyChunks (0 s) 33: IntegerCompression_MinimumCompression (0 s) 33: IntegerCompression_MaximumCompression (0 s) 33: IntegerCompression_MultipleValues (0 s) 33: OneColumnDefaultNoWrite (0 s) 33: OneColumnDefaultNoWrite_Long (0 s) 33: MoveAhead (0 s) 33: OneColumnDefaultOverwite (0 s) 33: OneColumnChangeDefault (0 s) 33: OneColumnDataAndDefaultsMixed (0 s) 33: TwoColumnsFullRow (0 s) 33: TwoColumnsIncompleteRow (0 s) 33: TwoColumnsPartialRowWithDefaults (0 s) 33: TwoColumnsPartialRowWithDefaultsAndOverride (0 s) 33: EmptyDefault_String (0 s) 33: EmptyDefault_Int (0 s) 33: MultipleTables_Multiple_Columns_MultipleRows (0 s) 33: AdditionalSchemaIncludePaths_Single (0 s) 33: AdditionalSchemaIncludePaths_Multiple (0 s) 33: AdditionalSchemaFiles_Single (0 s) 33: AdditionalSchemaFiles_Multiple (0 s) 33: ErrorMessage (0 s) 33: ErrorMessage_Long (0 s) 33: LogMessage (0 s) 33: ProgressMessage (0 s) 33: TargetOverride (0 s) 33: 33: *** No errors detected (0 s total) 33: Packed protocol: Running 65 test cases... 33: EmptyInput (0 s) 33: ShortInput (0 s) 33: BadSignature (0 s) 33: BadEndianness (0 s) 33: ReverseEndianness (0 s) 33: LaterVersion (0 s) 33: BadSchemaFileName (0 s) 33: BadSchemaFileName_Long (0 s) 33: BadSchemaName (0 s) 33: BadSchemaName_Long (0 s) 33: BadTableName (0 s) 33: BadTableName_Long (0 s) 33: DuplicateTableId (0 s) 33: BadColumnName (0 s) 33: BadTableId (0 s) 33: DuplicateColumnName (0 s) 33: DuplicateColumnId (0 s) 33: NoOpenStreamEvent (0 s) 33: NoCloseStreamEvent (0 s) 33: NoColumns (0 s) 33: SoftwareName (0 s) 33: SoftwareName_BadVersion (0 s) 33: DBAddDatabase (0 s) 33: DBAddSubDatabase (0 s) 33: DBAddTable (0 s) 33: DBAddTableToSubDb (0 s) 33: DBMetadataNode (0 s) 33: DBMetadataNodeAttr (0 s) 33: SubDBMetadataNode (0 s) 33: TblMetadataNode (0 s) 33: TblMetadataNodeAttr (0 s) 33: ColMetadataNode (0 s) 33: ColMetadataNodeAttr (0 s) 33: NoData (0 s) 33: Chunk_BadColumnId (0 s) 33: WriteNoCommit (0 s) 33: CommitBadTableId (0 s) 33: OneColumnOneCellOneChunk (0 s) 33: OneColumnOneCellOneChunk_Long (0 s) 33: OneColumnOneCellManyChunks (0 s) 33: IntegerCompression_MinimumCompression (0 s) 33: IntegerCompression_MaximumCompression (0 s) 33: IntegerCompression_MultipleValues (0 s) 33: OneColumnDefaultNoWrite (0 s) 33: OneColumnDefaultNoWrite_Long (0 s) 33: MoveAhead (0 s) 33: OneColumnDefaultOverwite (0 s) 33: OneColumnChangeDefault (0 s) 33: OneColumnDataAndDefaultsMixed (0 s) 33: TwoColumnsFullRow (0 s) 33: TwoColumnsIncompleteRow (0 s) 33: TwoColumnsPartialRowWithDefaults (0 s) 33: TwoColumnsPartialRowWithDefaultsAndOverride (0 s) 33: EmptyDefault_String (0 s) 33: EmptyDefault_Int (0 s) 33: MultipleTables_Multiple_Columns_MultipleRows (0 s) 33: AdditionalSchemaIncludePaths_Single (0 s) 33: AdditionalSchemaIncludePaths_Multiple (0 s) 33: AdditionalSchemaFiles_Single (0 s) 33: AdditionalSchemaFiles_Multiple (0 s) 33: ErrorMessage (0 s) 33: ErrorMessage_Long (0 s) 33: LogMessage (0 s) 33: ProgressMessage (0 s) 33: TargetOverride (0 s) 33: 33: *** No errors detected (0 s total) 5/426 Test #33: GeneralLoaderWhiteBox .................................. Passed 1.25 sec test 34 Start 34: makeinputs 34: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test-bin/makeinputs 34: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test 34: Test timeout computed to be: 1500 6/426 Test #34: makeinputs ............................................. Passed 0.01 sec test 35 Start 35: GeneralLoader-1.0-Basic-Unpacked 35: Test command: /usr/bin/sh "runtestcase.sh" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump db" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test" "1" "0" 35: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test 35: Test timeout computed to be: 1500 35: runtestcase.sh /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump db /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test 1 0 35: running test case 0 35: runtestcase.sh: line 56: test: too many arguments 35: /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump db/general-loader does not exist. Skipping the test. 7/426 Test #35: GeneralLoader-1.0-Basic-Unpacked ....................... Passed 0.01 sec test 36 Start 36: GeneralLoader-1.1-Basic-Packed 36: Test command: /usr/bin/sh "runtestcase.sh" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump db" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test" "1packed" "0" 36: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test 36: Test timeout computed to be: 1500 36: runtestcase.sh /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump db /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test 1packed 0 36: running test case 0 36: runtestcase.sh: line 56: test: too many arguments 36: /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump db/general-loader does not exist. Skipping the test. 8/426 Test #36: GeneralLoader-1.1-Basic-Packed ......................... Passed 0.01 sec test 37 Start 37: GeneralLoader-1.2-TargetDbOverride 37: Test command: /usr/bin/sh "runtestcase.sh" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump db" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test" "1override" "0" "--target actual/1override/db" 37: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test 37: Test timeout computed to be: 1500 37: runtestcase.sh /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump db /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test 1override 0 --target actual/1override/db 37: running test case 0 37: runtestcase.sh: line 56: test: too many arguments 37: /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump db/general-loader does not exist. Skipping the test. 9/426 Test #37: GeneralLoader-1.2-TargetDbOverride ..................... Passed 0.01 sec test 38 Start 38: GeneralLoader-1.3-TargetDbOverrideShorthand 38: Test command: /usr/bin/sh "runtestcase.sh" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump db" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test" "1override" "0" "-T actual/1override/db" 38: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test 38: Test timeout computed to be: 1500 38: runtestcase.sh /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump db /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test 1override 0 -T actual/1override/db 38: running test case 0 38: runtestcase.sh: line 56: test: too many arguments 38: /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump db/general-loader does not exist. Skipping the test. 10/426 Test #38: GeneralLoader-1.3-TargetDbOverrideShorthand ............ Passed 0.01 sec test 39 Start 39: GeneralLoader-2.0-ErrorMessageEvent-Unpacked 39: Test command: /usr/bin/sh "runtestcase.sh" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump db" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test" "2" "3" "-L=err" 39: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test 39: Test timeout computed to be: 1500 39: runtestcase.sh /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump db /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test 2 3 -L=err 39: running test case 3 39: runtestcase.sh: line 56: test: too many arguments 39: /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump db/general-loader does not exist. Skipping the test. 11/426 Test #39: GeneralLoader-2.0-ErrorMessageEvent-Unpacked ........... Passed 0.01 sec test 40 Start 40: GeneralLoader-2.1-ErrorMessageEvent-Packed 40: Test command: /usr/bin/sh "runtestcase.sh" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump db" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test" "2packed" "3" "-L=err" 40: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test 40: Test timeout computed to be: 1500 40: runtestcase.sh /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump db /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test 2packed 3 -L=err 40: running test case 3 40: runtestcase.sh: line 56: test: too many arguments 40: /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump db/general-loader does not exist. Skipping the test. 12/426 Test #40: GeneralLoader-2.1-ErrorMessageEvent-Packed ............. Passed 0.01 sec test 41 Start 41: GeneralLoader-3.0-EmptyDefaultValues-Unpacked 41: Test command: /usr/bin/sh "runtestcase.sh" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump db" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test" "3" "0" 41: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test 41: Test timeout computed to be: 1500 41: runtestcase.sh /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump db /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test 3 0 41: running test case 0 41: runtestcase.sh: line 56: test: too many arguments 41: /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump db/general-loader does not exist. Skipping the test. 13/426 Test #41: GeneralLoader-3.0-EmptyDefaultValues-Unpacked .......... Passed 0.01 sec test 42 Start 42: GeneralLoader-3.1-EmptyDefaultValues-Packed 42: Test command: /usr/bin/sh "runtestcase.sh" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump db" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test" "3" "0" 42: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test 42: Test timeout computed to be: 1500 42: runtestcase.sh /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump db /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test 3 0 42: running test case 0 42: runtestcase.sh: line 56: test: too many arguments 42: /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump db/general-loader does not exist. Skipping the test. 14/426 Test #42: GeneralLoader-3.1-EmptyDefaultValues-Packed ............ Passed 0.01 sec test 43 Start 43: GeneralLoader-4.0-MoveAheadEvent-Unpacked 43: Test command: /usr/bin/sh "runtestcase.sh" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump db" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test" "4" "0" 43: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test 43: Test timeout computed to be: 1500 43: runtestcase.sh /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump db /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test 4 0 43: running test case 0 43: runtestcase.sh: line 56: test: too many arguments 43: /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump db/general-loader does not exist. Skipping the test. 15/426 Test #43: GeneralLoader-4.0-MoveAheadEvent-Unpacked .............. Passed 0.01 sec test 44 Start 44: GeneralLoader-4.1-MoveAheadEvent-Packed 44: Test command: /usr/bin/sh "runtestcase.sh" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump db" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test" "4packed" "0" 44: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test 44: Test timeout computed to be: 1500 44: runtestcase.sh /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump db /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test 4packed 0 44: running test case 0 44: runtestcase.sh: line 56: test: too many arguments 44: /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump db/general-loader does not exist. Skipping the test. 16/426 Test #44: GeneralLoader-4.1-MoveAheadEvent-Packed ................ Passed 0.01 sec test 45 Start 45: GeneralLoader-5.0-IntegerConversion 45: Test command: /usr/bin/sh "runtestcase.sh" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump db" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test" "5packed" "0" 45: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test 45: Test timeout computed to be: 1500 45: runtestcase.sh /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump db /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test 5packed 0 45: running test case 0 45: runtestcase.sh: line 56: test: too many arguments 45: /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump db/general-loader does not exist. Skipping the test. 17/426 Test #45: GeneralLoader-5.0-IntegerConversion .................... Passed 0.01 sec test 46 Start 46: GeneralLoader-6.0-SoftwareName-Unpacked 46: Test command: /usr/bin/sh "runtestcase.sh" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/kdbmeta db" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test" "6" "0" "-L=info" "SOFTWARE/formatter" 46: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test 46: Test timeout computed to be: 1500 46: runtestcase.sh /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/kdbmeta db /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test 6 0 -L=info SOFTWARE/formatter 46: running test case 6 46: cat input/6.gl | /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/general-loader -L=info 1>/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test/actual/6/load.stdout 2>/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test/actual/6/load.stderr 46: Load succeeded, dumping and matching stdout 46: /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/kdbmeta db SOFTWARE/formatter 1>/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test/actual/6/dump.stdout 2>/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test/actual/6/dump.stderr 18/426 Test #46: GeneralLoader-6.0-SoftwareName-Unpacked ................ Passed 1.12 sec test 47 Start 47: GeneralLoader-6.1-SoftwareName-Packed 47: Test command: /usr/bin/sh "runtestcase.sh" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/kdbmeta db" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test" "6packed" "0" "-L=info" "SOFTWARE/formatter" 47: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test 47: Test timeout computed to be: 1500 47: runtestcase.sh /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/kdbmeta db /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test 6packed 0 -L=info SOFTWARE/formatter 47: running test case 6packed 47: cat input/6packed.gl | /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/general-loader -L=info 1>/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test/actual/6packed/load.stdout 2>/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test/actual/6packed/load.stderr 47: Load succeeded, dumping and matching stdout 47: /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/kdbmeta db SOFTWARE/formatter 1>/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test/actual/6packed/dump.stdout 2>/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test/actual/6packed/dump.stderr 19/426 Test #47: GeneralLoader-6.1-SoftwareName-Packed .................. Passed 0.18 sec test 48 Start 48: GeneralLoader-7.0-MetadataAttrsDb-Unpacked 48: Test command: /usr/bin/sh "runtestcase.sh" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/kdbmeta db" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test" "7" "0" "-L=info" "dbmeta" 48: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test 48: Test timeout computed to be: 1500 48: runtestcase.sh /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/kdbmeta db /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test 7 0 -L=info dbmeta 48: running test case 7 48: cat input/7.gl | /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/general-loader -L=info 1>/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test/actual/7/load.stdout 2>/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test/actual/7/load.stderr 48: Load succeeded, dumping and matching stdout 48: /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/kdbmeta db dbmeta 1>/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test/actual/7/dump.stdout 2>/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test/actual/7/dump.stderr 20/426 Test #48: GeneralLoader-7.0-MetadataAttrsDb-Unpacked ............. Passed 0.21 sec test 49 Start 49: GeneralLoader-7.1-MetadataAttrsDb-Packed 49: Test command: /usr/bin/sh "runtestcase.sh" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/kdbmeta db" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test" "7packed" "0" "-L=info" "dbmeta" 49: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test 49: Test timeout computed to be: 1500 49: runtestcase.sh /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/kdbmeta db /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test 7packed 0 -L=info dbmeta 49: running test case 7packed 49: cat input/7packed.gl | /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/general-loader -L=info 1>/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test/actual/7packed/load.stdout 2>/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test/actual/7packed/load.stderr 49: Load succeeded, dumping and matching stdout 49: /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/kdbmeta db dbmeta 1>/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test/actual/7packed/dump.stdout 2>/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test/actual/7packed/dump.stderr 21/426 Test #49: GeneralLoader-7.1-MetadataAttrsDb-Packed ............... Passed 0.21 sec test 50 Start 50: GeneralLoader-8.0-MetadataAttrsTbl-Unpacked 50: Test command: /usr/bin/sh "runtestcase.sh" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/kdbmeta db/tbl/REFERENCE" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test" "8" "0" "-L=info" "tblmeta" 50: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test 50: Test timeout computed to be: 1500 50: runtestcase.sh /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/kdbmeta db/tbl/REFERENCE /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test 8 0 -L=info tblmeta 50: running test case 8 50: cat input/8.gl | /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/general-loader -L=info 1>/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test/actual/8/load.stdout 2>/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test/actual/8/load.stderr 50: Load succeeded, dumping and matching stdout 50: /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/kdbmeta db/tbl/REFERENCE tblmeta 1>/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test/actual/8/dump.stdout 2>/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test/actual/8/dump.stderr 22/426 Test #50: GeneralLoader-8.0-MetadataAttrsTbl-Unpacked ............ Passed 0.21 sec test 51 Start 51: GeneralLoader-8.1-MetadataAttrsTbl-Packed 51: Test command: /usr/bin/sh "runtestcase.sh" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/kdbmeta db/tbl/REFERENCE" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test" "8packed" "0" "-L=info" "tblmeta" 51: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test 51: Test timeout computed to be: 1500 51: runtestcase.sh /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/kdbmeta db/tbl/REFERENCE /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test 8packed 0 -L=info tblmeta 51: running test case 8packed 51: cat input/8packed.gl | /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/general-loader -L=info 1>/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test/actual/8packed/load.stdout 2>/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test/actual/8packed/load.stderr 51: Load succeeded, dumping and matching stdout 51: /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/kdbmeta db/tbl/REFERENCE tblmeta 1>/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test/actual/8packed/dump.stdout 2>/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test/actual/8packed/dump.stderr 23/426 Test #51: GeneralLoader-8.1-MetadataAttrsTbl-Packed .............. Passed 0.22 sec test 52 Start 52: GeneralLoader-9.0-MetadataAttrsCol-Unpacked 52: Test command: /usr/bin/sh "runtestcase.sh" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/kdbmeta db/tbl/REFERENCE/col/PRIMARY_ALIGNMENT_IDS" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test" "9" "0" "-L=info" "colmeta" 52: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test 52: Test timeout computed to be: 1500 52: runtestcase.sh /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/kdbmeta db/tbl/REFERENCE/col/PRIMARY_ALIGNMENT_IDS /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test 9 0 -L=info colmeta 52: running test case 9 52: cat input/9.gl | /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/general-loader -L=info 1>/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test/actual/9/load.stdout 2>/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test/actual/9/load.stderr 52: Load succeeded, dumping and matching stdout 52: /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/kdbmeta db/tbl/REFERENCE/col/PRIMARY_ALIGNMENT_IDS colmeta 1>/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test/actual/9/dump.stdout 2>/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test/actual/9/dump.stderr 24/426 Test #52: GeneralLoader-9.0-MetadataAttrsCol-Unpacked ............ Passed 0.21 sec test 53 Start 53: GeneralLoader-9.1-MetadataAttrsCol-Packed 53: Test command: /usr/bin/sh "runtestcase.sh" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/kdbmeta db/tbl/REFERENCE/col/PRIMARY_ALIGNMENT_IDS" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test" "9packed" "0" "-L=info" "colmeta" 53: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test 53: Test timeout computed to be: 1500 53: runtestcase.sh /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/kdbmeta db/tbl/REFERENCE/col/PRIMARY_ALIGNMENT_IDS /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test 9packed 0 -L=info colmeta 53: running test case 9packed 53: cat input/9packed.gl | /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/general-loader -L=info 1>/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test/actual/9packed/load.stdout 2>/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test/actual/9packed/load.stderr 53: Load succeeded, dumping and matching stdout 53: /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/kdbmeta db/tbl/REFERENCE/col/PRIMARY_ALIGNMENT_IDS colmeta 1>/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test/actual/9packed/dump.stdout 2>/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test/actual/9packed/dump.stderr 25/426 Test #53: GeneralLoader-9.1-MetadataAttrsCol-Packed .............. Passed 0.22 sec test 54 Start 54: bio-end-makeinputs 54: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test-bin/bio-end-makeinputs 54: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test/vschema 54: Test timeout computed to be: 1500 26/426 Test #54: bio-end-makeinputs ..................................... Passed 0.00 sec test 55 Start 55: BioEnd-Excl-1 55: Test command: /usr/bin/sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test/vschema/runtestcase.sh" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/general-loader" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test/vschema" "bio-end" "excl-1" "0" "n" "-I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/schema:/usr/include/ncbi-vdb" "-L=debug" 55: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test/vschema 55: Test timeout computed to be: 1500 55: running test bio-end:excl-1 27/426 Test #55: BioEnd-Excl-1 .......................................... Passed 0.16 sec test 56 Start 56: BioEnd-Excl-2 56: Test command: /usr/bin/sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test/vschema/runtestcase.sh" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/general-loader" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test/vschema" "bio-end" "excl-2" "0" "n" "-I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/schema:/usr/include/ncbi-vdb" 56: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test/vschema 56: Test timeout computed to be: 1500 56: running test bio-end:excl-2 28/426 Test #56: BioEnd-Excl-2 .......................................... Passed 0.15 sec test 57 Start 57: BioEnd-Excl-3 57: Test command: /usr/bin/sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test/vschema/runtestcase.sh" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/general-loader" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test/vschema" "bio-end" "excl-3" "0" "n" "-I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/schema:/usr/include/ncbi-vdb" 57: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test/vschema 57: Test timeout computed to be: 1500 57: running test bio-end:excl-3 29/426 Test #57: BioEnd-Excl-3 .......................................... Passed 0.16 sec test 58 Start 58: BioEnd-Excl-4 58: Test command: /usr/bin/sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test/vschema/runtestcase.sh" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/general-loader" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test/vschema" "bio-end" "excl-4" "0" "n" "-I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/schema:/usr/include/ncbi-vdb" 58: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test/vschema 58: Test timeout computed to be: 1500 58: running test bio-end:excl-4 30/426 Test #58: BioEnd-Excl-4 .......................................... Passed 0.15 sec test 59 Start 59: BioEnd-Incl-1 59: Test command: /usr/bin/sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test/vschema/runtestcase.sh" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/general-loader" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test/vschema" "bio-end" "incl-1" "0" "n" "-I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/schema:/usr/include/ncbi-vdb" 59: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test/vschema 59: Test timeout computed to be: 1500 59: running test bio-end:incl-1 31/426 Test #59: BioEnd-Incl-1 .......................................... Passed 0.15 sec test 60 Start 60: IdxText-CI-1 60: Test command: /usr/bin/sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test/vschema/runtestcase.sh" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/general-loader" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test/vschema" "bio-end" "excl-1" "0" "n" "-I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/schema:/usr/include/ncbi-vdb" 60: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test/vschema 60: Test timeout computed to be: 1500 60: running test bio-end:excl-1 32/426 Test #60: IdxText-CI-1 ........................................... Passed 0.15 sec test 61 Start 61: idx-text-makeinputs 61: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test-bin/idx-text-makeinputs 61: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test/vschema 61: Test timeout computed to be: 1500 33/426 Test #61: idx-text-makeinputs .................................... Passed 0.00 sec test 62 Start 62: IdxText-ci-1 62: Test command: /usr/bin/sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test/vschema/runtestcase.sh" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/general-loader" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test/vschema" "idx-text" "ci-1" "0" "y" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test-bin/idx-text-checklookup" "-I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/schema:/usr/include/ncbi-vdb" 62: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test/vschema 62: Test timeout computed to be: 1500 62: running test idx-text:ci-1 34/426 Test #62: IdxText-ci-1 ........................................... Passed 0.16 sec test 63 Start 63: IdxText-ci-2 63: Test command: /usr/bin/sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test/vschema/runtestcase.sh" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/general-loader" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test/vschema" "idx-text" "ci-2" "0" "y" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test-bin/idx-text-checklookup" "-I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/schema:/usr/include/ncbi-vdb" 63: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test/vschema 63: Test timeout computed to be: 1500 63: running test idx-text:ci-2 35/426 Test #63: IdxText-ci-2 ........................................... Passed 0.16 sec test 64 Start 64: IdxText-ci-3 64: Test command: /usr/bin/sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test/vschema/runtestcase.sh" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/general-loader" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test/vschema" "idx-text" "ci-3" "0" "y" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test-bin/idx-text-checklookup" "-I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/schema:/usr/include/ncbi-vdb" 64: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test/vschema 64: Test timeout computed to be: 1500 64: running test idx-text:ci-3 36/426 Test #64: IdxText-ci-3 ........................................... Passed 0.15 sec test 65 Start 65: IdxText-ci-4 65: Test command: /usr/bin/sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test/vschema/runtestcase.sh" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/general-loader" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test/vschema" "idx-text" "ci-4" "0" "y" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test-bin/idx-text-checklookup" "-I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/schema:/usr/include/ncbi-vdb" 65: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test/vschema 65: Test timeout computed to be: 1500 65: running test idx-text:ci-4 37/426 Test #65: IdxText-ci-4 ........................................... Passed 0.15 sec test 66 Start 66: IdxText-ci-5 66: Test command: /usr/bin/sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test/vschema/runtestcase.sh" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/general-loader" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test/vschema" "idx-text" "ci-5" "0" "n" "-I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/schema:/usr/include/ncbi-vdb" 66: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test/vschema 66: Test timeout computed to be: 1500 66: running test idx-text:ci-5 38/426 Test #66: IdxText-ci-5 ........................................... Passed 0.11 sec test 67 Start 67: IdxText-cs-1 67: Test command: /usr/bin/sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test/vschema/runtestcase.sh" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/general-loader" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test/vschema" "idx-text" "cs-1" "0" "y" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test-bin/idx-text-checklookup" "-I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/schema:/usr/include/ncbi-vdb" 67: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test/vschema 67: Test timeout computed to be: 1500 67: running test idx-text:cs-1 39/426 Test #67: IdxText-cs-1 ........................................... Passed 0.15 sec test 68 Start 68: IdxText-cs-2 68: Test command: /usr/bin/sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test/vschema/runtestcase.sh" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/general-loader" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test/vschema" "idx-text" "cs-2" "0" "y" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test-bin/idx-text-checklookup" "-I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/schema:/usr/include/ncbi-vdb" 68: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test/vschema 68: Test timeout computed to be: 1500 68: running test idx-text:cs-2 40/426 Test #68: IdxText-cs-2 ........................................... Passed 0.15 sec test 69 Start 69: IdxText-cs-3 69: Test command: /usr/bin/sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test/vschema/runtestcase.sh" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/general-loader" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test/vschema" "idx-text" "cs-3" "0" "n" "-I/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/schema:/usr/include/ncbi-vdb" 69: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/loaders/general-loader/test/vschema 69: Test timeout computed to be: 1500 69: running test idx-text:cs-3 41/426 Test #69: IdxText-cs-3 ........................................... Passed 0.11 sec test 70 Start 70: Ref-Variation-1.0 70: Test command: /usr/bin/sh "./have-access.sh" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "ref-variation" 70: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/ref-variation/test 70: Test timeout computed to be: 1500 70: ./have-access.sh: line 6: vdb-config: command not found 70: no access to repository, skipping ref-variation test... 42/426 Test #70: Ref-Variation-1.0 ...................................... Passed 0.00 sec test 71 Start 71: Var-Expand-1.0 71: Test command: /usr/bin/sh "./have-access.sh" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "var-expand" 71: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/ref-variation/test 71: Test timeout computed to be: 1500 71: ./have-access.sh: line 6: vdb-config: command not found 71: no access to repository, skipping var-expand test... 43/426 Test #71: Var-Expand-1.0 ......................................... Passed 0.00 sec test 74 Start 74: Test_SraSearch_SearchBlock 74: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test-bin/Test_SraSearch_SearchBlock 74: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/sra-search/test 74: Test timeout computed to be: 1500 74: Running 8 test cases... 74: FgrepDumb (0 s) 74: SearchFgrepBoyerMoore (0 s) 74: SearchFgrepAho (0 s) 74: SearchAgrepDP (0 s) 74: SearchNucStrstr_NoExpr_NoCoords (0 s) 74: SearchNucStrstr_NoExpr_Coords_NotSupported (0 s) 74: SearchNucStrstr_Expr_Coords (0 s) 74: SearchSmithWaterman_Coords_NotSupported (0 s) 74: 74: *** No errors detected (0 s total) 44/426 Test #74: Test_SraSearch_SearchBlock ............................. Passed 0.01 sec test 75 Start 75: Test_SraSearchBlockWhiteBox 75: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test-bin/Test_SraSearch_SearchBlock 75: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test 75: Test timeout computed to be: 1500 75: Running 8 test cases... 75: FgrepDumb (0 s) 75: SearchFgrepBoyerMoore (0 s) 75: SearchFgrepAho (0 s) 75: SearchAgrepDP (0 s) 75: SearchNucStrstr_NoExpr_NoCoords (0 s) 75: SearchNucStrstr_NoExpr_Coords_NotSupported (0 s) 75: SearchNucStrstr_Expr_Coords (0 s) 75: SearchSmithWaterman_Coords_NotSupported (0 s) 75: 75: *** No errors detected (0 s total) 45/426 Test #75: Test_SraSearchBlockWhiteBox ............................ Passed 0.00 sec test 78 Start 78: Test_SraSearch-1.0-h 78: Test command: /usr/bin/sh "runtestcase.sh" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sra-search" "1.0-h" "--args" "-h" 78: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/sra-search/test 78: Test timeout computed to be: 1500 78: running test case 1.0-h... passed 46/426 Test #78: Test_SraSearch-1.0-h ................................... Passed 0.01 sec test 79 Start 79: Test_SraSearch-1.1-help 79: Test command: /usr/bin/sh "runtestcase.sh" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sra-search" "1.1-help" "--args" "--help" 79: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/sra-search/test 79: Test timeout computed to be: 1500 79: running test case 1.1-help... passed 47/426 Test #79: Test_SraSearch-1.1-help ................................ Passed 0.02 sec test 80 Start 80: Test_SraSearch-1.2-V 80: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/sra-search/test/execandgrep.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sra-search -V" "3.2.1" 80: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/sra-search/test 80: Test timeout computed to be: 1500 80: sra-search : 3.2.1 48/426 Test #80: Test_SraSearch-1.2-V ................................... Passed 0.01 sec test 81 Start 81: SraSearch-1.3-version 81: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/sra-search/test/execandgrep.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sra-search --version" "3.2.1" 81: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/sra-search/test 81: Test timeout computed to be: 1500 81: sra-search : 3.2.1 49/426 Test #81: SraSearch-1.3-version .................................. Passed 0.01 sec test 82 Start 82: Test_SraSearch-2.0-no-args 82: Test command: /usr/bin/sh "runtestcase.sh" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sra-search" "2.0-no-args" "--rc" "3" 82: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/sra-search/test 82: Test timeout computed to be: 1500 82: running test case 2.0-no-args... passed 50/426 Test #82: Test_SraSearch-2.0-no-args ............................. Passed 0.02 sec test 83 Start 83: Test_SraSearch-2.1-no-run 83: Test command: /usr/bin/sh "runtestcase.sh" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sra-search" "2.1-no-run" "--rc" "3" "--args" "AGCT" 83: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/sra-search/test 83: Test timeout computed to be: 1500 83: running test case 2.1-no-run... passed 51/426 Test #83: Test_SraSearch-2.1-no-run .............................. Passed 0.02 sec test 84 Start 84: Test_SraSearch-2.2-missing-algorithm 84: Test command: /usr/bin/sh "runtestcase.sh" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sra-search" "2.2-missing-algorithm" "--rc" "3" "--args" "AGCT SRR000001 -a" 84: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/sra-search/test 84: Test timeout computed to be: 1500 84: running test case 2.2-missing-algorithm... passed 52/426 Test #84: Test_SraSearch-2.2-missing-algorithm ................... Passed 0.03 sec test 85 Start 85: Test_SraSearch-2.3-bad-algorithm 85: Test command: /usr/bin/sh "runtestcase.sh" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sra-search" "2.3-bad-algorithm" "--rc" "3" "--args" "--algorithm bad AGCT SRR000001" 85: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/sra-search/test 85: Test timeout computed to be: 1500 85: running test case 2.3-bad-algorithm... passed 53/426 Test #85: Test_SraSearch-2.3-bad-algorithm ....................... Passed 0.02 sec test 102 Start 102: Test_SraSearch-6.0.1-imperfect-match-no-arg 102: Test command: /usr/bin/sh "runtestcase.sh" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sra-search" "6.0.1-imperfect-match-no-arg" "--args" "AGCTAGCTAGCT SRR000001 -S" "--rc" "3" 102: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/sra-search/test 102: Test timeout computed to be: 1500 102: running test case 6.0.1-imperfect-match-no-arg... passed 54/426 Test #102: Test_SraSearch-6.0.1-imperfect-match-no-arg ............ Passed 0.01 sec test 103 Start 103: Test_SraSearch-6.0.2-imperfect-match-bad-arg 103: Test command: /usr/bin/sh "runtestcase.sh" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sra-search" "6.0.2-imperfect-match-bad-arg" "--args" "AGCTAGCTAGCT SRR000001 -S qq" "--rc" "3" 103: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/sra-search/test 103: Test timeout computed to be: 1500 103: running test case 6.0.2-imperfect-match-bad-arg... passed 55/426 Test #103: Test_SraSearch-6.0.2-imperfect-match-bad-arg ........... Passed 0.02 sec test 104 Start 104: Test_SraSearch-6.0.3-imperfect-match-default 104: Test command: /usr/bin/sh "runtestcase.sh" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sra-search" "6.0.3-imperfect-match-default" "--args" "AGCTAGCTAGCT -S 90 SRR000001" "--rc" "3" 104: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/sra-search/test 104: Test timeout computed to be: 1500 104: running test case 6.0.3-imperfect-match-default... passed 56/426 Test #104: Test_SraSearch-6.0.3-imperfect-match-default ........... Passed 0.01 sec test 105 Start 105: Test_SraSearch-6.1-imperfect-match-fgrep-standard 105: Test command: /usr/bin/sh "runtestcase.sh" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sra-search" "6.1-imperfect-match-fgrep-standard" "--args" "AGCTAGCTAGCT --score 90 -a FgrepStandard SRR000001" "--rc" "3" 105: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/sra-search/test 105: Test timeout computed to be: 1500 105: running test case 6.1-imperfect-match-fgrep-standard... passed 57/426 Test #105: Test_SraSearch-6.1-imperfect-match-fgrep-standard ...... Passed 0.01 sec test 106 Start 106: Test_SraSearch-6.2-imperfect-match-fgrep-boyer-moore 106: Test command: /usr/bin/sh "runtestcase.sh" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sra-search" "6.2-imperfect-match-fgrep-boyer-moore" "--args" "AGCTAGCTAGCT --score 90 --algorithm FgrepBoyerMoore SRR000001" "--rc" "3" 106: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/sra-search/test 106: Test timeout computed to be: 1500 106: running test case 6.2-imperfect-match-fgrep-boyer-moore... passed 58/426 Test #106: Test_SraSearch-6.2-imperfect-match-fgrep-boyer-moore ... Passed 0.01 sec test 107 Start 107: Test_SraSearch-6.3-imperfect-match-fgrep-aho 107: Test command: /usr/bin/sh "runtestcase.sh" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sra-search" "6.3-imperfect-match-fgrep-aho" "--args" "AGCTAGCTAGCT --score 90 --algorithm FgrepAho SRR000001" "--rc" "3" 107: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/sra-search/test 107: Test timeout computed to be: 1500 107: running test case 6.3-imperfect-match-fgrep-aho... passed 59/426 Test #107: Test_SraSearch-6.3-imperfect-match-fgrep-aho ........... Passed 0.01 sec test 112 Start 112: SraSearch-6.8-imperfect-match-nucstrstr 112: Test command: /usr/bin/sh "runtestcase.sh" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sra-search" "6.8-imperfect-match-nucstrstr" "--args" "AGCTAGCTAGCT --score 90 --algorithm NucStrstr SRR000001" "--rc" "3" 112: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/sra-search/test 112: Test timeout computed to be: 1500 112: running test case 6.8-imperfect-match-nucstrstr... passed 60/426 Test #112: SraSearch-6.8-imperfect-match-nucstrstr ................ Passed 0.01 sec test 114 Start 114: Test_SraSearch-7.0.1-threads-no-arg 114: Test command: /usr/bin/sh "runtestcase.sh" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sra-search" "7.0.1-threads-no-arg" "--rc" "3" "--args" "AGCTAGCTAGCT SRR600094 SRR600095 -T" 114: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/sra-search/test 114: Test timeout computed to be: 1500 114: running test case 7.0.1-threads-no-arg... passed 61/426 Test #114: Test_SraSearch-7.0.1-threads-no-arg .................... Passed 0.02 sec test 115 Start 115: Test_SraSearch-7.0.2-threads-bad-arg 115: Test command: /usr/bin/sh "runtestcase.sh" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sra-search" "7.0.2-threads-bad-arg" "--rc" "3" "--args" "AGCTAGCTAGCT SRR600094 SRR600095 --threads -1" 115: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/sra-search/test 115: Test timeout computed to be: 1500 115: running test case 7.0.2-threads-bad-arg... passed 62/426 Test #115: Test_SraSearch-7.0.2-threads-bad-arg ................... Passed 0.02 sec test 120 Start 120: SlowTest_SraSearch-8.0-nothing-found 120: Test command: /usr/bin/sh "runtestcase.sh" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sra-search" "8.0-nothing-found" "--rc" "3" "--args" "TTTTTTTTAAAAAAACCCC -T 1 SRR000001" 120: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/sra-search/test 120: Test timeout computed to be: 1500 120: running test case 8.0-nothing-found... passed 63/426 Test #120: SlowTest_SraSearch-8.0-nothing-found ................... Passed 0.05 sec test 124 Start 124: Test_SraSearch-9.3-reference-expression 124: Test command: /usr/bin/sh "runtestcase.sh" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sra-search" "9.3-reference-expression" "--args" "ACGTAGGGTCC SRR600094 --reference --expression" "--rc" "3" 124: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/external/sra-search/test 124: Test timeout computed to be: 1500 124: running test case 9.3-reference-expression... passed 64/426 Test #124: Test_SraSearch-9.3-reference-expression ................ Passed 0.02 sec test 126 Start 126: dump-ref-fasta-1.0-h 126: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/internal/dump_ref_fasta/test/runtestcase.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/dump-ref-fasta" "1.0-h" "--args" "-h" 126: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/internal/dump_ref_fasta/test 126: Test timeout computed to be: 1500 126: /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/internal/dump_ref_fasta/test/runtestcase.sh /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/dump-ref-fasta 1.0-h --args -h 126: running test case 1.0-h... passed 65/426 Test #126: dump-ref-fasta-1.0-h ................................... Passed 0.05 sec test 127 Start 127: dump-ref-fasta-1.1-help 127: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/internal/dump_ref_fasta/test/runtestcase.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/dump-ref-fasta" "1.1-help" "--args" "--help" 127: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/internal/dump_ref_fasta/test 127: Test timeout computed to be: 1500 127: /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/internal/dump_ref_fasta/test/runtestcase.sh /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/dump-ref-fasta 1.1-help --args --help 127: running test case 1.1-help... passed 66/426 Test #127: dump-ref-fasta-1.1-help ................................ Passed 0.05 sec test 128 Start 128: dump-ref-fasta-1.2-V 128: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/internal/dump_ref_fasta/test/execandgrep.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/dump-ref-fasta -V" "3.2.1" 128: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/internal/dump_ref_fasta/test 128: Test timeout computed to be: 1500 128: dump-ref-fasta : 3.2.1 67/426 Test #128: dump-ref-fasta-1.2-V ................................... Passed 0.04 sec test 129 Start 129: dump-ref-fasta-1.3-v 129: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/internal/dump_ref_fasta/test/execandgrep.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/dump-ref-fasta -v" "3.2.1" 129: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/internal/dump_ref_fasta/test 129: Test timeout computed to be: 1500 129: dump-ref-fasta : 3.2.1 68/426 Test #129: dump-ref-fasta-1.3-v ................................... Passed 0.04 sec test 130 Start 130: dump-ref-fasta-1.4-version 130: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/internal/dump_ref_fasta/test/execandgrep.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/dump-ref-fasta --version" "3.2.1" 130: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/internal/dump_ref_fasta/test 130: Test timeout computed to be: 1500 130: dump-ref-fasta : 3.2.1 69/426 Test #130: dump-ref-fasta-1.4-version ............................. Passed 0.04 sec test 138 Start 138: PileupStats-Version 138: Test command: /usr/bin/sh "-c" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/pileup-stats -V | grep -q `head -n 1 /build/reproducible-path/sra-sdk-3.2.1+dfsg/shared/toolkit.vers`" 138: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/test-tools/pileup-stats/test 138: Test timeout computed to be: 1500 70/426 Test #138: PileupStats-Version .................................... Passed 0.01 sec test 139 Start 139: PileupStats-Help 139: Test command: /usr/bin/sh "-c" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/pileup-stats -h | grep -q Usage" 139: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/test-tools/pileup-stats/test 139: Test timeout computed to be: 1500 71/426 Test #139: PileupStats-Help ....................................... Passed 0.01 sec test 140 Start 140: PileupStats-NoArgs 140: Test command: /usr/bin/sh "-c" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/pileup-stats; if [ $? == 0 ] ; then exit 1; fi;" 140: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/test-tools/pileup-stats/test 140: Test timeout computed to be: 1500 140: 140: Usage: 140: pileup-stats [options] 140: 140: Options: 140: -o|--output-file file for output 140: (default pipe to stdout) 140: -r|--remote-db name of remote database to create 140: (default .pileup_stat) 140: -x|--depth-cutoff cutoff for depth <= value (default 1) 140: -e|--event-cutoff cutoff for number of events > value (default 1) 140: -p|--num-significant-bits number of significant bits for depth and counts to store (default 4) 140: -a|--align-category the types of alignments to pile up: 140: { primary, secondary, all } (default primary) 140: --buffer-size bytes size of output pipe buffer - default 32K bytes 140: -U|--unpack-integer don't pack integers in output pipe - uses more bandwidth 140: -h|--help output brief explanation of the program 140: -v|--verbose increase the verbosity of the program. 140: -V|--version display the version of the program then quit. 140: use multiple times for more verbosity. 140: --log-stderr log via stderr rather than general-writer API (default - general-writer API) 140: 140: /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/pileup-stats : 3.2.1 140: 72/426 Test #140: PileupStats-NoArgs ..................................... Passed 0.01 sec test 141 Start 141: PileupStats-IgnoreArgs-L 141: Test command: /usr/bin/sh "-c" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/pileup-stats -L 1; if [ $? == 0 ] ; then exit 1; fi;" 141: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/test-tools/pileup-stats/test 141: Test timeout computed to be: 1500 141: 141: Usage: 141: pileup-stats [options] 141: 141: Options: 141: -o|--output-file file for output 141: (default pipe to stdout) 141: -r|--remote-db name of remote database to create 141: (default .pileup_stat) 141: -x|--depth-cutoff cutoff for depth <= value (default 1) 141: -e|--event-cutoff cutoff for number of events > value (default 1) 141: -p|--num-significant-bits number of significant bits for depth and counts to store (default 4) 141: -a|--align-category the types of alignments to pile up: 141: { primary, secondary, all } (default primary) 141: --buffer-size bytes size of output pipe buffer - default 32K bytes 141: -U|--unpack-integer don't pack integers in output pipe - uses more bandwidth 141: -h|--help output brief explanation of the program 141: -v|--verbose increase the verbosity of the program. 141: -V|--version display the version of the program then quit. 141: use multiple times for more verbosity. 141: --log-stderr log via stderr rather than general-writer API (default - general-writer API) 141: 141: /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/pileup-stats : 3.2.1 141: 73/426 Test #141: PileupStats-IgnoreArgs-L ............................... Passed 0.01 sec test 142 Start 142: PileupStats-IgnoreArgs-z 142: Test command: /usr/bin/sh "-c" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/pileup-stats -z ignore.txt; if [ $? == 0 ] ; then exit 1; fi;" 142: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/test-tools/pileup-stats/test 142: Test timeout computed to be: 1500 142: 142: Usage: 142: pileup-stats [options] 142: 142: Options: 142: -o|--output-file file for output 142: (default pipe to stdout) 142: -r|--remote-db name of remote database to create 142: (default .pileup_stat) 142: -x|--depth-cutoff cutoff for depth <= value (default 1) 142: -e|--event-cutoff cutoff for number of events > value (default 1) 142: -p|--num-significant-bits number of significant bits for depth and counts to store (default 4) 142: -a|--align-category the types of alignments to pile up: 142: { primary, secondary, all } (default primary) 142: --buffer-size bytes size of output pipe buffer - default 32K bytes 142: -U|--unpack-integer don't pack integers in output pipe - uses more bandwidth 142: -h|--help output brief explanation of the program 142: -v|--verbose increase the verbosity of the program. 142: -V|--version display the version of the program then quit. 142: use multiple times for more verbosity. 142: --log-stderr log via stderr rather than general-writer API (default - general-writer API) 142: 142: /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/pileup-stats : 3.2.1 142: 74/426 Test #142: PileupStats-IgnoreArgs-z ............................... Passed 0.01 sec test 143 Start 143: PileupStats-IgnoreArgs-loglevel 143: Test command: /usr/bin/sh "-c" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/pileup-stats --log-level 1; if [ $? == 0 ] ; then exit 1; fi;" 143: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/test-tools/pileup-stats/test 143: Test timeout computed to be: 1500 143: 143: Usage: 143: pileup-stats [options] 143: 143: Options: 143: -o|--output-file file for output 143: (default pipe to stdout) 143: -r|--remote-db name of remote database to create 143: (default .pileup_stat) 143: -x|--depth-cutoff cutoff for depth <= value (default 1) 143: -e|--event-cutoff cutoff for number of events > value (default 1) 143: -p|--num-significant-bits number of significant bits for depth and counts to store (default 4) 143: -a|--align-category the types of alignments to pile up: 143: { primary, secondary, all } (default primary) 143: --buffer-size bytes size of output pipe buffer - default 32K bytes 143: -U|--unpack-integer don't pack integers in output pipe - uses more bandwidth 143: -h|--help output brief explanation of the program 143: -v|--verbose increase the verbosity of the program. 143: -V|--version display the version of the program then quit. 143: use multiple times for more verbosity. 143: --log-stderr log via stderr rather than general-writer API (default - general-writer API) 143: 143: /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/pileup-stats : 3.2.1 143: 75/426 Test #143: PileupStats-IgnoreArgs-loglevel ........................ Passed 0.01 sec test 144 Start 144: PileupStats-IgnoreArgs-xmllog 144: Test command: /usr/bin/sh "-c" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/pileup-stats --xml-log ignore.txt; if [ $? == 0 ] ; then exit 1; fi;" 144: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/test-tools/pileup-stats/test 144: Test timeout computed to be: 1500 144: 144: Usage: 144: pileup-stats [options] 144: 144: Options: 144: -o|--output-file file for output 144: (default pipe to stdout) 144: -r|--remote-db name of remote database to create 144: (default .pileup_stat) 144: -x|--depth-cutoff cutoff for depth <= value (default 1) 144: -e|--event-cutoff cutoff for number of events > value (default 1) 144: -p|--num-significant-bits number of significant bits for depth and counts to store (default 4) 144: -a|--align-category the types of alignments to pile up: 144: { primary, secondary, all } (default primary) 144: --buffer-size bytes size of output pipe buffer - default 32K bytes 144: -U|--unpack-integer don't pack integers in output pipe - uses more bandwidth 144: -h|--help output brief explanation of the program 144: -v|--verbose increase the verbosity of the program. 144: -V|--version display the version of the program then quit. 144: use multiple times for more verbosity. 144: --log-stderr log via stderr rather than general-writer API (default - general-writer API) 144: 144: /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/pileup-stats : 3.2.1 144: 76/426 Test #144: PileupStats-IgnoreArgs-xmllog .......................... Passed 0.01 sec test 145 Start 145: PileupStats-IgnoreArgs-xmllogfd 145: Test command: /usr/bin/sh "-c" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/pileup-stats --xml-log-fd ignore.txt; if [ $? == 0 ] ; then exit 1; fi;" 145: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/tools/test-tools/pileup-stats/test 145: Test timeout computed to be: 1500 145: 145: Usage: 145: pileup-stats [options] 145: 145: Options: 145: -o|--output-file file for output 145: (default pipe to stdout) 145: -r|--remote-db name of remote database to create 145: (default .pileup_stat) 145: -x|--depth-cutoff cutoff for depth <= value (default 1) 145: -e|--event-cutoff cutoff for number of events > value (default 1) 145: -p|--num-significant-bits number of significant bits for depth and counts to store (default 4) 145: -a|--align-category the types of alignments to pile up: 145: { primary, secondary, all } (default primary) 145: --buffer-size bytes size of output pipe buffer - default 32K bytes 145: -U|--unpack-integer don't pack integers in output pipe - uses more bandwidth 145: -h|--help output brief explanation of the program 145: -v|--verbose increase the verbosity of the program. 145: -V|--version display the version of the program then quit. 145: use multiple times for more verbosity. 145: --log-stderr log via stderr rather than general-writer API (default - general-writer API) 145: 145: /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/pileup-stats : 3.2.1 145: 77/426 Test #145: PileupStats-IgnoreArgs-xmllogfd ........................ Passed 0.01 sec test 147 Start 147: Test_VDB 147: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test-bin/Test_VDB 147: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/vdb 147: Test timeout computed to be: 1500 147: Running 38 test cases... 147: Error_RcToString (0 s) 147: Error_RcToString_English (0 s) 147: Manager_Construction (0 s) 147: RC 1426393646 thrown by ./libs/inc/vdb.hpp:259 147: Manager_Schema_Bad (0 s) 147: Manager_Schema_Good (0 s) 147: Manager_Schema_Include (0 s) 147: Manager_SchemaFromFile (0 s) 147: Manager_SchemaFromFile_Bad (0 s) 147: RC 2615477144 thrown by ./libs/inc/vdb.hpp:809 147: Manager_Database_Bad (0 s) 147: Manager_OpenDatabase_Good (0 s) 147: RC 1273301772 thrown by ./libs/inc/vdb.hpp:816 147: Manager_OpenTable_Bad (0 s) 147: Manager_OpenTable_Good (0 s) 147: Manager_PathType_Table (0 s) 147: Manager_PathType_Database (0 s) 147: Manager_PathType_Invalid (0 s) 147: RC 807538648 thrown by ./libs/inc/vdb.hpp:732 147: Database_Table_Bad (0 s) 147: Database_Table_Good (0 s) 147: Database_hasTable_Yes (0 s) 147: Database_hasTable_No (0 s) 147: Table_Default (0 s) 147: Table_Assign (0 s) 147: RC 1367638680 thrown by ./libs/inc/vdb.hpp:645 147: Table_ReadCursor1_BadColumn (0 s) 147: Table_ReadCursor1 (0 s) 147: RC 1367638680 thrown by ./libs/inc/vdb.hpp:673 147: Table_ReadCursor2_BadColumn (0 s) 147: Table_ReadCursor2 (0 s) 147: Table_PhysicaColumns (0 s) 147: Cursor_Columns (0 s) 147: Cursor_RowRange (0 s) 147: Cursor_ReadOne (0 s) 147: Cursor_ReadN (0 s) 147: Cursor_ForEach (0 s) 147: Cursor_ForEachWithFilter (0 s) 147: Cursor_IsStaticColumn_True (0 s) 147: Cursor_IsStaticColumn_False (0 s) 147: RawData_asVector_badCast (0 s) 147: RawData_asVector (0 s) 147: RawData_value_badCast (0 s) 147: RawData_value (0 s) 147: 147: *** No errors detected (1 s total) 78/426 Test #147: Test_VDB ............................................... Passed 1.24 sec test 148 Start 148: Test_WVDB 148: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test-bin/Test_WVDB 148: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/vdb 148: Test timeout computed to be: 1500 148: Running 2 test cases... 148: PlatformNames (0 s) 148: ProductionSchema (0 s) 148: 148: *** No errors detected (0 s total) 79/426 Test #148: Test_WVDB .............................................. Passed 0.90 sec test 149 Start 149: Test_SraSchema_Unit 149: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test-bin/Test_SraSchema_Unit 149: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/schema 149: Test timeout computed to be: 1500 149: Running 1 test case... 149: UseSraFunction (0 s) 149: 149: *** No errors detected (0 s total) 80/426 Test #149: Test_SraSchema_Unit .................................... Passed 0.04 sec test 150 Start 150: Test_SraSchema_454_db 150: Test command: /usr/bin/python3 "test_VDB-5250.py" 150: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/schema 150: Environment variables: 150: VDB_LIBRARY_PATH=/usr/lib/x86_64-linux-gnu 150: VDB_SRCDIR=/usr/include/ncbi-vdb/.. 150: Test timeout computed to be: 1500 81/426 Test #150: Test_SraSchema_454_db .................................. Passed 0.15 sec test 151 Start 151: Test_SraSchema_IonTorrent_db 151: Test command: /usr/bin/python3 "test_VDB-5251.py" 151: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/schema 151: Environment variables: 151: VDB_LIBRARY_PATH=/usr/lib/x86_64-linux-gnu 151: VDB_SRCDIR=/usr/include/ncbi-vdb/.. 151: Test timeout computed to be: 1500 82/426 Test #151: Test_SraSchema_IonTorrent_db ........................... Passed 0.15 sec test 152 Start 152: Test_SEARCH_agrep 152: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test-bin/Test_SEARCH_agrep 152: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/search 152: Test timeout computed to be: 1500 152: Running 39 test cases... 152: AgrepDPTest (0 s) 152: AgrepWumanberTest (0 s) 152: AgrepMyersTest (0 s) 152: AgrepMyersUnltdTest (0 s) 152: SearchCompare test is currently OFF 152: SearchCompare (0 s) 152: TestCaseAgrep test is currently OFF 152: TestCaseAgrep (0 s) 152: DumbGrep_Crash (0 s) 152: BoyerMooreGrep_Crash (0 s) 152: AhoGrep_Crash (0 s) 152: SmithWatermanTest (0 s) 152: RefVariation_crash (0 s) 152: RefVariation_bounds_N (0 s) 152: Nucstrstr_NonPositional_NotFound (0 s) 152: Nucstrstr_NonPositional_Found_AtStart (0 s) 152: Nucstrstr_NonPositional_Found_InMiddle (0 s) 152: Nucstrstr_Positional_NoExpr_NotFound (0 s) 152: Nucstrstr_Positional_NoExpr_Found_AtStart (0 s) 152: Nucstrstr_Positional_NoExpr_Found_InMiddle (0 s) 152: Nucstrstr_Positional_Not_False (0 s) 152: Nucstrstr_Positional_Not_True (0 s) 152: Nucstrstr_Positional_Caret_Found (0 s) 152: Nucstrstr_Positional_Caret_NotFound (0 s) 152: Nucstrstr_Positional_Dollar_Found (0 s) 152: Nucstrstr_Positional_Dollar_NotFound (0 s) 152: Nucstrstr_Positional_OR_Found_1 (0 s) 152: Nucstrstr_Positional_OR_Found_2 (0 s) 152: Nucstrstr_Positional_OR_Found_FirstMatchPositionReported (0 s) 152: Nucstrstr_Positional_OR_NotFound (0 s) 152: Nucstrstr_Positional_AND_Found_LastMatchPositionReported (0 s) 152: Nucstrstr_Positional_AND_NotFound (0 s) 152: Nucstrstr_Positional_AND_OR_Found_1 (0 s) 152: Nucstrstr_Positional_AND_OR_Found_2 (0 s) 152: Nucstrstr_Positional_AND_OR_Found_3 (0 s) 152: Nucstrstr_Positional_AND_OR_NOT_NotFound (0 s) 152: Nucstrstr_Positional_AND_OR_NOT_Found (0 s) 152: Nucstrstr_Positional_Error (0 s) 152: Nucstrstr_NonPositional_4NA_NotFound (0 s) 152: Nucstrstr_NonPositional_4NA_Found_AtStart (0 s) 152: Nucstrstr_NonPositional_4NA_Found_InMiddle (0 s) 152: 152: *** No errors detected (0 s total) 83/426 Test #152: Test_SEARCH_agrep ...................................... Passed 0.01 sec test 153 Start 153: Test_NgsJava_lib_load 153: Test command: /usr/bin/java "-cp" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/lib/test-ngs-java.jar:/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/lib/ngs-java.jar:/build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/ngs/ngs-java/junit-4.11.jar" "-Dvdb.System.loadLibrary=1" "-Dvdb.log=FINEST" "org.junit.runner.JUnitCore" "gov.nih.nlm.ncbi.ngs.ngs_test_lib_load" 153: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/ngs/ngs-java 153: Test timeout computed to be: 1500 153: JUnit version 4.11 153: ......... 153: Time: 0.054 153: 153: OK (9 tests) 153: 84/426 Test #153: Test_NgsJava_lib_load .................................. Passed 0.22 sec test 157 Start 157: Test_Align_Info_H 157: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/align-info "-h" 157: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/align-info 157: Test timeout computed to be: 1500 157: Usage: 157: align-info [options] 157: 157: Summary: 157: Print database alignment information 157: 157: Parameters: 157: db-path Path to the database 157: 157: Options: 157: -a|--all print all information 157: -r|--ref print refseq information [default] 157: -b|--bam print bam header (if present) 157: -Q|--qual print quality statistics (if present) 157: -H|--headers print headers for output blocks 157: --ngc path to ngc file 157: 157: -h|--help Output brief explanation for the program. 157: -V|--version Display the version of the program then 157: quit. 157: -L|--log-level Logging level as number or enum string. One 157: of (fatal|sys|int|err|warn|info|debug) or 157: (0-6) Current/default is warn. 157: -v|--verbose Increase the verbosity of the program 157: status messages. Use multiple times for more 157: verbosity. Negates quiet. 157: -q|--quiet Turn off all status messages for the 157: program. Negated by verbose. 157: --option-file Read more options and parameters from the 157: file. 157: 157: /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/align-info : 3.2.1 157: 85/426 Test #157: Test_Align_Info_H ...................................... Passed 0.01 sec test 159 Start 159: Test_Drivertool_BuildVersion 159: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test-bin/Test_Drivertool_BuildVersion 159: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/driver-tool 159: Test timeout computed to be: 1500 159: Test_Version passed. 86/426 Test #159: Test_Drivertool_BuildVersion ........................... Passed 0.00 sec test 160 Start 160: Test_Drivertool_FilePath 160: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test-bin/Test_Drivertool_FilePath 160: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/driver-tool 160: Test timeout computed to be: 1500 160: Running 29 test cases... 160: DefaultConstruct (0 s) 160: Construct_Cstring (0 s) 160: Construct_String (0 s) 160: CopyConstruct_Empty (0 s) 160: CopyConstruct (0 s) 160: Assign_Empty (0 s) 160: Assign (0 s) 160: Copy (0 s) 160: Split (0 s) 160: BaseName (0 s) 160: Append (0 s) 160: RemoveSuffix_0 (0 s) 160: RemoveSuffix (0 s) 160: RemoveSuffix_Ext (0 s) 160: RemoveSuffix_Oversized (0 s) 160: SimpleName (0 s) 160: CWD (0 s) 160: Exists (0 s) 160: CWD_Append (0 s) 160: Exists_Static (0 s) 160: Readable (0 s) 160: IsSame_Directory (0 s) 160: NotIsSame_Directory (0 s) 160: IsSame_File (0 s) 160: NotIsSame_File (0 s) 160: ChangeDirectoryToParentAndBackAgain (0 s) 160: ChangeDirectoryToFile (0 s) 160: Current_Executable (0 s) 160: Executable_Yes (0 s) 160: 160: *** No errors detected (0 s total) 87/426 Test #160: Test_Drivertool_FilePath ............................... Passed 0.00 sec test 161 Start 161: Test_Drivertool_CommandLine 161: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test-bin/Test_Drivertool_CommandLine 161: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/driver-tool 161: Test timeout computed to be: 1500 161: Test_CommandLine passed. 88/426 Test #161: Test_Drivertool_CommandLine ............................ Passed 0.00 sec test 162 Start 162: Test_Drivertool_JsonParsing 162: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test-bin/Test_Drivertool_JsonParsing 162: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/driver-tool 162: Test timeout computed to be: 1500 89/426 Test #162: Test_Drivertool_JsonParsing ............................ Passed 0.01 sec test 163 Start 163: Test_Drivertool_SDLResponse 163: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test-bin/Test_Drivertool_SDLResponse 163: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/driver-tool 163: Test timeout computed to be: 1500 90/426 Test #163: Test_Drivertool_SDLResponse ............................ Passed 0.00 sec test 164 Start 164: Test_Drivertool_Accession 164: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test-bin/Test_Drivertool_Accession 164: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/driver-tool 164: Test timeout computed to be: 1500 91/426 Test #164: Test_Drivertool_Accession .............................. Passed 0.00 sec test 165 Start 165: Test_Drivertool_UUID 165: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test-bin/Test_Drivertool_UUID 165: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/driver-tool 165: Test timeout computed to be: 1500 92/426 Test #165: Test_Drivertool_UUID ................................... Passed 0.39 sec test 166 Start 166: Test_Drivertool_RunSource 166: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test-bin/Test_Drivertool_RunSource 166: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/driver-tool 166: Test timeout computed to be: 1500 166: Running 18 test cases... 166: CopmmandLine_GetToolPath (0 s) 166: CommandLine_Defaults (0 s) 166: UnknownTool (0 s) 166: URL_parameter (0 s) 166: ConstructNoSDL (0 s) 166: ConstructSDL_false (0 s) 166: ConstructSDL_true (0 s) 166: ConstructSDL_badSDL (0 s) 166: ConstructSDL_noResults (0 s) 166: ConstructSDL_oneResult (0 s) 166: ConstructSDL_multipleFiles (0 s) 166: ConstructSDL_multipleLocations (0 s) 166: Query SRR000001: Error 400 no data 166: ConstructSDL_status_400 (0 s) 166: ConstructSDL_status_404 (0 s) 166: No usable source for SRR000001 was found. 166: SRR000001 might be available in a different cloud provider or region. 166: ConstructSDL_pileupIgnored (0 s) 166: No usable source for SRR000001 was found. 166: SRR000001 might be available in a different cloud provider or region. 166: ConstructSDL_noObject_Ignored (0 s) 166: No usable source for SRR000001 was found. 166: SRR000001 might be available in a different cloud provider or region. 166: ConstructSDL_noQuality_Ignored (0 s) 166: No usable source for SRR000001 was found. 166: SRR000001 might be available in a different cloud provider or region. 166: ConstructSDL_Encrypted_NoNGC_Skipped (0 s) 166: 166: *** No errors detected (0 s total) 93/426 Test #166: Test_Drivertool_RunSource .............................. Passed 0.01 sec test 167 Start 167: Test_Drivertool_ToolArgs 167: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test-bin/Test_Drivertool_ToolArgs 167: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/driver-tool 167: Test timeout computed to be: 1500 167: Running 1 test case... 167: ParseArgs (0 s) 167: 167: *** No errors detected (0 s total) 94/426 Test #167: Test_Drivertool_ToolArgs ............................... Passed 0.01 sec test 168 Start 168: Test_FasterqDump_Help 168: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/fasterq-dump "-h" 168: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/fasterq-dump 168: Test timeout computed to be: 1500 168: 168: Usage: 168: fasterq-dump [options] 168: fasterq-dump [options] 168: 168: Options: 168: -F|--format format (special, fastq, default=fastq) 168: -o|--outfile output-file 168: -O|--outdir output-dir 168: -b|--bufsize size of file-buffer dflt=1MB 168: -c|--curcache size of cursor-cache dflt=10MB 168: -m|--mem memory limit for sorting dflt=100MB 168: -t|--temp where to put temp. files dflt=curr dir 168: -e|--threads how many thread dflt=6 168: -p|--progress show progress 168: -x|--details print details 168: -s|--split-spot split spots into reads 168: -S|--split-files write reads into different files 168: -3|--split-3 writes single reads in special file 168: --concatenate-reads writes whole spots into one file 168: -Z|--stdout print output to stdout 168: -f|--force force to overwrite existing file(s) 168: --skip-technical skip technical reads 168: --include-technical include technical reads 168: -M|--min-read-len filter by sequence-len 168: --table which seq-table to use in case of pacbio 168: -B|--bases filter by bases 168: -A|--append append to output-file 168: --fasta produce FASTA output 168: --fasta-unsorted produce FASTA output, unsorted 168: --fasta-ref-tbl produce FASTA output from REFERENCE tbl 168: --fasta-concat-all concatenate all rows and produce FASTA 168: --internal-ref extract only internal REFERENCEs 168: --external-ref extract only external REFERENCEs 168: --ref-name extract only these REFERENCEs 168: --ref-report enumerate references 168: --use-name print name instead of seq-id 168: --seq-defline custom defline for sequence: $ac=accession, 168: $sn=spot-name, $sg=spot-group, $si=spot-id, 168: $ri=read-id, $rl=read-length 168: --qual-defline custom defline for qualities: same as 168: seq-defline 168: -U|--only-unaligned process only unaligned reads 168: -a|--only-aligned process only aligned reads 168: --disk-limit explicitly set disk-limit 168: --disk-limit-tmp explicitly set disk-limit for temp. files 168: --size-check switch to control: on=perform size-check 168: (default), off=do not perform size-check, 168: only=perform size-check only 168: --ngc PATH to ngc file 168: 168: -h|--help Output brief explanation for the program. 168: -V|--version Display the version of the program then 168: quit. 168: -L|--log-level Logging level as number or enum string. One 168: of (fatal|sys|int|err|warn|info|debug) or 168: (0-6) Current/default is warn. 168: -v|--verbose Increase the verbosity of the program 168: status messages. Use multiple times for more 168: verbosity. Negates quiet. 168: -q|--quiet Turn off all status messages for the 168: program. Negated by verbose. 168: --option-file Read more options and parameters from the 168: file. 168: for more information visit: 168: https://github.com/ncbi/sra-tools/wiki/HowTo:-fasterq-dump 168: https://github.com/ncbi/sra-tools/wiki/08.-prefetch-and-fasterq-dump 168: 168: /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/fasterq-dump : 3.2.1 168: 95/426 Test #168: Test_FasterqDump_Help .................................. Passed 0.01 sec test 169 Start 169: Test_FasterqDump_NotZeroWithoutParameters 169: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/fasterq-dump 169: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/fasterq-dump 169: Test timeout computed to be: 1500 169: 169: Usage: 169: fasterq-dump [options] 169: fasterq-dump [options] 169: 169: Options: 169: -F|--format format (special, fastq, default=fastq) 169: -o|--outfile output-file 169: -O|--outdir output-dir 169: -b|--bufsize size of file-buffer dflt=1MB 169: -c|--curcache size of cursor-cache dflt=10MB 169: -m|--mem memory limit for sorting dflt=100MB 169: -t|--temp where to put temp. files dflt=curr dir 169: -e|--threads how many thread dflt=6 169: -p|--progress show progress 169: -x|--details print details 169: -s|--split-spot split spots into reads 169: -S|--split-files write reads into different files 169: -3|--split-3 writes single reads in special file 169: --concatenate-reads writes whole spots into one file 169: -Z|--stdout print output to stdout 169: -f|--force force to overwrite existing file(s) 169: --skip-technical skip technical reads 169: --include-technical include technical reads 169: -M|--min-read-len filter by sequence-len 169: --table which seq-table to use in case of pacbio 169: -B|--bases filter by bases 169: -A|--append append to output-file 169: --fasta produce FASTA output 169: --fasta-unsorted produce FASTA output, unsorted 169: --fasta-ref-tbl produce FASTA output from REFERENCE tbl 169: --fasta-concat-all concatenate all rows and produce FASTA 169: --internal-ref extract only internal REFERENCEs 169: --external-ref extract only external REFERENCEs 169: --ref-name extract only these REFERENCEs 169: --ref-report enumerate references 169: --use-name print name instead of seq-id 169: --seq-defline custom defline for sequence: $ac=accession, 169: $sn=spot-name, $sg=spot-group, $si=spot-id, 169: $ri=read-id, $rl=read-length 169: --qual-defline custom defline for qualities: same as 169: seq-defline 169: -U|--only-unaligned process only unaligned reads 169: -a|--only-aligned process only aligned reads 169: --disk-limit explicitly set disk-limit 169: --disk-limit-tmp explicitly set disk-limit for temp. files 169: --size-check switch to control: on=perform size-check 169: (default), off=do not perform size-check, 169: only=perform size-check only 169: --ngc PATH to ngc file 169: 169: -h|--help Output brief explanation for the program. 169: -V|--version Display the version of the program then 169: quit. 169: -L|--log-level Logging level as number or enum string. One 169: of (fatal|sys|int|err|warn|info|debug) or 169: (0-6) Current/default is warn. 169: -v|--verbose Increase the verbosity of the program 169: status messages. Use multiple times for more 169: verbosity. Negates quiet. 169: -q|--quiet Turn off all status messages for the 169: program. Negated by verbose. 169: --option-file Read more options and parameters from the 169: file. 169: for more information visit: 169: https://github.com/ncbi/sra-tools/wiki/HowTo:-fasterq-dump 169: https://github.com/ncbi/sra-tools/wiki/08.-prefetch-and-fasterq-dump 169: 169: /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/fasterq-dump : 3.2.1 169: 96/426 Test #169: Test_FasterqDump_NotZeroWithoutParameters .............. Passed 0.00 sec test 171 Start 171: Test_FasterDump_Fasta_unsorted_flat_tbl_read_id 171: Test command: /usr/bin/sh "test_for_read_id_flat.sh" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" 171: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/fasterq-dump 171: Test timeout computed to be: 1500 171: spots read : 10 171: reads read : 20 171: reads written : 20 171: READ_ID1: 10 171: READ_ID2: 10 171: success testing read-id for --fasta-unsorted mode on flat table 97/426 Test #171: Test_FasterDump_Fasta_unsorted_flat_tbl_read_id ........ Passed 0.21 sec test 172 Start 172: Test_FasterDump_Fasta_unsorted_cSRA_read_id 172: Test command: /usr/bin/cmake "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/fasterq-dump" "sh" "-c" "echo 'vdb/schema/paths = "/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/schema:/usr/include/ncbi-vdb"' > tmp.kfg; ./test_for_read_id_cSRA.sh /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" 172: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/fasterq-dump 172: Test timeout computed to be: 1500 172: spots read : 10 172: reads read : 20 172: reads written : 20 172: READ_ID1: 10 172: READ_ID2: 10 172: success testing read-id for --fasta-unsorted mode on cSRA table 98/426 Test #172: Test_FasterDump_Fasta_unsorted_cSRA_read_id ............ Passed 0.53 sec test 173 Start 173: Test_Tiny_cSRA 173: Test command: /usr/bin/cmake "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/fasterq-dump" "sh" "-c" "echo 'vdb/schema/paths = "/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/schema:/usr/include/ncbi-vdb"' > tmp.kfg; ./tiny_csra.sh /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" 173: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/fasterq-dump 173: Test timeout computed to be: 1500 173: 173: testing /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/fasterq-dump on tiny cSRA-accession 173: spots read : 3 173: reads read : 3 173: reads written : 3 99/426 Test #173: Test_Tiny_cSRA ......................................... Passed 0.85 sec test 182 Start 182: Test_Prefetch_In_PATH 182: Test command: /usr/bin/cmake "-E" "env" "PATH=/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin:/bin" "sh" "-c" "prefetch -h > /dev/null" 182: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test/external/prefetch 182: Test timeout computed to be: 1500 100/426 Test #182: Test_Prefetch_In_PATH .................................. Passed 0.02 sec test 190 Start 190: SamDumpTestSetup 190: Test command: /usr/bin/sh "-c" "echo 'vdb/schema/paths = "/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/schema:/usr/include/ncbi-vdb" /LIBS/GUID="8test002-6ab7-41b2-bfd0-sam-dump-test"' > tmp.kfg" 190: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/sam-dump 190: Test timeout computed to be: 1500 101/426 Test #190: SamDumpTestSetup ....................................... Passed 0.00 sec test 191 Start 191: Test_sam_dump_verify_omit 191: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/sam-dump" "./verify_omit_qual.sh" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" 191: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/sam-dump 191: Test timeout computed to be: 1500 102/426 Test #191: Test_sam_dump_verify_omit .............................. Passed 1.15 sec test 192 Start 192: Test_sam_dump_star_quality 192: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/sam-dump" "./print_star_on_missing_qual.sh" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" 192: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/sam-dump 192: Test timeout computed to be: 1500 103/426 Test #192: Test_sam_dump_star_quality ............................. Passed 0.76 sec test 193 Start 193: Test_Srapath_Check_exit_code 193: Test command: /usr/bin/cmake "-E" "env" "VDB_CONFIG=../.." "/usr/bin/python3" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/build/check-exit-code.py" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/srapath" 193: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/srapath 193: Test timeout computed to be: 1500 193: [check-exit-code.py] test passed for [/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/srapath] 104/426 Test #193: Test_Srapath_Check_exit_code ........................... Passed 0.06 sec test 195 Start 195: Test_SraPileup_Check_exit_code 195: Test command: /usr/bin/cmake "-E" "env" "VDB_CONFIG=.." "/usr/bin/python3" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/build/check-exit-code.py" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sra-pileup" 195: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/sra-pileup 195: Test timeout computed to be: 1500 195: WARNING[TEST1] help message is in 'STDOUT' 195: [check-exit-code.py] test passed for [/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sra-pileup] 105/426 Test #195: Test_SraPileup_Check_exit_code ......................... Passed 0.09 sec test 200 Start 200: Test_VDB_Config_model 200: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/vdb-config/model.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test-bin/test-vdb-config-model" 200: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/vdb-config 200: Test timeout computed to be: 1500 200: testing /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test-bin/test-vdb-config-model 200: Running 11 test cases... 200: get_config_changed (0 s) 200: prefetch_download_to_cache (0 s) 200: user_accept_aws_charges (0 s) 200: user_accept_gcp_charges (0 s) 200: ./test/external/vdb-config/test-vdb-config-model.cpp:92: fatal error in "temp_cache_location": critical check string ( "path" ) == m . get_temp_cache_location() failed [path != /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/vdb-config/path] 200: temp_cache_location (0 s) 200: gcp_credential_file_location (0 s) 200: aws_credential_file_location (0 s) 200: aws_profile (0 s) 200: noCommit (0 s) 200: Commit (0 s) 200: Reload (0 s) 200: 200: *** 1 failure detected in test suite "VdbConfStridesModelTestSuite" 200: VDB Copy model test is finished 106/426 Test #200: Test_VDB_Config_model .................................. Passed 0.31 sec test 201 Start 201: Test_VDB_Config 201: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/vdb-config/test-vdb-config.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" 201: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/vdb-config 201: Test timeout computed to be: 1500 201: Testing /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/vdb-config... 201: VDB config test is finished 107/426 Test #201: Test_VDB_Config ........................................ Passed 0.13 sec test 202 Start 202: Test_Vdb_dump_Check_exit_code 202: Test command: /usr/bin/cmake "-E" "env" "VDB_CONFIG=.." "/usr/bin/python3" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/build/check-exit-code.py" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump" 202: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/vdb-dump 202: Test timeout computed to be: 1500 202: WARNING[TEST1] help message is in 'STDOUT' 202: [check-exit-code.py] test passed for [/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump] 108/426 Test #202: Test_Vdb_dump_Check_exit_code .......................... Passed 0.09 sec test 203 Start 203: Test_Vdb_dump_view-spec 203: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test-bin/Test_Vdb_dump_view-spec 203: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/vdb-dump 203: Test timeout computed to be: 1500 203: Running 21 test cases... 203: NullSelf (0 s) 203: NullSpec (0 s) 203: EmptySpec (0 s) 203: NullError (0 s) 203: ZeroSizeError (0 s) 203: MissingLeftAngle (0 s) 203: EmptyAngles (0 s) 203: OneParam (0 s) 203: ManyParams (0 s) 203: MissingComma (0 s) 203: MissingParam (0 s) 203: ExtraChars (0 s) 203: NestedViews (0 s) 203: ViewSpecOpen_NullSelf (0 s) 203: ViewSpecOpen_NullParam_Db (0 s) 203: ViewSpecOpen_NullParam_Schema (0 s) 203: ViewSpecOpen_NullParam_View (0 s) 203: ViewSpecOpen_WrongNumberOfParams (0 s) 203: ViewSpecOpen_ParamNotTable (0 s) 203: MakeCursor (0 s) 203: NestedView (0 s) 203: 203: *** No errors detected (0 s total) 109/426 Test #203: Test_Vdb_dump_view-spec ................................ Passed 0.05 sec test 206 Start 206: Test_VdbValidate_Unit 206: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test-bin/Test_VdbValidate_Unit 206: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/vdb-validate 206: Test timeout computed to be: 1500 206: Running 3 test cases... 206: is_sorted_empty (0 s) 206: is_sorted_sorted (0 s) 206: is_sorted_unsorted (0 s) 206: 206: *** No errors detected (0 s total) 110/426 Test #206: Test_VdbValidate_Unit .................................. Passed 0.01 sec test 210 Start 210: Test_Sra_Info_Help 210: Test command: /usr/bin/sh "-c" "ls /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sra-info>/dev/null 2>&1 && /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sra-info -h >actual/Test_Sra_Info_Help.stdout || echo no sra-info" 210: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/sra-info 210: Test timeout computed to be: 1500 111/426 Test #210: Test_Sra_Info_Help ..................................... Passed 0.01 sec test 211 Start 211: Test_Sra_Info_NoParam 211: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/sra-info/runfailtest.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sra-info" "" "." 211: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/sra-info 211: Test timeout computed to be: 1500 211: running 211: /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sra-info 1>./actual//stdout 2>./actual//stderr 112/426 Test #211: Test_Sra_Info_NoParam .................................. Passed 0.04 sec test 212 Start 212: Test_Sra_Info_MultipleParams 212: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/sra-info/runfailtest.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sra-info" "SRR000123 SRR0001234" "." 212: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/sra-info 212: Test timeout computed to be: 1500 212: running 212: /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sra-info SRR000123 SRR0001234 1>./actual//stdout 2>./actual//stderr 113/426 Test #212: Test_Sra_Info_MultipleParams ........................... Passed 0.05 sec test 213 Start 213: Test_Sra_Info_Limit_Negative 213: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/sra-info/runfailtest.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sra-info" "--spot-layout DRR032985 --limit -1" "." 213: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/sra-info 213: Test timeout computed to be: 1500 213: running 213: /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sra-info --spot-layout DRR032985 --limit -1 1>./actual//stdout 2>./actual//stderr 114/426 Test #213: Test_Sra_Info_Limit_Negative ........................... Passed 0.05 sec test 214 Start 214: Test_Sra_Info_Limit_Zero 214: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/sra-info/runfailtest.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sra-info" "--spot-layout DRR032985 --limit 0" "." 214: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/sra-info 214: Test timeout computed to be: 1500 214: running 214: /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sra-info --spot-layout DRR032985 --limit 0 1>./actual//stdout 2>./actual//stderr 115/426 Test #214: Test_Sra_Info_Limit_Zero ............................... Passed 0.04 sec test 221 Start 221: Test_Sra_Info_Platform_Format_CSV 221: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/sra-info/runtestcase.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sra-info -P ./input/MultiPlatform.sra -f csv" "." "4.1" 221: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/sra-info 221: Test timeout computed to be: 9000 221: running 4.1 221: /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sra-info -P ./input/MultiPlatform.sra -f csv 1>./actual/4.1/stdout 2>./actual/4.1/stderr 116/426 Test #221: Test_Sra_Info_Platform_Format_CSV ...................... Passed 0.17 sec test 222 Start 222: Test_Sra_Info_Platform_Format_XML 222: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/sra-info/runtestcase.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sra-info -P ./input/MultiPlatform.sra -f xml" "." "4.2" 222: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/sra-info 222: Test timeout computed to be: 9000 222: running 4.2 222: /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sra-info -P ./input/MultiPlatform.sra -f xml 1>./actual/4.2/stdout 2>./actual/4.2/stderr 117/426 Test #222: Test_Sra_Info_Platform_Format_XML ...................... Passed 0.17 sec test 223 Start 223: Test_Sra_Info_Platform_Format_Json 223: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/sra-info/runtestcase.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sra-info -P ./input/MultiPlatform.sra -f json" "." "4.3" 223: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/sra-info 223: Test timeout computed to be: 9000 223: running 4.3 223: /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sra-info -P ./input/MultiPlatform.sra -f json 1>./actual/4.3/stdout 2>./actual/4.3/stderr 118/426 Test #223: Test_Sra_Info_Platform_Format_Json ..................... Passed 0.17 sec test 224 Start 224: Test_Sra_Info_Platform_Format_Tab 224: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/sra-info/runtestcase.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sra-info -P ./input/MultiPlatform.sra -f tab" "." "4.4" 224: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/sra-info 224: Test timeout computed to be: 9000 224: running 4.4 224: /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sra-info -P ./input/MultiPlatform.sra -f tab 1>./actual/4.4/stdout 2>./actual/4.4/stderr 119/426 Test #224: Test_Sra_Info_Platform_Format_Tab ...................... Passed 0.17 sec test 227 Start 227: Test_Sra_Info_Quality_Physical 227: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/sra-info/runtestcase.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sra-info --quality ./input/MultiPlatform.sra" "." "6.1" 227: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/sra-info 227: Test timeout computed to be: 9000 227: running 6.1 227: /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sra-info --quality ./input/MultiPlatform.sra 1>./actual/6.1/stdout 2>./actual/6.1/stderr 120/426 Test #227: Test_Sra_Info_Quality_Physical ......................... Passed 0.17 sec test 242 Start 242: Test_Sra_Info_Schema_Default 242: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/sra-info/runtestcase.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sra-info --schema input/MultiPlatform.sra" "." "9.0" 242: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/sra-info 242: Test timeout computed to be: 9000 242: running 9.0 242: /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sra-info --schema input/MultiPlatform.sra 1>./actual/9.0/stdout 2>./actual/9.0/stderr 121/426 Test #242: Test_Sra_Info_Schema_Default ........................... Passed 0.14 sec test 243 Start 243: Test_Sra_Info_Schema_Json 243: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/sra-info/runtestcase.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sra-info --schema input/MultiPlatform.sra -fjson" "." "9.1" 243: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/sra-info 243: Test timeout computed to be: 9000 243: running 9.1 243: /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sra-info --schema input/MultiPlatform.sra -fjson 1>./actual/9.1/stdout 2>./actual/9.1/stderr 122/426 Test #243: Test_Sra_Info_Schema_Json .............................. Passed 0.14 sec test 244 Start 244: Test_Sra_Info_Schema_Xml 244: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/sra-info/runtestcase.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sra-info --schema input/MultiPlatform.sra -fxml" "." "9.2" 244: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/sra-info 244: Test timeout computed to be: 9000 244: running 9.2 244: /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sra-info --schema input/MultiPlatform.sra -fxml 1>./actual/9.2/stdout 2>./actual/9.2/stderr 123/426 Test #244: Test_Sra_Info_Schema_Xml ............................... Passed 0.14 sec test 245 Start 245: Test_Sra_Info_ACPQS_Default 245: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/sra-info/runtestcase.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sra-info input/MultiPlatform.sra -ACPQS" "." "10.0" 245: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/sra-info 245: Test timeout computed to be: 9000 245: running 10.0 245: /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sra-info input/MultiPlatform.sra -ACPQS 1>./actual/10.0/stdout 2>./actual/10.0/stderr 124/426 Test #245: Test_Sra_Info_ACPQS_Default ............................ Passed 0.20 sec test 246 Start 246: Test_Sra_Info_ACPQS_Json 246: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/sra-info/runtestcase.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sra-info input/MultiPlatform.sra -ACPQS -fjson" "." "10.1" 246: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/sra-info 246: Test timeout computed to be: 9000 246: running 10.1 246: /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sra-info input/MultiPlatform.sra -ACPQS -fjson 1>./actual/10.1/stdout 2>./actual/10.1/stderr 125/426 Test #246: Test_Sra_Info_ACPQS_Json ............................... Passed 0.20 sec test 247 Start 247: Test_Sra_Info_ACPQS_Xml 247: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/sra-info/runtestcase.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sra-info input/MultiPlatform.sra -ACPQS -fxml" "." "10.2" 247: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/external/sra-info 247: Test timeout computed to be: 9000 247: running 10.2 247: /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sra-info input/MultiPlatform.sra -ACPQS -fxml 1>./actual/10.2/stdout 2>./actual/10.2/stderr 126/426 Test #247: Test_Sra_Info_ACPQS_Xml ................................ Passed 0.20 sec test 257 Start 257: BamTestSetup 257: Test command: /usr/bin/sh "-c" "echo 'vdb/schema/paths = "/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/schema:/usr/include/ncbi-vdb" /LIBS/GUID="8test002-6ab7-41b2-bfd0-bamfload"' > tmp.kfg" 257: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/bam-load 257: Test timeout computed to be: 1500 127/426 Test #257: BamTestSetup ........................................... Passed 0.00 sec test 258 Start 258: Test_BamLoader_1 258: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/bam-load" "sh" "-c" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/bam-load -o out.sra test.sam" 258: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/bam-load 258: Test timeout computed to be: 1500 128/426 Test #258: Test_BamLoader_1 ....................................... Passed 0.28 sec test 259 Start 259: Test_BamLoader_MinBatchSize 259: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/bam-load" "sh" "-c" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/bam-load -o out.sra --min-batch-size 999999 test.sam" 259: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/bam-load 259: Test timeout computed to be: 1500 129/426 Test #259: Test_BamLoader_MinBatchSize ............................ Passed 0.27 sec test 260 Start 260: Test_BamLoader_MinBatchSize_Bad 260: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/bam-load" "sh" "-c" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/bam-load -o out.sra --min-batch-size notanumber test.sam" 260: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/bam-load 260: Test timeout computed to be: 1500 260: min-batch-size: bad value 260: Usage: 260: bam-load [options] 260: 260: Summary: 260: Load a BAM formatted data file 260: 260: Example: 260: bam-load -o /tmp/SRZ123456 -k analysis.bam.cfg 123456.bam 260: 260: 260: Use option --help for more information. 260: 260: 2025-04-16T01:49:57 bam-load.3.2.1 err: param incorrect while accessing argument list within application support module - load failed 130/426 Test #260: Test_BamLoader_MinBatchSize_Bad ........................ Passed 0.03 sec test 261 Start 261: Test_BamLoader_FewerThan3Threads 261: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/bam-load" "sh" "-c" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/bam-load -o out.sra --threads=2 test.sam" 261: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/bam-load 261: Test timeout computed to be: 1500 261: threads: bad value (must be an integer >=3, or 0) 261: Usage: 261: bam-load [options] 261: 261: Summary: 261: Load a BAM formatted data file 261: 261: Example: 261: bam-load -o /tmp/SRZ123456 -k analysis.bam.cfg 123456.bam 261: 261: 261: Use option --help for more information. 261: 261: 2025-04-16T01:49:57 bam-load.3.2.1 err: param incorrect while accessing argument list within application support module - load failed 131/426 Test #261: Test_BamLoader_FewerThan3Threads ....................... Passed 0.03 sec test 262 Start 262: Test_BamLoader_ThreadsBad 262: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/bam-load" "sh" "-c" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/bam-load -o out.sra --threads=N test.sam" 262: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/bam-load 262: Test timeout computed to be: 1500 262: threads: bad value (must be an integer >=3, or 0) 262: Usage: 262: bam-load [options] 262: 262: Summary: 262: Load a BAM formatted data file 262: 262: Example: 262: bam-load -o /tmp/SRZ123456 -k analysis.bam.cfg 123456.bam 262: 262: 262: Use option --help for more information. 262: 262: 2025-04-16T01:49:57 bam-load.3.2.1 err: param incorrect while accessing argument list within application support module - load failed 132/426 Test #262: Test_BamLoader_ThreadsBad .............................. Passed 0.03 sec test 263 Start 263: Test_BamLoader_platform 263: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test-bin/Test_BamLoader_platform 263: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/bam-load 263: Test timeout computed to be: 1500 133/426 Test #263: Test_BamLoader_platform ................................ Passed 0.00 sec test 264 Start 264: LatfTestSetup 264: Test command: /usr/bin/sh "-c" "echo 'vdb/schema/paths = "/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/schema:/usr/include/ncbi-vdb" /LIBS/GUID="8test002-6ab7-41b2-bfd0-latfload"' > tmp.kfg" 264: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader 264: Test timeout computed to be: 1500 134/426 Test #264: LatfTestSetup .......................................... Passed 0.00 sec test 265 Start 265: SlowTest_FastqLoader_id2name 265: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test-bin/SlowTest_FastqLoader_id2name 265: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader 265: Test timeout computed to be: 1500 265: Running 12 test cases... 265: Init_NullSelf (0 s) 265: Whack_NullSelf (0 s) 265: Init_Whack (0 s) 265: Add_NullSelf (0 s) 265: Add_NullName (0 s) 265: Get_NullSelf (0 s) 265: Get_NullRes (0 s) 265: Get_Empty (0 s) 265: Get_Found (0 s) 265: Get_NotFound (0 s) 265: AddMultiple_Get (0 s) 265: AddRealloc (0 s) 265: 265: *** No errors detected (0 s total) 135/426 Test #265: SlowTest_FastqLoader_id2name ........................... Passed 0.01 sec test 266 Start 266: Test_FastqLoader_WbFastq_dflt 266: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test-bin/Test_FastqLoader_WbFastq_dflt 266: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader 266: Test timeout computed to be: 1500 266: Running 103 test cases... 266: EmptyFile (0 s) 266: EndLines (0 s) 266: SyntaxError1 (0 s) 266: SyntaxError2 (0 s) 266: RecoveryFromErrorAtTopLevel (0 s) 266: RecoveryFromErrorInHeader (0 s) 266: RecoveryFromErrorInRead (0 s) 266: RecoveryFromErrorInQuality (0 s) 266: ErrorLineNumber (0 s) 266: Tag1 (0 s) 266: Tag2_1 (0 s) 266: Tag2_2 (0 s) 266: Tag3 (0 s) 266: Tag4 (0 s) 266: Tag5 (0 s) 266: Tag6 (0 s) 266: Tag7 (0 s) 266: Tag8 (0 s) 266: Tag9 (0 s) 266: Tag10 (0 s) 266: Tag11 (0 s) 266: Tag12 (0 s) 266: Tag13 (0 s) 266: Tag14 (0 s) 266: Tag15 (0 s) 266: NotRejected (0 s) 266: SequenceNoAlignment (0 s) 266: TestSequenceGetReadLength (0 s) 266: TestSequenceGetReadLength_MultiLine (0 s) 266: TestSequenceGetRead (0 s) 266: TestSequenceGetRead_MultiLine (0 s) 266: TestSequenceGetRead2 (0 s) 266: TestSequenceGetRead2_StopOutOfRange (0 s) 266: TestSequenceGetRead2_StartOutOfRange (0 s) 266: TestSequenceGetRead2_MultiLine_InsideFirstLine (0 s) 266: TestSequenceGetRead2_MultiLine_InsideSecondLine (0 s) 266: TestSequenceGetRead2_MultiLine_AcrossEOL (0 s) 266: TestSequenceGetRead2_MultiLine_StopOutOfRange (0 s) 266: TestSequenceGetRead2_MultiLine_StartOutOfRange (0 s) 266: SequenceGetQuality33 (0 s) 266: SequenceGetQuality64 (0 s) 266: SequenceGetQualityLogOdds (0 s) 266: SequenceBaseSpace (0 s) 266: SequenceColorSpace (0 s) 266: SequenceGetOrientationIsReverse (0 s) 266: ReadNumber (0 s) 266: ReadNumberMissing (0 s) 266: ReadNumberDefault (0 s) 266: ReadNumberOverride (0 s) 266: RunSpotRead (0 s) 266: RunSpotRead_withTail (0 s) 266: RunSpotNothing (0 s) 266: SequenceGetSpotNameIllumina (0 s) 266: SequenceGetSpotGroupIllumina (0 s) 266: SequenceGetSpotGroupIllumina_Ignored (0 s) 266: SequenceGetSpotGroup_Empty (0 s) 266: SequenceGetSpotGroup_Zero (0 s) 266: SequenceGetSpotGroupBarcode (0 s) 266: SequenceGetSpotGroupBarcode_WithPluses (0 s) 266: SequenceGetSpotGroupUnderscore (0 s) 266: HashStyleBarcodeAndReadNumbersAndJunk (0 s) 266: SequenceWasPaired1 (0 s) 266: SequenceWasPaired2 (0 s) 266: SequenceWasPaired3 (0 s) 266: SequenceWasPaired4 (0 s) 266: SequenceWasPaired5 (0 s) 266: SequenceGetSpotNameOneLine (0 s) 266: SequenceGetNameNumeric (0 s) 266: GtStartsQualityOnly (0 s) 266: OneLineRead (0 s) 266: ForcePhredOffset (0 s) 266: IlluminaCasava_1_8 (0 s) 266: IlluminaCasava_1_8_SpotGroupNumber (0 s) 266: IlluminaCasava_1_8_SpotGroup_MoreMadness (0 s) 266: IlluminaCasava_1_8_EmptyTag (0 s) 266: Illumina_NegativeCoords (0 s) 266: Illumina_Underscore (0 s) 266: Illumina_IdentifierAtFront (0 s) 266: Illumina_SpaceAndIdentifierAtFront (0 s) 266: SRR1778155 (0 s) 266: SRA192487 (0 s) 266: NoEolAtEof (0 s) 266: GtStartsReadOnly (0 s) 266: Quality33TooLow (0 s) 266: Quality64TooLow (0 s) 266: QualityLogoddsTooLow (0 s) 266: DecimalQualityRejected (0 s) 266: PacbioRaw (0 s) 266: PacbioCcs (0 s) 266: PacbioNoReadNumbers (0 s) 266: PacbioWsCcs (0 s) 266: PacbioError (0 s) 266: NotPairedRead_Error (0 s) 266: NoFragmentInfo_Error (0 s) 266: NoColonAtTheEnd_Error (0 s) 266: MissingRead (0 s) 266: UnexpectedEOLreported (0 s) 266: AnotherUnexpectedEOLreported (0 s) 266: FastqDumpOutput (0 s) 266: Barcodes_Plus (0 s) 266: Barcodes_Underscore (0 s) 266: FastqMultiLineSequenceFasta (0 s) 266: FastqMultiLineSequenceFastq (0 s) 266: 266: *** No errors detected (0 s total) 136/426 Test #266: Test_FastqLoader_WbFastq_dflt .......................... Passed 0.04 sec test 267 Start 267: Test_FastqLoader_WbFastqParse 267: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test-bin/Test_FastqLoader_WbFastqParse 267: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader 267: Test timeout computed to be: 1500 267: Running 17 test cases... 267: EmptyInput (0 s) 267: TagLine1 (0 s) 267: SequenceQuality (0 s) 267: QualityOnly (0 s) 267: NoEOL_InQuality (0 s) 267: CRnoLF (0 s) 267: CommaSeparatedQuality3 (0 s) 267: WsBeforeEol (0 s) 267: SkipToEol (0 s) 267: InlineBaseSequence (0 s) 267: BufferBreakInTag (0 s) 267: BufferBreakInMultilineRead (0 s) 267: BufferBreakInMultilineQuality (0 s) 267: ReadNumberNotSeparated (0 s) 267: ReadNumberNotSeparated_Variation (0 s) 267: BarcodesReadNumbersJunkOhMy (0 s) 267: Aviti (0 s) 267: 267: *** No errors detected (0 s total) 137/426 Test #267: Test_FastqLoader_WbFastqParse .......................... Passed 0.01 sec test 268 Start 268: Test_FastqLoader_WbFastqLoader 268: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test-bin/Test_FastqLoader_WbFastqLoader 268: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader 268: Environment variables: 268: NCBI_SETTINGS=/ 268: VDB_CONFIG=/build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader 268: Test timeout computed to be: 1500 268: Running 14 test cases... 268: CommonWriterOneFile (0 s) 268: 2025-04-16T01:49:57 Test_FastqLoader_WbFastqLoader.1.0.0 err: data inconsistent while reading file within application support module - Duplicate read name 'HWUSI-EAS499:1:3:9:1822' 268: CommonWriterDuplicateReadnames_Error (0 s) 268: 2025-04-16T01:49:57 Test_FastqLoader_WbFastqLoader.1.0.0 warn: Spot 'HWUSI-EAS499:1:3:9:1822' has already been assigned a spot id 268: CommonWriterDuplicateReadnames_Allowed (0 s) 268: 2025-04-16T01:49:57 Test_FastqLoader_WbFastqLoader.1.0.0 err: data inconsistent while reading file within application support module - Duplicate read name 'HWUSI-EAS499:1:3:9:1822' 268: CommonWriterDuplicateReadnames_SameFragment (0 s) 268: CommonWriterDuplicateReadnames_DiffFragment (0 s) 268: 2025-04-16T01:49:57 Test_FastqLoader_WbFastqLoader.1.0.0 warn: data inconsistent while reading file within application support module - Spot 'HWUSI-EAS499:1:3:9:1822', which was first seen with mate info, now has no mate info 268: 2025-04-16T01:49:57 Test_FastqLoader_WbFastqLoader.1.0.0 err: data invalid while closing table - Too many bad records: records: 2, bad records: 1, bad records percentage: 0.50, allowed percentage: 0.00 268: CommonWriterDuplicateReadnames_MatedThenUnmated (0 s) 268: 2025-04-16T01:49:57 Test_FastqLoader_WbFastqLoader.1.0.0 warn: data inconsistent while reading file within application support module - Spot 'HWUSI-EAS499:1:3:9:1822', which was first seen without mate info, now has mate info 268: 2025-04-16T01:49:57 Test_FastqLoader_WbFastqLoader.1.0.0 err: data invalid while closing table - Too many bad records: records: 2, bad records: 1, bad records percentage: 0.50, allowed percentage: 0.00 268: CommonWriterDuplicateReadnames_UnmatedThenMated (0 s) 268: NoSpotAssemply (0 s) 268: NoSpotAssemply_case2 (0 s) 268: Interleaved_OneRead (0 s) 268: Interleaved_MultipleReads (0 s) 268: Interleaved_NoMatch (0 s) 268: Interleaved_1_longer (0 s) 268: Interleaved_2_longer (0 s) 268: 268: *** No errors detected (1 s total) 138/426 Test #268: Test_FastqLoader_WbFastqLoader ......................... Passed 1.63 sec test 269 Start 269: Test_FastqLoader_1.1 269: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader" "sh" "runtestcase.sh" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader/input/1.1.fastq --quality PHRED_33" "." "1.1" "0" 269: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader 269: Test timeout computed to be: 1500 269: running 1.1 269: /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader/input/1.1.fastq --quality PHRED_33 -o ./actual/1.1/obj 1>./actual/1.1/load.stdout 2>./actual/1.1/load.stderr 139/426 Test #269: Test_FastqLoader_1.1 ................................... Passed 0.37 sec test 270 Start 270: Test_FastqLoader_1.2 270: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader" "sh" "runtestcase.sh" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader/input/1.2.fastq --quality PHRED_64" "." "1.2" "0" 270: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader 270: Test timeout computed to be: 1500 270: running 1.2 270: /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader/input/1.2.fastq --quality PHRED_64 -o ./actual/1.2/obj 1>./actual/1.2/load.stdout 2>./actual/1.2/load.stderr 140/426 Test #270: Test_FastqLoader_1.2 ................................... Passed 0.37 sec test 271 Start 271: Test_FastqLoader_1.3 271: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader" "sh" "runtestcase.sh" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader/input/1.3.fastq --quality PHRED_33" "." "1.3" "3" 271: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader 271: Test timeout computed to be: 1500 271: running 1.3 271: /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader/input/1.3.fastq --quality PHRED_33 -o ./actual/1.3/obj 1>./actual/1.3/load.stdout 2>./actual/1.3/load.stderr 141/426 Test #271: Test_FastqLoader_1.3 ................................... Passed 0.18 sec test 272 Start 272: Test_FastqLoader_1.4 272: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader" "sh" "runtestcase.sh" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader/input/1.4.fastq --quality LOGODDS" "." "1.4" "0" 272: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader 272: Test timeout computed to be: 1500 272: running 1.4 272: /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader/input/1.4.fastq --quality LOGODDS -o ./actual/1.4/obj 1>./actual/1.4/load.stdout 2>./actual/1.4/load.stderr 142/426 Test #272: Test_FastqLoader_1.4 ................................... Passed 0.38 sec test 273 Start 273: Test_FastqLoader_2.1 273: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader" "sh" "runtestcase.sh" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader/input/2.1.fastq --quality PHRED_33" "." "2.1" "0" 273: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader 273: Test timeout computed to be: 1500 273: running 2.1 273: /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader/input/2.1.fastq --quality PHRED_33 -o ./actual/2.1/obj 1>./actual/2.1/load.stdout 2>./actual/2.1/load.stderr 143/426 Test #273: Test_FastqLoader_2.1 ................................... Passed 0.39 sec test 274 Start 274: Test_FastqLoader_2.5 274: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader" "sh" "runtestcase.sh" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader/input/2.5.fastq --quality PHRED_33" "." "2.5" "0" 274: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader 274: Test timeout computed to be: 1500 274: running 2.5 274: /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader/input/2.5.fastq --quality PHRED_33 -o ./actual/2.5/obj 1>./actual/2.5/load.stdout 2>./actual/2.5/load.stderr 144/426 Test #274: Test_FastqLoader_2.5 ................................... Passed 0.40 sec test 275 Start 275: Test_FastqLoader_2.6 275: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader" "sh" "runtestcase.sh" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader/input/2.6.fastq --quality PHRED_33" "." "2.6" "0" 275: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader 275: Test timeout computed to be: 1500 275: running 2.6 275: /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader/input/2.6.fastq --quality PHRED_33 -o ./actual/2.6/obj 1>./actual/2.6/load.stdout 2>./actual/2.6/load.stderr 145/426 Test #275: Test_FastqLoader_2.6 ................................... Passed 0.43 sec test 276 Start 276: Test_FastqLoader_2.7 276: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader" "sh" "runtestcase.sh" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader/input/2.7.fastq --quality PHRED_33" "." "2.7" "3" 276: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader 276: Test timeout computed to be: 1500 276: running 2.7 276: /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader/input/2.7.fastq --quality PHRED_33 -o ./actual/2.7/obj 1>./actual/2.7/load.stdout 2>./actual/2.7/load.stderr 146/426 Test #276: Test_FastqLoader_2.7 ................................... Passed 0.19 sec test 277 Start 277: Test_FastqLoader_2.7.1 277: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader" "sh" "runtestcase.sh" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/latf-load input/2.7.fastq --quality PHRED_33 --allow_duplicates" "." "2.7.1" "0" 277: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader 277: Test timeout computed to be: 1500 277: running 2.7.1 277: /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/latf-load input/2.7.fastq --quality PHRED_33 --allow_duplicates -o ./actual/2.7.1/obj 1>./actual/2.7.1/load.stdout 2>./actual/2.7.1/load.stderr 147/426 Test #277: Test_FastqLoader_2.7.1 ................................. Passed 0.39 sec test 278 Start 278: Test_FastqLoader_2.8.1 278: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader" "sh" "runtestcase.sh" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader/input/2.8.1.fastq --quality PHRED_33" "." "2.8.1" "0" 278: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader 278: Test timeout computed to be: 1500 278: running 2.8.1 278: /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader/input/2.8.1.fastq --quality PHRED_33 -o ./actual/2.8.1/obj 1>./actual/2.8.1/load.stdout 2>./actual/2.8.1/load.stderr 148/426 Test #278: Test_FastqLoader_2.8.1 ................................. Passed 0.39 sec test 279 Start 279: Test_FastqLoader_2.9 279: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader" "sh" "runtestcase.sh" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader/input/2.9.fastq --quality PHRED_33" "." "2.9" "3" 279: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader 279: Test timeout computed to be: 1500 279: running 2.9 279: /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader/input/2.9.fastq --quality PHRED_33 -o ./actual/2.9/obj 1>./actual/2.9/load.stdout 2>./actual/2.9/load.stderr 149/426 Test #279: Test_FastqLoader_2.9 ................................... Passed 0.18 sec test 280 Start 280: Test_FastqLoader_2.9.1 280: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader" "sh" "runtestcase.sh" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader/input/2.9.1.fastq --quality PHRED_33" "." "2.9.1" "3" 280: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader 280: Test timeout computed to be: 1500 280: running 2.9.1 280: /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader/input/2.9.1.fastq --quality PHRED_33 -o ./actual/2.9.1/obj 1>./actual/2.9.1/load.stdout 2>./actual/2.9.1/load.stderr 150/426 Test #280: Test_FastqLoader_2.9.1 ................................. Passed 0.19 sec test 281 Start 281: Test_FastqLoader_3.1 281: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader" "sh" "runtestcase.sh" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/latf-load input/3.1a.fastq input/3.1b.fastq --quality PHRED_33" "." "3.1" "0" 281: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader 281: Test timeout computed to be: 1500 281: running 3.1 281: /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/latf-load input/3.1a.fastq input/3.1b.fastq --quality PHRED_33 -o ./actual/3.1/obj 1>./actual/3.1/load.stdout 2>./actual/3.1/load.stderr 151/426 Test #281: Test_FastqLoader_3.1 ................................... Passed 0.38 sec test 282 Start 282: Test_FastqLoader_4.1 282: Test command: /usr/bin/cmake "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader" "sh" "-c" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/latf-load ./input/4.fastq --tmpfs ./actual -v -o actual/4.1.obj --quality PHRED_33 2>&1 | grep "Path for scratch files: ./actual/key2id"" 282: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader 282: Test timeout computed to be: 1500 282: 2025-04-16T01:50:03 latf-load.3.2.1: Path for scratch files: ./actual/key2id.2175294.1 152/426 Test #282: Test_FastqLoader_4.1 ................................... Passed 0.20 sec test 283 Start 283: Test_FastqLoader_4.2 283: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader" "sh" "runtestcase.sh" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/latf-load input/4.fastq --qual-quant 1:10,10:20,20:30,30:- --quality PHRED_33" "." "4.2" "0" 283: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader 283: Test timeout computed to be: 1500 283: running 4.2 283: /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/latf-load input/4.fastq --qual-quant 1:10,10:20,20:30,30:- --quality PHRED_33 -o ./actual/4.2/obj 1>./actual/4.2/load.stdout 2>./actual/4.2/load.stderr 153/426 Test #283: Test_FastqLoader_4.2 ................................... Passed 0.38 sec test 284 Start 284: Test_FastqLoader_4.3.1 284: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader" "sh" "runtestcase.sh" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/latf-load input/4.fastq --cache-size BIG --quality PHRED_33" "." "4.3.1" "3" 284: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader 284: Test timeout computed to be: 1500 284: running 4.3.1 284: /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/latf-load input/4.fastq --cache-size BIG --quality PHRED_33 -o ./actual/4.3.1/obj 1>./actual/4.3.1/load.stdout 2>./actual/4.3.1/load.stderr 154/426 Test #284: Test_FastqLoader_4.3.1 ................................. Passed 0.05 sec test 285 Start 285: Test_FastqLoader_4.5 285: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader" "sh" "runtestcase.sh" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader/input/4.5.fastq --max-err-count 2 --quality PHRED_33" "." "4.5" "3" 285: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader 285: Test timeout computed to be: 1500 285: running 4.5 285: /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader/input/4.5.fastq --max-err-count 2 --quality PHRED_33 -o ./actual/4.5/obj 1>./actual/4.5/load.stdout 2>./actual/4.5/load.stderr 155/426 Test #285: Test_FastqLoader_4.5 ................................... Passed 0.18 sec test 286 Start 286: Test_FastqLoader_4.5.2 286: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader" "sh" "runtestcase.sh" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader/input/4.5.2.fastq --platform ILLUMINA --quality PHRED_33 --max-err-count 2" "." "4.5.2" "3" 286: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader 286: Test timeout computed to be: 1500 286: running 4.5.2 286: /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader/input/4.5.2.fastq --platform ILLUMINA --quality PHRED_33 --max-err-count 2 -o ./actual/4.5.2/obj 1>./actual/4.5.2/load.stdout 2>./actual/4.5.2/load.stderr 156/426 Test #286: Test_FastqLoader_4.5.2 ................................. Passed 0.19 sec test 287 Start 287: Test_FastqLoader_4.6 287: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader" "sh" "runtestcase.sh" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/latf-load input/4.fastq -p LS454 --quality PHRED_33" "." "4.6" "0" 287: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader 287: Test timeout computed to be: 1500 287: running 4.6 287: /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/latf-load input/4.fastq -p LS454 --quality PHRED_33 -o ./actual/4.6/obj 1>./actual/4.6/load.stdout 2>./actual/4.6/load.stderr 157/426 Test #287: Test_FastqLoader_4.6 ................................... Passed 0.40 sec test 288 Start 288: Test_FastqLoader_4.6.1 288: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader" "sh" "runtestcase.sh" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/latf-load input/4.fastq -p SOMETHINGELSE --quality PHRED_33" "." "4.6.1" "3" 288: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader 288: Test timeout computed to be: 1500 288: running 4.6.1 288: /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/latf-load input/4.fastq -p SOMETHINGELSE --quality PHRED_33 -o ./actual/4.6.1/obj 1>./actual/4.6.1/load.stdout 2>./actual/4.6.1/load.stderr 158/426 Test #288: Test_FastqLoader_4.6.1 ................................. Passed 0.05 sec test 289 Start 289: Test_FastqLoader_4.7 289: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader" "sh" "runtestcase.sh" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/latf-load input/not_there --quality PHRED_33" "." "4.7" "3" 289: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader 289: Test timeout computed to be: 1500 289: running 4.7 289: /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/latf-load input/not_there --quality PHRED_33 -o ./actual/4.7/obj 1>./actual/4.7/load.stdout 2>./actual/4.7/load.stderr 159/426 Test #289: Test_FastqLoader_4.7 ................................... Passed 0.18 sec test 290 Start 290: Test_FastqLoader_4.8 290: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader" "sh" "runtestcase.sh" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/latf-load input/4.8.fastq --quality PHRED_33 --no-readnames" "." "4.8" "0" 290: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader 290: Test timeout computed to be: 1500 290: running 4.8 290: /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/latf-load input/4.8.fastq --quality PHRED_33 --no-readnames -o ./actual/4.8/obj 1>./actual/4.8/load.stdout 2>./actual/4.8/load.stderr 160/426 Test #290: Test_FastqLoader_4.8 ................................... Passed 0.38 sec test 291 Start 291: Test_FastqLoader_5.0 291: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader" "sh" "runtestcase.sh" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/latf-load input/5.0.fastq.gz --quality PHRED_33" "." "5.0" "0" 291: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader 291: Test timeout computed to be: 1500 291: running 5.0 291: /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/latf-load input/5.0.fastq.gz --quality PHRED_33 -o ./actual/5.0/obj 1>./actual/5.0/load.stdout 2>./actual/5.0/load.stderr 161/426 Test #291: Test_FastqLoader_5.0 ................................... Passed 0.38 sec test 292 Start 292: Test_FastqLoader_6.0 292: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader" "sh" "runtestcase.sh" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/latf-load input/6.0.fastq --quality PHRED_33" "." "6.0" "0" 292: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader 292: Test timeout computed to be: 1500 292: running 6.0 292: /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/latf-load input/6.0.fastq --quality PHRED_33 -o ./actual/6.0/obj 1>./actual/6.0/load.stdout 2>./actual/6.0/load.stderr 162/426 Test #292: Test_FastqLoader_6.0 ................................... Passed 0.39 sec test 293 Start 293: Test_FastqLoader_7.1 293: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader" "sh" "runtestcase.sh" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader/input/7.1.fastq --platform=PACBIO --quality PHRED_33" "." "7.1" "0" 293: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader 293: Test timeout computed to be: 1500 293: running 7.1 293: /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader/input/7.1.fastq --platform=PACBIO --quality PHRED_33 -o ./actual/7.1/obj 1>./actual/7.1/load.stdout 2>./actual/7.1/load.stderr 163/426 Test #293: Test_FastqLoader_7.1 ................................... Passed 0.39 sec test 294 Start 294: Test_FastqLoader_7.2 294: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader" "sh" "runtestcase.sh" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader/input/7.2.fastq --platform=PACBIO --quality PHRED_33" "." "7.2" "0" 294: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader 294: Test timeout computed to be: 1500 294: running 7.2 294: /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader/input/7.2.fastq --platform=PACBIO --quality PHRED_33 -o ./actual/7.2/obj 1>./actual/7.2/load.stdout 2>./actual/7.2/load.stderr 164/426 Test #294: Test_FastqLoader_7.2 ................................... Passed 0.39 sec test 295 Start 295: Test_FastqLoader_7.3 295: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader" "sh" "runtestcase.sh" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader/input/7.3.fastq --platform=PACBIO --quality PHRED_33" "." "7.3" "0" 295: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader 295: Test timeout computed to be: 1500 295: running 7.3 295: /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader/input/7.3.fastq --platform=PACBIO --quality PHRED_33 -o ./actual/7.3/obj 1>./actual/7.3/load.stdout 2>./actual/7.3/load.stderr 165/426 Test #295: Test_FastqLoader_7.3 ................................... Passed 0.39 sec test 296 Start 296: Test_FastqLoader_8.0 296: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader" "sh" "runtestcase.sh" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader/input/8.0.fastq --quality PHRED_33" "." "8.0" "0" 296: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader 296: Test timeout computed to be: 1500 296: running 8.0 296: /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader/input/8.0.fastq --quality PHRED_33 -o ./actual/8.0/obj 1>./actual/8.0/load.stdout 2>./actual/8.0/load.stderr 166/426 Test #296: Test_FastqLoader_8.0 ................................... Passed 0.38 sec test 297 Start 297: Test_FastqLoader_8.1 297: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader" "sh" "runtestcase.sh" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader/input/8.1.fastq --quality PHRED_33" "." "8.1" "3" 297: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader 297: Test timeout computed to be: 1500 297: running 8.1 297: /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader/input/8.1.fastq --quality PHRED_33 -o ./actual/8.1/obj 1>./actual/8.1/load.stdout 2>./actual/8.1/load.stderr 167/426 Test #297: Test_FastqLoader_8.1 ................................... Passed 0.20 sec test 298 Start 298: Test_FastqLoader_9.0 298: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader" "sh" "runtestcase.sh" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader/input/9.0.fastq --quality PHRED_33" "." "9.0" "0" 298: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader 298: Test timeout computed to be: 1500 298: running 9.0 298: /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader/input/9.0.fastq --quality PHRED_33 -o ./actual/9.0/obj 1>./actual/9.0/load.stdout 2>./actual/9.0/load.stderr 168/426 Test #298: Test_FastqLoader_9.0 ................................... Passed 0.39 sec test 299 Start 299: Test_FastqLoader_10.0 299: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader" "sh" "runtestcase.sh" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader/input/10.0.fastq --quality PHRED_33" "." "10.0" "0" 299: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader 299: Test timeout computed to be: 1500 299: running 10.0 299: /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader/input/10.0.fastq --quality PHRED_33 -o ./actual/10.0/obj 1>./actual/10.0/load.stdout 2>./actual/10.0/load.stderr 169/426 Test #299: Test_FastqLoader_10.0 .................................. Passed 0.39 sec test 300 Start 300: Test_FastqLoader_11.0 300: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader" "sh" "runtestcase.sh" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/latf-load input/11.0.1.fasta input/11.0.2.fasta --quality PHRED_33" "." "11.0" "0" 300: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader 300: Test timeout computed to be: 1500 300: running 11.0 300: /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/latf-load input/11.0.1.fasta input/11.0.2.fasta --quality PHRED_33 -o ./actual/11.0/obj 1>./actual/11.0/load.stdout 2>./actual/11.0/load.stderr 170/426 Test #300: Test_FastqLoader_11.0 .................................. Passed 0.39 sec test 301 Start 301: Test_FastqLoader_11.1 301: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader" "sh" "runtestcase.sh" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/latf-load input/11.1.1.fastq input/11.1.2.fastq --quality PHRED_33" "." "11.1" "0" 301: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader 301: Test timeout computed to be: 1500 301: running 11.1 301: /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/latf-load input/11.1.1.fastq input/11.1.2.fastq --quality PHRED_33 -o ./actual/11.1/obj 1>./actual/11.1/load.stdout 2>./actual/11.1/load.stderr 171/426 Test #301: Test_FastqLoader_11.1 .................................. Passed 0.39 sec test 302 Start 302: Test_FastqLoader_12.0 302: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader" "sh" "runtestcase.sh" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader/input/12.0.fastq --quality PHRED_33 --ignore-illumina-tags" "." "12.0" "0" 302: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader 302: Test timeout computed to be: 1500 302: running 12.0 302: /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader/input/12.0.fastq --quality PHRED_33 --ignore-illumina-tags -o ./actual/12.0/obj 1>./actual/12.0/load.stdout 2>./actual/12.0/load.stderr 172/426 Test #302: Test_FastqLoader_12.0 .................................. Passed 0.40 sec test 303 Start 303: Test_FastqLoader_12.1 303: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader" "sh" "runtestcase.sh" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader/input/12.1.fastq --quality PHRED_33" "." "12.1" "0" 303: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader 303: Test timeout computed to be: 1500 303: running 12.1 303: /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader/input/12.1.fastq --quality PHRED_33 -o ./actual/12.1/obj 1>./actual/12.1/load.stdout 2>./actual/12.1/load.stderr 173/426 Test #303: Test_FastqLoader_12.1 .................................. Passed 0.40 sec test 304 Start 304: Test_FastqLoader_12.2 304: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader" "sh" "runtestcase.sh" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader/input/12.2.fastq --quality PHRED_33" "." "12.2" "0" 304: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader 304: Test timeout computed to be: 1500 304: running 12.2 304: /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader/input/12.2.fastq --quality PHRED_33 -o ./actual/12.2/obj 1>./actual/12.2/load.stdout 2>./actual/12.2/load.stderr 174/426 Test #304: Test_FastqLoader_12.2 .................................. Passed 0.38 sec test 305 Start 305: Test_FastqLoader_13.0 305: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader" "sh" "runtestcase.sh" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader/input/13.0.fastq --quality PHRED_33" "." "13.0" "0" 305: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader 305: Test timeout computed to be: 1500 305: running 13.0 305: /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader/input/13.0.fastq --quality PHRED_33 -o ./actual/13.0/obj 1>./actual/13.0/load.stdout 2>./actual/13.0/load.stderr 175/426 Test #305: Test_FastqLoader_13.0 .................................. Passed 0.38 sec test 306 Start 306: Test_FastqLoader_13.1 306: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader" "sh" "runtestcase.sh" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader/input/13.1.fastq --quality PHRED_33" "." "13.1" "0" 306: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader 306: Test timeout computed to be: 1500 306: running 13.1 306: /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader/input/13.1.fastq --quality PHRED_33 -o ./actual/13.1/obj 1>./actual/13.1/load.stdout 2>./actual/13.1/load.stderr 176/426 Test #306: Test_FastqLoader_13.1 .................................. Passed 0.40 sec test 307 Start 307: Test_FastqLoader_14.0 307: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader" "sh" "runtestcase.sh" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/latf-load input/14.0.fasta --quality PHRED_33" "." "14.0" "0" 307: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader 307: Test timeout computed to be: 1500 307: running 14.0 307: /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/latf-load input/14.0.fasta --quality PHRED_33 -o ./actual/14.0/obj 1>./actual/14.0/load.stdout 2>./actual/14.0/load.stderr 177/426 Test #307: Test_FastqLoader_14.0 .................................. Passed 0.39 sec test 308 Start 308: Test_FastqLoader_15.0 308: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader" "sh" "runtestcase.sh" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump -x READ_SEG" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/latf-load ./input/15.0.fastq --quality PHRED_33" "." "15.0" "0" 308: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader 308: Test timeout computed to be: 1500 308: running 15.0 308: /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/latf-load ./input/15.0.fastq --quality PHRED_33 -o ./actual/15.0/obj 1>./actual/15.0/load.stdout 2>./actual/15.0/load.stderr 178/426 Test #308: Test_FastqLoader_15.0 .................................. Passed 0.46 sec test 309 Start 309: Test_FastqLoader_16.0 309: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader" "sh" "runtestcase.sh" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/latf-load input/16.0.fasta --quality PHRED_33 --platform=PACBIO" "." "16.0" "0" 309: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader 309: Test timeout computed to be: 1500 309: running 16.0 309: /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/latf-load input/16.0.fasta --quality PHRED_33 --platform=PACBIO -o ./actual/16.0/obj 1>./actual/16.0/load.stdout 2>./actual/16.0/load.stderr 179/426 Test #309: Test_FastqLoader_16.0 .................................. Passed 0.43 sec test 310 Start 310: Test_FastqLoader_16.1 310: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader" "sh" "runtestcase.sh" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/latf-load input/16.1.fastq --quality PHRED_33 --platform=PACBIO" "." "16.1" "0" 310: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader 310: Test timeout computed to be: 1500 310: running 16.1 310: /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/latf-load input/16.1.fastq --quality PHRED_33 --platform=PACBIO -o ./actual/16.1/obj 1>./actual/16.1/load.stdout 2>./actual/16.1/load.stderr 180/426 Test #310: Test_FastqLoader_16.1 .................................. Passed 0.40 sec test 311 Start 311: Test_FastqLoader_17.0 311: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader" "sh" "runtestcase.sh" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader/input/17.0.fastq --quality PHRED_33" "." "17.0" "3" 311: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader 311: Test timeout computed to be: 1500 311: running 17.0 311: /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader/input/17.0.fastq --quality PHRED_33 -o ./actual/17.0/obj 1>./actual/17.0/load.stdout 2>./actual/17.0/load.stderr 181/426 Test #311: Test_FastqLoader_17.0 .................................. Passed 0.19 sec test 312 Start 312: Test_FastqLoader_18.0 312: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader" "sh" "runtestcase.sh" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader/input/18.0.fastq --quality PHRED_33" "." "18.0" "3" 312: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader 312: Test timeout computed to be: 1500 312: running 18.0 312: /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/fastq-loader/input/18.0.fastq --quality PHRED_33 -o ./actual/18.0/obj 1>./actual/18.0/load.stdout 2>./actual/18.0/load.stderr 182/426 Test #312: Test_FastqLoader_18.0 .................................. Passed 0.19 sec test 314 Start 314: Test_KAPP_qfile 314: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test-bin/Test_KAPP_qfile 314: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/loader 314: Test timeout computed to be: 1500 314: start-position : 0 314: queue-size : 1024 314: block-size : 0 314: chunk-size : 1024 183/426 Test #314: Test_KAPP_qfile ........................................ Passed 0.00 sec test 315 Start 315: Test_LOADERFILE 315: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test-bin/Test_LOADERFILE 315: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/loader 315: Test timeout computed to be: 1500 315: Running 5 test cases... 315: KQueueFile_ReadTimeout_FGsleeps (2 s) 315: KQueueFile_ReadTimeout_BGsleeps (3 s) 315: KQueueFile_WriteTimeout (2 s) 315: KLoaderFile_eolBeforeEof (0 s) 315: KLoaderFile_noEolBeforeEof (0 s) 315: 315: *** No errors detected (7 s total) 184/426 Test #315: Test_LOADERFILE ........................................ Passed 7.02 sec test 316 Start 316: Test_LOADER 316: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test-bin/Test_LOADER 316: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/loader 316: Test timeout computed to be: 1500 316: Running 2 test cases... 316: LoaderMeta_Write (0 s) 316: LoaderMeta_WriteWithVersion (0 s) 316: 316: *** No errors detected (0 s total) 185/426 Test #316: Test_LOADER ............................................ Passed 0.08 sec test 317 Start 317: Test_regexpr 317: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test-bin/test-regexpr 317: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq 317: Test timeout computed to be: 1500 317: Running 4 test cases... 317: Construction (0 s) 317: LastInput (0 s) 317: NoMatch (0 s) 317: YesMatch (0 s) 317: 317: *** No errors detected (0 s total) 186/426 Test #317: Test_regexpr ........................................... Passed 0.02 sec test 318 Start 318: Test_sharq_reader 318: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test-bin/test-sharq-reader 318: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq 318: Test timeout computed to be: 1500 318: Running 111 test cases... 318: SplitString (0 s) 318: SplitStringPiece (0 s) 318: EmptyFile (0 s) 318: EndLines (0 s) 318: InvalidDefline (0 s) 318: InvalidDeflineError (0 s) 318: GoodRead (0 s) 318: GoodReadFollowedByJunk (0 s) 318: MultiLineRead (0 s) 318: NoLastLF (0 s) 318: InvalidSequence (0 s) 318: EmptyQuality (0 s) 318: EmptyQualityAtTheEnd (0 s) 318: EmptyQuality2 (0 s) 318: TestSequence (0 s) 318: TestFingerprint (0 s) 318: TestSequence_Multi (0 s) 318: UridineTranslation (0 s) 318: IlluminaNew1 (0 s) 318: IlluminaNew2 (0 s) 318: IlluminaNew3 (0 s) 318: IlluminaNew4 (0 s) 318: IlluminaNew5 (0 s) 318: IlluminaNew6 (0 s) 318: IlluminaNew7 (0 s) 318: IlluminaNew8 (0 s) 318: IlluminaNew9 (0 s) 318: IlluminaNew10 (0 s) 318: IlluminaNew11 (0 s) 318: IlluminaNew12 (0 s) 318: IlluminaNew13 (0 s) 318: IlluminaNew14 (0 s) 318: IlluminaNew15 (0 s) 318: IlluminaNew16 (0 s) 318: IlluminaNew17 (0 s) 318: IlluminaNew18 (0 s) 318: IlluminaNew19 (0 s) 318: IlluminaNew20 (0 s) 318: IlluminaNew21 (0 s) 318: IlluminaNew22 (0 s) 318: IonTorrent2 (0 s) 318: IlluminaNewDataGroup1 (0 s) 318: BGI1 (0 s) 318: BGI2 (0 s) 318: BGI3 (0 s) 318: BGIOld1 (0 s) 318: BgiOld8 (0 s) 318: BgiNewd8 (0 s) 318: IlluminaNoPrefix (0 s) 318: SequenceGetSpotGroupBarcode (0 s) 318: BarCode_Plus (0 s) 318: BarCode_Underscore (0 s) 318: NoColonAtTheEnd_Error (0 s) 318: SequenceGetSpotGroupUnderscore (0 s) 318: RetainIlluminaSuffix (0 s) 318: RetainBgiSuffix (0 s) 318: Test_get_next_spot_empty (0 s) 318: Test_get_next_spot (0 s) 318: Test_get_next_spot_multi_2 (0 s) 318: Test_get_next_spot_multi_1 (0 s) 318: Test_get_spot_empty (0 s) 318: Test_get_spot_no_match (0 s) 318: Test_get_spot_no_match2 (0 s) 318: Test_get_spot_match (0 s) 318: Test_get_spot_match_multi (0 s) 318: Test_get_spot_match_multi_skip (0 s) 318: Test_get_spot_match_multi_skip_2 (0 s) 318: IlluminaCasava_1_8 (0 s) 318: IlluminaCasava_1_8_SpotGroupNumber (0 s) 318: IlluminaCasava_1_8_SpotGroup_MoreMadness (0 s) 318: IlluminaCasava_1_8_EmptyTag (0 s) 318: Illumina_Underscore (0 s) 318: SRA192487 (0 s) 318: BgiNew8Digit (0 s) 318: Quality33TooLow (0 s) 318: Quality33Adjusteed (0 s) 318: Quality64TooLow (0 s) 318: Quality64Adjusted (0 s) 318: [2025-04-16 15:50:20.636] [warning] [code:130] Read DG7PMJN1:293:D12THACXX:2:1101:1161:1968: quality score length exceeds sequence length 318: TextQualityTruncated (0 s) 318: TextQualityAccepted (0 s) 318: TextQualityAdjusted (0 s) 318: [2025-04-16 15:50:20.648] [warning] [code:130] Read DG7PMJN1:293:D12THACXX:2:1101:1161:1968: quality score length exceeds sequence length 318: QualityTooLongTruncated (0 s) 318: Aviti (0 s) 318: Nanopore1_readno_early (0 s) 318: Nanopore1_readno_late (0 s) 318: Nanopore2 (0 s) 318: Nanopore3 (0 s) 318: Nanopore3_1 (0 s) 318: Nanopore4 (0 s) 318: Nanopore4_WithBarcode (0 s) 318: Nanopore4_WithBarcodeUnclassified (0 s) 318: Nanopore4_EmptyChannel (0 s) 318: Nanopore5 (0 s) 318: Nanopore_DefaultReadno (0 s) 318: Nanopore_ReadNoIsAFile (0 s) 318: Nanopore_ReadFilter_Default (0 s) 318: Nanopore_ReadFilter_Pass (0 s) 318: Nanopore_ReadFilter_Fail (0 s) 318: Nanopore_Barcode_BC (0 s) 318: Nanopore_Barcode_Edit (0 s) 318: LS454_1 (0 s) 318: LS454_2 (0 s) 318: LS454_3 (0 s) 318: LS454_4 (0 s) 318: LS454_5 (0 s) 318: LS454_6 (0 s) 318: IonTorrent, case 0: @A313D:7:49 318: IonTorrent, case 1: @RD4FE:00027:00172 318: IonTorrent, case 2: @ONBWR:00329:02356/1 318: IonTorrent, case 3: >311CX:3560:2667 length=347 318: IonTorrent, case 4: @SEDCJ:00674:05781 1:N:0:AAAAA 318: IonTorrent, case 5: @ONBWR:00329:02356#GGTCATTT+TAGGTATG/2 318: IonTorrentTests (0 s) 318: IlluminaOldColon, case 0: @HWIEAS210R_0014:3:28:1070:11942#ATCCCG/1 318: IlluminaOldColon, case 1: @FCABM5A:1:1101:15563:1926#CTAGCGCT_CATTGCTT/1 318: IlluminaOldColon, case 2: @HWI-ST1374:1:1101:1161:2060#0/1 318: IlluminaOldColon, case 3: @ID57_120908_30E4FAAXX:3:1:1772:953/1 318: IlluminaOldColon, case 4: @R1:1:221:197:649/1 318: IlluminaOldColon, case 5: @R16:8:1:0:1617#0/1 318: IlluminaOldColon, case 6: @rumen9533:0:0:0:5 318: IlluminaOldColon, case 7: @HWUSI-BETA8_3:7:1:-1:14 318: IlluminaOldColon, case 8: @IL10_334:1:1:4:606 318: IlluminaOldColon, case 9: @HWUSI-EAS517-74:3:1:1023:8178/1 ~ RGR:Uk6; 318: IlluminaOldColon, case 10: @FCC19K2ACXX:3:1101:1485:2170#/1 318: IlluminaOldColon, case 11: @AMS2007273_SHEN-MISEQ01:47:1:1:12958:1771:0:1#0 318: IlluminaOldColon, case 12: @AMS2007273_SHEN-MISEQ01:47:1:1:17538:1769:0:0#0 318: IlluminaOldColon, case 13: @120315_SN711_0193_BC0KW7ACXX:1:1101:1419:2074:1#0/1 318: IlluminaOldColon, case 14: HWI-ST155_0544:1:1:6804:2058#0/1 318: IlluminaOldColon, case 15: @HWI-ST225:626:C2Y82ACXX:3:1208:2931:82861_1 318: IlluminaOldColon, case 16: @D3LH75P1:1:1101:1054:2148:0 1:1 318: IlluminaOldColon, case 17: @HWI-ST225:626:C2Y82ACXX:3:1208:2222:82880_1 318: IlluminaOldColon, case 18: @FCA5PJ4:1:1101:14707:1407#GTAGTCGC_AGCTCGGT/1 318: IlluminaOldColon, case 19: @SOLEXA-GA02_1:1:1:0:106 318: IlluminaOldColon, case 20: @HWUSI-EAS499:1:3:9:1822#0/1 318: IlluminaOldColon, case 21: @BILLIEHOLIDAY_1_FC20F3DAAXX:8:2:342:540 318: IlluminaOldColon, case 22: >KN-930:1:1:653:356 318: IlluminaOldColon, case 23: USI-EAS50_1:6:1:392:881 318: IlluminaOldColon, case 24: @HWI-EAS299_2_30MNAAAXX:5:1:936:1505/1 318: IlluminaOldColon, case 25: @HWI-EAS-249:7:1:1:443/1 318: IlluminaOldColon, case 26: @HWI-EAS385_0086_FC:1:1:1239:943#0/1 318: IlluminaOldColon, case 27: @HWUSI-EAS613-R_0001:8:1:1020:14660#0/1 318: IlluminaOldColon, case 28: @ILLUMINA-D01686_0001:7:1:1028:14175#0/1 318: IlluminaOldColon, case 29: @741:6:1:1204:10747/1 318: IlluminaOldColon, case 30: @1920:1:1:1504:1082/1 318: IlluminaOldColon, case 31: @HWI-EAS397_0013:1:1:1083:11725#0/1 318: IlluminaOldColon, case 32: >HWI-EAS6_4_FC2010T:1:1:80:366 318: IlluminaOldColon, case 33: @NUTELLA_42A08AAXX:4:001:0003:0089/1 318: IlluminaOldColon, case 34: @R16:8:1:0:875#0/1 318: IlluminaOldColon, case 35: HWI-EAS102_1_30LWPAAXX:5:1:1456:776 318: IlluminaOldColon, case 36: @HWI-EAS390_30VGNAAXX1:1:1:377:1113/1 318: IlluminaOldColon, case 37: @ID57_120908_30E4FAAXX:3:1:1772:953/1 318: IlluminaOldColon, case 38: HWI-EAS440_102:8:1:168:1332 318: IlluminaOldColon, case 39: @SNPSTER4_246_30GCDAAXX_PE:1:1:3:896/1 318: IlluminaOldColon, case 40: @FC42AUBAAXX:6:1:4:1280#TGACCA/1 318: IlluminaOldColon, case 41: @SOLEXA9:1:1:1:2005#0/1 318: IlluminaOldColon, case 42: @SNPSTER3_264_30JGGAAXX_PE:2:1:218:311/1 318: IlluminaOldColon, case 43: @HWUSI-EAS535_0001:7:1:747:14018#0/1 318: IlluminaOldColon, case 44: @FC42ATTAAXX:5:1:0:20481 318: IlluminaOldColon, case 45: @HWUSI-EAS1571_0012:8:1:1017:20197#0/1 318: IlluminaOldColon, case 46: @SOLEXA1_0052_FC:8:1:1508:1078#TTAGGC/1 318: IlluminaOldColon, case 47: @SN971:2:1101:15.80:103.70#0/1 318: IlluminaOldUnderscore, case 0: @HWI-EAS30_2_FC200HWAAXX_4_1_646_399 318: IlluminaOldUnderscore, case 1: @ATGCT_7_1101_1418_2098_1 318: IlluminaOldUnderscore, case 2: @BILLIEHOLIDAY_1_FC200TYAAXX_3_1_751_675 318: IlluminaOldUnderscore, case 3: @HWI-EAS30_2_FC20416AAXX_7_1_116_317 318: IlluminaOldUnderscore, case 4: @FC12044_91407_8_1_46_673 318: IlluminaOldNoPrefix, case 0: @7:1:792:533 318: IlluminaOldNoPrefix, case 1: @7:1:164:-0 318: IlluminaOldNoPrefix, case 2: @MB27-02-1:1101:1723:2171 /1 318: IlluminaOldWithSuffix, case 0: @HWI-IT879:92:5:1101:1170:2026#0/1:0 318: IlluminaOldWithSuffix2, case 0: >M01056:83:000000000-A7GBN:1:1108:17094:2684--W1 318: IlluminaOldTests (0 s) 318: PacBio, case 0: @m120525_202528_42132_c100323432550000001523017609061234_s1_p0/43 318: PacBio, case 1: @m101111_134728_richard_c000027022550000000115022502211150_s1_p0/1 318: PacBio, case 2: @m110115_082846_Uni_c000000000000000000000012706400001_s3_p0/1/0_508 318: PacBio, case 3: @m130727_043304_42150_c100538232550000001823086511101337_s1_p0/16/0_5273 318: PacBio, case 4: @m120328_022709_00128_c100311312550000001523011808061260_s1_p0/129/0_4701 318: PacBio, case 5: @m120204_011539_00128_c100220982555400000315052304111230_s2_p0/8/0_1446 318: PacBio2, case 6: @m54261_181223_050738_4194378 318: PacBio2, case 7: @m64049_200827_171349/2/ccs 318: PacBio2, case 8: @m54336U_191028_160945/1/120989_128438 318: PacBioTests (0 s) 318: illuminaOldBcRnOnly (0 s) 318: illuminaOldBcOnly (0 s) 318: 318: *** No errors detected (0 s total) 187/426 Test #318: Test_sharq_reader ...................................... Passed 0.75 sec test 319 Start 319: Test_sharq_parser 319: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test-bin/test-sharq-parser 319: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq 319: Test timeout computed to be: 1500 319: Running 1 test case... 319: [2025-04-16 15:50:21.081] [info] Parsing from 2 files 319: [2025-04-16 15:50:21.304] [parser_logger] [info] spots: 0, reads: 0 319: TestSequence (0 s) 319: 319: *** No errors detected (0 s total) 188/426 Test #319: Test_sharq_parser ...................................... Passed 0.25 sec test 320 Start 320: Test_sharq_writer 320: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test-bin/test-sharq-writer 320: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq 320: Test timeout computed to be: 1500 320: Running 8 test cases... 320: Construct (0 s) 320: SetAttr (0 s) 320: Destination (0 s) 320: DefaultSchema (0 s) 320: IlluminaSchema (0 s) 320: NanoporeSchema (0 s) 320: NanoporeSpecificColumns (0 s) 320: Fingerprinting (0 s) 320: 320: *** No errors detected (0 s total) 189/426 Test #320: Test_sharq_writer ...................................... Passed 0.02 sec test 321 Start 321: Test_001.read.supported 321: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/runtestcase.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "sharq" "." "001.read.supported" "0" "0" "--debug" "--no-timestamp" "input/001.R1.fastq" 321: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq 321: Test timeout computed to be: 1500 321: running 001.read.supported 321: CMD=/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sharq --debug --no-timestamp input/001.R1.fastq 1>./actual/001.read.supported/load.stdout 2>./actual/001.read.supported/load.stderr 190/426 Test #321: Test_001.read.supported ................................ Passed 0.34 sec test 322 Start 322: Test_001.read.supported-sa-hot 322: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/runtestcase.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "sharq" "." "001.read.supported-sa-hot" "0" "0" "--debug" "--no-timestamp" "--spot-assembly input/001.R1.fastq" 322: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq 322: Test timeout computed to be: 1500 322: running 001.read.supported-sa-hot 322: CMD=/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sharq --debug --no-timestamp --spot-assembly input/001.R1.fastq 1>./actual/001.read.supported-sa-hot/load.stdout 2>./actual/001.read.supported-sa-hot/load.stderr 191/426 Test #322: Test_001.read.supported-sa-hot ......................... Passed 0.61 sec test 323 Start 323: Test_001.read.supported-sa-cold 323: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/runtestcase.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "sharq" "." "001.read.supported-sa-cold" "0" "0" "--debug" "--no-timestamp" "--spot-assembly --hot-reads-threshold 0 input/001.R1.fastq" 323: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq 323: Test timeout computed to be: 1500 323: running 001.read.supported-sa-cold 323: CMD=/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sharq --debug --no-timestamp --spot-assembly --hot-reads-threshold 0 input/001.R1.fastq 1>./actual/001.read.supported-sa-cold/load.stdout 2>./actual/001.read.supported-sa-cold/load.stderr 192/426 Test #323: Test_001.read.supported-sa-cold ........................ Passed 0.56 sec test 324 Start 324: Test_001.read.unsupported 324: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/runtestcase.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "sharq" "." "001.read.unsupported" "1" "0" "--debug" "--no-timestamp" "--max-err-count 0 input/001.read.unsupported.fq" 324: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq 324: Test timeout computed to be: 1500 324: running 001.read.unsupported 324: CMD=/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sharq --debug --no-timestamp --max-err-count 0 input/001.read.unsupported.fq 1>./actual/001.read.unsupported/load.stdout 2>./actual/001.read.unsupported/load.stderr 193/426 Test #324: Test_001.read.unsupported .............................. Passed 0.03 sec test 325 Start 325: Test_001.read.unsupported-sa-hot 325: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/runtestcase.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "sharq" "." "001.read.unsupported-sa-hot" "1" "0" "--debug" "--no-timestamp" "--spot-assembly --max-err-count 0 input/001.read.unsupported.fq" 325: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq 325: Test timeout computed to be: 1500 325: running 001.read.unsupported-sa-hot 325: CMD=/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sharq --debug --no-timestamp --spot-assembly --max-err-count 0 input/001.read.unsupported.fq 1>./actual/001.read.unsupported-sa-hot/load.stdout 2>./actual/001.read.unsupported-sa-hot/load.stderr 194/426 Test #325: Test_001.read.unsupported-sa-hot ....................... Passed 0.03 sec test 326 Start 326: Test_001.read.unsupported-sa-cold 326: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/runtestcase.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "sharq" "." "001.read.unsupported-sa-cold" "1" "0" "--debug" "--no-timestamp" "--spot-assembly --hot-reads-threshold 0 --max-err-count 0 input/001.read.unsupported.fq" 326: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq 326: Test timeout computed to be: 1500 326: running 001.read.unsupported-sa-cold 326: CMD=/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sharq --debug --no-timestamp --spot-assembly --hot-reads-threshold 0 --max-err-count 0 input/001.read.unsupported.fq 1>./actual/001.read.unsupported-sa-cold/load.stdout 2>./actual/001.read.unsupported-sa-cold/load.stderr 195/426 Test #326: Test_001.read.unsupported-sa-cold ...................... Passed 0.02 sec test 327 Start 327: Test_001.read.no_sequence 327: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/runtestcase.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "sharq" "." "001.read.no_sequence" "1" "0" "--debug" "--no-timestamp" "--max-err-count 0 input/001.read.no_sequence.fq" 327: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq 327: Test timeout computed to be: 1500 327: running 001.read.no_sequence 327: CMD=/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sharq --debug --no-timestamp --max-err-count 0 input/001.read.no_sequence.fq 1>./actual/001.read.no_sequence/load.stdout 2>./actual/001.read.no_sequence/load.stderr 196/426 Test #327: Test_001.read.no_sequence .............................. Passed 0.02 sec test 328 Start 328: Test_001.read.no_sequence-sa-hot 328: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/runtestcase.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "sharq" "." "001.read.no_sequence-sa-hot" "1" "0" "--debug" "--no-timestamp" "--spot-assembly --max-err-count 0 input/001.read.no_sequence.fq" 328: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq 328: Test timeout computed to be: 1500 328: running 001.read.no_sequence-sa-hot 328: CMD=/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sharq --debug --no-timestamp --spot-assembly --max-err-count 0 input/001.read.no_sequence.fq 1>./actual/001.read.no_sequence-sa-hot/load.stdout 2>./actual/001.read.no_sequence-sa-hot/load.stderr 197/426 Test #328: Test_001.read.no_sequence-sa-hot ....................... Passed 0.02 sec test 329 Start 329: Test_001.read.no_sequence-sa-cold 329: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/runtestcase.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "sharq" "." "001.read.no_sequence-sa-cold" "1" "0" "--debug" "--no-timestamp" "--spot-assembly --hot-reads-threshold 0 --max-err-count 0 input/001.read.no_sequence.fq" 329: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq 329: Test timeout computed to be: 1500 329: running 001.read.no_sequence-sa-cold 329: CMD=/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sharq --debug --no-timestamp --spot-assembly --hot-reads-threshold 0 --max-err-count 0 input/001.read.no_sequence.fq 1>./actual/001.read.no_sequence-sa-cold/load.stdout 2>./actual/001.read.no_sequence-sa-cold/load.stderr 198/426 Test #329: Test_001.read.no_sequence-sa-cold ...................... Passed 0.03 sec test 330 Start 330: Test_001.read.invalid_sequence 330: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/runtestcase.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "sharq" "." "001.read.invalid_sequence" "1" "0" "--debug" "--no-timestamp" "--max-err-count 0 input/001.read.invalid_sequence.fq" 330: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq 330: Test timeout computed to be: 1500 330: running 001.read.invalid_sequence 330: CMD=/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sharq --debug --no-timestamp --max-err-count 0 input/001.read.invalid_sequence.fq 1>./actual/001.read.invalid_sequence/load.stdout 2>./actual/001.read.invalid_sequence/load.stderr 199/426 Test #330: Test_001.read.invalid_sequence ......................... Passed 0.02 sec test 331 Start 331: Test_001.read.invalid_sequence-sa-hot 331: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/runtestcase.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "sharq" "." "001.read.invalid_sequence-sa-hot" "1" "0" "--debug" "--no-timestamp" "--spot-assembly --max-err-count 0 input/001.read.invalid_sequence.fq" 331: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq 331: Test timeout computed to be: 1500 331: running 001.read.invalid_sequence-sa-hot 331: CMD=/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sharq --debug --no-timestamp --spot-assembly --max-err-count 0 input/001.read.invalid_sequence.fq 1>./actual/001.read.invalid_sequence-sa-hot/load.stdout 2>./actual/001.read.invalid_sequence-sa-hot/load.stderr 200/426 Test #331: Test_001.read.invalid_sequence-sa-hot .................. Passed 0.02 sec test 332 Start 332: Test_001.read.invalid_sequence-sa-cold 332: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/runtestcase.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "sharq" "." "001.read.invalid_sequence-sa-cold" "1" "0" "--debug" "--no-timestamp" "--spot-assembly --hot-reads-threshold 0 --max-err-count 0 input/001.read.invalid_sequence.fq" 332: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq 332: Test timeout computed to be: 1500 332: running 001.read.invalid_sequence-sa-cold 332: CMD=/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sharq --debug --no-timestamp --spot-assembly --hot-reads-threshold 0 --max-err-count 0 input/001.read.invalid_sequence.fq 1>./actual/001.read.invalid_sequence-sa-cold/load.stdout 2>./actual/001.read.invalid_sequence-sa-cold/load.stderr 201/426 Test #332: Test_001.read.invalid_sequence-sa-cold ................. Passed 0.03 sec test 333 Start 333: Test_001.read.no_quality 333: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/runtestcase.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "sharq" "." "001.read.no_quality" "1" "0" "--debug" "--no-timestamp" "--max-err-count 0 input/001.read.no_quality.fq" 333: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq 333: Test timeout computed to be: 1500 333: running 001.read.no_quality 333: CMD=/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sharq --debug --no-timestamp --max-err-count 0 input/001.read.no_quality.fq 1>./actual/001.read.no_quality/load.stdout 2>./actual/001.read.no_quality/load.stderr 202/426 Test #333: Test_001.read.no_quality ............................... Passed 0.02 sec test 334 Start 334: Test_001.read.no_quality-sa-hot 334: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/runtestcase.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "sharq" "." "001.read.no_quality-sa-hot" "1" "0" "--debug" "--no-timestamp" "--spot-assembly --max-err-count 0 input/001.read.no_quality.fq" 334: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq 334: Test timeout computed to be: 1500 334: running 001.read.no_quality-sa-hot 334: CMD=/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sharq --debug --no-timestamp --spot-assembly --max-err-count 0 input/001.read.no_quality.fq 1>./actual/001.read.no_quality-sa-hot/load.stdout 2>./actual/001.read.no_quality-sa-hot/load.stderr 203/426 Test #334: Test_001.read.no_quality-sa-hot ........................ Passed 0.02 sec test 335 Start 335: Test_001.read.no_quality-sa-cold 335: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/runtestcase.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "sharq" "." "001.read.no_quality-sa-cold" "1" "0" "--debug" "--no-timestamp" "--spot-assembly --hot-reads-threshold 0 --max-err-count 0 input/001.read.no_quality.fq" 335: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq 335: Test timeout computed to be: 1500 335: running 001.read.no_quality-sa-cold 335: CMD=/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sharq --debug --no-timestamp --spot-assembly --hot-reads-threshold 0 --max-err-count 0 input/001.read.no_quality.fq 1>./actual/001.read.no_quality-sa-cold/load.stdout 2>./actual/001.read.no_quality-sa-cold/load.stderr 204/426 Test #335: Test_001.read.no_quality-sa-cold ....................... Passed 0.02 sec test 336 Start 336: Test_001.read.no_quality_2 336: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/runtestcase.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "sharq" "." "001.read.no_quality_2" "1" "0" "--debug" "--no-timestamp" "--max-err-count 0 input/001.read.no_quality_2.fq" 336: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq 336: Test timeout computed to be: 1500 336: running 001.read.no_quality_2 336: CMD=/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sharq --debug --no-timestamp --max-err-count 0 input/001.read.no_quality_2.fq 1>./actual/001.read.no_quality_2/load.stdout 2>./actual/001.read.no_quality_2/load.stderr 205/426 Test #336: Test_001.read.no_quality_2 ............................. Passed 0.02 sec test 337 Start 337: Test_001.read.no_quality_2-sa-hot 337: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/runtestcase.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "sharq" "." "001.read.no_quality_2-sa-hot" "1" "0" "--debug" "--no-timestamp" "--spot-assembly --max-err-count 0 input/001.read.no_quality_2.fq" 337: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq 337: Test timeout computed to be: 1500 337: running 001.read.no_quality_2-sa-hot 337: CMD=/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sharq --debug --no-timestamp --spot-assembly --max-err-count 0 input/001.read.no_quality_2.fq 1>./actual/001.read.no_quality_2-sa-hot/load.stdout 2>./actual/001.read.no_quality_2-sa-hot/load.stderr 206/426 Test #337: Test_001.read.no_quality_2-sa-hot ...................... Passed 0.02 sec test 338 Start 338: Test_001.read.no_quality_2-sa-cold 338: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/runtestcase.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "sharq" "." "001.read.no_quality_2-sa-cold" "1" "0" "--debug" "--no-timestamp" "--spot-assembly --hot-reads-threshold 0 --max-err-count 0 input/001.read.no_quality_2.fq" 338: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq 338: Test timeout computed to be: 1500 338: running 001.read.no_quality_2-sa-cold 338: CMD=/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sharq --debug --no-timestamp --spot-assembly --hot-reads-threshold 0 --max-err-count 0 input/001.read.no_quality_2.fq 1>./actual/001.read.no_quality_2-sa-cold/load.stdout 2>./actual/001.read.no_quality_2-sa-cold/load.stderr 207/426 Test #338: Test_001.read.no_quality_2-sa-cold ..................... Passed 0.02 sec test 339 Start 339: Test_001.read.invalid_quality33 339: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/runtestcase.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "sharq" "." "001.read.invalid_quality33" "1" "0" "--debug" "--no-timestamp" "--max-err-count 0 --quality=33 input/001.read.invalid_quality33.fq" 339: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq 339: Test timeout computed to be: 1500 339: running 001.read.invalid_quality33 339: CMD=/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sharq --debug --no-timestamp --max-err-count 0 --quality=33 input/001.read.invalid_quality33.fq 1>./actual/001.read.invalid_quality33/load.stdout 2>./actual/001.read.invalid_quality33/load.stderr 208/426 Test #339: Test_001.read.invalid_quality33 ........................ Passed 0.02 sec test 340 Start 340: Test_001.read.invalid_quality33-sa-hot 340: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/runtestcase.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "sharq" "." "001.read.invalid_quality33-sa-hot" "1" "0" "--debug" "--no-timestamp" "--spot-assembly --max-err-count 0 --quality=33 input/001.read.invalid_quality33.fq" 340: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq 340: Test timeout computed to be: 1500 340: running 001.read.invalid_quality33-sa-hot 340: CMD=/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sharq --debug --no-timestamp --spot-assembly --max-err-count 0 --quality=33 input/001.read.invalid_quality33.fq 1>./actual/001.read.invalid_quality33-sa-hot/load.stdout 2>./actual/001.read.invalid_quality33-sa-hot/load.stderr 209/426 Test #340: Test_001.read.invalid_quality33-sa-hot ................. Passed 0.02 sec test 341 Start 341: Test_001.read.invalid_quality33-sa-cold 341: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/runtestcase.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "sharq" "." "001.read.invalid_quality33-sa-cold" "1" "0" "--debug" "--no-timestamp" "--spot-assembly --hot-reads-threshold 0 --max-err-count 0 --quality=33 input/001.read.invalid_quality33.fq" 341: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq 341: Test timeout computed to be: 1500 341: running 001.read.invalid_quality33-sa-cold 341: CMD=/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sharq --debug --no-timestamp --spot-assembly --hot-reads-threshold 0 --max-err-count 0 --quality=33 input/001.read.invalid_quality33.fq 1>./actual/001.read.invalid_quality33-sa-cold/load.stdout 2>./actual/001.read.invalid_quality33-sa-cold/load.stderr 210/426 Test #341: Test_001.read.invalid_quality33-sa-cold ................ Passed 0.02 sec test 342 Start 342: Test_001.read.invalid_quality64 342: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/runtestcase.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "sharq" "." "001.read.invalid_quality64" "1" "0" "--debug" "--no-timestamp" "--max-err-count 0 --quality=64 input/001.read.invalid_quality64.fq" 342: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq 342: Test timeout computed to be: 1500 342: running 001.read.invalid_quality64 342: CMD=/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sharq --debug --no-timestamp --max-err-count 0 --quality=64 input/001.read.invalid_quality64.fq 1>./actual/001.read.invalid_quality64/load.stdout 2>./actual/001.read.invalid_quality64/load.stderr 211/426 Test #342: Test_001.read.invalid_quality64 ........................ Passed 0.13 sec test 343 Start 343: Test_001.read.invalid_quality64-sa-hot 343: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/runtestcase.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "sharq" "." "001.read.invalid_quality64-sa-hot" "1" "0" "--debug" "--no-timestamp" "--spot-assembly --max-err-count 0 --quality=64 input/001.read.invalid_quality64.fq" 343: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq 343: Test timeout computed to be: 1500 343: running 001.read.invalid_quality64-sa-hot 343: CMD=/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sharq --debug --no-timestamp --spot-assembly --max-err-count 0 --quality=64 input/001.read.invalid_quality64.fq 1>./actual/001.read.invalid_quality64-sa-hot/load.stdout 2>./actual/001.read.invalid_quality64-sa-hot/load.stderr 212/426 Test #343: Test_001.read.invalid_quality64-sa-hot ................. Passed 0.13 sec test 344 Start 344: Test_001.read.invalid_quality64-sa-cold 344: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/runtestcase.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "sharq" "." "001.read.invalid_quality64-sa-cold" "1" "0" "--debug" "--no-timestamp" "--spot-assembly --hot-reads-threshold 0 --max-err-count 0 --quality=64 input/001.read.invalid_quality64.fq" 344: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq 344: Test timeout computed to be: 1500 344: running 001.read.invalid_quality64-sa-cold 344: CMD=/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sharq --debug --no-timestamp --spot-assembly --hot-reads-threshold 0 --max-err-count 0 --quality=64 input/001.read.invalid_quality64.fq 1>./actual/001.read.invalid_quality64-sa-cold/load.stdout 2>./actual/001.read.invalid_quality64-sa-cold/load.stderr 213/426 Test #344: Test_001.read.invalid_quality64-sa-cold ................ Passed 0.13 sec test 345 Start 345: Test_001.read.invalid_quality0 345: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/runtestcase.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "sharq" "." "001.read.invalid_quality0" "1" "0" "--debug" "--no-timestamp" "--max-err-count 0 --quality=0 input/001.read.invalid_quality0.fq" 345: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq 345: Test timeout computed to be: 1500 345: running 001.read.invalid_quality0 345: CMD=/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sharq --debug --no-timestamp --max-err-count 0 --quality=0 input/001.read.invalid_quality0.fq 1>./actual/001.read.invalid_quality0/load.stdout 2>./actual/001.read.invalid_quality0/load.stderr 214/426 Test #345: Test_001.read.invalid_quality0 ......................... Passed 0.02 sec test 346 Start 346: Test_001.read.invalid_quality0-sa-hot 346: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/runtestcase.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "sharq" "." "001.read.invalid_quality0-sa-hot" "1" "0" "--debug" "--no-timestamp" "--spot-assembly --max-err-count 0 --quality=0 input/001.read.invalid_quality0.fq" 346: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq 346: Test timeout computed to be: 1500 346: running 001.read.invalid_quality0-sa-hot 346: CMD=/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sharq --debug --no-timestamp --spot-assembly --max-err-count 0 --quality=0 input/001.read.invalid_quality0.fq 1>./actual/001.read.invalid_quality0-sa-hot/load.stdout 2>./actual/001.read.invalid_quality0-sa-hot/load.stderr 215/426 Test #346: Test_001.read.invalid_quality0-sa-hot .................. Passed 0.02 sec test 347 Start 347: Test_001.read.invalid_quality0-sa-cold 347: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/runtestcase.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "sharq" "." "001.read.invalid_quality0-sa-cold" "1" "0" "--debug" "--no-timestamp" "--spot-assembly --hot-reads-threshold 0 --max-err-count 0 --quality=0 input/001.read.invalid_quality0.fq" 347: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq 347: Test timeout computed to be: 1500 347: running 001.read.invalid_quality0-sa-cold 347: CMD=/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sharq --debug --no-timestamp --spot-assembly --hot-reads-threshold 0 --max-err-count 0 --quality=0 input/001.read.invalid_quality0.fq 1>./actual/001.read.invalid_quality0-sa-cold/load.stdout 2>./actual/001.read.invalid_quality0-sa-cold/load.stderr 216/426 Test #347: Test_001.read.invalid_quality0-sa-cold ................. Passed 0.02 sec test 348 Start 348: Test_001.read.long_quality 348: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/runtestcase.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "sharq" "." "001.read.long_quality" "0" "0" "--debug" "--no-timestamp" "--max-err-count 0 input/001.read.long_quality.fq" 348: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq 348: Test timeout computed to be: 1500 348: running 001.read.long_quality 348: CMD=/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sharq --debug --no-timestamp --max-err-count 0 input/001.read.long_quality.fq 1>./actual/001.read.long_quality/load.stdout 2>./actual/001.read.long_quality/load.stderr 217/426 Test #348: Test_001.read.long_quality ............................. Passed 0.23 sec test 349 Start 349: Test_001.read.long_quality-sa-hot 349: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/runtestcase.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "sharq" "." "001.read.long_quality-sa-hot" "0" "0" "--debug" "--no-timestamp" "--spot-assembly --max-err-count 0 input/001.read.long_quality.fq" 349: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq 349: Test timeout computed to be: 1500 349: running 001.read.long_quality-sa-hot 349: CMD=/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sharq --debug --no-timestamp --spot-assembly --max-err-count 0 input/001.read.long_quality.fq 1>./actual/001.read.long_quality-sa-hot/load.stdout 2>./actual/001.read.long_quality-sa-hot/load.stderr 218/426 Test #349: Test_001.read.long_quality-sa-hot ...................... Passed 0.44 sec test 350 Start 350: Test_001.read.long_quality-sa-cold 350: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/runtestcase.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "sharq" "." "001.read.long_quality-sa-cold" "0" "0" "--debug" "--no-timestamp" "--spot-assembly --hot-reads-threshold 0 --max-err-count 0 input/001.read.long_quality.fq" 350: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq 350: Test timeout computed to be: 1500 350: running 001.read.long_quality-sa-cold 350: CMD=/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sharq --debug --no-timestamp --spot-assembly --hot-reads-threshold 0 --max-err-count 0 input/001.read.long_quality.fq 1>./actual/001.read.long_quality-sa-cold/load.stdout 2>./actual/001.read.long_quality-sa-cold/load.stderr 219/426 Test #350: Test_001.read.long_quality-sa-cold ..................... Passed 0.44 sec test 351 Start 351: Test_001.read.bad_quality0 351: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/runtestcase.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "sharq" "." "001.read.bad_quality0" "1" "0" "--debug" "--no-timestamp" "--max-err-count 0 input/001.read.bad_quality0.fq" 351: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq 351: Test timeout computed to be: 1500 351: running 001.read.bad_quality0 351: CMD=/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sharq --debug --no-timestamp --max-err-count 0 input/001.read.bad_quality0.fq 1>./actual/001.read.bad_quality0/load.stdout 2>./actual/001.read.bad_quality0/load.stderr 220/426 Test #351: Test_001.read.bad_quality0 ............................. Passed 0.02 sec test 352 Start 352: Test_001.read.bad_quality0-sa-hot 352: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/runtestcase.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "sharq" "." "001.read.bad_quality0-sa-hot" "1" "0" "--debug" "--no-timestamp" "--spot-assembly --max-err-count 0 input/001.read.bad_quality0.fq" 352: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq 352: Test timeout computed to be: 1500 352: running 001.read.bad_quality0-sa-hot 352: CMD=/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sharq --debug --no-timestamp --spot-assembly --max-err-count 0 input/001.read.bad_quality0.fq 1>./actual/001.read.bad_quality0-sa-hot/load.stdout 2>./actual/001.read.bad_quality0-sa-hot/load.stderr 221/426 Test #352: Test_001.read.bad_quality0-sa-hot ...................... Passed 0.02 sec test 353 Start 353: Test_001.read.bad_quality0-sa-cold 353: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/runtestcase.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "sharq" "." "001.read.bad_quality0-sa-cold" "1" "0" "--debug" "--no-timestamp" "--spot-assembly --hot-reads-threshold 0 --max-err-count 0 input/001.read.bad_quality0.fq" 353: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq 353: Test timeout computed to be: 1500 353: running 001.read.bad_quality0-sa-cold 353: CMD=/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sharq --debug --no-timestamp --spot-assembly --hot-reads-threshold 0 --max-err-count 0 input/001.read.bad_quality0.fq 1>./actual/001.read.bad_quality0-sa-cold/load.stdout 2>./actual/001.read.bad_quality0-sa-cold/load.stderr 222/426 Test #353: Test_001.read.bad_quality0-sa-cold ..................... Passed 0.02 sec test 354 Start 354: Test_001.read.bad_quality33 354: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/runtestcase.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "sharq" "." "001.read.bad_quality33" "1" "0" "--debug" "--no-timestamp" "--max-err-count 0 input/001.read.bad_quality33.fq" 354: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq 354: Test timeout computed to be: 1500 354: running 001.read.bad_quality33 354: CMD=/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sharq --debug --no-timestamp --max-err-count 0 input/001.read.bad_quality33.fq 1>./actual/001.read.bad_quality33/load.stdout 2>./actual/001.read.bad_quality33/load.stderr 223/426 Test #354: Test_001.read.bad_quality33 ............................ Passed 0.02 sec test 355 Start 355: Test_001.read.bad_quality33-sa-hot 355: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/runtestcase.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "sharq" "." "001.read.bad_quality33-sa-hot" "1" "0" "--debug" "--no-timestamp" "--spot-assembly --max-err-count 0 input/001.read.bad_quality33.fq" 355: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq 355: Test timeout computed to be: 1500 355: running 001.read.bad_quality33-sa-hot 355: CMD=/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sharq --debug --no-timestamp --spot-assembly --max-err-count 0 input/001.read.bad_quality33.fq 1>./actual/001.read.bad_quality33-sa-hot/load.stdout 2>./actual/001.read.bad_quality33-sa-hot/load.stderr 224/426 Test #355: Test_001.read.bad_quality33-sa-hot ..................... Passed 0.02 sec test 356 Start 356: Test_001.read.bad_quality33-sa-cold 356: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/runtestcase.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "sharq" "." "001.read.bad_quality33-sa-cold" "1" "0" "--debug" "--no-timestamp" "--spot-assembly --hot-reads-threshold 0 --max-err-count 0 input/001.read.bad_quality33.fq" 356: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq 356: Test timeout computed to be: 1500 356: running 001.read.bad_quality33-sa-cold 356: CMD=/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sharq --debug --no-timestamp --spot-assembly --hot-reads-threshold 0 --max-err-count 0 input/001.read.bad_quality33.fq 1>./actual/001.read.bad_quality33-sa-cold/load.stdout 2>./actual/001.read.bad_quality33-sa-cold/load.stderr 225/426 Test #356: Test_001.read.bad_quality33-sa-cold .................... Passed 0.02 sec test 357 Start 357: Test_002.readTypes_default 357: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/runtestcase.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "sharq" "." "002.readTypes_default" "0" "0" "--debug" "--no-timestamp" "input/002.allBiological_1.fq input/002.allBiological_2.fq" 357: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq 357: Test timeout computed to be: 1500 357: running 002.readTypes_default 357: CMD=/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sharq --debug --no-timestamp input/002.allBiological_1.fq input/002.allBiological_2.fq 1>./actual/002.readTypes_default/load.stdout 2>./actual/002.readTypes_default/load.stderr 226/426 Test #357: Test_002.readTypes_default ............................. Passed 0.34 sec test 358 Start 358: Test_002.readTypes_default-sa-hot 358: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/runtestcase.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "sharq" "." "002.readTypes_default-sa-hot" "0" "0" "--debug" "--no-timestamp" "--spot-assembly input/002.allBiological_1.fq input/002.allBiological_2.fq" 358: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq 358: Test timeout computed to be: 1500 358: running 002.readTypes_default-sa-hot 358: CMD=/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sharq --debug --no-timestamp --spot-assembly input/002.allBiological_1.fq input/002.allBiological_2.fq 1>./actual/002.readTypes_default-sa-hot/load.stdout 2>./actual/002.readTypes_default-sa-hot/load.stderr 227/426 Test #358: Test_002.readTypes_default-sa-hot ...................... Passed 0.66 sec test 359 Start 359: Test_002.readTypes_default-sa-cold 359: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/runtestcase.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "sharq" "." "002.readTypes_default-sa-cold" "0" "0" "--debug" "--no-timestamp" "--spot-assembly --hot-reads-threshold 0 input/002.allBiological_1.fq input/002.allBiological_2.fq" 359: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq 359: Test timeout computed to be: 1500 359: running 002.readTypes_default-sa-cold 359: CMD=/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sharq --debug --no-timestamp --spot-assembly --hot-reads-threshold 0 input/002.allBiological_1.fq input/002.allBiological_2.fq 1>./actual/002.readTypes_default-sa-cold/load.stdout 2>./actual/002.readTypes_default-sa-cold/load.stderr 228/426 Test #359: Test_002.readTypes_default-sa-cold ..................... Passed 0.55 sec test 360 Start 360: Test_002.readTypes_technical 360: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/runtestcase.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "sharq" "." "002.readTypes_technical" "0" "0" "--debug" "--no-timestamp" "--readTypes=TT input/002.allBiological_1.fq input/002.allBiological_2.fq" 360: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq 360: Test timeout computed to be: 1500 360: running 002.readTypes_technical 360: CMD=/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sharq --debug --no-timestamp --readTypes=TT input/002.allBiological_1.fq input/002.allBiological_2.fq 1>./actual/002.readTypes_technical/load.stdout 2>./actual/002.readTypes_technical/load.stderr 229/426 Test #360: Test_002.readTypes_technical ........................... Passed 0.34 sec test 361 Start 361: Test_002.readTypes_technical-sa-hot 361: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/runtestcase.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "sharq" "." "002.readTypes_technical-sa-hot" "0" "0" "--debug" "--no-timestamp" "--spot-assembly --readTypes=TT input/002.allBiological_1.fq input/002.allBiological_2.fq" 361: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq 361: Test timeout computed to be: 1500 361: running 002.readTypes_technical-sa-hot 361: CMD=/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sharq --debug --no-timestamp --spot-assembly --readTypes=TT input/002.allBiological_1.fq input/002.allBiological_2.fq 1>./actual/002.readTypes_technical-sa-hot/load.stdout 2>./actual/002.readTypes_technical-sa-hot/load.stderr 230/426 Test #361: Test_002.readTypes_technical-sa-hot .................... Passed 0.65 sec test 362 Start 362: Test_002.readTypes_technical-sa-cold 362: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/runtestcase.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "sharq" "." "002.readTypes_technical-sa-cold" "0" "0" "--debug" "--no-timestamp" "--spot-assembly --hot-reads-threshold 0 --readTypes=TT input/002.allBiological_1.fq input/002.allBiological_2.fq" 362: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq 362: Test timeout computed to be: 1500 362: running 002.readTypes_technical-sa-cold 362: CMD=/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sharq --debug --no-timestamp --spot-assembly --hot-reads-threshold 0 --readTypes=TT input/002.allBiological_1.fq input/002.allBiological_2.fq 1>./actual/002.readTypes_technical-sa-cold/load.stdout 2>./actual/002.readTypes_technical-sa-cold/load.stderr 231/426 Test #362: Test_002.readTypes_technical-sa-cold ................... Passed 0.56 sec test 363 Start 363: Test_002.readTypes_mixed 363: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/runtestcase.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "sharq" "." "002.readTypes_mixed" "0" "0" "--debug" "--no-timestamp" "--readTypes=TB input/002.allBiological_1.fq input/002.allBiological_2.fq" 363: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq 363: Test timeout computed to be: 1500 363: running 002.readTypes_mixed 363: CMD=/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sharq --debug --no-timestamp --readTypes=TB input/002.allBiological_1.fq input/002.allBiological_2.fq 1>./actual/002.readTypes_mixed/load.stdout 2>./actual/002.readTypes_mixed/load.stderr 232/426 Test #363: Test_002.readTypes_mixed ............................... Passed 0.35 sec test 364 Start 364: Test_002.readTypes_mixed-sa-hot 364: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/runtestcase.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "sharq" "." "002.readTypes_mixed-sa-hot" "0" "0" "--debug" "--no-timestamp" "--spot-assembly --readTypes=TB input/002.allBiological_1.fq input/002.allBiological_2.fq" 364: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq 364: Test timeout computed to be: 1500 364: running 002.readTypes_mixed-sa-hot 364: CMD=/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sharq --debug --no-timestamp --spot-assembly --readTypes=TB input/002.allBiological_1.fq input/002.allBiological_2.fq 1>./actual/002.readTypes_mixed-sa-hot/load.stdout 2>./actual/002.readTypes_mixed-sa-hot/load.stderr 233/426 Test #364: Test_002.readTypes_mixed-sa-hot ........................ Passed 0.65 sec test 365 Start 365: Test_002.readTypes_mixed-sa-cold 365: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/runtestcase.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "sharq" "." "002.readTypes_mixed-sa-cold" "0" "0" "--debug" "--no-timestamp" "--spot-assembly --hot-reads-threshold 0 --readTypes=TB input/002.allBiological_1.fq input/002.allBiological_2.fq" 365: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq 365: Test timeout computed to be: 1500 365: running 002.readTypes_mixed-sa-cold 365: CMD=/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sharq --debug --no-timestamp --spot-assembly --hot-reads-threshold 0 --readTypes=TB input/002.allBiological_1.fq input/002.allBiological_2.fq 1>./actual/002.readTypes_mixed-sa-cold/load.stdout 2>./actual/002.readTypes_mixed-sa-cold/load.stderr 234/426 Test #365: Test_002.readTypes_mixed-sa-cold ....................... Passed 0.55 sec test 366 Start 366: Test_002.readTypes_missing 366: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/runtestcase.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "sharq" "." "002.readTypes_missing" "1" "0" "--debug" "--no-timestamp" "--read1PairFiles=input/001.R1.fastq" 366: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq 366: Test timeout computed to be: 1500 366: running 002.readTypes_missing 366: CMD=/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sharq --debug --no-timestamp --read1PairFiles=input/001.R1.fastq 1>./actual/002.readTypes_missing/load.stdout 2>./actual/002.readTypes_missing/load.stderr 235/426 Test #366: Test_002.readTypes_missing ............................. Passed 0.02 sec test 367 Start 367: Test_002.readTypes_missing-sa-hot 367: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/runtestcase.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "sharq" "." "002.readTypes_missing-sa-hot" "1" "0" "--debug" "--no-timestamp" "--spot-assembly --read1PairFiles=input/001.R1.fastq" 367: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq 367: Test timeout computed to be: 1500 367: running 002.readTypes_missing-sa-hot 367: CMD=/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sharq --debug --no-timestamp --spot-assembly --read1PairFiles=input/001.R1.fastq 1>./actual/002.readTypes_missing-sa-hot/load.stdout 2>./actual/002.readTypes_missing-sa-hot/load.stderr 236/426 Test #367: Test_002.readTypes_missing-sa-hot ...................... Passed 0.02 sec test 368 Start 368: Test_002.readTypes_missing-sa-cold 368: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/runtestcase.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "sharq" "." "002.readTypes_missing-sa-cold" "1" "0" "--debug" "--no-timestamp" "--spot-assembly --hot-reads-threshold 0 --read1PairFiles=input/001.R1.fastq" 368: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq 368: Test timeout computed to be: 1500 368: running 002.readTypes_missing-sa-cold 368: CMD=/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sharq --debug --no-timestamp --spot-assembly --hot-reads-threshold 0 --read1PairFiles=input/001.R1.fastq 1>./actual/002.readTypes_missing-sa-cold/load.stdout 2>./actual/002.readTypes_missing-sa-cold/load.stderr 237/426 Test #368: Test_002.readTypes_missing-sa-cold ..................... Passed 0.02 sec test 369 Start 369: Test_002.readTypes_mismatch 369: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/runtestcase.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "sharq" "." "002.readTypes_mismatch" "1" "0" "--debug" "--no-timestamp" "--readTypes=TB --read1PairFiles=input/001.R1.fastq" 369: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq 369: Test timeout computed to be: 1500 369: running 002.readTypes_mismatch 369: CMD=/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sharq --debug --no-timestamp --readTypes=TB --read1PairFiles=input/001.R1.fastq 1>./actual/002.readTypes_mismatch/load.stdout 2>./actual/002.readTypes_mismatch/load.stderr 238/426 Test #369: Test_002.readTypes_mismatch ............................ Passed 0.02 sec test 370 Start 370: Test_002.readTypes_mismatch-sa-hot 370: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/runtestcase.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "sharq" "." "002.readTypes_mismatch-sa-hot" "1" "0" "--debug" "--no-timestamp" "--spot-assembly --readTypes=TB --read1PairFiles=input/001.R1.fastq" 370: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq 370: Test timeout computed to be: 1500 370: running 002.readTypes_mismatch-sa-hot 370: CMD=/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sharq --debug --no-timestamp --spot-assembly --readTypes=TB --read1PairFiles=input/001.R1.fastq 1>./actual/002.readTypes_mismatch-sa-hot/load.stdout 2>./actual/002.readTypes_mismatch-sa-hot/load.stderr 239/426 Test #370: Test_002.readTypes_mismatch-sa-hot ..................... Passed 0.02 sec test 371 Start 371: Test_002.readTypes_mismatch-sa-cold 371: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/runtestcase.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "sharq" "." "002.readTypes_mismatch-sa-cold" "1" "0" "--debug" "--no-timestamp" "--spot-assembly --hot-reads-threshold 0 --readTypes=TB --read1PairFiles=input/001.R1.fastq" 371: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq 371: Test timeout computed to be: 1500 371: running 002.readTypes_mismatch-sa-cold 371: CMD=/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sharq --debug --no-timestamp --spot-assembly --hot-reads-threshold 0 --readTypes=TB --read1PairFiles=input/001.R1.fastq 1>./actual/002.readTypes_mismatch-sa-cold/load.stdout 2>./actual/002.readTypes_mismatch-sa-cold/load.stderr 240/426 Test #371: Test_002.readTypes_mismatch-sa-cold .................... Passed 0.02 sec test 372 Start 372: Test_002.readTypes_unexpected 372: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/runtestcase.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "sharq" "." "002.readTypes_unexpected" "1" "0" "--debug" "--no-timestamp" "--readTypes=X --read1PairFiles=input/002.allBiological_1.fq" 372: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq 372: Test timeout computed to be: 1500 372: running 002.readTypes_unexpected 372: CMD=/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sharq --debug --no-timestamp --readTypes=X --read1PairFiles=input/002.allBiological_1.fq 1>./actual/002.readTypes_unexpected/load.stdout 2>./actual/002.readTypes_unexpected/load.stderr 241/426 Test #372: Test_002.readTypes_unexpected .......................... Passed 0.02 sec test 373 Start 373: Test_002.readTypes_unexpected-sa-hot 373: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/runtestcase.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "sharq" "." "002.readTypes_unexpected-sa-hot" "1" "0" "--debug" "--no-timestamp" "--spot-assembly --readTypes=X --read1PairFiles=input/002.allBiological_1.fq" 373: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq 373: Test timeout computed to be: 1500 373: running 002.readTypes_unexpected-sa-hot 373: CMD=/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sharq --debug --no-timestamp --spot-assembly --readTypes=X --read1PairFiles=input/002.allBiological_1.fq 1>./actual/002.readTypes_unexpected-sa-hot/load.stdout 2>./actual/002.readTypes_unexpected-sa-hot/load.stderr 242/426 Test #373: Test_002.readTypes_unexpected-sa-hot ................... Passed 0.02 sec test 374 Start 374: Test_002.readTypes_unexpected-sa-cold 374: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/runtestcase.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "sharq" "." "002.readTypes_unexpected-sa-cold" "1" "0" "--debug" "--no-timestamp" "--spot-assembly --hot-reads-threshold 0 --readTypes=X --read1PairFiles=input/002.allBiological_1.fq" 374: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq 374: Test timeout computed to be: 1500 374: running 002.readTypes_unexpected-sa-cold 374: CMD=/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sharq --debug --no-timestamp --spot-assembly --hot-reads-threshold 0 --readTypes=X --read1PairFiles=input/002.allBiological_1.fq 1>./actual/002.readTypes_unexpected-sa-cold/load.stdout 2>./actual/002.readTypes_unexpected-sa-cold/load.stderr 243/426 Test #374: Test_002.readTypes_unexpected-sa-cold .................. Passed 0.02 sec test 375 Start 375: Test_002.readTypes_interlaved_fail_1 375: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/runtestcase.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "sharq" "." "002.readTypes_interlaved_fail_1" "1" "0" "--debug" "--no-timestamp" "input/002.readTypes_interleaved_1.fq input/002.readTypes_interleaved_2.fq" 375: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq 375: Test timeout computed to be: 1500 375: running 002.readTypes_interlaved_fail_1 375: CMD=/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sharq --debug --no-timestamp input/002.readTypes_interleaved_1.fq input/002.readTypes_interleaved_2.fq 1>./actual/002.readTypes_interlaved_fail_1/load.stdout 2>./actual/002.readTypes_interlaved_fail_1/load.stderr 244/426 Test #375: Test_002.readTypes_interlaved_fail_1 ................... Passed 0.03 sec test 376 Start 376: Test_002.readTypes_interleaved_fail_4 376: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/runtestcase.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "sharq" "." "002.readTypes_interleaved_fail_4" "1" "0" "--debug" "--no-timestamp" "--readTypes=BB input/002.readTypes_interleaved_1.fq input/002.readTypes_interleaved_2.fq" 376: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq 376: Test timeout computed to be: 1500 376: running 002.readTypes_interleaved_fail_4 376: CMD=/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sharq --debug --no-timestamp --readTypes=BB input/002.readTypes_interleaved_1.fq input/002.readTypes_interleaved_2.fq 1>./actual/002.readTypes_interleaved_fail_4/load.stdout 2>./actual/002.readTypes_interleaved_fail_4/load.stderr 245/426 Test #376: Test_002.readTypes_interleaved_fail_4 .................. Passed 0.03 sec test 377 Start 377: Test_002.readTypes_interlaved_fail_3-sa-hot 377: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/runtestcase.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "sharq" "." "002.readTypes_interlaved_fail_3-sa-hot" "1" "0" "--debug" "--no-timestamp" "--spot-assembly input/002.readTypes_interleaved_1.fq input/002.readTypes_interleaved_2.fq" 377: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq 377: Test timeout computed to be: 1500 377: running 002.readTypes_interlaved_fail_3-sa-hot 377: CMD=/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sharq --debug --no-timestamp --spot-assembly input/002.readTypes_interleaved_1.fq input/002.readTypes_interleaved_2.fq 1>./actual/002.readTypes_interlaved_fail_3-sa-hot/load.stdout 2>./actual/002.readTypes_interlaved_fail_3-sa-hot/load.stderr 246/426 Test #377: Test_002.readTypes_interlaved_fail_3-sa-hot ............ Passed 0.36 sec test 378 Start 378: Test_002.readTypes_interlaved_fail_3-sa-cold 378: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/runtestcase.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "sharq" "." "002.readTypes_interlaved_fail_3-sa-cold" "1" "0" "--debug" "--no-timestamp" "--spot-assembly --hot-reads-threshold 0 input/002.readTypes_interleaved_1.fq input/002.readTypes_interleaved_2.fq" 378: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq 378: Test timeout computed to be: 1500 378: running 002.readTypes_interlaved_fail_3-sa-cold 378: CMD=/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sharq --debug --no-timestamp --spot-assembly --hot-reads-threshold 0 input/002.readTypes_interleaved_1.fq input/002.readTypes_interleaved_2.fq 1>./actual/002.readTypes_interlaved_fail_3-sa-cold/load.stdout 2>./actual/002.readTypes_interlaved_fail_3-sa-cold/load.stderr 247/426 Test #378: Test_002.readTypes_interlaved_fail_3-sa-cold ........... Passed 0.59 sec test 379 Start 379: Test_002.readTypes_interlaved_fail_2-sa-hot 379: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/runtestcase.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "sharq" "." "002.readTypes_interlaved_fail_2-sa-hot" "1" "0" "--debug" "--no-timestamp" "--spot-assembly --readTypes=BB input/002.readTypes_interleaved_1.fq input/002.readTypes_interleaved_2.fq" 379: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq 379: Test timeout computed to be: 1500 379: running 002.readTypes_interlaved_fail_2-sa-hot 379: CMD=/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sharq --debug --no-timestamp --spot-assembly --readTypes=BB input/002.readTypes_interleaved_1.fq input/002.readTypes_interleaved_2.fq 1>./actual/002.readTypes_interlaved_fail_2-sa-hot/load.stdout 2>./actual/002.readTypes_interlaved_fail_2-sa-hot/load.stderr 248/426 Test #379: Test_002.readTypes_interlaved_fail_2-sa-hot ............ Passed 0.60 sec test 380 Start 380: Test_002.readTypes_interlaved_fail_2-sa-cold 380: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/runtestcase.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "sharq" "." "002.readTypes_interlaved_fail_2-sa-cold" "1" "0" "--debug" "--no-timestamp" "--spot-assembly --hot-reads-threshold 0 --readTypes=BB input/002.readTypes_interleaved_1.fq input/002.readTypes_interleaved_2.fq" 380: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq 380: Test timeout computed to be: 1500 380: running 002.readTypes_interlaved_fail_2-sa-cold 380: CMD=/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sharq --debug --no-timestamp --spot-assembly --hot-reads-threshold 0 --readTypes=BB input/002.readTypes_interleaved_1.fq input/002.readTypes_interleaved_2.fq 1>./actual/002.readTypes_interlaved_fail_2-sa-cold/load.stdout 2>./actual/002.readTypes_interlaved_fail_2-sa-cold/load.stderr 249/426 Test #380: Test_002.readTypes_interlaved_fail_2-sa-cold ........... Passed 0.68 sec test 381 Start 381: Test_002.readTypes_interlaved_pass 381: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/runtestcase.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "sharq" "." "002.readTypes_interlaved_pass" "0" "0" "--debug" "--no-timestamp" "--readTypes=BTB input/002.readTypes_interleaved_1.fq input/002.readTypes_interleaved_2.fq" 381: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq 381: Test timeout computed to be: 1500 381: running 002.readTypes_interlaved_pass 381: CMD=/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sharq --debug --no-timestamp --readTypes=BTB input/002.readTypes_interleaved_1.fq input/002.readTypes_interleaved_2.fq 1>./actual/002.readTypes_interlaved_pass/load.stdout 2>./actual/002.readTypes_interlaved_pass/load.stderr 250/426 Test #381: Test_002.readTypes_interlaved_pass ..................... Passed 0.64 sec test 382 Start 382: Test_002.readTypes_interlaved_pass-sa-hot 382: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/runtestcase.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "sharq" "." "002.readTypes_interlaved_pass-sa-hot" "0" "0" "--debug" "--no-timestamp" "--spot-assembly --readTypes=BTB input/002.readTypes_interleaved_1.fq input/002.readTypes_interleaved_2.fq" 382: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq 382: Test timeout computed to be: 1500 382: running 002.readTypes_interlaved_pass-sa-hot 382: CMD=/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sharq --debug --no-timestamp --spot-assembly --readTypes=BTB input/002.readTypes_interleaved_1.fq input/002.readTypes_interleaved_2.fq 1>./actual/002.readTypes_interlaved_pass-sa-hot/load.stdout 2>./actual/002.readTypes_interlaved_pass-sa-hot/load.stderr 251/426 Test #382: Test_002.readTypes_interlaved_pass-sa-hot .............. Passed 0.78 sec test 383 Start 383: Test_002.readTypes_interlaved_pass-sa-cold 383: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/runtestcase.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "sharq" "." "002.readTypes_interlaved_pass-sa-cold" "0" "0" "--debug" "--no-timestamp" "--spot-assembly --hot-reads-threshold 0 --readTypes=BTB input/002.readTypes_interleaved_1.fq input/002.readTypes_interleaved_2.fq" 383: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq 383: Test timeout computed to be: 1500 383: running 002.readTypes_interlaved_pass-sa-cold 383: CMD=/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sharq --debug --no-timestamp --spot-assembly --hot-reads-threshold 0 --readTypes=BTB input/002.readTypes_interleaved_1.fq input/002.readTypes_interleaved_2.fq 1>./actual/002.readTypes_interlaved_pass-sa-cold/load.stdout 2>./actual/002.readTypes_interlaved_pass-sa-cold/load.stderr 252/426 Test #383: Test_002.readTypes_interlaved_pass-sa-cold ............. Passed 0.71 sec test 384 Start 384: Test_003.files_not_exists 384: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/runtestcase.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "sharq" "." "003.files_not_exists" "1" "0" "--debug" "--no-timestamp" "dummy1.fq" 384: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq 384: Test timeout computed to be: 1500 384: running 003.files_not_exists 384: CMD=/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sharq --debug --no-timestamp dummy1.fq 1>./actual/003.files_not_exists/load.stdout 2>./actual/003.files_not_exists/load.stderr 253/426 Test #384: Test_003.files_not_exists .............................. Passed 0.16 sec test 385 Start 385: Test_003.files_not_exists-sa-hot 385: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/runtestcase.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "sharq" "." "003.files_not_exists-sa-hot" "1" "0" "--debug" "--no-timestamp" "--spot-assembly dummy1.fq" 385: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq 385: Test timeout computed to be: 1500 385: running 003.files_not_exists-sa-hot 385: CMD=/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sharq --debug --no-timestamp --spot-assembly dummy1.fq 1>./actual/003.files_not_exists-sa-hot/load.stdout 2>./actual/003.files_not_exists-sa-hot/load.stderr 254/426 Test #385: Test_003.files_not_exists-sa-hot ....................... Passed 0.11 sec test 386 Start 386: Test_003.files_not_exists-sa-cold 386: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/runtestcase.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "sharq" "." "003.files_not_exists-sa-cold" "1" "0" "--debug" "--no-timestamp" "--spot-assembly --hot-reads-threshold 0 dummy1.fq" 386: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq 386: Test timeout computed to be: 1500 386: running 003.files_not_exists-sa-cold 386: CMD=/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sharq --debug --no-timestamp --spot-assembly --hot-reads-threshold 0 dummy1.fq 1>./actual/003.files_not_exists-sa-cold/load.stdout 2>./actual/003.files_not_exists-sa-cold/load.stderr 255/426 Test #386: Test_003.files_not_exists-sa-cold ...................... Passed 0.14 sec test 387 Start 387: Test_003.files_not_valid 387: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/runtestcase.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "sharq" "." "003.files_not_valid" "1" "0" "--debug" "--no-timestamp" "input/003.empty.fq" 387: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq 387: Test timeout computed to be: 1500 387: running 003.files_not_valid 387: CMD=/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sharq --debug --no-timestamp input/003.empty.fq 1>./actual/003.files_not_valid/load.stdout 2>./actual/003.files_not_valid/load.stderr 256/426 Test #387: Test_003.files_not_valid ............................... Passed 0.10 sec test 388 Start 388: Test_003.files_not_valid-sa-hot 388: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/runtestcase.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "sharq" "." "003.files_not_valid-sa-hot" "1" "0" "--debug" "--no-timestamp" "--spot-assembly input/003.empty.fq" 388: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq 388: Test timeout computed to be: 1500 388: running 003.files_not_valid-sa-hot 388: CMD=/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sharq --debug --no-timestamp --spot-assembly input/003.empty.fq 1>./actual/003.files_not_valid-sa-hot/load.stdout 2>./actual/003.files_not_valid-sa-hot/load.stderr 257/426 Test #388: Test_003.files_not_valid-sa-hot ........................ Passed 0.13 sec test 389 Start 389: Test_003.files_not_valid-sa-cold 389: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/runtestcase.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "sharq" "." "003.files_not_valid-sa-cold" "1" "0" "--debug" "--no-timestamp" "--spot-assembly --hot-reads-threshold 0 input/003.empty.fq" 389: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq 389: Test timeout computed to be: 1500 389: running 003.files_not_valid-sa-cold 389: CMD=/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sharq --debug --no-timestamp --spot-assembly --hot-reads-threshold 0 input/003.empty.fq 1>./actual/003.files_not_valid-sa-cold/load.stdout 2>./actual/003.files_not_valid-sa-cold/load.stderr 258/426 Test #389: Test_003.files_not_valid-sa-cold ....................... Passed 0.12 sec test 390 Start 390: Test_003.files_readpairs 390: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/runtestcase.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "sharq" "." "003.files_readpairs" "0" "0" "--debug" "--no-timestamp" "--readTypes=BBT --read1PairFiles=input/003.t_R1.fastq.gz,input/003.t2_R1.fastq,input/003.t3_R1.fastq --read2PairFiles=input/003.t_R2.fastq.gz,input/003.t2_R2.fastq,input/003.t3_R2.fastq --read3PairFiles=input/003.t_I1.fastq.gz,input/003.t2_I1.fastq,input/003.t3_I1.fastq" 390: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq 390: Test timeout computed to be: 1500 390: running 003.files_readpairs 390: CMD=/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sharq --debug --no-timestamp --readTypes=BBT --read1PairFiles=input/003.t_R1.fastq.gz,input/003.t2_R1.fastq,input/003.t3_R1.fastq --read2PairFiles=input/003.t_R2.fastq.gz,input/003.t2_R2.fastq,input/003.t3_R2.fastq --read3PairFiles=input/003.t_I1.fastq.gz,input/003.t2_I1.fastq,input/003.t3_I1.fastq 1>./actual/003.files_readpairs/load.stdout 2>./actual/003.files_readpairs/load.stderr 259/426 Test #390: Test_003.files_readpairs ............................... Passed 1.56 sec test 391 Start 391: Test_003.files_readpairs-sa-hot 391: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/runtestcase.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "sharq" "." "003.files_readpairs-sa-hot" "0" "0" "--debug" "--no-timestamp" "--spot-assembly --readTypes=BBT --read1PairFiles=input/003.t_R1.fastq.gz,input/003.t2_R1.fastq,input/003.t3_R1.fastq --read2PairFiles=input/003.t_R2.fastq.gz,input/003.t2_R2.fastq,input/003.t3_R2.fastq --read3PairFiles=input/003.t_I1.fastq.gz,input/003.t2_I1.fastq,input/003.t3_I1.fastq" 391: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq 391: Test timeout computed to be: 1500 391: running 003.files_readpairs-sa-hot 391: CMD=/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sharq --debug --no-timestamp --spot-assembly --readTypes=BBT --read1PairFiles=input/003.t_R1.fastq.gz,input/003.t2_R1.fastq,input/003.t3_R1.fastq --read2PairFiles=input/003.t_R2.fastq.gz,input/003.t2_R2.fastq,input/003.t3_R2.fastq --read3PairFiles=input/003.t_I1.fastq.gz,input/003.t2_I1.fastq,input/003.t3_I1.fastq 1>./actual/003.files_readpairs-sa-hot/load.stdout 2>./actual/003.files_readpairs-sa-hot/load.stderr 260/426 Test #391: Test_003.files_readpairs-sa-hot ........................ Passed 4.41 sec test 392 Start 392: Test_003.files_readpairs-sa-cold 392: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/runtestcase.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "sharq" "." "003.files_readpairs-sa-cold" "0" "0" "--debug" "--no-timestamp" "--spot-assembly --hot-reads-threshold 0 --readTypes=BBT --read1PairFiles=input/003.t_R1.fastq.gz,input/003.t2_R1.fastq,input/003.t3_R1.fastq --read2PairFiles=input/003.t_R2.fastq.gz,input/003.t2_R2.fastq,input/003.t3_R2.fastq --read3PairFiles=input/003.t_I1.fastq.gz,input/003.t2_I1.fastq,input/003.t3_I1.fastq" 392: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq 392: Test timeout computed to be: 1500 392: running 003.files_readpairs-sa-cold 392: CMD=/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sharq --debug --no-timestamp --spot-assembly --hot-reads-threshold 0 --readTypes=BBT --read1PairFiles=input/003.t_R1.fastq.gz,input/003.t2_R1.fastq,input/003.t3_R1.fastq --read2PairFiles=input/003.t_R2.fastq.gz,input/003.t2_R2.fastq,input/003.t3_R2.fastq --read3PairFiles=input/003.t_I1.fastq.gz,input/003.t2_I1.fastq,input/003.t3_I1.fastq 1>./actual/003.files_readpairs-sa-cold/load.stdout 2>./actual/003.files_readpairs-sa-cold/load.stderr 261/426 Test #392: Test_003.files_readpairs-sa-cold ....................... Passed 2.46 sec test 393 Start 393: Test_003.files_mixed 393: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/runtestcase.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "sharq" "." "003.files_mixed" "1" "0" "--debug" "--no-timestamp" "input/005.offset0_1.fq input/001.R1.fastq" 393: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq 393: Test timeout computed to be: 1500 393: running 003.files_mixed 393: CMD=/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sharq --debug --no-timestamp input/005.offset0_1.fq input/001.R1.fastq 1>./actual/003.files_mixed/load.stdout 2>./actual/003.files_mixed/load.stderr 262/426 Test #393: Test_003.files_mixed ................................... Passed 0.03 sec test 394 Start 394: Test_003.files_mixed-sa-hot 394: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/runtestcase.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "sharq" "." "003.files_mixed-sa-hot" "1" "0" "--debug" "--no-timestamp" "--spot-assembly input/005.offset0_1.fq input/001.R1.fastq" 394: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq 394: Test timeout computed to be: 1500 394: running 003.files_mixed-sa-hot 394: CMD=/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sharq --debug --no-timestamp --spot-assembly input/005.offset0_1.fq input/001.R1.fastq 1>./actual/003.files_mixed-sa-hot/load.stdout 2>./actual/003.files_mixed-sa-hot/load.stderr 263/426 Test #394: Test_003.files_mixed-sa-hot ............................ Passed 0.03 sec test 395 Start 395: Test_003.files_mixed-sa-cold 395: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/runtestcase.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "sharq" "." "003.files_mixed-sa-cold" "1" "0" "--debug" "--no-timestamp" "--spot-assembly --hot-reads-threshold 0 input/005.offset0_1.fq input/001.R1.fastq" 395: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq 395: Test timeout computed to be: 1500 395: running 003.files_mixed-sa-cold 395: CMD=/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sharq --debug --no-timestamp --spot-assembly --hot-reads-threshold 0 input/005.offset0_1.fq input/001.R1.fastq 1>./actual/003.files_mixed-sa-cold/load.stdout 2>./actual/003.files_mixed-sa-cold/load.stderr 264/426 Test #395: Test_003.files_mixed-sa-cold ........................... Passed 0.03 sec test 396 Start 396: Test_003.files_mixed_cluster 396: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/runtestcase.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "sharq" "." "003.files_mixed_cluster" "1" "0" "--debug" "--no-timestamp" "input/003.t_R1.fastq input/003.t_I1.fastq input/001.R1.fastq" 396: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq 396: Test timeout computed to be: 1500 396: running 003.files_mixed_cluster 396: CMD=/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sharq --debug --no-timestamp input/003.t_R1.fastq input/003.t_I1.fastq input/001.R1.fastq 1>./actual/003.files_mixed_cluster/load.stdout 2>./actual/003.files_mixed_cluster/load.stderr 265/426 Test #396: Test_003.files_mixed_cluster ........................... Passed 0.03 sec test 397 Start 397: Test_003.files_10x_mixed 397: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/runtestcase.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "sharq" "." "003.files_10x_mixed" "1" "0" "--debug" "--no-timestamp" "input/003.t_I1.fastq input/003.t_R1.fastq input/003.t_R2.fastq input/003._I1.fastq input/003.R1.fastq input/003.R2.fastq" 397: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq 397: Test timeout computed to be: 1500 397: running 003.files_10x_mixed 397: CMD=/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sharq --debug --no-timestamp input/003.t_I1.fastq input/003.t_R1.fastq input/003.t_R2.fastq input/003._I1.fastq input/003.R1.fastq input/003.R2.fastq 1>./actual/003.files_10x_mixed/load.stdout 2>./actual/003.files_10x_mixed/load.stderr 266/426 Test #397: Test_003.files_10x_mixed ............................... Passed 0.06 sec test 398 Start 398: Test_003.files_10x_mixed-sa-hot 398: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/runtestcase.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "sharq" "." "003.files_10x_mixed-sa-hot" "1" "0" "--debug" "--no-timestamp" "--spot-assembly input/003.t_I1.fastq input/003.t_R1.fastq input/003.t_R2.fastq input/003._I1.fastq input/003.R1.fastq input/003.R2.fastq" 398: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq 398: Test timeout computed to be: 1500 398: running 003.files_10x_mixed-sa-hot 398: CMD=/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sharq --debug --no-timestamp --spot-assembly input/003.t_I1.fastq input/003.t_R1.fastq input/003.t_R2.fastq input/003._I1.fastq input/003.R1.fastq input/003.R2.fastq 1>./actual/003.files_10x_mixed-sa-hot/load.stdout 2>./actual/003.files_10x_mixed-sa-hot/load.stderr 267/426 Test #398: Test_003.files_10x_mixed-sa-hot ........................ Passed 0.03 sec test 399 Start 399: Test_003.files_10x_mixed-sa-cold 399: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/runtestcase.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "sharq" "." "003.files_10x_mixed-sa-cold" "1" "0" "--debug" "--no-timestamp" "--spot-assembly --hot-reads-threshold 0 input/003.t_I1.fastq input/003.t_R1.fastq input/003.t_R2.fastq input/003._I1.fastq input/003.R1.fastq input/003.R2.fastq" 399: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq 399: Test timeout computed to be: 1500 399: running 003.files_10x_mixed-sa-cold 399: CMD=/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sharq --debug --no-timestamp --spot-assembly --hot-reads-threshold 0 input/003.t_I1.fastq input/003.t_R1.fastq input/003.t_R2.fastq input/003._I1.fastq input/003.R1.fastq input/003.R2.fastq 1>./actual/003.files_10x_mixed-sa-cold/load.stdout 2>./actual/003.files_10x_mixed-sa-cold/load.stderr 268/426 Test #399: Test_003.files_10x_mixed-sa-cold ....................... Passed 0.04 sec test 400 Start 400: Test_003.readTypes_10x 400: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/runtestcase.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "sharq" "." "003.readTypes_10x" "0" "0" "--debug" "--no-timestamp" "input/003.t_R1.fastq input/003.t_R1.fastq input/003.t_I1.fastq" 400: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq 400: Test timeout computed to be: 1500 400: running 003.readTypes_10x 400: CMD=/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sharq --debug --no-timestamp input/003.t_R1.fastq input/003.t_R1.fastq input/003.t_I1.fastq 1>./actual/003.readTypes_10x/load.stdout 2>./actual/003.readTypes_10x/load.stderr 269/426 Test #400: Test_003.readTypes_10x ................................. Passed 0.45 sec test 401 Start 401: Test_003.wrong_pairing 401: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/runtestcase.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "sharq" "." "003.wrong_pairing" "1" "0" "--debug" "--no-timestamp" "--readTypes=BBT --read1PairFiles=input/003.t_R1.fastq.gz,input/003.t2_R1.fastq,input/003.t3_R1.fastq --read2PairFiles=input/003.t_R2.fastq.gz,input/003.t2_R2.fastq --read3PairFiles=input/003.t_I1.fastq.gz,input/003.t2_I1.fastq,input/003.t3_I1.fastq" 401: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq 401: Test timeout computed to be: 1500 401: running 003.wrong_pairing 401: CMD=/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sharq --debug --no-timestamp --readTypes=BBT --read1PairFiles=input/003.t_R1.fastq.gz,input/003.t2_R1.fastq,input/003.t3_R1.fastq --read2PairFiles=input/003.t_R2.fastq.gz,input/003.t2_R2.fastq --read3PairFiles=input/003.t_I1.fastq.gz,input/003.t2_I1.fastq,input/003.t3_I1.fastq 1>./actual/003.wrong_pairing/load.stdout 2>./actual/003.wrong_pairing/load.stderr 270/426 Test #401: Test_003.wrong_pairing ................................. Passed 0.02 sec test 402 Start 402: Test_003.wrong_pairing-sa-hot 402: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/runtestcase.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "sharq" "." "003.wrong_pairing-sa-hot" "1" "0" "--debug" "--no-timestamp" "--spot-assembly --readTypes=BBT --read1PairFiles=input/003.t_R1.fastq.gz,input/003.t2_R1.fastq,input/003.t3_R1.fastq --read2PairFiles=input/003.t_R2.fastq.gz,input/003.t2_R2.fastq --read3PairFiles=input/003.t_I1.fastq.gz,input/003.t2_I1.fastq,input/003.t3_I1.fastq" 402: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq 402: Test timeout computed to be: 1500 402: running 003.wrong_pairing-sa-hot 402: CMD=/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sharq --debug --no-timestamp --spot-assembly --readTypes=BBT --read1PairFiles=input/003.t_R1.fastq.gz,input/003.t2_R1.fastq,input/003.t3_R1.fastq --read2PairFiles=input/003.t_R2.fastq.gz,input/003.t2_R2.fastq --read3PairFiles=input/003.t_I1.fastq.gz,input/003.t2_I1.fastq,input/003.t3_I1.fastq 1>./actual/003.wrong_pairing-sa-hot/load.stdout 2>./actual/003.wrong_pairing-sa-hot/load.stderr 271/426 Test #402: Test_003.wrong_pairing-sa-hot .......................... Passed 0.02 sec test 403 Start 403: Test_003.wrong_pairing-sa-cold 403: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/runtestcase.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "sharq" "." "003.wrong_pairing-sa-cold" "1" "0" "--debug" "--no-timestamp" "--spot-assembly --hot-reads-threshold 0 --readTypes=BBT --read1PairFiles=input/003.t_R1.fastq.gz,input/003.t2_R1.fastq,input/003.t3_R1.fastq --read2PairFiles=input/003.t_R2.fastq.gz,input/003.t2_R2.fastq --read3PairFiles=input/003.t_I1.fastq.gz,input/003.t2_I1.fastq,input/003.t3_I1.fastq" 403: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq 403: Test timeout computed to be: 1500 403: running 003.wrong_pairing-sa-cold 403: CMD=/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sharq --debug --no-timestamp --spot-assembly --hot-reads-threshold 0 --readTypes=BBT --read1PairFiles=input/003.t_R1.fastq.gz,input/003.t2_R1.fastq,input/003.t3_R1.fastq --read2PairFiles=input/003.t_R2.fastq.gz,input/003.t2_R2.fastq --read3PairFiles=input/003.t_I1.fastq.gz,input/003.t2_I1.fastq,input/003.t3_I1.fastq 1>./actual/003.wrong_pairing-sa-cold/load.stdout 2>./actual/003.wrong_pairing-sa-cold/load.stderr 272/426 Test #403: Test_003.wrong_pairing-sa-cold ......................... Passed 0.02 sec test 404 Start 404: Test_004.truncated.fail 404: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/runtestcase.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "sharq" "." "004.truncated.fail" "1" "0" "--debug" "--no-timestamp" "input/004.truncated_1.fq.gz input/004.truncated_2.fq.gz" 404: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq 404: Test timeout computed to be: 1500 404: running 004.truncated.fail 404: CMD=/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sharq --debug --no-timestamp input/004.truncated_1.fq.gz input/004.truncated_2.fq.gz 1>./actual/004.truncated.fail/load.stdout 2>./actual/004.truncated.fail/load.stderr 273/426 Test #404: Test_004.truncated.fail ................................ Passed 0.65 sec test 405 Start 405: Test_004.truncated.pass 405: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/runtestcase.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "sharq" "." "004.truncated.pass" "0" "0" "--debug" "--no-timestamp" "--allowEarlyFileEnd input/004.truncated_1.fq.gz input/004.truncated_2.fq.gz" 405: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq 405: Test timeout computed to be: 1500 405: running 004.truncated.pass 405: CMD=/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sharq --debug --no-timestamp --allowEarlyFileEnd input/004.truncated_1.fq.gz input/004.truncated_2.fq.gz 1>./actual/004.truncated.pass/load.stdout 2>./actual/004.truncated.pass/load.stderr 274/426 Test #405: Test_004.truncated.pass ................................ Passed 0.70 sec test 406 Start 406: Test_004.truncated.pass-sa-hot 406: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/runtestcase.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "sharq" "." "004.truncated.pass-sa-hot" "0" "0" "--debug" "--no-timestamp" "--spot-assembly --allowEarlyFileEnd input/004.truncated_1.fq.gz input/004.truncated_2.fq.gz" 406: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq 406: Test timeout computed to be: 1500 406: running 004.truncated.pass-sa-hot 406: CMD=/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sharq --debug --no-timestamp --spot-assembly --allowEarlyFileEnd input/004.truncated_1.fq.gz input/004.truncated_2.fq.gz 1>./actual/004.truncated.pass-sa-hot/load.stdout 2>./actual/004.truncated.pass-sa-hot/load.stderr 275/426 Test #406: Test_004.truncated.pass-sa-hot ......................... Passed 1.28 sec test 407 Start 407: Test_004.truncated.pass-sa-cold 407: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/runtestcase.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "sharq" "." "004.truncated.pass-sa-cold" "0" "0" "--debug" "--no-timestamp" "--spot-assembly --hot-reads-threshold 0 --allowEarlyFileEnd input/004.truncated_1.fq.gz input/004.truncated_2.fq.gz" 407: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq 407: Test timeout computed to be: 1500 407: running 004.truncated.pass-sa-cold 407: CMD=/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sharq --debug --no-timestamp --spot-assembly --hot-reads-threshold 0 --allowEarlyFileEnd input/004.truncated_1.fq.gz input/004.truncated_2.fq.gz 1>./actual/004.truncated.pass-sa-cold/load.stdout 2>./actual/004.truncated.pass-sa-cold/load.stderr 276/426 Test #407: Test_004.truncated.pass-sa-cold ........................ Passed 1.30 sec test 408 Start 408: Test_005.offset0 408: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/runtestcase.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "sharq" "." "005.offset0" "0" "0" "--debug" "--no-timestamp" "input/005.offset0_1.fq input/005.offset0_2.fq" 408: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq 408: Test timeout computed to be: 1500 408: running 005.offset0 408: CMD=/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sharq --debug --no-timestamp input/005.offset0_1.fq input/005.offset0_2.fq 1>./actual/005.offset0/load.stdout 2>./actual/005.offset0/load.stderr 277/426 Test #408: Test_005.offset0 ....................................... Passed 0.34 sec test 409 Start 409: Test_005.offset0-sa-hot 409: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/runtestcase.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "sharq" "." "005.offset0-sa-hot" "0" "0" "--debug" "--no-timestamp" "--spot-assembly input/005.offset0_1.fq input/005.offset0_2.fq" 409: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq 409: Test timeout computed to be: 1500 409: running 005.offset0-sa-hot 409: CMD=/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sharq --debug --no-timestamp --spot-assembly input/005.offset0_1.fq input/005.offset0_2.fq 1>./actual/005.offset0-sa-hot/load.stdout 2>./actual/005.offset0-sa-hot/load.stderr 278/426 Test #409: Test_005.offset0-sa-hot ................................ Passed 0.65 sec test 410 Start 410: Test_005.offset0-sa-cold 410: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/runtestcase.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "sharq" "." "005.offset0-sa-cold" "0" "0" "--debug" "--no-timestamp" "--spot-assembly --hot-reads-threshold 0 input/005.offset0_1.fq input/005.offset0_2.fq" 410: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq 410: Test timeout computed to be: 1500 410: running 005.offset0-sa-cold 410: CMD=/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sharq --debug --no-timestamp --spot-assembly --hot-reads-threshold 0 input/005.offset0_1.fq input/005.offset0_2.fq 1>./actual/005.offset0-sa-cold/load.stdout 2>./actual/005.offset0-sa-cold/load.stderr 279/426 Test #410: Test_005.offset0-sa-cold ............................... Passed 0.55 sec test 411 Start 411: Test_005.offset64 411: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/runtestcase.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "sharq" "." "005.offset64" "0" "0" "--debug" "--no-timestamp" "input/005.offset64_1.fq input/005.offset64_2.fq" 411: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq 411: Test timeout computed to be: 1500 411: running 005.offset64 411: CMD=/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sharq --debug --no-timestamp input/005.offset64_1.fq input/005.offset64_2.fq 1>./actual/005.offset64/load.stdout 2>./actual/005.offset64/load.stderr 280/426 Test #411: Test_005.offset64 ...................................... Passed 0.38 sec test 412 Start 412: Test_005.offset64-sa-hot 412: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/runtestcase.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "sharq" "." "005.offset64-sa-hot" "0" "0" "--debug" "--no-timestamp" "--spot-assembly input/005.offset64_1.fq input/005.offset64_2.fq" 412: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq 412: Test timeout computed to be: 1500 412: running 005.offset64-sa-hot 412: CMD=/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sharq --debug --no-timestamp --spot-assembly input/005.offset64_1.fq input/005.offset64_2.fq 1>./actual/005.offset64-sa-hot/load.stdout 2>./actual/005.offset64-sa-hot/load.stderr 281/426 Test #412: Test_005.offset64-sa-hot ............................... Passed 0.79 sec test 413 Start 413: Test_005.offset64-sa-cold 413: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/runtestcase.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "sharq" "." "005.offset64-sa-cold" "0" "0" "--debug" "--no-timestamp" "--spot-assembly --hot-reads-threshold 0 input/005.offset64_1.fq input/005.offset64_2.fq" 413: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq 413: Test timeout computed to be: 1500 413: running 005.offset64-sa-cold 413: CMD=/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sharq --debug --no-timestamp --spot-assembly --hot-reads-threshold 0 input/005.offset64_1.fq input/005.offset64_2.fq 1>./actual/005.offset64-sa-cold/load.stdout 2>./actual/005.offset64-sa-cold/load.stderr 282/426 Test #413: Test_005.offset64-sa-cold .............................. Passed 0.96 sec test 414 Start 414: Test_006.duplicate 414: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/runtestcase.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "sharq" "." "006.duplicate" "1" "0" "--debug" "--no-timestamp" "--max-err-count 0 input/006.duplicate.fq" 414: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq 414: Test timeout computed to be: 1500 414: running 006.duplicate 414: CMD=/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sharq --debug --no-timestamp --max-err-count 0 input/006.duplicate.fq 1>./actual/006.duplicate/load.stdout 2>./actual/006.duplicate/load.stderr 283/426 Test #414: Test_006.duplicate ..................................... Passed 0.43 sec test 415 Start 415: Test_007.digest.udenfined 415: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/runtestcase.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "sharq" "." "007.digest.udenfined" "0" "0" "--debug" "--no-timestamp" "--digest input/001.read.unsupported.fq" 415: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq 415: Test timeout computed to be: 1500 415: running 007.digest.udenfined 415: CMD=/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sharq --debug --no-timestamp --digest input/001.read.unsupported.fq 1>./actual/007.digest.udenfined/load.stdout 2>./actual/007.digest.udenfined/load.stderr 284/426 Test #415: Test_007.digest.udenfined .............................. Passed 0.13 sec test 416 Start 416: Test_007.digest.udenfined-sa-hot 416: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/runtestcase.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "sharq" "." "007.digest.udenfined-sa-hot" "0" "0" "--debug" "--no-timestamp" "--spot-assembly --digest input/001.read.unsupported.fq" 416: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq 416: Test timeout computed to be: 1500 416: running 007.digest.udenfined-sa-hot 416: CMD=/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sharq --debug --no-timestamp --spot-assembly --digest input/001.read.unsupported.fq 1>./actual/007.digest.udenfined-sa-hot/load.stdout 2>./actual/007.digest.udenfined-sa-hot/load.stderr 285/426 Test #416: Test_007.digest.udenfined-sa-hot ....................... Passed 0.05 sec test 417 Start 417: Test_007.digest.udenfined-sa-cold 417: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/runtestcase.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "sharq" "." "007.digest.udenfined-sa-cold" "0" "0" "--debug" "--no-timestamp" "--spot-assembly --hot-reads-threshold 0 --digest input/001.read.unsupported.fq" 417: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq 417: Test timeout computed to be: 1500 417: running 007.digest.udenfined-sa-cold 417: CMD=/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sharq --debug --no-timestamp --spot-assembly --hot-reads-threshold 0 --digest input/001.read.unsupported.fq 1>./actual/007.digest.udenfined-sa-cold/load.stdout 2>./actual/007.digest.udenfined-sa-cold/load.stderr 286/426 Test #417: Test_007.digest.udenfined-sa-cold ...................... Passed 0.07 sec test 418 Start 418: Test_007.digest.multiple 418: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/runtestcase.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "sharq" "." "007.digest.multiple" "0" "0" "--debug" "--no-timestamp" "--digest input/003.t_R1.fastq input/003.t_R1.fastq input/003.t_I1.fastq" 418: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq 418: Test timeout computed to be: 1500 418: running 007.digest.multiple 418: CMD=/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sharq --debug --no-timestamp --digest input/003.t_R1.fastq input/003.t_R1.fastq input/003.t_I1.fastq 1>./actual/007.digest.multiple/load.stdout 2>./actual/007.digest.multiple/load.stderr 287/426 Test #418: Test_007.digest.multiple ............................... Passed 0.13 sec test 419 Start 419: Test_007.digest.multiple-sa-hot 419: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/runtestcase.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "sharq" "." "007.digest.multiple-sa-hot" "0" "0" "--debug" "--no-timestamp" "--spot-assembly --digest input/003.t_R1.fastq input/003.t_R1.fastq input/003.t_I1.fastq" 419: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq 419: Test timeout computed to be: 1500 419: running 007.digest.multiple-sa-hot 419: CMD=/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sharq --debug --no-timestamp --spot-assembly --digest input/003.t_R1.fastq input/003.t_R1.fastq input/003.t_I1.fastq 1>./actual/007.digest.multiple-sa-hot/load.stdout 2>./actual/007.digest.multiple-sa-hot/load.stderr 288/426 Test #419: Test_007.digest.multiple-sa-hot ........................ Passed 0.14 sec test 420 Start 420: Test_007.digest.multiple-sa-cold 420: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/runtestcase.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "sharq" "." "007.digest.multiple-sa-cold" "0" "0" "--debug" "--no-timestamp" "--spot-assembly --hot-reads-threshold 0 --digest input/003.t_R1.fastq input/003.t_R1.fastq input/003.t_I1.fastq" 420: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq 420: Test timeout computed to be: 1500 420: running 007.digest.multiple-sa-cold 420: CMD=/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sharq --debug --no-timestamp --spot-assembly --hot-reads-threshold 0 --digest input/003.t_R1.fastq input/003.t_R1.fastq input/003.t_I1.fastq 1>./actual/007.digest.multiple-sa-cold/load.stdout 2>./actual/007.digest.multiple-sa-cold/load.stderr 289/426 Test #420: Test_007.digest.multiple-sa-cold ....................... Passed 0.11 sec test 421 Start 421: Test_007.digest.groups 421: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/runtestcase.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "sharq" "." "007.digest.groups" "0" "0" "--debug" "--no-timestamp" "--digest input/003.t_R1.fastq.gz input/003.t2_R1.fastq input/003.t3_R1.fastq input/003.t_R2.fastq.gz input/003.t2_R2.fastq input/003.t3_R2.fastq input/003.t_I1.fastq.gz input/003.t2_I1.fastq input/003.t3_I1.fastq" 421: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq 421: Test timeout computed to be: 1500 421: running 007.digest.groups 421: CMD=/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sharq --debug --no-timestamp --digest input/003.t_R1.fastq.gz input/003.t2_R1.fastq input/003.t3_R1.fastq input/003.t_R2.fastq.gz input/003.t2_R2.fastq input/003.t3_R2.fastq input/003.t_I1.fastq.gz input/003.t2_I1.fastq input/003.t3_I1.fastq 1>./actual/007.digest.groups/load.stdout 2>./actual/007.digest.groups/load.stderr 290/426 Test #421: Test_007.digest.groups ................................. Passed 0.14 sec test 422 Start 422: Test_007.digest.error 422: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/runtestcase.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "sharq" "." "007.digest.error" "0" "0" "--debug" "--no-timestamp" "--max-err-count 0 --digest input/001.read.invalid_quality0.fq" 422: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq 422: Test timeout computed to be: 1500 422: running 007.digest.error 422: CMD=/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sharq --debug --no-timestamp --max-err-count 0 --digest input/001.read.invalid_quality0.fq 1>./actual/007.digest.error/load.stdout 2>./actual/007.digest.error/load.stderr 291/426 Test #422: Test_007.digest.error .................................. Passed 0.06 sec test 423 Start 423: Test_007.digest.error-sa-hot 423: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/runtestcase.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "sharq" "." "007.digest.error-sa-hot" "0" "0" "--debug" "--no-timestamp" "--spot-assembly --max-err-count 0 --digest input/001.read.invalid_quality0.fq" 423: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq 423: Test timeout computed to be: 1500 423: running 007.digest.error-sa-hot 423: CMD=/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sharq --debug --no-timestamp --spot-assembly --max-err-count 0 --digest input/001.read.invalid_quality0.fq 1>./actual/007.digest.error-sa-hot/load.stdout 2>./actual/007.digest.error-sa-hot/load.stderr 292/426 Test #423: Test_007.digest.error-sa-hot ........................... Passed 0.11 sec test 424 Start 424: Test_007.digest.error-sa-cold 424: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/runtestcase.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "sharq" "." "007.digest.error-sa-cold" "0" "0" "--debug" "--no-timestamp" "--spot-assembly --hot-reads-threshold 0 --max-err-count 0 --digest input/001.read.invalid_quality0.fq" 424: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq 424: Test timeout computed to be: 1500 424: running 007.digest.error-sa-cold 424: CMD=/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sharq --debug --no-timestamp --spot-assembly --hot-reads-threshold 0 --max-err-count 0 --digest input/001.read.invalid_quality0.fq 1>./actual/007.digest.error-sa-cold/load.stdout 2>./actual/007.digest.error-sa-cold/load.stderr 293/426 Test #424: Test_007.digest.error-sa-cold .......................... Passed 0.15 sec test 425 Start 425: Test_008.telemetry_pass 425: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/runtestcase.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "sharq" "." "008.telemetry_pass" "0" "1" "--debug" "--no-timestamp" "--readTypes=BBT --read1PairFiles=input/003.t_R1.fastq.gz,input/003.t2_R1.fastq,input/003.t3_R1.fastq --read2PairFiles=input/003.t_R2.fastq.gz,input/003.t2_R2.fastq,input/003.t3_R2.fastq --read3PairFiles=input/003.t_I1.fastq.gz,input/003.t2_I1.fastq,input/003.t3_I1.fastq" 425: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq 425: Test timeout computed to be: 1500 425: running 008.telemetry_pass 425: CMD=/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sharq --debug --no-timestamp --readTypes=BBT --read1PairFiles=input/003.t_R1.fastq.gz,input/003.t2_R1.fastq,input/003.t3_R1.fastq --read2PairFiles=input/003.t_R2.fastq.gz,input/003.t2_R2.fastq,input/003.t3_R2.fastq --read3PairFiles=input/003.t_I1.fastq.gz,input/003.t2_I1.fastq,input/003.t3_I1.fastq -t ./actual/008.telemetry_pass/telemetry 1>./actual/008.telemetry_pass/load.stdout 2>./actual/008.telemetry_pass/load.stderr 294/426 Test #425: Test_008.telemetry_pass ................................ Passed 3.48 sec test 426 Start 426: Test_009.more_than_4_per_spot 426: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/runtestcase.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "sharq" "." "009.more_than_4_per_spot" "1" "0" "--debug" "--no-timestamp" "--debug input/009.test_I1_001.fastq input/009.test_R1_001.fastq input/009.test_R2_001.fastq input/009.test_R3_001.fastq" 426: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq 426: Test timeout computed to be: 1500 426: running 009.more_than_4_per_spot 426: CMD=/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sharq --debug --no-timestamp --debug input/009.test_I1_001.fastq input/009.test_R1_001.fastq input/009.test_R2_001.fastq input/009.test_R3_001.fastq 1>./actual/009.more_than_4_per_spot/load.stdout 2>./actual/009.more_than_4_per_spot/load.stderr 295/426 Test #426: Test_009.more_than_4_per_spot .......................... Passed 0.52 sec test 427 Start 427: Test_010.errors.invalid_seq_pass1 427: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/runtestcase.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "sharq" "." "010.errors.invalid_seq_pass1" "0" "0" "--debug" "--no-timestamp" "input/010.errors.invalid_seq.fq" 427: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq 427: Test timeout computed to be: 1500 427: running 010.errors.invalid_seq_pass1 427: CMD=/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sharq --debug --no-timestamp input/010.errors.invalid_seq.fq 1>./actual/010.errors.invalid_seq_pass1/load.stdout 2>./actual/010.errors.invalid_seq_pass1/load.stderr 296/426 Test #427: Test_010.errors.invalid_seq_pass1 ...................... Passed 0.39 sec test 428 Start 428: Test_010.errors.invalid_seq_pass1-sa-hot 428: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/runtestcase.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "sharq" "." "010.errors.invalid_seq_pass1-sa-hot" "0" "0" "--debug" "--no-timestamp" "--spot-assembly input/010.errors.invalid_seq.fq" 428: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq 428: Test timeout computed to be: 1500 428: running 010.errors.invalid_seq_pass1-sa-hot 428: CMD=/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sharq --debug --no-timestamp --spot-assembly input/010.errors.invalid_seq.fq 1>./actual/010.errors.invalid_seq_pass1-sa-hot/load.stdout 2>./actual/010.errors.invalid_seq_pass1-sa-hot/load.stderr 297/426 Test #428: Test_010.errors.invalid_seq_pass1-sa-hot ............... Passed 0.35 sec test 429 Start 429: Test_010.errors.invalid_seq_pass1-sa-cold 429: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/runtestcase.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "sharq" "." "010.errors.invalid_seq_pass1-sa-cold" "0" "0" "--debug" "--no-timestamp" "--spot-assembly --hot-reads-threshold 0 input/010.errors.invalid_seq.fq" 429: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq 429: Test timeout computed to be: 1500 429: running 010.errors.invalid_seq_pass1-sa-cold 429: CMD=/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sharq --debug --no-timestamp --spot-assembly --hot-reads-threshold 0 input/010.errors.invalid_seq.fq 1>./actual/010.errors.invalid_seq_pass1-sa-cold/load.stdout 2>./actual/010.errors.invalid_seq_pass1-sa-cold/load.stderr 298/426 Test #429: Test_010.errors.invalid_seq_pass1-sa-cold .............. Passed 0.36 sec test 430 Start 430: Test_010.errors.invalid_seq_pass2 430: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/runtestcase.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "sharq" "." "010.errors.invalid_seq_pass2" "1" "0" "--debug" "--no-timestamp" "--max-err-count 3 input/010.errors.invalid_seq.fq" 430: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq 430: Test timeout computed to be: 1500 430: running 010.errors.invalid_seq_pass2 430: CMD=/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sharq --debug --no-timestamp --max-err-count 3 input/010.errors.invalid_seq.fq 1>./actual/010.errors.invalid_seq_pass2/load.stdout 2>./actual/010.errors.invalid_seq_pass2/load.stderr 299/426 Test #430: Test_010.errors.invalid_seq_pass2 ...................... Passed 0.03 sec test 431 Start 431: Test_010.errors.invalid_seq_pass2-sa-hot 431: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/runtestcase.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "sharq" "." "010.errors.invalid_seq_pass2-sa-hot" "1" "0" "--debug" "--no-timestamp" "--spot-assembly --max-err-count 3 input/010.errors.invalid_seq.fq" 431: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq 431: Test timeout computed to be: 1500 431: running 010.errors.invalid_seq_pass2-sa-hot 431: CMD=/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sharq --debug --no-timestamp --spot-assembly --max-err-count 3 input/010.errors.invalid_seq.fq 1>./actual/010.errors.invalid_seq_pass2-sa-hot/load.stdout 2>./actual/010.errors.invalid_seq_pass2-sa-hot/load.stderr 300/426 Test #431: Test_010.errors.invalid_seq_pass2-sa-hot ............... Passed 0.02 sec test 432 Start 432: Test_010.errors.invalid_seq_pass2-sa-cold 432: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/runtestcase.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "sharq" "." "010.errors.invalid_seq_pass2-sa-cold" "1" "0" "--debug" "--no-timestamp" "--spot-assembly --hot-reads-threshold 0 --max-err-count 3 input/010.errors.invalid_seq.fq" 432: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq 432: Test timeout computed to be: 1500 432: running 010.errors.invalid_seq_pass2-sa-cold 432: CMD=/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sharq --debug --no-timestamp --spot-assembly --hot-reads-threshold 0 --max-err-count 3 input/010.errors.invalid_seq.fq 1>./actual/010.errors.invalid_seq_pass2-sa-cold/load.stdout 2>./actual/010.errors.invalid_seq_pass2-sa-cold/load.stderr 301/426 Test #432: Test_010.errors.invalid_seq_pass2-sa-cold .............. Passed 0.03 sec test 433 Start 433: Test_010.errors.invalid_seq_fail 433: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/runtestcase.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "sharq" "." "010.errors.invalid_seq_fail" "1" "0" "--debug" "--no-timestamp" "--max-err-count 3 input/010.errors.invalid_seq.fq" 433: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq 433: Test timeout computed to be: 1500 433: running 010.errors.invalid_seq_fail 433: CMD=/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sharq --debug --no-timestamp --max-err-count 3 input/010.errors.invalid_seq.fq 1>./actual/010.errors.invalid_seq_fail/load.stdout 2>./actual/010.errors.invalid_seq_fail/load.stderr 302/426 Test #433: Test_010.errors.invalid_seq_fail ....................... Passed 0.02 sec test 434 Start 434: Test_010.errors.invalid_seq_fail-sa-hot 434: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/runtestcase.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "sharq" "." "010.errors.invalid_seq_fail-sa-hot" "1" "0" "--debug" "--no-timestamp" "--spot-assembly --max-err-count 3 input/010.errors.invalid_seq.fq" 434: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq 434: Test timeout computed to be: 1500 434: running 010.errors.invalid_seq_fail-sa-hot 434: CMD=/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sharq --debug --no-timestamp --spot-assembly --max-err-count 3 input/010.errors.invalid_seq.fq 1>./actual/010.errors.invalid_seq_fail-sa-hot/load.stdout 2>./actual/010.errors.invalid_seq_fail-sa-hot/load.stderr 303/426 Test #434: Test_010.errors.invalid_seq_fail-sa-hot ................ Passed 0.02 sec test 435 Start 435: Test_010.errors.invalid_seq_fail-sa-cold 435: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/runtestcase.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "sharq" "." "010.errors.invalid_seq_fail-sa-cold" "1" "0" "--debug" "--no-timestamp" "--spot-assembly --hot-reads-threshold 0 --max-err-count 3 input/010.errors.invalid_seq.fq" 435: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq 435: Test timeout computed to be: 1500 435: running 010.errors.invalid_seq_fail-sa-cold 435: CMD=/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sharq --debug --no-timestamp --spot-assembly --hot-reads-threshold 0 --max-err-count 3 input/010.errors.invalid_seq.fq 1>./actual/010.errors.invalid_seq_fail-sa-cold/load.stdout 2>./actual/010.errors.invalid_seq_fail-sa-cold/load.stderr 304/426 Test #435: Test_010.errors.invalid_seq_fail-sa-cold ............... Passed 0.02 sec test 436 Start 436: Test_011.nanopore.3 436: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/runtestcase.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "sharq" "." "011.nanopore.3" "0" "0" "--debug" "--no-timestamp" "--max-err-count 0 input/011.nanopore.3.fq" 436: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq 436: Test timeout computed to be: 1500 436: running 011.nanopore.3 436: CMD=/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sharq --debug --no-timestamp --max-err-count 0 input/011.nanopore.3.fq 1>./actual/011.nanopore.3/load.stdout 2>./actual/011.nanopore.3/load.stderr 305/426 Test #436: Test_011.nanopore.3 .................................... Passed 0.24 sec test 437 Start 437: Test_011.nanopore.3-sa-hot 437: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/runtestcase.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "sharq" "." "011.nanopore.3-sa-hot" "0" "0" "--debug" "--no-timestamp" "--spot-assembly --max-err-count 0 input/011.nanopore.3.fq" 437: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq 437: Test timeout computed to be: 1500 437: running 011.nanopore.3-sa-hot 437: CMD=/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sharq --debug --no-timestamp --spot-assembly --max-err-count 0 input/011.nanopore.3.fq 1>./actual/011.nanopore.3-sa-hot/load.stdout 2>./actual/011.nanopore.3-sa-hot/load.stderr 306/426 Test #437: Test_011.nanopore.3-sa-hot ............................. Passed 0.35 sec test 438 Start 438: Test_011.nanopore.3-sa-cold 438: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/runtestcase.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "sharq" "." "011.nanopore.3-sa-cold" "0" "0" "--debug" "--no-timestamp" "--spot-assembly --hot-reads-threshold 0 --max-err-count 0 input/011.nanopore.3.fq" 438: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq 438: Test timeout computed to be: 1500 438: running 011.nanopore.3-sa-cold 438: CMD=/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sharq --debug --no-timestamp --spot-assembly --hot-reads-threshold 0 --max-err-count 0 input/011.nanopore.3.fq 1>./actual/011.nanopore.3-sa-cold/load.stdout 2>./actual/011.nanopore.3-sa-cold/load.stderr 307/426 Test #438: Test_011.nanopore.3-sa-cold ............................ Passed 0.35 sec test 439 Start 439: Test_012.qualities 439: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/runtestcase.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "sharq" "." "012.qualities" "0" "0" "--debug" "--no-timestamp" "--max-err-count 0 input/012.test_I1_001.fastq input/012.test_R1_001.fastq input/012.test_R2_001.fastq input/012.test2_I1_001.fastq input/012.test2_R1_001.fastq input/012.test2_R2_001.fastq" 439: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq 439: Test timeout computed to be: 1500 439: running 012.qualities 439: CMD=/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sharq --debug --no-timestamp --max-err-count 0 input/012.test_I1_001.fastq input/012.test_R1_001.fastq input/012.test_R2_001.fastq input/012.test2_I1_001.fastq input/012.test2_R1_001.fastq input/012.test2_R2_001.fastq 1>./actual/012.qualities/load.stdout 2>./actual/012.qualities/load.stderr 308/426 Test #439: Test_012.qualities ..................................... Passed 0.88 sec test 440 Start 440: Test_012.qualities-sa-hot 440: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/runtestcase.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "sharq" "." "012.qualities-sa-hot" "0" "0" "--debug" "--no-timestamp" "--spot-assembly --max-err-count 0 input/012.test_I1_001.fastq input/012.test_R1_001.fastq input/012.test_R2_001.fastq input/012.test2_I1_001.fastq input/012.test2_R1_001.fastq input/012.test2_R2_001.fastq" 440: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq 440: Test timeout computed to be: 1500 440: running 012.qualities-sa-hot 440: CMD=/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sharq --debug --no-timestamp --spot-assembly --max-err-count 0 input/012.test_I1_001.fastq input/012.test_R1_001.fastq input/012.test_R2_001.fastq input/012.test2_I1_001.fastq input/012.test2_R1_001.fastq input/012.test2_R2_001.fastq 1>./actual/012.qualities-sa-hot/load.stdout 2>./actual/012.qualities-sa-hot/load.stderr 309/426 Test #440: Test_012.qualities-sa-hot .............................. Passed 1.49 sec test 441 Start 441: Test_012.qualities-sa-cold 441: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/runtestcase.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "sharq" "." "012.qualities-sa-cold" "0" "0" "--debug" "--no-timestamp" "--spot-assembly --hot-reads-threshold 0 --max-err-count 0 input/012.test_I1_001.fastq input/012.test_R1_001.fastq input/012.test_R2_001.fastq input/012.test2_I1_001.fastq input/012.test2_R1_001.fastq input/012.test2_R2_001.fastq" 441: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq 441: Test timeout computed to be: 1500 441: running 012.qualities-sa-cold 441: CMD=/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sharq --debug --no-timestamp --spot-assembly --hot-reads-threshold 0 --max-err-count 0 input/012.test_I1_001.fastq input/012.test_R1_001.fastq input/012.test_R2_001.fastq input/012.test2_I1_001.fastq input/012.test2_R1_001.fastq input/012.test2_R2_001.fastq 1>./actual/012.qualities-sa-cold/load.stdout 2>./actual/012.qualities-sa-cold/load.stderr 310/426 Test #441: Test_012.qualities-sa-cold ............................. Passed 1.49 sec test 442 Start 442: Test_012.qualities_with_types-sa-hot 442: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/runtestcase.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "sharq" "." "012.qualities_with_types-sa-hot" "0" "0" "--debug" "--no-timestamp" "--spot-assembly --readTypes=TTB input/012.test_I1_001.fastq input/012.test_R1_001.fastq input/012.test_R2_001.fastq input/012.test2_I1_001.fastq input/012.test2_R1_001.fastq input/012.test2_R2_001.fastq" 442: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq 442: Test timeout computed to be: 1500 442: running 012.qualities_with_types-sa-hot 442: CMD=/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sharq --debug --no-timestamp --spot-assembly --readTypes=TTB input/012.test_I1_001.fastq input/012.test_R1_001.fastq input/012.test_R2_001.fastq input/012.test2_I1_001.fastq input/012.test2_R1_001.fastq input/012.test2_R2_001.fastq 1>./actual/012.qualities_with_types-sa-hot/load.stdout 2>./actual/012.qualities_with_types-sa-hot/load.stderr 311/426 Test #442: Test_012.qualities_with_types-sa-hot ................... Passed 1.48 sec test 443 Start 443: Test_012.qualities_with_types-sa-cold 443: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/runtestcase.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "sharq" "." "012.qualities_with_types-sa-cold" "0" "0" "--debug" "--no-timestamp" "--spot-assembly --hot-reads-threshold 0 --readTypes=TTB input/012.test_I1_001.fastq input/012.test_R1_001.fastq input/012.test_R2_001.fastq input/012.test2_I1_001.fastq input/012.test2_R1_001.fastq input/012.test2_R2_001.fastq" 443: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq 443: Test timeout computed to be: 1500 443: running 012.qualities_with_types-sa-cold 443: CMD=/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sharq --debug --no-timestamp --spot-assembly --hot-reads-threshold 0 --readTypes=TTB input/012.test_I1_001.fastq input/012.test_R1_001.fastq input/012.test_R2_001.fastq input/012.test2_I1_001.fastq input/012.test2_R1_001.fastq input/012.test2_R2_001.fastq 1>./actual/012.qualities_with_types-sa-cold/load.stdout 2>./actual/012.qualities_with_types-sa-cold/load.stderr 312/426 Test #443: Test_012.qualities_with_types-sa-cold .................. Passed 3.55 sec test 444 Start 444: Test_013.no-reads 444: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/runtestcase.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "sharq" "." "013.no-reads" "0" "0" "--debug" "--no-timestamp" "--max-err-count 0 input/013.t_I1.fastq input/013.t_I2.fastq input/013.t_R1.fastq input/013.t_R2.fastq" 444: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq 444: Test timeout computed to be: 1500 444: running 013.no-reads 444: CMD=/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sharq --debug --no-timestamp --max-err-count 0 input/013.t_I1.fastq input/013.t_I2.fastq input/013.t_R1.fastq input/013.t_R2.fastq 1>./actual/013.no-reads/load.stdout 2>./actual/013.no-reads/load.stderr 313/426 Test #444: Test_013.no-reads ...................................... Passed 7.25 sec test 445 Start 445: Test_013.no-reads-sa-hot 445: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/runtestcase.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "sharq" "." "013.no-reads-sa-hot" "0" "0" "--debug" "--no-timestamp" "--spot-assembly --max-err-count 0 input/013.t_I1.fastq input/013.t_I2.fastq input/013.t_R1.fastq input/013.t_R2.fastq" 445: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq 445: Test timeout computed to be: 1500 445: running 013.no-reads-sa-hot 445: CMD=/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sharq --debug --no-timestamp --spot-assembly --max-err-count 0 input/013.t_I1.fastq input/013.t_I2.fastq input/013.t_R1.fastq input/013.t_R2.fastq 1>./actual/013.no-reads-sa-hot/load.stdout 2>./actual/013.no-reads-sa-hot/load.stderr 314/426 Test #445: Test_013.no-reads-sa-hot ............................... Passed 5.80 sec test 446 Start 446: Test_013.no-reads-sa-cold 446: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/runtestcase.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "sharq" "." "013.no-reads-sa-cold" "0" "0" "--debug" "--no-timestamp" "--spot-assembly --hot-reads-threshold 0 --max-err-count 0 input/013.t_I1.fastq input/013.t_I2.fastq input/013.t_R1.fastq input/013.t_R2.fastq" 446: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq 446: Test timeout computed to be: 1500 446: running 013.no-reads-sa-cold 446: CMD=/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sharq --debug --no-timestamp --spot-assembly --hot-reads-threshold 0 --max-err-count 0 input/013.t_I1.fastq input/013.t_I2.fastq input/013.t_R1.fastq input/013.t_R2.fastq 1>./actual/013.no-reads-sa-cold/load.stdout 2>./actual/013.no-reads-sa-cold/load.stderr 315/426 Test #446: Test_013.no-reads-sa-cold .............................. Passed 11.55 sec test 447 Start 447: Test_014.2files_bad_sequence 447: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/runtestcase.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "sharq" "." "014.2files_bad_sequence" "0" "0" "--debug" "--no-timestamp" "input/014.R1.fastq input/014.R2.fastq" 447: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq 447: Test timeout computed to be: 1500 447: running 014.2files_bad_sequence 447: CMD=/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sharq --debug --no-timestamp input/014.R1.fastq input/014.R2.fastq 1>./actual/014.2files_bad_sequence/load.stdout 2>./actual/014.2files_bad_sequence/load.stderr 316/426 Test #447: Test_014.2files_bad_sequence ........................... Passed 0.34 sec test 448 Start 448: Test_015.pending_spots 448: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/runtestcase.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "sharq" "." "015.pending_spots" "0" "0" "--debug" "--no-timestamp" "input/015.R1.fq input/015.R2.fq" 448: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq 448: Test timeout computed to be: 1500 448: running 015.pending_spots 448: CMD=/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sharq --debug --no-timestamp input/015.R1.fq input/015.R2.fq 1>./actual/015.pending_spots/load.stdout 2>./actual/015.pending_spots/load.stderr 317/426 Test #448: Test_015.pending_spots ................................. Passed 0.34 sec test 449 Start 449: Test_015.pending_spots-sa-hot 449: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/runtestcase.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "sharq" "." "015.pending_spots-sa-hot" "0" "0" "--debug" "--no-timestamp" "--spot-assembly input/015.R1.fq input/015.R2.fq" 449: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq 449: Test timeout computed to be: 1500 449: running 015.pending_spots-sa-hot 449: CMD=/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sharq --debug --no-timestamp --spot-assembly input/015.R1.fq input/015.R2.fq 1>./actual/015.pending_spots-sa-hot/load.stdout 2>./actual/015.pending_spots-sa-hot/load.stderr 318/426 Test #449: Test_015.pending_spots-sa-hot .......................... Passed 0.65 sec test 450 Start 450: Test_015.pending_spots-sa-cold 450: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/runtestcase.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "sharq" "." "015.pending_spots-sa-cold" "0" "0" "--debug" "--no-timestamp" "--spot-assembly --hot-reads-threshold 0 input/015.R1.fq input/015.R2.fq" 450: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq 450: Test timeout computed to be: 1500 450: running 015.pending_spots-sa-cold 450: CMD=/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sharq --debug --no-timestamp --spot-assembly --hot-reads-threshold 0 input/015.R1.fq input/015.R2.fq 1>./actual/015.pending_spots-sa-cold/load.stdout 2>./actual/015.pending_spots-sa-cold/load.stderr 319/426 Test #450: Test_015.pending_spots-sa-cold ......................... Passed 0.55 sec test 451 Start 451: Test_016.set.platform 451: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/runtestcase.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "sharq" "." "016.set.platform" "0" "1" "--debug" "--no-timestamp" "--platform=BGISEQ input/001.R1.fastq" 451: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq 451: Test timeout computed to be: 1500 451: running 016.set.platform 451: CMD=/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sharq --debug --no-timestamp --platform=BGISEQ input/001.R1.fastq -t ./actual/016.set.platform/telemetry 1>./actual/016.set.platform/load.stdout 2>./actual/016.set.platform/load.stderr 320/426 Test #451: Test_016.set.platform .................................. Passed 0.23 sec test 452 Start 452: Test_DbMetaSingleFile 452: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/runtestcase-meta.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sharq" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/general-loader" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/kdbmeta" "." "DbMetaSingleFile" "input/001.R1.fastq" "LOAD" 452: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq 452: Test timeout computed to be: 1500 452: running DbMetaSingleFile 452: CMD=/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sharq input/001.R1.fastq 2>./actual/DbMetaSingleFile/load.stderr | /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/general-loader -T ./actual/DbMetaSingleFile/db -I ./../../../libs/schema:./../../../../ncbi-vdb/interfaces 1>./actual/DbMetaSingleFile/load.stdout 2>>./actual/DbMetaSingleFile/load.stderr 452: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/runtestcase-meta.sh: line 96: ./actual/DbMetaSingleFile/db: Is a directory 452: CMD=/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sharq input/001.R1.fastq 2>./actual/DbMetaSingleFile/load.stderr | /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/general-loader -T ./actual/DbMetaSingleFile/db -I ./../../../libs/schema:./../../../../ncbi-vdb/interfaces 1>./actual/DbMetaSingleFile/load.stdout 2>>./actual/DbMetaSingleFile/load.stderr 321/426 Test #452: Test_DbMetaSingleFile .................................. Passed 0.68 sec test 453 Start 453: Test_DbMetaMultipleFiles 453: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/runtestcase-meta.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sharq" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/general-loader" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/kdbmeta" "." "DbMetaMultipleFiles" "input/r1.fastq input/r2.fastq" "LOAD" 453: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq 453: Test timeout computed to be: 1500 453: running DbMetaMultipleFiles 453: CMD=/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sharq input/r1.fastq input/r2.fastq 2>./actual/DbMetaMultipleFiles/load.stderr | /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/general-loader -T ./actual/DbMetaMultipleFiles/db -I ./../../../libs/schema:./../../../../ncbi-vdb/interfaces 1>./actual/DbMetaMultipleFiles/load.stdout 2>>./actual/DbMetaMultipleFiles/load.stderr 453: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sharq/runtestcase-meta.sh: line 96: ./actual/DbMetaMultipleFiles/db: Is a directory 453: CMD=/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/sharq input/r1.fastq input/r2.fastq 2>./actual/DbMetaMultipleFiles/load.stderr | /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/general-loader -T ./actual/DbMetaMultipleFiles/db -I ./../../../libs/schema:./../../../../ncbi-vdb/interfaces 1>./actual/DbMetaMultipleFiles/load.stdout 2>>./actual/DbMetaMultipleFiles/load.stderr 322/426 Test #453: Test_DbMetaMultipleFiles ............................... Passed 0.88 sec test 454 Start 454: Test_sra_sort_meta_copy 454: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sra-sort/sra_sort_meta_copy.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/schema:/usr/include/ncbi-vdb" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" 454: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/loaders/sra-sort 454: Test timeout computed to be: 1500 454: Files before.xml and after.xml are identical 323/426 Test #454: Test_sra_sort_meta_copy ................................ Passed 1.63 sec test 455 Start 455: Test_Align_samextract 455: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test-bin/Test_Align_samextract 455: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/internal/align 455: Test timeout computed to be: 1500 455: Running 14 test cases... 455: Test_Qual_Decode (0 s) 455: Fast_Sequence (0 s) 455: Fast_u32toa (0 s) 455: Fast_i32toa (0 s) 455: Fast_strtoi64 (0 s) 455: Decode_Cigar (0 s) 455: Check_Cigar (0 s) 455: In_Range (0 s) 455: Is_MD5 (0 s) 455: Is_floworder (0 s) 455: header1 (0 s) 455: BAMfile (0 s) 455: Filter (0 s) 455: None of below files should hang: 455: fuzz/id000000,sig11,src000036,ophavoc,rep128 455: fuzz/id000000,src000000+000001,opsplice,rep16 455: fuzz/id000000,src000000,oparith8,pos3,val+10 455: fuzz/id000001,src000001,oparith16,pos10,val-6 455: fuzz/id000001,src000001,oparith8,pos10,val+9 455: fuzz/id000001,src000003,ophavoc,rep2 455: fuzz/id000002,src000000+000006,opsplice,rep64 455: fuzz/id000002,src000001,oparith8,pos10,val-31 455: fuzz/id000002,src000001,ophavoc,rep4 455: fuzz/id000003,src000001,ophavoc,rep2 455: fuzz/id000003,src000001,ophavoc,rep8 455: fuzz/id000003,src000007,ophavoc,rep2 455: fuzz/id000004,src000001,ophavoc,rep2 455: fuzz/id000004,src000001,ophavoc,rep32 455: fuzz/id000004,src000012,ophavoc,rep8 455: fuzz/id000005,src000001,ophavoc,rep2 455: fuzz/id000005,src000001,ophavoc,rep8 455: fuzz/id000005,src000013+000012,opsplice,rep4 455: fuzz/id000006,src000001,ophavoc,rep2 455: fuzz/id000006,src000001,ophavoc,rep4 455: fuzz/id000006,src000014,ophavoc,rep2 455: fuzz/id000007,src000002,opflip1,pos4 455: fuzz/id000007,src000023,ophavoc,rep4 455: fuzz/id000008,src000002,opflip1,pos8 455: fuzz/id000008,src000029,ophavoc,rep64 455: fuzz/id000009,src000002,opflip1,pos22 455: fuzz/id000009,src000031,ophavoc,rep2 455: fuzz/id000010,src000002,opflip1,pos25 455: fuzz/id000010,src000037+000017,opsplice,rep2 455: fuzz/id000011,src000002,opflip1,pos33 455: fuzz/id000011,src000046,ophavoc,rep2 455: fuzz/id000012,src000002,opflip4,pos20 455: fuzz/id000012,src000049,ophavoc,rep4 455: fuzz/id000013,src000002,opflip4,pos38 455: fuzz/id000013,src000048,ophavoc,rep2 455: fuzz/id000014,src000002,opflip4,pos76 455: fuzz/id000014,src000021+000026,opsplice,rep2 455: fuzz/id000015,src000002,opflip8,pos25 455: fuzz/id000015,src000056,ophavoc,rep2 455: fuzz/id000016,src000002,opint16,pos77,val-129 455: fuzz/id000016,src000002,opint8,pos14,val-1 455: fuzz/id000017,src000002,ophavoc,rep32 455: fuzz/id000017,src000002,opint16,pos77,val-129 455: fuzz/id000018,src000002,opint32,pos25,val+2147483647 455: fuzz/id000018,src000003,opint16,pos3,val-129 455: fuzz/id000019,src000002,opint32,pos33,valbe-128 455: fuzz/id000019,src000007,opflip16,pos33 455: fuzz/id000020,src000002,ophavoc,rep4 455: fuzz/id000020,src000007,opint16,pos117,val-129 455: fuzz/id000021,src000004,opint16,pos4,val+32767 455: fuzz/id000021,src000011,opflip4,pos76 455: fuzz/id000022,src000004,ophavoc,rep16 455: fuzz/id000022,src000011,opflip4,pos116 455: fuzz/id000023,src000011,opflip4,pos116 455: fuzz/id000023,src000018,opflip1,pos15 455: fuzz/id000024,src000011,opflip16,pos52 455: fuzz/id000024,src000018,opflip1,pos26 455: fuzz/id000025,src000018,opflip1,pos15 455: fuzz/id000025,src000018,opflip4,pos92 455: fuzz/id000026,src000018,opflip1,pos26 455: fuzz/id000026,src000018,opflip4,pos137 455: fuzz/id000027,src000018,opflip4,pos24 455: fuzz/id000028,src000018,opflip4,pos92 455: fuzz/id000029,src000018,opflip4,pos137 455: fuzz/id000030,src000018,opint16,pos138,val-129 455: fuzz/id000031,src000018,ophavoc,rep8 455: 455: Fuzz_Hangs (0 s) 455: 455: *** No errors detected (0 s total) 324/426 Test #455: Test_Align_samextract .................................. Passed 0.39 sec test 457 Start 457: Test_Align_Cache 457: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/internal/align-cache/runtest.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/libs/schema:/usr/include/ncbi-vdb" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "align-cache" 457: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/internal/align-cache 457: Test timeout computed to be: 1500 457: testing align-cache 325/426 Test #457: Test_Align_Cache ....................................... Passed 0.31 sec test 458 Start 458: Test_KFF 458: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test-bin/Test_KFF 458: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/internal/copycat 458: Test timeout computed to be: 1500 458: Running 2 test cases... 458: ExtFileFormat (0 s) 458: MagicFileFormat (0 s) 458: 458: *** No errors detected (0 s total) 326/426 Test #458: Test_KFF ............................................... Passed 0.01 sec test 459 Start 459: Test_Copycat_Help 459: Test command: /usr/bin/sh "-c" "ls /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/copycat>/dev/null 2>&1 && /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/copycat -h || echo no copycat" 459: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/internal/copycat 459: Test timeout computed to be: 1500 459: 459: Usage: 459: copycat [options] src-file dst-file 459: copycat [options] src-file [src-file...] dst-dir 459: copycat [options] -o dst-dir src-file [src-file...] 459: 459: Summary: 459: Copies files and/or directories, creating a catalog of the copied files. 459: -x|--cache-dir location of output cached files 459: -f|--force force overwrite of existing files 459: -o|--output location of output 459: -e|--extract location of extracted files 459: -E|--extract-to-dir extracted directories match normal XML 459: -X|--xml-dir XML matches extracted files 459: --input-buffer system file reads are of blocks of this size 459: --output-buffer system file writes are of blocks of this 459: size 459: --no-bzip2 do not decompress files compressed with 459: bzip2 459: --no-md5 do not calculate md5 hashes 459: -h|--help Output brief explanation for the program. 459: -V|--version Display the version of the program then 459: quit. 459: -L|--log-level Logging level as number or enum string. One 459: of (fatal|sys|int|err|warn|info|debug) or 459: (0-6) Current/default is warn. 459: -v|--verbose Increase the verbosity of the program 459: status messages. Use multiple times for more 459: verbosity. Negates quiet. 459: -q|--quiet Turn off all status messages for the 459: program. Negated by verbose. 459: --option-file Read more options and parameters from the 459: file. 459: Use: 459: Copy and catalog: 459: Some quick examples: 459: copycat dir/file.tar other-dir/file.tar 459: copy file.tar from dir to other-dir and write the catalog to stdout 459: copycat dir/file.tar otherdir/ 459: the same 459: copycat "ncbi-file:dir/file.tar.nenc?encrypt&pwfile=pw other-dir.file.tar 459: copy and decrypt file.tar.nenc from dir to other-dir and catalog 459: copycat dir/file.tar "ncbi-file:other-dir/file.tar.nenc?encrypt&pwfile=pw 459: copy and encrypt file.tar from dir to other-dir/file.tar.nenc and catalog 459: copycat "ncbi-file:dir/file.tar.nenc?encrypt&pwfile=pw1 \ 459: "ncbi-file:other-dir/file.tar.nenc?encrypt&pwfile=pw2 459: copy the file as above while changing the encryption 459: 459: Use: 459: Copy source file[s] to a destination file or directory. 459: File names can either be typical path names or they can be URLs (IRLs) using 459: the standard "file" or extended "ncbi-file" schemes. 459: The catalog is XML output sent by default to stdout. 459: As UTF-8 is accepted in the paths they are IRLs for International Resource 459: Locators. 459: 459: If the specified destination does not exist, there could be an ambiguity 459: whether the destination is supposed to be a file or directory. If the 459: entered path ends in a '/' character or if there is more than one source 459: it is assumed to mean a directory and is created as such. If neither of 459: of those apply it is assumed to be a file. 459: 459: The sources or destination may also be special Unix devices: 459: /dev/stdin is supported as a source. 459: /dev/stdout and /dev/stderr is supported as a destination. 459: Other file descriptor devices can be used in the form: 459: /dev/fd/ 459: For example /dev/stdin is synonymous with /dev/fd/0 as a source. 459: If /dev/stdout or /dev/fd/1 is used as the destination then the XML 459: output is redirected to /dev/stderr (/dev/fd/2). 459: Device /dev/null as the destination is treated as a file with only one 459: source but as a directory if more than one source. Using this device 459: means no actual file will be copied but the cataloging will be done but 459: xml-base-node must be used. 459: 459: These special devices can be entered using the URL (IRL) schemes if 459: desired. This allows the use of 'query' decorators. 459: 459: If a query is added to the URL it will need to be enclosed within '"' 459: characters on a command line to prevent premature interpretation. 459: The query for the 'ncbi-file' extension to the 'file' scheme allows 459: encryption and decryption. The supported query is introduced by the 459: standard URI/IRI syntax of a '?' character with a '&' character 459: separating individual query-entries. 459: 459: The supported query entries are: 459: 'encrypt' or 'enc' to mean the input may be encrypted or the output 459: will be encrypted, 459: 'pwfile=' gives the path to file containing the password. 459: 'pwfd=' gives the numerical file descriptor from which to read 459: the password, 459: 459: In this program the encrypted input can apply to a file contained within 459: the source rather than just the source file itself. The tool is fully 459: compatible with all versions of NCBI encryption. 459: 459: If the output is to be encrypted only the newer FIPS compliant encryption 459: will be used and applies to the whole file. 459: 459: NOTE: Not all combinations of URL specifications will work at this point. 459: 459: NOTE: using the same file descriptor for multiple sources or overlapping with 459: stdin/stdout/stderr may cause undefined behavior including hanging the 459: the program. 459: 459: The '-x' option allows small files that are typed as eligible for 459: caching to be copied to the cache directory provided. the directory 459: will be created if necessary. 459: the intent is to capture top-level files, such that files are copied 459: into the flat cache directory without regard to where they were found 459: in the input hierarchy. in the case of name conflict, output files will 459: be renamed. 459: 459: To prevent internal decompression of bzipped files, use the option 459: '--no-bzip2' 459: 459: To prevent calculation of MD5 hashes, use the option 459: '--no-md5' 459: 459: 459: /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/copycat : 3.2.1 459: 327/426 Test #459: Test_Copycat_Help ...................................... Passed 0.01 sec test 460 Start 460: Test_Copycat_Bad_Name 460: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/internal/copycat/test-bad-name.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "copycat" 460: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/internal/copycat 460: Test timeout computed to be: 1500 460: testing copycat expected output for file name with % 460: copycat test file name with % succeeded 328/426 Test #460: Test_Copycat_Bad_Name .................................. Passed 0.05 sec test 461 Start 461: Test_Copycat_IdenticalCopy 461: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/internal/copycat/test-copy.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "copycat" 461: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/internal/copycat 461: Test timeout computed to be: 1500 461: testing copycat copy 461: copycat copy succeeded 329/426 Test #461: Test_Copycat_IdenticalCopy ............................. Passed 0.05 sec test 462 Start 462: Test_Copycat_FastqParser 462: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/internal/copycat/test-fastq.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "copycat" 462: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/internal/copycat 462: Test timeout computed to be: 1500 462: testing copycat fastq parser 462: copycat fastq parser succeeded 330/426 Test #462: Test_Copycat_FastqParser ............................... Passed 0.13 sec test 463 Start 463: Test_MakeReadFilter 463: Test command: /usr/bin/cmake "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test-bin/tmp" "/usr/bin/cmake" "-E" "env" "NCBI_SETTINGS=/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test-bin/tmp/tmp.mkfg" "/usr/bin/cmake" "-E" "env" "VDB_LIBRARY_PATH=/usr/lib/x86_64-linux-gnu" "./runtest.sh" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "/usr/lib/x86_64-linux-gnu" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test-bin/tmp" "" 463: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/internal/make-read-filter 463: Test timeout computed to be: 1500 463: /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin /usr/lib/x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test-bin/tmp 331/426 Test #463: Test_MakeReadFilter .................................... Passed 0.44 sec test 464 Start 464: Test_Read_filter_redact_Check_exit_code 464: Test command: /usr/bin/sh "-c" "ls /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/read-filter-redact>/dev/null 2>&1 && /usr/bin/python3 /build/reproducible-path/sra-sdk-3.2.1+dfsg/build/check-exit-code.py /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/read-filter-redact || echo no read-filter-redact" 464: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/internal/read-filter-redact 464: Test timeout computed to be: 1500 464: [check-exit-code.py] test passed for [/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/read-filter-redact] 332/426 Test #464: Test_Read_filter_redact_Check_exit_code ................ Passed 0.05 sec test 465 Start 465: Test_Read_filter_redact 465: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/internal/read-filter-redact/runtests.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "read-filter-redact" 465: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/internal/read-filter-redact 465: Test timeout computed to be: 1500 465: Testing read-filter-redact from /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin 333/426 Test #465: Test_Read_filter_redact ................................ Passed 0.35 sec test 466 Start 466: Test_VDB_Copy_Check_exit_code 466: Test command: /usr/bin/python3 "/build/reproducible-path/sra-sdk-3.2.1+dfsg/build/check-exit-code.py" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/vdb-copy" 466: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/internal/vdb-copy 466: Test timeout computed to be: 1500 466: [check-exit-code.py] test passed for [/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/vdb-copy] 334/426 Test #466: Test_VDB_Copy_Check_exit_code .......................... Passed 0.04 sec test 468 Start 468: Test_VDB_Copy_Should_Fail_On_Invalid_Accession 468: Test command: /usr/bin/sh "-c" "./return_code_on_error.sh /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" 468: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/internal/vdb-copy 468: Test timeout computed to be: 1500 468: 2025-04-16T01:51:40 vdb-copy.3.2.1 int: item not found while copying within virtual database module - the path 'NOT_EXISTING_DIR' cannot be opened as vdb-database or vdb-table 468: SUCCESS: vdb-copy returned 3 if ask to copy a none-existing object. 335/426 Test #468: Test_VDB_Copy_Should_Fail_On_Invalid_Accession ......... Passed 0.04 sec test 470 Start 470: Test_VDB_Diff_Check_exit_code 470: Test command: /usr/bin/sh "-c" "ls /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/vdb-diff>/dev/null 2>&1 && /usr/bin/python3 /build/reproducible-path/sra-sdk-3.2.1+dfsg/build/check-exit-code.py /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/vdb-diff || echo no vdb-diff" 470: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/internal/vdb-diff 470: Test timeout computed to be: 1500 470: WARNING[TEST1] help message is in 'STDOUT' 470: [check-exit-code.py] test passed for [/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/vdb-diff] 336/426 Test #470: Test_VDB_Diff_Check_exit_code .......................... Passed 0.05 sec test 473 Start 473: Test_qa-stats_Input 473: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test-bin/Test_qa-stats_Input 473: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats 473: Test timeout computed to be: 1500 473: Running 4 test cases... 473: Empty (0 s) 473: Fastq_1 (0 s) 473: Fastq_2 (0 s) 473: Fastq_File (0 s) 473: 473: *** No errors detected (0 s total) 337/426 Test #473: Test_qa-stats_Input .................................... Passed 0.01 sec test 474 Start 474: Test_qa-stats_Output 474: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test-bin/Test_qa-stats_Output 474: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats 474: Test timeout computed to be: 1500 474: Running 19 test cases... 474: Empty (0 s) 474: InsertInt (0 s) 474: InsertFloat (0 s) 474: InsertTrue (0 s) 474: InsertFalse (0 s) 474: InsertChar (0 s) 474: InsertCString (0 s) 474: InsertString (0 s) 474: InsertStringView (0 s) 474: InsertArrayElem (0 s) 474: InsertArrayElems (0 s) 474: InsertArrayElems_Strings (0 s) 474: InsertMember (0 s) 474: InsertMembers (0 s) 474: InsertArrayElem_compact (0 s) 474: InsertArrayElems_compact (0 s) 474: InsertArrayElems_Strings_compact (0 s) 474: InsertMember_compact (0 s) 474: InsertMembers_compact (0 s) 474: 474: *** No errors detected (0 s total) 338/426 Test #474: Test_qa-stats_Output ................................... Passed 0.00 sec test 475 Start 475: Test_qa-stats_Fingerprint 475: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test-bin/Test_qa-stats_Fingerprint 475: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats 475: Test timeout computed to be: 1500 475: Running 7 test cases... 475: Empty (0 s) 475: EmptyRead (0 s) 475: OneBase (0 s) 475: AllBases (0 s) 475: MultiRead (0 s) 475: ReadHash_example_Fig_1_Fig_2 (0 s) 475: WrapAround (0 s) 475: 475: *** No errors detected (0 s total) 339/426 Test #475: Test_qa-stats_Fingerprint .............................. Passed 0.00 sec test 476 Start 476: Test_qa-stats_Hashing 476: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/test-bin/Test_qa-stats_Hashing 476: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats 476: Test timeout computed to be: 1500 476: Running 20 test cases... 476: Empty_SHA224 (0 s) 476: Empty_VDB_SHA224 (0 s) 476: Empty_SHA256 (0 s) 476: Empty_VDB_SHA256 (0 s) 476: Empty_SHA384 (0 s) 476: Empty_VDB_SHA384 (0 s) 476: Empty_SHA512 (0 s) 476: Empty_VDB_SHA512 (0 s) 476: SHA224_QBF (0 s) 476: VDB_SHA224_QBF (0 s) 476: SHA256_QBF (0 s) 476: VDB_SHA256_QBF (0 s) 476: SHA384_QBF (0 s) 476: VDB_SHA384_QBF (0 s) 476: SHA512_QBF (0 s) 476: VDB_SHA512_QBF (0 s) 476: SHA_224 (0 s) 476: SHA_256 (0 s) 476: SHA_384 (0 s) 476: SHA_512 (0 s) 476: 476: *** No errors detected (0 s total) 340/426 Test #476: Test_qa-stats_Hashing .................................. Passed 0.01 sec test 477 Start 477: Test_qa-stats 477: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats/runtests.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/test-tools/qa-stats" 477: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats 477: Test timeout computed to be: 1500 477: /usr/bin/python3 477: python3 found 477: /usr/bin/python3 477: Testing with default parameters. 477: progress: 102 records, per second: 62451.4 477: progress: 102 records, per second: 18306.6 477: progress: 102 records, per second: 38156.1 477: Testing with one biological read. 477: progress: 100 records, per second: 64790.4 477: progress: 100 records, per second: 19221 477: progress: 100 records, per second: 36615.4 477: Testing with one technical read. 477: progress: 100 records, per second: 61791.8 477: progress: 100 records, per second: 18308.6 477: progress: 100 records, per second: 31609.2 477: Testing with two biological read. 477: progress: 100 records, per second: 63125 477: progress: 100 records, per second: 17472.4 477: progress: 100 records, per second: 27074.5 477: Testing with one biological and one technical read. 477: progress: 100 records, per second: 53512.8 477: progress: 100 records, per second: 16807.8 477: progress: 100 records, per second: 25194.6 477: Testing with multiple layouts. 477: progress: 101 records, per second: 58527.2 477: progress: 101 records, per second: 17379.2 477: progress: 101 records, per second: 30972.4 341/426 Test #477: Test_qa-stats .......................................... Passed 1.04 sec test 478 Start 478: Test_qa_stats_001.R1.fastq 478: Test command: /usr/bin/sh "-c" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/qa-stats /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats/input/001.R1.fastq 1>actual/001.R1.fastq.stdout 2>actual/001.R1.fastq.stderr" 478: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats 478: Test timeout computed to be: 1500 342/426 Test #478: Test_qa_stats_001.R1.fastq ............................. Passed 0.00 sec test 479 Start 479: Test_qa_stats_003.R1.fastq 479: Test command: /usr/bin/sh "-c" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/qa-stats /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats/input/003.R1.fastq 1>actual/003.R1.fastq.stdout 2>actual/003.R1.fastq.stderr" 479: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats 479: Test timeout computed to be: 1500 343/426 Test #479: Test_qa_stats_003.R1.fastq ............................. Passed 0.00 sec test 480 Start 480: Test_qa_stats_003.R2.fastq 480: Test command: /usr/bin/sh "-c" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/qa-stats /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats/input/003.R2.fastq 1>actual/003.R2.fastq.stdout 2>actual/003.R2.fastq.stderr" 480: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats 480: Test timeout computed to be: 1500 344/426 Test #480: Test_qa_stats_003.R2.fastq ............................. Passed 0.00 sec test 481 Start 481: Test_qa_stats_003._I1.fastq 481: Test command: /usr/bin/sh "-c" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/qa-stats /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats/input/003._I1.fastq 1>actual/003._I1.fastq.stdout 2>actual/003._I1.fastq.stderr" 481: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats 481: Test timeout computed to be: 1500 345/426 Test #481: Test_qa_stats_003._I1.fastq ............................ Passed 0.00 sec test 482 Start 482: Test_qa_stats_003.t_I1.fastq 482: Test command: /usr/bin/sh "-c" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/qa-stats /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats/input/003.t_I1.fastq 1>actual/003.t_I1.fastq.stdout 2>actual/003.t_I1.fastq.stderr" 482: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats 482: Test timeout computed to be: 1500 346/426 Test #482: Test_qa_stats_003.t_I1.fastq ........................... Passed 0.00 sec test 483 Start 483: Test_qa_stats_003.t_R1.fastq 483: Test command: /usr/bin/sh "-c" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/qa-stats /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats/input/003.t_R1.fastq 1>actual/003.t_R1.fastq.stdout 2>actual/003.t_R1.fastq.stderr" 483: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats 483: Test timeout computed to be: 1500 347/426 Test #483: Test_qa_stats_003.t_R1.fastq ........................... Passed 0.00 sec test 484 Start 484: Test_qa_stats_003.t_R2.fastq 484: Test command: /usr/bin/sh "-c" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/qa-stats /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats/input/003.t_R2.fastq 1>actual/003.t_R2.fastq.stdout 2>actual/003.t_R2.fastq.stderr" 484: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats 484: Test timeout computed to be: 1500 348/426 Test #484: Test_qa_stats_003.t_R2.fastq ........................... Passed 0.00 sec test 485 Start 485: Test_qa_stats_009.test_I1_001.fastq 485: Test command: /usr/bin/sh "-c" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/qa-stats /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats/input/009.test_I1_001.fastq 1>actual/009.test_I1_001.fastq.stdout 2>actual/009.test_I1_001.fastq.stderr" 485: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats 485: Test timeout computed to be: 1500 349/426 Test #485: Test_qa_stats_009.test_I1_001.fastq .................... Passed 0.01 sec test 486 Start 486: Test_qa_stats_009.test_R1_001.fastq 486: Test command: /usr/bin/sh "-c" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/qa-stats /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats/input/009.test_R1_001.fastq 1>actual/009.test_R1_001.fastq.stdout 2>actual/009.test_R1_001.fastq.stderr" 486: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats 486: Test timeout computed to be: 1500 350/426 Test #486: Test_qa_stats_009.test_R1_001.fastq .................... Passed 0.01 sec test 487 Start 487: Test_qa_stats_009.test_R2_001.fastq 487: Test command: /usr/bin/sh "-c" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/qa-stats /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats/input/009.test_R2_001.fastq 1>actual/009.test_R2_001.fastq.stdout 2>actual/009.test_R2_001.fastq.stderr" 487: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats 487: Test timeout computed to be: 1500 351/426 Test #487: Test_qa_stats_009.test_R2_001.fastq .................... Passed 0.01 sec test 488 Start 488: Test_qa_stats_009.test_R3_001.fastq 488: Test command: /usr/bin/sh "-c" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/qa-stats /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats/input/009.test_R3_001.fastq 1>actual/009.test_R3_001.fastq.stdout 2>actual/009.test_R3_001.fastq.stderr" 488: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats 488: Test timeout computed to be: 1500 352/426 Test #488: Test_qa_stats_009.test_R3_001.fastq .................... Passed 0.01 sec test 489 Start 489: Test_qa_stats_012.test2_I1_001.fastq 489: Test command: /usr/bin/sh "-c" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/qa-stats /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats/input/012.test2_I1_001.fastq 1>actual/012.test2_I1_001.fastq.stdout 2>actual/012.test2_I1_001.fastq.stderr" 489: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats 489: Test timeout computed to be: 1500 353/426 Test #489: Test_qa_stats_012.test2_I1_001.fastq ................... Passed 0.00 sec test 490 Start 490: Test_qa_stats_012.test2_R1_001.fastq 490: Test command: /usr/bin/sh "-c" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/qa-stats /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats/input/012.test2_R1_001.fastq 1>actual/012.test2_R1_001.fastq.stdout 2>actual/012.test2_R1_001.fastq.stderr" 490: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats 490: Test timeout computed to be: 1500 354/426 Test #490: Test_qa_stats_012.test2_R1_001.fastq ................... Passed 0.00 sec test 491 Start 491: Test_qa_stats_012.test2_R2_001.fastq 491: Test command: /usr/bin/sh "-c" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/qa-stats /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats/input/012.test2_R2_001.fastq 1>actual/012.test2_R2_001.fastq.stdout 2>actual/012.test2_R2_001.fastq.stderr" 491: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats 491: Test timeout computed to be: 1500 355/426 Test #491: Test_qa_stats_012.test2_R2_001.fastq ................... Passed 0.00 sec test 492 Start 492: Test_qa_stats_012.test_I1_001.fastq 492: Test command: /usr/bin/sh "-c" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/qa-stats /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats/input/012.test_I1_001.fastq 1>actual/012.test_I1_001.fastq.stdout 2>actual/012.test_I1_001.fastq.stderr" 492: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats 492: Test timeout computed to be: 1500 356/426 Test #492: Test_qa_stats_012.test_I1_001.fastq .................... Passed 0.00 sec test 493 Start 493: Test_qa_stats_012.test_R1_001.fastq 493: Test command: /usr/bin/sh "-c" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/qa-stats /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats/input/012.test_R1_001.fastq 1>actual/012.test_R1_001.fastq.stdout 2>actual/012.test_R1_001.fastq.stderr" 493: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats 493: Test timeout computed to be: 1500 357/426 Test #493: Test_qa_stats_012.test_R1_001.fastq .................... Passed 0.00 sec test 494 Start 494: Test_qa_stats_012.test_R2_001.fastq 494: Test command: /usr/bin/sh "-c" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/qa-stats /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats/input/012.test_R2_001.fastq 1>actual/012.test_R2_001.fastq.stdout 2>actual/012.test_R2_001.fastq.stderr" 494: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats 494: Test timeout computed to be: 1500 358/426 Test #494: Test_qa_stats_012.test_R2_001.fastq .................... Passed 0.00 sec test 495 Start 495: Test_qa_stats_013.t_I1.fastq 495: Test command: /usr/bin/sh "-c" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/qa-stats /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats/input/013.t_I1.fastq 1>actual/013.t_I1.fastq.stdout 2>actual/013.t_I1.fastq.stderr" 495: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats 495: Test timeout computed to be: 1500 359/426 Test #495: Test_qa_stats_013.t_I1.fastq ........................... Passed 0.06 sec test 496 Start 496: Test_qa_stats_013.t_I2.fastq 496: Test command: /usr/bin/sh "-c" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/qa-stats /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats/input/013.t_I2.fastq 1>actual/013.t_I2.fastq.stdout 2>actual/013.t_I2.fastq.stderr" 496: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats 496: Test timeout computed to be: 1500 360/426 Test #496: Test_qa_stats_013.t_I2.fastq ........................... Passed 0.06 sec test 497 Start 497: Test_qa_stats_013.t_R1.fastq 497: Test command: /usr/bin/sh "-c" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/qa-stats /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats/input/013.t_R1.fastq 1>actual/013.t_R1.fastq.stdout 2>actual/013.t_R1.fastq.stderr" 497: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats 497: Test timeout computed to be: 1500 361/426 Test #497: Test_qa_stats_013.t_R1.fastq ........................... Passed 0.12 sec test 498 Start 498: Test_qa_stats_013.t_R2.fastq 498: Test command: /usr/bin/sh "-c" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/qa-stats /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats/input/013.t_R2.fastq 1>actual/013.t_R2.fastq.stdout 2>actual/013.t_R2.fastq.stderr" 498: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats 498: Test timeout computed to be: 1500 362/426 Test #498: Test_qa_stats_013.t_R2.fastq ........................... Passed 0.26 sec test 499 Start 499: Test_qa_stats_014.R1.fastq 499: Test command: /usr/bin/sh "-c" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/qa-stats /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats/input/014.R1.fastq 1>actual/014.R1.fastq.stdout 2>actual/014.R1.fastq.stderr" 499: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats 499: Test timeout computed to be: 1500 363/426 Test #499: Test_qa_stats_014.R1.fastq ............................. Passed 0.00 sec test 500 Start 500: Test_qa_stats_014.R2.fastq 500: Test command: /usr/bin/sh "-c" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/qa-stats /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats/input/014.R2.fastq 1>actual/014.R2.fastq.stdout 2>actual/014.R2.fastq.stderr" 500: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats 500: Test timeout computed to be: 1500 364/426 Test #500: Test_qa_stats_014.R2.fastq ............................. Passed 0.00 sec test 501 Start 501: Test_qa_stats_1.1.fastq 501: Test command: /usr/bin/sh "-c" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/qa-stats /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats/input/1.1.fastq 1>actual/1.1.fastq.stdout 2>actual/1.1.fastq.stderr" 501: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats 501: Test timeout computed to be: 1500 365/426 Test #501: Test_qa_stats_1.1.fastq ................................ Passed 0.00 sec test 502 Start 502: Test_qa_stats_1.2.fastq 502: Test command: /usr/bin/sh "-c" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/qa-stats /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats/input/1.2.fastq 1>actual/1.2.fastq.stdout 2>actual/1.2.fastq.stderr" 502: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats 502: Test timeout computed to be: 1500 366/426 Test #502: Test_qa_stats_1.2.fastq ................................ Passed 0.00 sec test 503 Start 503: Test_qa_stats_1.3.fastq 503: Test command: /usr/bin/sh "-c" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/qa-stats /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats/input/1.3.fastq 1>actual/1.3.fastq.stdout 2>actual/1.3.fastq.stderr" 503: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats 503: Test timeout computed to be: 1500 367/426 Test #503: Test_qa_stats_1.3.fastq ................................ Passed 0.00 sec test 504 Start 504: Test_qa_stats_1.4.fastq 504: Test command: /usr/bin/sh "-c" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/qa-stats /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats/input/1.4.fastq 1>actual/1.4.fastq.stdout 2>actual/1.4.fastq.stderr" 504: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats 504: Test timeout computed to be: 1500 368/426 Test #504: Test_qa_stats_1.4.fastq ................................ Passed 0.00 sec test 505 Start 505: Test_qa_stats_10.0.fastq 505: Test command: /usr/bin/sh "-c" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/qa-stats /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats/input/10.0.fastq 1>actual/10.0.fastq.stdout 2>actual/10.0.fastq.stderr" 505: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats 505: Test timeout computed to be: 1500 369/426 Test #505: Test_qa_stats_10.0.fastq ............................... Passed 0.00 sec test 506 Start 506: Test_qa_stats_11.0.1.fasta 506: Test command: /usr/bin/sh "-c" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/qa-stats /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats/input/11.0.1.fasta 1>actual/11.0.1.fasta.stdout 2>actual/11.0.1.fasta.stderr" 506: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats 506: Test timeout computed to be: 1500 370/426 Test #506: Test_qa_stats_11.0.1.fasta ............................. Passed 0.00 sec test 507 Start 507: Test_qa_stats_11.0.2.fasta 507: Test command: /usr/bin/sh "-c" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/qa-stats /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats/input/11.0.2.fasta 1>actual/11.0.2.fasta.stdout 2>actual/11.0.2.fasta.stderr" 507: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats 507: Test timeout computed to be: 1500 371/426 Test #507: Test_qa_stats_11.0.2.fasta ............................. Passed 0.00 sec test 508 Start 508: Test_qa_stats_11.1.1.fastq 508: Test command: /usr/bin/sh "-c" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/qa-stats /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats/input/11.1.1.fastq 1>actual/11.1.1.fastq.stdout 2>actual/11.1.1.fastq.stderr" 508: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats 508: Test timeout computed to be: 1500 372/426 Test #508: Test_qa_stats_11.1.1.fastq ............................. Passed 0.00 sec test 509 Start 509: Test_qa_stats_11.1.2.fastq 509: Test command: /usr/bin/sh "-c" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/qa-stats /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats/input/11.1.2.fastq 1>actual/11.1.2.fastq.stdout 2>actual/11.1.2.fastq.stderr" 509: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats 509: Test timeout computed to be: 1500 373/426 Test #509: Test_qa_stats_11.1.2.fastq ............................. Passed 0.00 sec test 510 Start 510: Test_qa_stats_12.0.fastq 510: Test command: /usr/bin/sh "-c" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/qa-stats /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats/input/12.0.fastq 1>actual/12.0.fastq.stdout 2>actual/12.0.fastq.stderr" 510: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats 510: Test timeout computed to be: 1500 374/426 Test #510: Test_qa_stats_12.0.fastq ............................... Passed 0.00 sec test 511 Start 511: Test_qa_stats_12.1.fastq 511: Test command: /usr/bin/sh "-c" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/qa-stats /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats/input/12.1.fastq 1>actual/12.1.fastq.stdout 2>actual/12.1.fastq.stderr" 511: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats 511: Test timeout computed to be: 1500 375/426 Test #511: Test_qa_stats_12.1.fastq ............................... Passed 0.00 sec test 512 Start 512: Test_qa_stats_12.2.fastq 512: Test command: /usr/bin/sh "-c" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/qa-stats /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats/input/12.2.fastq 1>actual/12.2.fastq.stdout 2>actual/12.2.fastq.stderr" 512: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats 512: Test timeout computed to be: 1500 376/426 Test #512: Test_qa_stats_12.2.fastq ............................... Passed 0.00 sec test 513 Start 513: Test_qa_stats_13.0.fastq 513: Test command: /usr/bin/sh "-c" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/qa-stats /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats/input/13.0.fastq 1>actual/13.0.fastq.stdout 2>actual/13.0.fastq.stderr" 513: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats 513: Test timeout computed to be: 1500 377/426 Test #513: Test_qa_stats_13.0.fastq ............................... Passed 0.00 sec test 514 Start 514: Test_qa_stats_13.1.fastq 514: Test command: /usr/bin/sh "-c" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/qa-stats /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats/input/13.1.fastq 1>actual/13.1.fastq.stdout 2>actual/13.1.fastq.stderr" 514: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats 514: Test timeout computed to be: 1500 378/426 Test #514: Test_qa_stats_13.1.fastq ............................... Passed 0.00 sec test 515 Start 515: Test_qa_stats_14.0.fasta 515: Test command: /usr/bin/sh "-c" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/qa-stats /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats/input/14.0.fasta 1>actual/14.0.fasta.stdout 2>actual/14.0.fasta.stderr" 515: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats 515: Test timeout computed to be: 1500 379/426 Test #515: Test_qa_stats_14.0.fasta ............................... Passed 0.00 sec test 516 Start 516: Test_qa_stats_15.0.fastq 516: Test command: /usr/bin/sh "-c" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/qa-stats /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats/input/15.0.fastq 1>actual/15.0.fastq.stdout 2>actual/15.0.fastq.stderr" 516: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats 516: Test timeout computed to be: 1500 380/426 Test #516: Test_qa_stats_15.0.fastq ............................... Passed 0.01 sec test 517 Start 517: Test_qa_stats_16.0.fasta 517: Test command: /usr/bin/sh "-c" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/qa-stats /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats/input/16.0.fasta 1>actual/16.0.fasta.stdout 2>actual/16.0.fasta.stderr" 517: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats 517: Test timeout computed to be: 1500 381/426 Test #517: Test_qa_stats_16.0.fasta ............................... Passed 0.01 sec test 518 Start 518: Test_qa_stats_16.1.fastq 518: Test command: /usr/bin/sh "-c" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/qa-stats /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats/input/16.1.fastq 1>actual/16.1.fastq.stdout 2>actual/16.1.fastq.stderr" 518: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats 518: Test timeout computed to be: 1500 382/426 Test #518: Test_qa_stats_16.1.fastq ............................... Passed 0.01 sec test 519 Start 519: Test_qa_stats_17.0.fastq 519: Test command: /usr/bin/sh "-c" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/qa-stats /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats/input/17.0.fastq 1>actual/17.0.fastq.stdout 2>actual/17.0.fastq.stderr" 519: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats 519: Test timeout computed to be: 1500 383/426 Test #519: Test_qa_stats_17.0.fastq ............................... Passed 0.00 sec test 520 Start 520: Test_qa_stats_18.0.fastq 520: Test command: /usr/bin/sh "-c" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/qa-stats /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats/input/18.0.fastq 1>actual/18.0.fastq.stdout 2>actual/18.0.fastq.stderr" 520: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats 520: Test timeout computed to be: 1500 384/426 Test #520: Test_qa_stats_18.0.fastq ............................... Passed 0.00 sec test 521 Start 521: Test_qa_stats_2.1.1.fastq 521: Test command: /usr/bin/sh "-c" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/qa-stats /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats/input/2.1.1.fastq 1>actual/2.1.1.fastq.stdout 2>actual/2.1.1.fastq.stderr" 521: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats 521: Test timeout computed to be: 1500 385/426 Test #521: Test_qa_stats_2.1.1.fastq .............................. Passed 0.00 sec test 522 Start 522: Test_qa_stats_2.1.fastq 522: Test command: /usr/bin/sh "-c" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/qa-stats /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats/input/2.1.fastq 1>actual/2.1.fastq.stdout 2>actual/2.1.fastq.stderr" 522: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats 522: Test timeout computed to be: 1500 386/426 Test #522: Test_qa_stats_2.1.fastq ................................ Passed 0.00 sec test 523 Start 523: Test_qa_stats_2.2.fastq 523: Test command: /usr/bin/sh "-c" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/qa-stats /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats/input/2.2.fastq 1>actual/2.2.fastq.stdout 2>actual/2.2.fastq.stderr" 523: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats 523: Test timeout computed to be: 1500 387/426 Test #523: Test_qa_stats_2.2.fastq ................................ Passed 0.00 sec test 524 Start 524: Test_qa_stats_2.3.fastq 524: Test command: /usr/bin/sh "-c" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/qa-stats /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats/input/2.3.fastq 1>actual/2.3.fastq.stdout 2>actual/2.3.fastq.stderr" 524: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats 524: Test timeout computed to be: 1500 388/426 Test #524: Test_qa_stats_2.3.fastq ................................ Passed 0.00 sec test 525 Start 525: Test_qa_stats_2.4.fastq 525: Test command: /usr/bin/sh "-c" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/qa-stats /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats/input/2.4.fastq 1>actual/2.4.fastq.stdout 2>actual/2.4.fastq.stderr" 525: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats 525: Test timeout computed to be: 1500 389/426 Test #525: Test_qa_stats_2.4.fastq ................................ Passed 0.00 sec test 526 Start 526: Test_qa_stats_2.5.fastq 526: Test command: /usr/bin/sh "-c" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/qa-stats /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats/input/2.5.fastq 1>actual/2.5.fastq.stdout 2>actual/2.5.fastq.stderr" 526: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats 526: Test timeout computed to be: 1500 390/426 Test #526: Test_qa_stats_2.5.fastq ................................ Passed 0.00 sec test 527 Start 527: Test_qa_stats_2.6.fastq 527: Test command: /usr/bin/sh "-c" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/qa-stats /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats/input/2.6.fastq 1>actual/2.6.fastq.stdout 2>actual/2.6.fastq.stderr" 527: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats 527: Test timeout computed to be: 1500 391/426 Test #527: Test_qa_stats_2.6.fastq ................................ Passed 0.00 sec test 528 Start 528: Test_qa_stats_2.7.fastq 528: Test command: /usr/bin/sh "-c" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/qa-stats /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats/input/2.7.fastq 1>actual/2.7.fastq.stdout 2>actual/2.7.fastq.stderr" 528: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats 528: Test timeout computed to be: 1500 392/426 Test #528: Test_qa_stats_2.7.fastq ................................ Passed 0.00 sec test 529 Start 529: Test_qa_stats_2.8.1.fastq 529: Test command: /usr/bin/sh "-c" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/qa-stats /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats/input/2.8.1.fastq 1>actual/2.8.1.fastq.stdout 2>actual/2.8.1.fastq.stderr" 529: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats 529: Test timeout computed to be: 1500 393/426 Test #529: Test_qa_stats_2.8.1.fastq .............................. Passed 0.00 sec test 530 Start 530: Test_qa_stats_2.8.fastq 530: Test command: /usr/bin/sh "-c" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/qa-stats /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats/input/2.8.fastq 1>actual/2.8.fastq.stdout 2>actual/2.8.fastq.stderr" 530: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats 530: Test timeout computed to be: 1500 394/426 Test #530: Test_qa_stats_2.8.fastq ................................ Passed 0.00 sec test 531 Start 531: Test_qa_stats_2.9.1.fastq 531: Test command: /usr/bin/sh "-c" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/qa-stats /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats/input/2.9.1.fastq 1>actual/2.9.1.fastq.stdout 2>actual/2.9.1.fastq.stderr" 531: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats 531: Test timeout computed to be: 1500 395/426 Test #531: Test_qa_stats_2.9.1.fastq .............................. Passed 0.00 sec test 532 Start 532: Test_qa_stats_2.9.fastq 532: Test command: /usr/bin/sh "-c" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/qa-stats /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats/input/2.9.fastq 1>actual/2.9.fastq.stdout 2>actual/2.9.fastq.stderr" 532: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats 532: Test timeout computed to be: 1500 396/426 Test #532: Test_qa_stats_2.9.fastq ................................ Passed 0.00 sec test 533 Start 533: Test_qa_stats_3.1a.fastq 533: Test command: /usr/bin/sh "-c" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/qa-stats /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats/input/3.1a.fastq 1>actual/3.1a.fastq.stdout 2>actual/3.1a.fastq.stderr" 533: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats 533: Test timeout computed to be: 1500 397/426 Test #533: Test_qa_stats_3.1a.fastq ............................... Passed 0.00 sec test 534 Start 534: Test_qa_stats_3.1b.fastq 534: Test command: /usr/bin/sh "-c" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/qa-stats /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats/input/3.1b.fastq 1>actual/3.1b.fastq.stdout 2>actual/3.1b.fastq.stderr" 534: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats 534: Test timeout computed to be: 1500 398/426 Test #534: Test_qa_stats_3.1b.fastq ............................... Passed 0.00 sec test 535 Start 535: Test_qa_stats_3.2a.fastq 535: Test command: /usr/bin/sh "-c" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/qa-stats /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats/input/3.2a.fastq 1>actual/3.2a.fastq.stdout 2>actual/3.2a.fastq.stderr" 535: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats 535: Test timeout computed to be: 1500 399/426 Test #535: Test_qa_stats_3.2a.fastq ............................... Passed 0.00 sec test 536 Start 536: Test_qa_stats_3.2b.fastq 536: Test command: /usr/bin/sh "-c" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/qa-stats /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats/input/3.2b.fastq 1>actual/3.2b.fastq.stdout 2>actual/3.2b.fastq.stderr" 536: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats 536: Test timeout computed to be: 1500 400/426 Test #536: Test_qa_stats_3.2b.fastq ............................... Passed 0.00 sec test 537 Start 537: Test_qa_stats_3.3a.fastq 537: Test command: /usr/bin/sh "-c" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/qa-stats /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats/input/3.3a.fastq 1>actual/3.3a.fastq.stdout 2>actual/3.3a.fastq.stderr" 537: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats 537: Test timeout computed to be: 1500 401/426 Test #537: Test_qa_stats_3.3a.fastq ............................... Passed 0.00 sec test 538 Start 538: Test_qa_stats_3.3b.fastq 538: Test command: /usr/bin/sh "-c" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/qa-stats /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats/input/3.3b.fastq 1>actual/3.3b.fastq.stdout 2>actual/3.3b.fastq.stderr" 538: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats 538: Test timeout computed to be: 1500 402/426 Test #538: Test_qa_stats_3.3b.fastq ............................... Passed 0.00 sec test 539 Start 539: Test_qa_stats_3.4a.fastq 539: Test command: /usr/bin/sh "-c" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/qa-stats /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats/input/3.4a.fastq 1>actual/3.4a.fastq.stdout 2>actual/3.4a.fastq.stderr" 539: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats 539: Test timeout computed to be: 1500 403/426 Test #539: Test_qa_stats_3.4a.fastq ............................... Passed 0.00 sec test 540 Start 540: Test_qa_stats_3.4b.fastq 540: Test command: /usr/bin/sh "-c" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/qa-stats /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats/input/3.4b.fastq 1>actual/3.4b.fastq.stdout 2>actual/3.4b.fastq.stderr" 540: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats 540: Test timeout computed to be: 1500 404/426 Test #540: Test_qa_stats_3.4b.fastq ............................... Passed 0.00 sec test 541 Start 541: Test_qa_stats_4.4.fastq 541: Test command: /usr/bin/sh "-c" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/qa-stats /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats/input/4.4.fastq 1>actual/4.4.fastq.stdout 2>actual/4.4.fastq.stderr" 541: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats 541: Test timeout computed to be: 1500 405/426 Test #541: Test_qa_stats_4.4.fastq ................................ Passed 0.00 sec test 542 Start 542: Test_qa_stats_4.5.1.fastq 542: Test command: /usr/bin/sh "-c" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/qa-stats /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats/input/4.5.1.fastq 1>actual/4.5.1.fastq.stdout 2>actual/4.5.1.fastq.stderr" 542: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats 542: Test timeout computed to be: 1500 406/426 Test #542: Test_qa_stats_4.5.1.fastq .............................. Passed 0.00 sec test 543 Start 543: Test_qa_stats_4.5.2.fastq 543: Test command: /usr/bin/sh "-c" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/qa-stats /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats/input/4.5.2.fastq 1>actual/4.5.2.fastq.stdout 2>actual/4.5.2.fastq.stderr" 543: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats 543: Test timeout computed to be: 1500 407/426 Test #543: Test_qa_stats_4.5.2.fastq .............................. Passed 0.01 sec test 544 Start 544: Test_qa_stats_4.5.fastq 544: Test command: /usr/bin/sh "-c" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/qa-stats /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats/input/4.5.fastq 1>actual/4.5.fastq.stdout 2>actual/4.5.fastq.stderr" 544: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats 544: Test timeout computed to be: 1500 408/426 Test #544: Test_qa_stats_4.5.fastq ................................ Passed 0.00 sec test 545 Start 545: Test_qa_stats_4.8.fastq 545: Test command: /usr/bin/sh "-c" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/qa-stats /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats/input/4.8.fastq 1>actual/4.8.fastq.stdout 2>actual/4.8.fastq.stderr" 545: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats 545: Test timeout computed to be: 1500 409/426 Test #545: Test_qa_stats_4.8.fastq ................................ Passed 0.00 sec test 546 Start 546: Test_qa_stats_4.fastq 546: Test command: /usr/bin/sh "-c" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/qa-stats /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats/input/4.fastq 1>actual/4.fastq.stdout 2>actual/4.fastq.stderr" 546: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats 546: Test timeout computed to be: 1500 410/426 Test #546: Test_qa_stats_4.fastq .................................. Passed 0.00 sec test 547 Start 547: Test_qa_stats_6.0.fastq 547: Test command: /usr/bin/sh "-c" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/qa-stats /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats/input/6.0.fastq 1>actual/6.0.fastq.stdout 2>actual/6.0.fastq.stderr" 547: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats 547: Test timeout computed to be: 1500 411/426 Test #547: Test_qa_stats_6.0.fastq ................................ Passed 0.00 sec test 548 Start 548: Test_qa_stats_7.1.fastq 548: Test command: /usr/bin/sh "-c" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/qa-stats /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats/input/7.1.fastq 1>actual/7.1.fastq.stdout 2>actual/7.1.fastq.stderr" 548: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats 548: Test timeout computed to be: 1500 412/426 Test #548: Test_qa_stats_7.1.fastq ................................ Passed 0.00 sec test 549 Start 549: Test_qa_stats_7.2.fastq 549: Test command: /usr/bin/sh "-c" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/qa-stats /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats/input/7.2.fastq 1>actual/7.2.fastq.stdout 2>actual/7.2.fastq.stderr" 549: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats 549: Test timeout computed to be: 1500 413/426 Test #549: Test_qa_stats_7.2.fastq ................................ Passed 0.00 sec test 550 Start 550: Test_qa_stats_7.3.fastq 550: Test command: /usr/bin/sh "-c" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/qa-stats /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats/input/7.3.fastq 1>actual/7.3.fastq.stdout 2>actual/7.3.fastq.stderr" 550: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats 550: Test timeout computed to be: 1500 414/426 Test #550: Test_qa_stats_7.3.fastq ................................ Passed 0.00 sec test 551 Start 551: Test_qa_stats_8.0.fastq 551: Test command: /usr/bin/sh "-c" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/qa-stats /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats/input/8.0.fastq 1>actual/8.0.fastq.stdout 2>actual/8.0.fastq.stderr" 551: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats 551: Test timeout computed to be: 1500 415/426 Test #551: Test_qa_stats_8.0.fastq ................................ Passed 0.00 sec test 552 Start 552: Test_qa_stats_8.1.fastq 552: Test command: /usr/bin/sh "-c" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/qa-stats /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats/input/8.1.fastq 1>actual/8.1.fastq.stdout 2>actual/8.1.fastq.stderr" 552: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats 552: Test timeout computed to be: 1500 416/426 Test #552: Test_qa_stats_8.1.fastq ................................ Passed 0.00 sec test 553 Start 553: Test_qa_stats_9.0.fastq 553: Test command: /usr/bin/sh "-c" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/qa-stats /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats/input/9.0.fastq 1>actual/9.0.fastq.stdout 2>actual/9.0.fastq.stderr" 553: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats 553: Test timeout computed to be: 1500 417/426 Test #553: Test_qa_stats_9.0.fastq ................................ Passed 0.00 sec test 554 Start 554: Test_qa_stats_ERR3487613.fasta 554: Test command: /usr/bin/sh "-c" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/qa-stats /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats/input/ERR3487613.fasta 1>actual/ERR3487613.fasta.stdout 2>actual/ERR3487613.fasta.stderr" 554: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats 554: Test timeout computed to be: 1500 418/426 Test #554: Test_qa_stats_ERR3487613.fasta ......................... Passed 0.00 sec test 555 Start 555: Test_qa_stats_unaligned.fastq 555: Test command: /usr/bin/sh "-c" "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/qa-stats /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats/input/unaligned.fastq 1>actual/unaligned.fastq.stdout 2>actual/unaligned.fastq.stderr" 555: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats 555: Test timeout computed to be: 1500 419/426 Test #555: Test_qa_stats_unaligned.fastq .......................... Passed 0.00 sec test 556 Start 556: Test_qa_stats_Finger_1 556: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats/runtestcase.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/qa-stats input/1.1.fastq --fingerprint" "." "Test_qa_stats_Finger_1" 556: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats 556: Test timeout computed to be: 1500 556: running Test_qa_stats_Finger_1 556: /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/qa-stats input/1.1.fastq --fingerprint 1>./actual/Test_qa_stats_Finger_1/stdout 2>./actual/Test_qa_stats_Finger_1/stderr 420/426 Test #556: Test_qa_stats_Finger_1 ................................. Passed 0.01 sec test 557 Start 557: Test_qa_stats_Finger_2 557: Test command: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats/runtestcase.sh "/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/qa-stats input/001.R1.fastq -f" "." "Test_qa_stats_Finger_2" 557: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/test-tools/qa-stats 557: Test timeout computed to be: 1500 557: running Test_qa_stats_Finger_2 557: /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/qa-stats input/001.R1.fastq -f 1>./actual/Test_qa_stats_Finger_2/stdout 2>./actual/Test_qa_stats_Finger_2/stderr 421/426 Test #557: Test_qa_stats_Finger_2 ................................. Passed 0.01 sec test 558 Start 558: Test_Scripts_prepare-sra-names 558: Test command: /usr/bin/perl "test-prepare-sra-names.pl" 558: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/scripts 558: Test timeout computed to be: 1500 422/426 Test #558: Test_Scripts_prepare-sra-names ......................... Passed 0.10 sec test 559 Start 559: Test_Scripts_fix-sra-names 559: Test command: /usr/bin/perl "test-fix-sra-names.pl" 559: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/scripts 559: Test timeout computed to be: 1500 423/426 Test #559: Test_Scripts_fix-sra-names ............................. Passed 0.05 sec test 560 Start 560: Test_Scripts_prepare-sra-names-py 560: Test command: /usr/bin/perl "test-prepare-sra-names-py.pl" 560: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/scripts 560: Test timeout computed to be: 1500 424/426 Test #560: Test_Scripts_prepare-sra-names-py ...................... Passed 0.42 sec test 561 Start 561: Test_Scripts_fix-sra-names-py 561: Test command: /usr/bin/perl "test-fix-sra-names-py.pl" 561: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/scripts 561: Test timeout computed to be: 1500 425/426 Test #561: Test_Scripts_fix-sra-names-py .......................... Passed 0.25 sec test 562 Start 562: Test_GeneralWriterPy 562: Test command: /usr/bin/sh "-c" "/usr/bin/python3 GeneralWriter_Test.py >actual/Test_GeneralWriterPy.gw && /build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu/bin/gw-dumper -v actual/Test_GeneralWriterPy.gw >actual/Test_GeneralWriterPy.stdout && diff actual/Test_GeneralWriterPy.stdout expected/Test_GeneralWriterPy.stdout" 562: Working Directory: /build/reproducible-path/sra-sdk-3.2.1+dfsg/test/python 562: Test timeout computed to be: 1500 426/426 Test #562: Test_GeneralWriterPy ................................... Passed 0.03 sec 100% tests passed, 0 tests failed out of 426 Total Test time (real) = 123.35 sec make[1]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg' create-stamp debian/debhelper-build-stamp dh_testroot -O--buildsystem=cmake debian/rules override_dh_prep make[1]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg' dh_prep -X debian/tmp make[1]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg' debian/rules override_dh_auto_install make[1]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg' dh_auto_install cd obj-x86_64-linux-gnu && make -j40 install DESTDIR=/build/reproducible-path/sra-sdk-3.2.1\+dfsg/debian/tmp AM_UPDATE_INFO_DIR=no "INSTALL=install --strip-program=true" make[2]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' /usr/bin/cmake -S/build/reproducible-path/sra-sdk-3.2.1+dfsg -B/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 make -f CMakeFiles/Makefile2 preinstall make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'preinstall'. make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' Install the project... /usr/bin/cmake -P cmake_install.cmake -- Install configuration: "None" mkdir: cannot create directory '/usr/bin/ncbi': Permission denied cp: cannot create regular file '/usr/bin/ncbi/default.kfg': No such file or directory mkdir: cannot create directory '/usr/bin/ncbi': Permission denied cp: cannot create regular file '/usr/bin/ncbi/certs.kfg': No such file or directory mkdir: cannot create directory '/usr/bin/ncbi': Permission denied cp: cannot create regular file '/usr/bin/ncbi/vdb-copy.kfg': No such file or directory -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/lib/x86_64-linux-gnu/libncbi-ngs-c++.a.3.2.1 -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/lib/x86_64-linux-gnu/libncbi-ngs-c++.a.3 -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/lib/x86_64-linux-gnu/libncbi-ngs-c++.a -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/lib/x86_64-linux-gnu/libncbi-ngs-c++-static.a -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/include/ncbi-vdb/NGS.hpp -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/share/examples/FragTest.cpp -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/share/examples/AlignTest.cpp -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/share/examples/AlignSliceTest.cpp -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/share/examples/PileupTest.cpp -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/share/examples/RefTest.cpp -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/share/examples/DumpReferenceFASTA.cpp -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/share/examples/expected.txt -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/share/examples/Makefile -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/share/examples/README.txt -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/lib/x86_64-linux-gnu/libngs-c++.a.3.2.1 -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/lib/x86_64-linux-gnu/libngs-c++.a.3 -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/lib/x86_64-linux-gnu/libngs-c++.a -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/lib/x86_64-linux-gnu/libngs-c++-static.a -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/lib/x86_64-linux-gnu/libngs-c++.so.3.2.1 -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/lib/x86_64-linux-gnu/libngs-c++.so.3 -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/lib/x86_64-linux-gnu/libngs-c++.so -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/lib/x86_64-linux-gnu/libncbi-ngs.a.3.2.1 -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/lib/x86_64-linux-gnu/libncbi-ngs.a.3 -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/lib/x86_64-linux-gnu/libncbi-ngs.a -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/lib/x86_64-linux-gnu/libncbi-ngs-static.a -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/lib/x86_64-linux-gnu/libncbi-ngs.so.3.2.1 -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/lib/x86_64-linux-gnu/libncbi-ngs.so.3 -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/lib/x86_64-linux-gnu/libncbi-ngs.so -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/include/ngs -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/include/ngs/Package.hpp -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/include/ngs/unix -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/include/ngs/unix/x86_64 -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/include/ngs/unix/x86_64/atomic32.h -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/include/ngs/unix/arm64 -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/include/ngs/unix/arm64/atomic32.h -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/include/ngs/unix/fat86 -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/include/ngs/unix/fat86/atomic32.h -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/include/ngs/unix/i386 -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/include/ngs/unix/i386/atomic32.h -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/include/ngs/win -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/include/ngs/win/stdbool.h -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/include/ngs/win/atomic32.h -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/include/ngs/Reference.hpp -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/include/ngs/adapter -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/include/ngs/adapter/PileupEventItf.hpp -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/include/ngs/adapter/StringItf.hpp -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/include/ngs/adapter/ReadCollectionItf.hpp -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/include/ngs/adapter/ReferenceSequenceItf.hpp -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/include/ngs/adapter/defs.h -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/include/ngs/adapter/FragmentItf.hpp -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/include/ngs/adapter/ReadItf.hpp -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/include/ngs/adapter/PileupItf.hpp -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/include/ngs/adapter/Refcount.hpp -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/include/ngs/adapter/AlignmentItf.hpp -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/include/ngs/adapter/StatisticsItf.hpp -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/include/ngs/adapter/ErrorMsg.hpp -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/include/ngs/adapter/ReadGroupItf.hpp -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/include/ngs/adapter/ReferenceItf.hpp -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/include/ngs/PileupIterator.hpp -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/include/ngs/Alignment.hpp -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/include/ngs/ReadGroup.hpp -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/include/ngs/ReadGroupIterator.hpp -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/include/ngs/inl -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/include/ngs/inl/Package.hpp -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/include/ngs/inl/Reference.hpp -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/include/ngs/inl/PileupIterator.hpp -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/include/ngs/inl/Alignment.hpp -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/include/ngs/inl/ReadGroup.hpp -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/include/ngs/inl/ReadGroupIterator.hpp -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/include/ngs/inl/AlignmentIterator.hpp -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/include/ngs/inl/Fragment.hpp -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/include/ngs/inl/ReferenceSequence.hpp -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/include/ngs/inl/FragmentIterator.hpp -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/include/ngs/inl/StringRef.hpp -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/include/ngs/inl/ReferenceIterator.hpp -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/include/ngs/inl/PileupEvent.hpp -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/include/ngs/inl/Pileup.hpp -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/include/ngs/inl/ReadCollection.hpp -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/include/ngs/inl/PileupEventIterator.hpp -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/include/ngs/inl/ReadIterator.hpp -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/include/ngs/inl/Read.hpp -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/include/ngs/inl/Statistics.hpp -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/include/ngs/AlignmentIterator.hpp -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/include/ngs/itf -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/include/ngs/itf/PileupEventItf.hpp -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/include/ngs/itf/StringItf.hpp -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/include/ngs/itf/ReadCollectionItf.hpp -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/include/ngs/itf/PileupEventItf.h -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/include/ngs/itf/AlignmentItf.h -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/include/ngs/itf/ErrBlock.hpp -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/include/ngs/itf/ErrBlock.h -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/include/ngs/itf/ReferenceItf.h -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/include/ngs/itf/ReadItf.h -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/include/ngs/itf/VTable.h -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/include/ngs/itf/FragmentItf.h -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/include/ngs/itf/ReferenceSequenceItf.hpp -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/include/ngs/itf/defs.h -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/include/ngs/itf/FragmentItf.hpp -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/include/ngs/itf/ReadItf.hpp -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/include/ngs/itf/StatisticsItf.h -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/include/ngs/itf/StringItf.h -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/include/ngs/itf/VTable.hpp -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/include/ngs/itf/PileupItf.hpp -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/include/ngs/itf/Refcount.hpp -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/include/ngs/itf/AlignmentItf.hpp -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/include/ngs/itf/StatisticsItf.hpp -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/include/ngs/itf/ErrorMsg.hpp -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/include/ngs/itf/ReadCollectionItf.h -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/include/ngs/itf/PileupItf.h -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/include/ngs/itf/Refcount.h -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/include/ngs/itf/ReadGroupItf.h -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/include/ngs/itf/PackageItf.hpp -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/include/ngs/itf/ReferenceSequenceItf.h -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/include/ngs/itf/ReadGroupItf.hpp -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/include/ngs/itf/ReferenceItf.hpp -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/include/ngs/Fragment.hpp -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/include/ngs/ReferenceSequence.hpp -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/include/ngs/FragmentIterator.hpp -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/include/ngs/StringRef.hpp -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/include/ngs/ReferenceIterator.hpp -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/include/ngs/PileupEvent.hpp -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/include/ngs/Pileup.hpp -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/include/ngs/ReadCollection.hpp -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/include/ngs/PileupEventIterator.hpp -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/include/ngs/ErrorMsg.hpp -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/include/ngs/ReadIterator.hpp -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/include/ngs/Read.hpp -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/include/ngs/Statistics.hpp -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/jar/ngs-java.jar -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/share/examples-java/examples/AlignTest.java -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/share/examples-java/examples/AlignSliceTest.java -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/share/examples-java/examples/FragTest.java -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/share/examples-java/examples/PileupTest.java -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/share/examples-java/examples/RefTest.java -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/share/examples-java/examples/ReadGroupTest.java -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/share/examples-java/examples/DumpReferenceFASTA.java -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/share/examples-java/Makefile -- Installing: 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/build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/bin/illumina-dump.3 -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/bin/illumina-dump -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/bin/abi-dump.3.2.1 -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/bin/abi-dump.3 -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/bin/abi-dump -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/bin/sra-pileup -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/bin/sra-pileup.3 -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/bin/sra-pileup-orig.3.2.1 -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/bin/sra-pileup.3.2.1 -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/bin/sam-dump -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/bin/sam-dump.3 -- 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/build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/bin/vdb-validate.3.2.1 -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/bin/vdb-validate.3 -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/bin/vdb-validate -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/bin/check-corrupt.3.2.1 -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/bin/check-corrupt.3 -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/bin/check-corrupt -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/bin/vdb-decrypt.3.2.1 -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/bin/vdb-decrypt.3 -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/bin/vdb-decrypt -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/bin/vdb-encrypt.3.2.1 -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/bin/vdb-encrypt.3 -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/bin/vdb-encrypt -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/bin/srapath -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/bin/srapath.3 -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/bin/srapath-orig.3.2.1 -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/bin/srapath.3.2.1 -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/bin/sra-stat.3.2.1 -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/bin/sra-stat.3 -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/bin/sra-stat -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/bin/ngs-pileup.3.2.1 -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/bin/ngs-pileup.3 -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/bin/ngs-pileup -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/bin/rcexplain.3.2.1 -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/bin/rcexplain.3 -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/bin/rcexplain -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/bin/kdbmeta.3.2.1 -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/bin/kdbmeta.3 -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/bin/kdbmeta -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/bin/align-info.3.2.1 -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/bin/align-info.3 -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/bin/align-info -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/bin/ref-variation.3.2.1 -- Installing: 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/build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/bin/compute-coverage-ngs.3.2.1 -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/bin/compute-coverage-ngs.3 -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/bin/compute-coverage-ngs -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/bin/copycat.3.2.1 -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/bin/copycat.3 -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/bin/copycat -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/bin/dump-ref-fasta.3.2.1 -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/bin/dump-ref-fasta.3 -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/bin/dump-ref-fasta -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/bin/make-read-filter.3.2.1 -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/bin/make-read-filter.3 -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/bin/make-read-filter -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/bin/md5cp.3.2.1 -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/bin/md5cp.3 -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/bin/md5cp -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/bin/meta-cmp.3.2.1 -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/bin/meta-cmp.3 -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/bin/meta-cmp -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/bin/meta-copy.3.2.1 -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/bin/meta-copy.3 -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/bin/meta-copy -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/bin/meta-repair.3.2.1 -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/bin/meta-repair.3 -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/bin/meta-repair -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/bin/test-read-write-cursor.3.2.1 -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/bin/test-read-write-cursor.3 -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/bin/test-read-write-cursor -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/bin/read-filter-redact.3.2.1 -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/bin/read-filter-redact.3 -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/bin/read-filter-redact -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/bin/vdb-copy.3.2.1 -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/bin/vdb-copy.3 -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/bin/vdb-copy -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/bin/vdb-diff.3.2.1 -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/bin/vdb-diff.3 -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/bin/vdb-diff -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/bin/vdb-sql.3.2.1 -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/bin/vdb-sql.3 -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/bin/vdb-sql -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/bin/fastconv.3.2.1 -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/bin/fastconv.3 -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/bin/fastconv -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/bin/crc32sum.3.2.1 -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/bin/crc32sum.3 -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/bin/crc32sum -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/bin/test-download.3.2.1 -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/bin/test-download.3 -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/bin/test-download -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/bin/kdb-index.3.2.1 -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/bin/kdb-index.3 -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/bin/kdb-index -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/bin/pacbio-correct.3.2.1 -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/bin/pacbio-correct.3 -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/bin/pacbio-correct -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/bin/schema-replace.3.2.1 -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/bin/schema-replace.3 -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/bin/schema-replace -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/bin/sortreadtest.3.2.1 -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/bin/sortreadtest.3 -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/bin/sortreadtest -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/bin/rowwritetest.3.2.1 -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/bin/rowwritetest.3 -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/bin/rowwritetest -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/bin/samview-util.3.2.1 -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/bin/samview-util.3 -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/bin/samview-util -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/bin/testld.3.2.1 -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/bin/testld.3 -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/bin/testld -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/bin/txt2kdb.3.2.1 -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/bin/txt2kdb.3 -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/bin/txt2kdb -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/bin/pileup-stats.3.2.1 -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/bin/pileup-stats.3 -- Installing: /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/bin/pileup-stats make[2]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg/obj-x86_64-linux-gnu' # build/install.sh /usr/include/ncbi-vdb/kfg/ncbi \ # /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/internal/vdb-copy \ # debian/sra-toolkit/etc/ncbi \ # debian/sra-toolkit/etc/ncbi \ # debian/sra-toolkit/usr/bin \ # debian/sra-toolkit/usr/lib/x86_64-linux-gnu \ # /build/reproducible-path/sra-sdk-3.2.1+dfsg/shared/kfgsums build/install-kfg.sh default.kfg /usr/include/ncbi-vdb/kfg/ncbi debian/sra-toolkit/etc/ncbi \ /usr/include/ncbi-vdb/kfg/ncbi/kfgsums build/install-kfg.sh certs.kfg /usr/include/ncbi-vdb/kfg/ncbi debian/sra-toolkit/etc/ncbi \ /usr/include/ncbi-vdb/kfg/ncbi/kfgsums build/install-kfg.sh vdb-copy.kfg /build/reproducible-path/sra-sdk-3.2.1+dfsg/tools/internal/vdb-copy \ debian/sra-toolkit/etc/ncbi /build/reproducible-path/sra-sdk-3.2.1+dfsg/shared/kfgsums d-shlibmove --commit \ --multiarch \ --devunversioned \ --exclude-a \ --exclude-la \ --movedev "debian/*/usr/lib/x86_64-linux-gnu/libncbi-ngs.a*" \ usr/lib/x86_64-linux-gnu \ --override "s/libncbi-vdb3-dev/libncbi-vdb-dev/" \ debian/*/usr/lib/x86_64-linux-gnu/libncbi-ngs.so Library package automatic movement utility --> libncbi-vdb-dev package exists. set -e install -d -m 755 debian/libncbi-ngs-dev/usr/lib/x86_64-linux-gnu install -d -m 755 debian/libncbi-ngs3/usr/lib/x86_64-linux-gnu mv debian/tmp/usr/lib/x86_64-linux-gnu/libncbi-ngs.so debian/libncbi-ngs-dev/usr/lib/x86_64-linux-gnu mv /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/lib/x86_64-linux-gnu/libncbi-ngs.so.3 debian/libncbi-ngs3/usr/lib/x86_64-linux-gnu mv /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/tmp/usr/lib/x86_64-linux-gnu/libncbi-ngs.so.3.2.1 debian/libncbi-ngs3/usr/lib/x86_64-linux-gnu PKGDEV=libncbi-ngs-dev PKGSHL=libncbi-ngs3 install -d -m 755 debian/libncbi-ngs-dev/usr/lib/x86_64-linux-gnu mv debian/*/usr/lib/x86_64-linux-gnu/libncbi-ngs.a* debian/libncbi-ngs-dev/usr/lib/x86_64-linux-gnu d-shlibmove --commit \ --multiarch \ --devunversioned \ --exclude-a \ --exclude-la \ --movedev "debian/*/usr/lib/x86_64-linux-gnu/lib*c++.a*" \ usr/lib/x86_64-linux-gnu \ --movedev "debian/tmp/usr/include/*" usr/include \ --ignorelibdep \ debian/*/usr/lib/x86_64-linux-gnu/libngs-c++.so | \ tee /dev/stderr | LC_ALL=C grep '^[a-z]' | sh tee: /dev/stderr: Permission denied Error occurred, aborting make[1]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg' debian/rules override_dh_install make[1]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg' # upstream installs versioned *.a libs - we only want a single version for d in debian/lib*-dev/usr/lib/x86_64-linux-gnu ; do \ for slib in $d/lib*.a ; do \ mv $d/`readlink $slib` $slib ; \ mv $d/`readlink $slib` $slib ; \ done ; \ done ls -l debian/tmp/usr/bin total 118840 lrwxrwxrwx 1 pbuilder2 pbuilder2 10 Apr 16 15:51 abi-dump -> abi-dump.3 lrwxrwxrwx 1 pbuilder2 pbuilder2 14 Apr 16 15:51 abi-dump.3 -> abi-dump.3.2.1 -rwxr-xr-x 1 pbuilder2 pbuilder2 269512 Apr 16 15:44 abi-dump.3.2.1 lrwxrwxrwx 1 pbuilder2 pbuilder2 10 Apr 16 15:51 abi-load -> abi-load.3 lrwxrwxrwx 1 pbuilder2 pbuilder2 14 Apr 16 15:51 abi-load.3 -> abi-load.3.2.1 -rwxr-xr-x 1 pbuilder2 pbuilder2 807504 Apr 16 15:45 abi-load.3.2.1 lrwxrwxrwx 1 pbuilder2 pbuilder2 13 Apr 16 15:51 align-cache -> align-cache.3 lrwxrwxrwx 1 pbuilder2 pbuilder2 17 Apr 16 15:51 align-cache.3 -> align-cache.3.2.1 -rwxr-xr-x 1 pbuilder2 pbuilder2 249680 Apr 16 15:45 align-cache.3.2.1 lrwxrwxrwx 1 pbuilder2 pbuilder2 12 Apr 16 15:51 align-info -> align-info.3 lrwxrwxrwx 1 pbuilder2 pbuilder2 16 Apr 16 15:51 align-info.3 -> align-info.3.2.1 -rwxr-xr-x 1 pbuilder2 pbuilder2 97320 Apr 16 15:44 align-info.3.2.1 lrwxrwxrwx 1 pbuilder2 pbuilder2 10 Apr 16 15:51 bam-load -> bam-load.3 lrwxrwxrwx 1 pbuilder2 pbuilder2 14 Apr 16 15:51 bam-load.3 -> bam-load.3.2.1 -rwxr-xr-x 1 pbuilder2 pbuilder2 14124856 Apr 16 15:47 bam-load.3.2.1 lrwxrwxrwx 1 pbuilder2 pbuilder2 11 Apr 16 15:51 cache-mgr -> cache-mgr.3 lrwxrwxrwx 1 pbuilder2 pbuilder2 15 Apr 16 15:51 cache-mgr.3 -> cache-mgr.3.2.1 -rwxr-xr-x 1 pbuilder2 pbuilder2 124728 Apr 16 15:44 cache-mgr.3.2.1 lrwxrwxrwx 1 pbuilder2 pbuilder2 11 Apr 16 15:51 ccextract -> ccextract.3 lrwxrwxrwx 1 pbuilder2 pbuilder2 15 Apr 16 15:51 ccextract.3 -> ccextract.3.2.1 -rwxr-xr-x 1 pbuilder2 pbuilder2 272968 Apr 16 15:44 ccextract.3.2.1 lrwxrwxrwx 1 pbuilder2 pbuilder2 9 Apr 16 15:51 cg-load -> cg-load.3 lrwxrwxrwx 1 pbuilder2 pbuilder2 13 Apr 16 15:51 cg-load.3 -> cg-load.3.2.1 -rwxr-xr-x 1 pbuilder2 pbuilder2 657864 Apr 16 15:45 cg-load.3.2.1 lrwxrwxrwx 1 pbuilder2 pbuilder2 15 Apr 16 15:51 check-corrupt -> check-corrupt.3 lrwxrwxrwx 1 pbuilder2 pbuilder2 19 Apr 16 15:51 check-corrupt.3 -> check-corrupt.3.2.1 -rwxr-xr-x 1 pbuilder2 pbuilder2 247200 Apr 16 15:45 check-corrupt.3.2.1 lrwxrwxrwx 1 pbuilder2 pbuilder2 14 Apr 16 15:51 check-redact -> check-redact.3 lrwxrwxrwx 1 pbuilder2 pbuilder2 18 Apr 16 15:51 check-redact.3 -> check-redact.3.2.1 -rwxr-xr-x 1 pbuilder2 pbuilder2 97880 Apr 16 15:44 check-redact.3.2.1 lrwxrwxrwx 1 pbuilder2 pbuilder2 18 Apr 16 15:51 compute-coverage -> compute-coverage.3 lrwxrwxrwx 1 pbuilder2 pbuilder2 22 Apr 16 15:51 compute-coverage-ngs -> compute-coverage-ngs.3 lrwxrwxrwx 1 pbuilder2 pbuilder2 26 Apr 16 15:51 compute-coverage-ngs.3 -> compute-coverage-ngs.3.2.1 -rwxr-xr-x 1 pbuilder2 pbuilder2 2224928 Apr 16 15:45 compute-coverage-ngs.3.2.1 lrwxrwxrwx 1 pbuilder2 pbuilder2 22 Apr 16 15:51 compute-coverage.3 -> compute-coverage.3.2.1 -rwxr-xr-x 1 pbuilder2 pbuilder2 131184 Apr 16 15:45 compute-coverage.3.2.1 lrwxrwxrwx 1 pbuilder2 pbuilder2 9 Apr 16 15:51 copycat -> copycat.3 lrwxrwxrwx 1 pbuilder2 pbuilder2 13 Apr 16 15:51 copycat.3 -> copycat.3.2.1 -rwxr-xr-x 1 pbuilder2 pbuilder2 484072 Apr 16 15:45 copycat.3.2.1 lrwxrwxrwx 1 pbuilder2 pbuilder2 10 Apr 16 15:51 crc32sum -> crc32sum.3 lrwxrwxrwx 1 pbuilder2 pbuilder2 14 Apr 16 15:51 crc32sum.3 -> crc32sum.3.2.1 -rwxr-xr-x 1 pbuilder2 pbuilder2 79432 Apr 16 15:45 crc32sum.3.2.1 lrwxrwxrwx 1 pbuilder2 pbuilder2 22 Apr 16 15:51 dump-blob-boundaries -> dump-blob-boundaries.3 lrwxrwxrwx 1 pbuilder2 pbuilder2 26 Apr 16 15:51 dump-blob-boundaries.3 -> dump-blob-boundaries.3.2.1 -rwxr-xr-x 1 pbuilder2 pbuilder2 31600 Apr 16 15:44 dump-blob-boundaries.3.2.1 lrwxrwxrwx 1 pbuilder2 pbuilder2 16 Apr 16 15:51 dump-ref-fasta -> dump-ref-fasta.3 lrwxrwxrwx 1 pbuilder2 pbuilder2 20 Apr 16 15:51 dump-ref-fasta.3 -> dump-ref-fasta.3.2.1 -rwxr-xr-x 1 pbuilder2 pbuilder2 2098080 Apr 16 15:45 dump-ref-fasta.3.2.1 lrwxrwxrwx 1 pbuilder2 pbuilder2 10 Apr 16 15:51 fastconv -> fastconv.3 lrwxrwxrwx 1 pbuilder2 pbuilder2 14 Apr 16 15:51 fastconv.3 -> fastconv.3.2.1 -rwxr-xr-x 1 pbuilder2 pbuilder2 5042992 Apr 16 15:46 fastconv.3.2.1 lrwxrwxrwx 1 pbuilder2 pbuilder2 14 Apr 16 15:51 fasterq-dump -> fasterq-dump.3 -rwxr-xr-x 1 pbuilder2 pbuilder2 1016680 Apr 16 15:45 fasterq-dump-orig.3.2.1 lrwxrwxrwx 1 pbuilder2 pbuilder2 18 Apr 16 15:51 fasterq-dump.3 -> fasterq-dump.3.2.1 lrwxrwxrwx 1 pbuilder2 pbuilder2 14 Apr 16 15:51 fasterq-dump.3.2.1 -> sratools.3.2.1 lrwxrwxrwx 1 pbuilder2 pbuilder2 12 Apr 16 15:51 fastq-dump -> fastq-dump.3 -rwxr-xr-x 1 pbuilder2 pbuilder2 349696 Apr 16 15:45 fastq-dump-orig.3.2.1 lrwxrwxrwx 1 pbuilder2 pbuilder2 16 Apr 16 15:51 fastq-dump.3 -> fastq-dump.3.2.1 lrwxrwxrwx 1 pbuilder2 pbuilder2 14 Apr 16 15:51 fastq-dump.3.2.1 -> sratools.3.2.1 lrwxrwxrwx 1 pbuilder2 pbuilder2 12 Apr 16 15:51 fastq-load -> fastq-load.3 lrwxrwxrwx 1 pbuilder2 pbuilder2 16 Apr 16 15:51 fastq-load.3 -> fastq-load.3.2.1 -rwxr-xr-x 1 pbuilder2 pbuilder2 859400 Apr 16 15:45 fastq-load.3.2.1 lrwxrwxrwx 1 pbuilder2 pbuilder2 16 Apr 16 15:51 general-loader -> general-loader.3 lrwxrwxrwx 1 pbuilder2 pbuilder2 20 Apr 16 15:51 general-loader.3 -> general-loader.3.2.1 -rwxr-xr-x 1 pbuilder2 pbuilder2 1646960 Apr 16 15:45 general-loader.3.2.1 lrwxrwxrwx 1 pbuilder2 pbuilder2 14 Apr 16 15:51 helicos-load -> helicos-load.3 lrwxrwxrwx 1 pbuilder2 pbuilder2 18 Apr 16 15:51 helicos-load.3 -> helicos-load.3.2.1 -rwxr-xr-x 1 pbuilder2 pbuilder2 769640 Apr 16 15:45 helicos-load.3.2.1 lrwxrwxrwx 1 pbuilder2 pbuilder2 15 Apr 16 15:51 illumina-dump -> illumina-dump.3 lrwxrwxrwx 1 pbuilder2 pbuilder2 19 Apr 16 15:51 illumina-dump.3 -> illumina-dump.3.2.1 -rwxr-xr-x 1 pbuilder2 pbuilder2 255616 Apr 16 15:44 illumina-dump.3.2.1 lrwxrwxrwx 1 pbuilder2 pbuilder2 15 Apr 16 15:51 illumina-load -> illumina-load.3 lrwxrwxrwx 1 pbuilder2 pbuilder2 19 Apr 16 15:51 illumina-load.3 -> illumina-load.3.2.1 -rwxr-xr-x 1 pbuilder2 pbuilder2 819896 Apr 16 15:45 illumina-load.3.2.1 lrwxrwxrwx 1 pbuilder2 pbuilder2 5 Apr 16 15:51 kar -> kar.3 lrwxrwxrwx 1 pbuilder2 pbuilder2 6 Apr 16 15:51 kar+ -> kar+.3 lrwxrwxrwx 1 pbuilder2 pbuilder2 10 Apr 16 15:51 kar+.3 -> kar+.3.2.1 -rwxr-xr-x 1 pbuilder2 pbuilder2 237544 Apr 16 15:44 kar+.3.2.1 lrwxrwxrwx 1 pbuilder2 pbuilder2 10 Apr 16 15:51 kar+meta -> kar+meta.3 lrwxrwxrwx 1 pbuilder2 pbuilder2 14 Apr 16 15:51 kar+meta.3 -> kar+meta.3.2.1 -rwxr-xr-x 1 pbuilder2 pbuilder2 159056 Apr 16 15:44 kar+meta.3.2.1 lrwxrwxrwx 1 pbuilder2 pbuilder2 9 Apr 16 15:51 kar.3 -> kar.3.2.1 -rwxr-xr-x 1 pbuilder2 pbuilder2 190712 Apr 16 15:44 kar.3.2.1 lrwxrwxrwx 1 pbuilder2 pbuilder2 11 Apr 16 15:51 kdb-index -> kdb-index.3 lrwxrwxrwx 1 pbuilder2 pbuilder2 15 Apr 16 15:51 kdb-index.3 -> kdb-index.3.2.1 -rwxr-xr-x 1 pbuilder2 pbuilder2 78448 Apr 16 15:45 kdb-index.3.2.1 lrwxrwxrwx 1 pbuilder2 pbuilder2 9 Apr 16 15:51 kdbmeta -> kdbmeta.3 lrwxrwxrwx 1 pbuilder2 pbuilder2 13 Apr 16 15:51 kdbmeta.3 -> kdbmeta.3.2.1 -rwxr-xr-x 1 pbuilder2 pbuilder2 123624 Apr 16 15:44 kdbmeta.3.2.1 lrwxrwxrwx 1 pbuilder2 pbuilder2 11 Apr 16 15:51 latf-load -> latf-load.3 lrwxrwxrwx 1 pbuilder2 pbuilder2 15 Apr 16 15:51 latf-load.3 -> latf-load.3.2.1 -rwxr-xr-x 1 pbuilder2 pbuilder2 508272 Apr 16 15:45 latf-load.3.2.1 lrwxrwxrwx 1 pbuilder2 pbuilder2 18 Apr 16 15:51 make-read-filter -> make-read-filter.3 lrwxrwxrwx 1 pbuilder2 pbuilder2 22 Apr 16 15:51 make-read-filter.3 -> make-read-filter.3.2.1 -rwxr-xr-x 1 pbuilder2 pbuilder2 158768 Apr 16 15:45 make-read-filter.3.2.1 lrwxrwxrwx 1 pbuilder2 pbuilder2 7 Apr 16 15:51 md5cp -> md5cp.3 lrwxrwxrwx 1 pbuilder2 pbuilder2 11 Apr 16 15:51 md5cp.3 -> md5cp.3.2.1 -rwxr-xr-x 1 pbuilder2 pbuilder2 89720 Apr 16 15:45 md5cp.3.2.1 lrwxrwxrwx 1 pbuilder2 pbuilder2 10 Apr 16 15:51 meta-cmp -> meta-cmp.3 lrwxrwxrwx 1 pbuilder2 pbuilder2 14 Apr 16 15:51 meta-cmp.3 -> meta-cmp.3.2.1 -rwxr-xr-x 1 pbuilder2 pbuilder2 82024 Apr 16 15:45 meta-cmp.3.2.1 lrwxrwxrwx 1 pbuilder2 pbuilder2 11 Apr 16 15:51 meta-copy -> meta-copy.3 lrwxrwxrwx 1 pbuilder2 pbuilder2 15 Apr 16 15:51 meta-copy.3 -> meta-copy.3.2.1 -rwxr-xr-x 1 pbuilder2 pbuilder2 81952 Apr 16 15:45 meta-copy.3.2.1 lrwxrwxrwx 1 pbuilder2 pbuilder2 13 Apr 16 15:51 meta-repair -> meta-repair.3 lrwxrwxrwx 1 pbuilder2 pbuilder2 17 Apr 16 15:51 meta-repair.3 -> meta-repair.3.2.1 -rwxr-xr-x 1 pbuilder2 pbuilder2 136048 Apr 16 15:45 meta-repair.3.2.1 lrwxrwxrwx 1 pbuilder2 pbuilder2 12 Apr 16 15:51 ngs-pileup -> ngs-pileup.3 lrwxrwxrwx 1 pbuilder2 pbuilder2 16 Apr 16 15:51 ngs-pileup.3 -> ngs-pileup.3.2.1 -rwxr-xr-x 1 pbuilder2 pbuilder2 2608704 Apr 16 15:45 ngs-pileup.3.2.1 lrwxrwxrwx 1 pbuilder2 pbuilder2 16 Apr 16 15:51 pacbio-correct -> pacbio-correct.3 lrwxrwxrwx 1 pbuilder2 pbuilder2 20 Apr 16 15:51 pacbio-correct.3 -> pacbio-correct.3.2.1 -rwxr-xr-x 1 pbuilder2 pbuilder2 76024 Apr 16 15:45 pacbio-correct.3.2.1 lrwxrwxrwx 1 pbuilder2 pbuilder2 13 Apr 16 15:51 pacbio-load -> pacbio-load.3 lrwxrwxrwx 1 pbuilder2 pbuilder2 17 Apr 16 15:51 pacbio-load.3 -> pacbio-load.3.2.1 -rwxr-xr-x 1 pbuilder2 pbuilder2 476952 Apr 16 15:45 pacbio-load.3.2.1 lrwxrwxrwx 1 pbuilder2 pbuilder2 16 Apr 16 15:51 pacbio-loadxml -> pacbio-loadxml.3 lrwxrwxrwx 1 pbuilder2 pbuilder2 20 Apr 16 15:51 pacbio-loadxml.3 -> pacbio-loadxml.3.2.1 -rwxr-xr-x 1 pbuilder2 pbuilder2 757368 Apr 16 15:45 pacbio-loadxml.3.2.1 lrwxrwxrwx 1 pbuilder2 pbuilder2 14 Apr 16 15:51 pileup-stats -> pileup-stats.3 lrwxrwxrwx 1 pbuilder2 pbuilder2 18 Apr 16 15:51 pileup-stats.3 -> pileup-stats.3.2.1 -rwxr-xr-x 1 pbuilder2 pbuilder2 2848488 Apr 16 15:45 pileup-stats.3.2.1 lrwxrwxrwx 1 pbuilder2 pbuilder2 10 Apr 16 15:51 prefetch -> prefetch.3 -rwxr-xr-x 1 pbuilder2 pbuilder2 479464 Apr 16 15:45 prefetch-orig.3.2.1 lrwxrwxrwx 1 pbuilder2 pbuilder2 14 Apr 16 15:51 prefetch.3 -> prefetch.3.2.1 lrwxrwxrwx 1 pbuilder2 pbuilder2 14 Apr 16 15:51 prefetch.3.2.1 -> sratools.3.2.1 lrwxrwxrwx 1 pbuilder2 pbuilder2 11 Apr 16 15:51 rcexplain -> rcexplain.3 lrwxrwxrwx 1 pbuilder2 pbuilder2 15 Apr 16 15:51 rcexplain.3 -> rcexplain.3.2.1 -rwxr-xr-x 1 pbuilder2 pbuilder2 67456 Apr 16 15:44 rcexplain.3.2.1 lrwxrwxrwx 1 pbuilder2 pbuilder2 20 Apr 16 15:51 read-filter-redact -> read-filter-redact.3 lrwxrwxrwx 1 pbuilder2 pbuilder2 24 Apr 16 15:51 read-filter-redact.3 -> read-filter-redact.3.2.1 -rwxr-xr-x 1 pbuilder2 pbuilder2 111192 Apr 16 15:45 read-filter-redact.3.2.1 lrwxrwxrwx 1 pbuilder2 pbuilder2 15 Apr 16 15:51 ref-variation -> ref-variation.3 lrwxrwxrwx 1 pbuilder2 pbuilder2 19 Apr 16 15:51 ref-variation.3 -> ref-variation.3.2.1 -rwxr-xr-x 1 pbuilder2 pbuilder2 3020016 Apr 16 15:45 ref-variation.3.2.1 lrwxrwxrwx 1 pbuilder2 pbuilder2 14 Apr 16 15:51 rowwritetest -> rowwritetest.3 lrwxrwxrwx 1 pbuilder2 pbuilder2 18 Apr 16 15:51 rowwritetest.3 -> rowwritetest.3.2.1 -rwxr-xr-x 1 pbuilder2 pbuilder2 88592 Apr 16 15:45 rowwritetest.3.2.1 lrwxrwxrwx 1 pbuilder2 pbuilder2 10 Apr 16 15:51 sam-dump -> sam-dump.3 -rwxr-xr-x 1 pbuilder2 pbuilder2 834512 Apr 16 15:45 sam-dump-orig.3.2.1 lrwxrwxrwx 1 pbuilder2 pbuilder2 14 Apr 16 15:51 sam-dump.3 -> sam-dump.3.2.1 lrwxrwxrwx 1 pbuilder2 pbuilder2 14 Apr 16 15:51 sam-dump.3.2.1 -> sratools.3.2.1 lrwxrwxrwx 1 pbuilder2 pbuilder2 9 Apr 16 15:51 samview -> samview.3 lrwxrwxrwx 1 pbuilder2 pbuilder2 14 Apr 16 15:51 samview-util -> samview-util.3 lrwxrwxrwx 1 pbuilder2 pbuilder2 18 Apr 16 15:51 samview-util.3 -> samview-util.3.2.1 -rwxr-xr-x 1 pbuilder2 pbuilder2 64176 Apr 16 15:45 samview-util.3.2.1 lrwxrwxrwx 1 pbuilder2 pbuilder2 13 Apr 16 15:51 samview.3 -> samview.3.2.1 -rwxr-xr-x 1 pbuilder2 pbuilder2 305696 Apr 16 15:44 samview.3.2.1 lrwxrwxrwx 1 pbuilder2 pbuilder2 16 Apr 16 15:51 schema-replace -> schema-replace.3 lrwxrwxrwx 1 pbuilder2 pbuilder2 20 Apr 16 15:51 schema-replace.3 -> schema-replace.3.2.1 -rwxr-xr-x 1 pbuilder2 pbuilder2 82928 Apr 16 15:45 schema-replace.3.2.1 lrwxrwxrwx 1 pbuilder2 pbuilder2 10 Apr 16 15:51 sff-dump -> sff-dump.3 lrwxrwxrwx 1 pbuilder2 pbuilder2 14 Apr 16 15:51 sff-dump.3 -> sff-dump.3.2.1 -rwxr-xr-x 1 pbuilder2 pbuilder2 234512 Apr 16 15:44 sff-dump.3.2.1 lrwxrwxrwx 1 pbuilder2 pbuilder2 10 Apr 16 15:51 sff-load -> sff-load.3 lrwxrwxrwx 1 pbuilder2 pbuilder2 14 Apr 16 15:51 sff-load.3 -> sff-load.3.2.1 -rwxr-xr-x 1 pbuilder2 pbuilder2 818504 Apr 16 15:45 sff-load.3.2.1 lrwxrwxrwx 1 pbuilder2 pbuilder2 7 Apr 16 15:51 sharq -> sharq.3 lrwxrwxrwx 1 pbuilder2 pbuilder2 11 Apr 16 15:51 sharq.3 -> sharq.3.2.1 -rwxr-xr-x 1 pbuilder2 pbuilder2 44902232 Apr 16 15:48 sharq.3.2.1 lrwxrwxrwx 1 pbuilder2 pbuilder2 14 Apr 16 15:51 sortreadtest -> sortreadtest.3 lrwxrwxrwx 1 pbuilder2 pbuilder2 18 Apr 16 15:51 sortreadtest.3 -> sortreadtest.3.2.1 -rwxr-xr-x 1 pbuilder2 pbuilder2 79784 Apr 16 15:45 sortreadtest.3.2.1 lrwxrwxrwx 1 pbuilder2 pbuilder2 10 Apr 16 15:51 sra-info -> sra-info.3 lrwxrwxrwx 1 pbuilder2 pbuilder2 14 Apr 16 15:51 sra-info.3 -> sra-info.3.2.1 -rwxr-xr-x 1 pbuilder2 pbuilder2 2904864 Apr 16 15:45 sra-info.3.2.1 lrwxrwxrwx 1 pbuilder2 pbuilder2 12 Apr 16 15:51 sra-pileup -> sra-pileup.3 -rwxr-xr-x 1 pbuilder2 pbuilder2 443160 Apr 16 15:44 sra-pileup-orig.3.2.1 lrwxrwxrwx 1 pbuilder2 pbuilder2 16 Apr 16 15:51 sra-pileup.3 -> sra-pileup.3.2.1 lrwxrwxrwx 1 pbuilder2 pbuilder2 14 Apr 16 15:51 sra-pileup.3.2.1 -> sratools.3.2.1 lrwxrwxrwx 1 pbuilder2 pbuilder2 12 Apr 16 15:51 sra-search -> sra-search.3 lrwxrwxrwx 1 pbuilder2 pbuilder2 16 Apr 16 15:51 sra-search.3 -> sra-search.3.2.1 -rwxr-xr-x 1 pbuilder2 pbuilder2 4340304 Apr 16 15:45 sra-search.3.2.1 lrwxrwxrwx 1 pbuilder2 pbuilder2 10 Apr 16 15:51 sra-sort -> sra-sort.3 lrwxrwxrwx 1 pbuilder2 pbuilder2 13 Apr 16 15:51 sra-sort-cg -> sra-sort-cg.3 lrwxrwxrwx 1 pbuilder2 pbuilder2 17 Apr 16 15:51 sra-sort-cg.3 -> sra-sort-cg.3.2.1 -rwxr-xr-x 1 pbuilder2 pbuilder2 808784 Apr 16 15:44 sra-sort-cg.3.2.1 lrwxrwxrwx 1 pbuilder2 pbuilder2 14 Apr 16 15:51 sra-sort.3 -> sra-sort.3.2.1 -rwxr-xr-x 1 pbuilder2 pbuilder2 808816 Apr 16 15:44 sra-sort.3.2.1 lrwxrwxrwx 1 pbuilder2 pbuilder2 10 Apr 16 15:51 sra-stat -> sra-stat.3 lrwxrwxrwx 1 pbuilder2 pbuilder2 14 Apr 16 15:51 sra-stat.3 -> sra-stat.3.2.1 -rwxr-xr-x 1 pbuilder2 pbuilder2 347472 Apr 16 15:45 sra-stat.3.2.1 lrwxrwxrwx 1 pbuilder2 pbuilder2 9 Apr 16 15:51 srapath -> srapath.3 -rwxr-xr-x 1 pbuilder2 pbuilder2 256120 Apr 16 15:44 srapath-orig.3.2.1 lrwxrwxrwx 1 pbuilder2 pbuilder2 13 Apr 16 15:51 srapath.3 -> srapath.3.2.1 lrwxrwxrwx 1 pbuilder2 pbuilder2 14 Apr 16 15:51 srapath.3.2.1 -> sratools.3.2.1 lrwxrwxrwx 1 pbuilder2 pbuilder2 10 Apr 16 15:51 sratools -> sratools.3 lrwxrwxrwx 1 pbuilder2 pbuilder2 14 Apr 16 15:51 sratools.3 -> sratools.3.2.1 -rwxr-xr-x 1 pbuilder2 pbuilder2 5471720 Apr 16 15:45 sratools.3.2.1 lrwxrwxrwx 1 pbuilder2 pbuilder2 10 Apr 16 15:51 srf-load -> srf-load.3 lrwxrwxrwx 1 pbuilder2 pbuilder2 14 Apr 16 15:51 srf-load.3 -> srf-load.3.2.1 -rwxr-xr-x 1 pbuilder2 pbuilder2 999560 Apr 16 15:45 srf-load.3.2.1 lrwxrwxrwx 1 pbuilder2 pbuilder2 15 Apr 16 15:51 test-download -> test-download.3 lrwxrwxrwx 1 pbuilder2 pbuilder2 19 Apr 16 15:51 test-download.3 -> test-download.3.2.1 -rwxr-xr-x 1 pbuilder2 pbuilder2 93648 Apr 16 15:45 test-download.3.2.1 lrwxrwxrwx 1 pbuilder2 pbuilder2 24 Apr 16 15:51 test-read-write-cursor -> test-read-write-cursor.3 lrwxrwxrwx 1 pbuilder2 pbuilder2 28 Apr 16 15:51 test-read-write-cursor.3 -> test-read-write-cursor.3.2.1 -rwxr-xr-x 1 pbuilder2 pbuilder2 75488 Apr 16 15:45 test-read-write-cursor.3.2.1 lrwxrwxrwx 1 pbuilder2 pbuilder2 10 Apr 16 15:51 test-sra -> test-sra.3 lrwxrwxrwx 1 pbuilder2 pbuilder2 14 Apr 16 15:51 test-sra.3 -> test-sra.3.2.1 -rwxr-xr-x 1 pbuilder2 pbuilder2 343496 Apr 16 15:45 test-sra.3.2.1 lrwxrwxrwx 1 pbuilder2 pbuilder2 8 Apr 16 15:51 testld -> testld.3 lrwxrwxrwx 1 pbuilder2 pbuilder2 12 Apr 16 15:51 testld.3 -> testld.3.2.1 -rwxr-xr-x 1 pbuilder2 pbuilder2 76472 Apr 16 15:45 testld.3.2.1 lrwxrwxrwx 1 pbuilder2 pbuilder2 9 Apr 16 15:51 txt2kdb -> txt2kdb.3 lrwxrwxrwx 1 pbuilder2 pbuilder2 13 Apr 16 15:51 txt2kdb.3 -> txt2kdb.3.2.1 -rwxr-xr-x 1 pbuilder2 pbuilder2 83256 Apr 16 15:45 txt2kdb.3.2.1 lrwxrwxrwx 1 pbuilder2 pbuilder2 12 Apr 16 15:51 var-expand -> var-expand.3 lrwxrwxrwx 1 pbuilder2 pbuilder2 16 Apr 16 15:51 var-expand.3 -> var-expand.3.2.1 -rwxr-xr-x 1 pbuilder2 pbuilder2 2049376 Apr 16 15:45 var-expand.3.2.1 lrwxrwxrwx 1 pbuilder2 pbuilder2 12 Apr 16 15:51 vdb-config -> vdb-config.3 lrwxrwxrwx 1 pbuilder2 pbuilder2 16 Apr 16 15:51 vdb-config.3 -> vdb-config.3.2.1 -rwxr-xr-x 1 pbuilder2 pbuilder2 2655424 Apr 16 15:45 vdb-config.3.2.1 lrwxrwxrwx 1 pbuilder2 pbuilder2 10 Apr 16 15:51 vdb-copy -> vdb-copy.3 lrwxrwxrwx 1 pbuilder2 pbuilder2 14 Apr 16 15:51 vdb-copy.3 -> vdb-copy.3.2.1 -rwxr-xr-x 1 pbuilder2 pbuilder2 329728 Apr 16 15:45 vdb-copy.3.2.1 lrwxrwxrwx 1 pbuilder2 pbuilder2 13 Apr 16 15:51 vdb-decrypt -> vdb-decrypt.3 lrwxrwxrwx 1 pbuilder2 pbuilder2 17 Apr 16 15:51 vdb-decrypt.3 -> vdb-decrypt.3.2.1 -rwxr-xr-x 1 pbuilder2 pbuilder2 121584 Apr 16 15:44 vdb-decrypt.3.2.1 lrwxrwxrwx 1 pbuilder2 pbuilder2 10 Apr 16 15:51 vdb-diff -> vdb-diff.3 lrwxrwxrwx 1 pbuilder2 pbuilder2 14 Apr 16 15:51 vdb-diff.3 -> vdb-diff.3.2.1 -rwxr-xr-x 1 pbuilder2 pbuilder2 155224 Apr 16 15:45 vdb-diff.3.2.1 lrwxrwxrwx 1 pbuilder2 pbuilder2 10 Apr 16 15:51 vdb-dump -> vdb-dump.3 -rwxr-xr-x 1 pbuilder2 pbuilder2 887840 Apr 16 15:45 vdb-dump-orig.3.2.1 lrwxrwxrwx 1 pbuilder2 pbuilder2 14 Apr 16 15:51 vdb-dump.3 -> vdb-dump.3.2.1 lrwxrwxrwx 1 pbuilder2 pbuilder2 14 Apr 16 15:51 vdb-dump.3.2.1 -> sratools.3.2.1 lrwxrwxrwx 1 pbuilder2 pbuilder2 13 Apr 16 15:51 vdb-encrypt -> vdb-encrypt.3 lrwxrwxrwx 1 pbuilder2 pbuilder2 17 Apr 16 15:51 vdb-encrypt.3 -> vdb-encrypt.3.2.1 -rwxr-xr-x 1 pbuilder2 pbuilder2 119960 Apr 16 15:44 vdb-encrypt.3.2.1 lrwxrwxrwx 1 pbuilder2 pbuilder2 10 Apr 16 15:51 vdb-lock -> vdb-lock.3 lrwxrwxrwx 1 pbuilder2 pbuilder2 14 Apr 16 15:51 vdb-lock.3 -> vdb-lock.3.2.1 -rwxr-xr-x 1 pbuilder2 pbuilder2 68336 Apr 16 15:44 vdb-lock.3.2.1 lrwxrwxrwx 1 pbuilder2 pbuilder2 9 Apr 16 15:51 vdb-sql -> vdb-sql.3 lrwxrwxrwx 1 pbuilder2 pbuilder2 13 Apr 16 15:51 vdb-sql.3 -> vdb-sql.3.2.1 -rwxr-xr-x 1 pbuilder2 pbuilder2 5296480 Apr 16 15:46 vdb-sql.3.2.1 lrwxrwxrwx 1 pbuilder2 pbuilder2 12 Apr 16 15:51 vdb-unlock -> vdb-unlock.3 lrwxrwxrwx 1 pbuilder2 pbuilder2 16 Apr 16 15:51 vdb-unlock.3 -> vdb-unlock.3.2.1 -rwxr-xr-x 1 pbuilder2 pbuilder2 68344 Apr 16 15:44 vdb-unlock.3.2.1 lrwxrwxrwx 1 pbuilder2 pbuilder2 14 Apr 16 15:51 vdb-validate -> vdb-validate.3 lrwxrwxrwx 1 pbuilder2 pbuilder2 18 Apr 16 15:51 vdb-validate.3 -> vdb-validate.3.2.1 -rwxr-xr-x 1 pbuilder2 pbuilder2 261640 Apr 16 15:45 vdb-validate.3.2.1 cd debian/tmp/usr/bin && \ for bin in *-orig.* ; do \ base=${bin%-orig.*} && \ vbase=$(readlink "$(readlink $base)") && \ vdriver=$(readlink "$vbase") && \ mv -v $bin $base-orig && \ ln -snfv ${vdriver%%.[0-9]*} $vbase || exit $? ; \ done && \ for bin in *[a-z+] ; do \ bin2=$(readlink $bin) ; \ bin3=$(readlink "$bin2") ; \ case $bin2 in \ $bin.* ) rm -v $bin2 && mv -v $bin3 $bin || exit $? ;; \ esac ; \ done renamed 'fasterq-dump-orig.3.2.1' -> 'fasterq-dump-orig' 'fasterq-dump.3.2.1' -> 'sratools' renamed 'fastq-dump-orig.3.2.1' -> 'fastq-dump-orig' 'fastq-dump.3.2.1' -> 'sratools' renamed 'prefetch-orig.3.2.1' -> 'prefetch-orig' 'prefetch.3.2.1' -> 'sratools' renamed 'sam-dump-orig.3.2.1' -> 'sam-dump-orig' 'sam-dump.3.2.1' -> 'sratools' renamed 'sra-pileup-orig.3.2.1' -> 'sra-pileup-orig' 'sra-pileup.3.2.1' -> 'sratools' renamed 'srapath-orig.3.2.1' -> 'srapath-orig' 'srapath.3.2.1' -> 'sratools' renamed 'vdb-dump-orig.3.2.1' -> 'vdb-dump-orig' 'vdb-dump.3.2.1' -> 'sratools' removed 'abi-dump.3' renamed 'abi-dump.3.2.1' -> 'abi-dump' removed 'abi-load.3' renamed 'abi-load.3.2.1' -> 'abi-load' removed 'align-cache.3' renamed 'align-cache.3.2.1' -> 'align-cache' removed 'align-info.3' renamed 'align-info.3.2.1' -> 'align-info' removed 'bam-load.3' renamed 'bam-load.3.2.1' -> 'bam-load' removed 'cache-mgr.3' renamed 'cache-mgr.3.2.1' -> 'cache-mgr' removed 'ccextract.3' renamed 'ccextract.3.2.1' -> 'ccextract' removed 'cg-load.3' renamed 'cg-load.3.2.1' -> 'cg-load' removed 'check-corrupt.3' renamed 'check-corrupt.3.2.1' -> 'check-corrupt' removed 'check-redact.3' renamed 'check-redact.3.2.1' -> 'check-redact' removed 'compute-coverage.3' renamed 'compute-coverage.3.2.1' -> 'compute-coverage' removed 'compute-coverage-ngs.3' renamed 'compute-coverage-ngs.3.2.1' -> 'compute-coverage-ngs' removed 'copycat.3' renamed 'copycat.3.2.1' -> 'copycat' removed 'crc32sum.3' renamed 'crc32sum.3.2.1' -> 'crc32sum' removed 'dump-blob-boundaries.3' renamed 'dump-blob-boundaries.3.2.1' -> 'dump-blob-boundaries' removed 'dump-ref-fasta.3' renamed 'dump-ref-fasta.3.2.1' -> 'dump-ref-fasta' removed 'fastconv.3' renamed 'fastconv.3.2.1' -> 'fastconv' removed 'fasterq-dump.3' renamed 'fasterq-dump.3.2.1' -> 'fasterq-dump' removed 'fastq-dump.3' renamed 'fastq-dump.3.2.1' -> 'fastq-dump' removed 'fastq-load.3' renamed 'fastq-load.3.2.1' -> 'fastq-load' removed 'general-loader.3' renamed 'general-loader.3.2.1' -> 'general-loader' removed 'helicos-load.3' renamed 'helicos-load.3.2.1' -> 'helicos-load' removed 'illumina-dump.3' renamed 'illumina-dump.3.2.1' -> 'illumina-dump' removed 'illumina-load.3' renamed 'illumina-load.3.2.1' -> 'illumina-load' removed 'kar.3' renamed 'kar.3.2.1' -> 'kar' removed 'kar+.3' renamed 'kar+.3.2.1' -> 'kar+' removed 'kar+meta.3' renamed 'kar+meta.3.2.1' -> 'kar+meta' removed 'kdb-index.3' renamed 'kdb-index.3.2.1' -> 'kdb-index' removed 'kdbmeta.3' renamed 'kdbmeta.3.2.1' -> 'kdbmeta' removed 'latf-load.3' renamed 'latf-load.3.2.1' -> 'latf-load' removed 'make-read-filter.3' renamed 'make-read-filter.3.2.1' -> 'make-read-filter' removed 'md5cp.3' renamed 'md5cp.3.2.1' -> 'md5cp' removed 'meta-cmp.3' renamed 'meta-cmp.3.2.1' -> 'meta-cmp' removed 'meta-copy.3' renamed 'meta-copy.3.2.1' -> 'meta-copy' removed 'meta-repair.3' renamed 'meta-repair.3.2.1' -> 'meta-repair' removed 'ngs-pileup.3' renamed 'ngs-pileup.3.2.1' -> 'ngs-pileup' removed 'pacbio-correct.3' renamed 'pacbio-correct.3.2.1' -> 'pacbio-correct' removed 'pacbio-load.3' renamed 'pacbio-load.3.2.1' -> 'pacbio-load' removed 'pacbio-loadxml.3' renamed 'pacbio-loadxml.3.2.1' -> 'pacbio-loadxml' removed 'pileup-stats.3' renamed 'pileup-stats.3.2.1' -> 'pileup-stats' removed 'prefetch.3' renamed 'prefetch.3.2.1' -> 'prefetch' removed 'rcexplain.3' renamed 'rcexplain.3.2.1' -> 'rcexplain' removed 'read-filter-redact.3' renamed 'read-filter-redact.3.2.1' -> 'read-filter-redact' removed 'ref-variation.3' renamed 'ref-variation.3.2.1' -> 'ref-variation' removed 'rowwritetest.3' renamed 'rowwritetest.3.2.1' -> 'rowwritetest' removed 'sam-dump.3' renamed 'sam-dump.3.2.1' -> 'sam-dump' removed 'samview.3' renamed 'samview.3.2.1' -> 'samview' removed 'samview-util.3' renamed 'samview-util.3.2.1' -> 'samview-util' removed 'schema-replace.3' renamed 'schema-replace.3.2.1' -> 'schema-replace' removed 'sff-dump.3' renamed 'sff-dump.3.2.1' -> 'sff-dump' removed 'sff-load.3' renamed 'sff-load.3.2.1' -> 'sff-load' removed 'sharq.3' renamed 'sharq.3.2.1' -> 'sharq' removed 'sortreadtest.3' renamed 'sortreadtest.3.2.1' -> 'sortreadtest' removed 'sra-info.3' renamed 'sra-info.3.2.1' -> 'sra-info' removed 'sra-pileup.3' renamed 'sra-pileup.3.2.1' -> 'sra-pileup' removed 'sra-search.3' renamed 'sra-search.3.2.1' -> 'sra-search' removed 'sra-sort.3' renamed 'sra-sort.3.2.1' -> 'sra-sort' removed 'sra-sort-cg.3' renamed 'sra-sort-cg.3.2.1' -> 'sra-sort-cg' removed 'sra-stat.3' renamed 'sra-stat.3.2.1' -> 'sra-stat' removed 'srapath.3' renamed 'srapath.3.2.1' -> 'srapath' removed 'sratools.3' renamed 'sratools.3.2.1' -> 'sratools' removed 'srf-load.3' renamed 'srf-load.3.2.1' -> 'srf-load' removed 'test-download.3' renamed 'test-download.3.2.1' -> 'test-download' removed 'test-read-write-cursor.3' renamed 'test-read-write-cursor.3.2.1' -> 'test-read-write-cursor' removed 'test-sra.3' renamed 'test-sra.3.2.1' -> 'test-sra' removed 'testld.3' renamed 'testld.3.2.1' -> 'testld' removed 'txt2kdb.3' renamed 'txt2kdb.3.2.1' -> 'txt2kdb' removed 'var-expand.3' renamed 'var-expand.3.2.1' -> 'var-expand' removed 'vdb-config.3' renamed 'vdb-config.3.2.1' -> 'vdb-config' removed 'vdb-copy.3' renamed 'vdb-copy.3.2.1' -> 'vdb-copy' removed 'vdb-decrypt.3' renamed 'vdb-decrypt.3.2.1' -> 'vdb-decrypt' removed 'vdb-diff.3' renamed 'vdb-diff.3.2.1' -> 'vdb-diff' removed 'vdb-dump.3' renamed 'vdb-dump.3.2.1' -> 'vdb-dump' removed 'vdb-encrypt.3' renamed 'vdb-encrypt.3.2.1' -> 'vdb-encrypt' removed 'vdb-lock.3' renamed 'vdb-lock.3.2.1' -> 'vdb-lock' removed 'vdb-sql.3' renamed 'vdb-sql.3.2.1' -> 'vdb-sql' removed 'vdb-unlock.3' renamed 'vdb-unlock.3.2.1' -> 'vdb-unlock' removed 'vdb-validate.3' renamed 'vdb-validate.3.2.1' -> 'vdb-validate' mkdir debian/tmp/usr/lib/sra-toolkit mv debian/tmp/usr/bin/sratools debian/tmp/usr/lib/sra-toolkit for x in debian/tmp/usr/bin/*-orig; do \ mv -v $x debian/tmp/usr/lib/sra-toolkit ; \ ln -snfv ../lib/sra-toolkit/sratools ${x%-orig} ; \ done renamed 'debian/tmp/usr/bin/fasterq-dump-orig' -> 'debian/tmp/usr/lib/sra-toolkit/fasterq-dump-orig' 'debian/tmp/usr/bin/fasterq-dump' -> '../lib/sra-toolkit/sratools' renamed 'debian/tmp/usr/bin/fastq-dump-orig' -> 'debian/tmp/usr/lib/sra-toolkit/fastq-dump-orig' 'debian/tmp/usr/bin/fastq-dump' -> '../lib/sra-toolkit/sratools' renamed 'debian/tmp/usr/bin/prefetch-orig' -> 'debian/tmp/usr/lib/sra-toolkit/prefetch-orig' 'debian/tmp/usr/bin/prefetch' -> '../lib/sra-toolkit/sratools' renamed 'debian/tmp/usr/bin/sam-dump-orig' -> 'debian/tmp/usr/lib/sra-toolkit/sam-dump-orig' 'debian/tmp/usr/bin/sam-dump' -> '../lib/sra-toolkit/sratools' renamed 'debian/tmp/usr/bin/sra-pileup-orig' -> 'debian/tmp/usr/lib/sra-toolkit/sra-pileup-orig' 'debian/tmp/usr/bin/sra-pileup' -> '../lib/sra-toolkit/sratools' renamed 'debian/tmp/usr/bin/srapath-orig' -> 'debian/tmp/usr/lib/sra-toolkit/srapath-orig' 'debian/tmp/usr/bin/srapath' -> '../lib/sra-toolkit/sratools' renamed 'debian/tmp/usr/bin/vdb-dump-orig' -> 'debian/tmp/usr/lib/sra-toolkit/vdb-dump-orig' 'debian/tmp/usr/bin/vdb-dump' -> '../lib/sra-toolkit/sratools' dh_install # remove susipcious file which is not executable and conflicts with package magic rm -f debian/*/usr/bin/magic pybuild --install --name ngs -d ngs/ngs-python I: pybuild base:311: /usr/bin/python3 setup.py install --root /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/python3-ngs running install /usr/lib/python3/dist-packages/setuptools/_distutils/cmd.py:79: SetuptoolsDeprecationWarning: setup.py install is deprecated. !! ******************************************************************************** Please avoid running ``setup.py`` directly. Instead, use pypa/build, pypa/installer or other standards-based tools. See https://blog.ganssle.io/articles/2021/10/setup-py-deprecated.html for details. ******************************************************************************** !! self.initialize_options() running build running build_py creating /build/reproducible-path/sra-sdk-3.2.1+dfsg/.pybuild/cpython3_3.13_ngs/build/ngs copying ngs/Pileup.py -> /build/reproducible-path/sra-sdk-3.2.1+dfsg/.pybuild/cpython3_3.13_ngs/build/ngs copying ngs/ReadIterator.py -> /build/reproducible-path/sra-sdk-3.2.1+dfsg/.pybuild/cpython3_3.13_ngs/build/ngs copying ngs/FragmentIterator.py -> /build/reproducible-path/sra-sdk-3.2.1+dfsg/.pybuild/cpython3_3.13_ngs/build/ngs copying ngs/Reference.py -> /build/reproducible-path/sra-sdk-3.2.1+dfsg/.pybuild/cpython3_3.13_ngs/build/ngs copying ngs/String.py -> /build/reproducible-path/sra-sdk-3.2.1+dfsg/.pybuild/cpython3_3.13_ngs/build/ngs copying ngs/ReferenceIterator.py -> /build/reproducible-path/sra-sdk-3.2.1+dfsg/.pybuild/cpython3_3.13_ngs/build/ngs copying ngs/ReferenceSequence.py -> /build/reproducible-path/sra-sdk-3.2.1+dfsg/.pybuild/cpython3_3.13_ngs/build/ngs copying ngs/Refcount.py -> /build/reproducible-path/sra-sdk-3.2.1+dfsg/.pybuild/cpython3_3.13_ngs/build/ngs copying ngs/PileupEventIterator.py -> /build/reproducible-path/sra-sdk-3.2.1+dfsg/.pybuild/cpython3_3.13_ngs/build/ngs copying ngs/Package.py -> /build/reproducible-path/sra-sdk-3.2.1+dfsg/.pybuild/cpython3_3.13_ngs/build/ngs copying ngs/__init__.py -> /build/reproducible-path/sra-sdk-3.2.1+dfsg/.pybuild/cpython3_3.13_ngs/build/ngs copying ngs/Fragment.py -> /build/reproducible-path/sra-sdk-3.2.1+dfsg/.pybuild/cpython3_3.13_ngs/build/ngs copying ngs/ReadGroup.py -> /build/reproducible-path/sra-sdk-3.2.1+dfsg/.pybuild/cpython3_3.13_ngs/build/ngs copying ngs/PileupIterator.py -> /build/reproducible-path/sra-sdk-3.2.1+dfsg/.pybuild/cpython3_3.13_ngs/build/ngs copying ngs/Read.py -> /build/reproducible-path/sra-sdk-3.2.1+dfsg/.pybuild/cpython3_3.13_ngs/build/ngs copying ngs/Alignment.py -> /build/reproducible-path/sra-sdk-3.2.1+dfsg/.pybuild/cpython3_3.13_ngs/build/ngs copying ngs/AlignmentIterator.py -> /build/reproducible-path/sra-sdk-3.2.1+dfsg/.pybuild/cpython3_3.13_ngs/build/ngs copying ngs/ErrorMsg.py -> /build/reproducible-path/sra-sdk-3.2.1+dfsg/.pybuild/cpython3_3.13_ngs/build/ngs copying ngs/ReadCollection.py -> /build/reproducible-path/sra-sdk-3.2.1+dfsg/.pybuild/cpython3_3.13_ngs/build/ngs copying ngs/LibChecker.py -> /build/reproducible-path/sra-sdk-3.2.1+dfsg/.pybuild/cpython3_3.13_ngs/build/ngs copying ngs/LibManager.py -> /build/reproducible-path/sra-sdk-3.2.1+dfsg/.pybuild/cpython3_3.13_ngs/build/ngs copying ngs/PileupEvent.py -> /build/reproducible-path/sra-sdk-3.2.1+dfsg/.pybuild/cpython3_3.13_ngs/build/ngs copying ngs/Statistics.py -> /build/reproducible-path/sra-sdk-3.2.1+dfsg/.pybuild/cpython3_3.13_ngs/build/ngs copying ngs/ReadGroupIterator.py -> /build/reproducible-path/sra-sdk-3.2.1+dfsg/.pybuild/cpython3_3.13_ngs/build/ngs running install_lib creating /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/python3-ngs/usr/lib/python3.13/dist-packages creating /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/python3-ngs/usr/lib/python3.13/dist-packages/ngs copying /build/reproducible-path/sra-sdk-3.2.1+dfsg/.pybuild/cpython3_3.13_ngs/build/ngs/Pileup.py -> /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/python3-ngs/usr/lib/python3.13/dist-packages/ngs copying /build/reproducible-path/sra-sdk-3.2.1+dfsg/.pybuild/cpython3_3.13_ngs/build/ngs/ReadIterator.py -> /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/python3-ngs/usr/lib/python3.13/dist-packages/ngs copying /build/reproducible-path/sra-sdk-3.2.1+dfsg/.pybuild/cpython3_3.13_ngs/build/ngs/FragmentIterator.py -> /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/python3-ngs/usr/lib/python3.13/dist-packages/ngs copying /build/reproducible-path/sra-sdk-3.2.1+dfsg/.pybuild/cpython3_3.13_ngs/build/ngs/Reference.py -> /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/python3-ngs/usr/lib/python3.13/dist-packages/ngs copying /build/reproducible-path/sra-sdk-3.2.1+dfsg/.pybuild/cpython3_3.13_ngs/build/ngs/String.py -> /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/python3-ngs/usr/lib/python3.13/dist-packages/ngs copying /build/reproducible-path/sra-sdk-3.2.1+dfsg/.pybuild/cpython3_3.13_ngs/build/ngs/ReferenceIterator.py -> /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/python3-ngs/usr/lib/python3.13/dist-packages/ngs copying /build/reproducible-path/sra-sdk-3.2.1+dfsg/.pybuild/cpython3_3.13_ngs/build/ngs/ReferenceSequence.py -> /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/python3-ngs/usr/lib/python3.13/dist-packages/ngs copying /build/reproducible-path/sra-sdk-3.2.1+dfsg/.pybuild/cpython3_3.13_ngs/build/ngs/Refcount.py -> /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/python3-ngs/usr/lib/python3.13/dist-packages/ngs copying /build/reproducible-path/sra-sdk-3.2.1+dfsg/.pybuild/cpython3_3.13_ngs/build/ngs/PileupEventIterator.py -> /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/python3-ngs/usr/lib/python3.13/dist-packages/ngs copying /build/reproducible-path/sra-sdk-3.2.1+dfsg/.pybuild/cpython3_3.13_ngs/build/ngs/Package.py -> /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/python3-ngs/usr/lib/python3.13/dist-packages/ngs copying /build/reproducible-path/sra-sdk-3.2.1+dfsg/.pybuild/cpython3_3.13_ngs/build/ngs/__init__.py -> /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/python3-ngs/usr/lib/python3.13/dist-packages/ngs copying /build/reproducible-path/sra-sdk-3.2.1+dfsg/.pybuild/cpython3_3.13_ngs/build/ngs/Fragment.py -> /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/python3-ngs/usr/lib/python3.13/dist-packages/ngs copying /build/reproducible-path/sra-sdk-3.2.1+dfsg/.pybuild/cpython3_3.13_ngs/build/ngs/ReadGroup.py -> /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/python3-ngs/usr/lib/python3.13/dist-packages/ngs copying /build/reproducible-path/sra-sdk-3.2.1+dfsg/.pybuild/cpython3_3.13_ngs/build/ngs/PileupIterator.py -> /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/python3-ngs/usr/lib/python3.13/dist-packages/ngs copying /build/reproducible-path/sra-sdk-3.2.1+dfsg/.pybuild/cpython3_3.13_ngs/build/ngs/Read.py -> /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/python3-ngs/usr/lib/python3.13/dist-packages/ngs copying /build/reproducible-path/sra-sdk-3.2.1+dfsg/.pybuild/cpython3_3.13_ngs/build/ngs/Alignment.py -> /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/python3-ngs/usr/lib/python3.13/dist-packages/ngs copying /build/reproducible-path/sra-sdk-3.2.1+dfsg/.pybuild/cpython3_3.13_ngs/build/ngs/AlignmentIterator.py -> /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/python3-ngs/usr/lib/python3.13/dist-packages/ngs copying /build/reproducible-path/sra-sdk-3.2.1+dfsg/.pybuild/cpython3_3.13_ngs/build/ngs/ErrorMsg.py -> /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/python3-ngs/usr/lib/python3.13/dist-packages/ngs copying /build/reproducible-path/sra-sdk-3.2.1+dfsg/.pybuild/cpython3_3.13_ngs/build/ngs/ReadCollection.py -> /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/python3-ngs/usr/lib/python3.13/dist-packages/ngs copying /build/reproducible-path/sra-sdk-3.2.1+dfsg/.pybuild/cpython3_3.13_ngs/build/ngs/LibChecker.py -> /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/python3-ngs/usr/lib/python3.13/dist-packages/ngs copying /build/reproducible-path/sra-sdk-3.2.1+dfsg/.pybuild/cpython3_3.13_ngs/build/ngs/LibManager.py -> /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/python3-ngs/usr/lib/python3.13/dist-packages/ngs copying /build/reproducible-path/sra-sdk-3.2.1+dfsg/.pybuild/cpython3_3.13_ngs/build/ngs/PileupEvent.py -> /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/python3-ngs/usr/lib/python3.13/dist-packages/ngs copying /build/reproducible-path/sra-sdk-3.2.1+dfsg/.pybuild/cpython3_3.13_ngs/build/ngs/Statistics.py -> /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/python3-ngs/usr/lib/python3.13/dist-packages/ngs copying /build/reproducible-path/sra-sdk-3.2.1+dfsg/.pybuild/cpython3_3.13_ngs/build/ngs/ReadGroupIterator.py -> /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/python3-ngs/usr/lib/python3.13/dist-packages/ngs byte-compiling /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/python3-ngs/usr/lib/python3.13/dist-packages/ngs/Pileup.py to Pileup.cpython-313.pyc byte-compiling /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/python3-ngs/usr/lib/python3.13/dist-packages/ngs/ReadIterator.py to ReadIterator.cpython-313.pyc byte-compiling /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/python3-ngs/usr/lib/python3.13/dist-packages/ngs/FragmentIterator.py to FragmentIterator.cpython-313.pyc byte-compiling /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/python3-ngs/usr/lib/python3.13/dist-packages/ngs/Reference.py to Reference.cpython-313.pyc byte-compiling /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/python3-ngs/usr/lib/python3.13/dist-packages/ngs/String.py to String.cpython-313.pyc byte-compiling /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/python3-ngs/usr/lib/python3.13/dist-packages/ngs/ReferenceIterator.py to ReferenceIterator.cpython-313.pyc byte-compiling /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/python3-ngs/usr/lib/python3.13/dist-packages/ngs/ReferenceSequence.py to ReferenceSequence.cpython-313.pyc byte-compiling /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/python3-ngs/usr/lib/python3.13/dist-packages/ngs/Refcount.py to Refcount.cpython-313.pyc byte-compiling /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/python3-ngs/usr/lib/python3.13/dist-packages/ngs/PileupEventIterator.py to PileupEventIterator.cpython-313.pyc byte-compiling /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/python3-ngs/usr/lib/python3.13/dist-packages/ngs/Package.py to Package.cpython-313.pyc byte-compiling /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/python3-ngs/usr/lib/python3.13/dist-packages/ngs/__init__.py to __init__.cpython-313.pyc byte-compiling /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/python3-ngs/usr/lib/python3.13/dist-packages/ngs/Fragment.py to Fragment.cpython-313.pyc byte-compiling /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/python3-ngs/usr/lib/python3.13/dist-packages/ngs/ReadGroup.py to ReadGroup.cpython-313.pyc byte-compiling /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/python3-ngs/usr/lib/python3.13/dist-packages/ngs/PileupIterator.py to PileupIterator.cpython-313.pyc byte-compiling /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/python3-ngs/usr/lib/python3.13/dist-packages/ngs/Read.py to Read.cpython-313.pyc byte-compiling /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/python3-ngs/usr/lib/python3.13/dist-packages/ngs/Alignment.py to Alignment.cpython-313.pyc byte-compiling /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/python3-ngs/usr/lib/python3.13/dist-packages/ngs/AlignmentIterator.py to AlignmentIterator.cpython-313.pyc byte-compiling /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/python3-ngs/usr/lib/python3.13/dist-packages/ngs/ErrorMsg.py to ErrorMsg.cpython-313.pyc byte-compiling /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/python3-ngs/usr/lib/python3.13/dist-packages/ngs/ReadCollection.py to ReadCollection.cpython-313.pyc byte-compiling /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/python3-ngs/usr/lib/python3.13/dist-packages/ngs/LibChecker.py to LibChecker.cpython-313.pyc byte-compiling /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/python3-ngs/usr/lib/python3.13/dist-packages/ngs/LibManager.py to LibManager.cpython-313.pyc byte-compiling /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/python3-ngs/usr/lib/python3.13/dist-packages/ngs/PileupEvent.py to PileupEvent.cpython-313.pyc byte-compiling /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/python3-ngs/usr/lib/python3.13/dist-packages/ngs/Statistics.py to Statistics.cpython-313.pyc byte-compiling /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/python3-ngs/usr/lib/python3.13/dist-packages/ngs/ReadGroupIterator.py to ReadGroupIterator.cpython-313.pyc running install_egg_info running egg_info writing ngs.egg-info/PKG-INFO writing dependency_links to ngs.egg-info/dependency_links.txt writing top-level names to ngs.egg-info/top_level.txt reading manifest file 'ngs.egg-info/SOURCES.txt' writing manifest file 'ngs.egg-info/SOURCES.txt' Copying ngs.egg-info to /build/reproducible-path/sra-sdk-3.2.1+dfsg/debian/python3-ngs/usr/lib/python3.13/dist-packages/ngs-1.0.egg-info Skipping SOURCES.txt running install_scripts make[1]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg' jh_installjavadoc -O--buildsystem=cmake Duplicate specification "author|A=s" for option "A" dh_installdocs -O--buildsystem=cmake dh_installchangelogs -O--buildsystem=cmake debian/rules override_dh_installexamples make[1]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg' dh_installexamples find debian/*/ -name .gitignore -delete make[1]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg' dh_python3 -O--buildsystem=cmake dh_installsystemduser -O--buildsystem=cmake dh_lintian -O--buildsystem=cmake dh_perl -O--buildsystem=cmake debian/rules execute_before_dh_link make[1]: Entering directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg' # Putting the upstream version number (without the dfsg part) at the end of # symlink source in the -jni package. sed -e 's/\(#STRIPPED_UPSTREAM_VERSION#\)/\13.2.1+dfsg/' \ -e 's/#STRIPPED_UPSTREAM_VERSION#\(.*\)+dfsg[0-9]*/\1/' \ -e 's/\$[({]DEB_HOST_MULTIARCH[)}]/x86_64-linux-gnu/g' \ debian/libngs-jni.links.in > debian/libngs-jni.links make[1]: Leaving directory '/build/reproducible-path/sra-sdk-3.2.1+dfsg' dh_link -O--buildsystem=cmake jh_installlibs -O--buildsystem=cmake jh_classpath -O--buildsystem=cmake jh_manifest -O--buildsystem=cmake Duplicate specification "V:s" for option "V" jh_exec -O--buildsystem=cmake jh_depends -O--buildsystem=cmake mh_installpoms -O--buildsystem=cmake mh_linkjars --skip-clean-poms -O--buildsystem=cmake dh_strip_nondeterminism -O--buildsystem=cmake dh_compress -O--buildsystem=cmake dh_fixperms -O--buildsystem=cmake dh_missing -O--buildsystem=cmake dh_dwz -a -O--buildsystem=cmake dh_strip -a -O--buildsystem=cmake dh_makeshlibs -a -O--buildsystem=cmake dh_shlibdeps -a -O--buildsystem=cmake dpkg-shlibdeps: warning: symbol KMetadataOpenNodeRead used by debian/libngs-c++3/usr/lib/x86_64-linux-gnu/libngs-c++.so.3.2.1 found in none of the libraries dpkg-shlibdeps: warning: symbol VDatabaseOpenTableRead used by debian/libngs-c++3/usr/lib/x86_64-linux-gnu/libngs-c++.so.3.2.1 found in none of the libraries dpkg-shlibdeps: warning: symbol xcStringCreateFailed used by debian/libngs-c++3/usr/lib/x86_64-linux-gnu/libngs-c++.so.3.2.1 found in none of the libraries dpkg-shlibdeps: warning: symbol VFSManagerRelease used by debian/libngs-c++3/usr/lib/x86_64-linux-gnu/libngs-c++.so.3.2.1 found in none of the libraries dpkg-shlibdeps: warning: symbol KMDataNodeListChildren used by debian/libngs-c++3/usr/lib/x86_64-linux-gnu/libngs-c++.so.3.2.1 found in none of the libraries dpkg-shlibdeps: warning: symbol KMDataNodeRead used by debian/libngs-c++3/usr/lib/x86_64-linux-gnu/libngs-c++.so.3.2.1 found in none of the libraries dpkg-shlibdeps: warning: symbol GetPackageVersion used by debian/libngs-c++3/usr/lib/x86_64-linux-gnu/libngs-c++.so.3.2.1 found in none of the libraries dpkg-shlibdeps: warning: symbol KNSManagerRelease used by debian/libngs-c++3/usr/lib/x86_64-linux-gnu/libngs-c++.so.3.2.1 found in none of the libraries dpkg-shlibdeps: warning: symbol KConfigMakeRepositoryMgrRead used by debian/libngs-c++3/usr/lib/x86_64-linux-gnu/libngs-c++.so.3.2.1 found in none of the libraries dpkg-shlibdeps: warning: symbol VCursorOpenParentRead used by debian/libngs-c++3/usr/lib/x86_64-linux-gnu/libngs-c++.so.3.2.1 found in none of the libraries dpkg-shlibdeps: warning: 133 other similar warnings have been skipped (use -v to see them all) dh_installdeb -O--buildsystem=cmake dh_gencontrol -O--buildsystem=cmake dpkg-gencontrol: warning: Depends field of package libngs-jni: substitution variable ${shlibs:Depends} used, but is not defined dpkg-gencontrol: warning: package libncbi-ngs-dev: substitution variable ${devlibs:Depends} unused, but is defined dh_md5sums -O--buildsystem=cmake dh_builddeb -O--buildsystem=cmake dpkg-deb: building package 'sra-toolkit-dbgsym' in '../sra-toolkit-dbgsym_3.2.1+dfsg-3_amd64.deb'. dpkg-deb: building package 'sra-toolkit' in '../sra-toolkit_3.2.1+dfsg-3_amd64.deb'. dpkg-deb: building package 'libngs-c++3' in '../libngs-c++3_3.2.1+dfsg-3_amd64.deb'. dpkg-deb: building package 'libngs-c++3-dbgsym' in '../libngs-c++3-dbgsym_3.2.1+dfsg-3_amd64.deb'. dpkg-deb: building package 'libngs-c++-dev' in '../libngs-c++-dev_3.2.1+dfsg-3_amd64.deb'. dpkg-deb: building package 'libncbi-ngs3' in '../libncbi-ngs3_3.2.1+dfsg-3_amd64.deb'. dpkg-deb: building package 'libncbi-ngs3-dbgsym' in '../libncbi-ngs3-dbgsym_3.2.1+dfsg-3_amd64.deb'. dpkg-deb: building package 'libncbi-ngs-dev' in '../libncbi-ngs-dev_3.2.1+dfsg-3_amd64.deb'. dpkg-deb: building package 'libngs-java' in '../libngs-java_3.2.1+dfsg-3_amd64.deb'. dpkg-deb: building package 'libngs-jni' in '../libngs-jni_3.2.1+dfsg-3_amd64.deb'. dpkg-deb: building package 'libngs-java-doc' in '../libngs-java-doc_3.2.1+dfsg-3_all.deb'. dpkg-deb: building package 'python3-ngs' in '../python3-ngs_3.2.1+dfsg-3_all.deb'. dpkg-genbuildinfo --build=binary -O../sra-sdk_3.2.1+dfsg-3_amd64.buildinfo dpkg-genchanges --build=binary -O../sra-sdk_3.2.1+dfsg-3_amd64.changes dpkg-genchanges: info: binary-only upload (no source code included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) dpkg-genchanges: info: not including original source code in upload I: copying local configuration I: user script /srv/workspace/pbuilder/2029758/tmp/hooks/B01_cleanup starting I: user script /srv/workspace/pbuilder/2029758/tmp/hooks/B01_cleanup finished I: unmounting dev/ptmx filesystem I: unmounting dev/pts filesystem I: unmounting dev/shm filesystem I: unmounting proc filesystem I: unmounting sys filesystem I: cleaning the build env I: removing directory /srv/workspace/pbuilder/2029758 and its subdirectories I: Current time: Wed Apr 16 15:52:24 +14 2025 I: pbuilder-time-stamp: 1744768344