sbuild (Debian sbuild) 0.78.1 (09 February 2019) on mjolnir +==============================================================================+ | tvc 5.0.3+git20151221.80e144e+dfsg-3 (amd64) Sun, 22 Aug 2021 06:41:08 +0000 | +==============================================================================+ Package: tvc Version: 5.0.3+git20151221.80e144e+dfsg-3 Source Version: 5.0.3+git20151221.80e144e+dfsg-3 Distribution: unstable Machine Architecture: arm64 Host Architecture: amd64 Build Architecture: arm64 Build Profiles: cross nocheck Build Type: any I: NOTICE: Log filtering will replace 'var/run/schroot/mount/crossqa-sid-c3e8c150-1e36-4ed8-adbc-804173c86600' with '<>' I: NOTICE: Log filtering will replace 'build/tvc-y2MCfH/resolver-ukDUeI' with '<>' +------------------------------------------------------------------------------+ | Update chroot | +------------------------------------------------------------------------------+ Get:1 http://mirror.einval.org/debian sid InRelease [165 kB] Ign:2 http://mirror.einval.org/debian sid/main Sources.diff/Index Ign:3 http://mirror.einval.org/debian sid/main arm64 Packages.diff/Index Get:2 http://mirror.einval.org/debian sid/main Sources.diff/Index [63.6 kB] Ign:2 http://mirror.einval.org/debian sid/main Sources.diff/Index Ign:3 http://mirror.einval.org/debian sid/main arm64 Packages.diff/Index Get:4 http://mirror.einval.org/debian sid/main amd64 Packages [8728 kB] Get:5 http://mirror.einval.org/debian sid/main Sources [9162 kB] Get:6 http://mirror.einval.org/debian sid/main arm64 Packages [8591 kB] Fetched 26.6 MB in 7s (3723 kB/s) Reading package lists... Reading package lists... Building dependency tree... Reading state information... Calculating upgrade... 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. +------------------------------------------------------------------------------+ | Fetch source files | +------------------------------------------------------------------------------+ Check APT --------- Checking available source versions... Download source files with APT ------------------------------ Reading package lists... NOTICE: 'tvc' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/med-team/tvc.git Please use: git clone https://salsa.debian.org/med-team/tvc.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 756 kB of source archives. Get:1 http://mirror.einval.org/debian sid/main tvc 5.0.3+git20151221.80e144e+dfsg-3 (dsc) [2200 B] Get:2 http://mirror.einval.org/debian sid/main tvc 5.0.3+git20151221.80e144e+dfsg-3 (tar) [745 kB] Get:3 http://mirror.einval.org/debian sid/main tvc 5.0.3+git20151221.80e144e+dfsg-3 (diff) [8968 B] Fetched 756 kB in 0s (9474 kB/s) Download complete and in download only mode I: NOTICE: Log filtering will replace 'build/tvc-y2MCfH/tvc-5.0.3+git20151221.80e144e+dfsg' with '<>' I: NOTICE: Log filtering will replace 'build/tvc-y2MCfH' with '<>' +------------------------------------------------------------------------------+ | Install package build dependencies | +------------------------------------------------------------------------------+ Setup apt archive ----------------- Merged Build-Depends: debhelper-compat (= 12), cmake, libbamtools-dev, libjsoncpp-dev, libarmadillo-dev, libboost-math-dev, libsmithwaterman-dev, libc-dev, libstdc++-dev, build-essential:arm64, fakeroot:arm64, crossbuild-essential-amd64:arm64, libc-dev:amd64, libstdc++-dev:amd64 Filtered Build-Depends: debhelper-compat (= 12), cmake, libbamtools-dev, libjsoncpp-dev, libarmadillo-dev, libboost-math-dev, libsmithwaterman-dev, libc-dev, libstdc++-dev, build-essential:arm64, fakeroot:arm64, crossbuild-essential-amd64:arm64, libc-dev:amd64, libstdc++-dev:amd64 dpkg-deb: building package 'sbuild-build-depends-main-dummy' in '/<>/apt_archive/sbuild-build-depends-main-dummy.deb'. Ign:1 copy:/<>/apt_archive ./ InRelease Get:2 copy:/<>/apt_archive ./ Release [957 B] Ign:3 copy:/<>/apt_archive ./ Release.gpg Get:4 copy:/<>/apt_archive ./ Sources [443 B] Get:5 copy:/<>/apt_archive ./ Packages [535 B] Fetched 1935 B in 0s (47.1 kB/s) Reading package lists... Reading package lists... Install main build dependencies (apt-based resolver) ---------------------------------------------------- Installing build dependencies Reading package lists... Building dependency tree... Reading state information... The following additional packages will be installed: autoconf automake autopoint autotools-dev binutils-x86-64-linux-gnu bsdextrautils cmake cmake-data cpp-10-x86-64-linux-gnu cpp-x86-64-linux-gnu cross-config crossbuild-essential-amd64 debhelper dh-autoreconf dh-strip-nondeterminism dpkg-cross dwz file g++-10-x86-64-linux-gnu g++-x86-64-linux-gnu gcc-10-base:amd64 gcc-10-cross-base gcc-10-x86-64-linux-gnu gcc-10-x86-64-linux-gnu-base gcc-11-base:amd64 gcc-11-cross-base gcc-x86-64-linux-gnu gettext gettext-base groff-base hdf5-helpers:amd64 intltool-debian libaec-dev:amd64 libaec0:amd64 libarchive-zip-perl libarchive13 libarmadillo-dev:amd64 libarmadillo10:amd64 libarpack2:amd64 libarpack2-dev:amd64 libasan6:amd64 libasan6-amd64-cross libatomic1:amd64 libatomic1-amd64-cross libbamtools-dev:amd64 libbamtools2.5.1:amd64 libblas-dev:amd64 libblas3:amd64 libboost-math-dev:amd64 libboost-math1.74-dev:amd64 libboost-math1.74.0:amd64 libboost1.74-dev:amd64 libbrotli1 libc6:amd64 libc6-amd64-cross libc6-dev:amd64 libc6-dev-amd64-cross libcom-err2:amd64 libconfig-auto-perl libconfig-inifiles-perl libcrypt-dev:amd64 libcrypt1:amd64 libcurl4 libdebhelper-perl libdebian-dpkgcross-perl libdisorder-dev:amd64 libdisorder0:amd64 libelf1 libexpat1 libfile-homedir-perl libfile-stripnondeterminism-perl libfile-which-perl libgcc-10-dev:amd64 libgcc-10-dev-amd64-cross libgcc-s1:amd64 libgcc-s1-amd64-cross libgfortran5:amd64 libgomp1:amd64 libgomp1-amd64-cross libgssapi-krb5-2:amd64 libhdf5-103-1:amd64 libhdf5-cpp-103-1:amd64 libhdf5-dev:amd64 libhdf5-fortran-102:amd64 libhdf5-hl-100:amd64 libhdf5-hl-cpp-100:amd64 libhdf5-hl-fortran-100:amd64 libicu67 libio-string-perl libitm1:amd64 libitm1-amd64-cross libjpeg-dev:amd64 libjpeg62-turbo:amd64 libjpeg62-turbo-dev:amd64 libjsoncpp-dev:amd64 libjsoncpp24 libjsoncpp24:amd64 libk5crypto3:amd64 libkeyutils1:amd64 libkrb5-3:amd64 libkrb5support0:amd64 liblapack-dev:amd64 liblapack3:amd64 libldap-2.4-2 liblocale-gettext-perl liblsan0:amd64 liblsan0-amd64-cross libmagic-mgc libmagic1 libncurses6 libncursesw6 libnghttp2-14 libnsl-dev:amd64 libnsl2:amd64 libpipeline1 libprocps8 libpsl5 libquadmath0:amd64 libquadmath0-amd64-cross librhash0 librtmp1 libsasl2-2 libsasl2-modules-db libsigsegv2 libsmithwaterman-dev:amd64 libsmithwaterman0:amd64 libssh2-1 libssl1.1:amd64 libstdc++-10-dev:amd64 libstdc++-10-dev-amd64-cross libstdc++6:amd64 libstdc++6-amd64-cross libsub-override-perl libsuperlu-dev:amd64 libsuperlu5:amd64 libsz2:amd64 libtirpc-dev:amd64 libtirpc3:amd64 libtool libtsan0:amd64 libtsan0-amd64-cross libubsan1:amd64 libubsan1-amd64-cross libuchardet0 libuv1 libxml-libxml-perl libxml-namespacesupport-perl libxml-sax-base-perl libxml-sax-perl libxml-simple-perl libxml2 libyaml-perl linux-libc-dev:amd64 linux-libc-dev-amd64-cross m4 man-db po-debconf procps sensible-utils ucf zlib1g:amd64 zlib1g-dev:amd64 Suggested packages: autoconf-archive gnu-standards autoconf-doc binutils-doc cmake-doc ninja-build gcc-10-locales cpp-doc dh-make binutils-multiarch g++-10-multilib-x86-64-linux-gnu gcc-10-doc gcc-10-multilib-x86-64-linux-gnu manpages-dev flex bison gdb-x86-64-linux-gnu gcc-doc gettext-doc libasprintf-dev libgettextpo-dev groff lrzip libitpp-dev:amd64 libbamtools-doc:amd64 liblapack-doc:amd64 libboost1.74-doc:amd64 libboost-atomic1.74-dev:amd64 libboost-chrono1.74-dev:amd64 libboost-container1.74-dev:amd64 libboost-context1.74-dev:amd64 libboost-contract1.74-dev:amd64 libboost-coroutine1.74-dev:amd64 libboost-date-time1.74-dev:amd64 libboost-exception1.74-dev:amd64 libboost-fiber1.74-dev:amd64 libboost-filesystem1.74-dev:amd64 libboost-graph1.74-dev:amd64 libboost-graph-parallel1.74-dev:amd64 libboost-iostreams1.74-dev:amd64 libboost-locale1.74-dev:amd64 libboost-log1.74-dev:amd64 libboost-mpi1.74-dev:amd64 libboost-mpi-python1.74-dev:amd64 libboost-numpy1.74-dev:amd64 libboost-program-options1.74-dev:amd64 libboost-python1.74-dev:amd64 libboost-random1.74-dev:amd64 libboost-regex1.74-dev:amd64 libboost-serialization1.74-dev:amd64 libboost-stacktrace1.74-dev:amd64 libboost-system1.74-dev:amd64 libboost-test1.74-dev:amd64 libboost-thread1.74-dev:amd64 libboost-timer1.74-dev:amd64 libboost-type-erasure1.74-dev:amd64 libboost-wave1.74-dev:amd64 libboost1.74-tools-dev:amd64 libmpfrc++-dev:amd64 libntl-dev:amd64 libboost-nowide1.74-dev:amd64 glibc-doc:amd64 libc-l10n:amd64 locales:amd64 libnss-nis:amd64 libnss-nisplus:amd64 manpages-dev:amd64 krb5-doc:amd64 krb5-user:amd64 libhdf5-doc:amd64 libstdc++-10-doc:amd64 libsuperlu-doc:amd64 libtool-doc gfortran | fortran95-compiler gcj-jdk libyaml-shell-perl m4-doc apparmor less www-browser libmail-box-perl Recommended packages: curl | wget | lynx libidn2-0:amd64 ca-certificates libarchive-cpio-perl krb5-locales:amd64 libldap-common libgpm2 publicsuffix libsasl2-modules libltdl-dev libwww-perl libxml-sax-expat-perl libyaml-libyaml-perl | libyaml-syck-perl libmail-sendmail-perl psmisc The following NEW packages will be installed: autoconf automake autopoint autotools-dev binutils-x86-64-linux-gnu bsdextrautils cmake cmake-data cpp-10-x86-64-linux-gnu cpp-x86-64-linux-gnu cross-config crossbuild-essential-amd64 debhelper dh-autoreconf dh-strip-nondeterminism dpkg-cross dwz file g++-10-x86-64-linux-gnu g++-x86-64-linux-gnu gcc-10-base:amd64 gcc-10-cross-base gcc-10-x86-64-linux-gnu gcc-10-x86-64-linux-gnu-base gcc-11-base:amd64 gcc-11-cross-base gcc-x86-64-linux-gnu gettext gettext-base groff-base hdf5-helpers:amd64 intltool-debian libaec-dev:amd64 libaec0:amd64 libarchive-zip-perl libarchive13 libarmadillo-dev:amd64 libarmadillo10:amd64 libarpack2:amd64 libarpack2-dev:amd64 libasan6:amd64 libasan6-amd64-cross libatomic1:amd64 libatomic1-amd64-cross libbamtools-dev:amd64 libbamtools2.5.1:amd64 libblas-dev:amd64 libblas3:amd64 libboost-math-dev:amd64 libboost-math1.74-dev:amd64 libboost-math1.74.0:amd64 libboost1.74-dev:amd64 libbrotli1 libc6:amd64 libc6-amd64-cross libc6-dev:amd64 libc6-dev-amd64-cross libcom-err2:amd64 libconfig-auto-perl libconfig-inifiles-perl libcrypt-dev:amd64 libcrypt1:amd64 libcurl4 libdebhelper-perl libdebian-dpkgcross-perl libdisorder-dev:amd64 libdisorder0:amd64 libelf1 libexpat1 libfile-homedir-perl libfile-stripnondeterminism-perl libfile-which-perl libgcc-10-dev:amd64 libgcc-10-dev-amd64-cross libgcc-s1:amd64 libgcc-s1-amd64-cross libgfortran5:amd64 libgomp1:amd64 libgomp1-amd64-cross libgssapi-krb5-2:amd64 libhdf5-103-1:amd64 libhdf5-cpp-103-1:amd64 libhdf5-dev:amd64 libhdf5-fortran-102:amd64 libhdf5-hl-100:amd64 libhdf5-hl-cpp-100:amd64 libhdf5-hl-fortran-100:amd64 libicu67 libio-string-perl libitm1:amd64 libitm1-amd64-cross libjpeg-dev:amd64 libjpeg62-turbo:amd64 libjpeg62-turbo-dev:amd64 libjsoncpp-dev:amd64 libjsoncpp24 libjsoncpp24:amd64 libk5crypto3:amd64 libkeyutils1:amd64 libkrb5-3:amd64 libkrb5support0:amd64 liblapack-dev:amd64 liblapack3:amd64 libldap-2.4-2 liblocale-gettext-perl liblsan0:amd64 liblsan0-amd64-cross libmagic-mgc libmagic1 libncurses6 libncursesw6 libnghttp2-14 libnsl-dev:amd64 libnsl2:amd64 libpipeline1 libprocps8 libpsl5 libquadmath0:amd64 libquadmath0-amd64-cross librhash0 librtmp1 libsasl2-2 libsasl2-modules-db libsigsegv2 libsmithwaterman-dev:amd64 libsmithwaterman0:amd64 libssh2-1 libssl1.1:amd64 libstdc++-10-dev:amd64 libstdc++-10-dev-amd64-cross libstdc++6:amd64 libstdc++6-amd64-cross libsub-override-perl libsuperlu-dev:amd64 libsuperlu5:amd64 libsz2:amd64 libtirpc-dev:amd64 libtirpc3:amd64 libtool libtsan0:amd64 libtsan0-amd64-cross libubsan1:amd64 libubsan1-amd64-cross libuchardet0 libuv1 libxml-libxml-perl libxml-namespacesupport-perl libxml-sax-base-perl libxml-sax-perl libxml-simple-perl libxml2 libyaml-perl linux-libc-dev:amd64 linux-libc-dev-amd64-cross m4 man-db po-debconf procps sbuild-build-depends-main-dummy:amd64 sensible-utils ucf zlib1g:amd64 zlib1g-dev:amd64 0 upgraded, 163 newly installed, 0 to remove and 0 not upgraded. Need to get 239 MB of archives. After this operation, 1196 MB of additional disk space will be used. Get:1 copy:/<>/apt_archive ./ sbuild-build-depends-main-dummy 0.invalid.0 [960 B] Get:2 http://mirror.einval.org/debian sid/main arm64 bsdextrautils arm64 2.37.2-1 [143 kB] Get:3 http://mirror.einval.org/debian sid/main arm64 libuchardet0 arm64 0.0.7-1 [67.9 kB] Get:4 http://mirror.einval.org/debian sid/main arm64 groff-base arm64 1.22.4-6 [883 kB] Get:5 http://mirror.einval.org/debian sid/main arm64 libpipeline1 arm64 1.5.3-1 [33.0 kB] Get:6 http://mirror.einval.org/debian sid/main arm64 man-db arm64 2.9.4-2 [1336 kB] Get:7 http://mirror.einval.org/debian sid/main arm64 liblocale-gettext-perl arm64 1.07-4+b1 [18.9 kB] Get:8 http://mirror.einval.org/debian sid/main amd64 gcc-10-base amd64 10.2.1-6 [201 kB] Get:9 http://mirror.einval.org/debian sid/main amd64 gcc-11-base amd64 11.2.0-2 [204 kB] Get:10 http://mirror.einval.org/debian sid/main arm64 libncurses6 arm64 6.2+20201114-2 [93.2 kB] Get:11 http://mirror.einval.org/debian sid/main arm64 libncursesw6 arm64 6.2+20201114-2 [121 kB] Get:12 http://mirror.einval.org/debian sid/main arm64 libprocps8 arm64 2:3.3.17-5 [61.9 kB] Get:13 http://mirror.einval.org/debian sid/main arm64 procps arm64 2:3.3.17-5 [497 kB] Get:14 http://mirror.einval.org/debian sid/main arm64 sensible-utils all 0.0.14 [14.8 kB] Get:15 http://mirror.einval.org/debian sid/main arm64 libmagic-mgc arm64 1:5.39-3 [273 kB] Get:16 http://mirror.einval.org/debian sid/main arm64 libmagic1 arm64 1:5.39-3 [121 kB] Get:17 http://mirror.einval.org/debian sid/main arm64 file arm64 1:5.39-3 [69.1 kB] Get:18 http://mirror.einval.org/debian sid/main arm64 gettext-base arm64 0.21-4 [173 kB] Get:19 http://mirror.einval.org/debian sid/main arm64 ucf all 3.0043 [74.0 kB] Get:20 http://mirror.einval.org/debian sid/main arm64 libsigsegv2 arm64 2.13-1 [34.7 kB] Get:21 http://mirror.einval.org/debian sid/main arm64 m4 arm64 1.4.18-5 [199 kB] Get:22 http://mirror.einval.org/debian sid/main arm64 autoconf all 2.69-14 [313 kB] Get:23 http://mirror.einval.org/debian sid/main arm64 autotools-dev all 20180224.1+nmu1 [77.1 kB] Get:24 http://mirror.einval.org/debian sid/main arm64 automake all 1:1.16.4-1 [819 kB] Get:25 http://mirror.einval.org/debian sid/main arm64 autopoint all 0.21-4 [510 kB] Get:26 http://mirror.einval.org/debian sid/main arm64 cmake-data all 3.18.4-2 [1725 kB] Get:27 http://mirror.einval.org/debian sid/main arm64 libicu67 arm64 67.1-7 [8467 kB] Get:28 http://mirror.einval.org/debian sid/main arm64 libxml2 arm64 2.9.10+dfsg-6.7 [629 kB] Get:29 http://mirror.einval.org/debian sid/main arm64 libarchive13 arm64 3.4.3-2+b1 [320 kB] Get:30 http://mirror.einval.org/debian sid/main arm64 libbrotli1 arm64 1.0.9-2+b2 [267 kB] Get:31 http://mirror.einval.org/debian sid/main arm64 libsasl2-modules-db arm64 2.1.27+dfsg-2.1 [69.3 kB] Get:32 http://mirror.einval.org/debian sid/main arm64 libsasl2-2 arm64 2.1.27+dfsg-2.1 [105 kB] Get:33 http://mirror.einval.org/debian sid/main arm64 libldap-2.4-2 arm64 2.4.57+dfsg-3 [222 kB] Get:34 http://mirror.einval.org/debian sid/main arm64 libnghttp2-14 arm64 1.43.0-1 [73.8 kB] Get:35 http://mirror.einval.org/debian sid/main arm64 libpsl5 arm64 0.21.0-1.2 [57.1 kB] Get:36 http://mirror.einval.org/debian sid/main arm64 librtmp1 arm64 2.4+20151223.gitfa8646d.1-2+b2 [59.4 kB] Get:37 http://mirror.einval.org/debian sid/main arm64 libssh2-1 arm64 1.9.0-3 [162 kB] Get:38 http://mirror.einval.org/debian sid/main arm64 libcurl4 arm64 7.74.0-1.3+b1 [321 kB] Get:39 http://mirror.einval.org/debian sid/main arm64 libexpat1 arm64 2.2.10-2 [83.1 kB] Get:40 http://mirror.einval.org/debian sid/main arm64 libjsoncpp24 arm64 1.9.4-4 [72.5 kB] Get:41 http://mirror.einval.org/debian sid/main arm64 librhash0 arm64 1.4.1-2 [127 kB] Get:42 http://mirror.einval.org/debian sid/main arm64 libuv1 arm64 1.40.0-2 [126 kB] Get:43 http://mirror.einval.org/debian sid/main arm64 cmake arm64 3.18.4-2 [3673 kB] Get:44 http://mirror.einval.org/debian sid/main arm64 gcc-10-x86-64-linux-gnu-base arm64 10.2.1-6cross1 [202 kB] Get:45 http://mirror.einval.org/debian sid/main arm64 cpp-10-x86-64-linux-gnu arm64 10.2.1-6cross1 [46.2 MB] Get:46 http://mirror.einval.org/debian sid/main arm64 cpp-x86-64-linux-gnu arm64 4:10.2.1-1 [16.8 kB] Get:47 http://mirror.einval.org/debian sid/main arm64 cross-config all 2.6.18+nmu1 [31.5 kB] Get:48 http://mirror.einval.org/debian sid/main arm64 binutils-x86-64-linux-gnu arm64 2.37-4 [2047 kB] Get:49 http://mirror.einval.org/debian sid/main arm64 gcc-10-cross-base all 10.2.1-6cross1 [197 kB] Get:50 http://mirror.einval.org/debian sid/main arm64 gcc-11-cross-base all 11.2.0-2cross1 [200 kB] Get:51 http://mirror.einval.org/debian sid/main arm64 libgcc-s1-amd64-cross all 11.2.0-2cross1 [42.0 kB] Get:52 http://mirror.einval.org/debian sid/main arm64 libgomp1-amd64-cross all 11.2.0-2cross1 [104 kB] Get:53 http://mirror.einval.org/debian sid/main arm64 libitm1-amd64-cross all 11.2.0-2cross1 [25.5 kB] Get:54 http://mirror.einval.org/debian sid/main arm64 libatomic1-amd64-cross all 11.2.0-2cross1 [8780 B] Get:55 http://mirror.einval.org/debian sid/main arm64 libasan6-amd64-cross all 11.2.0-2cross1 [2135 kB] Get:56 http://mirror.einval.org/debian sid/main arm64 liblsan0-amd64-cross all 11.2.0-2cross1 [887 kB] Get:57 http://mirror.einval.org/debian sid/main arm64 libtsan0-amd64-cross all 11.2.0-2cross1 [2075 kB] Get:58 http://mirror.einval.org/debian sid/main arm64 libc6-amd64-cross all 2.31-9cross4 [1568 kB] Get:59 http://mirror.einval.org/debian sid/main arm64 libstdc++6-amd64-cross all 11.2.0-2cross1 [535 kB] Get:60 http://mirror.einval.org/debian sid/main arm64 libubsan1-amd64-cross all 11.2.0-2cross1 [838 kB] Get:61 http://mirror.einval.org/debian sid/main arm64 libquadmath0-amd64-cross all 11.2.0-2cross1 [145 kB] Get:62 http://mirror.einval.org/debian sid/main arm64 libgcc-10-dev-amd64-cross all 10.2.1-6cross1 [2326 kB] Get:63 http://mirror.einval.org/debian sid/main arm64 gcc-10-x86-64-linux-gnu arm64 10.2.1-6cross1 [52.2 MB] Get:64 http://mirror.einval.org/debian sid/main arm64 gcc-x86-64-linux-gnu arm64 4:10.2.1-1 [1460 B] Get:65 http://mirror.einval.org/debian sid/main arm64 linux-libc-dev-amd64-cross all 5.10.13-1cross4 [1396 kB] Get:66 http://mirror.einval.org/debian sid/main arm64 libc6-dev-amd64-cross all 2.31-9cross4 [2344 kB] Get:67 http://mirror.einval.org/debian sid/main arm64 libstdc++-10-dev-amd64-cross all 10.2.1-6cross1 [1723 kB] Get:68 http://mirror.einval.org/debian sid/main arm64 g++-10-x86-64-linux-gnu arm64 10.2.1-6cross1 [49.2 MB] Get:69 http://mirror.einval.org/debian sid/main arm64 g++-x86-64-linux-gnu arm64 4:10.2.1-1 [1180 B] Get:70 http://mirror.einval.org/debian sid/main arm64 libconfig-inifiles-perl all 3.000003-1 [52.1 kB] Get:71 http://mirror.einval.org/debian sid/main arm64 libio-string-perl all 1.08-3.1 [11.8 kB] Get:72 http://mirror.einval.org/debian sid/main arm64 libxml-namespacesupport-perl all 1.12-1.1 [14.9 kB] Get:73 http://mirror.einval.org/debian sid/main arm64 libxml-sax-base-perl all 1.09-1.1 [20.7 kB] Get:74 http://mirror.einval.org/debian sid/main arm64 libxml-sax-perl all 1.02+dfsg-1 [59.0 kB] Get:75 http://mirror.einval.org/debian sid/main arm64 libxml-libxml-perl arm64 2.0134+dfsg-2+b1 [326 kB] Get:76 http://mirror.einval.org/debian sid/main arm64 libxml-simple-perl all 2.25-1 [72.0 kB] Get:77 http://mirror.einval.org/debian sid/main arm64 libyaml-perl all 1.30-1 [67.7 kB] Get:78 http://mirror.einval.org/debian sid/main arm64 libconfig-auto-perl all 0.44-1.1 [19.0 kB] Get:79 http://mirror.einval.org/debian sid/main arm64 libfile-which-perl all 1.23-1 [16.6 kB] Get:80 http://mirror.einval.org/debian sid/main arm64 libfile-homedir-perl all 1.006-1 [43.8 kB] Get:81 http://mirror.einval.org/debian sid/main arm64 libdebian-dpkgcross-perl all 2.6.18+nmu1 [30.5 kB] Get:82 http://mirror.einval.org/debian sid/main arm64 dpkg-cross all 2.6.18+nmu1 [41.6 kB] Get:83 http://mirror.einval.org/debian sid/main arm64 crossbuild-essential-amd64 all 12.9 [6708 B] Get:84 http://mirror.einval.org/debian sid/main arm64 libdebhelper-perl all 13.4.1 [191 kB] Get:85 http://mirror.einval.org/debian sid/main arm64 libtool all 2.4.6-15 [513 kB] Get:86 http://mirror.einval.org/debian sid/main arm64 dh-autoreconf all 20 [17.1 kB] Get:87 http://mirror.einval.org/debian sid/main arm64 libarchive-zip-perl all 1.68-1 [104 kB] Get:88 http://mirror.einval.org/debian sid/main arm64 libsub-override-perl all 0.09-2 [10.2 kB] Get:89 http://mirror.einval.org/debian sid/main arm64 libfile-stripnondeterminism-perl all 1.12.0-1 [26.3 kB] Get:90 http://mirror.einval.org/debian sid/main arm64 dh-strip-nondeterminism all 1.12.0-1 [15.4 kB] Get:91 http://mirror.einval.org/debian sid/main arm64 libelf1 arm64 0.185-2 [171 kB] Get:92 http://mirror.einval.org/debian sid/main arm64 dwz arm64 0.14-1 [90.0 kB] Get:93 http://mirror.einval.org/debian sid/main arm64 gettext arm64 0.21-4 [1261 kB] Get:94 http://mirror.einval.org/debian sid/main arm64 intltool-debian all 0.35.0+20060710.5 [26.8 kB] Get:95 http://mirror.einval.org/debian sid/main arm64 po-debconf all 1.0.21+nmu1 [248 kB] Get:96 http://mirror.einval.org/debian sid/main arm64 debhelper all 13.4.1 [1039 kB] Get:97 http://mirror.einval.org/debian sid/main amd64 hdf5-helpers amd64 1.10.6+repack-5 [40.4 kB] Get:98 http://mirror.einval.org/debian sid/main amd64 libgcc-s1 amd64 11.2.0-2 [42.0 kB] Get:99 http://mirror.einval.org/debian sid/main amd64 libc6 amd64 2.31-16 [2817 kB] Get:100 http://mirror.einval.org/debian sid/main amd64 libaec0 amd64 1.0.5-2 [20.3 kB] Get:101 http://mirror.einval.org/debian sid/main amd64 libsz2 amd64 1.0.5-2 [7384 B] Get:102 http://mirror.einval.org/debian sid/main amd64 libaec-dev amd64 1.0.5-2 [18.9 kB] Get:103 http://mirror.einval.org/debian sid/main amd64 libblas3 amd64 3.9.0-3 [153 kB] Get:104 http://mirror.einval.org/debian sid/main amd64 libquadmath0 amd64 11.2.0-2 [144 kB] Get:105 http://mirror.einval.org/debian sid/main amd64 libgfortran5 amd64 11.2.0-2 [710 kB] Get:106 http://mirror.einval.org/debian sid/main amd64 liblapack3 amd64 3.9.0-3 [2166 kB] Get:107 http://mirror.einval.org/debian sid/main amd64 libarpack2 amd64 3.8.0-1 [103 kB] Get:108 http://mirror.einval.org/debian sid/main amd64 libstdc++6 amd64 11.2.0-2 [576 kB] Get:109 http://mirror.einval.org/debian sid/main amd64 libsuperlu5 amd64 5.2.2+dfsg1-2 [163 kB] Get:110 http://mirror.einval.org/debian sid/main amd64 libarmadillo10 amd64 1:10.1.2+dfsg-6+b1 [98.8 kB] Get:111 http://mirror.einval.org/debian sid/main amd64 libblas-dev amd64 3.9.0-3 [161 kB] Get:112 http://mirror.einval.org/debian sid/main amd64 liblapack-dev amd64 3.9.0-3 [4247 kB] Get:113 http://mirror.einval.org/debian sid/main amd64 libarpack2-dev amd64 3.8.0-1 [117 kB] Get:114 http://mirror.einval.org/debian sid/main amd64 zlib1g amd64 1:1.2.11.dfsg-2 [90.4 kB] Get:115 http://mirror.einval.org/debian sid/main amd64 libhdf5-103-1 amd64 1.10.6+repack-5 [1188 kB] Get:116 http://mirror.einval.org/debian sid/main amd64 libhdf5-fortran-102 amd64 1.10.6+repack-5 [105 kB] Get:117 http://mirror.einval.org/debian sid/main amd64 libhdf5-hl-100 amd64 1.10.6+repack-5 [81.7 kB] Get:118 http://mirror.einval.org/debian sid/main amd64 libhdf5-hl-fortran-100 amd64 1.10.6+repack-5 [56.7 kB] Get:119 http://mirror.einval.org/debian sid/main amd64 libhdf5-cpp-103-1 amd64 1.10.6+repack-5 [141 kB] Get:120 http://mirror.einval.org/debian sid/main amd64 libhdf5-hl-cpp-100 amd64 1.10.6+repack-5 [37.7 kB] Get:121 http://mirror.einval.org/debian sid/main amd64 linux-libc-dev amd64 5.10.46-4 [1362 kB] Get:122 http://mirror.einval.org/debian sid/main amd64 libcrypt1 amd64 1:4.4.25-1 [89.1 kB] Get:123 http://mirror.einval.org/debian sid/main amd64 libcrypt-dev amd64 1:4.4.25-1 [104 kB] Get:124 http://mirror.einval.org/debian sid/main amd64 libcom-err2 amd64 1.46.4-1 [75.2 kB] Get:125 http://mirror.einval.org/debian sid/main amd64 libkrb5support0 amd64 1.18.3-6 [65.3 kB] Get:126 http://mirror.einval.org/debian sid/main amd64 libk5crypto3 amd64 1.18.3-6 [113 kB] Get:127 http://mirror.einval.org/debian sid/main amd64 libkeyutils1 amd64 1.6.1-2 [15.4 kB] Get:128 http://mirror.einval.org/debian sid/main amd64 libssl1.1 amd64 1.1.1k-1 [1553 kB] Get:129 http://mirror.einval.org/debian sid/main amd64 libkrb5-3 amd64 1.18.3-6 [363 kB] Get:130 http://mirror.einval.org/debian sid/main amd64 libgssapi-krb5-2 amd64 1.18.3-6 [165 kB] Get:131 http://mirror.einval.org/debian sid/main amd64 libtirpc3 amd64 1.3.2-2 [83.9 kB] Get:132 http://mirror.einval.org/debian sid/main amd64 libnsl2 amd64 1.3.0-2 [39.5 kB] Get:133 http://mirror.einval.org/debian sid/main amd64 libtirpc-dev amd64 1.3.2-2 [190 kB] Get:134 http://mirror.einval.org/debian sid/main amd64 libnsl-dev amd64 1.3.0-2 [66.4 kB] Get:135 http://mirror.einval.org/debian sid/main amd64 libc6-dev amd64 2.31-16 [2254 kB] Get:136 http://mirror.einval.org/debian sid/main amd64 zlib1g-dev amd64 1:1.2.11.dfsg-2 [190 kB] Get:137 http://mirror.einval.org/debian sid/main amd64 libjpeg62-turbo amd64 1:2.0.6-4 [151 kB] Get:138 http://mirror.einval.org/debian sid/main amd64 libjpeg62-turbo-dev amd64 1:2.0.6-4 [278 kB] Get:139 http://mirror.einval.org/debian sid/main amd64 libjpeg-dev amd64 1:2.0.6-4 [67.8 kB] Get:140 http://mirror.einval.org/debian sid/main amd64 libhdf5-dev amd64 1.10.6+repack-5 [2440 kB] Get:141 http://mirror.einval.org/debian sid/main amd64 libsuperlu-dev amd64 5.2.2+dfsg1-2 [21.4 kB] Get:142 http://mirror.einval.org/debian sid/main amd64 libarmadillo-dev amd64 1:10.1.2+dfsg-6+b1 [387 kB] Get:143 http://mirror.einval.org/debian sid/main amd64 libasan6 amd64 11.2.0-2 [2138 kB] Get:144 http://mirror.einval.org/debian sid/main amd64 libatomic1 amd64 11.2.0-2 [9060 B] Get:145 http://mirror.einval.org/debian sid/main amd64 libbamtools2.5.1 amd64 2.5.1+dfsg-9 [158 kB] Get:146 http://mirror.einval.org/debian sid/main amd64 libbamtools-dev amd64 2.5.1+dfsg-9 [208 kB] Get:147 http://mirror.einval.org/debian sid/main amd64 libgomp1 amd64 11.2.0-2 [106 kB] Get:148 http://mirror.einval.org/debian sid/main amd64 libitm1 amd64 11.2.0-2 [26.0 kB] Get:149 http://mirror.einval.org/debian sid/main amd64 liblsan0 amd64 11.2.0-2 [888 kB] Get:150 http://mirror.einval.org/debian sid/main amd64 libtsan0 amd64 11.2.0-2 [2082 kB] Get:151 http://mirror.einval.org/debian sid/main amd64 libubsan1 amd64 11.2.0-2 [839 kB] Get:152 http://mirror.einval.org/debian sid/main amd64 libgcc-10-dev amd64 10.2.1-6 [2328 kB] Get:153 http://mirror.einval.org/debian sid/main amd64 libstdc++-10-dev amd64 10.2.1-6 [1741 kB] Get:154 http://mirror.einval.org/debian sid/main amd64 libboost1.74-dev amd64 1.74.0-9 [9534 kB] Get:155 http://mirror.einval.org/debian sid/main amd64 libboost-math1.74.0 amd64 1.74.0-9 [521 kB] Get:156 http://mirror.einval.org/debian sid/main amd64 libboost-math1.74-dev amd64 1.74.0-9 [599 kB] Get:157 http://mirror.einval.org/debian sid/main amd64 libboost-math-dev amd64 1.74.0.3 [4532 B] Get:158 http://mirror.einval.org/debian sid/main amd64 libdisorder0 amd64 0.0.2+git20130809.8062ee1-3 [4488 B] Get:159 http://mirror.einval.org/debian sid/main amd64 libdisorder-dev amd64 0.0.2+git20130809.8062ee1-3 [4492 B] Get:160 http://mirror.einval.org/debian sid/main amd64 libjsoncpp24 amd64 1.9.4-4 [78.9 kB] Get:161 http://mirror.einval.org/debian sid/main amd64 libjsoncpp-dev amd64 1.9.4-4 [25.4 kB] Get:162 http://mirror.einval.org/debian sid/main amd64 libsmithwaterman0 amd64 0.0+git20160702.2610e25-11 [36.2 kB] Get:163 http://mirror.einval.org/debian sid/main amd64 libsmithwaterman-dev amd64 0.0+git20160702.2610e25-11 [39.1 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 239 MB in 3s (69.6 MB/s) Selecting previously unselected package bsdextrautils. (Reading database ... 12270 files and directories currently installed.) Preparing to unpack .../000-bsdextrautils_2.37.2-1_arm64.deb ... Unpacking bsdextrautils (2.37.2-1) ... Selecting previously unselected package libuchardet0:arm64. Preparing to unpack .../001-libuchardet0_0.0.7-1_arm64.deb ... Unpacking libuchardet0:arm64 (0.0.7-1) ... Selecting previously unselected package groff-base. Preparing to unpack .../002-groff-base_1.22.4-6_arm64.deb ... Unpacking groff-base (1.22.4-6) ... Selecting previously unselected package libpipeline1:arm64. Preparing to unpack .../003-libpipeline1_1.5.3-1_arm64.deb ... Unpacking libpipeline1:arm64 (1.5.3-1) ... Selecting previously unselected package man-db. Preparing to unpack .../004-man-db_2.9.4-2_arm64.deb ... Unpacking man-db (2.9.4-2) ... Selecting previously unselected package liblocale-gettext-perl. Preparing to unpack .../005-liblocale-gettext-perl_1.07-4+b1_arm64.deb ... Unpacking liblocale-gettext-perl (1.07-4+b1) ... Selecting previously unselected package gcc-10-base:amd64. Preparing to unpack .../006-gcc-10-base_10.2.1-6_amd64.deb ... Unpacking gcc-10-base:amd64 (10.2.1-6) ... Selecting previously unselected package gcc-11-base:amd64. Preparing to unpack .../007-gcc-11-base_11.2.0-2_amd64.deb ... Unpacking gcc-11-base:amd64 (11.2.0-2) ... Selecting previously unselected package libncurses6:arm64. Preparing to unpack .../008-libncurses6_6.2+20201114-2_arm64.deb ... Unpacking libncurses6:arm64 (6.2+20201114-2) ... Selecting previously unselected package libncursesw6:arm64. Preparing to unpack .../009-libncursesw6_6.2+20201114-2_arm64.deb ... Unpacking libncursesw6:arm64 (6.2+20201114-2) ... Selecting previously unselected package libprocps8:arm64. Preparing to unpack .../010-libprocps8_2%3a3.3.17-5_arm64.deb ... Unpacking libprocps8:arm64 (2:3.3.17-5) ... Selecting previously unselected package procps. Preparing to unpack .../011-procps_2%3a3.3.17-5_arm64.deb ... Unpacking procps (2:3.3.17-5) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../012-sensible-utils_0.0.14_all.deb ... Unpacking sensible-utils (0.0.14) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../013-libmagic-mgc_1%3a5.39-3_arm64.deb ... Unpacking libmagic-mgc (1:5.39-3) ... Selecting previously unselected package libmagic1:arm64. Preparing to unpack .../014-libmagic1_1%3a5.39-3_arm64.deb ... Unpacking libmagic1:arm64 (1:5.39-3) ... Selecting previously unselected package file. Preparing to unpack .../015-file_1%3a5.39-3_arm64.deb ... Unpacking file (1:5.39-3) ... Selecting previously unselected package gettext-base. Preparing to unpack .../016-gettext-base_0.21-4_arm64.deb ... Unpacking gettext-base (0.21-4) ... Selecting previously unselected package ucf. Preparing to unpack .../017-ucf_3.0043_all.deb ... Moving old data out of the way Unpacking ucf (3.0043) ... Selecting previously unselected package libsigsegv2:arm64. Preparing to unpack .../018-libsigsegv2_2.13-1_arm64.deb ... Unpacking libsigsegv2:arm64 (2.13-1) ... Selecting previously unselected package m4. Preparing to unpack .../019-m4_1.4.18-5_arm64.deb ... Unpacking m4 (1.4.18-5) ... Selecting previously unselected package autoconf. Preparing to unpack .../020-autoconf_2.69-14_all.deb ... Unpacking autoconf (2.69-14) ... Selecting previously unselected package autotools-dev. Preparing to unpack .../021-autotools-dev_20180224.1+nmu1_all.deb ... Unpacking autotools-dev (20180224.1+nmu1) ... Selecting previously unselected package automake. Preparing to unpack .../022-automake_1%3a1.16.4-1_all.deb ... Unpacking automake (1:1.16.4-1) ... Selecting previously unselected package autopoint. Preparing to unpack .../023-autopoint_0.21-4_all.deb ... Unpacking autopoint (0.21-4) ... Selecting previously unselected package cmake-data. Preparing to unpack .../024-cmake-data_3.18.4-2_all.deb ... Unpacking cmake-data (3.18.4-2) ... Selecting previously unselected package libicu67:arm64. Preparing to unpack .../025-libicu67_67.1-7_arm64.deb ... Unpacking libicu67:arm64 (67.1-7) ... Selecting previously unselected package libxml2:arm64. Preparing to unpack .../026-libxml2_2.9.10+dfsg-6.7_arm64.deb ... Unpacking libxml2:arm64 (2.9.10+dfsg-6.7) ... Selecting previously unselected package libarchive13:arm64. Preparing to unpack .../027-libarchive13_3.4.3-2+b1_arm64.deb ... Unpacking libarchive13:arm64 (3.4.3-2+b1) ... Selecting previously unselected package libbrotli1:arm64. Preparing to unpack .../028-libbrotli1_1.0.9-2+b2_arm64.deb ... Unpacking libbrotli1:arm64 (1.0.9-2+b2) ... Selecting previously unselected package libsasl2-modules-db:arm64. Preparing to unpack .../029-libsasl2-modules-db_2.1.27+dfsg-2.1_arm64.deb ... Unpacking libsasl2-modules-db:arm64 (2.1.27+dfsg-2.1) ... Selecting previously unselected package libsasl2-2:arm64. Preparing to unpack .../030-libsasl2-2_2.1.27+dfsg-2.1_arm64.deb ... Unpacking libsasl2-2:arm64 (2.1.27+dfsg-2.1) ... Selecting previously unselected package libldap-2.4-2:arm64. Preparing to unpack .../031-libldap-2.4-2_2.4.57+dfsg-3_arm64.deb ... Unpacking libldap-2.4-2:arm64 (2.4.57+dfsg-3) ... Selecting previously unselected package libnghttp2-14:arm64. Preparing to unpack .../032-libnghttp2-14_1.43.0-1_arm64.deb ... Unpacking libnghttp2-14:arm64 (1.43.0-1) ... Selecting previously unselected package libpsl5:arm64. Preparing to unpack .../033-libpsl5_0.21.0-1.2_arm64.deb ... Unpacking libpsl5:arm64 (0.21.0-1.2) ... Selecting previously unselected package librtmp1:arm64. Preparing to unpack .../034-librtmp1_2.4+20151223.gitfa8646d.1-2+b2_arm64.deb ... Unpacking librtmp1:arm64 (2.4+20151223.gitfa8646d.1-2+b2) ... Selecting previously unselected package libssh2-1:arm64. Preparing to unpack .../035-libssh2-1_1.9.0-3_arm64.deb ... Unpacking libssh2-1:arm64 (1.9.0-3) ... Selecting previously unselected package libcurl4:arm64. Preparing to unpack .../036-libcurl4_7.74.0-1.3+b1_arm64.deb ... Unpacking libcurl4:arm64 (7.74.0-1.3+b1) ... Selecting previously unselected package libexpat1:arm64. Preparing to unpack .../037-libexpat1_2.2.10-2_arm64.deb ... Unpacking libexpat1:arm64 (2.2.10-2) ... Selecting previously unselected package libjsoncpp24:arm64. Preparing to unpack .../038-libjsoncpp24_1.9.4-4_arm64.deb ... Unpacking libjsoncpp24:arm64 (1.9.4-4) ... Selecting previously unselected package librhash0:arm64. Preparing to unpack .../039-librhash0_1.4.1-2_arm64.deb ... Unpacking librhash0:arm64 (1.4.1-2) ... Selecting previously unselected package libuv1:arm64. Preparing to unpack .../040-libuv1_1.40.0-2_arm64.deb ... Unpacking libuv1:arm64 (1.40.0-2) ... Selecting previously unselected package cmake. Preparing to unpack .../041-cmake_3.18.4-2_arm64.deb ... Unpacking cmake (3.18.4-2) ... Selecting previously unselected package gcc-10-x86-64-linux-gnu-base:arm64. Preparing to unpack .../042-gcc-10-x86-64-linux-gnu-base_10.2.1-6cross1_arm64.deb ... Unpacking gcc-10-x86-64-linux-gnu-base:arm64 (10.2.1-6cross1) ... Selecting previously unselected package cpp-10-x86-64-linux-gnu. Preparing to unpack .../043-cpp-10-x86-64-linux-gnu_10.2.1-6cross1_arm64.deb ... Unpacking cpp-10-x86-64-linux-gnu (10.2.1-6cross1) ... Selecting previously unselected package cpp-x86-64-linux-gnu. Preparing to unpack .../044-cpp-x86-64-linux-gnu_4%3a10.2.1-1_arm64.deb ... Unpacking cpp-x86-64-linux-gnu (4:10.2.1-1) ... Selecting previously unselected package cross-config. Preparing to unpack .../045-cross-config_2.6.18+nmu1_all.deb ... Unpacking cross-config (2.6.18+nmu1) ... Selecting previously unselected package binutils-x86-64-linux-gnu. Preparing to unpack .../046-binutils-x86-64-linux-gnu_2.37-4_arm64.deb ... Unpacking binutils-x86-64-linux-gnu (2.37-4) ... Selecting previously unselected package gcc-10-cross-base. 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Unpacking sbuild-build-depends-main-dummy:amd64 (0.invalid.0) ... Setting up libconfig-inifiles-perl (3.000003-1) ... Setting up libexpat1:arm64 (2.2.10-2) ... Setting up libpipeline1:arm64 (1.5.3-1) ... Setting up gcc-11-base:amd64 (11.2.0-2) ... Setting up libfile-which-perl (1.23-1) ... Setting up libpsl5:arm64 (0.21.0-1.2) ... Setting up linux-libc-dev-amd64-cross (5.10.13-1cross4) ... Setting up bsdextrautils (2.37.2-1) ... update-alternatives: using /usr/bin/write.ul to provide /usr/bin/write (write) in auto mode Setting up hdf5-helpers:amd64 (1.10.6+repack-5) ... Setting up libicu67:arm64 (67.1-7) ... Setting up libmagic-mgc (1:5.39-3) ... Setting up libarchive-zip-perl (1.68-1) ... Setting up libdebhelper-perl (13.4.1) ... Setting up libbrotli1:arm64 (1.0.9-2+b2) ... Setting up libnghttp2-14:arm64 (1.43.0-1) ... Setting up libmagic1:arm64 (1:5.39-3) ... Setting up linux-libc-dev:amd64 (5.10.46-4) ... Setting up libxml-namespacesupport-perl (1.12-1.1) ... Setting up gettext-base (0.21-4) ... Setting up file (1:5.39-3) ... Setting up libyaml-perl (1.30-1) ... Setting up libsasl2-modules-db:arm64 (2.1.27+dfsg-2.1) ... Setting up libxml-sax-base-perl (1.09-1.1) ... Setting up libio-string-perl (1.08-3.1) ... Setting up gcc-10-base:amd64 (10.2.1-6) ... Setting up autotools-dev (20180224.1+nmu1) ... Setting up cross-config (2.6.18+nmu1) ... Setting up libuv1:arm64 (1.40.0-2) ... Setting up librtmp1:arm64 (2.4+20151223.gitfa8646d.1-2+b2) ... Setting up libncurses6:arm64 (6.2+20201114-2) ... Setting up libsigsegv2:arm64 (2.13-1) ... Setting up autopoint (0.21-4) ... Setting up libc6-amd64-cross (2.31-9cross4) ... Setting up libncursesw6:arm64 (6.2+20201114-2) ... Setting up gcc-10-cross-base (10.2.1-6cross1) ... Setting up libsasl2-2:arm64 (2.1.27+dfsg-2.1) ... Setting up libjsoncpp24:arm64 (1.9.4-4) ... Setting up gcc-11-cross-base (11.2.0-2cross1) ... Setting up sensible-utils (0.0.14) ... Setting up librhash0:arm64 (1.4.1-2) ... Setting up libuchardet0:arm64 (0.0.7-1) ... Setting up gcc-10-x86-64-linux-gnu-base:arm64 (10.2.1-6cross1) ... Setting up libsub-override-perl (0.09-2) ... Setting up libssh2-1:arm64 (1.9.0-3) ... Setting up cmake-data (3.18.4-2) ... Setting up libgcc-s1-amd64-cross (11.2.0-2cross1) ... Setting up libfile-homedir-perl (1.006-1) ... Setting up libelf1:arm64 (0.185-2) ... Setting up libxml2:arm64 (2.9.10+dfsg-6.7) ... Setting up liblocale-gettext-perl (1.07-4+b1) ... Setting up libprocps8:arm64 (2:3.3.17-5) ... Setting up libasan6-amd64-cross (11.2.0-2cross1) ... Setting up binutils-x86-64-linux-gnu (2.37-4) ... Setting up libstdc++6-amd64-cross (11.2.0-2cross1) ... Setting up libfile-stripnondeterminism-perl (1.12.0-1) ... Setting up gettext (0.21-4) ... Setting up libtool (2.4.6-15) ... Setting up libarchive13:arm64 (3.4.3-2+b1) ... Setting up liblsan0-amd64-cross (11.2.0-2cross1) ... Setting up libc6-dev-amd64-cross (2.31-9cross4) ... Setting up libtsan0-amd64-cross (11.2.0-2cross1) ... Setting up libldap-2.4-2:arm64 (2.4.57+dfsg-3) ... Setting up cpp-10-x86-64-linux-gnu (10.2.1-6cross1) ... Setting up m4 (1.4.18-5) ... Setting up libgomp1-amd64-cross (11.2.0-2cross1) ... Setting up intltool-debian (0.35.0+20060710.5) ... Setting up libitm1-amd64-cross (11.2.0-2cross1) ... Setting up libatomic1-amd64-cross (11.2.0-2cross1) ... Setting up libquadmath0-amd64-cross (11.2.0-2cross1) ... Setting up libubsan1-amd64-cross (11.2.0-2cross1) ... Setting up ucf (3.0043) ... Setting up autoconf (2.69-14) ... Setting up dh-strip-nondeterminism (1.12.0-1) ... Setting up dwz (0.14-1) ... Setting up groff-base (1.22.4-6) ... Setting up procps (2:3.3.17-5) ... Setting up libcurl4:arm64 (7.74.0-1.3+b1) ... Setting up cpp-x86-64-linux-gnu (4:10.2.1-1) ... Setting up automake (1:1.16.4-1) ... update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode Setting up libgcc-10-dev-amd64-cross (10.2.1-6cross1) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up man-db (2.9.4-2) ... Not building database; man-db/auto-update is not 'true'. Setting up libxml-sax-perl (1.02+dfsg-1) ... update-perl-sax-parsers: Registering Perl SAX parser XML::SAX::PurePerl with priority 10... update-perl-sax-parsers: Updating overall Perl SAX parser modules info file... Creating config file /etc/perl/XML/SAX/ParserDetails.ini with new version Setting up dh-autoreconf (20) ... Setting up libxml-libxml-perl (2.0134+dfsg-2+b1) ... update-perl-sax-parsers: Registering Perl SAX parser XML::LibXML::SAX::Parser with priority 50... update-perl-sax-parsers: Registering Perl SAX parser XML::LibXML::SAX with priority 50... update-perl-sax-parsers: Updating overall Perl SAX parser modules info file... Replacing config file /etc/perl/XML/SAX/ParserDetails.ini with new version Setting up cmake (3.18.4-2) ... Setting up gcc-10-x86-64-linux-gnu (10.2.1-6cross1) ... Setting up libstdc++-10-dev-amd64-cross (10.2.1-6cross1) ... Setting up gcc-x86-64-linux-gnu (4:10.2.1-1) ... Setting up debhelper (13.4.1) ... Setting up g++-10-x86-64-linux-gnu (10.2.1-6cross1) ... Setting up libxml-simple-perl (2.25-1) ... Setting up g++-x86-64-linux-gnu (4:10.2.1-1) ... Setting up libconfig-auto-perl (0.44-1.1) ... Setting up libdebian-dpkgcross-perl (2.6.18+nmu1) ... Setting up dpkg-cross (2.6.18+nmu1) ... Setting up crossbuild-essential-amd64 (12.9) ... Setting up libgcc-s1:amd64 (11.2.0-2) ... Setting up libc6:amd64 (2.31-16) ... Setting up libstdc++6:amd64 (11.2.0-2) ... Setting up liblsan0:amd64 (11.2.0-2) ... Setting up libitm1:amd64 (11.2.0-2) ... Setting up libtsan0:amd64 (11.2.0-2) ... Setting up libdisorder0:amd64 (0.0.2+git20130809.8062ee1-3) ... Setting up libkeyutils1:amd64 (1.6.1-2) ... Setting up libssl1.1:amd64 (1.1.1k-1) ... Setting up libsmithwaterman0:amd64 (0.0+git20160702.2610e25-11) ... Setting up zlib1g:amd64 (1:1.2.11.dfsg-2) ... Setting up libcrypt1:amd64 (1:4.4.25-1) ... Setting up libcom-err2:amd64 (1.46.4-1) ... Setting up libgomp1:amd64 (11.2.0-2) ... Setting up libaec0:amd64 (1.0.5-2) ... Setting up libasan6:amd64 (11.2.0-2) ... Setting up libkrb5support0:amd64 (1.18.3-6) ... Setting up libblas3:amd64 (3.9.0-3) ... update-alternatives: using /usr/lib/x86_64-linux-gnu/blas/libblas.so.3 to provide /usr/lib/x86_64-linux-gnu/libblas.so.3 (libblas.so.3-x86_64-linux-gnu) in auto mode Setting up libjpeg62-turbo:amd64 (1:2.0.6-4) ... Setting up libquadmath0:amd64 (11.2.0-2) ... Setting up libbamtools2.5.1:amd64 (2.5.1+dfsg-9) ... Setting up libatomic1:amd64 (11.2.0-2) ... Setting up libk5crypto3:amd64 (1.18.3-6) ... Setting up libdisorder-dev:amd64 (0.0.2+git20130809.8062ee1-3) ... Setting up libgfortran5:amd64 (11.2.0-2) ... Setting up libjsoncpp24:amd64 (1.9.4-4) ... Setting up libboost-math1.74.0:amd64 (1.74.0-9) ... Setting up libubsan1:amd64 (11.2.0-2) ... Setting up libcrypt-dev:amd64 (1:4.4.25-1) ... Setting up libkrb5-3:amd64 (1.18.3-6) ... Setting up libblas-dev:amd64 (3.9.0-3) ... update-alternatives: using /usr/lib/x86_64-linux-gnu/blas/libblas.so to provide /usr/lib/x86_64-linux-gnu/libblas.so (libblas.so-x86_64-linux-gnu) in auto mode Setting up libsz2:amd64 (1.0.5-2) ... Setting up libjsoncpp-dev:amd64 (1.9.4-4) ... Setting up liblapack3:amd64 (3.9.0-3) ... update-alternatives: using /usr/lib/x86_64-linux-gnu/lapack/liblapack.so.3 to provide /usr/lib/x86_64-linux-gnu/liblapack.so.3 (liblapack.so.3-x86_64-linux-gnu) in auto mode Setting up libgcc-10-dev:amd64 (10.2.1-6) ... Setting up libaec-dev:amd64 (1.0.5-2) ... Setting up libarpack2:amd64 (3.8.0-1) ... Setting up libsuperlu5:amd64 (5.2.2+dfsg1-2) ... Setting up libbamtools-dev:amd64 (2.5.1+dfsg-9) ... Setting up liblapack-dev:amd64 (3.9.0-3) ... update-alternatives: using /usr/lib/x86_64-linux-gnu/lapack/liblapack.so to provide /usr/lib/x86_64-linux-gnu/liblapack.so (liblapack.so-x86_64-linux-gnu) in auto mode Setting up libgssapi-krb5-2:amd64 (1.18.3-6) ... Setting up libsmithwaterman-dev:amd64 (0.0+git20160702.2610e25-11) ... Setting up libhdf5-103-1:amd64 (1.10.6+repack-5) ... Setting up libhdf5-cpp-103-1:amd64 (1.10.6+repack-5) ... Setting up libsuperlu-dev:amd64 (5.2.2+dfsg1-2) ... Setting up libhdf5-hl-100:amd64 (1.10.6+repack-5) ... Setting up libtirpc3:amd64 (1.3.2-2) ... Setting up libarmadillo10:amd64 (1:10.1.2+dfsg-6+b1) ... Setting up libarpack2-dev:amd64 (3.8.0-1) ... Setting up libhdf5-hl-cpp-100:amd64 (1.10.6+repack-5) ... Setting up libtirpc-dev:amd64 (1.3.2-2) ... Setting up libhdf5-fortran-102:amd64 (1.10.6+repack-5) ... Setting up libnsl2:amd64 (1.3.0-2) ... Setting up libhdf5-hl-fortran-100:amd64 (1.10.6+repack-5) ... Setting up libnsl-dev:amd64 (1.3.0-2) ... Setting up libc6-dev:amd64 (2.31-16) ... Setting up libstdc++-10-dev:amd64 (10.2.1-6) ... Setting up libboost1.74-dev:amd64 (1.74.0-9) ... Setting up libjpeg62-turbo-dev:amd64 (1:2.0.6-4) ... Setting up zlib1g-dev:amd64 (1:1.2.11.dfsg-2) ... Setting up libboost-math1.74-dev:amd64 (1.74.0-9) ... Setting up libboost-math-dev:amd64 (1.74.0.3) ... Setting up libjpeg-dev:amd64 (1:2.0.6-4) ... Setting up libhdf5-dev:amd64 (1.10.6+repack-5) ... 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 libarmadillo-dev:amd64 (1:10.1.2+dfsg-6+b1) ... Setting up sbuild-build-depends-main-dummy:amd64 (0.invalid.0) ... Processing triggers for libc-bin (2.31-16) ... +------------------------------------------------------------------------------+ | Check architectures | +------------------------------------------------------------------------------+ Arch check ok (amd64 included in any) +------------------------------------------------------------------------------+ | Build environment | +------------------------------------------------------------------------------+ Kernel: Linux 5.9.0-0.bpo.2-arm64 #1 SMP Debian 5.9.6-1~bpo10+1 (2020-11-19) arm64 (aarch64) Toolchain package versions: binutils_2.37-4 dpkg-dev_1.20.9 g++-10_10.2.1-6 gcc-10_10.2.1-6 libc6-dev_2.31-16 libstdc++-10-dev_10.2.1-6 libstdc++-10-dev-amd64-cross_10.2.1-6cross1 libstdc++6_11.2.0-2 libstdc++6-amd64-cross_11.2.0-2cross1 linux-libc-dev_5.10.46-4 Package versions: adduser_3.118 apt_2.3.8 autoconf_2.69-14 automake_1:1.16.4-1 autopoint_0.21-4 autotools-dev_20180224.1+nmu1 base-files_11.1 base-passwd_3.5.51 bash_5.1-3+b1 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rpcsvc-proto_1.4.2-4 sbuild-build-depends-main-dummy_0.invalid.0 sed_4.7-1 sensible-utils_0.0.14 sysvinit-utils_2.96-7 tar_1.34+dfsg-1 tzdata_2021a-1 ucf_3.0043 util-linux_2.37.2-1 xz-utils_5.2.5-2 zlib1g_1:1.2.11.dfsg-2 zlib1g-dev_1:1.2.11.dfsg-2 +------------------------------------------------------------------------------+ | Build | +------------------------------------------------------------------------------+ Unpack source ------------- -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA256 Format: 3.0 (quilt) Source: tvc Binary: tvc Architecture: any Version: 5.0.3+git20151221.80e144e+dfsg-3 Maintainer: Debian Med Packaging Team Uploaders: Dominique Belhachemi , Andreas Tille Homepage: http://ioncommunity.thermofisher.com Standards-Version: 4.5.0 Vcs-Browser: https://salsa.debian.org/med-team/tvc Vcs-Git: https://salsa.debian.org/med-team/tvc.git Build-Depends: debhelper-compat (= 12), cmake, libbamtools-dev, libjsoncpp-dev, libarmadillo-dev, libboost-math-dev, libsmithwaterman-dev Package-List: tvc deb science optional arch=any Checksums-Sha1: cd0223b1b1c96a2cc5a25fbc64e4e36a00347788 744668 tvc_5.0.3+git20151221.80e144e+dfsg.orig.tar.xz 784aa00453ced25b09efc46ed91b140cf1dc7868 8968 tvc_5.0.3+git20151221.80e144e+dfsg-3.debian.tar.xz Checksums-Sha256: 3339f118d2fe983bc028630d5bf5238b6e91b70a85e8046a742588a6c342740c 744668 tvc_5.0.3+git20151221.80e144e+dfsg.orig.tar.xz 8fa0c2fdd8670beb4b0ab726141010e619e4763d70ef292ab137c9bd12b9b506 8968 tvc_5.0.3+git20151221.80e144e+dfsg-3.debian.tar.xz Files: 68b468ca5054fb3260ad9de40131b632 744668 tvc_5.0.3+git20151221.80e144e+dfsg.orig.tar.xz be57abece3e5487df0f6939a38242aa7 8968 tvc_5.0.3+git20151221.80e144e+dfsg-3.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQJGBAEBCAAwFiEEkOLSwa0Uaht+u4kdu8F+uxOW8vcFAl5bTWkSHHN0dWFydEBk ZWJpYW4ub3JnAAoJELvBfrsTlvL3Wj0P/RPA3/JDLENaPvS8Z+hQOy/cIri64NFA ezi2Zl49RMqHyajLaT1CW3o/iDdXd4aweLbbvmfLrCjucRMdplm6RBQTPn9Ev1dj 1ja4LQJyxENqJqHWGdOL6dt9RCHIahMZYTV7LSaTaDk9f3QW0RREPbXrm/pD3uJu 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info: extracting tvc in /<> dpkg-source: info: unpacking tvc_5.0.3+git20151221.80e144e+dfsg.orig.tar.xz dpkg-source: info: unpacking tvc_5.0.3+git20151221.80e144e+dfsg-3.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying cmake.patch dpkg-source: info: applying bamtools.patch dpkg-source: info: applying help.patch dpkg-source: info: applying hurd.patch dpkg-source: info: applying sse.patch dpkg-source: info: applying use_debian_packaged_smithwaterman.patch dpkg-source: info: applying python3.patch Check disk space ---------------- Sufficient free space for build +------------------------------------------------------------------------------+ | Starting Timed Build Commands | +------------------------------------------------------------------------------+ ulimit -c --------- 0 I: Finished running 'ulimit -c'. Finished processing commands. -------------------------------------------------------------------------------- User Environment ---------------- APT_CONFIG=/var/lib/sbuild/apt.conf CONFIG_SITE=/etc/dpkg-cross/cross-config.amd64 DEB_BUILD_OPTIONS=nocheck HOME=/sbuild-nonexistent LANG=en_GB.UTF-8 LC_ALL=C.UTF-8 LOGNAME=helmutg PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games SCHROOT_ALIAS_NAME=crossqa-sid SCHROOT_CHROOT_NAME=crossqa-sid SCHROOT_COMMAND=env SCHROOT_GID=1002 SCHROOT_GROUP=helmutg SCHROOT_SESSION_ID=crossqa-sid-c3e8c150-1e36-4ed8-adbc-804173c86600 SCHROOT_UID=1002 SCHROOT_USER=helmutg SHELL=/bin/sh USER=helmutg dpkg-buildpackage ----------------- Command: dpkg-buildpackage -aamd64 -Pcross,nocheck -us -uc -B -rfakeroot --jobs-try=1 dpkg-buildpackage: info: source package tvc dpkg-buildpackage: info: source version 5.0.3+git20151221.80e144e+dfsg-3 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Stuart Prescott dpkg-architecture: warning: specified GNU system type x86_64-linux-gnu does not match CC system type aarch64-linux-gnu, try setting a correct CC environment variable dpkg-source --before-build . dpkg-buildpackage: info: host architecture amd64 debian/rules clean dh clean dh_clean debian/rules binary-arch dh binary-arch dh_update_autotools_config -a dh_autoreconf -a dh_auto_configure -a cd obj-x86_64-linux-gnu && cmake -DCMAKE_INSTALL_PREFIX=/usr -DCMAKE_BUILD_TYPE=None -DCMAKE_INSTALL_SYSCONFDIR=/etc -DCMAKE_INSTALL_LOCALSTATEDIR=/var -DCMAKE_EXPORT_NO_PACKAGE_REGISTRY=ON -DCMAKE_FIND_USE_PACKAGE_REGISTRY=OFF -DCMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY=ON -DCMAKE_INSTALL_RUNSTATEDIR=/run "-GUnix Makefiles" -DCMAKE_VERBOSE_MAKEFILE=ON -DCMAKE_SYSTEM_NAME=Linux -DCMAKE_SYSTEM_PROCESSOR=x86_64 -DCMAKE_C_COMPILER=x86_64-linux-gnu-gcc -DCMAKE_CXX_COMPILER=x86_64-linux-gnu-g\+\+ -DPKG_CONFIG_EXECUTABLE=/usr/bin/x86_64-linux-gnu-pkg-config -DPKGCONFIG_EXECUTABLE=/usr/bin/x86_64-linux-gnu-pkg-config -DQMAKE_EXECUTABLE=/usr/bin/x86_64-linux-gnu-qmake -DCMAKE_INSTALL_LIBDIR=lib/x86_64-linux-gnu .. -- The C compiler identification is GNU 10.2.1 -- The CXX compiler identification is GNU 10.2.1 -- Detecting C compiler ABI info -- Detecting C compiler ABI info - done -- Check for working C compiler: /usr/bin/x86_64-linux-gnu-gcc - 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/x86_64-linux-gnu-g++ - skipped -- Detecting CXX compile features -- Detecting CXX compile features - done -- CMAKE_CXX_FLAGS: '-g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse3' -- Configuring done -- Generating done CMake Warning: Manually-specified variables were not used by the project: CMAKE_EXPORT_NO_PACKAGE_REGISTRY CMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY CMAKE_FIND_USE_PACKAGE_REGISTRY CMAKE_INSTALL_LIBDIR CMAKE_INSTALL_LOCALSTATEDIR CMAKE_INSTALL_RUNSTATEDIR CMAKE_INSTALL_SYSCONFDIR PKGCONFIG_EXECUTABLE PKG_CONFIG_EXECUTABLE QMAKE_EXECUTABLE -- Build files have been written to: /<>/obj-x86_64-linux-gnu dh_auto_build -a cd obj-x86_64-linux-gnu && make -j1 "INSTALL=install --strip-program=true" VERBOSE=1 make[1]: Entering directory '/<>/obj-x86_64-linux-gnu' /usr/bin/cmake -S/<> -B/<>/obj-x86_64-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /<>/obj-x86_64-linux-gnu/CMakeFiles /<>/obj-x86_64-linux-gnu//CMakeFiles/progress.marks make -f CMakeFiles/Makefile2 all make[2]: Entering directory '/<>/obj-x86_64-linux-gnu' make -f CMakeFiles/tvcutils.dir/build.make CMakeFiles/tvcutils.dir/depend make[3]: Entering directory '/<>/obj-x86_64-linux-gnu' cd /<>/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-x86_64-linux-gnu /<>/obj-x86_64-linux-gnu /<>/obj-x86_64-linux-gnu/CMakeFiles/tvcutils.dir/DependInfo.cmake --color= Dependee "/<>/obj-x86_64-linux-gnu/CMakeFiles/tvcutils.dir/DependInfo.cmake" is newer than depender "/<>/obj-x86_64-linux-gnu/CMakeFiles/tvcutils.dir/depend.internal". Dependee "/<>/obj-x86_64-linux-gnu/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/<>/obj-x86_64-linux-gnu/CMakeFiles/tvcutils.dir/depend.internal". Scanning dependencies of target tvcutils make[3]: Leaving directory '/<>/obj-x86_64-linux-gnu' make -f CMakeFiles/tvcutils.dir/build.make CMakeFiles/tvcutils.dir/build make[3]: Entering directory '/<>/obj-x86_64-linux-gnu' [ 1%] Building CXX object CMakeFiles/tvcutils.dir/VariantCaller/tvcutils/tvcutils.cpp.o /usr/bin/x86_64-linux-gnu-g++ -DALIGNSTATS_IGNORE -I/<>/external/vcflib -I/<>/external/freebayes/src -I/usr/include/jsoncpp -I/usr/include/bamtools -I/<>/VariantCaller -I/<>/VariantCaller/FlowDistEval -I/<>/VariantCaller/EnsembleEval -I/<>/VariantCaller/Bookkeeping -I/<>/VariantCaller/Reads -I/<>/VariantCaller/Splice -I/<>/VariantCaller/Filter -I/<>/realignment -I/<>/file-io -I/<>/BaseCaller -I/<>/Calibration -I/<>/Util -I/<> -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse3 -o CMakeFiles/tvcutils.dir/VariantCaller/tvcutils/tvcutils.cpp.o -c /<>/VariantCaller/tvcutils/tvcutils.cpp [ 3%] Building CXX object CMakeFiles/tvcutils.dir/VariantCaller/tvcutils/prepare_hotspots.cpp.o /usr/bin/x86_64-linux-gnu-g++ -DALIGNSTATS_IGNORE -I/<>/external/vcflib -I/<>/external/freebayes/src -I/usr/include/jsoncpp -I/usr/include/bamtools -I/<>/VariantCaller -I/<>/VariantCaller/FlowDistEval -I/<>/VariantCaller/EnsembleEval -I/<>/VariantCaller/Bookkeeping -I/<>/VariantCaller/Reads -I/<>/VariantCaller/Splice -I/<>/VariantCaller/Filter -I/<>/realignment -I/<>/file-io -I/<>/BaseCaller -I/<>/Calibration -I/<>/Util -I/<> -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse3 -o CMakeFiles/tvcutils.dir/VariantCaller/tvcutils/prepare_hotspots.cpp.o -c /<>/VariantCaller/tvcutils/prepare_hotspots.cpp [ 4%] Building CXX object CMakeFiles/tvcutils.dir/VariantCaller/tvcutils/validate_bed.cpp.o /usr/bin/x86_64-linux-gnu-g++ -DALIGNSTATS_IGNORE -I/<>/external/vcflib -I/<>/external/freebayes/src -I/usr/include/jsoncpp -I/usr/include/bamtools -I/<>/VariantCaller -I/<>/VariantCaller/FlowDistEval -I/<>/VariantCaller/EnsembleEval -I/<>/VariantCaller/Bookkeeping -I/<>/VariantCaller/Reads -I/<>/VariantCaller/Splice -I/<>/VariantCaller/Filter -I/<>/realignment -I/<>/file-io -I/<>/BaseCaller -I/<>/Calibration -I/<>/Util -I/<> -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse3 -o CMakeFiles/tvcutils.dir/VariantCaller/tvcutils/validate_bed.cpp.o -c /<>/VariantCaller/tvcutils/validate_bed.cpp [ 6%] Building CXX object CMakeFiles/tvcutils.dir/VariantCaller/tvcutils/unify_vcf.cpp.o /usr/bin/x86_64-linux-gnu-g++ -DALIGNSTATS_IGNORE -I/<>/external/vcflib -I/<>/external/freebayes/src -I/usr/include/jsoncpp -I/usr/include/bamtools -I/<>/VariantCaller -I/<>/VariantCaller/FlowDistEval -I/<>/VariantCaller/EnsembleEval -I/<>/VariantCaller/Bookkeeping -I/<>/VariantCaller/Reads -I/<>/VariantCaller/Splice -I/<>/VariantCaller/Filter -I/<>/realignment -I/<>/file-io -I/<>/BaseCaller -I/<>/Calibration -I/<>/Util -I/<> -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse3 -o CMakeFiles/tvcutils.dir/VariantCaller/tvcutils/unify_vcf.cpp.o -c /<>/VariantCaller/tvcutils/unify_vcf.cpp [ 7%] Building CXX object CMakeFiles/tvcutils.dir/VariantCaller/TargetsManager.cpp.o /usr/bin/x86_64-linux-gnu-g++ -DALIGNSTATS_IGNORE -I/<>/external/vcflib -I/<>/external/freebayes/src -I/usr/include/jsoncpp -I/usr/include/bamtools -I/<>/VariantCaller -I/<>/VariantCaller/FlowDistEval -I/<>/VariantCaller/EnsembleEval -I/<>/VariantCaller/Bookkeeping -I/<>/VariantCaller/Reads -I/<>/VariantCaller/Splice -I/<>/VariantCaller/Filter -I/<>/realignment -I/<>/file-io -I/<>/BaseCaller -I/<>/Calibration -I/<>/Util -I/<> -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse3 -o CMakeFiles/tvcutils.dir/VariantCaller/TargetsManager.cpp.o -c /<>/VariantCaller/TargetsManager.cpp [ 9%] Building CXX object CMakeFiles/tvcutils.dir/Util/OptArgs.cpp.o /usr/bin/x86_64-linux-gnu-g++ -DALIGNSTATS_IGNORE -I/<>/external/vcflib -I/<>/external/freebayes/src -I/usr/include/jsoncpp -I/usr/include/bamtools -I/<>/VariantCaller -I/<>/VariantCaller/FlowDistEval -I/<>/VariantCaller/EnsembleEval -I/<>/VariantCaller/Bookkeeping -I/<>/VariantCaller/Reads -I/<>/VariantCaller/Splice -I/<>/VariantCaller/Filter -I/<>/realignment -I/<>/file-io -I/<>/BaseCaller -I/<>/Calibration -I/<>/Util -I/<> -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse3 -o CMakeFiles/tvcutils.dir/Util/OptArgs.cpp.o -c /<>/Util/OptArgs.cpp [ 10%] Building CXX object CMakeFiles/tvcutils.dir/external/vcflib/Variant.cpp.o /usr/bin/x86_64-linux-gnu-g++ -DALIGNSTATS_IGNORE -I/<>/external/vcflib -I/<>/external/freebayes/src -I/usr/include/jsoncpp -I/usr/include/bamtools -I/<>/VariantCaller -I/<>/VariantCaller/FlowDistEval -I/<>/VariantCaller/EnsembleEval -I/<>/VariantCaller/Bookkeeping -I/<>/VariantCaller/Reads -I/<>/VariantCaller/Splice -I/<>/VariantCaller/Filter -I/<>/realignment -I/<>/file-io -I/<>/BaseCaller -I/<>/Calibration -I/<>/Util -I/<> -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse3 -o CMakeFiles/tvcutils.dir/external/vcflib/Variant.cpp.o -c /<>/external/vcflib/Variant.cpp [ 12%] Building CXX object CMakeFiles/tvcutils.dir/external/vcflib/split.cpp.o /usr/bin/x86_64-linux-gnu-g++ -DALIGNSTATS_IGNORE -I/<>/external/vcflib -I/<>/external/freebayes/src -I/usr/include/jsoncpp -I/usr/include/bamtools -I/<>/VariantCaller -I/<>/VariantCaller/FlowDistEval -I/<>/VariantCaller/EnsembleEval -I/<>/VariantCaller/Bookkeeping -I/<>/VariantCaller/Reads -I/<>/VariantCaller/Splice -I/<>/VariantCaller/Filter -I/<>/realignment -I/<>/file-io -I/<>/BaseCaller -I/<>/Calibration -I/<>/Util -I/<> -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse3 -o CMakeFiles/tvcutils.dir/external/vcflib/split.cpp.o -c /<>/external/vcflib/split.cpp [ 13%] Building CXX object CMakeFiles/tvcutils.dir/external/vcflib/tabixpp/tabix.cpp.o /usr/bin/x86_64-linux-gnu-g++ -DALIGNSTATS_IGNORE -I/<>/external/vcflib -I/<>/external/freebayes/src -I/usr/include/jsoncpp -I/usr/include/bamtools -I/<>/VariantCaller -I/<>/VariantCaller/FlowDistEval -I/<>/VariantCaller/EnsembleEval -I/<>/VariantCaller/Bookkeeping -I/<>/VariantCaller/Reads -I/<>/VariantCaller/Splice -I/<>/VariantCaller/Filter -I/<>/realignment -I/<>/file-io -I/<>/BaseCaller -I/<>/Calibration -I/<>/Util -I/<> -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse3 -o CMakeFiles/tvcutils.dir/external/vcflib/tabixpp/tabix.cpp.o -c /<>/external/vcflib/tabixpp/tabix.cpp [ 15%] Building C object CMakeFiles/tvcutils.dir/external/vcflib/tabixpp/index.c.o /usr/bin/x86_64-linux-gnu-gcc -DALIGNSTATS_IGNORE -I/<>/external/vcflib -I/<>/external/freebayes/src -I/usr/include/jsoncpp -I/usr/include/bamtools -I/<>/VariantCaller -I/<>/VariantCaller/FlowDistEval -I/<>/VariantCaller/EnsembleEval -I/<>/VariantCaller/Bookkeeping -I/<>/VariantCaller/Reads -I/<>/VariantCaller/Splice -I/<>/VariantCaller/Filter -I/<>/realignment -I/<>/file-io -I/<>/BaseCaller -I/<>/Calibration -I/<>/Util -I/<> -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/tvcutils.dir/external/vcflib/tabixpp/index.c.o -c /<>/external/vcflib/tabixpp/index.c /<>/external/vcflib/tabixpp/index.c: In function ‘ti_index_core’: /<>/external/vcflib/tabixpp/index.c:336:35: warning: overflow in conversion from ‘uint32_t’ {aka ‘unsigned int’} to ‘int32_t’ {aka ‘int’} changes value from ‘last_bin = 4294967295’ to ‘-1’ [-Woverflow] 336 | save_bin = save_tid = last_tid = last_bin = 0xffffffffu; | ^~~~~~~~ [ 16%] Building C object CMakeFiles/tvcutils.dir/external/vcflib/tabixpp/bgzf.c.o /usr/bin/x86_64-linux-gnu-gcc -DALIGNSTATS_IGNORE -I/<>/external/vcflib -I/<>/external/freebayes/src -I/usr/include/jsoncpp -I/usr/include/bamtools -I/<>/VariantCaller -I/<>/VariantCaller/FlowDistEval -I/<>/VariantCaller/EnsembleEval -I/<>/VariantCaller/Bookkeeping -I/<>/VariantCaller/Reads -I/<>/VariantCaller/Splice -I/<>/VariantCaller/Filter -I/<>/realignment -I/<>/file-io -I/<>/BaseCaller -I/<>/Calibration -I/<>/Util -I/<> -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/tvcutils.dir/external/vcflib/tabixpp/bgzf.c.o -c /<>/external/vcflib/tabixpp/bgzf.c /<>/external/vcflib/tabixpp/bgzf.c: In function ‘_bgzf_check_EOF’: /<>/external/vcflib/tabixpp/bgzf.c:678:2: warning: ignoring return value of ‘fread’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 678 | fread(buf, 1, 28, fp->file); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 18%] Building CXX object CMakeFiles/tvcutils.dir/IonVersion.cpp.o /usr/bin/x86_64-linux-gnu-g++ -DALIGNSTATS_IGNORE -I/<>/external/vcflib -I/<>/external/freebayes/src -I/usr/include/jsoncpp -I/usr/include/bamtools -I/<>/VariantCaller -I/<>/VariantCaller/FlowDistEval -I/<>/VariantCaller/EnsembleEval -I/<>/VariantCaller/Bookkeeping -I/<>/VariantCaller/Reads -I/<>/VariantCaller/Splice -I/<>/VariantCaller/Filter -I/<>/realignment -I/<>/file-io -I/<>/BaseCaller -I/<>/Calibration -I/<>/Util -I/<> -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse3 -o CMakeFiles/tvcutils.dir/IonVersion.cpp.o -c /<>/obj-x86_64-linux-gnu/IonVersion.cpp [ 20%] Linking CXX executable tvcutils /usr/bin/cmake -E cmake_link_script CMakeFiles/tvcutils.dir/link.txt --verbose=1 /usr/bin/x86_64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse3 -Wl,-z,relro -rdynamic CMakeFiles/tvcutils.dir/VariantCaller/tvcutils/tvcutils.cpp.o CMakeFiles/tvcutils.dir/VariantCaller/tvcutils/prepare_hotspots.cpp.o CMakeFiles/tvcutils.dir/VariantCaller/tvcutils/validate_bed.cpp.o CMakeFiles/tvcutils.dir/VariantCaller/tvcutils/unify_vcf.cpp.o CMakeFiles/tvcutils.dir/VariantCaller/TargetsManager.cpp.o CMakeFiles/tvcutils.dir/Util/OptArgs.cpp.o CMakeFiles/tvcutils.dir/external/vcflib/Variant.cpp.o CMakeFiles/tvcutils.dir/external/vcflib/split.cpp.o CMakeFiles/tvcutils.dir/external/vcflib/tabixpp/tabix.cpp.o CMakeFiles/tvcutils.dir/external/vcflib/tabixpp/index.c.o CMakeFiles/tvcutils.dir/external/vcflib/tabixpp/bgzf.c.o CMakeFiles/tvcutils.dir/IonVersion.cpp.o -o tvcutils -lbamtools -lz -ljsoncpp -lsmithwaterman -ldisorder make[3]: Leaving directory '/<>/obj-x86_64-linux-gnu' [ 20%] Built target tvcutils make -f CMakeFiles/tvcassembly.dir/build.make CMakeFiles/tvcassembly.dir/depend make[3]: Entering directory '/<>/obj-x86_64-linux-gnu' cd /<>/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-x86_64-linux-gnu /<>/obj-x86_64-linux-gnu /<>/obj-x86_64-linux-gnu/CMakeFiles/tvcassembly.dir/DependInfo.cmake --color= Dependee "/<>/obj-x86_64-linux-gnu/CMakeFiles/tvcassembly.dir/DependInfo.cmake" is newer than depender "/<>/obj-x86_64-linux-gnu/CMakeFiles/tvcassembly.dir/depend.internal". 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Scanning dependencies of target tvcassembly make[3]: Leaving directory '/<>/obj-x86_64-linux-gnu' make -f CMakeFiles/tvcassembly.dir/build.make CMakeFiles/tvcassembly.dir/build make[3]: Entering directory '/<>/obj-x86_64-linux-gnu' [ 21%] Building CXX object CMakeFiles/tvcassembly.dir/VariantCaller/IndelAssembly/IndelAssembly.cpp.o /usr/bin/x86_64-linux-gnu-g++ -DALIGNSTATS_IGNORE -I/<>/external/vcflib -I/<>/external/freebayes/src -I/usr/include/jsoncpp -I/usr/include/bamtools -I/<>/VariantCaller -I/<>/VariantCaller/FlowDistEval -I/<>/VariantCaller/EnsembleEval -I/<>/VariantCaller/Bookkeeping -I/<>/VariantCaller/Reads -I/<>/VariantCaller/Splice -I/<>/VariantCaller/Filter -I/<>/realignment -I/<>/file-io -I/<>/BaseCaller -I/<>/Calibration -I/<>/Util -I/<> -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse3 -o CMakeFiles/tvcassembly.dir/VariantCaller/IndelAssembly/IndelAssembly.cpp.o -c /<>/VariantCaller/IndelAssembly/IndelAssembly.cpp [ 23%] Building CXX object CMakeFiles/tvcassembly.dir/VariantCaller/TargetsManager.cpp.o /usr/bin/x86_64-linux-gnu-g++ -DALIGNSTATS_IGNORE -I/<>/external/vcflib -I/<>/external/freebayes/src -I/usr/include/jsoncpp -I/usr/include/bamtools -I/<>/VariantCaller -I/<>/VariantCaller/FlowDistEval -I/<>/VariantCaller/EnsembleEval -I/<>/VariantCaller/Bookkeeping -I/<>/VariantCaller/Reads -I/<>/VariantCaller/Splice -I/<>/VariantCaller/Filter -I/<>/realignment -I/<>/file-io -I/<>/BaseCaller -I/<>/Calibration -I/<>/Util -I/<> -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse3 -o CMakeFiles/tvcassembly.dir/VariantCaller/TargetsManager.cpp.o -c /<>/VariantCaller/TargetsManager.cpp [ 24%] Building CXX object CMakeFiles/tvcassembly.dir/VariantCaller/SampleManager.cpp.o /usr/bin/x86_64-linux-gnu-g++ -DALIGNSTATS_IGNORE -I/<>/external/vcflib -I/<>/external/freebayes/src -I/usr/include/jsoncpp -I/usr/include/bamtools -I/<>/VariantCaller -I/<>/VariantCaller/FlowDistEval -I/<>/VariantCaller/EnsembleEval -I/<>/VariantCaller/Bookkeeping -I/<>/VariantCaller/Reads -I/<>/VariantCaller/Splice -I/<>/VariantCaller/Filter -I/<>/realignment -I/<>/file-io -I/<>/BaseCaller -I/<>/Calibration -I/<>/Util -I/<> -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse3 -o CMakeFiles/tvcassembly.dir/VariantCaller/SampleManager.cpp.o -c /<>/VariantCaller/SampleManager.cpp [ 26%] Building CXX object CMakeFiles/tvcassembly.dir/Util/OptArgs.cpp.o /usr/bin/x86_64-linux-gnu-g++ -DALIGNSTATS_IGNORE -I/<>/external/vcflib -I/<>/external/freebayes/src -I/usr/include/jsoncpp -I/usr/include/bamtools -I/<>/VariantCaller -I/<>/VariantCaller/FlowDistEval -I/<>/VariantCaller/EnsembleEval -I/<>/VariantCaller/Bookkeeping -I/<>/VariantCaller/Reads -I/<>/VariantCaller/Splice -I/<>/VariantCaller/Filter -I/<>/realignment -I/<>/file-io -I/<>/BaseCaller -I/<>/Calibration -I/<>/Util -I/<> -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse3 -o CMakeFiles/tvcassembly.dir/Util/OptArgs.cpp.o -c /<>/Util/OptArgs.cpp [ 27%] Building CXX object CMakeFiles/tvcassembly.dir/Util/Utils.cpp.o /usr/bin/x86_64-linux-gnu-g++ -DALIGNSTATS_IGNORE -I/<>/external/vcflib -I/<>/external/freebayes/src -I/usr/include/jsoncpp -I/usr/include/bamtools -I/<>/VariantCaller -I/<>/VariantCaller/FlowDistEval -I/<>/VariantCaller/EnsembleEval -I/<>/VariantCaller/Bookkeeping -I/<>/VariantCaller/Reads -I/<>/VariantCaller/Splice -I/<>/VariantCaller/Filter -I/<>/realignment -I/<>/file-io -I/<>/BaseCaller -I/<>/Calibration -I/<>/Util -I/<> -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse3 -o CMakeFiles/tvcassembly.dir/Util/Utils.cpp.o -c /<>/Util/Utils.cpp In file included from /usr/x86_64-linux-gnu/include/string.h:495, from /usr/x86_64-linux-gnu/include/c++/10/cstring:42, from /<>/Util/Utils.cpp:12: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘char* GetProcessParam(const char*, const char*)’ at /<>/Util/Utils.cpp:503:15: /usr/x86_64-linux-gnu/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, long unsigned int)’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/Util/Utils.cpp: In function ‘char* GetProcessParam(const char*, const char*)’: /<>/Util/Utils.cpp:503:37: note: length computed here 503 | strncpy (keyword, buf, strlen (buf)-1); | ~~~~~~~^~~~~ [ 29%] Building CXX object CMakeFiles/tvcassembly.dir/IonVersion.cpp.o /usr/bin/x86_64-linux-gnu-g++ -DALIGNSTATS_IGNORE -I/<>/external/vcflib -I/<>/external/freebayes/src -I/usr/include/jsoncpp -I/usr/include/bamtools -I/<>/VariantCaller -I/<>/VariantCaller/FlowDistEval -I/<>/VariantCaller/EnsembleEval -I/<>/VariantCaller/Bookkeeping -I/<>/VariantCaller/Reads -I/<>/VariantCaller/Splice -I/<>/VariantCaller/Filter -I/<>/realignment -I/<>/file-io -I/<>/BaseCaller -I/<>/Calibration -I/<>/Util -I/<> -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse3 -o CMakeFiles/tvcassembly.dir/IonVersion.cpp.o -c /<>/obj-x86_64-linux-gnu/IonVersion.cpp [ 30%] Linking CXX executable tvcassembly /usr/bin/cmake -E cmake_link_script CMakeFiles/tvcassembly.dir/link.txt --verbose=1 /usr/bin/x86_64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse3 -Wl,-z,relro -rdynamic CMakeFiles/tvcassembly.dir/VariantCaller/IndelAssembly/IndelAssembly.cpp.o CMakeFiles/tvcassembly.dir/VariantCaller/TargetsManager.cpp.o CMakeFiles/tvcassembly.dir/VariantCaller/SampleManager.cpp.o CMakeFiles/tvcassembly.dir/Util/OptArgs.cpp.o CMakeFiles/tvcassembly.dir/Util/Utils.cpp.o CMakeFiles/tvcassembly.dir/IonVersion.cpp.o -o tvcassembly -lbamtools -lz -lpthread -ljsoncpp make[3]: Leaving directory '/<>/obj-x86_64-linux-gnu' [ 30%] Built target tvcassembly make -f CMakeFiles/tvc.dir/build.make CMakeFiles/tvc.dir/depend make[3]: Entering directory '/<>/obj-x86_64-linux-gnu' cd /<>/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-x86_64-linux-gnu /<>/obj-x86_64-linux-gnu /<>/obj-x86_64-linux-gnu/CMakeFiles/tvc.dir/DependInfo.cmake --color= Dependee "/<>/obj-x86_64-linux-gnu/CMakeFiles/tvc.dir/DependInfo.cmake" is newer than depender "/<>/obj-x86_64-linux-gnu/CMakeFiles/tvc.dir/depend.internal". Dependee "/<>/obj-x86_64-linux-gnu/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/<>/obj-x86_64-linux-gnu/CMakeFiles/tvc.dir/depend.internal". Scanning dependencies of target tvc make[3]: Leaving directory '/<>/obj-x86_64-linux-gnu' make -f CMakeFiles/tvc.dir/build.make CMakeFiles/tvc.dir/build make[3]: Entering directory '/<>/obj-x86_64-linux-gnu' [ 32%] Building CXX object CMakeFiles/tvc.dir/VariantCaller/VariantCaller.cpp.o /usr/bin/x86_64-linux-gnu-g++ -DALIGNSTATS_IGNORE -I/<>/external/vcflib -I/<>/external/freebayes/src -I/usr/include/jsoncpp -I/usr/include/bamtools -I/<>/VariantCaller -I/<>/VariantCaller/FlowDistEval -I/<>/VariantCaller/EnsembleEval -I/<>/VariantCaller/Bookkeeping -I/<>/VariantCaller/Reads -I/<>/VariantCaller/Splice -I/<>/VariantCaller/Filter -I/<>/realignment -I/<>/file-io -I/<>/BaseCaller -I/<>/Calibration -I/<>/Util -I/<> -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse3 -o CMakeFiles/tvc.dir/VariantCaller/VariantCaller.cpp.o -c /<>/VariantCaller/VariantCaller.cpp /<>/VariantCaller/VariantCaller.cpp: In function ‘void TheSilenceOfTheArmadillos(std::ofstream&)’: /<>/VariantCaller/VariantCaller.cpp:36:9: warning: ‘void arma::set_stream_err1(std::ostream&)’ is deprecated [-Wdeprecated-declarations] 36 | arma::set_stream_err1(null_ostream); | ^~~~~~~~~~~~~~~ In file included from /usr/include/armadillo:349, from /<>/VariantCaller/VariantCaller.cpp:12: /usr/include/armadillo_bits/debug.hpp:90:1: note: declared here 90 | set_stream_err1(std::ostream& user_stream) | ^~~~~~~~~~~~~~~ /<>/VariantCaller/VariantCaller.cpp:36:37: warning: ‘void arma::set_stream_err1(std::ostream&)’ is deprecated [-Wdeprecated-declarations] 36 | arma::set_stream_err1(null_ostream); | ^ In file included from /usr/include/armadillo:349, from /<>/VariantCaller/VariantCaller.cpp:12: /usr/include/armadillo_bits/debug.hpp:90:1: note: declared here 90 | set_stream_err1(std::ostream& user_stream) | ^~~~~~~~~~~~~~~ /<>/VariantCaller/VariantCaller.cpp:37:9: warning: ‘void arma::set_stream_err2(std::ostream&)’ is deprecated [-Wdeprecated-declarations] 37 | arma::set_stream_err2(null_ostream); | ^~~~~~~~~~~~~~~ In file included from /usr/include/armadillo:349, from /<>/VariantCaller/VariantCaller.cpp:12: /usr/include/armadillo_bits/debug.hpp:101:1: note: declared here 101 | set_stream_err2(std::ostream& user_stream) | ^~~~~~~~~~~~~~~ /<>/VariantCaller/VariantCaller.cpp:37:37: warning: ‘void arma::set_stream_err2(std::ostream&)’ is deprecated [-Wdeprecated-declarations] 37 | arma::set_stream_err2(null_ostream); | ^ In file included from /usr/include/armadillo:349, from /<>/VariantCaller/VariantCaller.cpp:12: /usr/include/armadillo_bits/debug.hpp:101:1: note: declared here 101 | set_stream_err2(std::ostream& user_stream) | ^~~~~~~~~~~~~~~ [ 33%] Building CXX object CMakeFiles/tvc.dir/VariantCaller/BAMWalkerEngine.cpp.o /usr/bin/x86_64-linux-gnu-g++ -DALIGNSTATS_IGNORE -I/<>/external/vcflib -I/<>/external/freebayes/src -I/usr/include/jsoncpp -I/usr/include/bamtools -I/<>/VariantCaller -I/<>/VariantCaller/FlowDistEval -I/<>/VariantCaller/EnsembleEval -I/<>/VariantCaller/Bookkeeping -I/<>/VariantCaller/Reads -I/<>/VariantCaller/Splice -I/<>/VariantCaller/Filter -I/<>/realignment -I/<>/file-io -I/<>/BaseCaller -I/<>/Calibration -I/<>/Util -I/<> -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse3 -o CMakeFiles/tvc.dir/VariantCaller/BAMWalkerEngine.cpp.o -c /<>/VariantCaller/BAMWalkerEngine.cpp [ 35%] Building CXX object CMakeFiles/tvc.dir/VariantCaller/OrderedBAMWriter.cpp.o /usr/bin/x86_64-linux-gnu-g++ -DALIGNSTATS_IGNORE -I/<>/external/vcflib -I/<>/external/freebayes/src -I/usr/include/jsoncpp -I/usr/include/bamtools -I/<>/VariantCaller -I/<>/VariantCaller/FlowDistEval -I/<>/VariantCaller/EnsembleEval -I/<>/VariantCaller/Bookkeeping -I/<>/VariantCaller/Reads -I/<>/VariantCaller/Splice -I/<>/VariantCaller/Filter -I/<>/realignment -I/<>/file-io -I/<>/BaseCaller -I/<>/Calibration -I/<>/Util -I/<> -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse3 -o CMakeFiles/tvc.dir/VariantCaller/OrderedBAMWriter.cpp.o -c /<>/VariantCaller/OrderedBAMWriter.cpp [ 36%] Building CXX object CMakeFiles/tvc.dir/VariantCaller/SampleManager.cpp.o /usr/bin/x86_64-linux-gnu-g++ -DALIGNSTATS_IGNORE -I/<>/external/vcflib -I/<>/external/freebayes/src -I/usr/include/jsoncpp -I/usr/include/bamtools -I/<>/VariantCaller -I/<>/VariantCaller/FlowDistEval -I/<>/VariantCaller/EnsembleEval -I/<>/VariantCaller/Bookkeeping -I/<>/VariantCaller/Reads -I/<>/VariantCaller/Splice -I/<>/VariantCaller/Filter -I/<>/realignment -I/<>/file-io -I/<>/BaseCaller -I/<>/Calibration -I/<>/Util -I/<> -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse3 -o CMakeFiles/tvc.dir/VariantCaller/SampleManager.cpp.o -c /<>/VariantCaller/SampleManager.cpp [ 38%] Building CXX object CMakeFiles/tvc.dir/VariantCaller/TargetsManager.cpp.o /usr/bin/x86_64-linux-gnu-g++ -DALIGNSTATS_IGNORE -I/<>/external/vcflib -I/<>/external/freebayes/src -I/usr/include/jsoncpp -I/usr/include/bamtools -I/<>/VariantCaller -I/<>/VariantCaller/FlowDistEval -I/<>/VariantCaller/EnsembleEval -I/<>/VariantCaller/Bookkeeping -I/<>/VariantCaller/Reads -I/<>/VariantCaller/Splice -I/<>/VariantCaller/Filter -I/<>/realignment -I/<>/file-io -I/<>/BaseCaller -I/<>/Calibration -I/<>/Util -I/<> -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse3 -o CMakeFiles/tvc.dir/VariantCaller/TargetsManager.cpp.o -c /<>/VariantCaller/TargetsManager.cpp [ 40%] Building CXX object CMakeFiles/tvc.dir/VariantCaller/HandleVariant.cpp.o /usr/bin/x86_64-linux-gnu-g++ -DALIGNSTATS_IGNORE -I/<>/external/vcflib -I/<>/external/freebayes/src -I/usr/include/jsoncpp -I/usr/include/bamtools -I/<>/VariantCaller -I/<>/VariantCaller/FlowDistEval -I/<>/VariantCaller/EnsembleEval -I/<>/VariantCaller/Bookkeeping -I/<>/VariantCaller/Reads -I/<>/VariantCaller/Splice -I/<>/VariantCaller/Filter -I/<>/realignment -I/<>/file-io -I/<>/BaseCaller -I/<>/Calibration -I/<>/Util -I/<> -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse3 -o CMakeFiles/tvc.dir/VariantCaller/HandleVariant.cpp.o -c /<>/VariantCaller/HandleVariant.cpp [ 41%] Building CXX object CMakeFiles/tvc.dir/VariantCaller/HotspotReader.cpp.o /usr/bin/x86_64-linux-gnu-g++ -DALIGNSTATS_IGNORE -I/<>/external/vcflib -I/<>/external/freebayes/src -I/usr/include/jsoncpp -I/usr/include/bamtools -I/<>/VariantCaller -I/<>/VariantCaller/FlowDistEval -I/<>/VariantCaller/EnsembleEval -I/<>/VariantCaller/Bookkeeping -I/<>/VariantCaller/Reads -I/<>/VariantCaller/Splice -I/<>/VariantCaller/Filter -I/<>/realignment -I/<>/file-io -I/<>/BaseCaller -I/<>/Calibration -I/<>/Util -I/<> -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse3 -o CMakeFiles/tvc.dir/VariantCaller/HotspotReader.cpp.o -c /<>/VariantCaller/HotspotReader.cpp [ 43%] Building CXX object CMakeFiles/tvc.dir/VariantCaller/MetricsManager.cpp.o /usr/bin/x86_64-linux-gnu-g++ -DALIGNSTATS_IGNORE -I/<>/external/vcflib -I/<>/external/freebayes/src -I/usr/include/jsoncpp -I/usr/include/bamtools -I/<>/VariantCaller -I/<>/VariantCaller/FlowDistEval -I/<>/VariantCaller/EnsembleEval -I/<>/VariantCaller/Bookkeeping -I/<>/VariantCaller/Reads -I/<>/VariantCaller/Splice -I/<>/VariantCaller/Filter -I/<>/realignment -I/<>/file-io -I/<>/BaseCaller -I/<>/Calibration -I/<>/Util -I/<> -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse3 -o CMakeFiles/tvc.dir/VariantCaller/MetricsManager.cpp.o -c /<>/VariantCaller/MetricsManager.cpp [ 44%] Building CXX object CMakeFiles/tvc.dir/VariantCaller/Bookkeeping/MiscUtil.cpp.o /usr/bin/x86_64-linux-gnu-g++ -DALIGNSTATS_IGNORE -I/<>/external/vcflib -I/<>/external/freebayes/src -I/usr/include/jsoncpp -I/usr/include/bamtools -I/<>/VariantCaller -I/<>/VariantCaller/FlowDistEval -I/<>/VariantCaller/EnsembleEval -I/<>/VariantCaller/Bookkeeping -I/<>/VariantCaller/Reads -I/<>/VariantCaller/Splice -I/<>/VariantCaller/Filter -I/<>/realignment -I/<>/file-io -I/<>/BaseCaller -I/<>/Calibration -I/<>/Util -I/<> -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse3 -o CMakeFiles/tvc.dir/VariantCaller/Bookkeeping/MiscUtil.cpp.o -c /<>/VariantCaller/Bookkeeping/MiscUtil.cpp [ 46%] Building CXX object CMakeFiles/tvc.dir/VariantCaller/Bookkeeping/ExtendParameters.cpp.o /usr/bin/x86_64-linux-gnu-g++ -DALIGNSTATS_IGNORE -I/<>/external/vcflib -I/<>/external/freebayes/src -I/usr/include/jsoncpp -I/usr/include/bamtools -I/<>/VariantCaller 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-I/<>/BaseCaller -I/<>/Calibration -I/<>/Util -I/<> -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse3 -o CMakeFiles/tvc.dir/VariantCaller/Bookkeeping/InputStructures.cpp.o -c /<>/VariantCaller/Bookkeeping/InputStructures.cpp /<>/VariantCaller/Bookkeeping/InputStructures.cpp: In member function ‘void RecalibrationHandler::ReadRecalibrationFromComments(const BamTools::SamHeader&, const std::map, int>&)’: /<>/VariantCaller/Bookkeeping/InputStructures.cpp:240:18: warning: ‘Reader’ is deprecated: Use CharReader and CharReaderBuilder instead. [-Wdeprecated-declarations] 240 | Json::Reader recal_reader; | ^~~~~~~~~~~~ In file included from /usr/include/jsoncpp/json/json.h:11, from /<>/Calibration/CalibrationHelper.h:23, from /<>/Calibration/LinearCalibrationModel.h:16, from /<>/VariantCaller/Bookkeeping/InputStructures.h:19, from /<>/VariantCaller/Bookkeeping/InputStructures.cpp:7: /usr/include/jsoncpp/json/reader.h:37:63: note: declared here 37 | "Use CharReader and CharReaderBuilder instead.") JSON_API Reader { | ^~~~~~ /<>/VariantCaller/Bookkeeping/InputStructures.cpp:240:18: warning: ‘Json::Reader::Reader()’ is deprecated: Use CharReader and CharReaderBuilder instead [-Wdeprecated-declarations] 240 | Json::Reader recal_reader; | ^~~~~~~~~~~~ In file included from /usr/include/jsoncpp/json/json.h:11, from /<>/Calibration/CalibrationHelper.h:23, from /<>/Calibration/LinearCalibrationModel.h:16, from /<>/VariantCaller/Bookkeeping/InputStructures.h:19, from /<>/VariantCaller/Bookkeeping/InputStructures.cpp:7: /usr/include/jsoncpp/json/reader.h:56:3: note: declared here 56 | Reader(); | ^~~~~~ [ 49%] Building CXX object CMakeFiles/tvc.dir/VariantCaller/Bookkeeping/VcfFormat.cpp.o /usr/bin/x86_64-linux-gnu-g++ -DALIGNSTATS_IGNORE -I/<>/external/vcflib -I/<>/external/freebayes/src -I/usr/include/jsoncpp -I/usr/include/bamtools -I/<>/VariantCaller -I/<>/VariantCaller/FlowDistEval -I/<>/VariantCaller/EnsembleEval -I/<>/VariantCaller/Bookkeeping -I/<>/VariantCaller/Reads 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-I/<>/realignment -I/<>/file-io -I/<>/BaseCaller -I/<>/Calibration -I/<>/Util -I/<> -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse3 -o CMakeFiles/tvc.dir/external/vcflib/split.cpp.o -c /<>/external/vcflib/split.cpp [ 78%] Building CXX object CMakeFiles/tvc.dir/external/vcflib/tabixpp/tabix.cpp.o /usr/bin/x86_64-linux-gnu-g++ -DALIGNSTATS_IGNORE -I/<>/external/vcflib -I/<>/external/freebayes/src -I/usr/include/jsoncpp -I/usr/include/bamtools -I/<>/VariantCaller -I/<>/VariantCaller/FlowDistEval -I/<>/VariantCaller/EnsembleEval -I/<>/VariantCaller/Bookkeeping -I/<>/VariantCaller/Reads -I/<>/VariantCaller/Splice -I/<>/VariantCaller/Filter -I/<>/realignment -I/<>/file-io -I/<>/BaseCaller -I/<>/Calibration -I/<>/Util -I/<> -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse3 -o CMakeFiles/tvc.dir/external/vcflib/tabixpp/tabix.cpp.o -c /<>/external/vcflib/tabixpp/tabix.cpp [ 80%] Building C object CMakeFiles/tvc.dir/external/vcflib/tabixpp/index.c.o /usr/bin/x86_64-linux-gnu-gcc -DALIGNSTATS_IGNORE -I/<>/external/vcflib -I/<>/external/freebayes/src -I/usr/include/jsoncpp -I/usr/include/bamtools -I/<>/VariantCaller -I/<>/VariantCaller/FlowDistEval -I/<>/VariantCaller/EnsembleEval -I/<>/VariantCaller/Bookkeeping -I/<>/VariantCaller/Reads -I/<>/VariantCaller/Splice -I/<>/VariantCaller/Filter -I/<>/realignment -I/<>/file-io -I/<>/BaseCaller -I/<>/Calibration -I/<>/Util -I/<> -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/tvc.dir/external/vcflib/tabixpp/index.c.o -c /<>/external/vcflib/tabixpp/index.c /<>/external/vcflib/tabixpp/index.c: In function ‘ti_index_core’: /<>/external/vcflib/tabixpp/index.c:336:35: warning: overflow in conversion from ‘uint32_t’ {aka ‘unsigned int’} to ‘int32_t’ {aka ‘int’} changes value from ‘last_bin = 4294967295’ to ‘-1’ [-Woverflow] 336 | save_bin = save_tid = last_tid = last_bin = 0xffffffffu; | ^~~~~~~~ [ 81%] Building C object CMakeFiles/tvc.dir/external/vcflib/tabixpp/bgzf.c.o /usr/bin/x86_64-linux-gnu-gcc -DALIGNSTATS_IGNORE -I/<>/external/vcflib -I/<>/external/freebayes/src -I/usr/include/jsoncpp -I/usr/include/bamtools -I/<>/VariantCaller -I/<>/VariantCaller/FlowDistEval -I/<>/VariantCaller/EnsembleEval -I/<>/VariantCaller/Bookkeeping -I/<>/VariantCaller/Reads -I/<>/VariantCaller/Splice -I/<>/VariantCaller/Filter -I/<>/realignment -I/<>/file-io -I/<>/BaseCaller -I/<>/Calibration -I/<>/Util -I/<> -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/tvc.dir/external/vcflib/tabixpp/bgzf.c.o -c /<>/external/vcflib/tabixpp/bgzf.c /<>/external/vcflib/tabixpp/bgzf.c: In function ‘_bgzf_check_EOF’: /<>/external/vcflib/tabixpp/bgzf.c:678:2: warning: ignoring return value of ‘fread’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 678 | fread(buf, 1, 28, fp->file); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 83%] Building CXX object CMakeFiles/tvc.dir/external/freebayes/src/AlleleParser.cpp.o /usr/bin/x86_64-linux-gnu-g++ -DALIGNSTATS_IGNORE -I/<>/external/vcflib -I/<>/external/freebayes/src -I/usr/include/jsoncpp -I/usr/include/bamtools -I/<>/VariantCaller -I/<>/VariantCaller/FlowDistEval -I/<>/VariantCaller/EnsembleEval -I/<>/VariantCaller/Bookkeeping -I/<>/VariantCaller/Reads -I/<>/VariantCaller/Splice -I/<>/VariantCaller/Filter -I/<>/realignment -I/<>/file-io -I/<>/BaseCaller -I/<>/Calibration -I/<>/Util -I/<> -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse3 -o CMakeFiles/tvc.dir/external/freebayes/src/AlleleParser.cpp.o -c /<>/external/freebayes/src/AlleleParser.cpp [ 84%] Building CXX object CMakeFiles/tvc.dir/BaseCaller/PIDloop.cpp.o /usr/bin/x86_64-linux-gnu-g++ -DALIGNSTATS_IGNORE -I/<>/external/vcflib -I/<>/external/freebayes/src -I/usr/include/jsoncpp -I/usr/include/bamtools -I/<>/VariantCaller -I/<>/VariantCaller/FlowDistEval -I/<>/VariantCaller/EnsembleEval -I/<>/VariantCaller/Bookkeeping -I/<>/VariantCaller/Reads -I/<>/VariantCaller/Splice -I/<>/VariantCaller/Filter -I/<>/realignment -I/<>/file-io -I/<>/BaseCaller -I/<>/Calibration -I/<>/Util -I/<> -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse3 -o CMakeFiles/tvc.dir/BaseCaller/PIDloop.cpp.o -c /<>/BaseCaller/PIDloop.cpp [ 86%] Building CXX object CMakeFiles/tvc.dir/BaseCaller/DPTreephaser.cpp.o /usr/bin/x86_64-linux-gnu-g++ -DALIGNSTATS_IGNORE -I/<>/external/vcflib -I/<>/external/freebayes/src -I/usr/include/jsoncpp -I/usr/include/bamtools -I/<>/VariantCaller -I/<>/VariantCaller/FlowDistEval -I/<>/VariantCaller/EnsembleEval -I/<>/VariantCaller/Bookkeeping -I/<>/VariantCaller/Reads -I/<>/VariantCaller/Splice -I/<>/VariantCaller/Filter -I/<>/realignment -I/<>/file-io -I/<>/BaseCaller -I/<>/Calibration -I/<>/Util -I/<> -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse3 -o CMakeFiles/tvc.dir/BaseCaller/DPTreephaser.cpp.o -c /<>/BaseCaller/DPTreephaser.cpp [ 87%] Building CXX object CMakeFiles/tvc.dir/Calibration/LinearCalibrationModel.cpp.o /usr/bin/x86_64-linux-gnu-g++ -DALIGNSTATS_IGNORE -I/<>/external/vcflib -I/<>/external/freebayes/src -I/usr/include/jsoncpp -I/usr/include/bamtools -I/<>/VariantCaller -I/<>/VariantCaller/FlowDistEval -I/<>/VariantCaller/EnsembleEval -I/<>/VariantCaller/Bookkeeping -I/<>/VariantCaller/Reads -I/<>/VariantCaller/Splice -I/<>/VariantCaller/Filter -I/<>/realignment -I/<>/file-io -I/<>/BaseCaller -I/<>/Calibration -I/<>/Util -I/<> -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse3 -o CMakeFiles/tvc.dir/Calibration/LinearCalibrationModel.cpp.o -c /<>/Calibration/LinearCalibrationModel.cpp /<>/Calibration/LinearCalibrationModel.cpp: In member function ‘void LinearCalibrationModel::SaveModelFileToBamComments(std::vector >&, const string&) const’: /<>/Calibration/LinearCalibrationModel.cpp:708:20: warning: ‘FastWriter’ is deprecated: Use StreamWriterBuilder instead [-Wdeprecated-declarations] 708 | Json::FastWriter writer; | ^~~~~~ In file included from /usr/include/jsoncpp/json/json.h:13, from /<>/Calibration/CalibrationHelper.h:23, from /<>/Calibration/LinearCalibrationModel.h:16, from /<>/Calibration/LinearCalibrationModel.cpp:13: /usr/include/jsoncpp/json/writer.h:168:70: note: declared here 168 | class JSONCPP_DEPRECATED("Use StreamWriterBuilder instead") JSON_API FastWriter | ^~~~~~~~~~ [ 89%] Building CXX object CMakeFiles/tvc.dir/Calibration/FlowAlignment.cpp.o /usr/bin/x86_64-linux-gnu-g++ -DALIGNSTATS_IGNORE -I/<>/external/vcflib -I/<>/external/freebayes/src -I/usr/include/jsoncpp -I/usr/include/bamtools -I/<>/VariantCaller -I/<>/VariantCaller/FlowDistEval -I/<>/VariantCaller/EnsembleEval -I/<>/VariantCaller/Bookkeeping -I/<>/VariantCaller/Reads -I/<>/VariantCaller/Splice -I/<>/VariantCaller/Filter -I/<>/realignment -I/<>/file-io -I/<>/BaseCaller -I/<>/Calibration -I/<>/Util -I/<> -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse3 -o CMakeFiles/tvc.dir/Calibration/FlowAlignment.cpp.o -c /<>/Calibration/FlowAlignment.cpp [ 90%] Building CXX object CMakeFiles/tvc.dir/Util/OptArgs.cpp.o /usr/bin/x86_64-linux-gnu-g++ -DALIGNSTATS_IGNORE -I/<>/external/vcflib -I/<>/external/freebayes/src -I/usr/include/jsoncpp -I/usr/include/bamtools -I/<>/VariantCaller -I/<>/VariantCaller/FlowDistEval -I/<>/VariantCaller/EnsembleEval -I/<>/VariantCaller/Bookkeeping -I/<>/VariantCaller/Reads -I/<>/VariantCaller/Splice -I/<>/VariantCaller/Filter -I/<>/realignment -I/<>/file-io -I/<>/BaseCaller -I/<>/Calibration -I/<>/Util -I/<> -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse3 -o CMakeFiles/tvc.dir/Util/OptArgs.cpp.o -c /<>/Util/OptArgs.cpp [ 92%] Building CXX object CMakeFiles/tvc.dir/realignment/Realigner.cpp.o /usr/bin/x86_64-linux-gnu-g++ -DALIGNSTATS_IGNORE -I/<>/external/vcflib -I/<>/external/freebayes/src -I/usr/include/jsoncpp -I/usr/include/bamtools -I/<>/VariantCaller -I/<>/VariantCaller/FlowDistEval -I/<>/VariantCaller/EnsembleEval -I/<>/VariantCaller/Bookkeeping -I/<>/VariantCaller/Reads -I/<>/VariantCaller/Splice -I/<>/VariantCaller/Filter -I/<>/realignment -I/<>/file-io -I/<>/BaseCaller -I/<>/Calibration -I/<>/Util -I/<> -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse3 -o CMakeFiles/tvc.dir/realignment/Realigner.cpp.o -c /<>/realignment/Realigner.cpp [ 93%] Building C object CMakeFiles/tvc.dir/file-io/ion_util.c.o /usr/bin/x86_64-linux-gnu-gcc -DALIGNSTATS_IGNORE -I/<>/external/vcflib -I/<>/external/freebayes/src -I/usr/include/jsoncpp -I/usr/include/bamtools -I/<>/VariantCaller -I/<>/VariantCaller/FlowDistEval -I/<>/VariantCaller/EnsembleEval -I/<>/VariantCaller/Bookkeeping -I/<>/VariantCaller/Reads -I/<>/VariantCaller/Splice -I/<>/VariantCaller/Filter -I/<>/realignment -I/<>/file-io -I/<>/BaseCaller -I/<>/Calibration -I/<>/Util -I/<> -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/tvc.dir/file-io/ion_util.c.o -c /<>/file-io/ion_util.c [ 95%] Building C object CMakeFiles/tvc.dir/file-io/ion_error.c.o /usr/bin/x86_64-linux-gnu-gcc -DALIGNSTATS_IGNORE -I/<>/external/vcflib -I/<>/external/freebayes/src -I/usr/include/jsoncpp -I/usr/include/bamtools -I/<>/VariantCaller -I/<>/VariantCaller/FlowDistEval -I/<>/VariantCaller/EnsembleEval -I/<>/VariantCaller/Bookkeeping -I/<>/VariantCaller/Reads -I/<>/VariantCaller/Splice -I/<>/VariantCaller/Filter -I/<>/realignment -I/<>/file-io -I/<>/BaseCaller -I/<>/Calibration -I/<>/Util -I/<> -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/tvc.dir/file-io/ion_error.c.o -c /<>/file-io/ion_error.c [ 96%] Building CXX object CMakeFiles/tvc.dir/IonVersion.cpp.o /usr/bin/x86_64-linux-gnu-g++ -DALIGNSTATS_IGNORE -I/<>/external/vcflib -I/<>/external/freebayes/src -I/usr/include/jsoncpp -I/usr/include/bamtools -I/<>/VariantCaller -I/<>/VariantCaller/FlowDistEval -I/<>/VariantCaller/EnsembleEval -I/<>/VariantCaller/Bookkeeping -I/<>/VariantCaller/Reads -I/<>/VariantCaller/Splice -I/<>/VariantCaller/Filter -I/<>/realignment -I/<>/file-io -I/<>/BaseCaller -I/<>/Calibration -I/<>/Util -I/<> -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse3 -o CMakeFiles/tvc.dir/IonVersion.cpp.o -c /<>/obj-x86_64-linux-gnu/IonVersion.cpp [ 98%] Building CXX object CMakeFiles/tvc.dir/BaseCaller/TreephaserSSE.cpp.o /usr/bin/x86_64-linux-gnu-g++ -DALIGNSTATS_IGNORE -I/<>/external/vcflib -I/<>/external/freebayes/src -I/usr/include/jsoncpp -I/usr/include/bamtools -I/<>/VariantCaller -I/<>/VariantCaller/FlowDistEval -I/<>/VariantCaller/EnsembleEval -I/<>/VariantCaller/Bookkeeping -I/<>/VariantCaller/Reads -I/<>/VariantCaller/Splice -I/<>/VariantCaller/Filter -I/<>/realignment -I/<>/file-io -I/<>/BaseCaller -I/<>/Calibration -I/<>/Util -I/<> -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse3 -o CMakeFiles/tvc.dir/BaseCaller/TreephaserSSE.cpp.o -c /<>/BaseCaller/TreephaserSSE.cpp [100%] Linking CXX executable tvc /usr/bin/cmake -E cmake_link_script CMakeFiles/tvc.dir/link.txt --verbose=1 /usr/bin/x86_64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse3 -Wl,-z,relro -rdynamic CMakeFiles/tvc.dir/VariantCaller/VariantCaller.cpp.o CMakeFiles/tvc.dir/VariantCaller/BAMWalkerEngine.cpp.o CMakeFiles/tvc.dir/VariantCaller/OrderedBAMWriter.cpp.o CMakeFiles/tvc.dir/VariantCaller/SampleManager.cpp.o CMakeFiles/tvc.dir/VariantCaller/TargetsManager.cpp.o CMakeFiles/tvc.dir/VariantCaller/HandleVariant.cpp.o CMakeFiles/tvc.dir/VariantCaller/HotspotReader.cpp.o CMakeFiles/tvc.dir/VariantCaller/MetricsManager.cpp.o CMakeFiles/tvc.dir/VariantCaller/Bookkeeping/MiscUtil.cpp.o CMakeFiles/tvc.dir/VariantCaller/Bookkeeping/ExtendParameters.cpp.o CMakeFiles/tvc.dir/VariantCaller/Bookkeeping/InputStructures.cpp.o CMakeFiles/tvc.dir/VariantCaller/Bookkeeping/VcfFormat.cpp.o CMakeFiles/tvc.dir/VariantCaller/Reads/ExtendedReadInfo.cpp.o CMakeFiles/tvc.dir/VariantCaller/Splice/ErrorMotifs.cpp.o CMakeFiles/tvc.dir/VariantCaller/Splice/LocalContext.cpp.o CMakeFiles/tvc.dir/VariantCaller/Splice/ClassifyVariant.cpp.o CMakeFiles/tvc.dir/VariantCaller/Splice/SpliceVariantHypotheses.cpp.o CMakeFiles/tvc.dir/VariantCaller/Filter/DecisionTreeData.cpp.o CMakeFiles/tvc.dir/VariantCaller/Filter/VariantAssist.cpp.o CMakeFiles/tvc.dir/VariantCaller/HypothesisEvaluator.cpp.o CMakeFiles/tvc.dir/VariantCaller/EnsembleEval/DiagnosticJSON.cpp.o CMakeFiles/tvc.dir/VariantCaller/EnsembleEval/BiasGenerator.cpp.o CMakeFiles/tvc.dir/VariantCaller/EnsembleEval/SigmaGenerator.cpp.o CMakeFiles/tvc.dir/VariantCaller/EnsembleEval/SkewGenerator.cpp.o CMakeFiles/tvc.dir/VariantCaller/EnsembleEval/PosteriorInference.cpp.o CMakeFiles/tvc.dir/VariantCaller/EnsembleEval/ShortStack.cpp.o CMakeFiles/tvc.dir/VariantCaller/EnsembleEval/StackEngine.cpp.o CMakeFiles/tvc.dir/VariantCaller/EnsembleEval/CrossHypotheses.cpp.o CMakeFiles/tvc.dir/external/vcflib/Variant.cpp.o CMakeFiles/tvc.dir/external/vcflib/split.cpp.o CMakeFiles/tvc.dir/external/vcflib/tabixpp/tabix.cpp.o CMakeFiles/tvc.dir/external/vcflib/tabixpp/index.c.o CMakeFiles/tvc.dir/external/vcflib/tabixpp/bgzf.c.o CMakeFiles/tvc.dir/external/freebayes/src/AlleleParser.cpp.o CMakeFiles/tvc.dir/BaseCaller/PIDloop.cpp.o CMakeFiles/tvc.dir/BaseCaller/DPTreephaser.cpp.o CMakeFiles/tvc.dir/Calibration/LinearCalibrationModel.cpp.o CMakeFiles/tvc.dir/Calibration/FlowAlignment.cpp.o CMakeFiles/tvc.dir/Util/OptArgs.cpp.o CMakeFiles/tvc.dir/realignment/Realigner.cpp.o CMakeFiles/tvc.dir/file-io/ion_util.c.o CMakeFiles/tvc.dir/file-io/ion_error.c.o CMakeFiles/tvc.dir/IonVersion.cpp.o CMakeFiles/tvc.dir/BaseCaller/TreephaserSSE.cpp.o -o tvc -lbamtools -lz -lpthread -lblas -llapack -larmadillo -ljsoncpp -lsmithwaterman -ldisorder make[3]: Leaving directory '/<>/obj-x86_64-linux-gnu' [100%] Built target tvc make[2]: Leaving directory '/<>/obj-x86_64-linux-gnu' /usr/bin/cmake -E cmake_progress_start /<>/obj-x86_64-linux-gnu/CMakeFiles 0 make[1]: Leaving directory '/<>/obj-x86_64-linux-gnu' dh_auto_test -a create-stamp debian/debhelper-build-stamp dh_prep -a dh_auto_install -a cd obj-x86_64-linux-gnu && make -j1 install DESTDIR=/<>/tvc-5.0.3\+git20151221.80e144e\+dfsg/debian/tvc AM_UPDATE_INFO_DIR=no "INSTALL=install --strip-program=true" make[1]: Entering directory '/<>/obj-x86_64-linux-gnu' /usr/bin/cmake -S/<> -B/<>/obj-x86_64-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /<>/obj-x86_64-linux-gnu/CMakeFiles /<>/obj-x86_64-linux-gnu//CMakeFiles/progress.marks make -f CMakeFiles/Makefile2 all make[2]: Entering directory '/<>/obj-x86_64-linux-gnu' make -f CMakeFiles/tvcutils.dir/build.make CMakeFiles/tvcutils.dir/depend make[3]: Entering directory '/<>/obj-x86_64-linux-gnu' cd /<>/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-x86_64-linux-gnu /<>/obj-x86_64-linux-gnu /<>/obj-x86_64-linux-gnu/CMakeFiles/tvcutils.dir/DependInfo.cmake --color= make[3]: Leaving directory '/<>/obj-x86_64-linux-gnu' make -f CMakeFiles/tvcutils.dir/build.make CMakeFiles/tvcutils.dir/build make[3]: Entering directory '/<>/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'CMakeFiles/tvcutils.dir/build'. make[3]: Leaving directory '/<>/obj-x86_64-linux-gnu' [ 20%] Built target tvcutils make -f CMakeFiles/tvcassembly.dir/build.make CMakeFiles/tvcassembly.dir/depend make[3]: Entering directory '/<>/obj-x86_64-linux-gnu' cd /<>/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-x86_64-linux-gnu /<>/obj-x86_64-linux-gnu /<>/obj-x86_64-linux-gnu/CMakeFiles/tvcassembly.dir/DependInfo.cmake --color= make[3]: Leaving directory '/<>/obj-x86_64-linux-gnu' make -f CMakeFiles/tvcassembly.dir/build.make CMakeFiles/tvcassembly.dir/build make[3]: Entering directory '/<>/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'CMakeFiles/tvcassembly.dir/build'. make[3]: Leaving directory '/<>/obj-x86_64-linux-gnu' [ 30%] Built target tvcassembly make -f CMakeFiles/tvc.dir/build.make CMakeFiles/tvc.dir/depend make[3]: Entering directory '/<>/obj-x86_64-linux-gnu' cd /<>/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-x86_64-linux-gnu /<>/obj-x86_64-linux-gnu /<>/obj-x86_64-linux-gnu/CMakeFiles/tvc.dir/DependInfo.cmake --color= make[3]: Leaving directory '/<>/obj-x86_64-linux-gnu' make -f CMakeFiles/tvc.dir/build.make CMakeFiles/tvc.dir/build make[3]: Entering directory '/<>/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'CMakeFiles/tvc.dir/build'. make[3]: Leaving directory '/<>/obj-x86_64-linux-gnu' [100%] Built target tvc make[2]: Leaving directory '/<>/obj-x86_64-linux-gnu' /usr/bin/cmake -E cmake_progress_start /<>/obj-x86_64-linux-gnu/CMakeFiles 0 make -f CMakeFiles/Makefile2 preinstall make[2]: Entering directory '/<>/obj-x86_64-linux-gnu' make[2]: Nothing to be done for 'preinstall'. make[2]: Leaving directory '/<>/obj-x86_64-linux-gnu' Install the project... /usr/bin/cmake -P cmake_install.cmake -- Install configuration: "None" -- Installing: /<>/debian/tvc/usr/bin/tvc -- Installing: /<>/debian/tvc/usr/bin/tvcassembly -- Installing: /<>/debian/tvc/usr/bin/tvcutils -- Installing: /<>/debian/tvc/usr/bin/variant_caller_pipeline.py -- Installing: /<>/debian/tvc/usr/share/TVC/pluginMedia -- Installing: /<>/debian/tvc/usr/share/TVC/pluginMedia/parameter_sets -- Installing: /<>/debian/tvc/usr/share/TVC/pluginMedia/parameter_sets/pgx4_germline_lowstringency_pgm_parameters.json -- Installing: /<>/debian/tvc/usr/share/TVC/pluginMedia/parameter_sets/ampliseq_somatic_lowstringency_pgm_parameters.json -- Installing: /<>/debian/tvc/usr/share/TVC/pluginMedia/parameter_sets/ampliseqexome_germline_lowstringency_p1_parameters.json -- Installing: /<>/debian/tvc/usr/share/TVC/pluginMedia/parameter_sets/ampliseq_germline_lowstringency_pgm_parameters.json -- Installing: /<>/debian/tvc/usr/share/TVC/pluginMedia/parameter_sets/ampliseqexome_somatic_lowstringency_p1_parameters.json -- Installing: /<>/debian/tvc/usr/share/TVC/pluginMedia/parameter_sets/ocp_somatic_lowstringency_pgm_parameters.json -- Installing: /<>/debian/tvc/usr/share/TVC/pluginMedia/parameter_sets/targetseq_germline_lowstringency_p1_parameters.json -- Installing: /<>/debian/tvc/usr/share/TVC/sse -- Installing: /<>/debian/tvc/usr/share/TVC/sse/motifset.txt -- Installing: /<>/debian/tvc/usr/share/TVC/sse/ampliseqexome_germline_p1_hiq_motifset.txt -- Installing: /<>/debian/tvc/usr/share/TVC/examples -- Installing: /<>/debian/tvc/usr/share/TVC/examples/example1 -- Installing: /<>/debian/tvc/usr/share/TVC/examples/example1/reference.fasta -- Installing: /<>/debian/tvc/usr/share/TVC/examples/example1/test.bam -- Installing: /<>/debian/tvc/usr/share/TVC/examples/example1/test.bam.bai -- Installing: /<>/debian/tvc/usr/share/TVC/examples/example1/test.bed -- Installing: /<>/debian/tvc/usr/share/TVC/examples/example1/expected -- Installing: /<>/debian/tvc/usr/share/TVC/examples/example1/expected/small_variants.vcf -- Installing: /<>/debian/tvc/usr/share/TVC/examples/example1/expected/TSVC_variants.vcf -- Installing: /<>/debian/tvc/usr/share/TVC/examples/example1/test_unmerged_detail.bed -- Installing: /<>/debian/tvc/usr/share/TVC/examples/example1/test_merged_plain.bed -- Installing: /<>/debian/tvc/usr/share/TVC/examples/example1/test_original.bed -- Installing: /<>/debian/tvc/usr/share/TVC/examples/example1/reference.fasta.fai -- Installing: /<>/debian/tvc/usr/share/TVC/examples/example1/reference.dict make[1]: Leaving directory '/<>/obj-x86_64-linux-gnu' dh_installdocs -a dh_installchangelogs -a dh_lintian -a dh_perl -a dh_link -a dh_strip_nondeterminism -a dh_compress -a dh_fixperms -a dh_missing -a dh_dwz -a dh_strip -a dh_makeshlibs -a dh_shlibdeps -a dpkg-shlibdeps: warning: package could avoid a useless dependency if debian/tvc/usr/bin/tvcutils debian/tvc/usr/bin/tvc were not linked against libdisorder.so.0 (they use none of the library's symbols) dh_installdeb -a dh_gencontrol -a dh_md5sums -a dh_builddeb -a dpkg-deb: building package 'tvc' in '../tvc_5.0.3+git20151221.80e144e+dfsg-3_amd64.deb'. dpkg-deb: building package 'tvc-dbgsym' in '../tvc-dbgsym_5.0.3+git20151221.80e144e+dfsg-3_amd64.deb'. dpkg-genbuildinfo --build=any dpkg-genchanges --build=any >../tvc_5.0.3+git20151221.80e144e+dfsg-3_amd64.changes dpkg-genchanges: info: binary-only arch-specific upload (source code and arch-indep packages not included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) -------------------------------------------------------------------------------- Build finished at 2021-08-22T06:54:55Z Finished -------- I: Built successfully +------------------------------------------------------------------------------+ | Changes | +------------------------------------------------------------------------------+ tvc_5.0.3+git20151221.80e144e+dfsg-3_amd64.changes: --------------------------------------------------- Format: 1.8 Date: Sun, 01 Mar 2020 15:57:45 +1100 Source: tvc Binary: tvc tvc-dbgsym Built-For-Profiles: cross nocheck Architecture: amd64 Version: 5.0.3+git20151221.80e144e+dfsg-3 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Stuart Prescott Description: tvc - genetic variant caller for Ion Torrent sequencing platforms Closes: 945720 Changes: tvc (5.0.3+git20151221.80e144e+dfsg-3) unstable; urgency=medium . * Team upload. * Use Python 3 in scripts (Closes: #945720). * Add Rules-Requires-Root: no. * Update Standards-Version to 4.5.0 (no changes required). * Switch to debhelper-compat (= 12). 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tvc_5.0.3+git20151221.80e144e+dfsg-3_amd64.deb +------------------------------------------------------------------------------+ | Buildinfo | +------------------------------------------------------------------------------+ Format: 1.0 Source: tvc Binary: tvc tvc-dbgsym Architecture: amd64 Version: 5.0.3+git20151221.80e144e+dfsg-3 Checksums-Md5: e733ae5ab59463b4095c339db7322ea1 10855504 tvc-dbgsym_5.0.3+git20151221.80e144e+dfsg-3_amd64.deb 883d29df814dce0074a4cadc66b97203 1069788 tvc_5.0.3+git20151221.80e144e+dfsg-3_amd64.deb Checksums-Sha1: 4da7d15e0099fc5064435e9e2afc9afd083388fe 10855504 tvc-dbgsym_5.0.3+git20151221.80e144e+dfsg-3_amd64.deb d6aeb357eb31172f6a4e20844081540d70b4a76b 1069788 tvc_5.0.3+git20151221.80e144e+dfsg-3_amd64.deb Checksums-Sha256: 2dfbfce41b3614459234e567ed0daf84091c060f44a0ecb10252fb7c29c1ffd5 10855504 tvc-dbgsym_5.0.3+git20151221.80e144e+dfsg-3_amd64.deb 193e20d9a8cb558d039e00a30d2262a508c6c0b5d640fe91a743c70e8b249e88 1069788 tvc_5.0.3+git20151221.80e144e+dfsg-3_amd64.deb Build-Origin: Debian Build-Architecture: arm64 Build-Date: Sun, 22 Aug 2021 06:54:54 +0000 Build-Path: /<> Installed-Build-Depends: autoconf (= 2.69-14), automake (= 1:1.16.4-1), autopoint (= 0.21-4), autotools-dev (= 20180224.1+nmu1), base-files (= 11.1), base-passwd (= 3.5.51), bash (= 5.1-3+b1), binutils (= 2.37-4), binutils-aarch64-linux-gnu (= 2.37-4), binutils-common (= 2.37-4), bsdextrautils (= 2.37.2-1), bsdutils (= 1:2.37.2-1), build-essential (= 12.9), bzip2 (= 1.0.8-4), cmake (= 3.18.4-2), cmake-data (= 3.18.4-2), coreutils (= 8.32-4), cpp (= 4:10.2.1-1), cpp-10 (= 10.2.1-6), dash (= 0.5.11+git20210120+802ebd4-1), debconf (= 1.5.77), debhelper (= 13.4.1), debianutils (= 5.3-1), dh-autoreconf (= 20), dh-strip-nondeterminism (= 1.12.0-1), diffutils (= 1:3.7-5), dpkg (= 1.20.9), dpkg-dev (= 1.20.9), dwz (= 0.14-1), file (= 1:5.39-3), findutils (= 4.8.0-1), g++ (= 4:10.2.1-1), g++-10 (= 10.2.1-6), gcc (= 4:10.2.1-1), gcc-10 (= 10.2.1-6), gcc-10-base (= 10.2.1-6), gcc-11-base (= 11.2.0-2), gettext (= 0.21-4), gettext-base (= 0.21-4), grep (= 3.6-1), groff-base (= 1.22.4-6), gzip (= 1.10-4), hdf5-helpers (= 1.10.6+repack-5), hostname (= 3.23), init-system-helpers (= 1.60), intltool-debian (= 0.35.0+20060710.5), libacl1 (= 2.2.53-10), libaec-dev (= 1.0.5-2), libaec0 (= 1.0.5-2), libarchive-zip-perl (= 1.68-1), libarchive13 (= 3.4.3-2+b1), libarmadillo-dev (= 1:10.1.2+dfsg-6+b1), libarmadillo10 (= 1:10.1.2+dfsg-6+b1), libarpack2 (= 3.8.0-1), libarpack2-dev (= 3.8.0-1), libasan6 (= 11.2.0-2), libatomic1 (= 11.2.0-2), libattr1 (= 1:2.4.48-6), libaudit-common (= 1:3.0.5-1), libaudit1 (= 1:3.0.5-1), libbamtools-dev (= 2.5.1+dfsg-9), libbamtools2.5.1 (= 2.5.1+dfsg-9), libbinutils (= 2.37-4), libblas-dev (= 3.9.0-3), libblas3 (= 3.9.0-3), libblkid1 (= 2.37.2-1), libboost-math-dev (= 1.74.0.3), libboost-math1.74-dev (= 1.74.0-9), libboost-math1.74.0 (= 1.74.0-9), libboost1.74-dev (= 1.74.0-9), libbrotli1 (= 1.0.9-2+b2), libbz2-1.0 (= 1.0.8-4), libc-bin (= 2.31-16), libc-dev-bin (= 2.31-16), libc6 (= 2.31-16), libc6-dev (= 2.31-16), libcap-ng0 (= 0.7.9-2.2+b1), libcc1-0 (= 11.2.0-2), libcom-err2 (= 1.46.4-1), libcrypt-dev (= 1:4.4.25-1), libcrypt1 (= 1:4.4.25-1), libctf-nobfd0 (= 2.37-4), libctf0 (= 2.37-4), libcurl4 (= 7.74.0-1.3+b1), libdb5.3 (= 5.3.28+dfsg1-0.8), libdebconfclient0 (= 0.260), libdebhelper-perl (= 13.4.1), libdisorder-dev (= 0.0.2+git20130809.8062ee1-3), libdisorder0 (= 0.0.2+git20130809.8062ee1-3), libdpkg-perl (= 1.20.9), libelf1 (= 0.185-2), libexpat1 (= 2.2.10-2), libffi7 (= 3.3-6), libfile-stripnondeterminism-perl (= 1.12.0-1), libgcc-10-dev (= 10.2.1-6), libgcc-s1 (= 11.2.0-2), libgcrypt20 (= 1.8.7-6), libgdbm-compat4 (= 1.19-2), libgdbm6 (= 1.19-2), libgfortran5 (= 11.2.0-2), libgmp10 (= 2:6.2.1+dfsg-1), libgnutls30 (= 3.7.1-5), libgomp1 (= 11.2.0-2), libgpg-error0 (= 1.42-2), libgssapi-krb5-2 (= 1.18.3-6), libhdf5-103-1 (= 1.10.6+repack-5), libhdf5-cpp-103-1 (= 1.10.6+repack-5), libhdf5-dev (= 1.10.6+repack-5), libhdf5-fortran-102 (= 1.10.6+repack-5), libhdf5-hl-100 (= 1.10.6+repack-5), libhdf5-hl-cpp-100 (= 1.10.6+repack-5), libhdf5-hl-fortran-100 (= 1.10.6+repack-5), libhogweed6 (= 3.7.3-1), libicu67 (= 67.1-7), libidn2-0 (= 2.3.2-2), libisl23 (= 0.23-1), libitm1 (= 11.2.0-2), libjpeg-dev (= 1:2.0.6-4), libjpeg62-turbo (= 1:2.0.6-4), libjpeg62-turbo-dev (= 1:2.0.6-4), libjsoncpp-dev (= 1.9.4-4), libjsoncpp24 (= 1.9.4-4), libk5crypto3 (= 1.18.3-6), libkeyutils1 (= 1.6.1-2), libkrb5-3 (= 1.18.3-6), libkrb5support0 (= 1.18.3-6), liblapack-dev (= 3.9.0-3), liblapack3 (= 3.9.0-3), libldap-2.4-2 (= 2.4.57+dfsg-3), liblsan0 (= 11.2.0-2), liblz4-1 (= 1.9.3-2), liblzma5 (= 5.2.5-2), libmagic-mgc (= 1:5.39-3), libmagic1 (= 1:5.39-3), libmount1 (= 2.37.2-1), libmpc3 (= 1.2.0-1), libmpfr6 (= 4.1.0-3), libncurses6 (= 6.2+20201114-2), libncursesw6 (= 6.2+20201114-2), libnettle8 (= 3.7.3-1), libnghttp2-14 (= 1.43.0-1), libnsl-dev (= 1.3.0-2), libnsl2 (= 1.3.0-2), libp11-kit0 (= 0.23.22-1), libpam-modules (= 1.4.0-9), libpam-modules-bin (= 1.4.0-9), libpam-runtime (= 1.4.0-9), libpam0g (= 1.4.0-9), libpcre2-8-0 (= 10.36-2), libpcre3 (= 2:8.39-13), libperl5.32 (= 5.32.1-5), libpipeline1 (= 1.5.3-1), libprocps8 (= 2:3.3.17-5), libpsl5 (= 0.21.0-1.2), libquadmath0 (= 11.2.0-2), librhash0 (= 1.4.1-2), librtmp1 (= 2.4+20151223.gitfa8646d.1-2+b2), libsasl2-2 (= 2.1.27+dfsg-2.1), libsasl2-modules-db (= 2.1.27+dfsg-2.1), libseccomp2 (= 2.5.1-1), libselinux1 (= 3.1-3), libsigsegv2 (= 2.13-1), libsmartcols1 (= 2.37.2-1), libsmithwaterman-dev (= 0.0+git20160702.2610e25-11), libsmithwaterman0 (= 0.0+git20160702.2610e25-11), libssh2-1 (= 1.9.0-3), libssl1.1 (= 1.1.1k-1), libstdc++-10-dev (= 10.2.1-6), libstdc++6 (= 11.2.0-2), libsub-override-perl (= 0.09-2), libsuperlu-dev (= 5.2.2+dfsg1-2), libsuperlu5 (= 5.2.2+dfsg1-2), libsystemd0 (= 247.9-1), libsz2 (= 1.0.5-2), libtasn1-6 (= 4.16.0-2), libtinfo6 (= 6.2+20201114-2), libtirpc-common (= 1.3.2-2), libtirpc-dev (= 1.3.2-2), libtirpc3 (= 1.3.2-2), libtool (= 2.4.6-15), libtsan0 (= 11.2.0-2), libubsan1 (= 11.2.0-2), libuchardet0 (= 0.0.7-1), libudev1 (= 247.9-1), libunistring2 (= 0.9.10-6), libuuid1 (= 2.37.2-1), libuv1 (= 1.40.0-2), libxml2 (= 2.9.10+dfsg-6.7), libzstd1 (= 1.4.8+dfsg-2.1), linux-libc-dev (= 5.10.46-4), login (= 1:4.8.1-1), lsb-base (= 11.1.0), m4 (= 1.4.18-5), make (= 4.3-4.1), man-db (= 2.9.4-2), mawk (= 1.3.4.20200120-2), ncurses-base (= 6.2+20201114-2), ncurses-bin (= 6.2+20201114-2), patch (= 2.7.6-7), perl (= 5.32.1-5), perl-base (= 5.32.1-5), perl-modules-5.32 (= 5.32.1-5), po-debconf (= 1.0.21+nmu1), procps (= 2:3.3.17-5), rpcsvc-proto (= 1.4.2-4), sed (= 4.7-1), sensible-utils (= 0.0.14), sysvinit-utils (= 2.96-7), tar (= 1.34+dfsg-1), util-linux (= 2.37.2-1), xz-utils (= 5.2.5-2), zlib1g (= 1:1.2.11.dfsg-2), zlib1g-dev (= 1:1.2.11.dfsg-2) Environment: DEB_BUILD_OPTIONS="nocheck parallel=1" DEB_BUILD_PROFILES="cross nocheck" LANG="en_GB.UTF-8" LC_ALL="C.UTF-8" SOURCE_DATE_EPOCH="1583038665" +------------------------------------------------------------------------------+ | Package contents | +------------------------------------------------------------------------------+ tvc-dbgsym_5.0.3+git20151221.80e144e+dfsg-3_amd64.deb ----------------------------------------------------- new Debian package, version 2.0. size 10855504 bytes: control archive=708 bytes. 488 bytes, 12 lines control 398 bytes, 4 lines md5sums Package: tvc-dbgsym Source: tvc Version: 5.0.3+git20151221.80e144e+dfsg-3 Auto-Built-Package: debug-symbols Architecture: amd64 Maintainer: Debian Med Packaging Team Installed-Size: 11014 Depends: tvc (= 5.0.3+git20151221.80e144e+dfsg-3) Section: debug Priority: optional Description: debug symbols for tvc Build-Ids: 410b6c9ef72cea741c9ffb88f74f4504f01a1b9b 5de9ca4dbf2f09c4f8e3fc4aca354bb5932d5534 678a746fdb1d9a55ffeacc3e573324ad78a33fc4 drwxr-xr-x root/root 0 2020-03-01 04:57 ./ drwxr-xr-x root/root 0 2020-03-01 04:57 ./usr/ drwxr-xr-x root/root 0 2020-03-01 04:57 ./usr/lib/ drwxr-xr-x root/root 0 2020-03-01 04:57 ./usr/lib/debug/ drwxr-xr-x root/root 0 2020-03-01 04:57 ./usr/lib/debug/.build-id/ drwxr-xr-x root/root 0 2020-03-01 04:57 ./usr/lib/debug/.build-id/41/ -rw-r--r-- root/root 2405768 2020-03-01 04:57 ./usr/lib/debug/.build-id/41/0b6c9ef72cea741c9ffb88f74f4504f01a1b9b.debug drwxr-xr-x root/root 0 2020-03-01 04:57 ./usr/lib/debug/.build-id/5d/ -rw-r--r-- root/root 7622104 2020-03-01 04:57 ./usr/lib/debug/.build-id/5d/e9ca4dbf2f09c4f8e3fc4aca354bb5932d5534.debug drwxr-xr-x root/root 0 2020-03-01 04:57 ./usr/lib/debug/.build-id/67/ -rw-r--r-- root/root 787960 2020-03-01 04:57 ./usr/lib/debug/.build-id/67/8a746fdb1d9a55ffeacc3e573324ad78a33fc4.debug drwxr-xr-x root/root 0 2020-03-01 04:57 ./usr/lib/debug/.dwz/ drwxr-xr-x root/root 0 2020-03-01 04:57 ./usr/lib/debug/.dwz/x86_64-linux-gnu/ -rw-r--r-- root/root 446384 2020-03-01 04:57 ./usr/lib/debug/.dwz/x86_64-linux-gnu/tvc.debug drwxr-xr-x root/root 0 2020-03-01 04:57 ./usr/share/ drwxr-xr-x root/root 0 2020-03-01 04:57 ./usr/share/doc/ lrwxrwxrwx root/root 0 2020-03-01 04:57 ./usr/share/doc/tvc-dbgsym -> tvc tvc_5.0.3+git20151221.80e144e+dfsg-3_amd64.deb ---------------------------------------------- new Debian package, version 2.0. size 1069788 bytes: control archive=1676 bytes. 993 bytes, 16 lines control 2459 bytes, 28 lines md5sums Package: tvc Version: 5.0.3+git20151221.80e144e+dfsg-3 Architecture: amd64 Maintainer: Debian Med Packaging Team Installed-Size: 3369 Depends: libarmadillo10 (>= 1:10.1.2+dfsg), libbamtools2.5.1 (>= 2.5.1+dfsg), libc6 (>= 2.29), libdisorder0 (>= 0.0.2), libgcc-s1 (>= 3.0), libjsoncpp24 (>= 1.9.4), libsmithwaterman0 (>= 0.0+git20160702.2610e25), libstdc++6 (>= 9), zlib1g (>= 1:1.1.4), python3 Section: science Priority: optional Homepage: http://ioncommunity.thermofisher.com Description: genetic variant caller for Ion Torrent sequencing platforms Torrent Variant Caller (TVC) is a genetic variant caller for Ion Torrent sequencing platforms, and is specially optimized to exploit the underlying flow signal information in the statistical model to evaluate variants. Torrent Variant Caller is designed to call single-nucleotide polymorphisms (SNPs), multi-nucleotide polymorphisms (MNPs), insertions, deletions, and block substitutions. drwxr-xr-x root/root 0 2020-03-01 04:57 ./ drwxr-xr-x root/root 0 2020-03-01 04:57 ./usr/ drwxr-xr-x root/root 0 2020-03-01 04:57 ./usr/bin/ -rwxr-xr-x root/root 1157000 2020-03-01 04:57 ./usr/bin/tvc -rwxr-xr-x root/root 220808 2020-03-01 04:57 ./usr/bin/tvcassembly -rwxr-xr-x root/root 622680 2020-03-01 04:57 ./usr/bin/tvcutils -rwxr-xr-x root/root 12985 2020-03-01 04:57 ./usr/bin/variant_caller_pipeline.py drwxr-xr-x root/root 0 2020-03-01 04:57 ./usr/share/ drwxr-xr-x root/root 0 2020-03-01 04:57 ./usr/share/TVC/ drwxr-xr-x root/root 0 2020-03-01 04:57 ./usr/share/TVC/examples/ drwxr-xr-x root/root 0 2020-03-01 04:57 ./usr/share/TVC/examples/example1/ drwxr-xr-x root/root 0 2020-03-01 04:57 ./usr/share/TVC/examples/example1/expected/ -rw-r--r-- root/root 6876 2015-12-21 20:38 ./usr/share/TVC/examples/example1/expected/TSVC_variants.vcf -rw-r--r-- root/root 6479 2015-12-21 20:38 ./usr/share/TVC/examples/example1/expected/small_variants.vcf -rw-r--r-- root/root 108 2015-12-21 20:38 ./usr/share/TVC/examples/example1/reference.dict -rw-r--r-- root/root 3400 2015-12-21 20:38 ./usr/share/TVC/examples/example1/reference.fasta -rw-r--r-- root/root 22 2015-12-21 20:38 ./usr/share/TVC/examples/example1/reference.fasta.fai -rw-r--r-- root/root 225904 2015-12-21 20:38 ./usr/share/TVC/examples/example1/test.bam -rw-r--r-- root/root 96 2015-12-21 20:38 ./usr/share/TVC/examples/example1/test.bam.bai -rw-r--r-- root/root 13 2015-12-21 20:38 ./usr/share/TVC/examples/example1/test.bed -rw-r--r-- root/root 13 2015-12-21 20:38 ./usr/share/TVC/examples/example1/test_merged_plain.bed -rw-r--r-- root/root 13 2015-12-21 20:38 ./usr/share/TVC/examples/example1/test_original.bed -rw-r--r-- root/root 70 2015-12-21 20:38 ./usr/share/TVC/examples/example1/test_unmerged_detail.bed drwxr-xr-x root/root 0 2020-03-01 04:57 ./usr/share/TVC/pluginMedia/ drwxr-xr-x root/root 0 2020-03-01 04:57 ./usr/share/TVC/pluginMedia/parameter_sets/ -rw-r--r-- root/root 2809 2015-12-21 20:38 ./usr/share/TVC/pluginMedia/parameter_sets/ampliseq_germline_lowstringency_pgm_parameters.json -rw-r--r-- root/root 2926 2015-12-21 20:38 ./usr/share/TVC/pluginMedia/parameter_sets/ampliseq_somatic_lowstringency_pgm_parameters.json -rw-r--r-- root/root 2826 2015-12-21 20:38 ./usr/share/TVC/pluginMedia/parameter_sets/ampliseqexome_germline_lowstringency_p1_parameters.json -rw-r--r-- root/root 2918 2015-12-21 20:38 ./usr/share/TVC/pluginMedia/parameter_sets/ampliseqexome_somatic_lowstringency_p1_parameters.json -rw-r--r-- root/root 3062 2015-12-21 20:38 ./usr/share/TVC/pluginMedia/parameter_sets/ocp_somatic_lowstringency_pgm_parameters.json -rw-r--r-- root/root 2628 2015-12-21 20:38 ./usr/share/TVC/pluginMedia/parameter_sets/pgx4_germline_lowstringency_pgm_parameters.json -rw-r--r-- root/root 2757 2015-12-21 20:38 ./usr/share/TVC/pluginMedia/parameter_sets/targetseq_germline_lowstringency_p1_parameters.json drwxr-xr-x root/root 0 2020-03-01 04:57 ./usr/share/TVC/sse/ -rw-r--r-- root/root 683778 2015-12-21 20:38 ./usr/share/TVC/sse/ampliseqexome_germline_p1_hiq_motifset.txt -rw-r--r-- root/root 451754 2015-12-21 20:38 ./usr/share/TVC/sse/motifset.txt drwxr-xr-x root/root 0 2020-03-01 04:57 ./usr/share/doc/ drwxr-xr-x root/root 0 2020-03-01 04:57 ./usr/share/doc/tvc/ -rw-r--r-- root/root 1078 2020-03-01 04:46 ./usr/share/doc/tvc/README.Debian -rw-r--r-- root/root 1180 2020-03-01 04:57 ./usr/share/doc/tvc/changelog.Debian.gz -rw-r--r-- root/root 2939 2020-03-01 04:46 ./usr/share/doc/tvc/copyright drwxr-xr-x root/root 0 2020-03-01 04:57 ./usr/share/lintian/ drwxr-xr-x root/root 0 2020-03-01 04:57 ./usr/share/lintian/overrides/ -rw-r--r-- root/root 135 2020-03-01 04:46 ./usr/share/lintian/overrides/tvc lintian ------- Setup apt archive ----------------- Merged Build-Depends: lintian:arm64 Filtered Build-Depends: lintian:arm64 dpkg-deb: building package 'sbuild-build-depends-lintian-dummy' in '/<>/apt_archive/sbuild-build-depends-lintian-dummy.deb'. Ign:1 copy:/<>/apt_archive ./ InRelease Get:2 copy:/<>/apt_archive ./ Release [963 B] Ign:3 copy:/<>/apt_archive ./ Release.gpg Get:4 copy:/<>/apt_archive ./ Sources [580 B] Get:5 copy:/<>/apt_archive ./ Packages [665 B] Fetched 2208 B in 0s (52.7 kB/s) Reading package lists... Reading package lists... Install lintian build dependencies (apt-based resolver) ------------------------------------------------------- Installing build dependencies Reading package lists... Building dependency tree... Reading state information... The following additional packages will be installed: diffstat gpg gpgconf libaliased-perl libapt-pkg-perl libassuan0 libb-hooks-endofscope-perl libb-hooks-op-check-perl libcapture-tiny-perl libclass-data-inheritable-perl libclass-method-modifiers-perl libclass-xsaccessor-perl libclone-perl libconfig-tiny-perl libcpanel-json-xs-perl libdata-dpath-perl libdata-messagepack-perl libdata-optlist-perl libdata-validate-domain-perl libdevel-callchecker-perl libdevel-size-perl libdevel-stacktrace-perl libdynaloader-functions-perl libemail-address-xs-perl libexception-class-perl libexporter-tiny-perl libfile-basedir-perl libfile-find-rule-perl libfont-ttf-perl libhtml-html5-entities-perl libimport-into-perl libipc-run3-perl libipc-system-simple-perl libiterator-perl libiterator-util-perl libjson-maybexs-perl liblist-compare-perl liblist-moreutils-perl liblist-moreutils-xs-perl liblist-utilsby-perl liblzo2-2 libmarkdown2 libmodule-implementation-perl libmodule-runtime-perl libmoo-perl libmoox-aliases-perl libmouse-perl libnamespace-clean-perl libnet-domain-tld-perl libnumber-compare-perl libpackage-stash-perl libparams-classify-perl libparams-util-perl libpath-tiny-perl libperlio-gzip-perl libproc-processtable-perl libreadline8 librole-tiny-perl libsereal-decoder-perl libsereal-encoder-perl libsqlite3-0 libstrictures-perl libsub-exporter-perl libsub-exporter-progressive-perl libsub-identify-perl libsub-install-perl libsub-name-perl libsub-quote-perl libtext-glob-perl libtext-levenshteinxs-perl libtext-markdown-discount-perl libtext-xslate-perl libtime-duration-perl libtime-moment-perl libtimedate-perl libtry-tiny-perl libtype-tiny-perl libunicode-utf8-perl liburi-perl libvariable-magic-perl libyaml-0-2 libyaml-libyaml-perl lintian lzip lzop patchutils readline-common t1utils unzip Suggested packages: libxml-parser-perl libscalar-number-perl libbareword-filehandles-perl libindirect-perl libmultidimensional-perl libdevel-lexalias-perl libwww-perl binutils-multiarch libtext-template-perl readline-doc zip Recommended packages: gnupg libpackage-stash-xs-perl libref-util-perl libtype-tiny-xs-perl The following NEW packages will be installed: diffstat gpg gpgconf libaliased-perl libapt-pkg-perl libassuan0 libb-hooks-endofscope-perl libb-hooks-op-check-perl libcapture-tiny-perl libclass-data-inheritable-perl libclass-method-modifiers-perl libclass-xsaccessor-perl libclone-perl libconfig-tiny-perl libcpanel-json-xs-perl libdata-dpath-perl libdata-messagepack-perl libdata-optlist-perl libdata-validate-domain-perl libdevel-callchecker-perl libdevel-size-perl libdevel-stacktrace-perl libdynaloader-functions-perl libemail-address-xs-perl libexception-class-perl libexporter-tiny-perl libfile-basedir-perl libfile-find-rule-perl libfont-ttf-perl libhtml-html5-entities-perl libimport-into-perl libipc-run3-perl libipc-system-simple-perl libiterator-perl libiterator-util-perl libjson-maybexs-perl liblist-compare-perl liblist-moreutils-perl liblist-moreutils-xs-perl liblist-utilsby-perl liblzo2-2 libmarkdown2 libmodule-implementation-perl libmodule-runtime-perl libmoo-perl libmoox-aliases-perl libmouse-perl libnamespace-clean-perl libnet-domain-tld-perl libnumber-compare-perl libpackage-stash-perl libparams-classify-perl libparams-util-perl libpath-tiny-perl libperlio-gzip-perl libproc-processtable-perl libreadline8 librole-tiny-perl libsereal-decoder-perl libsereal-encoder-perl libsqlite3-0 libstrictures-perl libsub-exporter-perl libsub-exporter-progressive-perl libsub-identify-perl libsub-install-perl libsub-name-perl libsub-quote-perl libtext-glob-perl libtext-levenshteinxs-perl libtext-markdown-discount-perl libtext-xslate-perl libtime-duration-perl libtime-moment-perl libtimedate-perl libtry-tiny-perl libtype-tiny-perl libunicode-utf8-perl liburi-perl libvariable-magic-perl libyaml-0-2 libyaml-libyaml-perl lintian lzip lzop patchutils readline-common sbuild-build-depends-lintian-dummy:amd64 t1utils unzip 0 upgraded, 90 newly installed, 0 to remove and 0 not upgraded. Need to get 7451 kB of archives. After this operation, 21.3 MB of additional disk space will be used. Get:1 copy:/<>/apt_archive ./ sbuild-build-depends-lintian-dummy 0.invalid.0 [848 B] Get:2 http://mirror.einval.org/debian sid/main arm64 readline-common all 8.1-2 [73.8 kB] Get:3 http://mirror.einval.org/debian sid/main arm64 libreadline8 arm64 8.1-2 [160 kB] Get:4 http://mirror.einval.org/debian sid/main arm64 diffstat arm64 1.64-1 [34.6 kB] Get:5 http://mirror.einval.org/debian sid/main arm64 libassuan0 arm64 2.5.5-1 [49.3 kB] Get:6 http://mirror.einval.org/debian sid/main arm64 gpgconf arm64 2.2.27-2 [540 kB] Get:7 http://mirror.einval.org/debian sid/main arm64 libsqlite3-0 arm64 3.34.1-3 [750 kB] Get:8 http://mirror.einval.org/debian sid/main arm64 gpg arm64 2.2.27-2 [883 kB] Get:9 http://mirror.einval.org/debian sid/main arm64 libaliased-perl all 0.34-1.1 [14.1 kB] Get:10 http://mirror.einval.org/debian sid/main arm64 libapt-pkg-perl arm64 0.1.40 [69.4 kB] Get:11 http://mirror.einval.org/debian sid/main arm64 libb-hooks-op-check-perl arm64 0.22-1+b3 [11.2 kB] Get:12 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[19.8 kB] Get:82 http://mirror.einval.org/debian sid/main arm64 liburi-perl all 5.08-1 [90.6 kB] Get:83 http://mirror.einval.org/debian sid/main arm64 libyaml-0-2 arm64 0.2.2-1 [45.1 kB] Get:84 http://mirror.einval.org/debian sid/main arm64 libyaml-libyaml-perl arm64 0.82+repack-1+b1 [34.5 kB] Get:85 http://mirror.einval.org/debian sid/main arm64 lzip arm64 1.22-3 [84.7 kB] Get:86 http://mirror.einval.org/debian sid/main arm64 lzop arm64 1.04-2 [82.8 kB] Get:87 http://mirror.einval.org/debian sid/main arm64 patchutils arm64 0.4.2-1 [73.5 kB] Get:88 http://mirror.einval.org/debian sid/main arm64 t1utils arm64 1.41-4 [59.8 kB] Get:89 http://mirror.einval.org/debian sid/main arm64 unzip arm64 6.0-26 [165 kB] Get:90 http://mirror.einval.org/debian sid/main arm64 lintian all 2.104.0 [1265 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 7451 kB in 1s (7029 kB/s) Selecting previously unselected package readline-common. (Reading database ... 38266 files and directories currently installed.) Preparing to unpack .../00-readline-common_8.1-2_all.deb ... Unpacking readline-common (8.1-2) ... Selecting previously unselected package libreadline8:arm64. Preparing to unpack .../01-libreadline8_8.1-2_arm64.deb ... Unpacking libreadline8:arm64 (8.1-2) ... Selecting previously unselected package diffstat. Preparing to unpack .../02-diffstat_1.64-1_arm64.deb ... Unpacking diffstat (1.64-1) ... Selecting previously unselected package libassuan0:arm64. Preparing to unpack .../03-libassuan0_2.5.5-1_arm64.deb ... Unpacking libassuan0:arm64 (2.5.5-1) ... Selecting previously unselected package gpgconf. Preparing to unpack .../04-gpgconf_2.2.27-2_arm64.deb ... Unpacking gpgconf (2.2.27-2) ... Selecting previously unselected package libsqlite3-0:arm64. Preparing to unpack .../05-libsqlite3-0_3.34.1-3_arm64.deb ... Unpacking libsqlite3-0:arm64 (3.34.1-3) ... Selecting previously unselected package gpg. 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Setting up readline-common (8.1-2) ... Setting up libhtml-html5-entities-perl (0.004-1.1) ... Setting up libsereal-decoder-perl (4.018+ds-1+b1) ... Setting up libmarkdown2:arm64 (2.2.6-1) ... Setting up liburi-perl (5.08-1) ... Setting up libemail-address-xs-perl (1.04-1+b3) ... Setting up libfile-basedir-perl (0.08-1) ... Setting up liblist-moreutils-perl (0.430-2) ... Setting up libreadline8:arm64 (8.1-2) ... Setting up libtype-tiny-perl (1.012002-1) ... Setting up libtext-markdown-discount-perl:arm64 (0.13-1) ... Setting up libexception-class-perl (1.44-1) ... Setting up libdevel-callchecker-perl (0.008-1+b2) ... Setting up libdata-optlist-perl (0.110-1.1) ... Setting up gpgconf (2.2.27-2) ... Setting up gpg (2.2.27-2) ... Setting up libsub-exporter-perl (0.987-1) ... Setting up libiterator-perl (0.03+ds1-1.1) ... Setting up libiterator-util-perl (0.02+ds1-1.1) ... Setting up libparams-classify-perl (0.015-1+b3) ... Setting up libmodule-runtime-perl (0.016-1) ... Setting up libdata-dpath-perl (0.58-1) ... Setting up libmodule-implementation-perl (0.09-1.1) ... Setting up libpackage-stash-perl (0.39-1) ... Setting up libimport-into-perl (1.002005-1) ... Setting up libmoo-perl (2.005004-1) ... Setting up libmoox-aliases-perl (0.001006-1.1) ... Setting up libb-hooks-endofscope-perl (0.24-1.1) ... Setting up libnamespace-clean-perl (0.27-1) ... Setting up lintian (2.104.0) ... Setting up sbuild-build-depends-lintian-dummy:amd64 (0.invalid.0) ... Processing triggers for man-db (2.9.4-2) ... Not building database; man-db/auto-update is not 'true'. Processing triggers for libc-bin (2.31-16) ... I: Lintian run was successful. +------------------------------------------------------------------------------+ | Post Build | +------------------------------------------------------------------------------+ +------------------------------------------------------------------------------+ | Cleanup | +------------------------------------------------------------------------------+ Purging /<> Not cleaning session: cloned chroot in use +------------------------------------------------------------------------------+ | Summary | +------------------------------------------------------------------------------+ Build Architecture: arm64 Build Profiles: cross nocheck Build Type: any Build-Space: 209020 Build-Time: 724 Distribution: unstable Foreign Architectures: amd64 Host Architecture: amd64 Install-Time: 73 Job: tvc_5.0.3+git20151221.80e144e+dfsg-3 Lintian: pass Machine Architecture: arm64 Package: tvc Package-Time: 827 Source-Version: 5.0.3+git20151221.80e144e+dfsg-3 Space: 209020 Status: successful Version: 5.0.3+git20151221.80e144e+dfsg-3 -------------------------------------------------------------------------------- Finished at 2021-08-22T06:54:55Z Build needed 00:13:47, 209020k disk space