sbuild (Debian sbuild) 0.78.1 (09 February 2019) on gcc131.bak.milne.osuosl.org +==============================================================================+ | tvc 5.0.3+git20151221.80e144e+dfsg-3 (armhf) Mon, 02 Mar 2020 10:11:27 +0000 | +==============================================================================+ Package: tvc Version: 5.0.3+git20151221.80e144e+dfsg-3 Source Version: 5.0.3+git20151221.80e144e+dfsg-3 Distribution: unstable Machine Architecture: amd64 Host Architecture: armhf Build Architecture: amd64 Build Profiles: cross nocheck Build Type: any I: NOTICE: Log filtering will replace 'var/run/schroot/mount/unstable-amd64-sbuild-f6a31ee6-f65d-42c2-967a-3375256bd7a2' with '<>' I: NOTICE: Log filtering will replace 'build/tvc-XNrjBR/resolver-httzZN' with '<>' +------------------------------------------------------------------------------+ | Update chroot | +------------------------------------------------------------------------------+ Get:1 http://debian.oregonstate.edu/debian unstable InRelease [142 kB] Get:2 http://debian.oregonstate.edu/debian unstable/main Sources.diff/Index [27.9 kB] Get:3 http://debian.oregonstate.edu/debian unstable/main amd64 Packages.diff/Index [27.9 kB] Get:4 http://debian.oregonstate.edu/debian unstable/main Sources 2020-03-02-0815.14.pdiff [6682 B] Get:5 http://debian.oregonstate.edu/debian unstable/main amd64 Packages 2020-03-02-0815.14.pdiff [4558 B] Get:4 http://debian.oregonstate.edu/debian unstable/main Sources 2020-03-02-0815.14.pdiff [6682 B] Get:5 http://debian.oregonstate.edu/debian unstable/main amd64 Packages 2020-03-02-0815.14.pdiff [4558 B] Get:6 http://debian.oregonstate.edu/debian unstable/main armhf Packages [7981 kB] Fetched 8190 kB in 2s (4884 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://debian.oregonstate.edu/debian unstable/main tvc 5.0.3+git20151221.80e144e+dfsg-3 (dsc) [2200 B] Get:2 http://debian.oregonstate.edu/debian unstable/main tvc 5.0.3+git20151221.80e144e+dfsg-3 (tar) [745 kB] Get:3 http://debian.oregonstate.edu/debian unstable/main tvc 5.0.3+git20151221.80e144e+dfsg-3 (diff) [8968 B] Fetched 756 kB in 0s (16.6 MB/s) Download complete and in download only mode I: NOTICE: Log filtering will replace 'build/tvc-XNrjBR/tvc-5.0.3+git20151221.80e144e+dfsg' with '<>' I: NOTICE: Log filtering will replace 'build/tvc-XNrjBR' 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:amd64, fakeroot:amd64, crossbuild-essential-armhf:amd64, libc-dev:armhf, libstdc++-dev:armhf Filtered Build-Depends: debhelper-compat (= 12), cmake, libbamtools-dev, libjsoncpp-dev, libarmadillo-dev, libboost-math-dev, libsmithwaterman-dev, libc-dev, libstdc++-dev, build-essential:amd64, fakeroot:amd64, crossbuild-essential-armhf:amd64, libc-dev:armhf, libstdc++-dev:armhf 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 [442 B] Get:5 copy:/<>/apt_archive ./ Packages [532 B] Fetched 1931 B in 0s (96.4 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-arm-linux-gnueabihf bsdmainutils build-essential cmake cmake-data cpp-9-arm-linux-gnueabihf cpp-arm-linux-gnueabihf cross-config crossbuild-essential-armhf debhelper dh-autoreconf dh-strip-nondeterminism dpkg-cross dwz file g++ g++-9 g++-9-arm-linux-gnueabihf g++-arm-linux-gnueabihf gcc-10-base:armhf gcc-10-cross-base gcc-9-arm-linux-gnueabihf gcc-9-arm-linux-gnueabihf-base gcc-9-base:armhf gcc-9-cross-base gcc-arm-linux-gnueabihf gettext gettext-base groff-base hdf5-helpers:armhf intltool-debian libaec-dev:armhf libaec0:armhf libarchive-zip-perl libarchive13 libarmadillo-dev:armhf libarmadillo9:armhf libarpack2:armhf libarpack2-dev:armhf libasan5:armhf libasan5-armhf-cross libatomic1:armhf libatomic1-armhf-cross libbamtools-dev:armhf libbamtools2.5.1:armhf libblas-dev:armhf libblas3:armhf libboost-math-dev:armhf libboost-math1.67-dev:armhf libboost-math1.67.0:armhf libboost1.67-dev:armhf libbrotli1 libbsd0 libc6:armhf libc6-armhf-cross libc6-dev libc6-dev:armhf libc6-dev-armhf-cross libconfig-auto-perl libconfig-inifiles-perl libcroco3 libcrypt-dev libcrypt-dev:armhf libcrypt1:armhf libcurl4 libdebhelper-perl libdebian-dpkgcross-perl libdisorder-dev:armhf libdisorder0:armhf libelf1 libexpat1 libfile-homedir-perl libfile-stripnondeterminism-perl libfile-which-perl libgcc-9-dev:armhf libgcc-9-dev-armhf-cross libgcc-s1:armhf libgcc-s1-armhf-cross libgfortran5:armhf libglib2.0-0 libgomp1:armhf libgomp1-armhf-cross libgssapi-krb5-2 libhdf5-103:armhf libhdf5-cpp-103:armhf libhdf5-dev:armhf libicu63 libio-string-perl libjpeg62-turbo:armhf libjpeg62-turbo-dev:armhf libjsoncpp-dev:armhf libjsoncpp1 libjsoncpp1:armhf libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 liblapack-dev:armhf liblapack3:armhf libldap-2.4-2 libldap-common liblocale-gettext-perl libmagic-mgc libmagic1 libncurses6 libnghttp2-14 libpipeline1 libprocps8 libpsl5 librhash0 librtmp1 libsasl2-2 libsasl2-modules-db libsigsegv2 libsmithwaterman-dev:armhf libsmithwaterman0:armhf libssh2-1 libssl1.1 libstdc++-9-dev libstdc++-9-dev:armhf libstdc++-9-dev-armhf-cross libstdc++6:armhf libstdc++6-armhf-cross libsub-override-perl libsuperlu-dev:armhf libsuperlu5:armhf libsz2:armhf libtool libubsan1:armhf libubsan1-armhf-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:armhf linux-libc-dev-armhf-cross m4 man-db po-debconf procps sensible-utils ucf zlib1g:armhf zlib1g-dev:armhf Suggested packages: autoconf-archive gnu-standards autoconf-doc binutils-doc wamerican | wordlist whois vacation cmake-doc ninja-build gcc-9-locales cpp-doc dh-make binutils-multiarch g++-multilib g++-9-multilib gcc-9-doc manpages-dev flex bison gdb-arm-linux-gnueabihf gcc-doc gettext-doc libasprintf-dev libgettextpo-dev groff lrzip libitpp-dev:armhf libbamtools-doc:armhf liblapack-doc:armhf libboost1.67-doc:armhf libboost-atomic1.67-dev:armhf libboost-chrono1.67-dev:armhf libboost-container1.67-dev:armhf libboost-context1.67-dev:armhf libboost-contract1.67-dev:armhf libboost-coroutine1.67-dev:armhf libboost-date-time1.67-dev:armhf libboost-exception1.67-dev:armhf libboost-fiber1.67-dev:armhf libboost-filesystem1.67-dev:armhf libboost-graph1.67-dev:armhf libboost-graph-parallel1.67-dev:armhf libboost-iostreams1.67-dev:armhf libboost-locale1.67-dev:armhf libboost-log1.67-dev:armhf libboost-mpi1.67-dev:armhf libboost-mpi-python1.67-dev:armhf libboost-numpy1.67-dev:armhf libboost-program-options1.67-dev:armhf libboost-python1.67-dev:armhf libboost-random1.67-dev:armhf libboost-regex1.67-dev:armhf libboost-serialization1.67-dev:armhf libboost-signals1.67-dev:armhf libboost-stacktrace1.67-dev:armhf libboost-system1.67-dev:armhf libboost-test1.67-dev:armhf libboost-thread1.67-dev:armhf libboost-timer1.67-dev:armhf libboost-type-erasure1.67-dev:armhf libboost-wave1.67-dev:armhf libboost1.67-tools-dev:armhf libmpfrc++-dev:armhf libntl-dev:armhf glibc-doc:armhf libc-l10n:armhf locales:armhf glibc-doc manpages-dev:armhf krb5-doc krb5-user libhdf5-doc:armhf libstdc++-9-doc libstdc++-9-doc:armhf libsuperlu-doc:armhf 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:armhf ca-certificates libarchive-cpio-perl libglib2.0-data shared-mime-info xdg-user-dirs krb5-locales 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-arm-linux-gnueabihf bsdmainutils build-essential cmake cmake-data cpp-9-arm-linux-gnueabihf cpp-arm-linux-gnueabihf cross-config crossbuild-essential-armhf debhelper dh-autoreconf dh-strip-nondeterminism dpkg-cross dwz file g++ g++-9 g++-9-arm-linux-gnueabihf g++-arm-linux-gnueabihf gcc-10-base:armhf gcc-10-cross-base gcc-9-arm-linux-gnueabihf gcc-9-arm-linux-gnueabihf-base gcc-9-base:armhf gcc-9-cross-base gcc-arm-linux-gnueabihf gettext gettext-base groff-base hdf5-helpers:armhf intltool-debian libaec-dev:armhf libaec0:armhf libarchive-zip-perl libarchive13 libarmadillo-dev:armhf libarmadillo9:armhf libarpack2:armhf libarpack2-dev:armhf libasan5:armhf libasan5-armhf-cross libatomic1:armhf libatomic1-armhf-cross libbamtools-dev:armhf libbamtools2.5.1:armhf libblas-dev:armhf libblas3:armhf libboost-math-dev:armhf libboost-math1.67-dev:armhf libboost-math1.67.0:armhf libboost1.67-dev:armhf libbrotli1 libbsd0 libc6:armhf libc6-armhf-cross libc6-dev libc6-dev:armhf libc6-dev-armhf-cross libconfig-auto-perl libconfig-inifiles-perl libcroco3 libcrypt-dev libcrypt-dev:armhf libcrypt1:armhf libcurl4 libdebhelper-perl libdebian-dpkgcross-perl libdisorder-dev:armhf libdisorder0:armhf libelf1 libexpat1 libfile-homedir-perl libfile-stripnondeterminism-perl libfile-which-perl libgcc-9-dev:armhf libgcc-9-dev-armhf-cross libgcc-s1:armhf libgcc-s1-armhf-cross libgfortran5:armhf libglib2.0-0 libgomp1:armhf libgomp1-armhf-cross libgssapi-krb5-2 libhdf5-103:armhf libhdf5-cpp-103:armhf libhdf5-dev:armhf libicu63 libio-string-perl libjpeg62-turbo:armhf libjpeg62-turbo-dev:armhf libjsoncpp-dev:armhf libjsoncpp1 libjsoncpp1:armhf libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 liblapack-dev:armhf liblapack3:armhf libldap-2.4-2 libldap-common liblocale-gettext-perl libmagic-mgc libmagic1 libncurses6 libnghttp2-14 libpipeline1 libprocps8 libpsl5 librhash0 librtmp1 libsasl2-2 libsasl2-modules-db libsigsegv2 libsmithwaterman-dev:armhf libsmithwaterman0:armhf libssh2-1 libssl1.1 libstdc++-9-dev libstdc++-9-dev:armhf libstdc++-9-dev-armhf-cross libstdc++6:armhf libstdc++6-armhf-cross libsub-override-perl libsuperlu-dev:armhf libsuperlu5:armhf libsz2:armhf libtool libubsan1:armhf libubsan1-armhf-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:armhf linux-libc-dev-armhf-cross m4 man-db po-debconf procps sbuild-build-depends-main-dummy:armhf sensible-utils ucf zlib1g:armhf zlib1g-dev:armhf 0 upgraded, 154 newly installed, 0 to remove and 0 not upgraded. Need to get 107 MB of archives. After this operation, 530 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://debian.oregonstate.edu/debian unstable/main amd64 libbsd0 amd64 0.10.0-1 [107 kB] Get:3 http://debian.oregonstate.edu/debian unstable/main amd64 bsdmainutils amd64 11.1.2+b1 [191 kB] Get:4 http://debian.oregonstate.edu/debian unstable/main amd64 libuchardet0 amd64 0.0.6-3 [64.9 kB] Get:5 http://debian.oregonstate.edu/debian unstable/main amd64 groff-base amd64 1.22.4-4 [919 kB] Get:6 http://debian.oregonstate.edu/debian unstable/main amd64 libpipeline1 amd64 1.5.2-2 [33.9 kB] Get:7 http://debian.oregonstate.edu/debian unstable/main amd64 man-db amd64 2.9.1-1 [1308 kB] Get:8 http://debian.oregonstate.edu/debian unstable/main amd64 liblocale-gettext-perl amd64 1.07-4 [18.8 kB] Get:9 http://debian.oregonstate.edu/debian unstable/main armhf gcc-10-base armhf 10-20200222-1 [195 kB] Get:10 http://debian.oregonstate.edu/debian unstable/main armhf gcc-9-base armhf 9.2.1-30 [196 kB] Get:11 http://debian.oregonstate.edu/debian unstable/main amd64 libncurses6 amd64 6.2-1 [102 kB] Get:12 http://debian.oregonstate.edu/debian unstable/main amd64 libprocps8 amd64 2:3.3.16-3 [62.6 kB] Get:13 http://debian.oregonstate.edu/debian unstable/main amd64 procps amd64 2:3.3.16-3 [262 kB] Get:14 http://debian.oregonstate.edu/debian unstable/main amd64 sensible-utils all 0.0.12+nmu1 [16.0 kB] Get:15 http://debian.oregonstate.edu/debian unstable/main amd64 libmagic-mgc amd64 1:5.38-4 [262 kB] Get:16 http://debian.oregonstate.edu/debian unstable/main amd64 libmagic1 amd64 1:5.38-4 [120 kB] Get:17 http://debian.oregonstate.edu/debian unstable/main amd64 file amd64 1:5.38-4 [67.9 kB] Get:18 http://debian.oregonstate.edu/debian unstable/main amd64 gettext-base amd64 0.19.8.1-10 [123 kB] Get:19 http://debian.oregonstate.edu/debian unstable/main amd64 ucf all 3.0038+nmu1 [69.0 kB] Get:20 http://debian.oregonstate.edu/debian unstable/main amd64 libsigsegv2 amd64 2.12-2 [32.8 kB] Get:21 http://debian.oregonstate.edu/debian unstable/main amd64 m4 amd64 1.4.18-4 [203 kB] Get:22 http://debian.oregonstate.edu/debian unstable/main amd64 autoconf all 2.69-11.1 [341 kB] Get:23 http://debian.oregonstate.edu/debian unstable/main amd64 autotools-dev all 20180224.1 [77.0 kB] Get:24 http://debian.oregonstate.edu/debian unstable/main amd64 automake all 1:1.16.1-4 [771 kB] Get:25 http://debian.oregonstate.edu/debian unstable/main amd64 autopoint all 0.19.8.1-10 [435 kB] Get:26 http://debian.oregonstate.edu/debian unstable/main amd64 binutils-arm-linux-gnueabihf amd64 2.34-4 [2746 kB] Get:27 http://debian.oregonstate.edu/debian unstable/main amd64 libcrypt-dev amd64 1:4.4.15-1 [104 kB] Get:28 http://debian.oregonstate.edu/debian unstable/main amd64 libc6-dev amd64 2.29-10 [2638 kB] Get:29 http://debian.oregonstate.edu/debian unstable/main amd64 libstdc++-9-dev amd64 9.2.1-30 [1697 kB] Get:30 http://debian.oregonstate.edu/debian unstable/main amd64 g++-9 amd64 9.2.1-30 [10.7 MB] Get:31 http://debian.oregonstate.edu/debian unstable/main amd64 g++ amd64 4:9.2.1-3.1 [1644 B] Get:32 http://debian.oregonstate.edu/debian unstable/main amd64 build-essential amd64 12.8 [7640 B] Get:33 http://debian.oregonstate.edu/debian unstable/main amd64 cmake-data all 3.16.3-1 [1628 kB] Get:34 http://debian.oregonstate.edu/debian unstable/main amd64 libicu63 amd64 63.2-2 [8301 kB] Get:35 http://debian.oregonstate.edu/debian unstable/main amd64 libxml2 amd64 2.9.10+dfsg-4 [709 kB] Get:36 http://debian.oregonstate.edu/debian unstable/main amd64 libarchive13 amd64 3.4.0-1+b1 [335 kB] Get:37 http://debian.oregonstate.edu/debian unstable/main amd64 libbrotli1 amd64 1.0.7-6 [266 kB] Get:38 http://debian.oregonstate.edu/debian unstable/main amd64 libkeyutils1 amd64 1.6.1-2 [15.4 kB] Get:39 http://debian.oregonstate.edu/debian unstable/main amd64 libkrb5support0 amd64 1.17-6 [64.6 kB] Get:40 http://debian.oregonstate.edu/debian unstable/main amd64 libk5crypto3 amd64 1.17-6 [116 kB] Get:41 http://debian.oregonstate.edu/debian unstable/main amd64 libssl1.1 amd64 1.1.1d-2 [1540 kB] Get:42 http://debian.oregonstate.edu/debian unstable/main amd64 libkrb5-3 amd64 1.17-6 [366 kB] Get:43 http://debian.oregonstate.edu/debian unstable/main amd64 libgssapi-krb5-2 amd64 1.17-6 [156 kB] Get:44 http://debian.oregonstate.edu/debian unstable/main amd64 libsasl2-modules-db amd64 2.1.27+dfsg-2 [69.0 kB] Get:45 http://debian.oregonstate.edu/debian unstable/main amd64 libsasl2-2 amd64 2.1.27+dfsg-2 [106 kB] Get:46 http://debian.oregonstate.edu/debian unstable/main amd64 libldap-common all 2.4.49+dfsg-1 [91.9 kB] Get:47 http://debian.oregonstate.edu/debian unstable/main amd64 libldap-2.4-2 amd64 2.4.49+dfsg-1 [226 kB] Get:48 http://debian.oregonstate.edu/debian unstable/main amd64 libnghttp2-14 amd64 1.40.0-1 [85.0 kB] Get:49 http://debian.oregonstate.edu/debian unstable/main amd64 libpsl5 amd64 0.20.2-2 [53.7 kB] Get:50 http://debian.oregonstate.edu/debian unstable/main amd64 librtmp1 amd64 2.4+20151223.gitfa8646d.1-2+b1 [60.8 kB] Get:51 http://debian.oregonstate.edu/debian unstable/main amd64 libssh2-1 amd64 1.8.0-2.1 [140 kB] Get:52 http://debian.oregonstate.edu/debian unstable/main amd64 libcurl4 amd64 7.68.0-1 [321 kB] Get:53 http://debian.oregonstate.edu/debian unstable/main amd64 libexpat1 amd64 2.2.9-1 [94.3 kB] Get:54 http://debian.oregonstate.edu/debian unstable/main amd64 libjsoncpp1 amd64 1.7.4-3.1 [77.6 kB] Get:55 http://debian.oregonstate.edu/debian unstable/main amd64 librhash0 amd64 1.3.9-1 [123 kB] Get:56 http://debian.oregonstate.edu/debian unstable/main amd64 libuv1 amd64 1.34.2-1 [127 kB] Get:57 http://debian.oregonstate.edu/debian unstable/main amd64 cmake amd64 3.16.3-1 [3673 kB] Get:58 http://debian.oregonstate.edu/debian unstable/main amd64 gcc-9-arm-linux-gnueabihf-base amd64 9.2.1-28cross1 [195 kB] Get:59 http://debian.oregonstate.edu/debian unstable/main amd64 cpp-9-arm-linux-gnueabihf amd64 9.2.1-28cross1 [6814 kB] Get:60 http://debian.oregonstate.edu/debian unstable/main amd64 cpp-arm-linux-gnueabihf amd64 4:9.2.1-3.1 [16.7 kB] Get:61 http://debian.oregonstate.edu/debian unstable/main amd64 cross-config all 2.6.15-3 [39.9 kB] Get:62 http://debian.oregonstate.edu/debian unstable/main amd64 gcc-9-cross-base all 9.2.1-28cross1 [191 kB] Get:63 http://debian.oregonstate.edu/debian unstable/main amd64 gcc-10-cross-base all 10-20200211-1cross1 [191 kB] Get:64 http://debian.oregonstate.edu/debian unstable/main amd64 libc6-armhf-cross all 2.29-9cross1 [1110 kB] Get:65 http://debian.oregonstate.edu/debian unstable/main amd64 libgcc-s1-armhf-cross all 10-20200211-1cross1 [36.5 kB] Get:66 http://debian.oregonstate.edu/debian unstable/main amd64 libgomp1-armhf-cross all 10-20200211-1cross1 [81.9 kB] Get:67 http://debian.oregonstate.edu/debian unstable/main amd64 libatomic1-armhf-cross all 10-20200211-1cross1 [6672 B] Get:68 http://debian.oregonstate.edu/debian unstable/main amd64 libasan5-armhf-cross all 9.2.1-28cross1 [362 kB] Get:69 http://debian.oregonstate.edu/debian unstable/main amd64 libstdc++6-armhf-cross all 10-20200211-1cross1 [380 kB] Get:70 http://debian.oregonstate.edu/debian unstable/main amd64 libubsan1-armhf-cross all 10-20200211-1cross1 [115 kB] Get:71 http://debian.oregonstate.edu/debian unstable/main amd64 libgcc-9-dev-armhf-cross all 9.2.1-28cross1 [663 kB] Get:72 http://debian.oregonstate.edu/debian unstable/main amd64 gcc-9-arm-linux-gnueabihf amd64 9.2.1-28cross1 [7164 kB] Get:73 http://debian.oregonstate.edu/debian unstable/main amd64 gcc-arm-linux-gnueabihf amd64 4:9.2.1-3.1 [1476 B] Get:74 http://debian.oregonstate.edu/debian unstable/main amd64 linux-libc-dev-armhf-cross all 5.4.8-1cross1 [1128 kB] Get:75 http://debian.oregonstate.edu/debian unstable/main amd64 libc6-dev-armhf-cross all 2.29-9cross1 [2110 kB] Get:76 http://debian.oregonstate.edu/debian unstable/main amd64 libstdc++-9-dev-armhf-cross all 9.2.1-28cross1 [1721 kB] Get:77 http://debian.oregonstate.edu/debian unstable/main amd64 g++-9-arm-linux-gnueabihf amd64 9.2.1-28cross1 [7396 kB] Get:78 http://debian.oregonstate.edu/debian unstable/main amd64 g++-arm-linux-gnueabihf amd64 4:9.2.1-3.1 [1184 B] Get:79 http://debian.oregonstate.edu/debian unstable/main amd64 libconfig-inifiles-perl all 3.000002-1 [52.0 kB] Get:80 http://debian.oregonstate.edu/debian unstable/main amd64 libio-string-perl all 1.08-3 [12.3 kB] Get:81 http://debian.oregonstate.edu/debian unstable/main amd64 libxml-namespacesupport-perl all 1.12-1 [14.8 kB] Get:82 http://debian.oregonstate.edu/debian unstable/main amd64 libxml-sax-base-perl all 1.09-1 [20.4 kB] Get:83 http://debian.oregonstate.edu/debian unstable/main amd64 libxml-sax-perl all 1.02+dfsg-1 [59.0 kB] Get:84 http://debian.oregonstate.edu/debian unstable/main amd64 libxml-libxml-perl amd64 2.0134+dfsg-2 [343 kB] Get:85 http://debian.oregonstate.edu/debian unstable/main amd64 libxml-simple-perl all 2.25-1 [72.0 kB] Get:86 http://debian.oregonstate.edu/debian unstable/main amd64 libyaml-perl all 1.30-1 [67.7 kB] Get:87 http://debian.oregonstate.edu/debian unstable/main amd64 libconfig-auto-perl all 0.44-1 [19.5 kB] Get:88 http://debian.oregonstate.edu/debian unstable/main amd64 libfile-which-perl all 1.23-1 [16.6 kB] Get:89 http://debian.oregonstate.edu/debian unstable/main amd64 libfile-homedir-perl all 1.004-1 [42.7 kB] Get:90 http://debian.oregonstate.edu/debian unstable/main amd64 libdebian-dpkgcross-perl all 2.6.15-3 [38.7 kB] Get:91 http://debian.oregonstate.edu/debian unstable/main amd64 dpkg-cross all 2.6.15-3 [49.3 kB] Get:92 http://debian.oregonstate.edu/debian unstable/main amd64 crossbuild-essential-armhf all 12.8 [6644 B] Get:93 http://debian.oregonstate.edu/debian unstable/main amd64 libtool all 2.4.6-13 [513 kB] Get:94 http://debian.oregonstate.edu/debian unstable/main amd64 dh-autoreconf all 19 [16.9 kB] Get:95 http://debian.oregonstate.edu/debian unstable/main amd64 libdebhelper-perl all 12.9 [183 kB] Get:96 http://debian.oregonstate.edu/debian unstable/main amd64 libarchive-zip-perl all 1.67-2 [104 kB] Get:97 http://debian.oregonstate.edu/debian unstable/main amd64 libsub-override-perl all 0.09-2 [10.2 kB] Get:98 http://debian.oregonstate.edu/debian unstable/main amd64 libfile-stripnondeterminism-perl all 1.6.3-2 [23.7 kB] Get:99 http://debian.oregonstate.edu/debian unstable/main amd64 dh-strip-nondeterminism all 1.6.3-2 [14.7 kB] Get:100 http://debian.oregonstate.edu/debian unstable/main amd64 libelf1 amd64 0.176-1.1 [161 kB] Get:101 http://debian.oregonstate.edu/debian unstable/main amd64 dwz amd64 0.13-5 [151 kB] Get:102 http://debian.oregonstate.edu/debian unstable/main amd64 libglib2.0-0 amd64 2.62.5-1 [1320 kB] Get:103 http://debian.oregonstate.edu/debian unstable/main amd64 libcroco3 amd64 0.6.13-1 [146 kB] Get:104 http://debian.oregonstate.edu/debian unstable/main amd64 gettext amd64 0.19.8.1-10 [1303 kB] Get:105 http://debian.oregonstate.edu/debian unstable/main amd64 intltool-debian all 0.35.0+20060710.5 [26.8 kB] Get:106 http://debian.oregonstate.edu/debian unstable/main amd64 po-debconf all 1.0.21 [248 kB] Get:107 http://debian.oregonstate.edu/debian unstable/main amd64 debhelper all 12.9 [994 kB] Get:108 http://debian.oregonstate.edu/debian unstable/main armhf hdf5-helpers armhf 1.10.4+repack-11 [35.3 kB] Get:109 http://debian.oregonstate.edu/debian unstable/main armhf libgcc-s1 armhf 10-20200222-1 [36.4 kB] Get:110 http://debian.oregonstate.edu/debian unstable/main armhf libcrypt1 armhf 1:4.4.15-1 [101 kB] Get:111 http://debian.oregonstate.edu/debian unstable/main armhf libc6 armhf 2.29-10 [2329 kB] Get:112 http://debian.oregonstate.edu/debian unstable/main armhf libaec0 armhf 1.0.4-1 [20.4 kB] Get:113 http://debian.oregonstate.edu/debian unstable/main armhf libsz2 armhf 1.0.4-1 [6616 B] Get:114 http://debian.oregonstate.edu/debian unstable/main armhf libaec-dev armhf 1.0.4-1 [18.3 kB] Get:115 http://debian.oregonstate.edu/debian unstable/main armhf libblas3 armhf 3.9.0-1 [113 kB] Get:116 http://debian.oregonstate.edu/debian unstable/main armhf libgfortran5 armhf 10-20200222-1 [238 kB] Get:117 http://debian.oregonstate.edu/debian unstable/main armhf liblapack3 armhf 3.9.0-1 [1747 kB] Get:118 http://debian.oregonstate.edu/debian unstable/main armhf libarpack2 armhf 3.7.0-3 [89.9 kB] Get:119 http://debian.oregonstate.edu/debian unstable/main armhf libstdc++6 armhf 10-20200222-1 [420 kB] Get:120 http://debian.oregonstate.edu/debian unstable/main armhf libsuperlu5 armhf 5.2.1+dfsg1-4 [133 kB] Get:121 http://debian.oregonstate.edu/debian unstable/main armhf libarmadillo9 armhf 1:9.800.4+dfsg-1 [93.7 kB] Get:122 http://debian.oregonstate.edu/debian unstable/main armhf libblas-dev armhf 3.9.0-1 [123 kB] Get:123 http://debian.oregonstate.edu/debian unstable/main armhf liblapack-dev armhf 3.9.0-1 [1827 kB] Get:124 http://debian.oregonstate.edu/debian unstable/main armhf libarpack2-dev armhf 3.7.0-3 [109 kB] Get:125 http://debian.oregonstate.edu/debian unstable/main armhf zlib1g armhf 1:1.2.11.dfsg-2 [85.4 kB] Get:126 http://debian.oregonstate.edu/debian unstable/main armhf libhdf5-103 armhf 1.10.4+repack-11 [1316 kB] Get:127 http://debian.oregonstate.edu/debian unstable/main armhf linux-libc-dev armhf 5.4.19-1 [1057 kB] Get:128 http://debian.oregonstate.edu/debian unstable/main armhf libcrypt-dev armhf 1:4.4.15-1 [120 kB] Get:129 http://debian.oregonstate.edu/debian unstable/main armhf libc6-dev armhf 2.29-10 [2127 kB] Get:130 http://debian.oregonstate.edu/debian unstable/main armhf zlib1g-dev armhf 1:1.2.11.dfsg-2 [185 kB] Get:131 http://debian.oregonstate.edu/debian unstable/main armhf libjpeg62-turbo armhf 1:1.5.2-2+b1 [112 kB] Get:132 http://debian.oregonstate.edu/debian unstable/main armhf libjpeg62-turbo-dev armhf 1:1.5.2-2+b1 [182 kB] Get:133 http://debian.oregonstate.edu/debian unstable/main armhf libhdf5-cpp-103 armhf 1.10.4+repack-11 [130 kB] Get:134 http://debian.oregonstate.edu/debian unstable/main armhf libhdf5-dev armhf 1.10.4+repack-11 [2542 kB] Get:135 http://debian.oregonstate.edu/debian unstable/main armhf libsuperlu-dev armhf 5.2.1+dfsg1-4 [18.4 kB] Get:136 http://debian.oregonstate.edu/debian unstable/main armhf libarmadillo-dev armhf 1:9.800.4+dfsg-1 [379 kB] Get:137 http://debian.oregonstate.edu/debian unstable/main armhf libasan5 armhf 9.2.1-30 [369 kB] Get:138 http://debian.oregonstate.edu/debian unstable/main armhf libatomic1 armhf 10-20200222-1 [6912 B] Get:139 http://debian.oregonstate.edu/debian unstable/main armhf libbamtools2.5.1 armhf 2.5.1+dfsg-5 [140 kB] Get:140 http://debian.oregonstate.edu/debian unstable/main armhf libbamtools-dev armhf 2.5.1+dfsg-5 [22.1 kB] Get:141 http://debian.oregonstate.edu/debian unstable/main armhf libgomp1 armhf 10-20200222-1 [84.0 kB] Get:142 http://debian.oregonstate.edu/debian unstable/main armhf libubsan1 armhf 10-20200222-1 [116 kB] Get:143 http://debian.oregonstate.edu/debian unstable/main armhf libgcc-9-dev armhf 9.2.1-30 [665 kB] Get:144 http://debian.oregonstate.edu/debian unstable/main armhf libstdc++-9-dev armhf 9.2.1-30 [1752 kB] Get:145 http://debian.oregonstate.edu/debian unstable/main armhf libboost1.67-dev armhf 1.67.0-17 [8389 kB] Get:146 http://debian.oregonstate.edu/debian unstable/main armhf libboost-math1.67.0 armhf 1.67.0-17 [324 kB] Get:147 http://debian.oregonstate.edu/debian unstable/main armhf libboost-math1.67-dev armhf 1.67.0-17 [463 kB] Get:148 http://debian.oregonstate.edu/debian unstable/main armhf libboost-math-dev armhf 1.67.0.2+b1 [4468 B] Get:149 http://debian.oregonstate.edu/debian unstable/main armhf libdisorder0 armhf 0.0.2+git20130809.8062ee1-1 [4540 B] Get:150 http://debian.oregonstate.edu/debian unstable/main armhf libdisorder-dev armhf 0.0.2+git20130809.8062ee1-1 [4092 B] Get:151 http://debian.oregonstate.edu/debian unstable/main armhf libjsoncpp1 armhf 1.7.4-3.1 [67.2 kB] Get:152 http://debian.oregonstate.edu/debian unstable/main armhf libjsoncpp-dev armhf 1.7.4-3.1 [85.2 kB] Get:153 http://debian.oregonstate.edu/debian unstable/main armhf libsmithwaterman0 armhf 0.0+git20160702.2610e25-7 [31.1 kB] Get:154 http://debian.oregonstate.edu/debian unstable/main armhf libsmithwaterman-dev armhf 0.0+git20160702.2610e25-7 [35.8 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 107 MB in 1s (81.2 MB/s) Selecting previously unselected package libbsd0:amd64. (Reading database ... 12785 files and directories currently installed.) Preparing to unpack .../000-libbsd0_0.10.0-1_amd64.deb ... Unpacking libbsd0:amd64 (0.10.0-1) ... Selecting previously unselected package bsdmainutils. Preparing to unpack .../001-bsdmainutils_11.1.2+b1_amd64.deb ... Unpacking bsdmainutils (11.1.2+b1) ... Selecting previously unselected package libuchardet0:amd64. Preparing to unpack .../002-libuchardet0_0.0.6-3_amd64.deb ... Unpacking libuchardet0:amd64 (0.0.6-3) ... Selecting previously unselected package groff-base. Preparing to unpack .../003-groff-base_1.22.4-4_amd64.deb ... Unpacking groff-base (1.22.4-4) ... Selecting previously unselected package libpipeline1:amd64. Preparing to unpack .../004-libpipeline1_1.5.2-2_amd64.deb ... Unpacking libpipeline1:amd64 (1.5.2-2) ... Selecting previously unselected package man-db. Preparing to unpack .../005-man-db_2.9.1-1_amd64.deb ... Unpacking man-db (2.9.1-1) ... Selecting previously unselected package liblocale-gettext-perl. Preparing to unpack .../006-liblocale-gettext-perl_1.07-4_amd64.deb ... Unpacking liblocale-gettext-perl (1.07-4) ... Selecting previously unselected package gcc-10-base:armhf. Preparing to unpack .../007-gcc-10-base_10-20200222-1_armhf.deb ... Unpacking gcc-10-base:armhf (10-20200222-1) ... Selecting previously unselected package gcc-9-base:armhf. Preparing to unpack .../008-gcc-9-base_9.2.1-30_armhf.deb ... Unpacking gcc-9-base:armhf (9.2.1-30) ... Selecting previously unselected package libncurses6:amd64. Preparing to unpack .../009-libncurses6_6.2-1_amd64.deb ... Unpacking libncurses6:amd64 (6.2-1) ... Selecting previously unselected package libprocps8:amd64. Preparing to unpack .../010-libprocps8_2%3a3.3.16-3_amd64.deb ... Unpacking libprocps8:amd64 (2:3.3.16-3) ... Selecting previously unselected package procps. Preparing to unpack .../011-procps_2%3a3.3.16-3_amd64.deb ... Unpacking procps (2:3.3.16-3) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../012-sensible-utils_0.0.12+nmu1_all.deb ... Unpacking sensible-utils (0.0.12+nmu1) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../013-libmagic-mgc_1%3a5.38-4_amd64.deb ... Unpacking libmagic-mgc (1:5.38-4) ... Selecting previously unselected package libmagic1:amd64. Preparing to unpack .../014-libmagic1_1%3a5.38-4_amd64.deb ... Unpacking libmagic1:amd64 (1:5.38-4) ... Selecting previously unselected package file. Preparing to unpack .../015-file_1%3a5.38-4_amd64.deb ... Unpacking file (1:5.38-4) ... Selecting previously unselected package gettext-base. Preparing to unpack .../016-gettext-base_0.19.8.1-10_amd64.deb ... Unpacking gettext-base (0.19.8.1-10) ... Selecting previously unselected package ucf. Preparing to unpack .../017-ucf_3.0038+nmu1_all.deb ... Moving old data out of the way Unpacking ucf (3.0038+nmu1) ... Selecting previously unselected package libsigsegv2:amd64. Preparing to unpack .../018-libsigsegv2_2.12-2_amd64.deb ... Unpacking libsigsegv2:amd64 (2.12-2) ... Selecting previously unselected package m4. Preparing to unpack .../019-m4_1.4.18-4_amd64.deb ... Unpacking m4 (1.4.18-4) ... Selecting previously unselected package autoconf. Preparing to unpack .../020-autoconf_2.69-11.1_all.deb ... Unpacking autoconf (2.69-11.1) ... Selecting previously unselected package autotools-dev. Preparing to unpack .../021-autotools-dev_20180224.1_all.deb ... Unpacking autotools-dev (20180224.1) ... Selecting previously unselected package automake. Preparing to unpack .../022-automake_1%3a1.16.1-4_all.deb ... Unpacking automake (1:1.16.1-4) ... Selecting previously unselected package autopoint. Preparing to unpack .../023-autopoint_0.19.8.1-10_all.deb ... Unpacking autopoint (0.19.8.1-10) ... Selecting previously unselected package binutils-arm-linux-gnueabihf. Preparing to unpack .../024-binutils-arm-linux-gnueabihf_2.34-4_amd64.deb ... Unpacking binutils-arm-linux-gnueabihf (2.34-4) ... Selecting previously unselected package libcrypt-dev:amd64. Preparing to unpack .../025-libcrypt-dev_1%3a4.4.15-1_amd64.deb ... Unpacking libcrypt-dev:amd64 (1:4.4.15-1) ... Selecting previously unselected package libc6-dev:amd64. Preparing to unpack .../026-libc6-dev_2.29-10_amd64.deb ... Unpacking libc6-dev:amd64 (2.29-10) ... Selecting previously unselected package libstdc++-9-dev:amd64. Preparing to unpack .../027-libstdc++-9-dev_9.2.1-30_amd64.deb ... Unpacking libstdc++-9-dev:amd64 (9.2.1-30) ... Selecting previously unselected package g++-9. Preparing to unpack .../028-g++-9_9.2.1-30_amd64.deb ... Unpacking g++-9 (9.2.1-30) ... Selecting previously unselected package g++. Preparing to unpack .../029-g++_4%3a9.2.1-3.1_amd64.deb ... Unpacking g++ (4:9.2.1-3.1) ... Selecting previously unselected package build-essential. Preparing to unpack .../030-build-essential_12.8_amd64.deb ... Unpacking build-essential (12.8) ... Selecting previously unselected package cmake-data. Preparing to unpack .../031-cmake-data_3.16.3-1_all.deb ... Unpacking cmake-data (3.16.3-1) ... Selecting previously unselected package libicu63:amd64. Preparing to unpack .../032-libicu63_63.2-2_amd64.deb ... Unpacking libicu63:amd64 (63.2-2) ... Selecting previously unselected package libxml2:amd64. Preparing to unpack .../033-libxml2_2.9.10+dfsg-4_amd64.deb ... Unpacking libxml2:amd64 (2.9.10+dfsg-4) ... Selecting previously unselected package libarchive13:amd64. Preparing to unpack .../034-libarchive13_3.4.0-1+b1_amd64.deb ... Unpacking libarchive13:amd64 (3.4.0-1+b1) ... Selecting previously unselected package libbrotli1:amd64. Preparing to unpack .../035-libbrotli1_1.0.7-6_amd64.deb ... Unpacking libbrotli1:amd64 (1.0.7-6) ... Selecting previously unselected package libkeyutils1:amd64. Preparing to unpack .../036-libkeyutils1_1.6.1-2_amd64.deb ... Unpacking libkeyutils1:amd64 (1.6.1-2) ... Selecting previously unselected package libkrb5support0:amd64. Preparing to unpack .../037-libkrb5support0_1.17-6_amd64.deb ... Unpacking libkrb5support0:amd64 (1.17-6) ... Selecting previously unselected package libk5crypto3:amd64. Preparing to unpack .../038-libk5crypto3_1.17-6_amd64.deb ... Unpacking libk5crypto3:amd64 (1.17-6) ... Selecting previously unselected package libssl1.1:amd64. Preparing to unpack .../039-libssl1.1_1.1.1d-2_amd64.deb ... Unpacking libssl1.1:amd64 (1.1.1d-2) ... Selecting previously unselected package libkrb5-3:amd64. Preparing to unpack .../040-libkrb5-3_1.17-6_amd64.deb ... Unpacking libkrb5-3:amd64 (1.17-6) ... Selecting previously unselected package libgssapi-krb5-2:amd64. Preparing to unpack .../041-libgssapi-krb5-2_1.17-6_amd64.deb ... Unpacking libgssapi-krb5-2:amd64 (1.17-6) ... Selecting previously unselected package libsasl2-modules-db:amd64. Preparing to unpack .../042-libsasl2-modules-db_2.1.27+dfsg-2_amd64.deb ... Unpacking libsasl2-modules-db:amd64 (2.1.27+dfsg-2) ... Selecting previously unselected package libsasl2-2:amd64. Preparing to unpack .../043-libsasl2-2_2.1.27+dfsg-2_amd64.deb ... Unpacking libsasl2-2:amd64 (2.1.27+dfsg-2) ... Selecting previously unselected package libldap-common. Preparing to unpack .../044-libldap-common_2.4.49+dfsg-1_all.deb ... Unpacking libldap-common (2.4.49+dfsg-1) ... Selecting previously unselected package libldap-2.4-2:amd64. Preparing to unpack .../045-libldap-2.4-2_2.4.49+dfsg-1_amd64.deb ... Unpacking libldap-2.4-2:amd64 (2.4.49+dfsg-1) ... Selecting previously unselected package libnghttp2-14:amd64. Preparing to unpack .../046-libnghttp2-14_1.40.0-1_amd64.deb ... Unpacking libnghttp2-14:amd64 (1.40.0-1) ... Selecting previously unselected package libpsl5:amd64. Preparing to unpack .../047-libpsl5_0.20.2-2_amd64.deb ... Unpacking libpsl5:amd64 (0.20.2-2) ... Selecting previously unselected package librtmp1:amd64. Preparing to unpack .../048-librtmp1_2.4+20151223.gitfa8646d.1-2+b1_amd64.deb ... Unpacking librtmp1:amd64 (2.4+20151223.gitfa8646d.1-2+b1) ... Selecting previously unselected package libssh2-1:amd64. Preparing to unpack .../049-libssh2-1_1.8.0-2.1_amd64.deb ... Unpacking libssh2-1:amd64 (1.8.0-2.1) ... Selecting previously unselected package libcurl4:amd64. Preparing to unpack .../050-libcurl4_7.68.0-1_amd64.deb ... Unpacking libcurl4:amd64 (7.68.0-1) ... Selecting previously unselected package libexpat1:amd64. Preparing to unpack .../051-libexpat1_2.2.9-1_amd64.deb ... Unpacking libexpat1:amd64 (2.2.9-1) ... Selecting previously unselected package libjsoncpp1:amd64. Preparing to unpack .../052-libjsoncpp1_1.7.4-3.1_amd64.deb ... Unpacking libjsoncpp1:amd64 (1.7.4-3.1) ... Selecting previously unselected package librhash0:amd64. Preparing to unpack .../053-librhash0_1.3.9-1_amd64.deb ... Unpacking librhash0:amd64 (1.3.9-1) ... Selecting previously unselected package libuv1:amd64. Preparing to unpack .../054-libuv1_1.34.2-1_amd64.deb ... Unpacking libuv1:amd64 (1.34.2-1) ... Selecting previously unselected package cmake. Preparing to unpack .../055-cmake_3.16.3-1_amd64.deb ... Unpacking cmake (3.16.3-1) ... Selecting previously unselected package gcc-9-arm-linux-gnueabihf-base:amd64. Preparing to unpack .../056-gcc-9-arm-linux-gnueabihf-base_9.2.1-28cross1_amd64.deb ... Unpacking gcc-9-arm-linux-gnueabihf-base:amd64 (9.2.1-28cross1) ... Selecting previously unselected package cpp-9-arm-linux-gnueabihf. Preparing to unpack .../057-cpp-9-arm-linux-gnueabihf_9.2.1-28cross1_amd64.deb ... Unpacking cpp-9-arm-linux-gnueabihf (9.2.1-28cross1) ... Selecting previously unselected package cpp-arm-linux-gnueabihf. Preparing to unpack .../058-cpp-arm-linux-gnueabihf_4%3a9.2.1-3.1_amd64.deb ... Unpacking cpp-arm-linux-gnueabihf (4:9.2.1-3.1) ... Selecting previously unselected package cross-config. Preparing to unpack .../059-cross-config_2.6.15-3_all.deb ... Unpacking cross-config (2.6.15-3) ... Selecting previously unselected package gcc-9-cross-base. Preparing to unpack .../060-gcc-9-cross-base_9.2.1-28cross1_all.deb ... Unpacking gcc-9-cross-base (9.2.1-28cross1) ... Selecting previously unselected package gcc-10-cross-base. Preparing to unpack .../061-gcc-10-cross-base_10-20200211-1cross1_all.deb ... Unpacking gcc-10-cross-base (10-20200211-1cross1) ... Selecting previously unselected package libc6-armhf-cross. Preparing to unpack .../062-libc6-armhf-cross_2.29-9cross1_all.deb ... Unpacking libc6-armhf-cross (2.29-9cross1) ... Selecting previously unselected package libgcc-s1-armhf-cross. Preparing to unpack .../063-libgcc-s1-armhf-cross_10-20200211-1cross1_all.deb ... Unpacking libgcc-s1-armhf-cross (10-20200211-1cross1) ... Selecting previously unselected package libgomp1-armhf-cross. Preparing to unpack .../064-libgomp1-armhf-cross_10-20200211-1cross1_all.deb ... Unpacking libgomp1-armhf-cross (10-20200211-1cross1) ... Selecting previously unselected package libatomic1-armhf-cross. Preparing to unpack .../065-libatomic1-armhf-cross_10-20200211-1cross1_all.deb ... Unpacking libatomic1-armhf-cross (10-20200211-1cross1) ... Selecting previously unselected package libasan5-armhf-cross. Preparing to unpack .../066-libasan5-armhf-cross_9.2.1-28cross1_all.deb ... Unpacking libasan5-armhf-cross (9.2.1-28cross1) ... Selecting previously unselected package libstdc++6-armhf-cross. Preparing to unpack .../067-libstdc++6-armhf-cross_10-20200211-1cross1_all.deb ... Unpacking libstdc++6-armhf-cross (10-20200211-1cross1) ... Selecting previously unselected package libubsan1-armhf-cross. Preparing to unpack .../068-libubsan1-armhf-cross_10-20200211-1cross1_all.deb ... Unpacking libubsan1-armhf-cross (10-20200211-1cross1) ... Selecting previously unselected package libgcc-9-dev-armhf-cross. Preparing to unpack .../069-libgcc-9-dev-armhf-cross_9.2.1-28cross1_all.deb ... Unpacking libgcc-9-dev-armhf-cross (9.2.1-28cross1) ... Selecting previously unselected package gcc-9-arm-linux-gnueabihf. Preparing to unpack .../070-gcc-9-arm-linux-gnueabihf_9.2.1-28cross1_amd64.deb ... Unpacking gcc-9-arm-linux-gnueabihf (9.2.1-28cross1) ... Selecting previously unselected package gcc-arm-linux-gnueabihf. Preparing to unpack .../071-gcc-arm-linux-gnueabihf_4%3a9.2.1-3.1_amd64.deb ... Unpacking gcc-arm-linux-gnueabihf (4:9.2.1-3.1) ... Selecting previously unselected package linux-libc-dev-armhf-cross. Preparing to unpack .../072-linux-libc-dev-armhf-cross_5.4.8-1cross1_all.deb ... Unpacking linux-libc-dev-armhf-cross (5.4.8-1cross1) ... Selecting previously unselected package libc6-dev-armhf-cross. Preparing to unpack .../073-libc6-dev-armhf-cross_2.29-9cross1_all.deb ... Unpacking libc6-dev-armhf-cross (2.29-9cross1) ... Selecting previously unselected package libstdc++-9-dev-armhf-cross. Preparing to unpack .../074-libstdc++-9-dev-armhf-cross_9.2.1-28cross1_all.deb ... Unpacking libstdc++-9-dev-armhf-cross (9.2.1-28cross1) ... Selecting previously unselected package g++-9-arm-linux-gnueabihf. Preparing to unpack .../075-g++-9-arm-linux-gnueabihf_9.2.1-28cross1_amd64.deb ... Unpacking g++-9-arm-linux-gnueabihf (9.2.1-28cross1) ... Selecting previously unselected package g++-arm-linux-gnueabihf. Preparing to unpack .../076-g++-arm-linux-gnueabihf_4%3a9.2.1-3.1_amd64.deb ... Unpacking g++-arm-linux-gnueabihf (4:9.2.1-3.1) ... Selecting previously unselected package libconfig-inifiles-perl. Preparing to unpack .../077-libconfig-inifiles-perl_3.000002-1_all.deb ... Unpacking libconfig-inifiles-perl (3.000002-1) ... Selecting previously unselected package libio-string-perl. Preparing to unpack .../078-libio-string-perl_1.08-3_all.deb ... Unpacking libio-string-perl (1.08-3) ... Selecting previously unselected package libxml-namespacesupport-perl. Preparing to unpack .../079-libxml-namespacesupport-perl_1.12-1_all.deb ... Unpacking libxml-namespacesupport-perl (1.12-1) ... Selecting previously unselected package libxml-sax-base-perl. Preparing to unpack .../080-libxml-sax-base-perl_1.09-1_all.deb ... Unpacking libxml-sax-base-perl (1.09-1) ... Selecting previously unselected package libxml-sax-perl. Preparing to unpack .../081-libxml-sax-perl_1.02+dfsg-1_all.deb ... Unpacking libxml-sax-perl (1.02+dfsg-1) ... Selecting previously unselected package libxml-libxml-perl. Preparing to unpack .../082-libxml-libxml-perl_2.0134+dfsg-2_amd64.deb ... Unpacking libxml-libxml-perl (2.0134+dfsg-2) ... Selecting previously unselected package libxml-simple-perl. Preparing to unpack .../083-libxml-simple-perl_2.25-1_all.deb ... Unpacking libxml-simple-perl (2.25-1) ... Selecting previously unselected package libyaml-perl. Preparing to unpack .../084-libyaml-perl_1.30-1_all.deb ... Unpacking libyaml-perl (1.30-1) ... Selecting previously unselected package libconfig-auto-perl. Preparing to unpack .../085-libconfig-auto-perl_0.44-1_all.deb ... Unpacking libconfig-auto-perl (0.44-1) ... Selecting previously unselected package libfile-which-perl. Preparing to unpack .../086-libfile-which-perl_1.23-1_all.deb ... Unpacking libfile-which-perl (1.23-1) ... Selecting previously unselected package libfile-homedir-perl. Preparing to unpack .../087-libfile-homedir-perl_1.004-1_all.deb ... Unpacking libfile-homedir-perl (1.004-1) ... Selecting previously unselected package libdebian-dpkgcross-perl. Preparing to unpack .../088-libdebian-dpkgcross-perl_2.6.15-3_all.deb ... Unpacking libdebian-dpkgcross-perl (2.6.15-3) ... Selecting previously unselected package dpkg-cross. Preparing to unpack .../089-dpkg-cross_2.6.15-3_all.deb ... Unpacking dpkg-cross (2.6.15-3) ... Selecting previously unselected package crossbuild-essential-armhf. Preparing to unpack .../090-crossbuild-essential-armhf_12.8_all.deb ... Unpacking crossbuild-essential-armhf (12.8) ... Selecting previously unselected package libtool. Preparing to unpack .../091-libtool_2.4.6-13_all.deb ... Unpacking libtool (2.4.6-13) ... Selecting previously unselected package dh-autoreconf. Preparing to unpack .../092-dh-autoreconf_19_all.deb ... Unpacking dh-autoreconf (19) ... Selecting previously unselected package libdebhelper-perl. Preparing to unpack .../093-libdebhelper-perl_12.9_all.deb ... Unpacking libdebhelper-perl (12.9) ... Selecting previously unselected package libarchive-zip-perl. Preparing to unpack .../094-libarchive-zip-perl_1.67-2_all.deb ... Unpacking libarchive-zip-perl (1.67-2) ... Selecting previously unselected package libsub-override-perl. Preparing to unpack .../095-libsub-override-perl_0.09-2_all.deb ... Unpacking libsub-override-perl (0.09-2) ... Selecting previously unselected package libfile-stripnondeterminism-perl. Preparing to unpack .../096-libfile-stripnondeterminism-perl_1.6.3-2_all.deb ... Unpacking libfile-stripnondeterminism-perl (1.6.3-2) ... Selecting previously unselected package dh-strip-nondeterminism. Preparing to unpack .../097-dh-strip-nondeterminism_1.6.3-2_all.deb ... Unpacking dh-strip-nondeterminism (1.6.3-2) ... Selecting previously unselected package libelf1:amd64. Preparing to unpack .../098-libelf1_0.176-1.1_amd64.deb ... Unpacking libelf1:amd64 (0.176-1.1) ... Selecting previously unselected package dwz. Preparing to unpack .../099-dwz_0.13-5_amd64.deb ... Unpacking dwz (0.13-5) ... Selecting previously unselected package libglib2.0-0:amd64. Preparing to unpack .../100-libglib2.0-0_2.62.5-1_amd64.deb ... Unpacking libglib2.0-0:amd64 (2.62.5-1) ... Selecting previously unselected package libcroco3:amd64. Preparing to unpack .../101-libcroco3_0.6.13-1_amd64.deb ... Unpacking libcroco3:amd64 (0.6.13-1) ... Selecting previously unselected package gettext. Preparing to unpack .../102-gettext_0.19.8.1-10_amd64.deb ... Unpacking gettext (0.19.8.1-10) ... Selecting previously unselected package intltool-debian. Preparing to unpack .../103-intltool-debian_0.35.0+20060710.5_all.deb ... Unpacking intltool-debian (0.35.0+20060710.5) ... Selecting previously unselected package po-debconf. Preparing to unpack .../104-po-debconf_1.0.21_all.deb ... Unpacking po-debconf (1.0.21) ... Selecting previously unselected package debhelper. Preparing to unpack .../105-debhelper_12.9_all.deb ... Unpacking debhelper (12.9) ... Selecting previously unselected package hdf5-helpers:armhf. Preparing to unpack .../106-hdf5-helpers_1.10.4+repack-11_armhf.deb ... Unpacking hdf5-helpers:armhf (1.10.4+repack-11) ... Selecting previously unselected package libgcc-s1:armhf. Preparing to unpack .../107-libgcc-s1_10-20200222-1_armhf.deb ... Unpacking libgcc-s1:armhf (10-20200222-1) ... Selecting previously unselected package libcrypt1:armhf. Preparing to unpack .../108-libcrypt1_1%3a4.4.15-1_armhf.deb ... Unpacking libcrypt1:armhf (1:4.4.15-1) ... Selecting previously unselected package libc6:armhf. Preparing to unpack .../109-libc6_2.29-10_armhf.deb ... Unpacking libc6:armhf (2.29-10) ... Selecting previously unselected package libaec0:armhf. Preparing to unpack .../110-libaec0_1.0.4-1_armhf.deb ... Unpacking libaec0:armhf (1.0.4-1) ... Selecting previously unselected package libsz2:armhf. Preparing to unpack .../111-libsz2_1.0.4-1_armhf.deb ... Unpacking libsz2:armhf (1.0.4-1) ... Selecting previously unselected package libaec-dev:armhf. Preparing to unpack .../112-libaec-dev_1.0.4-1_armhf.deb ... Unpacking libaec-dev:armhf (1.0.4-1) ... Selecting previously unselected package libblas3:armhf. Preparing to unpack .../113-libblas3_3.9.0-1_armhf.deb ... Unpacking libblas3:armhf (3.9.0-1) ... Selecting previously unselected package libgfortran5:armhf. Preparing to unpack .../114-libgfortran5_10-20200222-1_armhf.deb ... Unpacking libgfortran5:armhf (10-20200222-1) ... Selecting previously unselected package liblapack3:armhf. Preparing to unpack .../115-liblapack3_3.9.0-1_armhf.deb ... Unpacking liblapack3:armhf (3.9.0-1) ... Selecting previously unselected package libarpack2:armhf. Preparing to unpack .../116-libarpack2_3.7.0-3_armhf.deb ... Unpacking libarpack2:armhf (3.7.0-3) ... Selecting previously unselected package libstdc++6:armhf. Preparing to unpack .../117-libstdc++6_10-20200222-1_armhf.deb ... Unpacking libstdc++6:armhf (10-20200222-1) ... Selecting previously unselected package libsuperlu5:armhf. Preparing to unpack .../118-libsuperlu5_5.2.1+dfsg1-4_armhf.deb ... Unpacking libsuperlu5:armhf (5.2.1+dfsg1-4) ... Selecting previously unselected package libarmadillo9:armhf. Preparing to unpack .../119-libarmadillo9_1%3a9.800.4+dfsg-1_armhf.deb ... Unpacking libarmadillo9:armhf (1:9.800.4+dfsg-1) ... Selecting previously unselected package libblas-dev:armhf. Preparing to unpack .../120-libblas-dev_3.9.0-1_armhf.deb ... Unpacking libblas-dev:armhf (3.9.0-1) ... Selecting previously unselected package liblapack-dev:armhf. Preparing to unpack .../121-liblapack-dev_3.9.0-1_armhf.deb ... Unpacking liblapack-dev:armhf (3.9.0-1) ... Selecting previously unselected package libarpack2-dev:armhf. Preparing to unpack .../122-libarpack2-dev_3.7.0-3_armhf.deb ... Unpacking libarpack2-dev:armhf (3.7.0-3) ... Selecting previously unselected package zlib1g:armhf. Preparing to unpack .../123-zlib1g_1%3a1.2.11.dfsg-2_armhf.deb ... Unpacking zlib1g:armhf (1:1.2.11.dfsg-2) ... Selecting previously unselected package libhdf5-103:armhf. Preparing to unpack .../124-libhdf5-103_1.10.4+repack-11_armhf.deb ... Unpacking libhdf5-103:armhf (1.10.4+repack-11) ... Selecting previously unselected package linux-libc-dev:armhf. Preparing to unpack .../125-linux-libc-dev_5.4.19-1_armhf.deb ... Unpacking linux-libc-dev:armhf (5.4.19-1) ... Selecting previously unselected package libcrypt-dev:armhf. Preparing to unpack .../126-libcrypt-dev_1%3a4.4.15-1_armhf.deb ... Unpacking libcrypt-dev:armhf (1:4.4.15-1) ... Selecting previously unselected package libc6-dev:armhf. Preparing to unpack .../127-libc6-dev_2.29-10_armhf.deb ... Unpacking libc6-dev:armhf (2.29-10) ... Selecting previously unselected package zlib1g-dev:armhf. Preparing to unpack .../128-zlib1g-dev_1%3a1.2.11.dfsg-2_armhf.deb ... Unpacking zlib1g-dev:armhf (1:1.2.11.dfsg-2) ... Selecting previously unselected package libjpeg62-turbo:armhf. Preparing to unpack .../129-libjpeg62-turbo_1%3a1.5.2-2+b1_armhf.deb ... Unpacking libjpeg62-turbo:armhf (1:1.5.2-2+b1) ... Selecting previously unselected package libjpeg62-turbo-dev:armhf. Preparing to unpack .../130-libjpeg62-turbo-dev_1%3a1.5.2-2+b1_armhf.deb ... Unpacking libjpeg62-turbo-dev:armhf (1:1.5.2-2+b1) ... Selecting previously unselected package libhdf5-cpp-103:armhf. Preparing to unpack .../131-libhdf5-cpp-103_1.10.4+repack-11_armhf.deb ... Unpacking libhdf5-cpp-103:armhf (1.10.4+repack-11) ... Selecting previously unselected package libhdf5-dev:armhf. Preparing to unpack .../132-libhdf5-dev_1.10.4+repack-11_armhf.deb ... Unpacking libhdf5-dev:armhf (1.10.4+repack-11) ... Selecting previously unselected package libsuperlu-dev:armhf. Preparing to unpack .../133-libsuperlu-dev_5.2.1+dfsg1-4_armhf.deb ... Unpacking libsuperlu-dev:armhf (5.2.1+dfsg1-4) ... Selecting previously unselected package libarmadillo-dev:armhf. Preparing to unpack .../134-libarmadillo-dev_1%3a9.800.4+dfsg-1_armhf.deb ... Unpacking libarmadillo-dev:armhf (1:9.800.4+dfsg-1) ... Selecting previously unselected package libasan5:armhf. Preparing to unpack .../135-libasan5_9.2.1-30_armhf.deb ... Unpacking libasan5:armhf (9.2.1-30) ... Selecting previously unselected package libatomic1:armhf. Preparing to unpack .../136-libatomic1_10-20200222-1_armhf.deb ... Unpacking libatomic1:armhf (10-20200222-1) ... Selecting previously unselected package libbamtools2.5.1:armhf. Preparing to unpack .../137-libbamtools2.5.1_2.5.1+dfsg-5_armhf.deb ... Unpacking libbamtools2.5.1:armhf (2.5.1+dfsg-5) ... Selecting previously unselected package libbamtools-dev:armhf. Preparing to unpack .../138-libbamtools-dev_2.5.1+dfsg-5_armhf.deb ... Unpacking libbamtools-dev:armhf (2.5.1+dfsg-5) ... Selecting previously unselected package libgomp1:armhf. Preparing to unpack .../139-libgomp1_10-20200222-1_armhf.deb ... Unpacking libgomp1:armhf (10-20200222-1) ... Selecting previously unselected package libubsan1:armhf. Preparing to unpack .../140-libubsan1_10-20200222-1_armhf.deb ... Unpacking libubsan1:armhf (10-20200222-1) ... Selecting previously unselected package libgcc-9-dev:armhf. Preparing to unpack .../141-libgcc-9-dev_9.2.1-30_armhf.deb ... Unpacking libgcc-9-dev:armhf (9.2.1-30) ... Selecting previously unselected package libstdc++-9-dev:armhf. Preparing to unpack .../142-libstdc++-9-dev_9.2.1-30_armhf.deb ... Unpacking libstdc++-9-dev:armhf (9.2.1-30) ... Selecting previously unselected package libboost1.67-dev:armhf. Preparing to unpack .../143-libboost1.67-dev_1.67.0-17_armhf.deb ... Unpacking libboost1.67-dev:armhf (1.67.0-17) ... Selecting previously unselected package libboost-math1.67.0:armhf. Preparing to unpack .../144-libboost-math1.67.0_1.67.0-17_armhf.deb ... Unpacking libboost-math1.67.0:armhf (1.67.0-17) ... Selecting previously unselected package libboost-math1.67-dev:armhf. Preparing to unpack .../145-libboost-math1.67-dev_1.67.0-17_armhf.deb ... Unpacking libboost-math1.67-dev:armhf (1.67.0-17) ... Selecting previously unselected package libboost-math-dev:armhf. Preparing to unpack .../146-libboost-math-dev_1.67.0.2+b1_armhf.deb ... Unpacking libboost-math-dev:armhf (1.67.0.2+b1) ... Selecting previously unselected package libdisorder0:armhf. Preparing to unpack .../147-libdisorder0_0.0.2+git20130809.8062ee1-1_armhf.deb ... Unpacking libdisorder0:armhf (0.0.2+git20130809.8062ee1-1) ... Selecting previously unselected package libdisorder-dev:armhf. Preparing to unpack .../148-libdisorder-dev_0.0.2+git20130809.8062ee1-1_armhf.deb ... Unpacking libdisorder-dev:armhf (0.0.2+git20130809.8062ee1-1) ... Selecting previously unselected package libjsoncpp1:armhf. Preparing to unpack .../149-libjsoncpp1_1.7.4-3.1_armhf.deb ... Unpacking libjsoncpp1:armhf (1.7.4-3.1) ... Selecting previously unselected package libjsoncpp-dev:armhf. Preparing to unpack .../150-libjsoncpp-dev_1.7.4-3.1_armhf.deb ... Unpacking libjsoncpp-dev:armhf (1.7.4-3.1) ... Selecting previously unselected package libsmithwaterman0:armhf. Preparing to unpack .../151-libsmithwaterman0_0.0+git20160702.2610e25-7_armhf.deb ... Unpacking libsmithwaterman0:armhf (0.0+git20160702.2610e25-7) ... Selecting previously unselected package libsmithwaterman-dev:armhf. Preparing to unpack .../152-libsmithwaterman-dev_0.0+git20160702.2610e25-7_armhf.deb ... Unpacking libsmithwaterman-dev:armhf (0.0+git20160702.2610e25-7) ... Selecting previously unselected package sbuild-build-depends-main-dummy:armhf. Preparing to unpack .../153-sbuild-build-depends-main-dummy_0.invalid.0_armhf.deb ... Unpacking sbuild-build-depends-main-dummy:armhf (0.invalid.0) ... Setting up libconfig-inifiles-perl (3.000002-1) ... Setting up libexpat1:amd64 (2.2.9-1) ... Setting up libpipeline1:amd64 (1.5.2-2) ... Setting up libfile-which-perl (1.23-1) ... Setting up libkeyutils1:amd64 (1.6.1-2) ... Setting up libpsl5:amd64 (0.20.2-2) ... Setting up libc6-armhf-cross (2.29-9cross1) ... Setting up hdf5-helpers:armhf (1.10.4+repack-11) ... Setting up libmagic-mgc (1:5.38-4) ... Setting up libarchive-zip-perl (1.67-2) ... Setting up libglib2.0-0:amd64 (2.62.5-1) ... No schema files found: doing nothing. Setting up libssl1.1:amd64 (1.1.1d-2) ... Setting up libdebhelper-perl (12.9) ... Setting up libbrotli1:amd64 (1.0.7-6) ... Setting up libnghttp2-14:amd64 (1.40.0-1) ... Setting up libmagic1:amd64 (1:5.38-4) ... Setting up linux-libc-dev:armhf (5.4.19-1) ... Setting up libxml-namespacesupport-perl (1.12-1) ... Setting up gettext-base (0.19.8.1-10) ... Setting up file (1:5.38-4) ... Setting up libldap-common (2.4.49+dfsg-1) ... Setting up libyaml-perl (1.30-1) ... Setting up libicu63:amd64 (63.2-2) ... Setting up libkrb5support0:amd64 (1.17-6) ... Setting up gcc-9-arm-linux-gnueabihf-base:amd64 (9.2.1-28cross1) ... Setting up libsasl2-modules-db:amd64 (2.1.27+dfsg-2) ... Setting up libxml-sax-base-perl (1.09-1) ... Setting up libio-string-perl (1.08-3) ... Setting up gcc-10-base:armhf (10-20200222-1) ... Setting up autotools-dev (20180224.1) ... Setting up cross-config (2.6.15-3) ... Setting up libuv1:amd64 (1.34.2-1) ... Setting up librtmp1:amd64 (2.4+20151223.gitfa8646d.1-2+b1) ... Setting up libncurses6:amd64 (6.2-1) ... Setting up libsigsegv2:amd64 (2.12-2) ... Setting up linux-libc-dev-armhf-cross (5.4.8-1cross1) ... Setting up autopoint (0.19.8.1-10) ... Setting up gcc-9-cross-base (9.2.1-28cross1) ... Setting up libk5crypto3:amd64 (1.17-6) ... Setting up gcc-10-cross-base (10-20200211-1cross1) ... Setting up libsasl2-2:amd64 (2.1.27+dfsg-2) ... Setting up sensible-utils (0.0.12+nmu1) ... Setting up librhash0:amd64 (1.3.9-1) ... Setting up libcrypt-dev:amd64 (1:4.4.15-1) ... Setting up libuchardet0:amd64 (0.0.6-3) ... Setting up libsub-override-perl (0.09-2) ... Setting up libc6-dev:amd64 (2.29-10) ... Setting up libssh2-1:amd64 (1.8.0-2.1) ... Setting up cmake-data (3.16.3-1) ... Setting up libkrb5-3:amd64 (1.17-6) ... Setting up libfile-homedir-perl (1.004-1) ... Setting up libbsd0:amd64 (0.10.0-1) ... Setting up binutils-arm-linux-gnueabihf (2.34-4) ... Setting up libelf1:amd64 (0.176-1.1) ... Setting up libxml2:amd64 (2.9.10+dfsg-4) ... Setting up liblocale-gettext-perl (1.07-4) ... Setting up libprocps8:amd64 (2:3.3.16-3) ... Setting up libjsoncpp1:amd64 (1.7.4-3.1) ... Setting up gcc-9-base:armhf (9.2.1-30) ... Setting up libgomp1-armhf-cross (10-20200211-1cross1) ... Setting up libfile-stripnondeterminism-perl (1.6.3-2) ... Setting up libstdc++-9-dev:amd64 (9.2.1-30) ... Setting up libtool (2.4.6-13) ... Setting up cpp-9-arm-linux-gnueabihf (9.2.1-28cross1) ... Setting up libarchive13:amd64 (3.4.0-1+b1) ... Setting up libgcc-s1-armhf-cross (10-20200211-1cross1) ... Setting up libc6-dev-armhf-cross (2.29-9cross1) ... Setting up libldap-2.4-2:amd64 (2.4.49+dfsg-1) ... Setting up m4 (1.4.18-4) ... Setting up libatomic1-armhf-cross (10-20200211-1cross1) ... Setting up libasan5-armhf-cross (9.2.1-28cross1) ... Setting up libstdc++6-armhf-cross (10-20200211-1cross1) ... Setting up bsdmainutils (11.1.2+b1) ... update-alternatives: using /usr/bin/bsd-write to provide /usr/bin/write (write) in auto mode update-alternatives: using /usr/bin/bsd-from to provide /usr/bin/from (from) in auto mode Setting up libgssapi-krb5-2:amd64 (1.17-6) ... Setting up libcroco3:amd64 (0.6.13-1) ... Setting up libubsan1-armhf-cross (10-20200211-1cross1) ... Setting up ucf (3.0038+nmu1) ... Setting up g++-9 (9.2.1-30) ... Setting up autoconf (2.69-11.1) ... Setting up dh-strip-nondeterminism (1.6.3-2) ... Setting up g++ (4:9.2.1-3.1) ... update-alternatives: using /usr/bin/g++ to provide /usr/bin/c++ (c++) in auto mode Setting up dwz (0.13-5) ... Setting up groff-base (1.22.4-4) ... Setting up procps (2:3.3.16-3) ... update-alternatives: using /usr/bin/w.procps to provide /usr/bin/w (w) in auto mode Setting up libgcc-9-dev-armhf-cross (9.2.1-28cross1) ... Setting up build-essential (12.8) ... Setting up libcurl4:amd64 (7.68.0-1) ... Setting up cpp-arm-linux-gnueabihf (4:9.2.1-3.1) ... Setting up automake (1:1.16.1-4) ... update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode Setting up gettext (0.19.8.1-10) ... Setting up man-db (2.9.1-1) ... 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 intltool-debian (0.35.0+20060710.5) ... Setting up gcc-9-arm-linux-gnueabihf (9.2.1-28cross1) ... Setting up libxml-libxml-perl (2.0134+dfsg-2) ... 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 libstdc++-9-dev-armhf-cross (9.2.1-28cross1) ... Setting up cmake (3.16.3-1) ... Setting up gcc-arm-linux-gnueabihf (4:9.2.1-3.1) ... Setting up po-debconf (1.0.21) ... Setting up g++-9-arm-linux-gnueabihf (9.2.1-28cross1) ... Setting up libxml-simple-perl (2.25-1) ... Setting up g++-arm-linux-gnueabihf (4:9.2.1-3.1) ... Setting up libconfig-auto-perl (0.44-1) ... Setting up libdebian-dpkgcross-perl (2.6.15-3) ... Setting up dpkg-cross (2.6.15-3) ... Setting up crossbuild-essential-armhf (12.8) ... Setting up libcrypt1:armhf (1:4.4.15-1) ... Setting up libgcc-s1:armhf (10-20200222-1) ... Setting up dh-autoreconf (19) ... Setting up libc6:armhf (2.29-10) ... Setting up libcrypt-dev:armhf (1:4.4.15-1) ... Setting up libc6-dev:armhf (2.29-10) ... Setting up libstdc++6:armhf (10-20200222-1) ... Setting up libjsoncpp1:armhf (1.7.4-3.1) ... Setting up libdisorder0:armhf (0.0.2+git20130809.8062ee1-1) ... Setting up libjsoncpp-dev:armhf (1.7.4-3.1) ... Setting up libsmithwaterman0:armhf (0.0+git20160702.2610e25-7) ... Setting up debhelper (12.9) ... Setting up zlib1g:armhf (1:1.2.11.dfsg-2) ... Setting up libboost-math1.67.0:armhf (1.67.0-17) ... Setting up libgomp1:armhf (10-20200222-1) ... Setting up libaec0:armhf (1.0.4-1) ... Setting up libasan5:armhf (9.2.1-30) ... Setting up libblas3:armhf (3.9.0-1) ... update-alternatives: using /usr/lib/arm-linux-gnueabihf/blas/libblas.so.3 to provide /usr/lib/arm-linux-gnueabihf/libblas.so.3 (libblas.so.3-arm-linux-gnueabihf) in auto mode Setting up libjpeg62-turbo:armhf (1:1.5.2-2+b1) ... Setting up libjpeg62-turbo-dev:armhf (1:1.5.2-2+b1) ... Setting up libbamtools2.5.1:armhf (2.5.1+dfsg-5) ... Setting up libatomic1:armhf (10-20200222-1) ... Setting up libdisorder-dev:armhf (0.0.2+git20130809.8062ee1-1) ... Setting up libgfortran5:armhf (10-20200222-1) ... Setting up libubsan1:armhf (10-20200222-1) ... Setting up zlib1g-dev:armhf (1:1.2.11.dfsg-2) ... Setting up libblas-dev:armhf (3.9.0-1) ... update-alternatives: using /usr/lib/arm-linux-gnueabihf/blas/libblas.so to provide /usr/lib/arm-linux-gnueabihf/libblas.so (libblas.so-arm-linux-gnueabihf) in auto mode Setting up libsz2:armhf (1.0.4-1) ... Setting up liblapack3:armhf (3.9.0-1) ... update-alternatives: using /usr/lib/arm-linux-gnueabihf/lapack/liblapack.so.3 to provide /usr/lib/arm-linux-gnueabihf/liblapack.so.3 (liblapack.so.3-arm-linux-gnueabihf) in auto mode Setting up libaec-dev:armhf (1.0.4-1) ... Setting up libarpack2:armhf (3.7.0-3) ... Setting up libsuperlu5:armhf (5.2.1+dfsg1-4) ... Setting up libgcc-9-dev:armhf (9.2.1-30) ... Setting up libbamtools-dev:armhf (2.5.1+dfsg-5) ... Setting up libhdf5-103:armhf (1.10.4+repack-11) ... Setting up liblapack-dev:armhf (3.9.0-1) ... update-alternatives: using /usr/lib/arm-linux-gnueabihf/lapack/liblapack.so to provide /usr/lib/arm-linux-gnueabihf/liblapack.so (liblapack.so-arm-linux-gnueabihf) in auto mode Setting up libsmithwaterman-dev:armhf (0.0+git20160702.2610e25-7) ... Setting up libarmadillo9:armhf (1:9.800.4+dfsg-1) ... Setting up libsuperlu-dev:armhf (5.2.1+dfsg1-4) ... Setting up libarpack2-dev:armhf (3.7.0-3) ... Setting up libstdc++-9-dev:armhf (9.2.1-30) ... Setting up libhdf5-cpp-103:armhf (1.10.4+repack-11) ... Setting up libhdf5-dev:armhf (1.10.4+repack-11) ... update-alternatives: using /usr/lib/arm-linux-gnueabihf/pkgconfig/hdf5-serial.pc to provide /usr/lib/arm-linux-gnueabihf/pkgconfig/hdf5.pc (hdf5.pc) in auto mode Setting up libboost1.67-dev:armhf (1.67.0-17) ... Setting up libboost-math1.67-dev:armhf (1.67.0-17) ... Setting up libboost-math-dev:armhf (1.67.0.2+b1) ... Setting up libarmadillo-dev:armhf (1:9.800.4+dfsg-1) ... Setting up sbuild-build-depends-main-dummy:armhf (0.invalid.0) ... Processing triggers for libc-bin (2.29-10) ... +------------------------------------------------------------------------------+ | Check architectures | +------------------------------------------------------------------------------+ Arch check ok (armhf included in any) +------------------------------------------------------------------------------+ | Build environment | +------------------------------------------------------------------------------+ Kernel: Linux 4.19.0-6-amd64 #1 SMP Debian 4.19.67-2+deb10u2 (2019-11-11) amd64 (x86_64) Toolchain package versions: binutils_2.34-4 dpkg-dev_1.19.7 g++-9_9.2.1-30 gcc-8_8.3.0-29 gcc-9_9.2.1-30 libc6-dev_2.29-10 libstdc++-9-dev_9.2.1-30 libstdc++-9-dev-armhf-cross_9.2.1-28cross1 libstdc++6_10-20200222-1 libstdc++6-armhf-cross_10-20200211-1cross1 linux-libc-dev_5.4.19-1 Package versions: adduser_3.118 apt_1.8.4 autoconf_2.69-11.1 automake_1:1.16.1-4 autopoint_0.19.8.1-10 autotools-dev_20180224.1 base-files_11 base-passwd_3.5.47 bash_5.0-6 binutils_2.34-4 binutils-arm-linux-gnueabihf_2.34-4 binutils-common_2.34-4 binutils-x86-64-linux-gnu_2.34-4 bsdmainutils_11.1.2+b1 bsdutils_1:2.34-0.1 build-essential_12.8 bzip2_1.0.8-2 cmake_3.16.3-1 cmake-data_3.16.3-1 coreutils_8.30-3+b1 cpp_4:9.2.1-3.1 cpp-8_8.3.0-29 cpp-9_9.2.1-30 cpp-9-arm-linux-gnueabihf_9.2.1-28cross1 cpp-arm-linux-gnueabihf_4:9.2.1-3.1 cross-config_2.6.15-3 crossbuild-essential-armhf_12.8 dash_0.5.10.2-6 debconf_1.5.73 debhelper_12.9 debian-archive-keyring_2019.1 debianutils_4.9.1 dh-autoreconf_19 dh-strip-nondeterminism_1.6.3-2 diffutils_1:3.7-3 dpkg_1.19.7 dpkg-cross_2.6.15-3 dpkg-dev_1.19.7 dwz_0.13-5 e2fsprogs_1.45.5-2 fakeroot_1.24-1 fdisk_2.34-0.1 file_1:5.38-4 findutils_4.7.0-1 g++_4:9.2.1-3.1 g++-9_9.2.1-30 g++-9-arm-linux-gnueabihf_9.2.1-28cross1 g++-arm-linux-gnueabihf_4:9.2.1-3.1 gcc_4:9.2.1-3.1 gcc-10-base_10-20200222-1 gcc-10-cross-base_10-20200211-1cross1 gcc-8_8.3.0-29 gcc-8-base_8.3.0-29 gcc-9_9.2.1-30 gcc-9-arm-linux-gnueabihf_9.2.1-28cross1 gcc-9-arm-linux-gnueabihf-base_9.2.1-28cross1 gcc-9-base_9.2.1-30 gcc-9-cross-base_9.2.1-28cross1 gcc-arm-linux-gnueabihf_4:9.2.1-3.1 gettext_0.19.8.1-10 gettext-base_0.19.8.1-10 gpgv_2.2.19-2 grep_3.4-1 groff-base_1.22.4-4 gzip_1.10-1 hdf5-helpers_1.10.4+repack-11 hostname_3.23 init-system-helpers_1.57 intltool-debian_0.35.0+20060710.5 libacl1_2.2.53-6 libaec-dev_1.0.4-1 libaec0_1.0.4-1 libapt-pkg5.0_1.8.4 libarchive-zip-perl_1.67-2 libarchive13_3.4.0-1+b1 libarmadillo-dev_1:9.800.4+dfsg-1 libarmadillo9_1:9.800.4+dfsg-1 libarpack2_3.7.0-3 libarpack2-dev_3.7.0-3 libasan5_9.2.1-30 libasan5-armhf-cross_9.2.1-28cross1 libatomic1_10-20200222-1 libatomic1-armhf-cross_10-20200211-1cross1 libattr1_1:2.4.48-5 libaudit-common_1:2.8.5-2 libaudit1_1:2.8.5-2+b1 libbamtools-dev_2.5.1+dfsg-5 libbamtools2.5.1_2.5.1+dfsg-5 libbinutils_2.34-4 libblas-dev_3.9.0-1 libblas3_3.9.0-1 libblkid1_2.34-0.1 libboost-math-dev_1.67.0.2+b1 libboost-math1.67-dev_1.67.0-17 libboost-math1.67.0_1.67.0-17 libboost1.67-dev_1.67.0-17 libbrotli1_1.0.7-6 libbsd0_0.10.0-1 libbz2-1.0_1.0.8-2 libc-bin_2.29-10 libc-dev-bin_2.29-10 libc6_2.29-10 libc6-armhf-cross_2.29-9cross1 libc6-dev_2.29-10 libc6-dev-armhf-cross_2.29-9cross1 libcap-ng0_0.7.9-2.1+b1 libcc1-0_10-20200222-1 libcom-err2_1.45.5-2 libconfig-auto-perl_0.44-1 libconfig-inifiles-perl_3.000002-1 libcroco3_0.6.13-1 libcrypt-dev_1:4.4.15-1 libcrypt1_1:4.4.15-1 libctf-nobfd0_2.34-4 libctf0_2.34-4 libcurl4_7.68.0-1 libdb5.3_5.3.28+dfsg1-0.6 libdebconfclient0_0.251 libdebhelper-perl_12.9 libdebian-dpkgcross-perl_2.6.15-3 libdisorder-dev_0.0.2+git20130809.8062ee1-1 libdisorder0_0.0.2+git20130809.8062ee1-1 libdpkg-perl_1.19.7 libelf1_0.176-1.1 libexpat1_2.2.9-1 libext2fs2_1.45.5-2 libfakeroot_1.24-1 libfdisk1_2.34-0.1 libffi6_3.2.1-9 libffi7_3.3-3 libfile-homedir-perl_1.004-1 libfile-stripnondeterminism-perl_1.6.3-2 libfile-which-perl_1.23-1 libgcc-8-dev_8.3.0-29 libgcc-9-dev_9.2.1-30 libgcc-9-dev-armhf-cross_9.2.1-28cross1 libgcc-s1_10-20200222-1 libgcc-s1-armhf-cross_10-20200211-1cross1 libgcc1_1:10-20200222-1 libgcrypt20_1.8.5-5 libgdbm-compat4_1.18.1-5 libgdbm6_1.18.1-5 libgfortran5_10-20200222-1 libglib2.0-0_2.62.5-1 libgmp10_2:6.2.0+dfsg-4 libgnutls30_3.6.12-2 libgomp1_10-20200222-1 libgomp1-armhf-cross_10-20200211-1cross1 libgpg-error0_1.37-1 libgssapi-krb5-2_1.17-6 libhdf5-103_1.10.4+repack-11 libhdf5-cpp-103_1.10.4+repack-11 libhdf5-dev_1.10.4+repack-11 libhogweed4_3.5.1+really3.4.1-1 libhogweed5_3.5.1+really3.5.1-2 libicu63_63.2-2 libidn2-0_2.2.0-2 libio-string-perl_1.08-3 libisl19_0.20-2 libisl22_0.22.1-1 libitm1_10-20200222-1 libjpeg62-turbo_1:1.5.2-2+b1 libjpeg62-turbo-dev_1:1.5.2-2+b1 libjsoncpp-dev_1.7.4-3.1 libjsoncpp1_1.7.4-3.1 libk5crypto3_1.17-6 libkeyutils1_1.6.1-2 libkrb5-3_1.17-6 libkrb5support0_1.17-6 liblapack-dev_3.9.0-1 liblapack3_3.9.0-1 libldap-2.4-2_2.4.49+dfsg-1 libldap-common_2.4.49+dfsg-1 liblocale-gettext-perl_1.07-4 liblsan0_10-20200222-1 liblz4-1_1.9.2-2 liblzma5_5.2.4-1+b1 libmagic-mgc_1:5.38-4 libmagic1_1:5.38-4 libmount1_2.34-0.1 libmpc3_1.1.0-1 libmpfr6_4.0.2-1 libmpx2_8.3.0-29 libncurses6_6.2-1 libncursesw6_6.2-1 libnettle6_3.5.1+really3.4.1-1 libnettle7_3.5.1+really3.5.1-2 libnghttp2-14_1.40.0-1 libp11-kit0_0.23.20-1 libpam-modules_1.3.1-5 libpam-modules-bin_1.3.1-5 libpam-runtime_1.3.1-5 libpam0g_1.3.1-5 libpcre2-8-0_10.34-7 libpcre3_2:8.39-12+b1 libperl5.28_5.28.1-6 libperl5.30_5.30.0-9 libpipeline1_1.5.2-2 libprocps8_2:3.3.16-3 libpsl5_0.20.2-2 libquadmath0_10-20200222-1 librhash0_1.3.9-1 librtmp1_2.4+20151223.gitfa8646d.1-2+b1 libsasl2-2_2.1.27+dfsg-2 libsasl2-modules-db_2.1.27+dfsg-2 libseccomp2_2.4.2-2 libselinux1_3.0-1+b1 libsemanage-common_3.0-1 libsemanage1_3.0-1+b1 libsepol1_3.0-1 libsigsegv2_2.12-2 libsmartcols1_2.34-0.1 libsmithwaterman-dev_0.0+git20160702.2610e25-7 libsmithwaterman0_0.0+git20160702.2610e25-7 libss2_1.45.5-2 libssh2-1_1.8.0-2.1 libssl1.1_1.1.1d-2 libstdc++-9-dev_9.2.1-30 libstdc++-9-dev-armhf-cross_9.2.1-28cross1 libstdc++6_10-20200222-1 libstdc++6-armhf-cross_10-20200211-1cross1 libsub-override-perl_0.09-2 libsuperlu-dev_5.2.1+dfsg1-4 libsuperlu5_5.2.1+dfsg1-4 libsystemd0_244.3-1 libsz2_1.0.4-1 libtasn1-6_4.16.0-2 libtinfo6_6.2-1 libtool_2.4.6-13 libtsan0_10-20200222-1 libubsan1_10-20200222-1 libubsan1-armhf-cross_10-20200211-1cross1 libuchardet0_0.0.6-3 libudev1_244.3-1 libunistring2_0.9.10-2 libuuid1_2.34-0.1 libuv1_1.34.2-1 libxml-libxml-perl_2.0134+dfsg-2 libxml-namespacesupport-perl_1.12-1 libxml-sax-base-perl_1.09-1 libxml-sax-perl_1.02+dfsg-1 libxml-simple-perl_2.25-1 libxml2_2.9.10+dfsg-4 libyaml-perl_1.30-1 libzstd1_1.4.4+dfsg-3 linux-libc-dev_5.4.19-1 linux-libc-dev-armhf-cross_5.4.8-1cross1 login_1:4.8.1-1 logsave_1.45.5-2 lsb-base_11.1.0 m4_1.4.18-4 make_4.2.1-1.2 man-db_2.9.1-1 mawk_1.3.4.20200120-2 mount_2.34-0.1 ncurses-base_6.2-1 ncurses-bin_6.2-1 passwd_1:4.8.1-1 patch_2.7.6-6 perl_5.30.0-9 perl-base_5.30.0-9 perl-modules-5.28_5.28.1-6 perl-modules-5.30_5.30.0-9 po-debconf_1.0.21 procps_2:3.3.16-3 sbuild-build-depends-main-dummy_0.invalid.0 sed_4.7-1 sensible-utils_0.0.12+nmu1 sysvinit-utils_2.96-2.1 tar_1.30+dfsg-6+b1 tzdata_2019c-3 ucf_3.0038+nmu1 util-linux_2.34-0.1 xz-utils_5.2.4-1+b1 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 +PosQld9epddEd/T9zBcZIVPmUeW2oDue5k8TPspJcEeHVe1jRwM4eAuEeIvKYgg GItm/idx9b1jL+FcoIzCHeLo78nnIsKiHgbfw8+iexTFQ0ejh9A+cEp+LWpzISEj KirVJ1SAjzCoI9S1PNOX1kD1HCbDa+4+Yfq2CQ5QW1kLEnWmBKo+/M8OKz+Nm6kn D/zN9t9iAdi6yAJ/8whC42c4T1z7lci8G1RS/KFn9bFJF0LX6aC1/iZRlgARH0f3 qGb2PzvqLxTXKKzJLnaMMwD+ai83FQ8/A7FqOkFUoLMF4mQhC/E8uSsd4bWJC1j4 Wyxwkmkk+Ji+FXsuFdsqUycgFPeb+EFphUo20qPue6NKeLNBe43qjW5wMsfibaLK 4eaLe5woiXAoGVzyDKzRFjctyXaj0KtKw24uCNxGg/MI5P4Jw6E0I0Wh1eSb0DhV 4N06U0NTwEXlYSIB61p/J/bEDmM7qFQLYsKUol9JMzqQm8+VAzPXE7uUxUwJP8ae 45j1cyRXXKCe =OVd/ -----END PGP SIGNATURE----- gpgv: unknown type of key resource 'trustedkeys.kbx' gpgv: keyblock resource '/sbuild-nonexistent/.gnupg/trustedkeys.kbx': General error gpgv: Signature made Sun Mar 1 05:51:37 2020 UTC gpgv: using RSA key 90E2D2C1AD146A1B7EBB891DBBC17EBB1396F2F7 gpgv: issuer "stuart@debian.org" gpgv: Can't check signature: No public key dpkg-source: warning: failed to verify signature on ./tvc_5.0.3+git20151221.80e144e+dfsg-3.dsc dpkg-source: 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 User Environment ---------------- APT_CONFIG=/var/lib/sbuild/apt.conf CONFIG_SITE=/etc/dpkg-cross/cross-config.armhf DEB_BUILD_OPTIONS=nocheck HOME=/sbuild-nonexistent LANG=en_US.UTF-8 LC_ALL=C.UTF-8 LOGNAME=helmut PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games SCHROOT_ALIAS_NAME=unstable-amd64-sbuild SCHROOT_CHROOT_NAME=unstable-amd64-sbuild SCHROOT_COMMAND=env SCHROOT_GID=1003 SCHROOT_GROUP=helmut SCHROOT_SESSION_ID=unstable-amd64-sbuild-f6a31ee6-f65d-42c2-967a-3375256bd7a2 SCHROOT_UID=1003 SCHROOT_USER=helmut SHELL=/bin/sh USER=helmut dpkg-buildpackage ----------------- Command: dpkg-buildpackage -aarmhf -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 arm-linux-gnueabihf does not match CC system type x86_64-linux-gnu, try setting a correct CC environment variable dpkg-source --before-build . dpkg-buildpackage: info: host architecture armhf 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-arm-linux-gnueabihf && 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_PACKAGE_NO_PACKAGE_REGISTRY=ON -DCMAKE_INSTALL_RUNSTATEDIR=/run "-GUnix Makefiles" -DCMAKE_VERBOSE_MAKEFILE=ON -DCMAKE_SYSTEM_NAME=Linux -DCMAKE_SYSTEM_PROCESSOR=armv7l -DCMAKE_C_COMPILER=arm-linux-gnueabihf-gcc -DCMAKE_CXX_COMPILER=arm-linux-gnueabihf-g\+\+ -DPKG_CONFIG_EXECUTABLE=/usr/bin/arm-linux-gnueabihf-pkg-config -DPKGCONFIG_EXECUTABLE=/usr/bin/arm-linux-gnueabihf-pkg-config -DQMAKE_EXECUTABLE=/usr/bin/arm-linux-gnueabihf-qmake -DCMAKE_INSTALL_LIBDIR=lib/arm-linux-gnueabihf .. -- The C compiler identification is GNU 9.2.1 -- The CXX compiler identification is GNU 9.2.1 -- Check for working C compiler: /usr/bin/arm-linux-gnueabihf-gcc -- Check for working C compiler: /usr/bin/arm-linux-gnueabihf-gcc -- works -- Detecting C compiler ABI info -- Detecting C compiler ABI info - done -- Detecting C compile features -- Detecting C compile features - done -- Check for working CXX compiler: /usr/bin/arm-linux-gnueabihf-g++ -- Check for working CXX compiler: /usr/bin/arm-linux-gnueabihf-g++ -- works -- Detecting CXX compiler ABI info -- Detecting CXX compiler ABI info - done -- Detecting CXX compile features -- Detecting CXX compile features - done -- CMAKE_CXX_FLAGS: '-g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2' -- Configuring done -- Generating done CMake Warning: Manually-specified variables were not used by the project: CMAKE_EXPORT_NO_PACKAGE_REGISTRY CMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY CMAKE_INSTALL_LIBDIR CMAKE_INSTALL_LOCALSTATEDIR CMAKE_INSTALL_RUNSTATEDIR CMAKE_INSTALL_SYSCONFDIR PKGCONFIG_EXECUTABLE PKG_CONFIG_EXECUTABLE QMAKE_EXECUTABLE -- Build files have been written to: /<>/obj-arm-linux-gnueabihf dh_auto_build -a cd obj-arm-linux-gnueabihf && make -j1 "INSTALL=install --strip-program=true" make[1]: Entering directory '/<>/obj-arm-linux-gnueabihf' /usr/bin/cmake -S/<> -B/<>/obj-arm-linux-gnueabihf --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /<>/obj-arm-linux-gnueabihf/CMakeFiles /<>/obj-arm-linux-gnueabihf/CMakeFiles/progress.marks make -f CMakeFiles/Makefile2 all make[2]: Entering directory '/<>/obj-arm-linux-gnueabihf' make -f CMakeFiles/tvcutils.dir/build.make CMakeFiles/tvcutils.dir/depend make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/CMakeFiles/tvcutils.dir/DependInfo.cmake --color= Scanning dependencies of target tvcutils make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f CMakeFiles/tvcutils.dir/build.make CMakeFiles/tvcutils.dir/build make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 1%] Building CXX object CMakeFiles/tvcutils.dir/VariantCaller/tvcutils/tvcutils.cpp.o /usr/bin/arm-linux-gnueabihf-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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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/arm-linux-gnueabihf-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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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/arm-linux-gnueabihf-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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/tvcutils.dir/VariantCaller/tvcutils/validate_bed.cpp.o -c /<>/VariantCaller/tvcutils/validate_bed.cpp /<>/VariantCaller/tvcutils/validate_bed.cpp: In function ‘bool load_and_validate_bed(const string&, ReferenceReader&, BedFile&, Json::Value&, bool)’: /<>/VariantCaller/tvcutils/validate_bed.cpp:861:26: warning: ‘%s’ directive writing up to 65535 bytes into a region of size 1024 [-Wformat-overflow=] 783 | fields[0] = line; | ~~~~ ...... 861 | sprintf(buffer, "%s:%ld-%ld", fields[0], bed_line.start+1, bed_line.end); | ^~ /<>/VariantCaller/tvcutils/validate_bed.cpp:861:25: note: directive argument in the range [-2147483647, 2147483647] 861 | sprintf(buffer, "%s:%ld-%ld", fields[0], bed_line.start+1, bed_line.end); | ^~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/stdio.h:867, from /usr/arm-linux-gnueabihf/include/c++/9/cstdio:42, from /usr/arm-linux-gnueabihf/include/c++/9/ext/string_conversions.h:43, from /usr/arm-linux-gnueabihf/include/c++/9/bits/basic_string.h:6493, from /usr/arm-linux-gnueabihf/include/c++/9/string:55, from /<>/VariantCaller/tvcutils/validate_bed.cpp:5: /usr/arm-linux-gnueabihf/include/bits/stdio2.h:36:34: note: ‘__builtin___sprintf_chk’ output between 5 and 65560 bytes into a destination of size 1024 36 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 37 | __bos (__s), __fmt, __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 6%] Building CXX object CMakeFiles/tvcutils.dir/VariantCaller/tvcutils/unify_vcf.cpp.o /usr/bin/arm-linux-gnueabihf-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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/tvcutils.dir/VariantCaller/tvcutils/unify_vcf.cpp.o -c /<>/VariantCaller/tvcutils/unify_vcf.cpp In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:72, from /<>/VariantCaller/tvcutils/unify_vcf.cpp:13: /usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {markov_state}; _Tp = markov_state; _Alloc = std::allocator]’: /usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {markov_state}; _Tp = markov_state; _Alloc = std::allocator]’: /usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ^~~~~~~~~~~~~~~~~ [ 7%] Building CXX object CMakeFiles/tvcutils.dir/VariantCaller/TargetsManager.cpp.o /usr/bin/arm-linux-gnueabihf-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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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/arm-linux-gnueabihf-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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/tvcutils.dir/Util/OptArgs.cpp.o -c /<>/Util/OptArgs.cpp In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:72, from /<>/Util/OptArgs.h:11, from /<>/Util/OptArgs.cpp:4: /usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator]’: /usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc: In member function ‘void OptArgs::StringToDoubleVector(std::vector&, const string&, const string&, char)’: /usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ^~~~~~~~~~~~~~~~~ [ 10%] Building CXX object CMakeFiles/tvcutils.dir/external/vcflib/Variant.cpp.o /usr/bin/arm-linux-gnueabihf-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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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/arm-linux-gnueabihf-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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/tvcutils.dir/external/vcflib/split.cpp.o -c /<>/external/vcflib/split.cpp [ 14%] Building CXX object CMakeFiles/tvcutils.dir/external/vcflib/tabixpp/tabix.cpp.o /usr/bin/arm-linux-gnueabihf-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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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/arm-linux-gnueabihf-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 -fdebug-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 [ 17%] Building C object CMakeFiles/tvcutils.dir/external/vcflib/tabixpp/bgzf.c.o /usr/bin/arm-linux-gnueabihf-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 -fdebug-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/arm-linux-gnueabihf-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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/tvcutils.dir/IonVersion.cpp.o -c /<>/obj-arm-linux-gnueabihf/IonVersion.cpp [ 20%] Linking CXX executable tvcutils /usr/bin/cmake -E cmake_link_script CMakeFiles/tvcutils.dir/link.txt --verbose=1 /usr/bin/arm-linux-gnueabihf-g++ -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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-arm-linux-gnueabihf' [ 20%] Built target tvcutils make -f CMakeFiles/tvcassembly.dir/build.make CMakeFiles/tvcassembly.dir/depend make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/CMakeFiles/tvcassembly.dir/DependInfo.cmake --color= Scanning dependencies of target tvcassembly make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f CMakeFiles/tvcassembly.dir/build.make CMakeFiles/tvcassembly.dir/build make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 21%] Building CXX object CMakeFiles/tvcassembly.dir/VariantCaller/IndelAssembly/IndelAssembly.cpp.o /usr/bin/arm-linux-gnueabihf-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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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/arm-linux-gnueabihf-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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/tvcassembly.dir/VariantCaller/TargetsManager.cpp.o -c /<>/VariantCaller/TargetsManager.cpp [ 25%] Building CXX object CMakeFiles/tvcassembly.dir/VariantCaller/SampleManager.cpp.o /usr/bin/arm-linux-gnueabihf-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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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/arm-linux-gnueabihf-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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/tvcassembly.dir/Util/OptArgs.cpp.o -c /<>/Util/OptArgs.cpp In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:72, from /<>/Util/OptArgs.h:11, from /<>/Util/OptArgs.cpp:4: /usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator]’: /usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc: In member function ‘void OptArgs::StringToDoubleVector(std::vector&, const string&, const string&, char)’: /usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ^~~~~~~~~~~~~~~~~ [ 28%] Building CXX object CMakeFiles/tvcassembly.dir/Util/Utils.cpp.o /usr/bin/arm-linux-gnueabihf-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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/tvcassembly.dir/Util/Utils.cpp.o -c /<>/Util/Utils.cpp In file included from /usr/arm-linux-gnueabihf/include/string.h:495, from /usr/arm-linux-gnueabihf/include/c++/9/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/arm-linux-gnueabihf/include/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, 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/arm-linux-gnueabihf-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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/tvcassembly.dir/IonVersion.cpp.o -c /<>/obj-arm-linux-gnueabihf/IonVersion.cpp [ 31%] Linking CXX executable tvcassembly /usr/bin/cmake -E cmake_link_script CMakeFiles/tvcassembly.dir/link.txt --verbose=1 /usr/bin/arm-linux-gnueabihf-g++ -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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-arm-linux-gnueabihf' [ 31%] Built target tvcassembly make -f CMakeFiles/tvc.dir/build.make CMakeFiles/tvc.dir/depend make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/CMakeFiles/tvc.dir/DependInfo.cmake --color= Scanning dependencies of target tvc make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f CMakeFiles/tvc.dir/build.make CMakeFiles/tvc.dir/build make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 32%] Building CXX object CMakeFiles/tvc.dir/VariantCaller/VariantCaller.cpp.o /usr/bin/arm-linux-gnueabihf-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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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:364, 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:364, 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:364, 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:364, 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:364, 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:364, from /<>/VariantCaller/VariantCaller.cpp:12: /usr/include/armadillo_bits/debug.hpp:101:1: note: declared here 101 | set_stream_err2(std::ostream& user_stream) | ^~~~~~~~~~~~~~~ [ 34%] Building CXX object CMakeFiles/tvc.dir/VariantCaller/BAMWalkerEngine.cpp.o /usr/bin/arm-linux-gnueabihf-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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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/arm-linux-gnueabihf-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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/tvc.dir/VariantCaller/OrderedBAMWriter.cpp.o -c /<>/VariantCaller/OrderedBAMWriter.cpp [ 37%] Building CXX object CMakeFiles/tvc.dir/VariantCaller/SampleManager.cpp.o /usr/bin/arm-linux-gnueabihf-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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/tvc.dir/VariantCaller/SampleManager.cpp.o -c /<>/VariantCaller/SampleManager.cpp [ 39%] Building CXX object CMakeFiles/tvc.dir/VariantCaller/TargetsManager.cpp.o /usr/bin/arm-linux-gnueabihf-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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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/arm-linux-gnueabihf-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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/tvc.dir/VariantCaller/HandleVariant.cpp.o -c /<>/VariantCaller/HandleVariant.cpp [ 42%] Building CXX object CMakeFiles/tvc.dir/VariantCaller/HotspotReader.cpp.o /usr/bin/arm-linux-gnueabihf-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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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/arm-linux-gnueabihf-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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/tvc.dir/VariantCaller/MetricsManager.cpp.o -c /<>/VariantCaller/MetricsManager.cpp [ 45%] Building CXX object CMakeFiles/tvc.dir/VariantCaller/Bookkeeping/MiscUtil.cpp.o /usr/bin/arm-linux-gnueabihf-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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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/arm-linux-gnueabihf-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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/tvc.dir/VariantCaller/Bookkeeping/ExtendParameters.cpp.o -c /<>/VariantCaller/Bookkeeping/ExtendParameters.cpp [ 48%] Building CXX object CMakeFiles/tvc.dir/VariantCaller/Bookkeeping/InputStructures.cpp.o /usr/bin/arm-linux-gnueabihf-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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/tvc.dir/VariantCaller/Bookkeeping/InputStructures.cpp.o -c /<>/VariantCaller/Bookkeeping/InputStructures.cpp In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:72, from /<>/VariantCaller/Bookkeeping/InputStructures.h:12, from /<>/VariantCaller/Bookkeeping/InputStructures.cpp:7: /usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const DPTreephaser&}; _Tp = DPTreephaser; _Alloc = std::allocator]’: /usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:67, from /<>/VariantCaller/Bookkeeping/InputStructures.h:12, from /<>/VariantCaller/Bookkeeping/InputStructures.cpp:7: /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h: In constructor ‘PersistingThreadObjects::PersistingThreadObjects(const InputStructures&)’: /usr/arm-linux-gnueabihf/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1195 | _M_realloc_insert(end(), __x); | ^~~~~~~~~~~~~~~~~ [ 50%] Building CXX object CMakeFiles/tvc.dir/VariantCaller/Bookkeeping/VcfFormat.cpp.o /usr/bin/arm-linux-gnueabihf-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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/tvc.dir/VariantCaller/Bookkeeping/VcfFormat.cpp.o -c /<>/VariantCaller/Bookkeeping/VcfFormat.cpp [ 51%] Building CXX object CMakeFiles/tvc.dir/VariantCaller/Reads/ExtendedReadInfo.cpp.o /usr/bin/arm-linux-gnueabihf-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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/tvc.dir/VariantCaller/Reads/ExtendedReadInfo.cpp.o -c /<>/VariantCaller/Reads/ExtendedReadInfo.cpp [ 53%] Building CXX object CMakeFiles/tvc.dir/VariantCaller/Splice/ErrorMotifs.cpp.o /usr/bin/arm-linux-gnueabihf-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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/tvc.dir/VariantCaller/Splice/ErrorMotifs.cpp.o -c /<>/VariantCaller/Splice/ErrorMotifs.cpp [ 54%] Building CXX object CMakeFiles/tvc.dir/VariantCaller/Splice/LocalContext.cpp.o /usr/bin/arm-linux-gnueabihf-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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/tvc.dir/VariantCaller/Splice/LocalContext.cpp.o -c /<>/VariantCaller/Splice/LocalContext.cpp [ 56%] Building CXX object CMakeFiles/tvc.dir/VariantCaller/Splice/ClassifyVariant.cpp.o /usr/bin/arm-linux-gnueabihf-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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/tvc.dir/VariantCaller/Splice/ClassifyVariant.cpp.o -c /<>/VariantCaller/Splice/ClassifyVariant.cpp [ 57%] Building CXX object CMakeFiles/tvc.dir/VariantCaller/Splice/SpliceVariantHypotheses.cpp.o /usr/bin/arm-linux-gnueabihf-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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/tvc.dir/VariantCaller/Splice/SpliceVariantHypotheses.cpp.o -c /<>/VariantCaller/Splice/SpliceVariantHypotheses.cpp [ 59%] Building CXX object CMakeFiles/tvc.dir/VariantCaller/Filter/DecisionTreeData.cpp.o /usr/bin/arm-linux-gnueabihf-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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/tvc.dir/VariantCaller/Filter/DecisionTreeData.cpp.o -c /<>/VariantCaller/Filter/DecisionTreeData.cpp [ 60%] Building CXX object CMakeFiles/tvc.dir/VariantCaller/Filter/VariantAssist.cpp.o /usr/bin/arm-linux-gnueabihf-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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/tvc.dir/VariantCaller/Filter/VariantAssist.cpp.o -c /<>/VariantCaller/Filter/VariantAssist.cpp /<>/VariantCaller/Filter/VariantAssist.cpp: In function ‘double VariantAssist::MannWhitneyU(std::vector&, std::vector&, bool)’: /<>/VariantCaller/Filter/VariantAssist.cpp:191:36: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 3 has type ‘std::vector::size_type’ {aka ‘unsigned int’} [-Wformat=] 191 | fprintf(stdout, "ref.size()=%lu; ", ref.size()); | ~~^ ~~~~~~~~~~ | | | | | std::vector::size_type {aka unsigned int} | long unsigned int | %u /<>/VariantCaller/Filter/VariantAssist.cpp:192:36: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 3 has type ‘std::vector::size_type’ {aka ‘unsigned int’} [-Wformat=] 192 | fprintf(stdout, "var.size()=%lu; ", var.size()); | ~~^ ~~~~~~~~~~ | | | | | std::vector::size_type {aka unsigned int} | long unsigned int | %u /<>/VariantCaller/Filter/VariantAssist.cpp:193:37: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 3 has type ‘std::vector::size_type’ {aka ‘unsigned int’} [-Wformat=] 193 | fprintf(stdout, "both.size()=%lu; ", both.size()); | ~~^ ~~~~~~~~~~~ | | | | | std::vector::size_type {aka unsigned int} | long unsigned int | %u [ 62%] Building CXX object CMakeFiles/tvc.dir/VariantCaller/HypothesisEvaluator.cpp.o /usr/bin/arm-linux-gnueabihf-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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/tvc.dir/VariantCaller/HypothesisEvaluator.cpp.o -c /<>/VariantCaller/HypothesisEvaluator.cpp [ 64%] Building CXX object CMakeFiles/tvc.dir/VariantCaller/EnsembleEval/DiagnosticJSON.cpp.o /usr/bin/arm-linux-gnueabihf-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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/tvc.dir/VariantCaller/EnsembleEval/DiagnosticJSON.cpp.o -c /<>/VariantCaller/EnsembleEval/DiagnosticJSON.cpp [ 65%] Building CXX object CMakeFiles/tvc.dir/VariantCaller/EnsembleEval/BiasGenerator.cpp.o /usr/bin/arm-linux-gnueabihf-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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/tvc.dir/VariantCaller/EnsembleEval/BiasGenerator.cpp.o -c /<>/VariantCaller/EnsembleEval/BiasGenerator.cpp [ 67%] Building CXX object CMakeFiles/tvc.dir/VariantCaller/EnsembleEval/SigmaGenerator.cpp.o /usr/bin/arm-linux-gnueabihf-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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/tvc.dir/VariantCaller/EnsembleEval/SigmaGenerator.cpp.o -c /<>/VariantCaller/EnsembleEval/SigmaGenerator.cpp [ 68%] Building CXX object CMakeFiles/tvc.dir/VariantCaller/EnsembleEval/SkewGenerator.cpp.o /usr/bin/arm-linux-gnueabihf-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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/tvc.dir/VariantCaller/EnsembleEval/SkewGenerator.cpp.o -c /<>/VariantCaller/EnsembleEval/SkewGenerator.cpp [ 70%] Building CXX object CMakeFiles/tvc.dir/VariantCaller/EnsembleEval/PosteriorInference.cpp.o /usr/bin/arm-linux-gnueabihf-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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/tvc.dir/VariantCaller/EnsembleEval/PosteriorInference.cpp.o -c /<>/VariantCaller/EnsembleEval/PosteriorInference.cpp [ 71%] Building CXX object CMakeFiles/tvc.dir/VariantCaller/EnsembleEval/ShortStack.cpp.o /usr/bin/arm-linux-gnueabihf-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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/tvc.dir/VariantCaller/EnsembleEval/ShortStack.cpp.o -c /<>/VariantCaller/EnsembleEval/ShortStack.cpp [ 73%] Building CXX object CMakeFiles/tvc.dir/VariantCaller/EnsembleEval/StackEngine.cpp.o /usr/bin/arm-linux-gnueabihf-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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/tvc.dir/VariantCaller/EnsembleEval/StackEngine.cpp.o -c /<>/VariantCaller/EnsembleEval/StackEngine.cpp [ 75%] Building CXX object CMakeFiles/tvc.dir/VariantCaller/EnsembleEval/CrossHypotheses.cpp.o /usr/bin/arm-linux-gnueabihf-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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/tvc.dir/VariantCaller/EnsembleEval/CrossHypotheses.cpp.o -c /<>/VariantCaller/EnsembleEval/CrossHypotheses.cpp [ 76%] Building CXX object CMakeFiles/tvc.dir/external/vcflib/Variant.cpp.o /usr/bin/arm-linux-gnueabihf-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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/tvc.dir/external/vcflib/Variant.cpp.o -c /<>/external/vcflib/Variant.cpp [ 78%] Building CXX object CMakeFiles/tvc.dir/external/vcflib/split.cpp.o /usr/bin/arm-linux-gnueabihf-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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/tvc.dir/external/vcflib/split.cpp.o -c /<>/external/vcflib/split.cpp [ 79%] Building CXX object CMakeFiles/tvc.dir/external/vcflib/tabixpp/tabix.cpp.o /usr/bin/arm-linux-gnueabihf-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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/tvc.dir/external/vcflib/tabixpp/tabix.cpp.o -c /<>/external/vcflib/tabixpp/tabix.cpp [ 81%] Building C object CMakeFiles/tvc.dir/external/vcflib/tabixpp/index.c.o /usr/bin/arm-linux-gnueabihf-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 -fdebug-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 [ 82%] Building C object CMakeFiles/tvc.dir/external/vcflib/tabixpp/bgzf.c.o /usr/bin/arm-linux-gnueabihf-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 -fdebug-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); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 84%] Building CXX object CMakeFiles/tvc.dir/external/freebayes/src/AlleleParser.cpp.o /usr/bin/arm-linux-gnueabihf-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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/tvc.dir/external/freebayes/src/AlleleParser.cpp.o -c /<>/external/freebayes/src/AlleleParser.cpp [ 85%] Building CXX object CMakeFiles/tvc.dir/BaseCaller/PIDloop.cpp.o /usr/bin/arm-linux-gnueabihf-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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/tvc.dir/BaseCaller/PIDloop.cpp.o -c /<>/BaseCaller/PIDloop.cpp [ 87%] Building CXX object CMakeFiles/tvc.dir/BaseCaller/DPTreephaser.cpp.o /usr/bin/arm-linux-gnueabihf-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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/tvc.dir/BaseCaller/DPTreephaser.cpp.o -c /<>/BaseCaller/DPTreephaser.cpp [ 89%] Building CXX object CMakeFiles/tvc.dir/Calibration/LinearCalibrationModel.cpp.o /usr/bin/arm-linux-gnueabihf-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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/tvc.dir/Calibration/LinearCalibrationModel.cpp.o -c /<>/Calibration/LinearCalibrationModel.cpp [ 90%] Building CXX object CMakeFiles/tvc.dir/Calibration/FlowAlignment.cpp.o /usr/bin/arm-linux-gnueabihf-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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/tvc.dir/Calibration/FlowAlignment.cpp.o -c /<>/Calibration/FlowAlignment.cpp [ 92%] Building CXX object CMakeFiles/tvc.dir/Util/OptArgs.cpp.o /usr/bin/arm-linux-gnueabihf-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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/tvc.dir/Util/OptArgs.cpp.o -c /<>/Util/OptArgs.cpp In file included from /usr/arm-linux-gnueabihf/include/c++/9/vector:72, from /<>/Util/OptArgs.h:11, from /<>/Util/OptArgs.cpp:4: /usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator]’: /usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 426 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc: In member function ‘void OptArgs::StringToDoubleVector(std::vector&, const string&, const string&, char)’: /usr/arm-linux-gnueabihf/include/c++/9/bits/vector.tcc:121:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ^~~~~~~~~~~~~~~~~ [ 93%] Building CXX object CMakeFiles/tvc.dir/realignment/Realigner.cpp.o /usr/bin/arm-linux-gnueabihf-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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/tvc.dir/realignment/Realigner.cpp.o -c /<>/realignment/Realigner.cpp [ 95%] Building C object CMakeFiles/tvc.dir/file-io/ion_util.c.o /usr/bin/arm-linux-gnueabihf-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 -fdebug-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 [ 96%] Building C object CMakeFiles/tvc.dir/file-io/ion_error.c.o /usr/bin/arm-linux-gnueabihf-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 -fdebug-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 [ 98%] Building CXX object CMakeFiles/tvc.dir/IonVersion.cpp.o /usr/bin/arm-linux-gnueabihf-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 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o CMakeFiles/tvc.dir/IonVersion.cpp.o -c /<>/obj-arm-linux-gnueabihf/IonVersion.cpp [100%] Linking CXX executable tvc /usr/bin/cmake -E cmake_link_script CMakeFiles/tvc.dir/link.txt --verbose=1 /usr/bin/arm-linux-gnueabihf-g++ -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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 -o tvc -lbamtools -lz -lpthread -lblas -llapack -larmadillo -ljsoncpp -lsmithwaterman -ldisorder make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [100%] Built target tvc make[2]: Leaving directory '/<>/obj-arm-linux-gnueabihf' /usr/bin/cmake -E cmake_progress_start /<>/obj-arm-linux-gnueabihf/CMakeFiles 0 make[1]: Leaving directory '/<>/obj-arm-linux-gnueabihf' dh_auto_test -a create-stamp debian/debhelper-build-stamp dh_testroot -a dh_prep -a dh_auto_install -a cd obj-arm-linux-gnueabihf && 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-arm-linux-gnueabihf' /usr/bin/cmake -S/<> -B/<>/obj-arm-linux-gnueabihf --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /<>/obj-arm-linux-gnueabihf/CMakeFiles /<>/obj-arm-linux-gnueabihf/CMakeFiles/progress.marks make -f CMakeFiles/Makefile2 all make[2]: Entering directory '/<>/obj-arm-linux-gnueabihf' make -f CMakeFiles/tvcutils.dir/build.make CMakeFiles/tvcutils.dir/depend make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/CMakeFiles/tvcutils.dir/DependInfo.cmake --color= make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f CMakeFiles/tvcutils.dir/build.make CMakeFiles/tvcutils.dir/build make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[3]: Nothing to be done for 'CMakeFiles/tvcutils.dir/build'. make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 20%] Built target tvcutils make -f CMakeFiles/tvcassembly.dir/build.make CMakeFiles/tvcassembly.dir/depend make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/CMakeFiles/tvcassembly.dir/DependInfo.cmake --color= make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f CMakeFiles/tvcassembly.dir/build.make CMakeFiles/tvcassembly.dir/build make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[3]: Nothing to be done for 'CMakeFiles/tvcassembly.dir/build'. make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 31%] Built target tvcassembly make -f CMakeFiles/tvc.dir/build.make CMakeFiles/tvc.dir/depend make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/CMakeFiles/tvc.dir/DependInfo.cmake --color= make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f CMakeFiles/tvc.dir/build.make CMakeFiles/tvc.dir/build make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[3]: Nothing to be done for 'CMakeFiles/tvc.dir/build'. make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [100%] Built target tvc make[2]: Leaving directory '/<>/obj-arm-linux-gnueabihf' /usr/bin/cmake -E cmake_progress_start /<>/obj-arm-linux-gnueabihf/CMakeFiles 0 make -f CMakeFiles/Makefile2 preinstall make[2]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[2]: Nothing to be done for 'preinstall'. make[2]: Leaving directory '/<>/obj-arm-linux-gnueabihf' 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/targetseq_germline_lowstringency_p1_parameters.json -- Installing: /<>/debian/tvc/usr/share/TVC/pluginMedia/parameter_sets/pgx4_germline_lowstringency_pgm_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/ampliseqexome_somatic_lowstringency_p1_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_somatic_lowstringency_pgm_parameters.json -- Installing: /<>/debian/tvc/usr/share/TVC/pluginMedia/parameter_sets/ampliseq_germline_lowstringency_pgm_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/test_unmerged_detail.bed -- Installing: /<>/debian/tvc/usr/share/TVC/examples/example1/test_original.bed -- Installing: /<>/debian/tvc/usr/share/TVC/examples/example1/test_merged_plain.bed -- Installing: /<>/debian/tvc/usr/share/TVC/examples/example1/test.bed -- Installing: /<>/debian/tvc/usr/share/TVC/examples/example1/test.bam.bai -- Installing: /<>/debian/tvc/usr/share/TVC/examples/example1/test.bam -- Installing: /<>/debian/tvc/usr/share/TVC/examples/example1/reference.fasta.fai -- Installing: /<>/debian/tvc/usr/share/TVC/examples/example1/reference.fasta -- Installing: /<>/debian/tvc/usr/share/TVC/examples/example1/reference.dict -- 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 make[1]: Leaving directory '/<>/obj-arm-linux-gnueabihf' 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: debian/tvc/usr/bin/tvcassembly contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin dpkg-shlibdeps: warning: debian/tvc/usr/bin/tvcutils contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin dpkg-shlibdeps: warning: debian/tvc/usr/bin/tvc contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin 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_armhf.deb'. dpkg-deb: building package 'tvc-dbgsym' in '../tvc-dbgsym_5.0.3+git20151221.80e144e+dfsg-3_armhf.deb'. dpkg-genbuildinfo --build=any dpkg-genchanges --build=any >../tvc_5.0.3+git20151221.80e144e+dfsg-3_armhf.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 2020-03-02T10:16:00Z Finished -------- I: Built successfully +------------------------------------------------------------------------------+ | Changes | +------------------------------------------------------------------------------+ tvc_5.0.3+git20151221.80e144e+dfsg-3_armhf.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: armhf 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). Checksums-Sha1: 5deffb7ebd0f9d213c52f4c2a536d90e0163663b 10336168 tvc-dbgsym_5.0.3+git20151221.80e144e+dfsg-3_armhf.deb a1fd0797fec692bc5a1e23bb9e92234b80588787 7011 tvc_5.0.3+git20151221.80e144e+dfsg-3_armhf.buildinfo e2cf7cd2862f7941e22feaf416f902762e3798eb 983976 tvc_5.0.3+git20151221.80e144e+dfsg-3_armhf.deb Checksums-Sha256: 72f061fdb075c920a4f04faa1b657f66041ee87965a4d5a8f9e0c02251480c77 10336168 tvc-dbgsym_5.0.3+git20151221.80e144e+dfsg-3_armhf.deb f1204744c009c45538cda51dd2a5c75979e6db99ae440502e4388f625e07d8f7 7011 tvc_5.0.3+git20151221.80e144e+dfsg-3_armhf.buildinfo 3e249bc1b73c3218cb905abe96a2b358c79e48f7098e63a3807d778a88885898 983976 tvc_5.0.3+git20151221.80e144e+dfsg-3_armhf.deb Files: 7581682a6bd2ad7a401f12808fa9acab 10336168 debug optional tvc-dbgsym_5.0.3+git20151221.80e144e+dfsg-3_armhf.deb 8fa727880e93299f805469a9d35c19cd 7011 science optional tvc_5.0.3+git20151221.80e144e+dfsg-3_armhf.buildinfo ae86b0b958019fc2d93d2ac406bb173f 983976 science optional tvc_5.0.3+git20151221.80e144e+dfsg-3_armhf.deb +------------------------------------------------------------------------------+ | Buildinfo | +------------------------------------------------------------------------------+ Format: 1.0 Source: tvc Binary: tvc Architecture: armhf Version: 5.0.3+git20151221.80e144e+dfsg-3 Checksums-Md5: 7581682a6bd2ad7a401f12808fa9acab 10336168 tvc-dbgsym_5.0.3+git20151221.80e144e+dfsg-3_armhf.deb ae86b0b958019fc2d93d2ac406bb173f 983976 tvc_5.0.3+git20151221.80e144e+dfsg-3_armhf.deb Checksums-Sha1: 5deffb7ebd0f9d213c52f4c2a536d90e0163663b 10336168 tvc-dbgsym_5.0.3+git20151221.80e144e+dfsg-3_armhf.deb e2cf7cd2862f7941e22feaf416f902762e3798eb 983976 tvc_5.0.3+git20151221.80e144e+dfsg-3_armhf.deb Checksums-Sha256: 72f061fdb075c920a4f04faa1b657f66041ee87965a4d5a8f9e0c02251480c77 10336168 tvc-dbgsym_5.0.3+git20151221.80e144e+dfsg-3_armhf.deb 3e249bc1b73c3218cb905abe96a2b358c79e48f7098e63a3807d778a88885898 983976 tvc_5.0.3+git20151221.80e144e+dfsg-3_armhf.deb Build-Origin: Debian Build-Architecture: amd64 Build-Date: Mon, 02 Mar 2020 10:15:59 +0000 Build-Path: /<> Installed-Build-Depends: autoconf (= 2.69-11.1), automake (= 1:1.16.1-4), autopoint (= 0.19.8.1-10), autotools-dev (= 20180224.1), base-files (= 11), base-passwd (= 3.5.47), bash (= 5.0-6), binutils (= 2.34-4), binutils-common (= 2.34-4), binutils-x86-64-linux-gnu (= 2.34-4), bsdmainutils (= 11.1.2+b1), bsdutils (= 1:2.34-0.1), build-essential (= 12.8), bzip2 (= 1.0.8-2), cmake (= 3.16.3-1), cmake-data (= 3.16.3-1), coreutils (= 8.30-3+b1), cpp (= 4:9.2.1-3.1), cpp-8 (= 8.3.0-29), cpp-9 (= 9.2.1-30), dash (= 0.5.10.2-6), debconf (= 1.5.73), debhelper (= 12.9), debianutils (= 4.9.1), dh-autoreconf (= 19), dh-strip-nondeterminism (= 1.6.3-2), diffutils (= 1:3.7-3), dpkg (= 1.19.7), dpkg-dev (= 1.19.7), dwz (= 0.13-5), fdisk (= 2.34-0.1), file (= 1:5.38-4), findutils (= 4.7.0-1), g++ (= 4:9.2.1-3.1), g++-9 (= 9.2.1-30), gcc (= 4:9.2.1-3.1), gcc-10-base (= 10-20200222-1), gcc-8 (= 8.3.0-29), gcc-8-base (= 8.3.0-29), gcc-9 (= 9.2.1-30), gcc-9-base (= 9.2.1-30), gettext (= 0.19.8.1-10), gettext-base (= 0.19.8.1-10), grep (= 3.4-1), groff-base (= 1.22.4-4), gzip (= 1.10-1), hdf5-helpers (= 1.10.4+repack-11), hostname (= 3.23), init-system-helpers (= 1.57), intltool-debian (= 0.35.0+20060710.5), libacl1 (= 2.2.53-6), libaec-dev (= 1.0.4-1), libaec0 (= 1.0.4-1), libarchive-zip-perl (= 1.67-2), libarchive13 (= 3.4.0-1+b1), libarmadillo-dev (= 1:9.800.4+dfsg-1), libarmadillo9 (= 1:9.800.4+dfsg-1), libarpack2 (= 3.7.0-3), libarpack2-dev (= 3.7.0-3), libasan5 (= 9.2.1-30), libatomic1 (= 10-20200222-1), libattr1 (= 1:2.4.48-5), libaudit-common (= 1:2.8.5-2), libaudit1 (= 1:2.8.5-2+b1), libbamtools-dev (= 2.5.1+dfsg-5), libbamtools2.5.1 (= 2.5.1+dfsg-5), libbinutils (= 2.34-4), libblas-dev (= 3.9.0-1), libblas3 (= 3.9.0-1), libblkid1 (= 2.34-0.1), libboost-math-dev (= 1.67.0.2+b1), libboost-math1.67-dev (= 1.67.0-17), libboost-math1.67.0 (= 1.67.0-17), libboost1.67-dev (= 1.67.0-17), libbrotli1 (= 1.0.7-6), libbsd0 (= 0.10.0-1), libbz2-1.0 (= 1.0.8-2), libc-bin (= 2.29-10), libc-dev-bin (= 2.29-10), libc6 (= 2.29-10), libc6-dev (= 2.29-10), libcap-ng0 (= 0.7.9-2.1+b1), libcc1-0 (= 10-20200222-1), libcom-err2 (= 1.45.5-2), libcroco3 (= 0.6.13-1), libcrypt-dev (= 1:4.4.15-1), libcrypt1 (= 1:4.4.15-1), libctf-nobfd0 (= 2.34-4), libctf0 (= 2.34-4), libcurl4 (= 7.68.0-1), libdb5.3 (= 5.3.28+dfsg1-0.6), libdebconfclient0 (= 0.251), libdebhelper-perl (= 12.9), libdisorder-dev (= 0.0.2+git20130809.8062ee1-1), libdisorder0 (= 0.0.2+git20130809.8062ee1-1), libdpkg-perl (= 1.19.7), libelf1 (= 0.176-1.1), libexpat1 (= 2.2.9-1), libfdisk1 (= 2.34-0.1), libffi7 (= 3.3-3), libfile-stripnondeterminism-perl (= 1.6.3-2), libgcc-8-dev (= 8.3.0-29), libgcc-9-dev (= 9.2.1-30), libgcc-s1 (= 10-20200222-1), libgcc1 (= 1:10-20200222-1), libgcrypt20 (= 1.8.5-5), libgdbm-compat4 (= 1.18.1-5), libgdbm6 (= 1.18.1-5), libgfortran5 (= 10-20200222-1), libglib2.0-0 (= 2.62.5-1), libgmp10 (= 2:6.2.0+dfsg-4), libgnutls30 (= 3.6.12-2), libgomp1 (= 10-20200222-1), libgpg-error0 (= 1.37-1), libgssapi-krb5-2 (= 1.17-6), libhdf5-103 (= 1.10.4+repack-11), libhdf5-cpp-103 (= 1.10.4+repack-11), libhdf5-dev (= 1.10.4+repack-11), libhogweed5 (= 3.5.1+really3.5.1-2), libicu63 (= 63.2-2), libidn2-0 (= 2.2.0-2), libisl22 (= 0.22.1-1), libitm1 (= 10-20200222-1), libjpeg62-turbo (= 1:1.5.2-2+b1), libjpeg62-turbo-dev (= 1:1.5.2-2+b1), libjsoncpp-dev (= 1.7.4-3.1), libjsoncpp1 (= 1.7.4-3.1), libk5crypto3 (= 1.17-6), libkeyutils1 (= 1.6.1-2), libkrb5-3 (= 1.17-6), libkrb5support0 (= 1.17-6), liblapack-dev (= 3.9.0-1), liblapack3 (= 3.9.0-1), libldap-2.4-2 (= 2.4.49+dfsg-1), libldap-common (= 2.4.49+dfsg-1), liblsan0 (= 10-20200222-1), liblz4-1 (= 1.9.2-2), liblzma5 (= 5.2.4-1+b1), libmagic-mgc (= 1:5.38-4), libmagic1 (= 1:5.38-4), libmount1 (= 2.34-0.1), libmpc3 (= 1.1.0-1), libmpfr6 (= 4.0.2-1), libmpx2 (= 8.3.0-29), libncurses6 (= 6.2-1), libncursesw6 (= 6.2-1), libnettle7 (= 3.5.1+really3.5.1-2), libnghttp2-14 (= 1.40.0-1), libp11-kit0 (= 0.23.20-1), libpam-modules (= 1.3.1-5), libpam-modules-bin (= 1.3.1-5), libpam-runtime (= 1.3.1-5), libpam0g (= 1.3.1-5), libpcre2-8-0 (= 10.34-7), libpcre3 (= 2:8.39-12+b1), libperl5.30 (= 5.30.0-9), libpipeline1 (= 1.5.2-2), libprocps8 (= 2:3.3.16-3), libpsl5 (= 0.20.2-2), libquadmath0 (= 10-20200222-1), librhash0 (= 1.3.9-1), librtmp1 (= 2.4+20151223.gitfa8646d.1-2+b1), libsasl2-2 (= 2.1.27+dfsg-2), libsasl2-modules-db (= 2.1.27+dfsg-2), libseccomp2 (= 2.4.2-2), libselinux1 (= 3.0-1+b1), libsigsegv2 (= 2.12-2), libsmartcols1 (= 2.34-0.1), libsmithwaterman-dev (= 0.0+git20160702.2610e25-7), libsmithwaterman0 (= 0.0+git20160702.2610e25-7), libssh2-1 (= 1.8.0-2.1), libssl1.1 (= 1.1.1d-2), libstdc++-9-dev (= 9.2.1-30), libstdc++6 (= 10-20200222-1), libsub-override-perl (= 0.09-2), libsuperlu-dev (= 5.2.1+dfsg1-4), libsuperlu5 (= 5.2.1+dfsg1-4), libsystemd0 (= 244.3-1), libsz2 (= 1.0.4-1), libtasn1-6 (= 4.16.0-2), libtinfo6 (= 6.2-1), libtool (= 2.4.6-13), libtsan0 (= 10-20200222-1), libubsan1 (= 10-20200222-1), libuchardet0 (= 0.0.6-3), libudev1 (= 244.3-1), libunistring2 (= 0.9.10-2), libuuid1 (= 2.34-0.1), libuv1 (= 1.34.2-1), libxml2 (= 2.9.10+dfsg-4), libzstd1 (= 1.4.4+dfsg-3), linux-libc-dev (= 5.4.19-1), login (= 1:4.8.1-1), lsb-base (= 11.1.0), m4 (= 1.4.18-4), make (= 4.2.1-1.2), man-db (= 2.9.1-1), mawk (= 1.3.4.20200120-2), ncurses-base (= 6.2-1), ncurses-bin (= 6.2-1), patch (= 2.7.6-6), perl (= 5.30.0-9), perl-base (= 5.30.0-9), perl-modules-5.30 (= 5.30.0-9), po-debconf (= 1.0.21), procps (= 2:3.3.16-3), sed (= 4.7-1), sensible-utils (= 0.0.12+nmu1), sysvinit-utils (= 2.96-2.1), tar (= 1.30+dfsg-6+b1), util-linux (= 2.34-0.1), xz-utils (= 5.2.4-1+b1), 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_US.UTF-8" LC_ALL="C.UTF-8" SOURCE_DATE_EPOCH="1583038665" +------------------------------------------------------------------------------+ | Package contents | +------------------------------------------------------------------------------+ tvc-dbgsym_5.0.3+git20151221.80e144e+dfsg-3_armhf.deb ----------------------------------------------------- new Debian package, version 2.0. size 10336168 bytes: control archive=708 bytes. 488 bytes, 12 lines control 401 bytes, 4 lines md5sums Package: tvc-dbgsym Source: tvc Version: 5.0.3+git20151221.80e144e+dfsg-3 Auto-Built-Package: debug-symbols Architecture: armhf Maintainer: Debian Med Packaging Team Installed-Size: 10449 Depends: tvc (= 5.0.3+git20151221.80e144e+dfsg-3) Section: debug Priority: optional Description: debug symbols for tvc Build-Ids: 3b52f50760cbf7fb7fc461f7cd771a10d2ae6cbd 5604b952c4346facdbf4294cfaf05b03ac013734 5a9636bd09f2489b3198233418817f7e3bd83b48 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/3b/ -rw-r--r-- root/root 7017824 2020-03-01 04:57 ./usr/lib/debug/.build-id/3b/52f50760cbf7fb7fc461f7cd771a10d2ae6cbd.debug drwxr-xr-x root/root 0 2020-03-01 04:57 ./usr/lib/debug/.build-id/56/ -rw-r--r-- root/root 786120 2020-03-01 04:57 ./usr/lib/debug/.build-id/56/04b952c4346facdbf4294cfaf05b03ac013734.debug drwxr-xr-x root/root 0 2020-03-01 04:57 ./usr/lib/debug/.build-id/5a/ -rw-r--r-- root/root 2431056 2020-03-01 04:57 ./usr/lib/debug/.build-id/5a/9636bd09f2489b3198233418817f7e3bd83b48.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/arm-linux-gnueabihf/ -rw-r--r-- root/root 448016 2020-03-01 04:57 ./usr/lib/debug/.dwz/arm-linux-gnueabihf/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_armhf.deb ---------------------------------------------- new Debian package, version 2.0. size 983976 bytes: control archive=1680 bytes. 992 bytes, 16 lines control 2459 bytes, 28 lines md5sums Package: tvc Version: 5.0.3+git20151221.80e144e+dfsg-3 Architecture: armhf Maintainer: Debian Med Packaging Team Installed-Size: 2653 Depends: libarmadillo9 (>= 1:9.800.4+dfsg), libbamtools2.5.1 (>= 2.5.1+dfsg), libc6 (>= 2.29), libdisorder0 (>= 0.0.2), libgcc-s1 (>= 3.5), libjsoncpp1 (>= 1.7.4), 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 712828 2020-03-01 04:57 ./usr/bin/tvc -rwxr-xr-x root/root 137608 2020-03-01 04:57 ./usr/bin/tvcassembly -rwxr-xr-x root/root 416644 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:amd64 Filtered Build-Depends: lintian:amd64 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 [578 B] Get:5 copy:/<>/apt_archive ./ Packages [658 B] Fetched 2199 B in 0s (113 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 libapt-pkg-perl libassuan0 libb-hooks-endofscope-perl libb-hooks-op-check-perl libberkeleydb-perl libcapture-tiny-perl libcgi-pm-perl libclass-accessor-perl libclass-method-modifiers-perl libclass-xsaccessor-perl libclone-perl libdevel-callchecker-perl libdevel-size-perl libdigest-hmac-perl libdynaloader-functions-perl libemail-valid-perl libexporter-tiny-perl libfile-basedir-perl libfile-find-rule-perl libfont-ttf-perl libfuture-perl libhtml-parser-perl libhtml-tagset-perl libimport-into-perl libio-async-loop-epoll-perl libio-async-perl libio-pty-perl libio-socket-ssl-perl libipc-run-perl libipc-system-simple-perl libjson-perl liblinux-epoll-perl liblist-compare-perl liblist-moreutils-perl libmailtools-perl libmldbm-perl libmodule-implementation-perl libmodule-runtime-perl libmoo-perl libmoox-aliases-perl libnamespace-clean-perl libnet-dns-perl libnet-domain-tld-perl libnet-ip-perl libnet-smtp-ssl-perl libnet-ssleay-perl libnumber-compare-perl libpackage-stash-perl libparams-classify-perl libpath-tiny-perl libreadline8 librole-tiny-perl libsqlite3-0 libstrictures-perl libstruct-dumb-perl libsub-exporter-progressive-perl libsub-identify-perl libsub-name-perl libsub-quote-perl libtext-glob-perl libtext-levenshtein-perl libtimedate-perl libtry-tiny-perl libtype-tiny-perl liburi-perl libvariable-magic-perl libyaml-0-2 libyaml-libyaml-perl lintian netbase patchutils perl-openssl-defaults readline-common t1utils Suggested packages: libxml-parser-perl libdata-dump-perl ca-certificates libscalar-number-perl libbareword-filehandles-perl libindirect-perl libmultidimensional-perl libdevel-lexalias-perl libdevel-stacktrace-perl libwww-perl binutils-multiarch libtext-template-perl readline-doc Recommended packages: gnupg libcgi-fast-perl libhttp-message-perl libasync-mergepoint-perl libsereal-perl libtest-fatal-perl libtest-refcount-perl libjson-xs-perl libfreezethaw-perl libdigest-bubblebabble-perl libnet-dns-sec-perl libnet-libidn-perl libperl4-corelibs-perl libauthen-sasl-perl libpackage-stash-xs-perl libunicode-utf8-perl libref-util-perl libtype-tiny-xs-perl libperlio-gzip-perl The following NEW packages will be installed: diffstat gpg gpgconf libapt-pkg-perl libassuan0 libb-hooks-endofscope-perl libb-hooks-op-check-perl libberkeleydb-perl libcapture-tiny-perl libcgi-pm-perl libclass-accessor-perl libclass-method-modifiers-perl libclass-xsaccessor-perl libclone-perl libdevel-callchecker-perl libdevel-size-perl libdigest-hmac-perl libdynaloader-functions-perl libemail-valid-perl libexporter-tiny-perl libfile-basedir-perl libfile-find-rule-perl libfont-ttf-perl libfuture-perl libhtml-parser-perl libhtml-tagset-perl libimport-into-perl libio-async-loop-epoll-perl libio-async-perl libio-pty-perl libio-socket-ssl-perl libipc-run-perl libipc-system-simple-perl libjson-perl liblinux-epoll-perl liblist-compare-perl liblist-moreutils-perl libmailtools-perl libmldbm-perl libmodule-implementation-perl libmodule-runtime-perl libmoo-perl libmoox-aliases-perl libnamespace-clean-perl libnet-dns-perl libnet-domain-tld-perl libnet-ip-perl libnet-smtp-ssl-perl libnet-ssleay-perl libnumber-compare-perl libpackage-stash-perl libparams-classify-perl libpath-tiny-perl libreadline8 librole-tiny-perl libsqlite3-0 libstrictures-perl libstruct-dumb-perl libsub-exporter-progressive-perl libsub-identify-perl libsub-name-perl libsub-quote-perl libtext-glob-perl libtext-levenshtein-perl libtimedate-perl libtry-tiny-perl libtype-tiny-perl liburi-perl libvariable-magic-perl libyaml-0-2 libyaml-libyaml-perl lintian netbase patchutils perl-openssl-defaults readline-common sbuild-build-depends-lintian-dummy:armhf t1utils 0 upgraded, 78 newly installed, 0 to remove and 0 not upgraded. Need to get 7896 kB of archives. After this operation, 22.8 MB of additional disk space will be used. Get:1 copy:/<>/apt_archive ./ sbuild-build-depends-lintian-dummy 0.invalid.0 [852 B] Get:2 http://debian.oregonstate.edu/debian unstable/main amd64 readline-common all 8.0-4 [72.5 kB] Get:3 http://debian.oregonstate.edu/debian unstable/main amd64 libreadline8 amd64 8.0-4 [160 kB] Get:4 http://debian.oregonstate.edu/debian unstable/main amd64 netbase all 6.1 [19.9 kB] Get:5 http://debian.oregonstate.edu/debian unstable/main amd64 diffstat amd64 1.63-1 [35.6 kB] Get:6 http://debian.oregonstate.edu/debian unstable/main amd64 libassuan0 amd64 2.5.3-7 [50.4 kB] Get:7 http://debian.oregonstate.edu/debian unstable/main amd64 gpgconf amd64 2.2.19-2 [529 kB] Get:8 http://debian.oregonstate.edu/debian unstable/main amd64 libsqlite3-0 amd64 3.31.1-3 [661 kB] Get:9 http://debian.oregonstate.edu/debian unstable/main amd64 gpg amd64 2.2.19-2 [889 kB] Get:10 http://debian.oregonstate.edu/debian unstable/main amd64 libapt-pkg-perl amd64 0.1.36+b2 [71.3 kB] Get:11 http://debian.oregonstate.edu/debian unstable/main amd64 libb-hooks-op-check-perl amd64 0.22-1+b2 [11.3 kB] Get:12 http://debian.oregonstate.edu/debian unstable/main amd64 libdynaloader-functions-perl all 0.003-1 [12.6 kB] Get:13 http://debian.oregonstate.edu/debian unstable/main amd64 libdevel-callchecker-perl amd64 0.008-1+b1 [15.9 kB] Get:14 http://debian.oregonstate.edu/debian unstable/main amd64 libparams-classify-perl amd64 0.015-1+b2 [25.6 kB] Get:15 http://debian.oregonstate.edu/debian unstable/main amd64 libmodule-runtime-perl all 0.016-1 [19.4 kB] Get:16 http://debian.oregonstate.edu/debian unstable/main amd64 libtry-tiny-perl all 0.30-1 [23.3 kB] Get:17 http://debian.oregonstate.edu/debian unstable/main amd64 libmodule-implementation-perl all 0.09-1 [12.9 kB] Get:18 http://debian.oregonstate.edu/debian unstable/main amd64 libsub-exporter-progressive-perl all 0.001013-1 [7588 B] Get:19 http://debian.oregonstate.edu/debian unstable/main amd64 libvariable-magic-perl amd64 0.62-1+b2 [46.0 kB] Get:20 http://debian.oregonstate.edu/debian unstable/main amd64 libb-hooks-endofscope-perl all 0.24-1 [18.6 kB] Get:21 http://debian.oregonstate.edu/debian unstable/main amd64 libberkeleydb-perl amd64 0.62-1+b1 [124 kB] Get:22 http://debian.oregonstate.edu/debian unstable/main amd64 libcapture-tiny-perl all 0.48-1 [26.0 kB] Get:23 http://debian.oregonstate.edu/debian unstable/main amd64 libhtml-tagset-perl all 3.20-4 [13.0 kB] Get:24 http://debian.oregonstate.edu/debian unstable/main amd64 liburi-perl all 1.76-2 [90.2 kB] Get:25 http://debian.oregonstate.edu/debian unstable/main amd64 libhtml-parser-perl amd64 3.72-5 [105 kB] Get:26 http://debian.oregonstate.edu/debian unstable/main amd64 libcgi-pm-perl all 4.46-1 [223 kB] Get:27 http://debian.oregonstate.edu/debian unstable/main amd64 libsub-name-perl amd64 0.26-1 [13.5 kB] Get:28 http://debian.oregonstate.edu/debian unstable/main amd64 libclass-accessor-perl all 0.51-1 [23.2 kB] Get:29 http://debian.oregonstate.edu/debian unstable/main amd64 libclass-method-modifiers-perl all 2.13-1 [19.2 kB] Get:30 http://debian.oregonstate.edu/debian unstable/main amd64 libclass-xsaccessor-perl amd64 1.19-3+b3 [38.4 kB] Get:31 http://debian.oregonstate.edu/debian unstable/main amd64 libclone-perl amd64 0.43-2 [15.0 kB] Get:32 http://debian.oregonstate.edu/debian unstable/main amd64 libdevel-size-perl amd64 0.83-1+b1 [26.0 kB] Get:33 http://debian.oregonstate.edu/debian unstable/main amd64 libdigest-hmac-perl all 1.03+dfsg-2 [10.6 kB] Get:34 http://debian.oregonstate.edu/debian unstable/main amd64 perl-openssl-defaults amd64 4 [7148 B] Get:35 http://debian.oregonstate.edu/debian unstable/main amd64 libnet-ssleay-perl amd64 1.88-2 [321 kB] Get:36 http://debian.oregonstate.edu/debian unstable/main amd64 libio-socket-ssl-perl all 2.067-1 [212 kB] Get:37 http://debian.oregonstate.edu/debian unstable/main amd64 libnet-smtp-ssl-perl all 1.04-1 [6184 B] Get:38 http://debian.oregonstate.edu/debian unstable/main amd64 libtimedate-perl all 2.3100-1 [39.0 kB] Get:39 http://debian.oregonstate.edu/debian unstable/main amd64 libmailtools-perl all 2.21-1 [95.5 kB] Get:40 http://debian.oregonstate.edu/debian unstable/main amd64 libnet-ip-perl all 1.26-2 [29.0 kB] Get:41 http://debian.oregonstate.edu/debian unstable/main amd64 libnet-dns-perl all 1.22-1 [369 kB] Get:42 http://debian.oregonstate.edu/debian unstable/main amd64 libnet-domain-tld-perl all 1.75-1 [33.3 kB] Get:43 http://debian.oregonstate.edu/debian unstable/main amd64 libemail-valid-perl all 1.202-1 [23.0 kB] Get:44 http://debian.oregonstate.edu/debian unstable/main amd64 libexporter-tiny-perl all 1.002001-1 [36.9 kB] Get:45 http://debian.oregonstate.edu/debian unstable/main amd64 libipc-system-simple-perl all 1.26-1 [27.1 kB] Get:46 http://debian.oregonstate.edu/debian unstable/main amd64 libfile-basedir-perl all 0.08-1 [17.7 kB] Get:47 http://debian.oregonstate.edu/debian unstable/main amd64 libnumber-compare-perl all 0.03-1 [7642 B] Get:48 http://debian.oregonstate.edu/debian unstable/main amd64 libtext-glob-perl all 0.10-1 [8362 B] Get:49 http://debian.oregonstate.edu/debian unstable/main amd64 libfile-find-rule-perl all 0.34-1 [30.6 kB] Get:50 http://debian.oregonstate.edu/debian unstable/main amd64 libfont-ttf-perl all 1.06-1 [317 kB] Get:51 http://debian.oregonstate.edu/debian unstable/main amd64 libfuture-perl all 0.43-1 [83.2 kB] Get:52 http://debian.oregonstate.edu/debian unstable/main amd64 libimport-into-perl all 1.002005-1 [11.6 kB] Get:53 http://debian.oregonstate.edu/debian unstable/main amd64 libstruct-dumb-perl all 0.09-1 [11.1 kB] Get:54 http://debian.oregonstate.edu/debian unstable/main amd64 libio-async-perl all 0.75-1 [269 kB] Get:55 http://debian.oregonstate.edu/debian unstable/main amd64 liblinux-epoll-perl amd64 0.017-1 [16.8 kB] Get:56 http://debian.oregonstate.edu/debian unstable/main amd64 libio-async-loop-epoll-perl all 0.20-1 [11.9 kB] Get:57 http://debian.oregonstate.edu/debian unstable/main amd64 libio-pty-perl amd64 1:1.12-1 [36.3 kB] Get:58 http://debian.oregonstate.edu/debian unstable/main amd64 libipc-run-perl all 20180523.0-2 [101 kB] Get:59 http://debian.oregonstate.edu/debian unstable/main amd64 libjson-perl all 4.02000-2 [88.8 kB] Get:60 http://debian.oregonstate.edu/debian unstable/main amd64 liblist-compare-perl all 0.53-1 [68.9 kB] Get:61 http://debian.oregonstate.edu/debian unstable/main amd64 liblist-moreutils-perl amd64 0.416-1+b5 [63.6 kB] Get:62 http://debian.oregonstate.edu/debian unstable/main amd64 libmldbm-perl all 2.05-2 [18.4 kB] Get:63 http://debian.oregonstate.edu/debian unstable/main amd64 librole-tiny-perl all 2.001004-1 [20.8 kB] Get:64 http://debian.oregonstate.edu/debian unstable/main amd64 libstrictures-perl all 2.000006-1 [18.6 kB] Get:65 http://debian.oregonstate.edu/debian unstable/main amd64 libsub-quote-perl all 2.006006-1 [21.0 kB] Get:66 http://debian.oregonstate.edu/debian unstable/main amd64 libmoo-perl all 2.003006-1 [58.7 kB] Get:67 http://debian.oregonstate.edu/debian unstable/main amd64 libmoox-aliases-perl all 0.001006-1 [10.2 kB] Get:68 http://debian.oregonstate.edu/debian unstable/main amd64 libpackage-stash-perl all 0.38-1 [21.7 kB] Get:69 http://debian.oregonstate.edu/debian unstable/main amd64 libsub-identify-perl amd64 0.14-1+b2 [12.0 kB] Get:70 http://debian.oregonstate.edu/debian unstable/main amd64 libnamespace-clean-perl all 0.27-1 [17.3 kB] Get:71 http://debian.oregonstate.edu/debian unstable/main amd64 libpath-tiny-perl all 0.108-1 [53.3 kB] Get:72 http://debian.oregonstate.edu/debian unstable/main amd64 libtext-levenshtein-perl all 0.13-1 [11.1 kB] Get:73 http://debian.oregonstate.edu/debian unstable/main amd64 libtype-tiny-perl all 1.008001-2 [331 kB] Get:74 http://debian.oregonstate.edu/debian unstable/main amd64 libyaml-0-2 amd64 0.2.2-1 [49.6 kB] Get:75 http://debian.oregonstate.edu/debian unstable/main amd64 libyaml-libyaml-perl amd64 0.81+repack-1 [35.4 kB] Get:76 http://debian.oregonstate.edu/debian unstable/main amd64 patchutils amd64 0.3.4-2+b1 [91.4 kB] Get:77 http://debian.oregonstate.edu/debian unstable/main amd64 t1utils amd64 1.41-3 [62.3 kB] Get:78 http://debian.oregonstate.edu/debian unstable/main amd64 lintian all 2.55.0 [1312 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 7896 kB in 0s (34.2 MB/s) Selecting previously unselected package readline-common. (Reading database ... 38687 files and directories currently installed.) Preparing to unpack .../00-readline-common_8.0-4_all.deb ... Unpacking readline-common (8.0-4) ... Selecting previously unselected package libreadline8:amd64. Preparing to unpack .../01-libreadline8_8.0-4_amd64.deb ... Unpacking libreadline8:amd64 (8.0-4) ... Selecting previously unselected package netbase. Preparing to unpack .../02-netbase_6.1_all.deb ... Unpacking netbase (6.1) ... Selecting previously unselected package diffstat. Preparing to unpack .../03-diffstat_1.63-1_amd64.deb ... Unpacking diffstat (1.63-1) ... Selecting previously unselected package libassuan0:amd64. Preparing to unpack .../04-libassuan0_2.5.3-7_amd64.deb ... Unpacking libassuan0:amd64 (2.5.3-7) ... Selecting previously unselected package gpgconf. Preparing to unpack .../05-gpgconf_2.2.19-2_amd64.deb ... Unpacking gpgconf (2.2.19-2) ... Selecting previously unselected package libsqlite3-0:amd64. Preparing to unpack .../06-libsqlite3-0_3.31.1-3_amd64.deb ... Unpacking libsqlite3-0:amd64 (3.31.1-3) ... Selecting previously unselected package gpg. Preparing to unpack .../07-gpg_2.2.19-2_amd64.deb ... Unpacking gpg (2.2.19-2) ... Selecting previously unselected package libapt-pkg-perl. Preparing to unpack .../08-libapt-pkg-perl_0.1.36+b2_amd64.deb ... Unpacking libapt-pkg-perl (0.1.36+b2) ... Selecting previously unselected package libb-hooks-op-check-perl. Preparing to unpack .../09-libb-hooks-op-check-perl_0.22-1+b2_amd64.deb ... Unpacking libb-hooks-op-check-perl (0.22-1+b2) ... Selecting previously unselected package libdynaloader-functions-perl. Preparing to unpack .../10-libdynaloader-functions-perl_0.003-1_all.deb ... Unpacking libdynaloader-functions-perl (0.003-1) ... Selecting previously unselected package libdevel-callchecker-perl. Preparing to unpack .../11-libdevel-callchecker-perl_0.008-1+b1_amd64.deb ... Unpacking libdevel-callchecker-perl (0.008-1+b1) ... Selecting previously unselected package libparams-classify-perl. Preparing to unpack .../12-libparams-classify-perl_0.015-1+b2_amd64.deb ... Unpacking libparams-classify-perl (0.015-1+b2) ... Selecting previously unselected package libmodule-runtime-perl. Preparing to unpack .../13-libmodule-runtime-perl_0.016-1_all.deb ... Unpacking libmodule-runtime-perl (0.016-1) ... Selecting previously unselected package libtry-tiny-perl. Preparing to unpack .../14-libtry-tiny-perl_0.30-1_all.deb ... Unpacking libtry-tiny-perl (0.30-1) ... Selecting previously unselected package libmodule-implementation-perl. Preparing to unpack .../15-libmodule-implementation-perl_0.09-1_all.deb ... Unpacking libmodule-implementation-perl (0.09-1) ... Selecting previously unselected package libsub-exporter-progressive-perl. Preparing to unpack .../16-libsub-exporter-progressive-perl_0.001013-1_all.deb ... Unpacking libsub-exporter-progressive-perl (0.001013-1) ... Selecting previously unselected package libvariable-magic-perl. Preparing to unpack .../17-libvariable-magic-perl_0.62-1+b2_amd64.deb ... Unpacking libvariable-magic-perl (0.62-1+b2) ... Selecting previously unselected package libb-hooks-endofscope-perl. Preparing to unpack .../18-libb-hooks-endofscope-perl_0.24-1_all.deb ... Unpacking libb-hooks-endofscope-perl (0.24-1) ... Selecting previously unselected package libberkeleydb-perl:amd64. Preparing to unpack .../19-libberkeleydb-perl_0.62-1+b1_amd64.deb ... Unpacking libberkeleydb-perl:amd64 (0.62-1+b1) ... Selecting previously unselected package libcapture-tiny-perl. Preparing to unpack .../20-libcapture-tiny-perl_0.48-1_all.deb ... Unpacking libcapture-tiny-perl (0.48-1) ... Selecting previously unselected package libhtml-tagset-perl. Preparing to unpack .../21-libhtml-tagset-perl_3.20-4_all.deb ... Unpacking libhtml-tagset-perl (3.20-4) ... Selecting previously unselected package liburi-perl. Preparing to unpack .../22-liburi-perl_1.76-2_all.deb ... Unpacking liburi-perl (1.76-2) ... Selecting previously unselected package libhtml-parser-perl. Preparing to unpack .../23-libhtml-parser-perl_3.72-5_amd64.deb ... Unpacking libhtml-parser-perl (3.72-5) ... Selecting previously unselected package libcgi-pm-perl. Preparing to unpack .../24-libcgi-pm-perl_4.46-1_all.deb ... Unpacking libcgi-pm-perl (4.46-1) ... Selecting previously unselected package libsub-name-perl. Preparing to unpack .../25-libsub-name-perl_0.26-1_amd64.deb ... Unpacking libsub-name-perl (0.26-1) ... Selecting previously unselected package libclass-accessor-perl. Preparing to unpack .../26-libclass-accessor-perl_0.51-1_all.deb ... Unpacking libclass-accessor-perl (0.51-1) ... Selecting previously unselected package libclass-method-modifiers-perl. Preparing to unpack .../27-libclass-method-modifiers-perl_2.13-1_all.deb ... Unpacking libclass-method-modifiers-perl (2.13-1) ... Selecting previously unselected package libclass-xsaccessor-perl. Preparing to unpack .../28-libclass-xsaccessor-perl_1.19-3+b3_amd64.deb ... Unpacking libclass-xsaccessor-perl (1.19-3+b3) ... Selecting previously unselected package libclone-perl. Preparing to unpack .../29-libclone-perl_0.43-2_amd64.deb ... Unpacking libclone-perl (0.43-2) ... Selecting previously unselected package libdevel-size-perl. Preparing to unpack .../30-libdevel-size-perl_0.83-1+b1_amd64.deb ... Unpacking libdevel-size-perl (0.83-1+b1) ... Selecting previously unselected package libdigest-hmac-perl. Preparing to unpack .../31-libdigest-hmac-perl_1.03+dfsg-2_all.deb ... Unpacking libdigest-hmac-perl (1.03+dfsg-2) ... Selecting previously unselected package perl-openssl-defaults:amd64. Preparing to unpack .../32-perl-openssl-defaults_4_amd64.deb ... Unpacking perl-openssl-defaults:amd64 (4) ... Selecting previously unselected package libnet-ssleay-perl. Preparing to unpack .../33-libnet-ssleay-perl_1.88-2_amd64.deb ... Unpacking libnet-ssleay-perl (1.88-2) ... Selecting previously unselected package libio-socket-ssl-perl. Preparing to unpack .../34-libio-socket-ssl-perl_2.067-1_all.deb ... Unpacking libio-socket-ssl-perl (2.067-1) ... Selecting previously unselected package libnet-smtp-ssl-perl. Preparing to unpack .../35-libnet-smtp-ssl-perl_1.04-1_all.deb ... Unpacking libnet-smtp-ssl-perl (1.04-1) ... Selecting previously unselected package libtimedate-perl. Preparing to unpack .../36-libtimedate-perl_2.3100-1_all.deb ... Unpacking libtimedate-perl (2.3100-1) ... Selecting previously unselected package libmailtools-perl. Preparing to unpack .../37-libmailtools-perl_2.21-1_all.deb ... Unpacking libmailtools-perl (2.21-1) ... Selecting previously unselected package libnet-ip-perl. Preparing to unpack .../38-libnet-ip-perl_1.26-2_all.deb ... Unpacking libnet-ip-perl (1.26-2) ... Selecting previously unselected package libnet-dns-perl. Preparing to unpack .../39-libnet-dns-perl_1.22-1_all.deb ... Unpacking libnet-dns-perl (1.22-1) ... Selecting previously unselected package libnet-domain-tld-perl. Preparing to unpack .../40-libnet-domain-tld-perl_1.75-1_all.deb ... Unpacking libnet-domain-tld-perl (1.75-1) ... Selecting previously unselected package libemail-valid-perl. Preparing to unpack .../41-libemail-valid-perl_1.202-1_all.deb ... Unpacking libemail-valid-perl (1.202-1) ... Selecting previously unselected package libexporter-tiny-perl. Preparing to unpack .../42-libexporter-tiny-perl_1.002001-1_all.deb ... Unpacking libexporter-tiny-perl (1.002001-1) ... Selecting previously unselected package libipc-system-simple-perl. Preparing to unpack .../43-libipc-system-simple-perl_1.26-1_all.deb ... Unpacking libipc-system-simple-perl (1.26-1) ... Selecting previously unselected package libfile-basedir-perl. Preparing to unpack .../44-libfile-basedir-perl_0.08-1_all.deb ... Unpacking libfile-basedir-perl (0.08-1) ... Selecting previously unselected package libnumber-compare-perl. Preparing to unpack .../45-libnumber-compare-perl_0.03-1_all.deb ... Unpacking libnumber-compare-perl (0.03-1) ... Selecting previously unselected package libtext-glob-perl. Preparing to unpack .../46-libtext-glob-perl_0.10-1_all.deb ... Unpacking libtext-glob-perl (0.10-1) ... Selecting previously unselected package libfile-find-rule-perl. Preparing to unpack .../47-libfile-find-rule-perl_0.34-1_all.deb ... Unpacking libfile-find-rule-perl (0.34-1) ... Selecting previously unselected package libfont-ttf-perl. Preparing to unpack .../48-libfont-ttf-perl_1.06-1_all.deb ... Unpacking libfont-ttf-perl (1.06-1) ... Selecting previously unselected package libfuture-perl. Preparing to unpack .../49-libfuture-perl_0.43-1_all.deb ... Unpacking libfuture-perl (0.43-1) ... Selecting previously unselected package libimport-into-perl. Preparing to unpack .../50-libimport-into-perl_1.002005-1_all.deb ... Unpacking libimport-into-perl (1.002005-1) ... Selecting previously unselected package libstruct-dumb-perl. Preparing to unpack .../51-libstruct-dumb-perl_0.09-1_all.deb ... Unpacking libstruct-dumb-perl (0.09-1) ... Selecting previously unselected package libio-async-perl. Preparing to unpack .../52-libio-async-perl_0.75-1_all.deb ... Unpacking libio-async-perl (0.75-1) ... Selecting previously unselected package liblinux-epoll-perl. Preparing to unpack .../53-liblinux-epoll-perl_0.017-1_amd64.deb ... Unpacking liblinux-epoll-perl (0.017-1) ... Selecting previously unselected package libio-async-loop-epoll-perl. Preparing to unpack .../54-libio-async-loop-epoll-perl_0.20-1_all.deb ... Unpacking libio-async-loop-epoll-perl (0.20-1) ... Selecting previously unselected package libio-pty-perl. Preparing to unpack .../55-libio-pty-perl_1%3a1.12-1_amd64.deb ... Unpacking libio-pty-perl (1:1.12-1) ... Selecting previously unselected package libipc-run-perl. Preparing to unpack .../56-libipc-run-perl_20180523.0-2_all.deb ... Unpacking libipc-run-perl (20180523.0-2) ... Selecting previously unselected package libjson-perl. Preparing to unpack .../57-libjson-perl_4.02000-2_all.deb ... Unpacking libjson-perl (4.02000-2) ... Selecting previously unselected package liblist-compare-perl. Preparing to unpack .../58-liblist-compare-perl_0.53-1_all.deb ... Unpacking liblist-compare-perl (0.53-1) ... Selecting previously unselected package liblist-moreutils-perl. Preparing to unpack .../59-liblist-moreutils-perl_0.416-1+b5_amd64.deb ... Unpacking liblist-moreutils-perl (0.416-1+b5) ... Selecting previously unselected package libmldbm-perl. Preparing to unpack .../60-libmldbm-perl_2.05-2_all.deb ... Unpacking libmldbm-perl (2.05-2) ... Selecting previously unselected package librole-tiny-perl. Preparing to unpack .../61-librole-tiny-perl_2.001004-1_all.deb ... Unpacking librole-tiny-perl (2.001004-1) ... Selecting previously unselected package libstrictures-perl. Preparing to unpack .../62-libstrictures-perl_2.000006-1_all.deb ... Unpacking libstrictures-perl (2.000006-1) ... Selecting previously unselected package libsub-quote-perl. Preparing to unpack .../63-libsub-quote-perl_2.006006-1_all.deb ... Unpacking libsub-quote-perl (2.006006-1) ... Selecting previously unselected package libmoo-perl. Preparing to unpack .../64-libmoo-perl_2.003006-1_all.deb ... Unpacking libmoo-perl (2.003006-1) ... Selecting previously unselected package libmoox-aliases-perl. Preparing to unpack .../65-libmoox-aliases-perl_0.001006-1_all.deb ... Unpacking libmoox-aliases-perl (0.001006-1) ... Selecting previously unselected package libpackage-stash-perl. Preparing to unpack .../66-libpackage-stash-perl_0.38-1_all.deb ... Unpacking libpackage-stash-perl (0.38-1) ... Selecting previously unselected package libsub-identify-perl. Preparing to unpack .../67-libsub-identify-perl_0.14-1+b2_amd64.deb ... Unpacking libsub-identify-perl (0.14-1+b2) ... Selecting previously unselected package libnamespace-clean-perl. Preparing to unpack .../68-libnamespace-clean-perl_0.27-1_all.deb ... Unpacking libnamespace-clean-perl (0.27-1) ... Selecting previously unselected package libpath-tiny-perl. Preparing to unpack .../69-libpath-tiny-perl_0.108-1_all.deb ... Unpacking libpath-tiny-perl (0.108-1) ... Selecting previously unselected package libtext-levenshtein-perl. Preparing to unpack .../70-libtext-levenshtein-perl_0.13-1_all.deb ... Unpacking libtext-levenshtein-perl (0.13-1) ... Selecting previously unselected package libtype-tiny-perl. Preparing to unpack .../71-libtype-tiny-perl_1.008001-2_all.deb ... Unpacking libtype-tiny-perl (1.008001-2) ... Selecting previously unselected package libyaml-0-2:amd64. Preparing to unpack .../72-libyaml-0-2_0.2.2-1_amd64.deb ... Unpacking libyaml-0-2:amd64 (0.2.2-1) ... Selecting previously unselected package libyaml-libyaml-perl. Preparing to unpack .../73-libyaml-libyaml-perl_0.81+repack-1_amd64.deb ... Unpacking libyaml-libyaml-perl (0.81+repack-1) ... Selecting previously unselected package patchutils. Preparing to unpack .../74-patchutils_0.3.4-2+b1_amd64.deb ... Unpacking patchutils (0.3.4-2+b1) ... Selecting previously unselected package t1utils. Preparing to unpack .../75-t1utils_1.41-3_amd64.deb ... Unpacking t1utils (1.41-3) ... Selecting previously unselected package lintian. Preparing to unpack .../76-lintian_2.55.0_all.deb ... Unpacking lintian (2.55.0) ... Selecting previously unselected package sbuild-build-depends-lintian-dummy:armhf. Preparing to unpack .../77-sbuild-build-depends-lintian-dummy_0.invalid.0_armhf.deb ... Unpacking sbuild-build-depends-lintian-dummy:armhf (0.invalid.0) ... Setting up libapt-pkg-perl (0.1.36+b2) ... Setting up libberkeleydb-perl:amd64 (0.62-1+b1) ... Setting up libstruct-dumb-perl (0.09-1) ... Setting up libdynaloader-functions-perl (0.003-1) ... Setting up libtext-glob-perl (0.10-1) ... Setting up libclass-method-modifiers-perl (2.13-1) ... Setting up liblist-compare-perl (0.53-1) ... Setting up libio-pty-perl (1:1.12-1) ... Setting up libclone-perl (0.43-2) ... Setting up libyaml-0-2:amd64 (0.2.2-1) ... Setting up libsub-identify-perl (0.14-1+b2) ... Setting up libhtml-tagset-perl (3.20-4) ... Setting up libdevel-size-perl (0.83-1+b1) ... Setting up libsqlite3-0:amd64 (3.31.1-3) ... Setting up libfuture-perl (0.43-1) ... Setting up libyaml-libyaml-perl (0.81+repack-1) ... Setting up libtry-tiny-perl (0.30-1) ... Setting up perl-openssl-defaults:amd64 (4) ... Setting up libmldbm-perl (2.05-2) ... Setting up libtext-levenshtein-perl (0.13-1) ... Setting up libassuan0:amd64 (2.5.3-7) ... Setting up libnumber-compare-perl (0.03-1) ... Setting up libio-async-perl (0.75-1) ... Setting up patchutils (0.3.4-2+b1) ... Setting up libfile-find-rule-perl (0.34-1) ... Setting up libdigest-hmac-perl (1.03+dfsg-2) ... Setting up libipc-system-simple-perl (1.26-1) ... Setting up libnet-domain-tld-perl (1.75-1) ... Setting up t1utils (1.41-3) ... Setting up liblinux-epoll-perl (0.017-1) ... Setting up diffstat (1.63-1) ... Setting up libvariable-magic-perl (0.62-1+b2) ... Setting up libb-hooks-op-check-perl (0.22-1+b2) ... Setting up libipc-run-perl (20180523.0-2) ... Setting up libsub-exporter-progressive-perl (0.001013-1) ... Setting up libcapture-tiny-perl (0.48-1) ... Setting up libtimedate-perl (2.3100-1) ... Setting up libsub-name-perl (0.26-1) ... Setting up libpath-tiny-perl (0.108-1) ... Setting up libjson-perl (4.02000-2) ... Setting up librole-tiny-perl (2.001004-1) ... Setting up netbase (6.1) ... Setting up libstrictures-perl (2.000006-1) ... Setting up libsub-quote-perl (2.006006-1) ... Setting up libclass-xsaccessor-perl (1.19-3+b3) ... Setting up libexporter-tiny-perl (1.002001-1) ... Setting up libclass-accessor-perl (0.51-1) ... Setting up libfont-ttf-perl (1.06-1) ... Setting up libnet-ip-perl (1.26-2) ... Setting up readline-common (8.0-4) ... Setting up liburi-perl (1.76-2) ... Setting up libnet-ssleay-perl (1.88-2) ... Setting up libfile-basedir-perl (0.08-1) ... Setting up liblist-moreutils-perl (0.416-1+b5) ... Setting up libreadline8:amd64 (8.0-4) ... Setting up libtype-tiny-perl (1.008001-2) ... Setting up libnet-dns-perl (1.22-1) ... Setting up libdevel-callchecker-perl (0.008-1+b1) ... Setting up libio-async-loop-epoll-perl (0.20-1) ... Setting up libhtml-parser-perl (3.72-5) ... Setting up gpgconf (2.2.19-2) ... Setting up libio-socket-ssl-perl (2.067-1) ... Setting up gpg (2.2.19-2) ... Setting up libparams-classify-perl (0.015-1+b2) ... Setting up libcgi-pm-perl (4.46-1) ... Setting up libnet-smtp-ssl-perl (1.04-1) ... Setting up libmodule-runtime-perl (0.016-1) ... Setting up libmailtools-perl (2.21-1) ... Setting up libmodule-implementation-perl (0.09-1) ... Setting up libemail-valid-perl (1.202-1) ... Setting up libpackage-stash-perl (0.38-1) ... Setting up libimport-into-perl (1.002005-1) ... Setting up libmoo-perl (2.003006-1) ... Setting up libmoox-aliases-perl (0.001006-1) ... Setting up libb-hooks-endofscope-perl (0.24-1) ... Setting up libnamespace-clean-perl (0.27-1) ... Setting up lintian (2.55.0) ... Setting up sbuild-build-depends-lintian-dummy:armhf (0.invalid.0) ... Processing triggers for man-db (2.9.1-1) ... Not building database; man-db/auto-update is not 'true'. Processing triggers for libc-bin (2.29-10) ... I: Lintian run was successful. +------------------------------------------------------------------------------+ | Post Build | +------------------------------------------------------------------------------+ +------------------------------------------------------------------------------+ | Cleanup | +------------------------------------------------------------------------------+ Purging /<> Not cleaning session: cloned chroot in use +------------------------------------------------------------------------------+ | Summary | +------------------------------------------------------------------------------+ Build Architecture: amd64 Build Profiles: cross nocheck Build Type: any Build-Space: 148772 Build-Time: 239 Distribution: unstable Foreign Architectures: armhf Host Architecture: armhf Install-Time: 24 Job: tvc_5.0.3+git20151221.80e144e+dfsg-3 Lintian: pass Machine Architecture: amd64 Package: tvc Package-Time: 273 Source-Version: 5.0.3+git20151221.80e144e+dfsg-3 Space: 148772 Status: successful Version: 5.0.3+git20151221.80e144e+dfsg-3 -------------------------------------------------------------------------------- Finished at 2020-03-02T10:16:00Z Build needed 00:04:33, 148772k disk space