sbuild (Debian sbuild) 0.78.1 (09 February 2019) on gcc131.bak.milne.osuosl.org +==============================================================================+ | berkeley-express 1.5.3+dfsg-1 (armhf) Sat, 04 Jul 2020 18:41:17 +0000 | +==============================================================================+ Package: berkeley-express Version: 1.5.3+dfsg-1 Source Version: 1.5.3+dfsg-1 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-acac6eb2-8e3d-4f6f-89d0-e79e22cabea1' with '<>' I: NOTICE: Log filtering will replace 'build/berkeley-express-C5q8uu/resolver-rsSowP' with '<>' +------------------------------------------------------------------------------+ | Update chroot | +------------------------------------------------------------------------------+ Get:1 http://debian.oregonstate.edu/debian unstable InRelease [146 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 2020-07-04-0803.37.pdiff [3374 B] Get:5 http://debian.oregonstate.edu/debian unstable/main Sources 2020-07-04-1402.04.pdiff [17.6 kB] Get:5 http://debian.oregonstate.edu/debian unstable/main Sources 2020-07-04-1402.04.pdiff [17.6 kB] Get:6 http://debian.oregonstate.edu/debian unstable/main amd64 Packages 2020-07-04-0803.37.pdiff [3658 B] Get:7 http://debian.oregonstate.edu/debian unstable/main amd64 Packages 2020-07-04-1402.04.pdiff [10.3 kB] Get:7 http://debian.oregonstate.edu/debian unstable/main amd64 Packages 2020-07-04-1402.04.pdiff [10.3 kB] Get:8 http://debian.oregonstate.edu/debian unstable/main armhf Packages [8000 kB] Fetched 8237 kB in 2s (5251 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: 'berkeley-express' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/med-team/berkeley-express.git Please use: git clone https://salsa.debian.org/med-team/berkeley-express.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 379 kB of source archives. Get:1 http://debian.oregonstate.edu/debian unstable/main berkeley-express 1.5.3+dfsg-1 (dsc) [2475 B] Get:2 http://debian.oregonstate.edu/debian unstable/main berkeley-express 1.5.3+dfsg-1 (tar) [366 kB] Get:3 http://debian.oregonstate.edu/debian unstable/main berkeley-express 1.5.3+dfsg-1 (diff) [10.3 kB] Fetched 379 kB in 0s (4795 kB/s) Download complete and in download only mode I: NOTICE: Log filtering will replace 'build/berkeley-express-C5q8uu/berkeley-express-1.5.3+dfsg' with '<>' I: NOTICE: Log filtering will replace 'build/berkeley-express-C5q8uu' with '<>' +------------------------------------------------------------------------------+ | Install package build dependencies | +------------------------------------------------------------------------------+ Setup apt archive ----------------- Merged Build-Depends: debhelper-compat (= 12), libboost-thread-dev, libboost-system-dev, libboost-filesystem-dev, libboost-program-options-dev, libboost-date-time-dev, libbamtools-dev, libboost-tools-dev, libgoogle-perftools-dev, cmake, libprotobuf-dev, protobuf-compiler, 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), libboost-thread-dev, libboost-system-dev, libboost-filesystem-dev, libboost-program-options-dev, libboost-date-time-dev, libbamtools-dev, libboost-tools-dev, libgoogle-perftools-dev, cmake, libprotobuf-dev, protobuf-compiler, 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 [512 B] Get:5 copy:/<>/apt_archive ./ Packages [568 B] Fetched 2037 B in 0s (78.3 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 bsdextrautils 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 dpkg-dev 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 intltool-debian libarchive-zip-perl libarchive13 libasan5:armhf libasan5-armhf-cross libatomic1:armhf libatomic1-armhf-cross libbamtools-dev:armhf libbamtools2.5.1:armhf libboost-atomic1.71-dev:armhf libboost-atomic1.71.0:armhf libboost-chrono1.71-dev:armhf libboost-chrono1.71.0:armhf libboost-date-time-dev:armhf libboost-date-time1.71-dev:armhf libboost-date-time1.71.0:armhf libboost-filesystem-dev:armhf libboost-filesystem1.71-dev:armhf libboost-filesystem1.71.0:armhf libboost-program-options-dev:armhf libboost-program-options1.71-dev:armhf libboost-program-options1.71.0:armhf libboost-serialization1.71-dev:armhf libboost-serialization1.71.0:armhf libboost-system-dev:armhf libboost-system1.71-dev:armhf libboost-system1.71.0:armhf libboost-thread-dev:armhf libboost-thread1.71-dev:armhf libboost-thread1.71.0:armhf libboost-tools-dev libboost1.71-dev:armhf libboost1.71-tools-dev libbrotli1 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 libdpkg-perl 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 libglib2.0-0 libgomp1:armhf libgomp1-armhf-cross libgoogle-perftools-dev:armhf libgoogle-perftools4:armhf libgssapi-krb5-2 libicu67 libio-string-perl libjsoncpp1 libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 libldap-2.4-2 libldap-common liblocale-gettext-perl libmagic-mgc libmagic1 libncurses6 libnghttp2-14 libperl5.30 libpipeline1 libprocps8 libprotobuf-dev:armhf libprotobuf-lite22:armhf libprotobuf22 libprotobuf22:armhf libprotoc22 libpsl5 librhash0 librtmp1 libsasl2-2 libsasl2-modules-db libsigsegv2 libssh2-1 libstdc++-9-dev libstdc++-9-dev:armhf libstdc++-9-dev-armhf-cross libstdc++6:armhf libstdc++6-armhf-cross libsub-override-perl libtcmalloc-minimal4: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 perl perl-modules-5.30 po-debconf procps protobuf-compiler sensible-utils ucf zlib1g:armhf zlib1g-dev:armhf Suggested packages: autoconf-archive gnu-standards autoconf-doc binutils-doc cmake-doc ninja-build gcc-9-locales cpp-doc dh-make binutils-multiarch debian-keyring 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 libbamtools-doc:armhf libboost1.71-doc:armhf libboost-container1.71-dev:armhf libboost-context1.71-dev:armhf libboost-contract1.71-dev:armhf libboost-coroutine1.71-dev:armhf libboost-exception1.71-dev:armhf libboost-fiber1.71-dev:armhf libboost-graph1.71-dev:armhf libboost-graph-parallel1.71-dev:armhf libboost-iostreams1.71-dev:armhf libboost-locale1.71-dev:armhf libboost-log1.71-dev:armhf libboost-math1.71-dev:armhf libboost-mpi1.71-dev:armhf libboost-mpi-python1.71-dev:armhf libboost-numpy1.71-dev:armhf libboost-python1.71-dev:armhf libboost-random1.71-dev:armhf libboost-regex1.71-dev:armhf libboost-stacktrace1.71-dev:armhf libboost-test1.71-dev:armhf libboost-timer1.71-dev:armhf libboost-type-erasure1.71-dev:armhf libboost-wave1.71-dev:armhf libmpfrc++-dev:armhf libntl-dev:armhf xsltproc doxygen docbook-xml docbook-xsl default-jdk fop glibc-doc:armhf libc-l10n:armhf locales:armhf glibc-doc manpages-dev:armhf gnupg git bzr krb5-doc krb5-user libstdc++-9-doc libstdc++-9-doc:armhf libtool-doc gfortran | fortran95-compiler gcj-jdk libyaml-shell-perl m4-doc apparmor less www-browser perl-doc libterm-readline-gnu-perl | libterm-readline-perl-perl libtap-harness-archive-perl libmail-box-perl protobuf-mode-el Recommended packages: gnupg libalgorithm-merge-perl curl | wget | lynx libidn2-0:armhf ca-certificates libfile-fcntllock-perl 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 netbase libmail-sendmail-perl psmisc libprotobuf-dev The following NEW packages will be installed: autoconf automake autopoint autotools-dev binutils-arm-linux-gnueabihf bsdextrautils 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 dpkg-dev 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 intltool-debian libarchive-zip-perl libarchive13 libasan5:armhf libasan5-armhf-cross libatomic1:armhf libatomic1-armhf-cross libbamtools-dev:armhf libbamtools2.5.1:armhf libboost-atomic1.71-dev:armhf libboost-atomic1.71.0:armhf libboost-chrono1.71-dev:armhf libboost-chrono1.71.0:armhf libboost-date-time-dev:armhf libboost-date-time1.71-dev:armhf libboost-date-time1.71.0:armhf libboost-filesystem-dev:armhf libboost-filesystem1.71-dev:armhf libboost-filesystem1.71.0:armhf libboost-program-options-dev:armhf libboost-program-options1.71-dev:armhf libboost-program-options1.71.0:armhf libboost-serialization1.71-dev:armhf libboost-serialization1.71.0:armhf libboost-system-dev:armhf libboost-system1.71-dev:armhf libboost-system1.71.0:armhf libboost-thread-dev:armhf libboost-thread1.71-dev:armhf libboost-thread1.71.0:armhf libboost-tools-dev libboost1.71-dev:armhf libboost1.71-tools-dev libbrotli1 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 libdpkg-perl 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 libglib2.0-0 libgomp1:armhf libgomp1-armhf-cross libgoogle-perftools-dev:armhf libgoogle-perftools4:armhf libgssapi-krb5-2 libicu67 libio-string-perl libjsoncpp1 libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 libldap-2.4-2 libldap-common liblocale-gettext-perl libmagic-mgc libmagic1 libncurses6 libnghttp2-14 libperl5.30 libpipeline1 libprocps8 libprotobuf-dev:armhf libprotobuf-lite22:armhf libprotobuf22 libprotobuf22:armhf libprotoc22 libpsl5 librhash0 librtmp1 libsasl2-2 libsasl2-modules-db libsigsegv2 libssh2-1 libstdc++-9-dev libstdc++-9-dev:armhf libstdc++-9-dev-armhf-cross libstdc++6:armhf libstdc++6-armhf-cross libsub-override-perl libtcmalloc-minimal4: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 perl perl-modules-5.30 po-debconf procps protobuf-compiler sbuild-build-depends-main-dummy:armhf sensible-utils ucf zlib1g:armhf zlib1g-dev:armhf 0 upgraded, 160 newly installed, 0 to remove and 0 not upgraded. Need to get 117 MB of archives. After this operation, 603 MB of additional disk space will be used. Get:1 copy:/<>/apt_archive ./ sbuild-build-depends-main-dummy 0.invalid.0 [992 B] Get:2 http://debian.oregonstate.edu/debian unstable/main amd64 bsdextrautils amd64 2.35.2-6 [129 kB] Get:3 http://debian.oregonstate.edu/debian unstable/main amd64 libuchardet0 amd64 0.0.7-1 [67.8 kB] Get:4 http://debian.oregonstate.edu/debian unstable/main amd64 groff-base amd64 1.22.4-5 [920 kB] Get:5 http://debian.oregonstate.edu/debian unstable/main amd64 libpipeline1 amd64 1.5.2-2 [33.9 kB] Get:6 http://debian.oregonstate.edu/debian unstable/main amd64 man-db amd64 2.9.3-1 [1315 kB] Get:7 http://debian.oregonstate.edu/debian unstable/main amd64 perl-modules-5.30 all 5.30.3-4 [2806 kB] Get:8 http://debian.oregonstate.edu/debian unstable/main amd64 libperl5.30 amd64 5.30.3-4 [4019 kB] Get:9 http://debian.oregonstate.edu/debian unstable/main amd64 perl amd64 5.30.3-4 [290 kB] Get:10 http://debian.oregonstate.edu/debian unstable/main amd64 liblocale-gettext-perl amd64 1.07-4 [18.8 kB] Get:11 http://debian.oregonstate.edu/debian unstable/main armhf gcc-10-base armhf 10.1.0-4 [197 kB] Get:12 http://debian.oregonstate.edu/debian unstable/main armhf gcc-9-base armhf 9.3.0-14 [197 kB] Get:13 http://debian.oregonstate.edu/debian unstable/main amd64 libncurses6 amd64 6.2-1 [102 kB] Get:14 http://debian.oregonstate.edu/debian unstable/main amd64 libprocps8 amd64 2:3.3.16-5 [62.7 kB] Get:15 http://debian.oregonstate.edu/debian unstable/main amd64 procps amd64 2:3.3.16-5 [262 kB] Get:16 http://debian.oregonstate.edu/debian unstable/main amd64 sensible-utils all 0.0.12+nmu1 [16.0 kB] Get:17 http://debian.oregonstate.edu/debian unstable/main amd64 libmagic-mgc amd64 1:5.38-5 [262 kB] Get:18 http://debian.oregonstate.edu/debian unstable/main amd64 libmagic1 amd64 1:5.38-5 [120 kB] Get:19 http://debian.oregonstate.edu/debian unstable/main amd64 file amd64 1:5.38-5 [67.9 kB] Get:20 http://debian.oregonstate.edu/debian unstable/main amd64 gettext-base amd64 0.19.8.1-10 [123 kB] Get:21 http://debian.oregonstate.edu/debian unstable/main amd64 ucf all 3.0043 [74.0 kB] Get:22 http://debian.oregonstate.edu/debian unstable/main amd64 libsigsegv2 amd64 2.12-2 [32.8 kB] Get:23 http://debian.oregonstate.edu/debian unstable/main amd64 m4 amd64 1.4.18-4 [203 kB] Get:24 http://debian.oregonstate.edu/debian unstable/main amd64 autoconf all 2.69-11.1 [341 kB] Get:25 http://debian.oregonstate.edu/debian unstable/main amd64 autotools-dev all 20180224.1 [77.0 kB] Get:26 http://debian.oregonstate.edu/debian unstable/main amd64 automake all 1:1.16.2-1 [775 kB] Get:27 http://debian.oregonstate.edu/debian unstable/main amd64 autopoint all 0.19.8.1-10 [435 kB] Get:28 http://debian.oregonstate.edu/debian unstable/main amd64 binutils-arm-linux-gnueabihf amd64 2.34-8 [2750 kB] Get:29 http://debian.oregonstate.edu/debian unstable/main amd64 libcrypt-dev amd64 1:4.4.16-1 [104 kB] Get:30 http://debian.oregonstate.edu/debian unstable/main amd64 libc6-dev amd64 2.30-8 [2631 kB] Get:31 http://debian.oregonstate.edu/debian unstable/main amd64 libstdc++-9-dev amd64 9.3.0-14 [1701 kB] Get:32 http://debian.oregonstate.edu/debian unstable/main amd64 g++-9 amd64 9.3.0-14 [10.7 MB] Get:33 http://debian.oregonstate.edu/debian unstable/main amd64 g++ amd64 4:9.2.1-3.1 [1644 B] Get:34 http://debian.oregonstate.edu/debian unstable/main amd64 libdpkg-perl all 1.20.3 [1468 kB] Get:35 http://debian.oregonstate.edu/debian unstable/main amd64 dpkg-dev all 1.20.3 [1905 kB] Get:36 http://debian.oregonstate.edu/debian unstable/main amd64 build-essential amd64 12.8 [7640 B] Get:37 http://debian.oregonstate.edu/debian unstable/main amd64 cmake-data all 3.16.3-3 [1628 kB] Get:38 http://debian.oregonstate.edu/debian unstable/main amd64 libicu67 amd64 67.1-2 [8610 kB] Get:39 http://debian.oregonstate.edu/debian unstable/main amd64 libxml2 amd64 2.9.10+dfsg-5+b1 [710 kB] Get:40 http://debian.oregonstate.edu/debian unstable/main amd64 libarchive13 amd64 3.4.3-1 [337 kB] Get:41 http://debian.oregonstate.edu/debian unstable/main amd64 libbrotli1 amd64 1.0.7-6.1 [267 kB] Get:42 http://debian.oregonstate.edu/debian unstable/main amd64 libkrb5support0 amd64 1.17-10 [64.6 kB] Get:43 http://debian.oregonstate.edu/debian unstable/main amd64 libk5crypto3 amd64 1.17-10 [115 kB] Get:44 http://debian.oregonstate.edu/debian unstable/main amd64 libkeyutils1 amd64 1.6.1-2 [15.4 kB] Get:45 http://debian.oregonstate.edu/debian unstable/main amd64 libkrb5-3 amd64 1.17-10 [366 kB] Get:46 http://debian.oregonstate.edu/debian unstable/main amd64 libgssapi-krb5-2 amd64 1.17-10 [156 kB] Get:47 http://debian.oregonstate.edu/debian unstable/main amd64 libsasl2-modules-db amd64 2.1.27+dfsg-2 [69.0 kB] Get:48 http://debian.oregonstate.edu/debian unstable/main amd64 libsasl2-2 amd64 2.1.27+dfsg-2 [106 kB] Get:49 http://debian.oregonstate.edu/debian unstable/main amd64 libldap-common all 2.4.50+dfsg-1 [92.9 kB] Get:50 http://debian.oregonstate.edu/debian unstable/main amd64 libldap-2.4-2 amd64 2.4.50+dfsg-1 [228 kB] Get:51 http://debian.oregonstate.edu/debian unstable/main amd64 libnghttp2-14 amd64 1.41.0-2 [72.4 kB] Get:52 http://debian.oregonstate.edu/debian unstable/main amd64 libpsl5 amd64 0.21.0-1.1 [55.3 kB] Get:53 http://debian.oregonstate.edu/debian unstable/main amd64 librtmp1 amd64 2.4+20151223.gitfa8646d.1-2+b1 [60.8 kB] Get:54 http://debian.oregonstate.edu/debian unstable/main amd64 libssh2-1 amd64 1.8.0-2.1 [140 kB] Get:55 http://debian.oregonstate.edu/debian unstable/main amd64 libcurl4 amd64 7.68.0-1 [321 kB] Get:56 http://debian.oregonstate.edu/debian unstable/main amd64 libexpat1 amd64 2.2.9-1 [94.3 kB] Get:57 http://debian.oregonstate.edu/debian unstable/main amd64 libjsoncpp1 amd64 1.7.4-3.1 [77.6 kB] Get:58 http://debian.oregonstate.edu/debian unstable/main amd64 librhash0 amd64 1.3.9-1 [123 kB] Get:59 http://debian.oregonstate.edu/debian unstable/main amd64 libuv1 amd64 1.38.0-3 [128 kB] Get:60 http://debian.oregonstate.edu/debian unstable/main amd64 cmake amd64 3.16.3-3 [3674 kB] Get:61 http://debian.oregonstate.edu/debian unstable/main amd64 gcc-9-arm-linux-gnueabihf-base amd64 9.3.0-13cross1 [197 kB] Get:62 http://debian.oregonstate.edu/debian unstable/main amd64 cpp-9-arm-linux-gnueabihf amd64 9.3.0-13cross1 [6818 kB] Get:63 http://debian.oregonstate.edu/debian unstable/main amd64 cpp-arm-linux-gnueabihf amd64 4:9.2.1-3.1 [16.7 kB] Get:64 http://debian.oregonstate.edu/debian unstable/main amd64 cross-config all 2.6.15-3.1 [39.9 kB] Get:65 http://debian.oregonstate.edu/debian unstable/main amd64 gcc-9-cross-base all 9.3.0-13cross1 [193 kB] Get:66 http://debian.oregonstate.edu/debian unstable/main amd64 gcc-10-cross-base all 10.1.0-3cross1 [194 kB] Get:67 http://debian.oregonstate.edu/debian unstable/main amd64 libc6-armhf-cross all 2.30-2cross1 [1111 kB] Get:68 http://debian.oregonstate.edu/debian unstable/main amd64 libgcc-s1-armhf-cross all 10.1.0-3cross1 [36.2 kB] Get:69 http://debian.oregonstate.edu/debian unstable/main amd64 libgomp1-armhf-cross all 10.1.0-3cross1 [82.4 kB] Get:70 http://debian.oregonstate.edu/debian unstable/main amd64 libatomic1-armhf-cross all 10.1.0-3cross1 [6632 B] Get:71 http://debian.oregonstate.edu/debian unstable/main amd64 libasan5-armhf-cross all 9.3.0-13cross1 [363 kB] Get:72 http://debian.oregonstate.edu/debian unstable/main amd64 libstdc++6-armhf-cross all 10.1.0-3cross1 [380 kB] Get:73 http://debian.oregonstate.edu/debian unstable/main amd64 libubsan1-armhf-cross all 10.1.0-3cross1 [115 kB] Get:74 http://debian.oregonstate.edu/debian unstable/main amd64 libgcc-9-dev-armhf-cross all 9.3.0-13cross1 [659 kB] Get:75 http://debian.oregonstate.edu/debian unstable/main amd64 gcc-9-arm-linux-gnueabihf amd64 9.3.0-13cross1 [7180 kB] Get:76 http://debian.oregonstate.edu/debian unstable/main amd64 gcc-arm-linux-gnueabihf amd64 4:9.2.1-3.1 [1476 B] Get:77 http://debian.oregonstate.edu/debian unstable/main amd64 linux-libc-dev-armhf-cross all 5.4.19-1cross1 [1155 kB] Get:78 http://debian.oregonstate.edu/debian unstable/main amd64 libc6-dev-armhf-cross all 2.30-2cross1 [2118 kB] Get:79 http://debian.oregonstate.edu/debian unstable/main amd64 libstdc++-9-dev-armhf-cross all 9.3.0-13cross1 [1725 kB] Get:80 http://debian.oregonstate.edu/debian unstable/main amd64 g++-9-arm-linux-gnueabihf amd64 9.3.0-13cross1 [7406 kB] Get:81 http://debian.oregonstate.edu/debian unstable/main amd64 g++-arm-linux-gnueabihf amd64 4:9.2.1-3.1 [1184 B] Get:82 http://debian.oregonstate.edu/debian unstable/main amd64 libconfig-inifiles-perl all 3.000003-1 [52.1 kB] Get:83 http://debian.oregonstate.edu/debian unstable/main amd64 libio-string-perl all 1.08-3 [12.3 kB] Get:84 http://debian.oregonstate.edu/debian unstable/main amd64 libxml-namespacesupport-perl all 1.12-1 [14.8 kB] Get:85 http://debian.oregonstate.edu/debian unstable/main amd64 libxml-sax-base-perl all 1.09-1 [20.4 kB] Get:86 http://debian.oregonstate.edu/debian unstable/main amd64 libxml-sax-perl all 1.02+dfsg-1 [59.0 kB] Get:87 http://debian.oregonstate.edu/debian unstable/main amd64 libxml-libxml-perl amd64 2.0134+dfsg-2 [343 kB] Get:88 http://debian.oregonstate.edu/debian unstable/main amd64 libxml-simple-perl all 2.25-1 [72.0 kB] Get:89 http://debian.oregonstate.edu/debian unstable/main amd64 libyaml-perl all 1.30-1 [67.7 kB] Get:90 http://debian.oregonstate.edu/debian unstable/main amd64 libconfig-auto-perl all 0.44-1 [19.5 kB] Get:91 http://debian.oregonstate.edu/debian unstable/main amd64 libfile-which-perl all 1.23-1 [16.6 kB] Get:92 http://debian.oregonstate.edu/debian unstable/main amd64 libfile-homedir-perl all 1.004-1 [42.7 kB] Get:93 http://debian.oregonstate.edu/debian unstable/main amd64 libdebian-dpkgcross-perl all 2.6.15-3.1 [38.9 kB] Get:94 http://debian.oregonstate.edu/debian unstable/main amd64 dpkg-cross all 2.6.15-3.1 [49.9 kB] Get:95 http://debian.oregonstate.edu/debian unstable/main amd64 crossbuild-essential-armhf all 12.8 [6644 B] Get:96 http://debian.oregonstate.edu/debian unstable/main amd64 libtool all 2.4.6-14 [513 kB] Get:97 http://debian.oregonstate.edu/debian unstable/main amd64 dh-autoreconf all 19 [16.9 kB] Get:98 http://debian.oregonstate.edu/debian unstable/main amd64 libdebhelper-perl all 13.1 [187 kB] Get:99 http://debian.oregonstate.edu/debian unstable/main amd64 libarchive-zip-perl all 1.68-1 [104 kB] Get:100 http://debian.oregonstate.edu/debian unstable/main amd64 libsub-override-perl all 0.09-2 [10.2 kB] Get:101 http://debian.oregonstate.edu/debian unstable/main amd64 libfile-stripnondeterminism-perl all 1.8.1-1 [25.2 kB] Get:102 http://debian.oregonstate.edu/debian unstable/main amd64 dh-strip-nondeterminism all 1.8.1-1 [14.9 kB] Get:103 http://debian.oregonstate.edu/debian unstable/main amd64 libelf1 amd64 0.176-1.1 [161 kB] Get:104 http://debian.oregonstate.edu/debian unstable/main amd64 dwz amd64 0.13-5 [151 kB] Get:105 http://debian.oregonstate.edu/debian unstable/main amd64 libglib2.0-0 amd64 2.64.3-2 [1343 kB] Get:106 http://debian.oregonstate.edu/debian unstable/main amd64 libcroco3 amd64 0.6.13-1 [146 kB] Get:107 http://debian.oregonstate.edu/debian unstable/main amd64 gettext amd64 0.19.8.1-10 [1303 kB] Get:108 http://debian.oregonstate.edu/debian unstable/main amd64 intltool-debian all 0.35.0+20060710.5 [26.8 kB] Get:109 http://debian.oregonstate.edu/debian unstable/main amd64 po-debconf all 1.0.21 [248 kB] Get:110 http://debian.oregonstate.edu/debian unstable/main amd64 debhelper all 13.1 [1012 kB] Get:111 http://debian.oregonstate.edu/debian unstable/main armhf libgcc-s1 armhf 10.1.0-4 [36.2 kB] Get:112 http://debian.oregonstate.edu/debian unstable/main armhf libcrypt1 armhf 1:4.4.16-1 [101 kB] Get:113 http://debian.oregonstate.edu/debian unstable/main armhf libc6 armhf 2.30-8 [2343 kB] Get:114 http://debian.oregonstate.edu/debian unstable/main armhf libasan5 armhf 9.3.0-14 [370 kB] Get:115 http://debian.oregonstate.edu/debian unstable/main armhf libatomic1 armhf 10.1.0-4 [6876 B] Get:116 http://debian.oregonstate.edu/debian unstable/main armhf libstdc++6 armhf 10.1.0-4 [420 kB] Get:117 http://debian.oregonstate.edu/debian unstable/main armhf zlib1g armhf 1:1.2.11.dfsg-2 [85.4 kB] Get:118 http://debian.oregonstate.edu/debian unstable/main armhf libbamtools2.5.1 armhf 2.5.1+dfsg-7 [140 kB] Get:119 http://debian.oregonstate.edu/debian unstable/main armhf libbamtools-dev armhf 2.5.1+dfsg-7 [196 kB] Get:120 http://debian.oregonstate.edu/debian unstable/main armhf libgomp1 armhf 10.1.0-4 [84.4 kB] Get:121 http://debian.oregonstate.edu/debian unstable/main armhf libubsan1 armhf 10.1.0-4 [116 kB] Get:122 http://debian.oregonstate.edu/debian unstable/main armhf libgcc-9-dev armhf 9.3.0-14 [663 kB] Get:123 http://debian.oregonstate.edu/debian unstable/main armhf linux-libc-dev armhf 5.7.6-1 [1096 kB] Get:124 http://debian.oregonstate.edu/debian unstable/main armhf libcrypt-dev armhf 1:4.4.16-1 [120 kB] Get:125 http://debian.oregonstate.edu/debian unstable/main armhf libc6-dev armhf 2.30-8 [2136 kB] Get:126 http://debian.oregonstate.edu/debian unstable/main armhf libstdc++-9-dev armhf 9.3.0-14 [1757 kB] Get:127 http://debian.oregonstate.edu/debian unstable/main armhf libboost1.71-dev armhf 1.71.0-6+b2 [9096 kB] Get:128 http://debian.oregonstate.edu/debian unstable/main armhf libboost-atomic1.71.0 armhf 1.71.0-6+b2 [231 kB] Get:129 http://debian.oregonstate.edu/debian unstable/main armhf libboost-atomic1.71-dev armhf 1.71.0-6+b2 [232 kB] Get:130 http://debian.oregonstate.edu/debian unstable/main armhf libboost-chrono1.71.0 armhf 1.71.0-6+b2 [239 kB] Get:131 http://debian.oregonstate.edu/debian unstable/main armhf libboost-chrono1.71-dev armhf 1.71.0-6+b2 [247 kB] Get:132 http://debian.oregonstate.edu/debian unstable/main armhf libboost-date-time1.71.0 armhf 1.71.0-6+b2 [242 kB] Get:133 http://debian.oregonstate.edu/debian unstable/main armhf libboost-serialization1.71.0 armhf 1.71.0-6+b2 [311 kB] Get:134 http://debian.oregonstate.edu/debian unstable/main armhf libboost-serialization1.71-dev armhf 1.71.0-6+b2 [383 kB] Get:135 http://debian.oregonstate.edu/debian unstable/main armhf libboost-date-time1.71-dev armhf 1.71.0-6+b2 [256 kB] Get:136 http://debian.oregonstate.edu/debian unstable/main armhf libboost-date-time-dev armhf 1.71.0.3 [4120 B] Get:137 http://debian.oregonstate.edu/debian unstable/main armhf libboost-filesystem1.71.0 armhf 1.71.0-6+b2 [260 kB] Get:138 http://debian.oregonstate.edu/debian unstable/main armhf libboost-system1.71.0 armhf 1.71.0-6+b2 [231 kB] Get:139 http://debian.oregonstate.edu/debian unstable/main armhf libboost-system1.71-dev armhf 1.71.0-6+b2 [232 kB] Get:140 http://debian.oregonstate.edu/debian unstable/main armhf libboost-filesystem1.71-dev armhf 1.71.0-6+b2 [273 kB] Get:141 http://debian.oregonstate.edu/debian unstable/main armhf libboost-filesystem-dev armhf 1.71.0.3 [4160 B] Get:142 http://debian.oregonstate.edu/debian unstable/main armhf libboost-program-options1.71.0 armhf 1.71.0-6+b2 [345 kB] Get:143 http://debian.oregonstate.edu/debian unstable/main armhf libboost-program-options1.71-dev armhf 1.71.0-6+b2 [406 kB] Get:144 http://debian.oregonstate.edu/debian unstable/main armhf libboost-program-options-dev armhf 1.71.0.3 [4132 B] Get:145 http://debian.oregonstate.edu/debian unstable/main armhf libboost-system-dev armhf 1.71.0.3 [4264 B] Get:146 http://debian.oregonstate.edu/debian unstable/main armhf libboost-thread1.71.0 armhf 1.71.0-6+b2 [265 kB] Get:147 http://debian.oregonstate.edu/debian unstable/main armhf libboost-thread1.71-dev armhf 1.71.0-6+b2 [282 kB] Get:148 http://debian.oregonstate.edu/debian unstable/main armhf libboost-thread-dev armhf 1.71.0.3 [4156 B] Get:149 http://debian.oregonstate.edu/debian unstable/main amd64 libboost1.71-tools-dev amd64 1.71.0-6+b2 [1436 kB] Get:150 http://debian.oregonstate.edu/debian unstable/main amd64 libboost-tools-dev amd64 1.71.0.3 [4300 B] Get:151 http://debian.oregonstate.edu/debian unstable/main armhf libtcmalloc-minimal4 armhf 2.7-1+b1 [192 kB] Get:152 http://debian.oregonstate.edu/debian unstable/main armhf libgoogle-perftools4 armhf 2.7-1+b1 [281 kB] Get:153 http://debian.oregonstate.edu/debian unstable/main armhf libgoogle-perftools-dev armhf 2.7-1+b1 [558 kB] Get:154 http://debian.oregonstate.edu/debian unstable/main armhf zlib1g-dev armhf 1:1.2.11.dfsg-2 [185 kB] Get:155 http://debian.oregonstate.edu/debian unstable/main armhf libprotobuf22 armhf 3.11.4-5 [781 kB] Get:156 http://debian.oregonstate.edu/debian unstable/main armhf libprotobuf-lite22 armhf 3.11.4-5 [212 kB] Get:157 http://debian.oregonstate.edu/debian unstable/main armhf libprotobuf-dev armhf 3.11.4-5 [1199 kB] Get:158 http://debian.oregonstate.edu/debian unstable/main amd64 libprotobuf22 amd64 3.11.4-5 [898 kB] Get:159 http://debian.oregonstate.edu/debian unstable/main amd64 libprotoc22 amd64 3.11.4-5 [806 kB] Get:160 http://debian.oregonstate.edu/debian unstable/main amd64 protobuf-compiler amd64 3.11.4-5 [72.6 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 117 MB in 2s (56.1 MB/s) Selecting previously unselected package bsdextrautils. (Reading database ... 10480 files and directories currently installed.) Preparing to unpack .../000-bsdextrautils_2.35.2-6_amd64.deb ... Unpacking bsdextrautils (2.35.2-6) ... Selecting previously unselected package libuchardet0:amd64. Preparing to unpack .../001-libuchardet0_0.0.7-1_amd64.deb ... Unpacking libuchardet0:amd64 (0.0.7-1) ... Selecting previously unselected package groff-base. Preparing to unpack .../002-groff-base_1.22.4-5_amd64.deb ... Unpacking groff-base (1.22.4-5) ... Selecting previously unselected package libpipeline1:amd64. Preparing to unpack .../003-libpipeline1_1.5.2-2_amd64.deb ... Unpacking libpipeline1:amd64 (1.5.2-2) ... Selecting previously unselected package man-db. Preparing to unpack .../004-man-db_2.9.3-1_amd64.deb ... Unpacking man-db (2.9.3-1) ... Selecting previously unselected package perl-modules-5.30. Preparing to unpack .../005-perl-modules-5.30_5.30.3-4_all.deb ... Unpacking perl-modules-5.30 (5.30.3-4) ... 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Preparing to unpack .../018-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 .../019-ucf_3.0043_all.deb ... Moving old data out of the way Unpacking ucf (3.0043) ... Selecting previously unselected package libsigsegv2:amd64. Preparing to unpack .../020-libsigsegv2_2.12-2_amd64.deb ... Unpacking libsigsegv2:amd64 (2.12-2) ... Selecting previously unselected package m4. Preparing to unpack .../021-m4_1.4.18-4_amd64.deb ... Unpacking m4 (1.4.18-4) ... Selecting previously unselected package autoconf. Preparing to unpack .../022-autoconf_2.69-11.1_all.deb ... Unpacking autoconf (2.69-11.1) ... Selecting previously unselected package autotools-dev. Preparing to unpack .../023-autotools-dev_20180224.1_all.deb ... Unpacking autotools-dev (20180224.1) ... Selecting previously unselected package automake. Preparing to unpack .../024-automake_1%3a1.16.2-1_all.deb ... Unpacking automake (1:1.16.2-1) ... Selecting previously unselected package autopoint. Preparing to unpack .../025-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 .../026-binutils-arm-linux-gnueabihf_2.34-8_amd64.deb ... Unpacking binutils-arm-linux-gnueabihf (2.34-8) ... Selecting previously unselected package libcrypt-dev:amd64. Preparing to unpack .../027-libcrypt-dev_1%3a4.4.16-1_amd64.deb ... Unpacking libcrypt-dev:amd64 (1:4.4.16-1) ... Selecting previously unselected package libc6-dev:amd64. Preparing to unpack .../028-libc6-dev_2.30-8_amd64.deb ... Unpacking libc6-dev:amd64 (2.30-8) ... Selecting previously unselected package libstdc++-9-dev:amd64. Preparing to unpack .../029-libstdc++-9-dev_9.3.0-14_amd64.deb ... Unpacking libstdc++-9-dev:amd64 (9.3.0-14) ... Selecting previously unselected package g++-9. Preparing to unpack .../030-g++-9_9.3.0-14_amd64.deb ... Unpacking g++-9 (9.3.0-14) ... Selecting previously unselected package g++. Preparing to unpack .../031-g++_4%3a9.2.1-3.1_amd64.deb ... Unpacking g++ (4:9.2.1-3.1) ... Selecting previously unselected package libdpkg-perl. Preparing to unpack .../032-libdpkg-perl_1.20.3_all.deb ... Unpacking libdpkg-perl (1.20.3) ... Selecting previously unselected package dpkg-dev. Preparing to unpack .../033-dpkg-dev_1.20.3_all.deb ... Unpacking dpkg-dev (1.20.3) ... Selecting previously unselected package build-essential. Preparing to unpack .../034-build-essential_12.8_amd64.deb ... Unpacking build-essential (12.8) ... Selecting previously unselected package cmake-data. Preparing to unpack .../035-cmake-data_3.16.3-3_all.deb ... Unpacking cmake-data (3.16.3-3) ... Selecting previously unselected package libicu67:amd64. Preparing to unpack .../036-libicu67_67.1-2_amd64.deb ... Unpacking libicu67:amd64 (67.1-2) ... Selecting previously unselected package libxml2:amd64. Preparing to unpack .../037-libxml2_2.9.10+dfsg-5+b1_amd64.deb ... Unpacking libxml2:amd64 (2.9.10+dfsg-5+b1) ... Selecting previously unselected package libarchive13:amd64. Preparing to unpack .../038-libarchive13_3.4.3-1_amd64.deb ... Unpacking libarchive13:amd64 (3.4.3-1) ... Selecting previously unselected package libbrotli1:amd64. Preparing to unpack .../039-libbrotli1_1.0.7-6.1_amd64.deb ... Unpacking libbrotli1:amd64 (1.0.7-6.1) ... Selecting previously unselected package libkrb5support0:amd64. Preparing to unpack .../040-libkrb5support0_1.17-10_amd64.deb ... Unpacking libkrb5support0:amd64 (1.17-10) ... Selecting previously unselected package libk5crypto3:amd64. Preparing to unpack .../041-libk5crypto3_1.17-10_amd64.deb ... Unpacking libk5crypto3:amd64 (1.17-10) ... Selecting previously unselected package libkeyutils1:amd64. Preparing to unpack .../042-libkeyutils1_1.6.1-2_amd64.deb ... Unpacking libkeyutils1:amd64 (1.6.1-2) ... 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Unpacking sbuild-build-depends-main-dummy:armhf (0.invalid.0) ... Setting up libconfig-inifiles-perl (3.000003-1) ... Setting up libexpat1:amd64 (2.2.9-1) ... Setting up libboost1.71-tools-dev (1.71.0-6+b2) ... Setting up libpipeline1:amd64 (1.5.2-2) ... Setting up libkeyutils1:amd64 (1.6.1-2) ... Setting up libpsl5:amd64 (0.21.0-1.1) ... Setting up libc6-armhf-cross (2.30-2cross1) ... Setting up perl-modules-5.30 (5.30.3-4) ... Setting up bsdextrautils (2.35.2-6) ... Setting up libicu67:amd64 (67.1-2) ... Setting up libmagic-mgc (1:5.38-5) ... Setting up libglib2.0-0:amd64 (2.64.3-2) ... No schema files found: doing nothing. Setting up libbrotli1:amd64 (1.0.7-6.1) ... Setting up libnghttp2-14:amd64 (1.41.0-2) ... Setting up libmagic1:amd64 (1:5.38-5) ... Setting up linux-libc-dev:armhf (5.7.6-1) ... Setting up gettext-base (0.19.8.1-10) ... Setting up libboost-tools-dev (1.71.0.3) ... Setting up file (1:5.38-5) ... Setting up libldap-common (2.4.50+dfsg-1) ... Setting up libprotobuf22:amd64 (3.11.4-5) ... Setting up libkrb5support0:amd64 (1.17-10) ... Setting up gcc-9-arm-linux-gnueabihf-base:amd64 (9.3.0-13cross1) ... Setting up libsasl2-modules-db:amd64 (2.1.27+dfsg-2) ... Setting up gcc-10-base:armhf (10.1.0-4) ... Setting up autotools-dev (20180224.1) ... Setting up cross-config (2.6.15-3.1) ... Setting up libuv1:amd64 (1.38.0-3) ... Setting up librtmp1:amd64 (2.4+20151223.gitfa8646d.1-2+b1) ... Setting up libboost-atomic1.71.0:armhf (1.71.0-6+b2) ... Setting up libncurses6:amd64 (6.2-1) ... Setting up libsigsegv2:amd64 (2.12-2) ... Setting up linux-libc-dev-armhf-cross (5.4.19-1cross1) ... Setting up autopoint (0.19.8.1-10) ... Setting up libprotoc22:amd64 (3.11.4-5) ... Setting up gcc-9-cross-base (9.3.0-13cross1) ... Setting up libk5crypto3:amd64 (1.17-10) ... Setting up gcc-10-cross-base (10.1.0-3cross1) ... 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 (1:4.4.16-1) ... Setting up libuchardet0:amd64 (0.0.7-1) ... Setting up libperl5.30:amd64 (5.30.3-4) ... Setting up libc6-dev:amd64 (2.30-8) ... Setting up libssh2-1:amd64 (1.8.0-2.1) ... Setting up cmake-data (3.16.3-3) ... Setting up libboost-system1.71.0:armhf (1.71.0-6+b2) ... Setting up libkrb5-3:amd64 (1.17-10) ... Setting up binutils-arm-linux-gnueabihf (2.34-8) ... Setting up libelf1:amd64 (0.176-1.1) ... Setting up libxml2:amd64 (2.9.10+dfsg-5+b1) ... Setting up liblocale-gettext-perl (1.07-4) ... Setting up libprocps8:amd64 (2:3.3.16-5) ... Setting up libjsoncpp1:amd64 (1.7.4-3.1) ... Setting up gcc-9-base:armhf (9.3.0-14) ... Setting up libgomp1-armhf-cross (10.1.0-3cross1) ... Setting up libstdc++-9-dev:amd64 (9.3.0-14) ... Setting up protobuf-compiler (3.11.4-5) ... Setting up libtool (2.4.6-14) ... Setting up cpp-9-arm-linux-gnueabihf (9.3.0-13cross1) ... Setting up libarchive13:amd64 (3.4.3-1) ... Setting up libgcc-s1-armhf-cross (10.1.0-3cross1) ... Setting up libc6-dev-armhf-cross (2.30-2cross1) ... Setting up libldap-2.4-2:amd64 (2.4.50+dfsg-1) ... Setting up m4 (1.4.18-4) ... Setting up libatomic1-armhf-cross (10.1.0-3cross1) ... Setting up libasan5-armhf-cross (9.3.0-13cross1) ... Setting up perl (5.30.3-4) ... Setting up libstdc++6-armhf-cross (10.1.0-3cross1) ... Setting up libgssapi-krb5-2:amd64 (1.17-10) ... Setting up libcroco3:amd64 (0.6.13-1) ... Setting up libubsan1-armhf-cross (10.1.0-3cross1) ... Setting up ucf (3.0043) ... Setting up g++-9 (9.3.0-14) ... Setting up libdpkg-perl (1.20.3) ... Setting up autoconf (2.69-11.1) ... 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 (1.22.4-5) ... Setting up procps (2:3.3.16-5) ... update-alternatives: using /usr/bin/w.procps to provide /usr/bin/w (w) in auto mode Setting up libgcc-9-dev-armhf-cross (9.3.0-13cross1) ... Setting up libcurl4:amd64 (7.68.0-1) ... Setting up libsub-override-perl (0.09-2) ... Setting up cpp-arm-linux-gnueabihf (4:9.2.1-3.1) ... Setting up automake (1:1.16.2-1) ... update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode Setting up libfile-which-perl (1.23-1) ... Setting up gettext (0.19.8.1-10) ... Setting up libarchive-zip-perl (1.68-1) ... Setting up libdebhelper-perl (13.1) ... Setting up libxml-namespacesupport-perl (1.12-1) ... Setting up man-db (2.9.3-1) ... Not building database; man-db/auto-update is not 'true'. Setting up libyaml-perl (1.30-1) ... Setting up dpkg-dev (1.20.3) ... Setting up intltool-debian (0.35.0+20060710.5) ... Setting up libxml-sax-base-perl (1.09-1) ... Setting up libio-string-perl (1.08-3) ... Setting up gcc-9-arm-linux-gnueabihf (9.3.0-13cross1) ... Setting up libstdc++-9-dev-armhf-cross (9.3.0-13cross1) ... Setting up cmake (3.16.3-3) ... Setting up build-essential (12.8) ... Setting up libfile-homedir-perl (1.004-1) ... Setting up gcc-arm-linux-gnueabihf (4:9.2.1-3.1) ... Setting up libfile-stripnondeterminism-perl (1.8.1-1) ... Setting up po-debconf (1.0.21) ... 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 g++-9-arm-linux-gnueabihf (9.3.0-13cross1) ... 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 dh-strip-nondeterminism (1.8.1-1) ... Setting up g++-arm-linux-gnueabihf (4:9.2.1-3.1) ... Setting up libxml-simple-perl (2.25-1) ... Setting up libconfig-auto-perl (0.44-1) ... Setting up libdebian-dpkgcross-perl (2.6.15-3.1) ... Setting up dpkg-cross (2.6.15-3.1) ... Setting up crossbuild-essential-armhf (12.8) ... Setting up libcrypt1:armhf (1:4.4.16-1) ... Setting up libgcc-s1:armhf (10.1.0-4) ... Setting up dh-autoreconf (19) ... Setting up libc6:armhf (2.30-8) ... Setting up libcrypt-dev:armhf (1:4.4.16-1) ... Setting up libc6-dev:armhf (2.30-8) ... Setting up libstdc++6:armhf (10.1.0-4) ... Setting up libboost-program-options1.71.0:armhf (1.71.0-6+b2) ... Setting up libboost-chrono1.71.0:armhf (1.71.0-6+b2) ... Setting up libtcmalloc-minimal4:armhf (2.7-1+b1) ... Setting up debhelper (13.1) ... Setting up zlib1g:armhf (1:1.2.11.dfsg-2) ... Setting up libgomp1:armhf (10.1.0-4) ... Setting up libboost-filesystem1.71.0:armhf (1.71.0-6+b2) ... Setting up libprotobuf22:armhf (3.11.4-5) ... Setting up libboost-date-time1.71.0:armhf (1.71.0-6+b2) ... Setting up libprotobuf-lite22:armhf (3.11.4-5) ... Setting up libasan5:armhf (9.3.0-14) ... Setting up libbamtools2.5.1:armhf (2.5.1+dfsg-7) ... Setting up libatomic1:armhf (10.1.0-4) ... Setting up libubsan1:armhf (10.1.0-4) ... Setting up zlib1g-dev:armhf (1:1.2.11.dfsg-2) ... Setting up libboost-thread1.71.0:armhf (1.71.0-6+b2) ... Setting up libboost-serialization1.71.0:armhf (1.71.0-6+b2) ... Setting up libgoogle-perftools4:armhf (2.7-1+b1) ... Setting up libgoogle-perftools-dev:armhf (2.7-1+b1) ... Setting up libprotobuf-dev:armhf (3.11.4-5) ... Setting up libgcc-9-dev:armhf (9.3.0-14) ... Setting up libbamtools-dev:armhf (2.5.1+dfsg-7) ... Setting up libstdc++-9-dev:armhf (9.3.0-14) ... Setting up libboost1.71-dev:armhf (1.71.0-6+b2) ... Setting up libboost-system1.71-dev:armhf (1.71.0-6+b2) ... Setting up libboost-filesystem1.71-dev:armhf (1.71.0-6+b2) ... Setting up libboost-serialization1.71-dev:armhf (1.71.0-6+b2) ... Setting up libboost-date-time1.71-dev:armhf (1.71.0-6+b2) ... Setting up libboost-atomic1.71-dev:armhf (1.71.0-6+b2) ... Setting up libboost-filesystem-dev:armhf (1.71.0.3) ... Setting up libboost-program-options1.71-dev:armhf (1.71.0-6+b2) ... Setting up libboost-chrono1.71-dev:armhf (1.71.0-6+b2) ... Setting up libboost-thread1.71-dev:armhf (1.71.0-6+b2) ... Setting up libboost-system-dev:armhf (1.71.0.3) ... Setting up libboost-program-options-dev:armhf (1.71.0.3) ... Setting up libboost-date-time-dev:armhf (1.71.0.3) ... Setting up libboost-thread-dev:armhf (1.71.0.3) ... Setting up sbuild-build-depends-main-dummy:armhf (0.invalid.0) ... Processing triggers for libc-bin (2.30-8) ... +------------------------------------------------------------------------------+ | Check architectures | +------------------------------------------------------------------------------+ Arch check ok (armhf included in any all) +------------------------------------------------------------------------------+ | Build environment | +------------------------------------------------------------------------------+ Kernel: Linux 4.19.0-9-amd64 #1 SMP Debian 4.19.118-2 (2020-04-29) amd64 (x86_64) Toolchain package versions: binutils_2.34-8 dpkg-dev_1.20.3 g++-9_9.3.0-14 gcc-9_9.3.0-14 libc6-dev_2.30-8 libstdc++-9-dev_9.3.0-14 libstdc++-9-dev-armhf-cross_9.3.0-13cross1 libstdc++6_10.1.0-4 libstdc++6-armhf-cross_10.1.0-3cross1 linux-libc-dev_5.7.6-1 Package versions: adduser_3.118 apt_2.1.6 autoconf_2.69-11.1 automake_1:1.16.2-1 autopoint_0.19.8.1-10 autotools-dev_20180224.1 base-files_11 base-passwd_3.5.47 bash_5.0-6 binutils_2.34-8 binutils-arm-linux-gnueabihf_2.34-8 binutils-common_2.34-8 binutils-x86-64-linux-gnu_2.34-8 bsdextrautils_2.35.2-6 bsdutils_1:2.35.2-6 build-essential_12.8 bzip2_1.0.8-3 cmake_3.16.3-3 cmake-data_3.16.3-3 coreutils_8.32-2 cpp_4:9.2.1-3.1 cpp-8_8.4.0-4 cpp-9_9.3.0-14 cpp-9-arm-linux-gnueabihf_9.3.0-13cross1 cpp-arm-linux-gnueabihf_4:9.2.1-3.1 cross-config_2.6.15-3.1 crossbuild-essential-armhf_12.8 dash_0.5.10.2-7 debconf_1.5.74 debhelper_13.1 debian-archive-keyring_2019.1 debianutils_4.11 dh-autoreconf_19 dh-strip-nondeterminism_1.8.1-1 diffutils_1:3.7-3 dmsetup_2:1.02.167-1+b1 dpkg_1.20.3 dpkg-cross_2.6.15-3.1 dpkg-dev_1.20.3 dwz_0.13-5 e2fsprogs_1.45.6-1 fakeroot_1.24-1 fdisk_2.35.2-6 file_1:5.38-5 findutils_4.7.0-1 g++_4:9.2.1-3.1 g++-9_9.3.0-14 g++-9-arm-linux-gnueabihf_9.3.0-13cross1 g++-arm-linux-gnueabihf_4:9.2.1-3.1 gcc_4:9.2.1-3.1 gcc-10-base_10.1.0-4 gcc-10-cross-base_10.1.0-3cross1 gcc-8-base_8.4.0-4 gcc-9_9.3.0-14 gcc-9-arm-linux-gnueabihf_9.3.0-13cross1 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libcurl4_7.68.0-1 libdb5.3_5.3.28+dfsg1-0.6 libdebconfclient0_0.252 libdebhelper-perl_13.1 libdebian-dpkgcross-perl_2.6.15-3.1 libdevmapper1.02.1_2:1.02.167-1+b1 libdpkg-perl_1.20.3 libelf1_0.176-1.1 libexpat1_2.2.9-1 libext2fs2_1.45.6-1 libfakeroot_1.24-1 libfdisk1_2.35.2-6 libffi6_3.2.1-9 libffi7_3.3-4 libfile-homedir-perl_1.004-1 libfile-stripnondeterminism-perl_1.8.1-1 libfile-which-perl_1.23-1 libgcc-9-dev_9.3.0-14 libgcc-9-dev-armhf-cross_9.3.0-13cross1 libgcc-s1_10.1.0-4 libgcc-s1-armhf-cross_10.1.0-3cross1 libgcrypt20_1.8.5-5 libgdbm-compat4_1.18.1-5 libgdbm6_1.18.1-5 libglib2.0-0_2.64.3-2 libgmp10_2:6.2.0+dfsg-6 libgnutls30_3.6.14-2 libgomp1_10.1.0-4 libgomp1-armhf-cross_10.1.0-3cross1 libgoogle-perftools-dev_2.7-1+b1 libgoogle-perftools4_2.7-1+b1 libgpg-error0_1.38-2 libgssapi-krb5-2_1.17-10 libhogweed4_3.5.1+really3.4.1-1 libhogweed5_3.5.1+really3.5.1-2 libicu67_67.1-2 libidn2-0_2.3.0-1 libio-string-perl_1.08-3 libisl19_0.20-2 libisl22_0.22.1-1 libitm1_10.1.0-4 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libseccomp2_2.4.3-1+b1 libselinux1_3.0-1+b3 libsemanage-common_3.0-1 libsemanage1_3.0-1+b3 libsepol1_3.0-1 libsigsegv2_2.12-2 libsmartcols1_2.35.2-6 libss2_1.45.6-1 libssh2-1_1.8.0-2.1 libssl1.1_1.1.1g-1 libstdc++-9-dev_9.3.0-14 libstdc++-9-dev-armhf-cross_9.3.0-13cross1 libstdc++6_10.1.0-4 libstdc++6-armhf-cross_10.1.0-3cross1 libsub-override-perl_0.09-2 libsystemd0_245.6-1 libtasn1-6_4.16.0-2 libtcmalloc-minimal4_2.7-1+b1 libtinfo6_6.2-1 libtool_2.4.6-14 libtsan0_10.1.0-4 libubsan1_10.1.0-4 libubsan1-armhf-cross_10.1.0-3cross1 libuchardet0_0.0.7-1 libudev1_245.6-1 libunistring2_0.9.10-4 libuuid1_2.35.2-6 libuv1_1.38.0-3 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-5+b1 libyaml-perl_1.30-1 libzstd1_1.4.5+dfsg-3 linux-libc-dev_5.7.6-1 linux-libc-dev-armhf-cross_5.4.19-1cross1 login_1:4.8.1-1 logsave_1.45.6-1 lsb-base_11.1.0 m4_1.4.18-4 make_4.3-4 man-db_2.9.3-1 mawk_1.3.4.20200120-2 mount_2.35.2-6 ncurses-base_6.2-1 ncurses-bin_6.2-1 passwd_1:4.8.1-1 patch_2.7.6-6 perl_5.30.3-4 perl-base_5.30.3-4 perl-modules-5.28_5.28.1-6 perl-modules-5.30_5.30.3-4 po-debconf_1.0.21 procps_2:3.3.16-5 protobuf-compiler_3.11.4-5 sbuild-build-depends-main-dummy_0.invalid.0 sed_4.7-1 sensible-utils_0.0.12+nmu1 sysvinit-utils_2.96-3 tar_1.30+dfsg-7 tzdata_2020a-1 ucf_3.0043 util-linux_2.35.2-6 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: SHA512 Format: 3.0 (quilt) Source: berkeley-express Binary: berkeley-express, berkeley-express-doc Architecture: any all Version: 1.5.3+dfsg-1 Maintainer: Debian Med Packaging Team Uploaders: Michael R. Crusoe Homepage: http://bio.math.berkeley.edu/eXpress/index.html Standards-Version: 4.4.0 Vcs-Browser: https://salsa.debian.org/med-team/berkeley-express Vcs-Git: https://salsa.debian.org/med-team/berkeley-express.git Testsuite: autopkgtest Testsuite-Triggers: bowtie, gzip, samtools Build-Depends: debhelper-compat (= 12), libboost-thread-dev, libboost-system-dev, libboost-filesystem-dev, libboost-program-options-dev, libboost-date-time-dev, libbamtools-dev, libboost-tools-dev, libgoogle-perftools-dev [amd64 arm64 armel armhf i386 powerpc ppc64el], cmake, libprotobuf-dev, protobuf-compiler Package-List: berkeley-express deb science optional arch=any berkeley-express-doc deb doc optional arch=all Checksums-Sha1: a24eee0a32da390f2f75be7526bf6a9a971bd3a3 365872 berkeley-express_1.5.3+dfsg.orig.tar.xz 2b2a559e26f16507bb59ca6e85f334a768d98bd1 10336 berkeley-express_1.5.3+dfsg-1.debian.tar.xz Checksums-Sha256: f26e2f6e4e04671a64619f014ab2195f42d53fbac8b8b84f46082c5cdc6d845b 365872 berkeley-express_1.5.3+dfsg.orig.tar.xz aaa50dca79e3364536e271d1100d0da4ca430c77cbf974d49a85456ba190ecf4 10336 berkeley-express_1.5.3+dfsg-1.debian.tar.xz Files: cdb0c73b54ec20a662c14e6bfee0e384 365872 berkeley-express_1.5.3+dfsg.orig.tar.xz 7bbc1b8cf8bb8284497d69b2522bee13 10336 berkeley-express_1.5.3+dfsg-1.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQIzBAEBCgAdFiEEck1gkzcRPHEFUNdHPCZ2P2xn5uIFAl3Rcy8ACgkQPCZ2P2xn 5uLiNQ//exdwxy7TRVrTyRp+eHN4zyTm3kOy4/xIqj7wWxQQ7e/x0SDTKXBZavdw yXksbCAaPuBWw17vnzm8bOD+WBDg4ed4IXKQGJh3GcOX98hTVwGqt7bxudwVgLJK WWW52uNHEUimgecqIVQ7P1b8XBgehuh6SGdrnMHkLf+gHMEJieJ01hiEt27+5OTF cDqTtnIFy2HS8O39jWepADAOTdsu4Xo3fDDvyOeyEOYcBg177XREZ9RDHXidTYhO SC/4jUro1I46BWp9WfU7jr09R58EFMxEcX7KpBpKbuHw/jdjFdI6ICYCylUojVjH mUu51yEbWlfm8itJXSHvqr4j3S2EFFytP/8ZeTSrB7McKXE3mWv9FDkF3E/CGBF4 rldqT/PZapWg6HH4XmZFDynTjUajhrfBb6f7QPM+U9g7HKUe+Aj90RSjgbM1Gdrz CVlgDG8lZN6tHlNtiNr/vINf9NaiZ49PKHk46QlbZYFnOOFuMeBPHzqN6vSF7OZd cDrhD/V6rCs98UDd3I26qcwjpcCBTnwZCfK27p9rksSFtyPhYm/dDtbROPE7aM9T osEpf4fGkQhkLnaoPv22zydZn9jJSb0ruDZUYc3Z1RE1hDYJgQyIGwSLBOHniu2A xPxBJouA8qKIYRciZNNtYnxJs0ZfJSq239x8E+suosbio8py/3g= =PSlR -----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 Nov 17 16:19:59 2019 UTC gpgv: using RSA key 724D609337113C710550D7473C26763F6C67E6E2 gpgv: Can't check signature: No public key dpkg-source: warning: failed to verify signature on ./berkeley-express_1.5.3+dfsg-1.dsc dpkg-source: info: extracting berkeley-express in /<> dpkg-source: info: unpacking berkeley-express_1.5.3+dfsg.orig.tar.xz dpkg-source: info: unpacking berkeley-express_1.5.3+dfsg-1.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying spelling-fixes dpkg-source: info: applying fix-bamtools-path dpkg-source: info: applying drop-zlib dpkg-source: info: applying correct-debug-flags.patch dpkg-source: info: applying privacy-breach.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-acac6eb2-8e3d-4f6f-89d0-e79e22cabea1 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 berkeley-express dpkg-buildpackage: info: source version 1.5.3+dfsg-1 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Michael R. Crusoe 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 fakeroot debian/rules clean dh clean debian/rules override_dh_clean make[1]: Entering directory '/<>' dh_clean src/config.h make[1]: Leaving directory '/<>' debian/rules build-arch dh build-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 9.3.0 -- The CXX compiler identification is GNU 9.3.0 -- 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 -- Found Boost: /usr/lib/arm-linux-gnueabihf/cmake/Boost-1.71.0/BoostConfig.cmake (found suitable version "1.71.0", minimum required is "1.39") found components: thread system filesystem program_options date_time -- Found GPERFTOOLS_TCMALLOC: /usr/lib/arm-linux-gnueabihf/libtcmalloc.so -- Found Protobuf: /usr/lib/arm-linux-gnueabihf/libprotobuf.so;-lpthread (found version "3.11.4") -- Do not try to find libbamtools.a -- Configuring done -- Generating done CMake Warning: Manually-specified variables were not used by the project: CMAKE_EXPORT_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 src/CMakeFiles/express.dir/build.make src/CMakeFiles/express.dir/depend make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 5%] Running cpp protocol buffer compiler on /<>/src/targets.proto cd /<>/obj-arm-linux-gnueabihf/src && /usr/bin/protoc --cpp_out /<>/obj-arm-linux-gnueabihf/src -I /<>/src /<>/src/targets.proto [libprotobuf WARNING google/protobuf/compiler/parser.cc:646] No syntax specified for the proto file: targets.proto. Please use 'syntax = "proto2";' or 'syntax = "proto3";' to specify a syntax version. (Defaulted to proto2 syntax.) [ 11%] Running cpp protocol buffer compiler on /<>/src/alignments.proto cd /<>/obj-arm-linux-gnueabihf/src && /usr/bin/protoc --cpp_out /<>/obj-arm-linux-gnueabihf/src -I /<>/src /<>/src/alignments.proto [libprotobuf WARNING google/protobuf/compiler/parser.cc:646] No syntax specified for the proto file: alignments.proto. Please use 'syntax = "proto2";' or 'syntax = "proto3";' to specify a syntax version. (Defaulted to proto2 syntax.) cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/src /<>/obj-arm-linux-gnueabihf/src/CMakeFiles/express.dir/DependInfo.cmake --color= Scanning dependencies of target express make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f src/CMakeFiles/express.dir/build.make src/CMakeFiles/express.dir/build make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 16%] Building CXX object src/CMakeFiles/express.dir/biascorrection.cpp.o cd /<>/obj-arm-linux-gnueabihf/src && /usr/bin/arm-linux-gnueabihf-g++ -DBOOST_ALL_NO_LIB -DBOOST_ATOMIC_DYN_LINK -DBOOST_DATE_TIME_DYN_LINK -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_SYSTEM_DYN_LINK -DBOOST_THREAD_DYN_LINK -I/usr/include/bamtools -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D__FILE__=\"\" -std=gnu++11 -o CMakeFiles/express.dir/biascorrection.cpp.o -c /<>/src/biascorrection.cpp : warning: "__FILE__" redefined [-Wbuiltin-macro-redefined] [ 22%] Building CXX object src/CMakeFiles/express.dir/bundles.cpp.o cd /<>/obj-arm-linux-gnueabihf/src && /usr/bin/arm-linux-gnueabihf-g++ -DBOOST_ALL_NO_LIB -DBOOST_ATOMIC_DYN_LINK -DBOOST_DATE_TIME_DYN_LINK -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_SYSTEM_DYN_LINK -DBOOST_THREAD_DYN_LINK -I/usr/include/bamtools -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D__FILE__=\"\" -std=gnu++11 -o CMakeFiles/express.dir/bundles.cpp.o -c /<>/src/bundles.cpp : warning: "__FILE__" redefined [-Wbuiltin-macro-redefined] [ 27%] Building CXX object src/CMakeFiles/express.dir/directiondetector.cpp.o cd /<>/obj-arm-linux-gnueabihf/src && /usr/bin/arm-linux-gnueabihf-g++ -DBOOST_ALL_NO_LIB -DBOOST_ATOMIC_DYN_LINK -DBOOST_DATE_TIME_DYN_LINK -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_SYSTEM_DYN_LINK -DBOOST_THREAD_DYN_LINK -I/usr/include/bamtools -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D__FILE__=\"\" -std=gnu++11 -o CMakeFiles/express.dir/directiondetector.cpp.o -c /<>/src/directiondetector.cpp : warning: "__FILE__" redefined [-Wbuiltin-macro-redefined] [ 33%] Building CXX object src/CMakeFiles/express.dir/fragments.cpp.o cd /<>/obj-arm-linux-gnueabihf/src && /usr/bin/arm-linux-gnueabihf-g++ -DBOOST_ALL_NO_LIB -DBOOST_ATOMIC_DYN_LINK -DBOOST_DATE_TIME_DYN_LINK -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_SYSTEM_DYN_LINK -DBOOST_THREAD_DYN_LINK -I/usr/include/bamtools -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D__FILE__=\"\" -std=gnu++11 -o CMakeFiles/express.dir/fragments.cpp.o -c /<>/src/fragments.cpp : warning: "__FILE__" redefined [-Wbuiltin-macro-redefined] [ 38%] Building CXX object src/CMakeFiles/express.dir/lengthdistribution.cpp.o cd /<>/obj-arm-linux-gnueabihf/src && /usr/bin/arm-linux-gnueabihf-g++ -DBOOST_ALL_NO_LIB -DBOOST_ATOMIC_DYN_LINK -DBOOST_DATE_TIME_DYN_LINK -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_SYSTEM_DYN_LINK -DBOOST_THREAD_DYN_LINK -I/usr/include/bamtools -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D__FILE__=\"\" -std=gnu++11 -o CMakeFiles/express.dir/lengthdistribution.cpp.o -c /<>/src/lengthdistribution.cpp : warning: "__FILE__" redefined [-Wbuiltin-macro-redefined] [ 44%] Building CXX object src/CMakeFiles/express.dir/main.cpp.o cd /<>/obj-arm-linux-gnueabihf/src && /usr/bin/arm-linux-gnueabihf-g++ -DBOOST_ALL_NO_LIB -DBOOST_ATOMIC_DYN_LINK -DBOOST_DATE_TIME_DYN_LINK -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_SYSTEM_DYN_LINK -DBOOST_THREAD_DYN_LINK -I/usr/include/bamtools -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D__FILE__=\"\" -std=gnu++11 -o CMakeFiles/express.dir/main.cpp.o -c /<>/src/main.cpp : warning: "__FILE__" redefined [-Wbuiltin-macro-redefined] [ 50%] Building CXX object src/CMakeFiles/express.dir/mapparser.cpp.o cd /<>/obj-arm-linux-gnueabihf/src && /usr/bin/arm-linux-gnueabihf-g++ -DBOOST_ALL_NO_LIB -DBOOST_ATOMIC_DYN_LINK -DBOOST_DATE_TIME_DYN_LINK -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_SYSTEM_DYN_LINK -DBOOST_THREAD_DYN_LINK -I/usr/include/bamtools -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D__FILE__=\"\" -std=gnu++11 -o CMakeFiles/express.dir/mapparser.cpp.o -c /<>/src/mapparser.cpp : warning: "__FILE__" redefined [-Wbuiltin-macro-redefined] [ 55%] Building CXX object src/CMakeFiles/express.dir/markovmodel.cpp.o cd /<>/obj-arm-linux-gnueabihf/src && /usr/bin/arm-linux-gnueabihf-g++ -DBOOST_ALL_NO_LIB -DBOOST_ATOMIC_DYN_LINK -DBOOST_DATE_TIME_DYN_LINK -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_SYSTEM_DYN_LINK -DBOOST_THREAD_DYN_LINK -I/usr/include/bamtools -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D__FILE__=\"\" -std=gnu++11 -o CMakeFiles/express.dir/markovmodel.cpp.o -c /<>/src/markovmodel.cpp : warning: "__FILE__" redefined [-Wbuiltin-macro-redefined] [ 61%] Building CXX object src/CMakeFiles/express.dir/mismatchmodel.cpp.o cd /<>/obj-arm-linux-gnueabihf/src && /usr/bin/arm-linux-gnueabihf-g++ -DBOOST_ALL_NO_LIB -DBOOST_ATOMIC_DYN_LINK -DBOOST_DATE_TIME_DYN_LINK -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_SYSTEM_DYN_LINK -DBOOST_THREAD_DYN_LINK -I/usr/include/bamtools -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D__FILE__=\"\" -std=gnu++11 -o CMakeFiles/express.dir/mismatchmodel.cpp.o -c /<>/src/mismatchmodel.cpp : warning: "__FILE__" redefined [-Wbuiltin-macro-redefined] [ 66%] Building CXX object src/CMakeFiles/express.dir/robertsfilter.cpp.o cd /<>/obj-arm-linux-gnueabihf/src && /usr/bin/arm-linux-gnueabihf-g++ -DBOOST_ALL_NO_LIB -DBOOST_ATOMIC_DYN_LINK -DBOOST_DATE_TIME_DYN_LINK -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_SYSTEM_DYN_LINK -DBOOST_THREAD_DYN_LINK -I/usr/include/bamtools -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D__FILE__=\"\" -std=gnu++11 -o CMakeFiles/express.dir/robertsfilter.cpp.o -c /<>/src/robertsfilter.cpp : warning: "__FILE__" redefined [-Wbuiltin-macro-redefined] [ 72%] Building CXX object src/CMakeFiles/express.dir/sequence.cpp.o cd /<>/obj-arm-linux-gnueabihf/src && /usr/bin/arm-linux-gnueabihf-g++ -DBOOST_ALL_NO_LIB -DBOOST_ATOMIC_DYN_LINK -DBOOST_DATE_TIME_DYN_LINK -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_SYSTEM_DYN_LINK -DBOOST_THREAD_DYN_LINK -I/usr/include/bamtools -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D__FILE__=\"\" -std=gnu++11 -o CMakeFiles/express.dir/sequence.cpp.o -c /<>/src/sequence.cpp : warning: "__FILE__" redefined [-Wbuiltin-macro-redefined] [ 77%] Building CXX object src/CMakeFiles/express.dir/targets.cpp.o cd /<>/obj-arm-linux-gnueabihf/src && /usr/bin/arm-linux-gnueabihf-g++ -DBOOST_ALL_NO_LIB -DBOOST_ATOMIC_DYN_LINK -DBOOST_DATE_TIME_DYN_LINK -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_SYSTEM_DYN_LINK -DBOOST_THREAD_DYN_LINK -I/usr/include/bamtools -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D__FILE__=\"\" -std=gnu++11 -o CMakeFiles/express.dir/targets.cpp.o -c /<>/src/targets.cpp : warning: "__FILE__" redefined [-Wbuiltin-macro-redefined] [ 83%] Building CXX object src/CMakeFiles/express.dir/threadsafety.cpp.o cd /<>/obj-arm-linux-gnueabihf/src && /usr/bin/arm-linux-gnueabihf-g++ -DBOOST_ALL_NO_LIB -DBOOST_ATOMIC_DYN_LINK -DBOOST_DATE_TIME_DYN_LINK -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_SYSTEM_DYN_LINK -DBOOST_THREAD_DYN_LINK -I/usr/include/bamtools -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D__FILE__=\"\" -std=gnu++11 -o CMakeFiles/express.dir/threadsafety.cpp.o -c /<>/src/threadsafety.cpp : warning: "__FILE__" redefined [-Wbuiltin-macro-redefined] [ 88%] Building CXX object src/CMakeFiles/express.dir/alignments.pb.cc.o cd /<>/obj-arm-linux-gnueabihf/src && /usr/bin/arm-linux-gnueabihf-g++ -DBOOST_ALL_NO_LIB -DBOOST_ATOMIC_DYN_LINK -DBOOST_DATE_TIME_DYN_LINK -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_SYSTEM_DYN_LINK -DBOOST_THREAD_DYN_LINK -I/usr/include/bamtools -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D__FILE__=\"\" -std=gnu++11 -o CMakeFiles/express.dir/alignments.pb.cc.o -c /<>/obj-arm-linux-gnueabihf/src/alignments.pb.cc : warning: "__FILE__" redefined [-Wbuiltin-macro-redefined] [ 94%] Building CXX object src/CMakeFiles/express.dir/targets.pb.cc.o cd /<>/obj-arm-linux-gnueabihf/src && /usr/bin/arm-linux-gnueabihf-g++ -DBOOST_ALL_NO_LIB -DBOOST_ATOMIC_DYN_LINK -DBOOST_DATE_TIME_DYN_LINK -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_SYSTEM_DYN_LINK -DBOOST_THREAD_DYN_LINK -I/usr/include/bamtools -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D__FILE__=\"\" -std=gnu++11 -o CMakeFiles/express.dir/targets.pb.cc.o -c /<>/obj-arm-linux-gnueabihf/src/targets.pb.cc : warning: "__FILE__" redefined [-Wbuiltin-macro-redefined] [100%] Linking CXX executable express cd /<>/obj-arm-linux-gnueabihf/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/express.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 -D__FILE__=\"\" -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/express.dir/biascorrection.cpp.o CMakeFiles/express.dir/bundles.cpp.o CMakeFiles/express.dir/directiondetector.cpp.o CMakeFiles/express.dir/fragments.cpp.o CMakeFiles/express.dir/lengthdistribution.cpp.o CMakeFiles/express.dir/main.cpp.o CMakeFiles/express.dir/mapparser.cpp.o CMakeFiles/express.dir/markovmodel.cpp.o CMakeFiles/express.dir/mismatchmodel.cpp.o CMakeFiles/express.dir/robertsfilter.cpp.o CMakeFiles/express.dir/sequence.cpp.o CMakeFiles/express.dir/targets.cpp.o CMakeFiles/express.dir/threadsafety.cpp.o CMakeFiles/express.dir/alignments.pb.cc.o CMakeFiles/express.dir/targets.pb.cc.o -o express /usr/lib/arm-linux-gnueabihf/libboost_thread.so.1.71.0 /usr/lib/arm-linux-gnueabihf/libboost_system.so.1.71.0 /usr/lib/arm-linux-gnueabihf/libboost_filesystem.so.1.71.0 /usr/lib/arm-linux-gnueabihf/libboost_program_options.so.1.71.0 /usr/lib/arm-linux-gnueabihf/libboost_date_time.so.1.71.0 -lbamtools -lprotobuf -lpthread -lrt /usr/lib/arm-linux-gnueabihf/libboost_atomic.so.1.71.0 -lpthread make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [100%] Built target express 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 fakeroot debian/rules binary-arch dh binary-arch dh_testroot -a dh_prep -a dh_installdirs -a dh_auto_install -a cd obj-arm-linux-gnueabihf && make -j1 install DESTDIR=/<>/berkeley-express-1.5.3\+dfsg/debian/tmp 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 src/CMakeFiles/express.dir/build.make src/CMakeFiles/express.dir/depend make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/src /<>/obj-arm-linux-gnueabihf/src/CMakeFiles/express.dir/DependInfo.cmake --color= make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f src/CMakeFiles/express.dir/build.make src/CMakeFiles/express.dir/build make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[3]: Nothing to be done for 'src/CMakeFiles/express.dir/build'. make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [100%] Built target express 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/tmp/usr/bin/express make[1]: Leaving directory '/<>/obj-arm-linux-gnueabihf' dh_install -a dh_installdocs -a dh_installchangelogs -a dh_installexamples -a dh_installman -a dh_perl -a dh_link -a dh_strip_nondeterminism -a debian/rules override_dh_compress make[1]: Entering directory '/<>' dh_compress --exclude=express-doc.pdf make[1]: Leaving directory '/<>' dh_fixperms -a dh_missing -a dh_dwz -a dh_strip -a dh_makeshlibs -a dh_shlibdeps -a dpkg-shlibdeps: warning: debian/berkeley-express/usr/lib/debian-med/bin/express contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin dh_installdeb -a dh_gencontrol -a dh_md5sums -a dh_builddeb -a dpkg-deb: building package 'berkeley-express' in '../berkeley-express_1.5.3+dfsg-1_armhf.deb'. dpkg-deb: building package 'berkeley-express-dbgsym' in '../berkeley-express-dbgsym_1.5.3+dfsg-1_armhf.deb'. dpkg-genbuildinfo --build=any dpkg-genchanges --build=any >../berkeley-express_1.5.3+dfsg-1_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 2020-07-04T18:43:58Z Finished -------- I: Built successfully +------------------------------------------------------------------------------+ | Changes | +------------------------------------------------------------------------------+ berkeley-express_1.5.3+dfsg-1_armhf.changes: -------------------------------------------- Format: 1.8 Date: Sun, 17 Nov 2019 17:17:25 +0100 Source: berkeley-express Binary: berkeley-express berkeley-express-dbgsym Built-For-Profiles: cross nocheck Architecture: armhf Version: 1.5.3+dfsg-1 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Michael R. Crusoe Description: berkeley-express - Streaming quantification for high-throughput sequencing Changes: berkeley-express (1.5.3+dfsg-1) unstable; urgency=medium . [ Jelmer Vernooij ] * Use secure copyright file specification URI. * Trim trailing whitespace. . [ Michael R. 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2.35.2-6), 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="1574007445" +------------------------------------------------------------------------------+ | Package contents | +------------------------------------------------------------------------------+ berkeley-express-dbgsym_1.5.3+dfsg-1_armhf.deb ---------------------------------------------- new Debian package, version 2.0. size 4303224 bytes: control archive=552 bytes. 417 bytes, 12 lines control 106 bytes, 1 lines md5sums Package: berkeley-express-dbgsym Source: berkeley-express Version: 1.5.3+dfsg-1 Auto-Built-Package: debug-symbols Architecture: armhf Maintainer: Debian Med Packaging Team Installed-Size: 4453 Depends: berkeley-express (= 1.5.3+dfsg-1) Section: debug Priority: optional Description: debug symbols for berkeley-express Build-Ids: 3c608b2b8aae7f7edb0842428b9a91626df00fcc drwxr-xr-x root/root 0 2019-11-17 16:17 ./ drwxr-xr-x root/root 0 2019-11-17 16:17 ./usr/ drwxr-xr-x root/root 0 2019-11-17 16:17 ./usr/lib/ drwxr-xr-x root/root 0 2019-11-17 16:17 ./usr/lib/debug/ drwxr-xr-x root/root 0 2019-11-17 16:17 ./usr/lib/debug/.build-id/ drwxr-xr-x root/root 0 2019-11-17 16:17 ./usr/lib/debug/.build-id/3c/ -rw-r--r-- root/root 4549416 2019-11-17 16:17 ./usr/lib/debug/.build-id/3c/608b2b8aae7f7edb0842428b9a91626df00fcc.debug drwxr-xr-x root/root 0 2019-11-17 16:17 ./usr/share/ drwxr-xr-x root/root 0 2019-11-17 16:17 ./usr/share/doc/ lrwxrwxrwx root/root 0 2019-11-17 16:17 ./usr/share/doc/berkeley-express-dbgsym -> berkeley-express berkeley-express_1.5.3+dfsg-1_armhf.deb --------------------------------------- new Debian package, version 2.0. size 207444 bytes: control archive=1916 bytes. 3098 bytes, 50 lines control 454 bytes, 6 lines md5sums Package: berkeley-express Version: 1.5.3+dfsg-1 Architecture: armhf Maintainer: Debian Med Packaging Team Installed-Size: 605 Depends: libbamtools2.5.1 (>= 2.5.1+dfsg), libboost-date-time1.71.0, libboost-filesystem1.71.0, libboost-program-options1.71.0, libboost-thread1.71.0, libc6 (>= 2.29), libgcc-s1 (>= 3.5), libprotobuf22 (>= 3.11.4), libstdc++6 (>= 9) Recommends: med-config (>= 2.1) Section: science Priority: optional Homepage: http://bio.math.berkeley.edu/eXpress/index.html Description: Streaming quantification for high-throughput sequencing eXpress is a streaming tool for quantifying the abundances of a set of target sequences from sampled subsequences. Example applications include transcript-level RNA-Seq quantification, allele-specific/haplotype expression analysis (from RNA-Seq), transcription factor binding quantification in ChIP-Seq, and analysis of metagenomic data. It is based on an online-EM algorithm that results in space (memory) requirements proportional to the total size of the target sequences and time requirements that are proportional to the number of sampled fragments. Thus, in applications such as RNA-Seq, eXpress can accurately quantify much larger samples than other currently available tools greatly reducing computing infrastructure requirements. eXpress can be used to build lightweight high-throughput sequencing processing pipelines when coupled with a streaming aligner (such as Bowtie), as output can be piped directly into eXpress, effectively eliminating the need to store read alignments in memory or on disk. . In an analysis of the performance of eXpress for RNA-Seq data, it was observed that this efficiency does not come at a cost of accuracy. eXpress is more accurate than other available tools, even when limited to smaller datasets that do not require such efficiency. Moreover, like the Cufflinks program, eXpress can be used to estimate transcript abundances in multi-isoform genes. eXpress is also able to resolve multi-mappings of reads across gene families, and does not require a reference genome so that it can be used in conjunction with de novo assemblers such as Trinity, Oases, or Trans-ABySS. The underlying model is based on previously described probabilistic models developed for RNA-Seq but is applicable to other settings where target sequences are sampled, and includes parameters for fragment length distributions, errors in reads, and sequence-specific fragment bias. . eXpress can be used to resolve ambiguous mappings in other high-throughput sequencing based applications. The only required inputs to eXpress are a set of target sequences and a set of sequenced fragments multiply-aligned to them. While these target sequences will often be gene isoforms, they need not be. Haplotypes can be used as the reference for allele-specific expression analysis, binding regions for ChIP-Seq, or target genomes in metagenomics experiments. eXpress is useful in any analysis where reads multi-map to sequences that differ in abundance. drwxr-xr-x root/root 0 2019-11-17 16:17 ./ drwxr-xr-x root/root 0 2019-11-17 16:17 ./usr/ drwxr-xr-x root/root 0 2019-11-17 16:17 ./usr/bin/ lrwxrwxrwx root/root 0 2019-11-17 16:17 ./usr/bin/berkeley-express -> ../lib/debian-med/bin/express drwxr-xr-x root/root 0 2019-11-17 16:17 ./usr/lib/ drwxr-xr-x root/root 0 2019-11-17 16:17 ./usr/lib/debian-med/ drwxr-xr-x root/root 0 2019-11-17 16:17 ./usr/lib/debian-med/bin/ -rwxr-xr-x root/root 595700 2019-11-17 16:17 ./usr/lib/debian-med/bin/express drwxr-xr-x root/root 0 2019-11-17 16:17 ./usr/share/ drwxr-xr-x root/root 0 2019-11-17 16:17 ./usr/share/doc/ drwxr-xr-x root/root 0 2019-11-17 16:17 ./usr/share/doc/berkeley-express/ -rw-r--r-- root/root 987 2019-11-17 14:57 ./usr/share/doc/berkeley-express/README.Debian -rw-r--r-- root/root 1540 2019-11-14 16:14 ./usr/share/doc/berkeley-express/README.gz -rw-r--r-- root/root 1079 2019-11-17 16:17 ./usr/share/doc/berkeley-express/changelog.Debian.gz -rw-r--r-- root/root 2820 2019-11-17 14:57 ./usr/share/doc/berkeley-express/copyright drwxr-xr-x root/root 0 2019-11-17 16:17 ./usr/share/man/ drwxr-xr-x root/root 0 2019-11-17 16:17 ./usr/share/man/man1/ -rw-r--r-- root/root 1192 2019-11-17 16:17 ./usr/share/man/man1/berkeley-express.1.gz 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 [647 B] Get:5 copy:/<>/apt_archive ./ Packages [699 B] Fetched 2309 B in 0s (88.2 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 libcapture-tiny-perl libclass-method-modifiers-perl libclass-xsaccessor-perl libclone-perl libconfig-tiny-perl libcpanel-json-xs-perl libdata-validate-domain-perl libdevel-callchecker-perl libdevel-size-perl libdynaloader-functions-perl libemail-address-xs-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 libipc-system-simple-perl libjson-maybexs-perl liblinux-epoll-perl liblist-compare-perl liblist-moreutils-perl liblist-utilsby-perl libmetrics-any-perl libmodule-implementation-perl libmodule-runtime-perl libmoo-perl libmoox-aliases-perl libnamespace-clean-perl libnet-domain-tld-perl libnumber-compare-perl libpackage-stash-perl libparams-classify-perl libpath-tiny-perl libreadline8 librole-tiny-perl libsereal-decoder-perl libsereal-encoder-perl libsqlite3-0 libstrictures-perl libstruct-dumb-perl libsub-exporter-progressive-perl libsub-identify-perl libsub-name-perl libsub-quote-perl libtest-metrics-any-perl libtext-glob-perl libtext-levenshtein-perl libtimedate-perl libtry-tiny-perl libtype-tiny-perl libunicode-utf8-perl liburi-perl libvariable-magic-perl libxml-writer-perl libyaml-0-2 libyaml-libyaml-perl lintian patchutils readline-common t1utils Suggested packages: libxml-parser-perl libdata-dump-perl 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 libhttp-message-perl libasync-mergepoint-perl libsereal-perl libtest-fatal-perl libtest-refcount-perl libpackage-stash-xs-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 libcapture-tiny-perl libclass-method-modifiers-perl libclass-xsaccessor-perl libclone-perl libconfig-tiny-perl libcpanel-json-xs-perl libdata-validate-domain-perl libdevel-callchecker-perl libdevel-size-perl libdynaloader-functions-perl libemail-address-xs-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 libipc-system-simple-perl libjson-maybexs-perl liblinux-epoll-perl liblist-compare-perl liblist-moreutils-perl liblist-utilsby-perl libmetrics-any-perl libmodule-implementation-perl libmodule-runtime-perl libmoo-perl libmoox-aliases-perl libnamespace-clean-perl libnet-domain-tld-perl libnumber-compare-perl libpackage-stash-perl libparams-classify-perl libpath-tiny-perl libreadline8 librole-tiny-perl libsereal-decoder-perl libsereal-encoder-perl libsqlite3-0 libstrictures-perl libstruct-dumb-perl libsub-exporter-progressive-perl libsub-identify-perl libsub-name-perl libsub-quote-perl libtest-metrics-any-perl libtext-glob-perl libtext-levenshtein-perl libtimedate-perl libtry-tiny-perl libtype-tiny-perl libunicode-utf8-perl liburi-perl libvariable-magic-perl libxml-writer-perl libyaml-0-2 libyaml-libyaml-perl lintian patchutils readline-common sbuild-build-depends-lintian-dummy:armhf t1utils 0 upgraded, 73 newly installed, 0 to remove and 0 not upgraded. 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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: 80168 Build-Time: 125 Distribution: unstable Foreign Architectures: armhf Host Architecture: armhf Install-Time: 26 Job: berkeley-express_1.5.3+dfsg-1 Lintian: pass Machine Architecture: amd64 Package: berkeley-express Package-Time: 161 Source-Version: 1.5.3+dfsg-1 Space: 80168 Status: successful Version: 1.5.3+dfsg-1 -------------------------------------------------------------------------------- Finished at 2020-07-04T18:43:58Z Build needed 00:02:41, 80168k disk space