sbuild (Debian sbuild) 0.78.1 (09 February 2019) on gcc131.bak.milne.osuosl.org +========================================================================================+ | baitfisher 1.2.7+git20180107.e92dbf2+dfsg-1 (mips64el) Sun, 17 May 2020 17:01:18 +0000 | +========================================================================================+ Package: baitfisher Version: 1.2.7+git20180107.e92dbf2+dfsg-1 Source Version: 1.2.7+git20180107.e92dbf2+dfsg-1 Distribution: unstable Machine Architecture: amd64 Host Architecture: mips64el Build Architecture: amd64 Build Profiles: cross nocheck Build Type: any I: NOTICE: Log filtering will replace 'var/run/schroot/mount/unstable-amd64-sbuild-5c3cf1ad-e055-4820-9373-1dbd1b1ae402' with '<>' I: NOTICE: Log filtering will replace 'build/baitfisher-Oua3wx/resolver-kx9F9E' 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 2020-05-17-0805.01.pdiff [11.8 kB] Get:5 http://debian.oregonstate.edu/debian unstable/main Sources 2020-05-17-1400.37.pdiff [18.2 kB] Get:5 http://debian.oregonstate.edu/debian unstable/main Sources 2020-05-17-1400.37.pdiff [18.2 kB] Get:6 http://debian.oregonstate.edu/debian unstable/main amd64 Packages 2020-05-17-0805.01.pdiff [20.7 kB] Get:7 http://debian.oregonstate.edu/debian unstable/main amd64 Packages 2020-05-17-1400.37.pdiff [16.6 kB] Get:7 http://debian.oregonstate.edu/debian unstable/main amd64 Packages 2020-05-17-1400.37.pdiff [16.6 kB] Get:8 http://debian.oregonstate.edu/debian unstable/main mips64el Packages [7915 kB] Fetched 8185 kB in 2s (5038 kB/s) Reading package lists... Reading package lists... Building dependency tree... Reading state information... Calculating upgrade... The following packages will be upgraded: libperl5.30 perl perl-base perl-modules-5.30 4 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. Need to get 8695 kB of archives. After this operation, 57.3 kB of additional disk space will be used. Get:1 http://debian.oregonstate.edu/debian unstable/main amd64 perl-modules-5.30 all 5.30.2-1 [2806 kB] Get:2 http://debian.oregonstate.edu/debian unstable/main amd64 libperl5.30 amd64 5.30.2-1 [4024 kB] Get:3 http://debian.oregonstate.edu/debian unstable/main amd64 perl amd64 5.30.2-1 [290 kB] Get:4 http://debian.oregonstate.edu/debian unstable/main amd64 perl-base amd64 5.30.2-1 [1574 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 8695 kB in 0s (113 MB/s) (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 12640 files and directories currently installed.) Preparing to unpack .../perl_5.30.2-1_amd64.deb ... Unpacking perl (5.30.2-1) over (5.30.0-10) ... Preparing to unpack .../perl-modules-5.30_5.30.2-1_all.deb ... Unpacking perl-modules-5.30 (5.30.2-1) over (5.30.0-10) ... Preparing to unpack .../libperl5.30_5.30.2-1_amd64.deb ... Unpacking libperl5.30:amd64 (5.30.2-1) over (5.30.0-10) ... Preparing to unpack .../perl-base_5.30.2-1_amd64.deb ... Unpacking perl-base (5.30.2-1) over (5.30.0-10) ... Setting up perl-base (5.30.2-1) ... Setting up perl-modules-5.30 (5.30.2-1) ... Setting up libperl5.30:amd64 (5.30.2-1) ... Setting up perl (5.30.2-1) ... Processing triggers for libc-bin (2.30-8) ... +------------------------------------------------------------------------------+ | Fetch source files | +------------------------------------------------------------------------------+ Check APT --------- Checking available source versions... Download source files with APT ------------------------------ Reading package lists... NOTICE: 'baitfisher' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/med-team/baitfisher.git Please use: git clone https://salsa.debian.org/med-team/baitfisher.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 3461 kB of source archives. Get:1 http://debian.oregonstate.edu/debian unstable/main baitfisher 1.2.7+git20180107.e92dbf2+dfsg-1 (dsc) [2168 B] Get:2 http://debian.oregonstate.edu/debian unstable/main baitfisher 1.2.7+git20180107.e92dbf2+dfsg-1 (tar) [3454 kB] Get:3 http://debian.oregonstate.edu/debian unstable/main baitfisher 1.2.7+git20180107.e92dbf2+dfsg-1 (diff) [4084 B] Fetched 3461 kB in 0s (73.9 MB/s) Download complete and in download only mode I: NOTICE: Log filtering will replace 'build/baitfisher-Oua3wx/baitfisher-1.2.7+git20180107.e92dbf2+dfsg' with '<>' I: NOTICE: Log filtering will replace 'build/baitfisher-Oua3wx' with '<>' +------------------------------------------------------------------------------+ | Install package build dependencies | +------------------------------------------------------------------------------+ Setup apt archive ----------------- Merged Build-Depends: debhelper (>= 11~), help2man, libtclap-dev, libc-dev, libstdc++-dev, build-essential:amd64, fakeroot:amd64, crossbuild-essential-mips64el:amd64, libc-dev:mips64el, libstdc++-dev:mips64el Filtered Build-Depends: debhelper (>= 11~), help2man, libtclap-dev, libc-dev, libstdc++-dev, build-essential:amd64, fakeroot:amd64, crossbuild-essential-mips64el:amd64, libc-dev:mips64el, libstdc++-dev:mips64el 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 [417 B] Get:5 copy:/<>/apt_archive ./ Packages [505 B] Fetched 1879 B in 0s (75.5 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-mips64el-linux-gnuabi64 bsdmainutils build-essential cpp-9-mips64el-linux-gnuabi64 cpp-mips64el-linux-gnuabi64 cross-config crossbuild-essential-mips64el debhelper dh-autoreconf dh-strip-nondeterminism dpkg-cross dwz file g++ g++-9 g++-9-mips64el-linux-gnuabi64 g++-mips64el-linux-gnuabi64 gcc-10-base:mips64el gcc-10-cross-base-mipsen gcc-9-base:mips64el gcc-9-cross-base-mipsen gcc-9-mips64el-linux-gnuabi64 gcc-9-mips64el-linux-gnuabi64-base gcc-mips64el-linux-gnuabi64 gettext gettext-base groff-base help2man intltool-debian libarchive-zip-perl libatomic1:mips64el libatomic1-mips64el-cross libbsd0 libc6:mips64el libc6-dev libc6-dev:mips64el libc6-dev-mips64el-cross libc6-mips64el-cross libconfig-auto-perl libconfig-inifiles-perl libcroco3 libcrypt-dev libcrypt-dev:mips64el libcrypt1:mips64el libdebhelper-perl libdebian-dpkgcross-perl libelf1 libfile-homedir-perl libfile-stripnondeterminism-perl libfile-which-perl libgcc-9-dev:mips64el libgcc-9-dev-mips64el-cross libgcc-s1:mips64el libgcc-s1-mips64el-cross libglib2.0-0 libgomp1:mips64el libgomp1-mips64el-cross libicu63 libio-string-perl liblocale-gettext-perl libmagic-mgc libmagic1 libpipeline1 libsigsegv2 libstdc++-9-dev libstdc++-9-dev:mips64el libstdc++-9-dev-mips64el-cross libstdc++6:mips64el libstdc++6-mips64el-cross libsub-override-perl libtclap-dev:mips64el libtool libuchardet0 libxml-libxml-perl libxml-namespacesupport-perl libxml-sax-base-perl libxml-sax-perl libxml-simple-perl libxml2 libyaml-perl linux-libc-dev:mips64el linux-libc-dev-mips64el-cross m4 man-db po-debconf sensible-utils ucf Suggested packages: autoconf-archive gnu-standards autoconf-doc binutils-doc wamerican | wordlist whois vacation gcc-9-locales cpp-doc dh-make binutils-multiarch g++-multilib g++-9-multilib gcc-9-doc g++-9-multilib-mips64el-linux-gnuabi64 gcc-9-multilib-mips64el-linux-gnuabi64 manpages-dev flex bison gdb-mips64el-linux-gnuabi64 gcc-doc gettext-doc libasprintf-dev libgettextpo-dev groff glibc-doc:mips64el libc-l10n:mips64el locales:mips64el glibc-doc manpages-dev:mips64el libstdc++-9-doc libstdc++-9-doc:mips64el 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:mips64el libarchive-cpio-perl libglib2.0-data shared-mime-info xdg-user-dirs libltdl-dev libwww-perl libxml-sax-expat-perl libyaml-libyaml-perl | libyaml-syck-perl libmail-sendmail-perl The following NEW packages will be installed: autoconf automake autopoint autotools-dev binutils-mips64el-linux-gnuabi64 bsdmainutils build-essential cpp-9-mips64el-linux-gnuabi64 cpp-mips64el-linux-gnuabi64 cross-config crossbuild-essential-mips64el debhelper dh-autoreconf dh-strip-nondeterminism dpkg-cross dwz file g++ g++-9 g++-9-mips64el-linux-gnuabi64 g++-mips64el-linux-gnuabi64 gcc-10-base:mips64el gcc-10-cross-base-mipsen gcc-9-base:mips64el gcc-9-cross-base-mipsen gcc-9-mips64el-linux-gnuabi64 gcc-9-mips64el-linux-gnuabi64-base gcc-mips64el-linux-gnuabi64 gettext gettext-base groff-base help2man intltool-debian libarchive-zip-perl libatomic1:mips64el libatomic1-mips64el-cross libbsd0 libc6:mips64el libc6-dev libc6-dev:mips64el libc6-dev-mips64el-cross libc6-mips64el-cross libconfig-auto-perl libconfig-inifiles-perl libcroco3 libcrypt-dev libcrypt-dev:mips64el libcrypt1:mips64el libdebhelper-perl libdebian-dpkgcross-perl libelf1 libfile-homedir-perl libfile-stripnondeterminism-perl libfile-which-perl libgcc-9-dev:mips64el libgcc-9-dev-mips64el-cross libgcc-s1:mips64el libgcc-s1-mips64el-cross libglib2.0-0 libgomp1:mips64el libgomp1-mips64el-cross libicu63 libio-string-perl liblocale-gettext-perl libmagic-mgc libmagic1 libpipeline1 libsigsegv2 libstdc++-9-dev libstdc++-9-dev:mips64el libstdc++-9-dev-mips64el-cross libstdc++6:mips64el libstdc++6-mips64el-cross libsub-override-perl libtclap-dev:mips64el libtool libuchardet0 libxml-libxml-perl libxml-namespacesupport-perl libxml-sax-base-perl libxml-sax-perl libxml-simple-perl libxml2 libyaml-perl linux-libc-dev:mips64el linux-libc-dev-mips64el-cross m4 man-db po-debconf sbuild-build-depends-main-dummy:mips64el sensible-utils ucf 0 upgraded, 92 newly installed, 0 to remove and 0 not upgraded. Need to get 75.8 MB of archives. After this operation, 317 MB of additional disk space will be used. Get:1 copy:/<>/apt_archive ./ sbuild-build-depends-main-dummy 0.invalid.0 [928 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 1.22.4-5 [920 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 mips64el gcc-10-base mips64el 10.1.0-1 [196 kB] Get:10 http://debian.oregonstate.edu/debian unstable/main mips64el gcc-9-base mips64el 9.3.0-12 [197 kB] Get:11 http://debian.oregonstate.edu/debian unstable/main amd64 sensible-utils all 0.0.12+nmu1 [16.0 kB] Get:12 http://debian.oregonstate.edu/debian unstable/main amd64 libmagic-mgc amd64 1:5.38-5 [262 kB] Get:13 http://debian.oregonstate.edu/debian unstable/main amd64 libmagic1 amd64 1:5.38-5 [120 kB] Get:14 http://debian.oregonstate.edu/debian unstable/main amd64 file amd64 1:5.38-5 [67.9 kB] Get:15 http://debian.oregonstate.edu/debian unstable/main amd64 gettext-base amd64 0.19.8.1-10 [123 kB] Get:16 http://debian.oregonstate.edu/debian unstable/main amd64 ucf all 3.0039 [68.8 kB] Get:17 http://debian.oregonstate.edu/debian unstable/main amd64 libsigsegv2 amd64 2.12-2 [32.8 kB] Get:18 http://debian.oregonstate.edu/debian unstable/main amd64 m4 amd64 1.4.18-4 [203 kB] Get:19 http://debian.oregonstate.edu/debian unstable/main amd64 autoconf all 2.69-11.1 [341 kB] Get:20 http://debian.oregonstate.edu/debian unstable/main amd64 autotools-dev all 20180224.1 [77.0 kB] Get:21 http://debian.oregonstate.edu/debian unstable/main amd64 automake all 1:1.16.2-1 [775 kB] Get:22 http://debian.oregonstate.edu/debian unstable/main amd64 autopoint all 0.19.8.1-10 [435 kB] Get:23 http://debian.oregonstate.edu/debian unstable/main amd64 binutils-mips64el-linux-gnuabi64 amd64 2.34-5cross6 [2310 kB] Get:24 http://debian.oregonstate.edu/debian unstable/main amd64 libcrypt-dev amd64 1:4.4.16-1 [104 kB] Get:25 http://debian.oregonstate.edu/debian unstable/main amd64 libc6-dev amd64 2.30-8 [2631 kB] Get:26 http://debian.oregonstate.edu/debian unstable/main amd64 libstdc++-9-dev amd64 9.3.0-12 [1701 kB] Get:27 http://debian.oregonstate.edu/debian unstable/main amd64 g++-9 amd64 9.3.0-12 [10.7 MB] Get:28 http://debian.oregonstate.edu/debian unstable/main amd64 g++ amd64 4:9.2.1-3.1 [1644 B] Get:29 http://debian.oregonstate.edu/debian unstable/main amd64 build-essential amd64 12.8 [7640 B] Get:30 http://debian.oregonstate.edu/debian unstable/main amd64 gcc-9-mips64el-linux-gnuabi64-base amd64 9.3.0-8cross1 [196 kB] Get:31 http://debian.oregonstate.edu/debian unstable/main amd64 cpp-9-mips64el-linux-gnuabi64 amd64 9.3.0-8cross1 [6468 kB] Get:32 http://debian.oregonstate.edu/debian unstable/main amd64 cpp-mips64el-linux-gnuabi64 amd64 4:9.2.1-4.1 [16.7 kB] Get:33 http://debian.oregonstate.edu/debian unstable/main amd64 cross-config all 2.6.15-3 [39.9 kB] Get:34 http://debian.oregonstate.edu/debian unstable/main amd64 gcc-9-cross-base-mipsen all 9.3.0-8cross1 [192 kB] Get:35 http://debian.oregonstate.edu/debian unstable/main amd64 gcc-10-cross-base-mipsen all 10-20200324-1cross1 [192 kB] Get:36 http://debian.oregonstate.edu/debian unstable/main amd64 libc6-mips64el-cross all 2.30-2cross1 [1327 kB] Get:37 http://debian.oregonstate.edu/debian unstable/main amd64 libgcc-s1-mips64el-cross all 10-20200324-1cross1 [69.8 kB] Get:38 http://debian.oregonstate.edu/debian unstable/main amd64 libgomp1-mips64el-cross all 10-20200324-1cross1 [87.5 kB] Get:39 http://debian.oregonstate.edu/debian unstable/main amd64 libatomic1-mips64el-cross all 10-20200324-1cross1 [7388 B] Get:40 http://debian.oregonstate.edu/debian unstable/main amd64 libgcc-9-dev-mips64el-cross all 9.3.0-8cross1 [248 kB] Get:41 http://debian.oregonstate.edu/debian unstable/main amd64 gcc-9-mips64el-linux-gnuabi64 amd64 9.3.0-8cross1 [6825 kB] Get:42 http://debian.oregonstate.edu/debian unstable/main amd64 gcc-mips64el-linux-gnuabi64 amd64 4:9.2.1-4.1 [1484 B] Get:43 http://debian.oregonstate.edu/debian unstable/main amd64 libstdc++6-mips64el-cross all 10-20200324-1cross1 [393 kB] Get:44 http://debian.oregonstate.edu/debian unstable/main amd64 linux-libc-dev-mips64el-cross all 5.4.19-1cross1 [1166 kB] Get:45 http://debian.oregonstate.edu/debian unstable/main amd64 libc6-dev-mips64el-cross all 2.30-2cross1 [2476 kB] Get:46 http://debian.oregonstate.edu/debian unstable/main amd64 libstdc++-9-dev-mips64el-cross all 9.3.0-8cross1 [1726 kB] Get:47 http://debian.oregonstate.edu/debian unstable/main amd64 g++-9-mips64el-linux-gnuabi64 amd64 9.3.0-8cross1 [7050 kB] Get:48 http://debian.oregonstate.edu/debian unstable/main amd64 g++-mips64el-linux-gnuabi64 amd64 4:9.2.1-4.1 [1192 B] Get:49 http://debian.oregonstate.edu/debian unstable/main amd64 libconfig-inifiles-perl all 3.000003-1 [52.1 kB] Get:50 http://debian.oregonstate.edu/debian unstable/main amd64 libio-string-perl all 1.08-3 [12.3 kB] Get:51 http://debian.oregonstate.edu/debian unstable/main amd64 libicu63 amd64 63.2-3 [8296 kB] Get:52 http://debian.oregonstate.edu/debian unstable/main amd64 libxml2 amd64 2.9.10+dfsg-5 [709 kB] Get:53 http://debian.oregonstate.edu/debian unstable/main amd64 libxml-namespacesupport-perl all 1.12-1 [14.8 kB] Get:54 http://debian.oregonstate.edu/debian unstable/main amd64 libxml-sax-base-perl all 1.09-1 [20.4 kB] Get:55 http://debian.oregonstate.edu/debian unstable/main amd64 libxml-sax-perl all 1.02+dfsg-1 [59.0 kB] Get:56 http://debian.oregonstate.edu/debian unstable/main amd64 libxml-libxml-perl amd64 2.0134+dfsg-2 [343 kB] Get:57 http://debian.oregonstate.edu/debian unstable/main amd64 libxml-simple-perl all 2.25-1 [72.0 kB] Get:58 http://debian.oregonstate.edu/debian unstable/main amd64 libyaml-perl all 1.30-1 [67.7 kB] Get:59 http://debian.oregonstate.edu/debian unstable/main amd64 libconfig-auto-perl all 0.44-1 [19.5 kB] Get:60 http://debian.oregonstate.edu/debian unstable/main amd64 libfile-which-perl all 1.23-1 [16.6 kB] Get:61 http://debian.oregonstate.edu/debian unstable/main amd64 libfile-homedir-perl all 1.004-1 [42.7 kB] Get:62 http://debian.oregonstate.edu/debian unstable/main amd64 libdebian-dpkgcross-perl all 2.6.15-3 [38.7 kB] Get:63 http://debian.oregonstate.edu/debian unstable/main amd64 dpkg-cross all 2.6.15-3 [49.3 kB] Get:64 http://debian.oregonstate.edu/debian unstable/main amd64 crossbuild-essential-mips64el all 12.8 [6704 B] Get:65 http://debian.oregonstate.edu/debian unstable/main amd64 libtool all 2.4.6-14 [513 kB] Get:66 http://debian.oregonstate.edu/debian unstable/main amd64 dh-autoreconf all 19 [16.9 kB] Get:67 http://debian.oregonstate.edu/debian unstable/main amd64 libdebhelper-perl all 13 [184 kB] Get:68 http://debian.oregonstate.edu/debian unstable/main amd64 libarchive-zip-perl all 1.68-1 [104 kB] Get:69 http://debian.oregonstate.edu/debian unstable/main amd64 libsub-override-perl all 0.09-2 [10.2 kB] Get:70 http://debian.oregonstate.edu/debian unstable/main amd64 libfile-stripnondeterminism-perl all 1.8.0-1 [24.2 kB] Get:71 http://debian.oregonstate.edu/debian unstable/main amd64 dh-strip-nondeterminism all 1.8.0-1 [14.8 kB] Get:72 http://debian.oregonstate.edu/debian unstable/main amd64 libelf1 amd64 0.176-1.1 [161 kB] Get:73 http://debian.oregonstate.edu/debian unstable/main amd64 dwz amd64 0.13-5 [151 kB] Get:74 http://debian.oregonstate.edu/debian unstable/main amd64 libglib2.0-0 amd64 2.64.2-1 [1343 kB] Get:75 http://debian.oregonstate.edu/debian unstable/main amd64 libcroco3 amd64 0.6.13-1 [146 kB] Get:76 http://debian.oregonstate.edu/debian unstable/main amd64 gettext amd64 0.19.8.1-10 [1303 kB] Get:77 http://debian.oregonstate.edu/debian unstable/main amd64 intltool-debian all 0.35.0+20060710.5 [26.8 kB] Get:78 http://debian.oregonstate.edu/debian unstable/main amd64 po-debconf all 1.0.21 [248 kB] Get:79 http://debian.oregonstate.edu/debian unstable/main amd64 debhelper all 13 [1002 kB] Get:80 http://debian.oregonstate.edu/debian unstable/main amd64 help2man amd64 1.47.15 [181 kB] Get:81 http://debian.oregonstate.edu/debian unstable/main mips64el libgcc-s1 mips64el 10.1.0-1 [69.5 kB] Get:82 http://debian.oregonstate.edu/debian unstable/main mips64el libcrypt1 mips64el 1:4.4.16-1 [95.5 kB] Get:83 http://debian.oregonstate.edu/debian unstable/main mips64el libc6 mips64el 2.30-8 [2554 kB] Get:84 http://debian.oregonstate.edu/debian unstable/main mips64el libatomic1 mips64el 10.1.0-1 [7480 B] Get:85 http://debian.oregonstate.edu/debian unstable/main mips64el linux-libc-dev mips64el 5.6.7-1 [1092 kB] Get:86 http://debian.oregonstate.edu/debian unstable/main mips64el libcrypt-dev mips64el 1:4.4.16-1 [118 kB] Get:87 http://debian.oregonstate.edu/debian unstable/main mips64el libc6-dev mips64el 2.30-8 [2476 kB] Get:88 http://debian.oregonstate.edu/debian unstable/main mips64el libgomp1 mips64el 10.1.0-1 [89.5 kB] Get:89 http://debian.oregonstate.edu/debian unstable/main mips64el libgcc-9-dev mips64el 9.3.0-12 [248 kB] Get:90 http://debian.oregonstate.edu/debian unstable/main mips64el libstdc++6 mips64el 10.1.0-1 [432 kB] Get:91 http://debian.oregonstate.edu/debian unstable/main mips64el libstdc++-9-dev mips64el 9.3.0-12 [1735 kB] Get:92 http://debian.oregonstate.edu/debian unstable/main mips64el libtclap-dev mips64el 1.2.2-1 [139 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 75.8 MB in 1s (115 MB/s) Selecting previously unselected package libbsd0:amd64. (Reading database ... 12640 files and directories currently installed.) Preparing to unpack .../00-libbsd0_0.10.0-1_amd64.deb ... Unpacking libbsd0:amd64 (0.10.0-1) ... Selecting previously unselected package bsdmainutils. Preparing to unpack .../01-bsdmainutils_11.1.2+b1_amd64.deb ... Unpacking bsdmainutils (11.1.2+b1) ... Selecting previously unselected package libuchardet0:amd64. Preparing to unpack .../02-libuchardet0_0.0.6-3_amd64.deb ... Unpacking libuchardet0:amd64 (0.0.6-3) ... Selecting previously unselected package groff-base. Preparing to unpack .../03-groff-base_1.22.4-5_amd64.deb ... Unpacking groff-base (1.22.4-5) ... Selecting previously unselected package libpipeline1:amd64. Preparing to unpack .../04-libpipeline1_1.5.2-2_amd64.deb ... Unpacking libpipeline1:amd64 (1.5.2-2) ... Selecting previously unselected package man-db. Preparing to unpack .../05-man-db_2.9.1-1_amd64.deb ... Unpacking man-db (2.9.1-1) ... 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Setting up linux-libc-dev:mips64el (5.6.7-1) ... Setting up libc6-mips64el-cross (2.30-2cross1) ... Setting up libxml-namespacesupport-perl (1.12-1) ... Setting up gettext-base (0.19.8.1-10) ... Setting up file (1:5.38-5) ... Setting up gcc-9-cross-base-mipsen (9.3.0-8cross1) ... Setting up libyaml-perl (1.30-1) ... Setting up binutils-mips64el-linux-gnuabi64 (2.34-5cross6) ... Setting up libicu63:amd64 (63.2-3) ... Setting up libxml-sax-base-perl (1.09-1) ... Setting up libio-string-perl (1.08-3) ... Setting up gcc-10-base:mips64el (10.1.0-1) ... Setting up autotools-dev (20180224.1) ... Setting up cross-config (2.6.15-3) ... Setting up gcc-10-cross-base-mipsen (10-20200324-1cross1) ... Setting up libsigsegv2:amd64 (2.12-2) ... Setting up autopoint (0.19.8.1-10) ... Setting up libtclap-dev:mips64el (1.2.2-1) ... Setting up sensible-utils (0.0.12+nmu1) ... Setting up libcrypt-dev:amd64 (1:4.4.16-1) ... Setting up libuchardet0:amd64 (0.0.6-3) ... Setting up libsub-override-perl (0.09-2) ... Setting up libc6-dev:amd64 (2.30-8) ... Setting up linux-libc-dev-mips64el-cross (5.4.19-1cross1) ... Setting up cpp-9-mips64el-linux-gnuabi64 (9.3.0-8cross1) ... Setting up libfile-homedir-perl (1.004-1) ... Setting up cpp-mips64el-linux-gnuabi64 (4:9.2.1-4.1) ... Setting up libgomp1-mips64el-cross (10-20200324-1cross1) ... Setting up libbsd0:amd64 (0.10.0-1) ... Setting up libgcc-s1-mips64el-cross (10-20200324-1cross1) ... Setting up libelf1:amd64 (0.176-1.1) ... Setting up libxml2:amd64 (2.9.10+dfsg-5) ... Setting up liblocale-gettext-perl (1.07-4) ... Setting up gcc-9-base:mips64el (9.3.0-12) ... Setting up libfile-stripnondeterminism-perl (1.8.0-1) ... Setting up libatomic1-mips64el-cross (10-20200324-1cross1) ... Setting up libstdc++-9-dev:amd64 (9.3.0-12) ... Setting up libtool (2.4.6-14) ... Setting up m4 (1.4.18-4) ... Setting up help2man (1.47.15) ... Setting up libc6-dev-mips64el-cross (2.30-2cross1) ... 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 libcroco3:amd64 (0.6.13-1) ... Setting up ucf (3.0039) ... Setting up g++-9 (9.3.0-12) ... Setting up autoconf (2.69-11.1) ... Setting up libstdc++6-mips64el-cross (10-20200324-1cross1) ... Setting up dh-strip-nondeterminism (1.8.0-1) ... 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 libgcc-9-dev-mips64el-cross (9.3.0-8cross1) ... Setting up build-essential (12.8) ... 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 gettext (0.19.8.1-10) ... Setting up libstdc++-9-dev-mips64el-cross (9.3.0-8cross1) ... 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 gcc-9-mips64el-linux-gnuabi64 (9.3.0-8cross1) ... Setting up intltool-debian (0.35.0+20060710.5) ... Setting up gcc-mips64el-linux-gnuabi64 (4:9.2.1-4.1) ... 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 g++-9-mips64el-linux-gnuabi64 (9.3.0-8cross1) ... Setting up po-debconf (1.0.21) ... Setting up libxml-simple-perl (2.25-1) ... Setting up g++-mips64el-linux-gnuabi64 (4:9.2.1-4.1) ... 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-mips64el (12.8) ... Setting up libcrypt1:mips64el (1:4.4.16-1) ... Setting up libgcc-s1:mips64el (10.1.0-1) ... Setting up dh-autoreconf (19) ... Setting up libc6:mips64el (2.30-8) ... Setting up libcrypt-dev:mips64el (1:4.4.16-1) ... Setting up libc6-dev:mips64el (2.30-8) ... Setting up libstdc++6:mips64el (10.1.0-1) ... Setting up debhelper (13) ... Setting up libgomp1:mips64el (10.1.0-1) ... Setting up libatomic1:mips64el (10.1.0-1) ... Setting up libgcc-9-dev:mips64el (9.3.0-12) ... Setting up libstdc++-9-dev:mips64el (9.3.0-12) ... Setting up sbuild-build-depends-main-dummy:mips64el (0.invalid.0) ... Processing triggers for libc-bin (2.30-8) ... +------------------------------------------------------------------------------+ | Check architectures | +------------------------------------------------------------------------------+ Arch check ok (mips64el 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_2.34-8 dpkg-dev_1.19.7 g++-9_9.3.0-12 gcc-9_9.3.0-12 libc6-dev_2.30-8 libstdc++-9-dev_9.3.0-12 libstdc++-9-dev-mips64el-cross_9.3.0-8cross1 libstdc++6_10.1.0-1 libstdc++6-mips64el-cross_10-20200324-1cross1 linux-libc-dev_5.6.7-1 Package versions: adduser_3.118 apt_2.1.2 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-common_2.34-8 binutils-mips64el-linux-gnuabi64_2.34-5cross6 binutils-x86-64-linux-gnu_2.34-8 bsdmainutils_11.1.2+b1 bsdutils_1:2.35.1-5 build-essential_12.8 bzip2_1.0.8-2 coreutils_8.30-3+b1 cpp_4:9.2.1-3.1 cpp-8_8.4.0-3 cpp-9_9.3.0-12 cpp-9-mips64el-linux-gnuabi64_9.3.0-8cross1 cpp-mips64el-linux-gnuabi64_4:9.2.1-4.1 cross-config_2.6.15-3 crossbuild-essential-mips64el_12.8 dash_0.5.10.2-7 debconf_1.5.74 debhelper_13 debian-archive-keyring_2019.1 debianutils_4.9.1 dh-autoreconf_19 dh-strip-nondeterminism_1.8.0-1 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_1.45.6-1 fakeroot_1.24-1 fdisk_2.35.1-5 file_1:5.38-5 findutils_4.7.0-1 g++_4:9.2.1-3.1 g++-9_9.3.0-12 g++-9-mips64el-linux-gnuabi64_9.3.0-8cross1 g++-mips64el-linux-gnuabi64_4:9.2.1-4.1 gcc_4:9.2.1-3.1 gcc-10-base_10.1.0-1 gcc-10-cross-base-mipsen_10-20200324-1cross1 gcc-8-base_8.4.0-3 gcc-9_9.3.0-12 gcc-9-base_9.3.0-12 gcc-9-cross-base-mipsen_9.3.0-8cross1 gcc-9-mips64el-linux-gnuabi64_9.3.0-8cross1 gcc-9-mips64el-linux-gnuabi64-base_9.3.0-8cross1 gcc-mips64el-linux-gnuabi64_4:9.2.1-4.1 gettext_0.19.8.1-10 gettext-base_0.19.8.1-10 gpgv_2.2.20-1 grep_3.4-1 groff-base_1.22.4-5 gzip_1.10-2 help2man_1.47.15 hostname_3.23 init-system-helpers_1.57 intltool-debian_0.35.0+20060710.5 libacl1_2.2.53-8 libapt-pkg5.0_1.8.4 libapt-pkg6.0_2.1.2 libarchive-zip-perl_1.68-1 libasan5_9.3.0-12 libatomic1_10.1.0-1 libatomic1-mips64el-cross_10-20200324-1cross1 libattr1_1:2.4.48-5 libaudit-common_1:2.8.5-3 libaudit1_1:2.8.5-3+b1 libbinutils_2.34-8 libblkid1_2.35.1-5 libbsd0_0.10.0-1 libbz2-1.0_1.0.8-2 libc-bin_2.30-8 libc-dev-bin_2.30-8 libc6_2.30-8 libc6-dev_2.30-8 libc6-dev-mips64el-cross_2.30-2cross1 libc6-mips64el-cross_2.30-2cross1 libcap-ng0_0.7.9-2.1+b2 libcc1-0_10.1.0-1 libcom-err2_1.45.6-1 libconfig-auto-perl_0.44-1 libconfig-inifiles-perl_3.000003-1 libcroco3_0.6.13-1 libcrypt-dev_1:4.4.16-1 libcrypt1_1:4.4.16-1 libctf-nobfd0_2.34-8 libctf0_2.34-8 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baitfisher Binary: baitfisher Architecture: any Version: 1.2.7+git20180107.e92dbf2+dfsg-1 Maintainer: Debian Med Packaging Team Uploaders: Olivier Sallou Homepage: https://github.com/cmayer/BaitFisher-package Standards-Version: 4.2.1 Vcs-Browser: https://salsa.debian.org/med-team/baitfisher Vcs-Git: https://salsa.debian.org/med-team/baitfisher.git Build-Depends: debhelper (>= 11~), help2man, libtclap-dev Package-List: baitfisher deb science optional arch=any Checksums-Sha1: 2e93ad863eb6f064f6d08114c99330e6d871acad 3454480 baitfisher_1.2.7+git20180107.e92dbf2+dfsg.orig.tar.xz e850666491860c03725187372a11ac78fccc8c8e 4084 baitfisher_1.2.7+git20180107.e92dbf2+dfsg-1.debian.tar.xz Checksums-Sha256: fc729bdee85642f10d057e08d19174be5a40f8e993f5827b4c5bb11c3f964181 3454480 baitfisher_1.2.7+git20180107.e92dbf2+dfsg.orig.tar.xz e139b1a4e131b58085506d1ba7415fff8811e81a2cde0fd735c830ba530724d5 4084 baitfisher_1.2.7+git20180107.e92dbf2+dfsg-1.debian.tar.xz Files: e79e66c77952a85cad0916fb2bf75cf4 3454480 baitfisher_1.2.7+git20180107.e92dbf2+dfsg.orig.tar.xz 264f1f5ddc5a782e5d73d6fa63faaf04 4084 baitfisher_1.2.7+git20180107.e92dbf2+dfsg-1.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQJFBAEBCAAvFiEE8fAHMgoDVUHwpmPKV4oElNHGRtEFAluo3YERHHRpbGxlQGRl Ymlhbi5vcmcACgkQV4oElNHGRtFMCQ//cku40L2xW5Gqu+ZsN+pANwXEtlciY7y4 dXLIZO6qPsabGeRosMjyDj8DmpR9MIf12J3EoG7+3gSDpF16eLkk6PtbJXu5ojT/ wUtcNclj4a+7LwzkGqnciuw8p0PD5s0iFKtns96vpwVp7WRKYrXiqMo3tH4TeW6O Gd3VR5vUADKa0To9k/R+LGv1m8SNL5xnQDhvX1d+suqzvuqeTJEItBJ7C64eBlyV lCZeq0agVsgXCeOovvHIYisYUWJ7+RkoFLnd3tu7Ib+xixUsoOkUCQT+2Cr3wUC6 sAI3Hf15fge9yryxI/FJhawK3QwsyXxME1IrnjLmsXBeG8zT5oykuCWpjVaHG18B QHvuU4rlqoBICvfqD8hqlH7bfKD+xUV++LzbQ699PfMCY2oNphIDQ7tlFoGdlTbu 0i9vyYkLmVD3DFtk+qi0C0y3Kf+sGwti3skLDRtHuKnAQ85QPqX6K+ayfGex7ISp pIZaVANjnD6iOBFH3tR7+R6P5aQIJ7n01ynuypfFmvRI4UAlAc4RQfA/7m6IRchH TQgFTt7MdUtZ39ROqT2XIacTtaKQ4UV4aXVhIWkpgHdQXpam+fXiVKk1M/k/t2c8 JSnb+yJ1whEinU+Lm484OR5PA9uBXOmbkpehDKSBi3AOGady1hlgTbDBuQybPvrj lqnBgnsBCR8= =xXmp -----END PGP SIGNATURE----- gpgv: unknown type of key resource 'trustedkeys.kbx' gpgv: keyblock resource '/sbuild-nonexistent/.gnupg/trustedkeys.kbx': General error gpgv: Signature made Mon Sep 24 12:50:09 2018 UTC gpgv: using RSA key F1F007320A035541F0A663CA578A0494D1C646D1 gpgv: issuer "tille@debian.org" gpgv: Can't check signature: No public key dpkg-source: warning: failed to verify signature on ./baitfisher_1.2.7+git20180107.e92dbf2+dfsg-1.dsc dpkg-source: info: extracting baitfisher in /<> dpkg-source: info: unpacking baitfisher_1.2.7+git20180107.e92dbf2+dfsg.orig.tar.xz dpkg-source: info: unpacking baitfisher_1.2.7+git20180107.e92dbf2+dfsg-1.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying fix_example.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.mips64el 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-5c3cf1ad-e055-4820-9373-1dbd1b1ae402 SCHROOT_UID=1003 SCHROOT_USER=helmut SHELL=/bin/sh USER=helmut dpkg-buildpackage ----------------- Command: dpkg-buildpackage -amips64el -Pcross,nocheck -us -uc -B -rfakeroot --jobs-try=1 dpkg-buildpackage: info: source package baitfisher dpkg-buildpackage: info: source version 1.2.7+git20180107.e92dbf2+dfsg-1 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Andreas Tille dpkg-architecture: warning: specified GNU system type mips64el-linux-gnuabi64 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 mips64el fakeroot debian/rules clean dh clean dh_auto_clean make -j1 clean make[1]: Entering directory '/<>' rm -f *.o rm -f BaitFisher-v1.2.8 rm -f BaitFilter-v1.0.6 make[1]: Leaving directory '/<>' dh_clean debian/rules build-arch dh build-arch dh_update_autotools_config -a dh_autoreconf -a dh_auto_configure -a dh_auto_build -a make -j1 "INSTALL=install --strip-program=true" PKG_CONFIG=mips64el-linux-gnuabi64-pkg-config CXX=mips64el-linux-gnuabi64-g\+\+ CC=mips64el-linux-gnuabi64-gcc make[1]: Entering directory '/<>' mips64el-linux-gnuabi64-g++ -Wdate-time -D_FORTIFY_SOURCE=2 -I . -O3 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c bait-fisher-helper.cpp -o bait-fisher-helper.o mips64el-linux-gnuabi64-g++ -Wdate-time -D_FORTIFY_SOURCE=2 -I . -O3 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c bait-fisher.cpp -o bait-fisher.o mips64el-linux-gnuabi64-g++ -Wdate-time -D_FORTIFY_SOURCE=2 -I . -O3 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c Csequence_cluster_and_center_sequence.cpp -o Csequence_cluster_and_center_sequence.o mips64el-linux-gnuabi64-g++ -Wdate-time -D_FORTIFY_SOURCE=2 -I . -O3 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c mydir-unix.cpp -o mydir-unix.o mips64el-linux-gnuabi64-g++ -I . -O3 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z,relro -Wl,-z,now -lstdc++ bait-fisher-helper.o bait-fisher.o Csequence_cluster_and_center_sequence.o mydir-unix.o -o BaitFisher-v1.2.8 mips64el-linux-gnuabi64-g++ -Wdate-time -D_FORTIFY_SOURCE=2 -I . -O3 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c bait-filter.cpp -o bait-filter.o mips64el-linux-gnuabi64-g++ -Wdate-time -D_FORTIFY_SOURCE=2 -I . -O3 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c global-types-and-parameters.cpp -o global-types-and-parameters.o mips64el-linux-gnuabi64-g++ -I . -O3 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z,relro -Wl,-z,now -lstdc++ bait-filter.o global-types-and-parameters.o -o BaitFilter-v1.0.6 make[1]: Leaving directory '/<>' 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 debian/rules override_dh_install make[1]: Entering directory '/<>' cp BaitFilter-v* debian/baitfisher/usr/bin/BaitFilter cp BaitFisher-v* debian/baitfisher/usr/bin/BaitFisher dh_install for sh in `grep -Rl '#!/usr/bin/bash' debian/*/usr/*` ; do \ sed -i '1s?^#!/usr/bin/bash?#!/bin/bash?' ${sh} ; \ done make[1]: Leaving directory '/<>' dh_installdocs -a dh_installchangelogs -a dh_installexamples -a debian/rules override_dh_installman make[1]: Entering directory '/<>' help2man --no-discard-stderr -o BaitFilter.1 ./BaitFilter-v* help2man --no-discard-stderr -o BaitFisher.1 ./BaitFisher-v* dh_installman make[1]: Leaving directory '/<>' dh_perl -a dh_link -a dh_strip_nondeterminism -a dh_compress -a dh_fixperms -a dh_missing -a dh_strip -a dh_makeshlibs -a dh_shlibdeps -a dh_installdeb -a dh_gencontrol -a dh_md5sums -a dh_builddeb -a dpkg-deb: building package 'baitfisher' in '../baitfisher_1.2.7+git20180107.e92dbf2+dfsg-1_mips64el.deb'. dpkg-deb: building package 'baitfisher-dbgsym' in '../baitfisher-dbgsym_1.2.7+git20180107.e92dbf2+dfsg-1_mips64el.deb'. dpkg-genbuildinfo --build=any dpkg-genchanges --build=any >../baitfisher_1.2.7+git20180107.e92dbf2+dfsg-1_mips64el.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 2020-05-17T17:02:32Z Finished -------- I: Built successfully +------------------------------------------------------------------------------+ | Changes | +------------------------------------------------------------------------------+ baitfisher_1.2.7+git20180107.e92dbf2+dfsg-1_mips64el.changes: ------------------------------------------------------------- Format: 1.8 Date: Mon, 24 Sep 2018 14:45:13 +0200 Source: baitfisher Binary: baitfisher baitfisher-dbgsym Built-For-Profiles: cross nocheck Architecture: mips64el Version: 1.2.7+git20180107.e92dbf2+dfsg-1 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Andreas Tille Description: baitfisher - software package for designing hybrid enrichment probes Closes: 852839 Changes: baitfisher (1.2.7+git20180107.e92dbf2+dfsg-1) unstable; urgency=medium . * Team upload. . [ Steffen Moeller ] * debian/upstream/metadata: - Added registries - yamllint cleanliness . [ Andreas Tille ] * New upstream version Closes: #852839 * Enable hardening (thanks for the patch to Juhani Numminen ) * debhelper 11 * Point Vcs fields to salsa.debian.org * Standards-Version: 4.2.1 * Fix interpreter path for bash in examples * Git mode in watch file since upstream does not set release tags * Overhaul Files-Excluded: Doc now comes with source, remove code copy of libtclap-dev * Build-Depends: libtclap-dev * Fix examples * Install doc Checksums-Sha1: 7ba7050aed02850f50c9f1f45e81c8dc9798f5b3 2145224 baitfisher-dbgsym_1.2.7+git20180107.e92dbf2+dfsg-1_mips64el.deb 97861bd26760ba5e7819db9cd8109609ce8e38e7 4868 baitfisher_1.2.7+git20180107.e92dbf2+dfsg-1_mips64el.buildinfo 4f9235ed22a727074f01d4d607d1ae1bf6a703c4 192456 baitfisher_1.2.7+git20180107.e92dbf2+dfsg-1_mips64el.deb Checksums-Sha256: 373e799a1057110c93053d6ae13198389ce1de9cecbec9336826a66bbaf5f65c 2145224 baitfisher-dbgsym_1.2.7+git20180107.e92dbf2+dfsg-1_mips64el.deb 7fb91e3400753657f39358a22e653e951f833d9e6eea3bc8538d615430bdd8e7 4868 baitfisher_1.2.7+git20180107.e92dbf2+dfsg-1_mips64el.buildinfo 7cc4eec06386949a425db4784230c076e9ec00f135db2b684edb524291f3ded4 192456 baitfisher_1.2.7+git20180107.e92dbf2+dfsg-1_mips64el.deb Files: 971b269c62a9078fd0c7f6eec3ee6b7f 2145224 debug optional baitfisher-dbgsym_1.2.7+git20180107.e92dbf2+dfsg-1_mips64el.deb d01c434c98f714f5a30775ba0759027c 4868 science optional baitfisher_1.2.7+git20180107.e92dbf2+dfsg-1_mips64el.buildinfo 8e1363700a1c26c58c0f4563fa17de00 192456 science optional baitfisher_1.2.7+git20180107.e92dbf2+dfsg-1_mips64el.deb +------------------------------------------------------------------------------+ | Buildinfo | +------------------------------------------------------------------------------+ Format: 1.0 Source: baitfisher Binary: baitfisher Architecture: mips64el Version: 1.2.7+git20180107.e92dbf2+dfsg-1 Checksums-Md5: 971b269c62a9078fd0c7f6eec3ee6b7f 2145224 baitfisher-dbgsym_1.2.7+git20180107.e92dbf2+dfsg-1_mips64el.deb 8e1363700a1c26c58c0f4563fa17de00 192456 baitfisher_1.2.7+git20180107.e92dbf2+dfsg-1_mips64el.deb Checksums-Sha1: 7ba7050aed02850f50c9f1f45e81c8dc9798f5b3 2145224 baitfisher-dbgsym_1.2.7+git20180107.e92dbf2+dfsg-1_mips64el.deb 4f9235ed22a727074f01d4d607d1ae1bf6a703c4 192456 baitfisher_1.2.7+git20180107.e92dbf2+dfsg-1_mips64el.deb Checksums-Sha256: 373e799a1057110c93053d6ae13198389ce1de9cecbec9336826a66bbaf5f65c 2145224 baitfisher-dbgsym_1.2.7+git20180107.e92dbf2+dfsg-1_mips64el.deb 7cc4eec06386949a425db4784230c076e9ec00f135db2b684edb524291f3ded4 192456 baitfisher_1.2.7+git20180107.e92dbf2+dfsg-1_mips64el.deb Build-Origin: Debian Build-Architecture: amd64 Build-Date: Sun, 17 May 2020 17:02:32 +0000 Build-Path: /<> Installed-Build-Depends: 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-common (= 2.34-8), binutils-x86-64-linux-gnu (= 2.34-8), bsdmainutils (= 11.1.2+b1), bsdutils (= 1:2.35.1-5), build-essential (= 12.8), bzip2 (= 1.0.8-2), coreutils (= 8.30-3+b1), cpp (= 4:9.2.1-3.1), cpp-9 (= 9.3.0-12), dash (= 0.5.10.2-7), debconf (= 1.5.74), debhelper (= 13), debianutils (= 4.9.1), dh-autoreconf (= 19), dh-strip-nondeterminism (= 1.8.0-1), diffutils (= 1:3.7-3), dpkg (= 1.19.7), dpkg-dev (= 1.19.7), dwz (= 0.13-5), file (= 1:5.38-5), findutils (= 4.7.0-1), g++ (= 4:9.2.1-3.1), g++-9 (= 9.3.0-12), gcc (= 4:9.2.1-3.1), gcc-10-base (= 10.1.0-1), gcc-9 (= 9.3.0-12), gcc-9-base (= 9.3.0-12), gettext (= 0.19.8.1-10), gettext-base (= 0.19.8.1-10), grep (= 3.4-1), groff-base (= 1.22.4-5), gzip (= 1.10-2), help2man (= 1.47.15), hostname (= 3.23), init-system-helpers (= 1.57), intltool-debian (= 0.35.0+20060710.5), libacl1 (= 2.2.53-8), libarchive-zip-perl (= 1.68-1), libasan5 (= 9.3.0-12), libatomic1 (= 10.1.0-1), libattr1 (= 1:2.4.48-5), libaudit-common (= 1:2.8.5-3), libaudit1 (= 1:2.8.5-3+b1), libbinutils (= 2.34-8), libblkid1 (= 2.35.1-5), libbsd0 (= 0.10.0-1), libbz2-1.0 (= 1.0.8-2), libc-bin (= 2.30-8), libc-dev-bin (= 2.30-8), libc6 (= 2.30-8), libc6-dev (= 2.30-8), libcap-ng0 (= 0.7.9-2.1+b2), libcc1-0 (= 10.1.0-1), libcroco3 (= 0.6.13-1), libcrypt-dev (= 1:4.4.16-1), libcrypt1 (= 1:4.4.16-1), libctf-nobfd0 (= 2.34-8), libctf0 (= 2.34-8), libdb5.3 (= 5.3.28+dfsg1-0.6), libdebconfclient0 (= 0.252), libdebhelper-perl (= 13), libdpkg-perl (= 1.19.7), libelf1 (= 0.176-1.1), libffi7 (= 3.3-4), libfile-stripnondeterminism-perl (= 1.8.0-1), libgcc-9-dev (= 9.3.0-12), libgcc-s1 (= 10.1.0-1), libgcc1 (= 1:10.1.0-1), libgcrypt20 (= 1.8.5-5), libgdbm-compat4 (= 1.18.1-5), libgdbm6 (= 1.18.1-5), libglib2.0-0 (= 2.64.2-1), libgmp10 (= 2:6.2.0+dfsg-4), libgomp1 (= 10.1.0-1), libgpg-error0 (= 1.37-1), libicu63 (= 63.2-3), libisl22 (= 0.22.1-1), libitm1 (= 10.1.0-1), liblocale-gettext-perl (= 1.07-4), liblsan0 (= 10.1.0-1), liblz4-1 (= 1.9.2-2), liblzma5 (= 5.2.4-1+b1), libmagic-mgc (= 1:5.38-5), libmagic1 (= 1:5.38-5), libmount1 (= 2.35.1-5), libmpc3 (= 1.1.0-1), libmpfr6 (= 4.0.2-1), 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 (= 5.30.2-1), libpipeline1 (= 1.5.2-2), libquadmath0 (= 10.1.0-1), libseccomp2 (= 2.4.3-1+b1), libselinux1 (= 3.0-1+b3), libsigsegv2 (= 2.12-2), libsmartcols1 (= 2.35.1-5), libstdc++-9-dev (= 9.3.0-12), libstdc++6 (= 10.1.0-1), libsub-override-perl (= 0.09-2), libsystemd0 (= 245.5-2), libtclap-dev (= 1.2.2-1), libtinfo6 (= 6.2-1), libtool (= 2.4.6-14), libtsan0 (= 10.1.0-1), libubsan1 (= 10.1.0-1), libuchardet0 (= 0.0.6-3), libudev1 (= 245.5-2), libunistring2 (= 0.9.10-2), libuuid1 (= 2.35.1-5), libxml2 (= 2.9.10+dfsg-5), linux-libc-dev (= 5.6.7-1), login (= 1:4.8.1-1), lsb-base (= 11.1.0), m4 (= 1.4.18-4), make (= 4.2.1-2+b1), 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 (= 5.30.2-1), perl-base (= 5.30.2-1), perl-modules-5.30 (= 5.30.2-1), po-debconf (= 1.0.21), sed (= 4.7-1), sensible-utils (= 0.0.12+nmu1), sysvinit-utils (= 2.96-3), tar (= 1.30+dfsg-7), util-linux (= 2.35.1-5), xz-utils (= 5.2.4-1+b1), zlib1g (= 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="1537793113" +------------------------------------------------------------------------------+ | Package contents | +------------------------------------------------------------------------------+ baitfisher-dbgsym_1.2.7+git20180107.e92dbf2+dfsg-1_mips64el.deb --------------------------------------------------------------- new Debian package, version 2.0. size 2145224 bytes: control archive=612 bytes. 477 bytes, 12 lines control 212 bytes, 2 lines md5sums Package: baitfisher-dbgsym Source: baitfisher Version: 1.2.7+git20180107.e92dbf2+dfsg-1 Auto-Built-Package: debug-symbols Architecture: mips64el Maintainer: Debian Med Packaging Team Installed-Size: 2196 Depends: baitfisher (= 1.2.7+git20180107.e92dbf2+dfsg-1) Section: debug Priority: optional Description: debug symbols for baitfisher Build-Ids: 83b8392d66c650375aad19da95f8ec5c1a6a2a5b e50b9f6a5592b5cc4581d3ebfe7b4bfb9af0e06c drwxr-xr-x root/root 0 2018-09-24 12:45 ./ drwxr-xr-x root/root 0 2018-09-24 12:45 ./usr/ drwxr-xr-x root/root 0 2018-09-24 12:45 ./usr/lib/ drwxr-xr-x root/root 0 2018-09-24 12:45 ./usr/lib/debug/ drwxr-xr-x root/root 0 2018-09-24 12:45 ./usr/lib/debug/.build-id/ drwxr-xr-x root/root 0 2018-09-24 12:45 ./usr/lib/debug/.build-id/83/ -rw-r--r-- root/root 1279968 2018-09-24 12:45 ./usr/lib/debug/.build-id/83/b8392d66c650375aad19da95f8ec5c1a6a2a5b.debug drwxr-xr-x root/root 0 2018-09-24 12:45 ./usr/lib/debug/.build-id/e5/ -rw-r--r-- root/root 957080 2018-09-24 12:45 ./usr/lib/debug/.build-id/e5/0b9f6a5592b5cc4581d3ebfe7b4bfb9af0e06c.debug drwxr-xr-x root/root 0 2018-09-24 12:45 ./usr/share/ drwxr-xr-x root/root 0 2018-09-24 12:45 ./usr/share/doc/ lrwxrwxrwx root/root 0 2018-09-24 12:45 ./usr/share/doc/baitfisher-dbgsym -> baitfisher baitfisher_1.2.7+git20180107.e92dbf2+dfsg-1_mips64el.deb -------------------------------------------------------- new Debian package, version 2.0. size 192456 bytes: control archive=1536 bytes. 1720 bytes, 31 lines control 1155 bytes, 12 lines md5sums Package: baitfisher Version: 1.2.7+git20180107.e92dbf2+dfsg-1 Architecture: mips64el Maintainer: Debian Med Packaging Team Installed-Size: 673 Depends: libc6 (>= 2.4), libgcc-s1 (>= 3.0), libstdc++6 (>= 5.2) Section: science Priority: optional Homepage: https://github.com/cmayer/BaitFisher-package Description: software package for designing hybrid enrichment probes The BaitFisher package consists of two programs: BaitFisher and BaitFilter. . BaitFisher was been designed to construct hybrid enrichment baits from multiple sequence alignments (MSAs) or annotated features in MSAs. The main goal of BaitFisher is to avoid redundancy in the construction of baits by designing fewer baits in conserved regions of the MSAs and designing more baits in variable regions. This makes use of the fact that hybrid enrichment baits can differ to some extends from the target region, which they should capture in the enrichment procedure. By specifying the allowed distance between baits and the sequences in the MSAs the user can control the allowed bait-to-target distance and the degree of reduction in the number of baits that are designed. See the BaitFisher paper for details. . BaitFilter was designed (i) to determine whether baits bind unspecifically to a reference genome, (ii) to filter baits that only have partial length matches to a reference genome, (iii) to determine the optimal bait region in a MSA and to convert baits to a format that can be uploaded at a bait constructing company. The optimal bait region can be the most conserved region in the MSA or the region with the highest number of sequences without gaps or ambiguous nucleotides. drwxr-xr-x root/root 0 2018-09-24 12:45 ./ drwxr-xr-x root/root 0 2018-09-24 12:45 ./usr/ drwxr-xr-x root/root 0 2018-09-24 12:45 ./usr/bin/ -rwxr-xr-x root/root 278336 2018-09-24 12:45 ./usr/bin/BaitFilter -rwxr-xr-x root/root 365248 2018-09-24 12:45 ./usr/bin/BaitFisher drwxr-xr-x root/root 0 2018-09-24 12:45 ./usr/share/ drwxr-xr-x root/root 0 2018-09-24 12:45 ./usr/share/doc/ drwxr-xr-x root/root 0 2018-09-24 12:45 ./usr/share/doc/baitfisher/ -rw-r--r-- root/root 703 2018-09-24 12:45 ./usr/share/doc/baitfisher/changelog.Debian.gz -rw-r--r-- root/root 1360 2018-09-24 12:45 ./usr/share/doc/baitfisher/copyright drwxr-xr-x root/root 0 2018-09-24 12:45 ./usr/share/doc/baitfisher/examples/ drwxr-xr-x root/root 0 2018-09-24 12:45 ./usr/share/doc/baitfisher/examples/Example-without-alignment-cutting/ drwxr-xr-x root/root 0 2018-09-24 12:45 ./usr/share/doc/baitfisher/examples/Example-without-alignment-cutting/BaitFilter-analysis/ -rwxr-xr-x root/root 949 2018-09-24 12:45 ./usr/share/doc/baitfisher/examples/Example-without-alignment-cutting/BaitFilter-analysis/run-BaitFilter.sh drwxr-xr-x root/root 0 2018-09-24 12:45 ./usr/share/doc/baitfisher/examples/Example-without-alignment-cutting/alignments/ -rw-r--r-- root/root 6420 2018-01-07 22:39 ./usr/share/doc/baitfisher/examples/Example-without-alignment-cutting/alignments/EOG505R03.fas.gz -rw-r--r-- root/root 5509 2018-01-07 22:39 ./usr/share/doc/baitfisher/examples/Example-without-alignment-cutting/alignments/EOG57H4P2.fas.gz -rw-r--r-- root/root 7475 2018-01-07 22:39 ./usr/share/doc/baitfisher/examples/Example-without-alignment-cutting/alignments/EOG5DV4JW.fas.gz -rw-r--r-- root/root 2563 2018-01-07 22:39 ./usr/share/doc/baitfisher/examples/Example-without-alignment-cutting/parameter.txt -rwxr-xr-x root/root 78 2018-09-24 12:45 ./usr/share/doc/baitfisher/examples/Example-without-alignment-cutting/run-example.sh drwxr-xr-x root/root 0 2018-09-24 12:45 ./usr/share/man/ drwxr-xr-x root/root 0 2018-09-24 12:45 ./usr/share/man/man1/ -rw-r--r-- root/root 375 2018-09-24 12:45 ./usr/share/man/man1/BaitFilter.1.gz -rw-r--r-- root/root 364 2018-09-24 12:45 ./usr/share/man/man1/BaitFisher.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 [546 B] Get:5 copy:/<>/apt_archive ./ Packages [632 B] Fetched 2141 B in 0s (79.4 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... Some packages could not be installed. This may mean that you have requested an impossible situation or if you are using the unstable distribution that some required packages have not yet been created or been moved out of Incoming. The following information may help to resolve the situation: The following packages have unmet dependencies: libclass-xsaccessor-perl : Depends: perl (< 5.30.1~) but 5.30.2-1 is to be installed E: Error, pkgProblemResolver::Resolve generated breaks, this may be caused by held packages. apt-get failed. E: Package installation failed Not removing build depends: cloned chroot in use +------------------------------------------------------------------------------+ | Post Build | +------------------------------------------------------------------------------+ +------------------------------------------------------------------------------+ | Cleanup | +------------------------------------------------------------------------------+ Purging /<> Not cleaning session: cloned chroot in use +------------------------------------------------------------------------------+ | Summary | +------------------------------------------------------------------------------+ Build Architecture: amd64 Build Profiles: cross nocheck Build Type: any Build-Space: 65508 Build-Time: 45 Distribution: unstable Foreign Architectures: mips64el Host Architecture: mips64el Install-Time: 16 Job: baitfisher_1.2.7+git20180107.e92dbf2+dfsg-1 Lintian: error Machine Architecture: amd64 Package: baitfisher Package-Time: 74 Source-Version: 1.2.7+git20180107.e92dbf2+dfsg-1 Space: 65508 Status: successful Version: 1.2.7+git20180107.e92dbf2+dfsg-1 -------------------------------------------------------------------------------- Finished at 2020-05-17T17:02:32Z Build needed 00:01:14, 65508k disk space