https://launchpad.net/ubuntu/+source/srst2/0.2.0-7/+build/19112081 RUN: /usr/share/launchpad-buildd/bin/builder-prep Kernel version: Linux riscv64-qemu-lcy01-096 5.3.0-13-generic #14+riscv64.5-Ubuntu SMP Wed Nov 13 20:10:41 UTC 2019 riscv64 Buildd toolchain package versions: launchpad-buildd_188 python-lpbuildd_188 sbuild_0.79.0-1ubuntu1 git_1:2.25.1-1ubuntu1 dpkg-dev_1.19.7ubuntu2 python-debian_0.1.36build1. Syncing the system clock with the buildd NTP service... 6 Apr 15:17:15 ntpdate[24484]: adjust time server 10.211.37.1 offset 0.000243 sec RUN: /usr/share/launchpad-buildd/bin/in-target unpack-chroot --backend=chroot --series=focal --arch=riscv64 PACKAGEBUILD-19112081 --image-type chroot /home/buildd/filecache-default/88ad86cb2b525f1abddded96eadf8014548f7845 Creating target for build PACKAGEBUILD-19112081 RUN: /usr/share/launchpad-buildd/bin/in-target mount-chroot --backend=chroot --series=focal --arch=riscv64 PACKAGEBUILD-19112081 Starting target for build PACKAGEBUILD-19112081 RUN: /usr/share/launchpad-buildd/bin/in-target override-sources-list --backend=chroot --series=focal --arch=riscv64 PACKAGEBUILD-19112081 'deb http://ftpmaster.internal/ubuntu focal main universe' Overriding sources.list in build-PACKAGEBUILD-19112081 RUN: /usr/share/launchpad-buildd/bin/in-target update-debian-chroot --backend=chroot --series=focal --arch=riscv64 PACKAGEBUILD-19112081 Updating target for build PACKAGEBUILD-19112081 Ign:1 http://archive-team.internal/bootstrap/riscv64 focal InRelease Get:2 http://ftpmaster.internal/ubuntu focal InRelease [265 kB] Get:3 http://archive-team.internal/bootstrap/riscv64 focal Release [757 B] Ign:4 http://archive-team.internal/bootstrap/riscv64 focal Release.gpg Get:5 http://ftpmaster.internal/ubuntu focal-proposed InRelease [265 kB] Get:6 http://archive-team.internal/bootstrap/riscv64 focal/main riscv64 Packages [174 kB] Get:7 http://ftpmaster.internal/ubuntu focal/main riscv64 Packages [822 kB] Get:8 http://ftpmaster.internal/ubuntu focal/main Translation-en [502 kB] Get:9 http://ftpmaster.internal/ubuntu focal/universe riscv64 Packages [6778 kB] Get:10 http://ftpmaster.internal/ubuntu focal/universe Translation-en [5128 kB] Get:11 http://ftpmaster.internal/ubuntu focal-proposed/main riscv64 Packages [42.5 kB] Get:12 http://ftpmaster.internal/ubuntu focal-proposed/main Translation-en [35.8 kB] Get:13 http://ftpmaster.internal/ubuntu focal-proposed/restricted Translation-en [860 B] Get:14 http://ftpmaster.internal/ubuntu focal-proposed/universe riscv64 Packages [132 kB] Get:15 http://ftpmaster.internal/ubuntu focal-proposed/universe Translation-en [114 kB] Get:16 http://ftpmaster.internal/ubuntu focal-proposed/multiverse riscv64 Packages [1140 B] Fetched 14.3 MB in 27s (533 kB/s) Reading package lists... Reading package lists... Building dependency tree... Reading state information... Calculating upgrade... The following packages will be upgraded: apt coreutils cpp-9 g++-9 gcc-8-base gcc-9 gcc-9-base libapt-pkg6.0 libc-bin libc-dev-bin libc6 libc6-dev libgcc-9-dev libgnutls30 liblocale-gettext-perl libperl5.30 libstdc++-9-dev libsystemd0 libtext-charwidth-perl libtext-iconv-perl libudev1 login passwd perl-base 24 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. Need to get 40.4 MB of archives. After this operation, 329 kB disk space will be freed. Get:1 http://ftpmaster.internal/ubuntu focal/main riscv64 coreutils riscv64 8.30-3ubuntu2 [1158 kB] Get:2 http://ftpmaster.internal/ubuntu focal-proposed/main riscv64 login riscv64 1:4.8.1-1ubuntu4 [216 kB] Get:3 http://ftpmaster.internal/ubuntu focal/main riscv64 perl-base riscv64 5.30.0-9build1 [1419 kB] Get:4 http://ftpmaster.internal/ubuntu focal/main riscv64 libc6-dev riscv64 2.31-0ubuntu7 [3659 kB] Get:5 http://ftpmaster.internal/ubuntu focal/main riscv64 libc-dev-bin riscv64 2.31-0ubuntu7 [62.5 kB] Get:6 http://ftpmaster.internal/ubuntu focal/main riscv64 libc6 riscv64 2.31-0ubuntu7 [2272 kB] Get:7 http://ftpmaster.internal/ubuntu focal/main riscv64 libc-bin riscv64 2.31-0ubuntu7 [505 kB] Get:8 http://ftpmaster.internal/ubuntu focal-proposed/main riscv64 libsystemd0 riscv64 245.2-1ubuntu3 [242 kB] Get:9 http://ftpmaster.internal/ubuntu focal-proposed/main riscv64 libudev1 riscv64 245.2-1ubuntu3 [69.0 kB] Get:10 http://ftpmaster.internal/ubuntu focal-proposed/main riscv64 libapt-pkg6.0 riscv64 2.0.1ubuntu1 [797 kB] Get:11 http://ftpmaster.internal/ubuntu focal/main riscv64 libgnutls30 riscv64 3.6.13-2ubuntu1 [720 kB] Get:12 http://ftpmaster.internal/ubuntu focal-proposed/main riscv64 apt riscv64 2.0.1ubuntu1 [1231 kB] Get:13 http://ftpmaster.internal/ubuntu focal/main riscv64 liblocale-gettext-perl riscv64 1.07-4 [16.5 kB] Get:14 http://ftpmaster.internal/ubuntu focal-proposed/main riscv64 passwd riscv64 1:4.8.1-1ubuntu4 [752 kB] Get:15 http://ftpmaster.internal/ubuntu focal/main riscv64 libtext-charwidth-perl riscv64 0.04-10 [9460 B] Get:16 http://ftpmaster.internal/ubuntu focal/main riscv64 libtext-iconv-perl riscv64 1.7-7 [13.2 kB] Get:17 http://ftpmaster.internal/ubuntu focal/main riscv64 g++-9 riscv64 9.3.0-10ubuntu1 [6926 kB] Get:18 http://ftpmaster.internal/ubuntu focal/main riscv64 gcc-9 riscv64 9.3.0-10ubuntu1 [6788 kB] Get:19 http://ftpmaster.internal/ubuntu focal/main riscv64 libstdc++-9-dev riscv64 9.3.0-10ubuntu1 [3649 kB] Get:20 http://ftpmaster.internal/ubuntu focal/main riscv64 libgcc-9-dev riscv64 9.3.0-10ubuntu1 [404 kB] Get:21 http://ftpmaster.internal/ubuntu focal/main riscv64 cpp-9 riscv64 9.3.0-10ubuntu1 [6046 kB] Get:22 http://ftpmaster.internal/ubuntu focal/main riscv64 gcc-9-base riscv64 9.3.0-10ubuntu1 [19.2 kB] Get:23 http://ftpmaster.internal/ubuntu focal/universe riscv64 gcc-8-base riscv64 8.4.0-3ubuntu2 [18.4 kB] Get:24 http://ftpmaster.internal/ubuntu focal/main riscv64 libperl5.30 riscv64 5.30.0-9build1 [3422 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 40.4 MB in 8s (5047 kB/s) (Reading database ... 9818 files and directories currently installed.) Preparing to unpack .../coreutils_8.30-3ubuntu2_riscv64.deb ... Unpacking coreutils (8.30-3ubuntu2) over (8.30-3ubuntu2) ... Setting up coreutils (8.30-3ubuntu2) ... (Reading database ... 9818 files and directories currently installed.) Preparing to unpack .../login_1%3a4.8.1-1ubuntu4_riscv64.deb ... Unpacking login (1:4.8.1-1ubuntu4) over (1:4.8.1-1ubuntu3) ... Setting up login (1:4.8.1-1ubuntu4) ... (Reading database ... 9818 files and directories currently installed.) Preparing to unpack .../perl-base_5.30.0-9build1_riscv64.deb ... Unpacking perl-base (5.30.0-9build1) over (5.30.0-9build1) ... Setting up perl-base (5.30.0-9build1) ... (Reading database ... 9818 files and directories currently installed.) Preparing to unpack .../libc6-dev_2.31-0ubuntu7_riscv64.deb ... Unpacking libc6-dev:riscv64 (2.31-0ubuntu7) over (2.31-0ubuntu6~riscv64.1) ... Preparing to unpack .../libc-dev-bin_2.31-0ubuntu7_riscv64.deb ... 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Setting up libudev1:riscv64 (245.2-1ubuntu3) ... (Reading database ... 9818 files and directories currently installed.) Preparing to unpack .../libapt-pkg6.0_2.0.1ubuntu1_riscv64.deb ... Unpacking libapt-pkg6.0:riscv64 (2.0.1ubuntu1) over (2.0.1) ... Setting up libapt-pkg6.0:riscv64 (2.0.1ubuntu1) ... (Reading database ... 9818 files and directories currently installed.) Preparing to unpack .../libgnutls30_3.6.13-2ubuntu1_riscv64.deb ... Unpacking libgnutls30:riscv64 (3.6.13-2ubuntu1) over (3.6.11.1-2ubuntu2) ... Setting up libgnutls30:riscv64 (3.6.13-2ubuntu1) ... (Reading database ... 9818 files and directories currently installed.) Preparing to unpack .../apt_2.0.1ubuntu1_riscv64.deb ... Unpacking apt (2.0.1ubuntu1) over (2.0.1) ... Setting up apt (2.0.1ubuntu1) ... (Reading database ... 9818 files and directories currently installed.) Preparing to unpack .../liblocale-gettext-perl_1.07-4_riscv64.deb ... Unpacking liblocale-gettext-perl (1.07-4) over (1.07-4) ... 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Unpacking libgcc-9-dev:riscv64 (9.3.0-10ubuntu1) over (9.3.0-8ubuntu1) ... Preparing to unpack .../6-cpp-9_9.3.0-10ubuntu1_riscv64.deb ... Unpacking cpp-9 (9.3.0-10ubuntu1) over (9.3.0-8ubuntu1) ... Preparing to unpack .../7-gcc-9-base_9.3.0-10ubuntu1_riscv64.deb ... Unpacking gcc-9-base:riscv64 (9.3.0-10ubuntu1) over (9.3.0-8ubuntu1) ... Preparing to unpack .../8-gcc-8-base_8.4.0-3ubuntu2_riscv64.deb ... Unpacking gcc-8-base:riscv64 (8.4.0-3ubuntu2) over (8.4.0-3ubuntu1) ... Preparing to unpack .../9-libperl5.30_5.30.0-9build1_riscv64.deb ... Unpacking libperl5.30:riscv64 (5.30.0-9build1) over (5.30.0-9build1) ... Setting up libtext-iconv-perl (1.7-7) ... Setting up libtext-charwidth-perl (0.04-10) ... Setting up gcc-8-base:riscv64 (8.4.0-3ubuntu2) ... Setting up libperl5.30:riscv64 (5.30.0-9build1) ... Setting up libc-dev-bin (2.31-0ubuntu7) ... Setting up liblocale-gettext-perl (1.07-4) ... Setting up gcc-9-base:riscv64 (9.3.0-10ubuntu1) ... Setting up libgcc-9-dev:riscv64 (9.3.0-10ubuntu1) ... Setting up cpp-9 (9.3.0-10ubuntu1) ... Setting up libc6-dev:riscv64 (2.31-0ubuntu7) ... Setting up gcc-9 (9.3.0-10ubuntu1) ... Setting up libstdc++-9-dev:riscv64 (9.3.0-10ubuntu1) ... Setting up g++-9 (9.3.0-10ubuntu1) ... Processing triggers for libc-bin (2.31-0ubuntu7) ... RUN: /usr/share/launchpad-buildd/bin/sbuild-package PACKAGEBUILD-19112081 riscv64 focal -c chroot:build-PACKAGEBUILD-19112081 --arch=riscv64 --dist=focal --nolog srst2_0.2.0-7.dsc Initiating build PACKAGEBUILD-19112081 with 4 jobs across 4 processor cores. Kernel reported to sbuild: 5.3.0-13-generic #14+riscv64.5-Ubuntu SMP Wed Nov 13 20:10:41 UTC 2019 riscv64 sbuild (Debian sbuild) 0.79.0 (05 February 2020) on riscv64-qemu-lcy01-096 +==============================================================================+ | srst2 0.2.0-7 (riscv64) Mon, 06 Apr 2020 15:20:55 +0000 | +==============================================================================+ Package: srst2 Version: 0.2.0-7 Source Version: 0.2.0-7 Distribution: focal Machine Architecture: riscv64 Host Architecture: riscv64 Build Architecture: riscv64 Build Type: any I: NOTICE: Log filtering will replace 'home/buildd/build-PACKAGEBUILD-19112081/chroot-autobuild' with '<>' I: NOTICE: Log filtering will replace 'build/srst2-OkBpl9/resolver-aUO7Fp' with '<>' +------------------------------------------------------------------------------+ | Fetch source files | +------------------------------------------------------------------------------+ Local sources ------------- srst2_0.2.0-7.dsc exists in .; copying to chroot I: NOTICE: Log filtering will replace 'build/srst2-OkBpl9/srst2-0.2.0' with '<>' I: NOTICE: Log filtering will replace 'build/srst2-OkBpl9' with '<>' +------------------------------------------------------------------------------+ | Install package build dependencies | +------------------------------------------------------------------------------+ Setup apt archive ----------------- Merged Build-Depends: debhelper-compat (= 12), dh-python, python3, python3-setuptools, markdown, dos2unix, python3-mock, python3-scipy, bowtie2, samtools, build-essential, fakeroot Filtered Build-Depends: debhelper-compat (= 12), dh-python, python3, python3-setuptools, markdown, dos2unix, python3-mock, python3-scipy, bowtie2, samtools, build-essential, fakeroot 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 [434 B] Get:5 copy:/<>/apt_archive ./ Packages [505 B] Fetched 1896 B in 0s (5056 B/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 package was automatically installed and is no longer required: libgpm2 Use 'apt autoremove' to remove it. The following additional packages will be installed: autoconf automake autopoint autotools-dev bowtie2 bsdmainutils debhelper dh-autoreconf dh-python dh-strip-nondeterminism dos2unix dwz file gettext gettext-base groff-base intltool-debian libarchive-zip-perl libasn1-8-heimdal libblas3 libbrotli1 libbsd0 libcroco3 libcurl3-gnutls libdebhelper-perl libdeflate0 libelf1 libexpat1 libfile-stripnondeterminism-perl libgfortran5 libglib2.0-0 libgssapi-krb5-2 libgssapi3-heimdal libhcrypto4-heimdal libheimbase1-heimdal libheimntlm0-heimdal libhts3 libhx509-5-heimdal libicu66 libk5crypto3 libkeyutils1 libkrb5-26-heimdal libkrb5-3 libkrb5support0 liblapack3 liblbfgsb0 libldap-2.4-2 libldap-common libmagic-mgc libmagic1 libmpdec2 libncurses6 libnghttp2-14 libpipeline1 libpsl5 libpython3-stdlib libpython3.8-minimal libpython3.8-stdlib libroken18-heimdal librtmp1 libsasl2-2 libsasl2-modules-db libsigsegv2 libssh-4 libsub-override-perl libtool libuchardet0 libwind0-heimdal libxml2 m4 man-db markdown mime-support po-debconf python3 python3-decorator python3-distutils python3-lib2to3 python3-minimal python3-mock python3-numpy python3-pbr python3-pkg-resources python3-scipy python3-setuptools python3-six python3.8 python3.8-minimal samtools tzdata Suggested packages: autoconf-archive gnu-standards autoconf-doc bowtie2-examples wamerican | wordlist whois vacation dh-make gettext-doc libasprintf-dev libgettextpo-dev groff krb5-doc krb5-user libtool-doc gfortran | fortran95-compiler gcj-jdk m4-doc apparmor less www-browser libmail-box-perl python3-doc python3-tk python3-venv python-mock-doc gfortran python-numpy-doc python3-dev python3-pytest python3-numpy-dbg python-scipy-doc python-setuptools-doc python3.8-venv python3.8-doc binfmt-support Recommended packages: curl | wget | lynx libarchive-cpio-perl libglib2.0-data shared-mime-info xdg-user-dirs krb5-locales publicsuffix libsasl2-modules libltdl-dev libmail-sendmail-perl python3-pil cwltool The following NEW packages will be installed: autoconf automake autopoint autotools-dev bowtie2 bsdmainutils debhelper dh-autoreconf dh-python dh-strip-nondeterminism dos2unix dwz file gettext gettext-base groff-base intltool-debian libarchive-zip-perl libasn1-8-heimdal libblas3 libbrotli1 libbsd0 libcroco3 libcurl3-gnutls libdebhelper-perl libdeflate0 libelf1 libexpat1 libfile-stripnondeterminism-perl libgfortran5 libglib2.0-0 libgssapi-krb5-2 libgssapi3-heimdal libhcrypto4-heimdal libheimbase1-heimdal libheimntlm0-heimdal libhts3 libhx509-5-heimdal libicu66 libk5crypto3 libkeyutils1 libkrb5-26-heimdal libkrb5-3 libkrb5support0 liblapack3 liblbfgsb0 libldap-2.4-2 libldap-common libmagic-mgc libmagic1 libmpdec2 libncurses6 libnghttp2-14 libpipeline1 libpsl5 libpython3-stdlib libpython3.8-minimal libpython3.8-stdlib libroken18-heimdal librtmp1 libsasl2-2 libsasl2-modules-db libsigsegv2 libssh-4 libsub-override-perl libtool libuchardet0 libwind0-heimdal libxml2 m4 man-db markdown mime-support po-debconf python3 python3-decorator python3-distutils python3-lib2to3 python3-minimal python3-mock python3-numpy python3-pbr python3-pkg-resources python3-scipy python3-setuptools python3-six python3.8 python3.8-minimal samtools sbuild-build-depends-main-dummy tzdata 0 upgraded, 91 newly installed, 0 to remove and 0 not upgraded. Need to get 42.4 MB of archives. After this operation, 161 MB of additional disk space will be used. Get:1 copy:/<>/apt_archive ./ sbuild-build-depends-main-dummy 0.invalid.0 [936 B] Get:2 http://ftpmaster.internal/ubuntu focal/main riscv64 libpython3.8-minimal riscv64 3.8.2-1ubuntu1 [698 kB] Get:3 http://archive-team.internal/bootstrap/riscv64 focal/main riscv64 libldap-2.4-2 riscv64 2.4.49+dfsg-2ubuntu1 [137 kB] Get:4 http://ftpmaster.internal/ubuntu focal/main riscv64 libexpat1 riscv64 2.2.9-1build1 [68.8 kB] Get:5 http://ftpmaster.internal/ubuntu focal/main riscv64 python3.8-minimal riscv64 3.8.2-1ubuntu1 [1447 kB] Get:6 http://ftpmaster.internal/ubuntu focal/main riscv64 python3-minimal riscv64 3.8.2-0ubuntu2 [23.6 kB] Get:7 http://ftpmaster.internal/ubuntu focal/main riscv64 mime-support all 3.64ubuntu1 [30.6 kB] Get:8 http://ftpmaster.internal/ubuntu focal/main riscv64 libmpdec2 riscv64 2.4.2-3 [79.2 kB] Get:9 http://ftpmaster.internal/ubuntu focal/main riscv64 libpython3.8-stdlib riscv64 3.8.2-1ubuntu1 [1557 kB] Get:10 http://ftpmaster.internal/ubuntu focal/main riscv64 python3.8 riscv64 3.8.2-1ubuntu1 [364 kB] Get:11 http://ftpmaster.internal/ubuntu focal/main riscv64 libpython3-stdlib riscv64 3.8.2-0ubuntu2 [7072 B] Get:12 http://ftpmaster.internal/ubuntu focal/main riscv64 python3 riscv64 3.8.2-0ubuntu2 [47.6 kB] Get:13 http://ftpmaster.internal/ubuntu focal/main riscv64 libbsd0 riscv64 0.10.0-1 [42.0 kB] Get:14 http://ftpmaster.internal/ubuntu focal/main riscv64 bsdmainutils riscv64 11.1.2ubuntu3 [176 kB] Get:15 http://ftpmaster.internal/ubuntu focal/main riscv64 libuchardet0 riscv64 0.0.6-3build1 [64.9 kB] Get:16 http://ftpmaster.internal/ubuntu focal/main riscv64 groff-base riscv64 1.22.4-4build1 [816 kB] Get:17 http://ftpmaster.internal/ubuntu focal/main riscv64 libpipeline1 riscv64 1.5.2-2build1 [23.9 kB] Get:18 http://ftpmaster.internal/ubuntu focal/main riscv64 man-db riscv64 2.9.1-1 [1075 kB] Get:19 http://ftpmaster.internal/ubuntu focal/main riscv64 libncurses6 riscv64 6.2-0ubuntu2 [86.2 kB] Get:20 http://ftpmaster.internal/ubuntu focal/main riscv64 libmagic-mgc riscv64 1:5.38-4 [218 kB] Get:21 http://ftpmaster.internal/ubuntu focal/main riscv64 libmagic1 riscv64 1:5.38-4 [70.5 kB] Get:22 http://ftpmaster.internal/ubuntu focal/main riscv64 file riscv64 1:5.38-4 [22.5 kB] Get:23 http://ftpmaster.internal/ubuntu focal/main riscv64 libelf1 riscv64 0.176-1.1build1 [41.8 kB] Get:24 http://ftpmaster.internal/ubuntu focal/main riscv64 libglib2.0-0 riscv64 2.64.1-1 [1122 kB] Get:25 http://ftpmaster.internal/ubuntu focal/main riscv64 tzdata all 2019c-3ubuntu1 [294 kB] Get:26 http://ftpmaster.internal/ubuntu focal/main riscv64 libicu66 riscv64 66.1-2ubuntu2 [8406 kB] Get:27 http://ftpmaster.internal/ubuntu focal/main riscv64 libxml2 riscv64 2.9.10+dfsg-4build1 [558 kB] Get:28 http://ftpmaster.internal/ubuntu focal/main riscv64 python3-pkg-resources all 45.2.0-1 [130 kB] Get:29 http://ftpmaster.internal/ubuntu focal/main riscv64 python3-six all 1.14.0-2 [12.1 kB] Get:30 http://ftpmaster.internal/ubuntu focal/main riscv64 gettext-base riscv64 0.19.8.1-10build1 [47.4 kB] Get:31 http://ftpmaster.internal/ubuntu focal/main riscv64 libkrb5support0 riscv64 1.17-6ubuntu4 [28.3 kB] Get:32 http://ftpmaster.internal/ubuntu focal/main riscv64 libk5crypto3 riscv64 1.17-6ubuntu4 [91.8 kB] Get:33 http://ftpmaster.internal/ubuntu focal/main riscv64 libkeyutils1 riscv64 1.6-6ubuntu1 [9316 B] Get:34 http://ftpmaster.internal/ubuntu focal/main riscv64 libkrb5-3 riscv64 1.17-6ubuntu4 [295 kB] Get:35 http://ftpmaster.internal/ubuntu focal/main riscv64 libgssapi-krb5-2 riscv64 1.17-6ubuntu4 [107 kB] Get:36 http://ftpmaster.internal/ubuntu focal/main riscv64 libpsl5 riscv64 0.21.0-1ubuntu1 [50.5 kB] Get:37 http://ftpmaster.internal/ubuntu focal/main riscv64 libsigsegv2 riscv64 2.12-2 [13.0 kB] Get:38 http://ftpmaster.internal/ubuntu focal/main riscv64 m4 riscv64 1.4.18-4 [188 kB] Get:39 http://ftpmaster.internal/ubuntu focal/main riscv64 autoconf all 2.69-11.1 [321 kB] Get:40 http://ftpmaster.internal/ubuntu focal/main riscv64 autotools-dev all 20180224.1 [39.6 kB] Get:41 http://ftpmaster.internal/ubuntu focal/main riscv64 automake all 1:1.16.1-4ubuntu6 [522 kB] Get:42 http://ftpmaster.internal/ubuntu focal/main riscv64 autopoint all 0.19.8.1-10build1 [412 kB] Get:43 http://ftpmaster.internal/ubuntu focal-proposed/main riscv64 libtool all 2.4.6-14 [161 kB] Get:44 http://ftpmaster.internal/ubuntu focal/main riscv64 dh-autoreconf all 19 [16.1 kB] Get:45 http://ftpmaster.internal/ubuntu focal-proposed/main riscv64 libdebhelper-perl all 12.10ubuntu1 [62.1 kB] Get:46 http://ftpmaster.internal/ubuntu focal/main riscv64 libarchive-zip-perl all 1.67-2 [90.5 kB] Get:47 http://ftpmaster.internal/ubuntu focal/main riscv64 libsub-override-perl all 0.09-2 [9532 B] Get:48 http://ftpmaster.internal/ubuntu focal/main riscv64 libfile-stripnondeterminism-perl all 1.6.3-2 [16.0 kB] Get:49 http://ftpmaster.internal/ubuntu focal/main riscv64 dh-strip-nondeterminism all 1.6.3-2 [5228 B] Get:50 http://ftpmaster.internal/ubuntu focal/main riscv64 dwz riscv64 0.13-5 [147 kB] Get:51 http://ftpmaster.internal/ubuntu focal/main riscv64 libcroco3 riscv64 0.6.13-1 [71.1 kB] Get:52 http://ftpmaster.internal/ubuntu focal/main riscv64 gettext riscv64 0.19.8.1-10build1 [844 kB] Get:53 http://ftpmaster.internal/ubuntu focal/main riscv64 intltool-debian all 0.35.0+20060710.5 [24.9 kB] Get:54 http://ftpmaster.internal/ubuntu focal/main riscv64 po-debconf all 1.0.21 [233 kB] Get:55 http://ftpmaster.internal/ubuntu focal-proposed/main riscv64 debhelper all 12.10ubuntu1 [877 kB] Get:56 http://ftpmaster.internal/ubuntu focal/main riscv64 python3-lib2to3 all 3.8.2-1ubuntu1 [74.1 kB] Get:57 http://ftpmaster.internal/ubuntu focal/main riscv64 python3-distutils all 3.8.2-1ubuntu1 [140 kB] Get:58 http://ftpmaster.internal/ubuntu focal-proposed/universe riscv64 dh-python all 4.20200315 [85.8 kB] Get:59 http://ftpmaster.internal/ubuntu focal/main riscv64 libroken18-heimdal riscv64 7.7.0+dfsg-1ubuntu1 [36.5 kB] Get:60 http://ftpmaster.internal/ubuntu focal/main riscv64 libasn1-8-heimdal riscv64 7.7.0+dfsg-1ubuntu1 [145 kB] Get:61 http://ftpmaster.internal/ubuntu focal/main riscv64 libblas3 riscv64 3.9.0-1build1 [106 kB] Get:62 http://ftpmaster.internal/ubuntu focal/main riscv64 libbrotli1 riscv64 1.0.7-6build1 [279 kB] Get:63 http://ftpmaster.internal/ubuntu focal/main riscv64 libheimbase1-heimdal riscv64 7.7.0+dfsg-1ubuntu1 [24.7 kB] Get:64 http://ftpmaster.internal/ubuntu focal/main riscv64 libhcrypto4-heimdal riscv64 7.7.0+dfsg-1ubuntu1 [86.5 kB] Get:65 http://ftpmaster.internal/ubuntu focal/main riscv64 libwind0-heimdal riscv64 7.7.0+dfsg-1ubuntu1 [47.0 kB] Get:66 http://ftpmaster.internal/ubuntu focal/main riscv64 libhx509-5-heimdal riscv64 7.7.0+dfsg-1ubuntu1 [90.1 kB] Get:67 http://ftpmaster.internal/ubuntu focal/main riscv64 libkrb5-26-heimdal riscv64 7.7.0+dfsg-1ubuntu1 [175 kB] Get:68 http://ftpmaster.internal/ubuntu focal/main riscv64 libheimntlm0-heimdal riscv64 7.7.0+dfsg-1ubuntu1 [13.4 kB] Get:69 http://ftpmaster.internal/ubuntu focal/main riscv64 libgssapi3-heimdal riscv64 7.7.0+dfsg-1ubuntu1 [83.3 kB] Get:70 http://ftpmaster.internal/ubuntu focal/main riscv64 libsasl2-modules-db riscv64 2.1.27+dfsg-2 [13.7 kB] Get:71 http://ftpmaster.internal/ubuntu focal/main riscv64 libsasl2-2 riscv64 2.1.27+dfsg-2 [45.2 kB] Get:72 http://ftpmaster.internal/ubuntu focal/main riscv64 libldap-common all 2.4.49+dfsg-2ubuntu1 [17.3 kB] Get:73 http://ftpmaster.internal/ubuntu focal/main riscv64 libnghttp2-14 riscv64 1.40.0-1build1 [70.9 kB] Get:74 http://ftpmaster.internal/ubuntu focal/main riscv64 librtmp1 riscv64 2.4+20151223.gitfa8646d.1-2build1 [50.8 kB] Get:75 http://ftpmaster.internal/ubuntu focal/main riscv64 libssh-4 riscv64 0.9.3-2ubuntu1 [147 kB] Get:76 http://ftpmaster.internal/ubuntu focal/main riscv64 libcurl3-gnutls riscv64 7.68.0-1ubuntu1 [205 kB] Get:77 http://ftpmaster.internal/ubuntu focal/universe riscv64 libdeflate0 riscv64 1.5-3 [52.1 kB] Get:78 http://ftpmaster.internal/ubuntu focal/main riscv64 libgfortran5 riscv64 10-20200324-1ubuntu1 [329 kB] Get:79 http://ftpmaster.internal/ubuntu focal/universe riscv64 libhts3 riscv64 1.10.2-3 [328 kB] Get:80 http://ftpmaster.internal/ubuntu focal/main riscv64 liblapack3 riscv64 3.9.0-1build1 [1669 kB] Get:81 http://ftpmaster.internal/ubuntu focal/universe riscv64 liblbfgsb0 riscv64 3.0+dfsg.3-7build1 [26.3 kB] Get:82 http://ftpmaster.internal/ubuntu focal/universe riscv64 markdown all 1.0.1-10 [17.5 kB] Get:83 http://ftpmaster.internal/ubuntu focal/main riscv64 python3-decorator all 4.4.2-0ubuntu1 [10.3 kB] Get:84 http://ftpmaster.internal/ubuntu focal/main riscv64 python3-numpy riscv64 1:1.17.4-5ubuntu3 [2509 kB] Get:85 http://ftpmaster.internal/ubuntu focal/main riscv64 python3-setuptools all 45.2.0-1 [330 kB] Get:86 http://ftpmaster.internal/ubuntu focal/main riscv64 python3-pbr all 5.4.4-0ubuntu1 [64.0 kB] Get:87 http://ftpmaster.internal/ubuntu focal/universe riscv64 samtools riscv64 1.10-3 [486 kB] Get:88 http://ftpmaster.internal/ubuntu focal/universe riscv64 bowtie2 riscv64 2.3.5.1-6build1 [1486 kB] Get:89 http://ftpmaster.internal/ubuntu focal/universe riscv64 dos2unix riscv64 7.4.0-2 [371 kB] Get:90 http://ftpmaster.internal/ubuntu focal/universe riscv64 python3-mock all 3.0.5-1build1 [25.6 kB] Get:91 http://ftpmaster.internal/ubuntu focal/universe riscv64 python3-scipy riscv64 1.3.3-3build1 [10.4 MB] debconf: delaying package configuration, since apt-utils is not installed Fetched 42.4 MB in 10s (4460 kB/s) Selecting previously unselected package libpython3.8-minimal:riscv64. (Reading database ... 9816 files and directories currently installed.) Preparing to unpack .../libpython3.8-minimal_3.8.2-1ubuntu1_riscv64.deb ... Unpacking libpython3.8-minimal:riscv64 (3.8.2-1ubuntu1) ... Selecting previously unselected package libexpat1:riscv64. Preparing to unpack .../libexpat1_2.2.9-1build1_riscv64.deb ... Unpacking libexpat1:riscv64 (2.2.9-1build1) ... Selecting previously unselected package python3.8-minimal. Preparing to unpack .../python3.8-minimal_3.8.2-1ubuntu1_riscv64.deb ... Unpacking python3.8-minimal (3.8.2-1ubuntu1) ... Setting up libpython3.8-minimal:riscv64 (3.8.2-1ubuntu1) ... Setting up libexpat1:riscv64 (2.2.9-1build1) ... Setting up python3.8-minimal (3.8.2-1ubuntu1) ... Selecting previously unselected package python3-minimal. (Reading database ... 10107 files and directories currently installed.) Preparing to unpack .../0-python3-minimal_3.8.2-0ubuntu2_riscv64.deb ... Unpacking python3-minimal (3.8.2-0ubuntu2) ... 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Setting up libglib2.0-0:riscv64 (2.64.1-1) ... No schema files found: doing nothing. Setting up libdebhelper-perl (12.10ubuntu1) ... Setting up libbrotli1:riscv64 (1.0.7-6build1) ... Setting up libnghttp2-14:riscv64 (1.40.0-1build1) ... Setting up libmagic1:riscv64 (1:5.38-4) ... Setting up libdeflate0 (1.5-3) ... Setting up gettext-base (0.19.8.1-10build1) ... Setting up file (1:5.38-4) ... Setting up libldap-common (2.4.49+dfsg-2ubuntu1) ... Setting up libkrb5support0:riscv64 (1.17-6ubuntu4) ... Setting up libsasl2-modules-db:riscv64 (2.1.27+dfsg-2) ... Setting up tzdata (2019c-3ubuntu1) ... Current default time zone: 'Etc/UTC' Local time is now: Mon Apr 6 15:24:08 UTC 2020. Universal Time is now: Mon Apr 6 15:24:08 UTC 2020. Run 'dpkg-reconfigure tzdata' if you wish to change it. Setting up autotools-dev (20180224.1) ... Setting up libblas3:riscv64 (3.9.0-1build1) ... update-alternatives: using /usr/lib/riscv64-linux-gnu/blas/libblas.so.3 to provide /usr/lib/riscv64-linux-gnu/libblas.so.3 (libblas.so.3-riscv64-linux-gnu) in auto mode Setting up librtmp1:riscv64 (2.4+20151223.gitfa8646d.1-2build1) ... Setting up libncurses6:riscv64 (6.2-0ubuntu2) ... Setting up libsigsegv2:riscv64 (2.12-2) ... Setting up autopoint (0.19.8.1-10build1) ... Setting up libk5crypto3:riscv64 (1.17-6ubuntu4) ... Setting up libsasl2-2:riscv64 (2.1.27+dfsg-2) ... Setting up libgfortran5:riscv64 (10-20200324-1ubuntu1) ... Setting up libroken18-heimdal:riscv64 (7.7.0+dfsg-1ubuntu1) ... Setting up libuchardet0:riscv64 (0.0.6-3build1) ... Setting up libsub-override-perl (0.09-2) ... Setting up libkrb5-3:riscv64 (1.17-6ubuntu4) ... Setting up dos2unix (7.4.0-2) ... Setting up libmpdec2:riscv64 (2.4.2-3) ... Setting up libpython3.8-stdlib:riscv64 (3.8.2-1ubuntu1) ... Setting up python3.8 (3.8.2-1ubuntu1) ... Setting up libbsd0:riscv64 (0.10.0-1) ... Setting up libelf1:riscv64 (0.176-1.1build1) ... Setting up markdown (1.0.1-10) ... Setting up libpython3-stdlib:riscv64 (3.8.2-0ubuntu2) ... Setting up libheimbase1-heimdal:riscv64 (7.7.0+dfsg-1ubuntu1) ... Setting up libfile-stripnondeterminism-perl (1.6.3-2) ... Setting up liblapack3:riscv64 (3.9.0-1build1) ... update-alternatives: using /usr/lib/riscv64-linux-gnu/lapack/liblapack.so.3 to provide /usr/lib/riscv64-linux-gnu/liblapack.so.3 (liblapack.so.3-riscv64-linux-gnu) in auto mode Setting up libtool (2.4.6-14) ... Setting up libicu66:riscv64 (66.1-2ubuntu2) ... Setting up libasn1-8-heimdal:riscv64 (7.7.0+dfsg-1ubuntu1) ... Setting up m4 (1.4.18-4) ... Setting up python3 (3.8.2-0ubuntu2) ... Setting up libhcrypto4-heimdal:riscv64 (7.7.0+dfsg-1ubuntu1) ... Setting up bowtie2 (2.3.5.1-6build1) ... Setting up python3-six (1.14.0-2) ... Setting up python3-decorator (4.4.2-0ubuntu1) ... Setting up libwind0-heimdal:riscv64 (7.7.0+dfsg-1ubuntu1) ... Setting up bsdmainutils (11.1.2ubuntu3) ... update-alternatives: using /usr/bin/bsd-write to provide /usr/bin/write (write) in auto mode update-alternatives: using /usr/bin/bsd-from to provide /usr/bin/from (from) in auto mode Setting up libgssapi-krb5-2:riscv64 (1.17-6ubuntu4) ... Setting up libssh-4:riscv64 (0.9.3-2ubuntu1) ... Setting up autoconf (2.69-11.1) ... Setting up dh-strip-nondeterminism (1.6.3-2) ... Setting up dwz (0.13-5) ... Setting up groff-base (1.22.4-4build1) ... Setting up python3-lib2to3 (3.8.2-1ubuntu1) ... Setting up libxml2:riscv64 (2.9.10+dfsg-4build1) ... Setting up liblbfgsb0:riscv64 (3.0+dfsg.3-7build1) ... Setting up python3-pkg-resources (45.2.0-1) ... Setting up automake (1:1.16.1-4ubuntu6) ... update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode Setting up python3-distutils (3.8.2-1ubuntu1) ... Setting up dh-python (4.20200315) ... Setting up python3-setuptools (45.2.0-1) ... Setting up python3-pbr (5.4.4-0ubuntu1) ... update-alternatives: using /usr/bin/python3-pbr to provide /usr/bin/pbr (pbr) in auto mode Setting up libhx509-5-heimdal:riscv64 (7.7.0+dfsg-1ubuntu1) ... Setting up man-db (2.9.1-1) ... Not building database; man-db/auto-update is not 'true'. Setting up python3-mock (3.0.5-1build1) ... Setting up libcroco3:riscv64 (0.6.13-1) ... Setting up python3-numpy (1:1.17.4-5ubuntu3) ... Setting up libkrb5-26-heimdal:riscv64 (7.7.0+dfsg-1ubuntu1) ... Setting up gettext (0.19.8.1-10build1) ... Setting up python3-scipy (1.3.3-3build1) ... Setting up libheimntlm0-heimdal:riscv64 (7.7.0+dfsg-1ubuntu1) ... Setting up intltool-debian (0.35.0+20060710.5) ... Setting up libgssapi3-heimdal:riscv64 (7.7.0+dfsg-1ubuntu1) ... Setting up po-debconf (1.0.21) ... Setting up libldap-2.4-2:riscv64 (2.4.49+dfsg-2ubuntu1) ... Setting up libcurl3-gnutls:riscv64 (7.68.0-1ubuntu1) ... Setting up libhts3:riscv64 (1.10.2-3) ... Setting up samtools (1.10-3) ... Setting up dh-autoreconf (19) ... Setting up debhelper (12.10ubuntu1) ... Setting up sbuild-build-depends-main-dummy (0.invalid.0) ... Processing triggers for libc-bin (2.31-0ubuntu7) ... +------------------------------------------------------------------------------+ | Check architectures | +------------------------------------------------------------------------------+ Arch check ok (riscv64 included in any) +------------------------------------------------------------------------------+ | Build environment | +------------------------------------------------------------------------------+ Kernel: Linux 5.3.0-13-generic #14+riscv64.5-Ubuntu SMP Wed Nov 13 20:10:41 UTC 2019 riscv64 (riscv64) Toolchain package versions: binutils_2.34-5ubuntu1 dpkg-dev_1.19.7ubuntu3 g++-9_9.3.0-10ubuntu1 gcc-9_9.3.0-10ubuntu1 libc6-dev_2.31-0ubuntu7 libstdc++-9-dev_9.3.0-10ubuntu1 libstdc++6_10-20200324-1ubuntu1 linux-libc-dev_5.4.0-21.25 Package versions: adduser_3.118ubuntu1 advancecomp_2.1-2.1build1 apt_2.0.1ubuntu1 autoconf_2.69-11.1 automake_1:1.16.1-4ubuntu6 autopoint_0.19.8.1-10build1 autotools-dev_20180224.1 base-files_11ubuntu4 base-passwd_3.5.47 bash_5.0-6ubuntu1 binutils_2.34-5ubuntu1 binutils-common_2.34-5ubuntu1 binutils-riscv64-linux-gnu_2.34-5ubuntu1 bowtie2_2.3.5.1-6build1 bsdmainutils_11.1.2ubuntu3 bsdutils_1:2.34-0.1ubuntu8 build-essential_12.8ubuntu1 bzip2_1.0.8-2 ca-certificates_20190110ubuntu1 coreutils_8.30-3ubuntu2 cpp_4:9.3.0-1ubuntu2 cpp-9_9.3.0-10ubuntu1 dash_0.5.10.2-6 debconf_1.5.73 debhelper_12.10ubuntu1 debianutils_4.9.1 dh-autoreconf_19 dh-python_4.20200315 dh-strip-nondeterminism_1.6.3-2 diffutils_1:3.7-3 dos2unix_7.4.0-2 dpkg_1.19.7ubuntu3 dpkg-dev_1.19.7ubuntu3 dwz_0.13-5 e2fsprogs_1.45.5-2ubuntu1 fakeroot_1.24-1 file_1:5.38-4 findutils_4.7.0-1ubuntu1 g++_4:9.3.0-1ubuntu2 g++-9_9.3.0-10ubuntu1 gcc_4:9.3.0-1ubuntu2 gcc-10-base_10-20200324-1ubuntu1 gcc-8-base_8.4.0-3ubuntu2 gcc-9_9.3.0-10ubuntu1 gcc-9-base_9.3.0-10ubuntu1 gettext_0.19.8.1-10build1 gettext-base_0.19.8.1-10build1 gpg_2.2.19-3ubuntu2 gpg-agent_2.2.19-3ubuntu2 gpgconf_2.2.19-3ubuntu2 gpgv_2.2.19-3ubuntu2 grep_3.4-1 groff-base_1.22.4-4build1 gzip_1.10-0ubuntu4 hostname_3.23 init-system-helpers_1.57 intltool-debian_0.35.0+20060710.5 libacl1_2.2.53-6 libapt-pkg6.0_2.0.1ubuntu1 libarchive-zip-perl_1.67-2 libasn1-8-heimdal_7.7.0+dfsg-1ubuntu1 libassuan0_2.5.3-7ubuntu2 libatomic1_10-20200324-1ubuntu1 libattr1_1:2.4.48-5 libaudit-common_1:2.8.5-2ubuntu6 libaudit1_1:2.8.5-2ubuntu6 libbinutils_2.34-5ubuntu1 libblas3_3.9.0-1build1 libblkid1_2.34-0.1ubuntu8 libbrotli1_1.0.7-6build1 libbsd0_0.10.0-1 libbz2-1.0_1.0.8-2 libc-bin_2.31-0ubuntu7 libc-dev-bin_2.31-0ubuntu7 libc6_2.31-0ubuntu7 libc6-dev_2.31-0ubuntu7 libcap-ng0_0.7.9-2.1build1 libcc1-0_10-20200324-1ubuntu1 libcom-err2_1.45.5-2ubuntu1 libcroco3_0.6.13-1 libcrypt-dev_1:4.4.10-10ubuntu4 libcrypt1_1:4.4.10-10ubuntu4 libctf-nobfd0_2.34-5ubuntu1 libctf0_2.34-5ubuntu1 libcurl3-gnutls_7.68.0-1ubuntu1 libdb5.3_5.3.28+dfsg1-0.6ubuntu2 libdebconfclient0_0.251ubuntu1 libdebhelper-perl_12.10ubuntu1 libdeflate0_1.5-3 libdpkg-perl_1.19.7ubuntu3 libelf1_0.176-1.1build1 libexpat1_2.2.9-1build1 libext2fs2_1.45.5-2ubuntu1 libfakeroot_1.24-1 libffi7_3.3-4 libfile-stripnondeterminism-perl_1.6.3-2 libgcc-9-dev_9.3.0-10ubuntu1 libgcc-s1_10-20200324-1ubuntu1 libgcc1_1:10-20200324-1ubuntu1 libgcrypt20_1.8.5-5ubuntu1 libgdbm-compat4_1.18.1-5 libgdbm6_1.18.1-5 libgfortran5_10-20200324-1ubuntu1 libglib2.0-0_2.64.1-1 libgmp10_2:6.2.0+dfsg-4 libgnutls30_3.6.13-2ubuntu1 libgomp1_10-20200324-1ubuntu1 libgpg-error0_1.37-1 libgpm2_1.20.7-5 libgssapi-krb5-2_1.17-6ubuntu4 libgssapi3-heimdal_7.7.0+dfsg-1ubuntu1 libhcrypto4-heimdal_7.7.0+dfsg-1ubuntu1 libheimbase1-heimdal_7.7.0+dfsg-1ubuntu1 libheimntlm0-heimdal_7.7.0+dfsg-1ubuntu1 libhogweed5_3.5.1+really3.5.1-2 libhts3_1.10.2-3 libhx509-5-heimdal_7.7.0+dfsg-1ubuntu1 libicu66_66.1-2ubuntu2 libidn2-0_2.2.0-2 libisl22_0.22.1-1 libk5crypto3_1.17-6ubuntu4 libkeyutils1_1.6-6ubuntu1 libkrb5-26-heimdal_7.7.0+dfsg-1ubuntu1 libkrb5-3_1.17-6ubuntu4 libkrb5support0_1.17-6ubuntu4 liblapack3_3.9.0-1build1 liblbfgsb0_3.0+dfsg.3-7build1 libldap-2.4-2_2.4.49+dfsg-2ubuntu1 libldap-common_2.4.49+dfsg-2ubuntu1 liblocale-gettext-perl_1.07-4 liblockfile-bin_1.16-1.1 liblockfile1_1.16-1.1 liblz4-1_1.9.2-2 liblzma5_5.2.4-1 libmagic-mgc_1:5.38-4 libmagic1_1:5.38-4 libmount1_2.34-0.1ubuntu8 libmpc3_1.1.0-1 libmpdec2_2.4.2-3 libmpfr6_4.0.2-1 libncurses6_6.2-0ubuntu2 libncursesw6_6.2-0ubuntu2 libnettle7_3.5.1+really3.5.1-2 libnghttp2-14_1.40.0-1build1 libnpth0_1.6-1 libp11-kit0_0.23.20-1build1 libpam-modules_1.3.1-5ubuntu4 libpam-modules-bin_1.3.1-5ubuntu4 libpam-runtime_1.3.1-5ubuntu4 libpam0g_1.3.1-5ubuntu4 libpcre2-8-0_10.34-7 libpcre3_2:8.39-12build1 libperl5.30_5.30.0-9build1 libpipeline1_1.5.2-2build1 libpng16-16_1.6.37-2 libpsl5_0.21.0-1ubuntu1 libpython3-stdlib_3.8.2-0ubuntu2 libpython3.8-minimal_3.8.2-1ubuntu1 libpython3.8-stdlib_3.8.2-1ubuntu1 libreadline8_8.0-4 libroken18-heimdal_7.7.0+dfsg-1ubuntu1 librtmp1_2.4+20151223.gitfa8646d.1-2build1 libsasl2-2_2.1.27+dfsg-2 libsasl2-modules-db_2.1.27+dfsg-2 libselinux1_3.0-1build2 libsemanage-common_3.0-1build2 libsemanage1_3.0-1build2 libsepol1_3.0-1 libsigsegv2_2.12-2 libsmartcols1_2.34-0.1ubuntu8 libsqlite3-0_3.31.1-4 libss2_1.45.5-2ubuntu1 libssh-4_0.9.3-2ubuntu1 libssl1.1_1.1.1d-2ubuntu6 libstdc++-9-dev_9.3.0-10ubuntu1 libstdc++6_10-20200324-1ubuntu1 libsub-override-perl_0.09-2 libsystemd0_245.2-1ubuntu3 libtasn1-6_4.16.0-2 libtext-charwidth-perl_0.04-10 libtext-iconv-perl_1.7-7 libtinfo6_6.2-0ubuntu2 libtool_2.4.6-14 libuchardet0_0.0.6-3build1 libudev1_245.2-1ubuntu3 libunistring2_0.9.10-2 libuuid1_2.34-0.1ubuntu8 libwind0-heimdal_7.7.0+dfsg-1ubuntu1 libxml2_2.9.10+dfsg-4build1 libzstd1_1.4.4+dfsg-3 linux-libc-dev_5.4.0-21.25 lockfile-progs_0.1.18 login_1:4.8.1-1ubuntu4 logsave_1.45.5-2ubuntu1 lsb-base_11.1.0ubuntu2 m4_1.4.18-4 make_4.2.1-1.2 man-db_2.9.1-1 markdown_1.0.1-10 mawk_1.3.4.20200120-2 mime-support_3.64ubuntu1 mount_2.34-0.1ubuntu8 ncurses-base_6.2-0ubuntu2 ncurses-bin_6.2-0ubuntu2 openssl_1.1.1d-2ubuntu6 optipng_0.7.7-1 passwd_1:4.8.1-1ubuntu4 patch_2.7.6-6 perl_5.30.0-9build1 perl-base_5.30.0-9build1 perl-modules-5.30_5.30.0-9build1 pinentry-curses_1.1.0-3build1 pkgbinarymangler_144 po-debconf_1.0.21 policyrcd-script-zg2_0.1-3 python3_3.8.2-0ubuntu2 python3-decorator_4.4.2-0ubuntu1 python3-distutils_3.8.2-1ubuntu1 python3-lib2to3_3.8.2-1ubuntu1 python3-minimal_3.8.2-0ubuntu2 python3-mock_3.0.5-1build1 python3-numpy_1:1.17.4-5ubuntu3 python3-pbr_5.4.4-0ubuntu1 python3-pkg-resources_45.2.0-1 python3-scipy_1.3.3-3build1 python3-setuptools_45.2.0-1 python3-six_1.14.0-2 python3.8_3.8.2-1ubuntu1 python3.8-minimal_3.8.2-1ubuntu1 readline-common_8.0-4 samtools_1.10-3 sbuild-build-depends-main-dummy_0.invalid.0 sed_4.7-1 sensible-utils_0.0.12+nmu1 sysvinit-utils_2.96-2.1ubuntu1 tar_1.30+dfsg-7 tzdata_2019c-3ubuntu1 ubuntu-keyring_2020.02.11.1 util-linux_2.34-0.1ubuntu8 xz-utils_5.2.4-1 zlib1g_1:1.2.11.dfsg-2ubuntu1 +------------------------------------------------------------------------------+ | Build | +------------------------------------------------------------------------------+ Unpack source ------------- -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA256 Format: 3.0 (quilt) Source: srst2 Binary: srst2 Architecture: any Version: 0.2.0-7 Maintainer: Debian Med Packaging Team Uploaders: Andreas Tille Homepage: https://katholt.github.io/srst2/ Standards-Version: 4.4.1 Vcs-Browser: https://salsa.debian.org/med-team/srst2 Vcs-Git: https://salsa.debian.org/med-team/srst2.git Testsuite: autopkgtest Testsuite-Triggers: python3-mock Build-Depends: debhelper-compat (= 12), dh-python, python3, python3-setuptools, markdown, dos2unix, python3-mock , python3-scipy , bowtie2 , samtools Package-List: srst2 deb science optional arch=any Checksums-Sha1: b10c53e3a16271e4506ce253200410884b02679a 1380071 srst2_0.2.0.orig.tar.gz fc72b843454055b998d889b78fca52b87fd2f288 17132 srst2_0.2.0-7.debian.tar.xz Checksums-Sha256: 352c59bdf00039dfa5610a4b88049a0eb114d7c2a305d4924b6e605cc6d15123 1380071 srst2_0.2.0.orig.tar.gz e4b95ccf8bf104825f5f0232c76d94b15bbcb997d7f502a4a9a47a59488ec90a 17132 srst2_0.2.0-7.debian.tar.xz Files: ef447fc394d2f60adc2a32edd6ebe374 1380071 srst2_0.2.0.orig.tar.gz aee640d0197ac9809809844a398a0707 17132 srst2_0.2.0-7.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQJFBAEBCAAvFiEE8fAHMgoDVUHwpmPKV4oElNHGRtEFAl3xFYQRHHRpbGxlQGRl Ymlhbi5vcmcACgkQV4oElNHGRtEuYw/9H84/a5oYZlSw8tnOoQOdcP1JXY2HwpJE X+228sojB41jgp2qe2WQXlGvCF3PJCZU5dV2CqmIk+PTvkY6+iXD6SUFoADQwN8t P7ewTgNKGk8hLyI1jbvk3p7354ft7bwKKkU2rAyzU2w1jou5UNvV+Xbj3RNa4SxB lNeA8ddsOxvzcLG0eFR8ng98CVQkdwFkuRzzbikm6vnFP0Fv9AUnrTI9fgJl1sVt xw5AozZn2Z1Nh3W+Eqpo8QsCjr71cnniNUWSNZcLJMYOIPIn8GWPAHAUFCm0drkv l5WBSEWIX5Gs3DlV8hLg1jIIUiSllzWJu+AnZ1AfH2xDNxx/y8D3E2m8FL3AnW97 89kwOLq3PCqxLlVnh75lwZbs7ntMShypfE8TLThxrN1fyBMXM1mUk6yewhUNAs2I k96N+3VppGCwtd8o9EPv8jo02oRUfSGWwY0adIyFddHEgLLqmlXB0v5n5Cayc0e6 /KwgmV2nZKR4+c6m5iLvPfevdErjp4susz9JUr7kDd2juSNKdiPUI3ORXut+W3sH IYodP/XbV1XV8dGqcgH7pSAsvNsyQFOpBVjRGOMA+2npFeQokdw4MlBne8qpJkLz 5gOUi649kUkOs8joLdZDPaG1QxyzfXKIAB+x2FCQPNuHh7S9II/S8Oteuwjz8x/S eocPqH6Kxlw= =YgNd -----END PGP SIGNATURE----- gpgv: Signature made Wed Dec 11 16:12:52 2019 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 ./srst2_0.2.0-7.dsc dpkg-source: info: extracting srst2 in /<> dpkg-source: info: unpacking srst2_0.2.0.orig.tar.gz dpkg-source: info: unpacking srst2_0.2.0-7.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying check_command_line_arguments.patch dpkg-source: info: applying add_usr_bin_python_to_scripts.patch dpkg-source: info: applying fix_test.patch dpkg-source: info: applying fix_grep_call.patch dpkg-source: info: applying 2to3.patch Check disk space ---------------- Sufficient free space for build User Environment ---------------- APT_CONFIG=/var/lib/sbuild/apt.conf DEB_BUILD_OPTIONS=parallel=4 HOME=/sbuild-nonexistent LANG=C.UTF-8 LC_ALL=C.UTF-8 LOGNAME=buildd PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games SCHROOT_ALIAS_NAME=build-PACKAGEBUILD-19112081 SCHROOT_CHROOT_NAME=build-PACKAGEBUILD-19112081 SCHROOT_COMMAND=env SCHROOT_GID=2501 SCHROOT_GROUP=buildd SCHROOT_SESSION_ID=build-PACKAGEBUILD-19112081 SCHROOT_UID=2001 SCHROOT_USER=buildd SHELL=/bin/sh TERM=unknown USER=buildd V=1 dpkg-buildpackage ----------------- Command: dpkg-buildpackage -us -uc -mLaunchpad Build Daemon -B -rfakeroot dpkg-buildpackage: info: source package srst2 dpkg-buildpackage: info: source version 0.2.0-7 dpkg-buildpackage: info: source distribution unstable dpkg-source --before-build . dpkg-buildpackage: info: host architecture riscv64 fakeroot debian/rules clean dh clean --with python3 --buildsystem=pybuild dh_auto_clean -O--buildsystem=pybuild I: pybuild base:217: python3.8 setup.py clean running clean removing '/<>/.pybuild/cpython3_3.8/build' (and everything under it) /usr/lib/python3.8/distutils/dist.py:274: UserWarning: Unknown distribution option: 'entry_points' warnings.warn(msg) /usr/lib/python3.8/distutils/dist.py:274: UserWarning: Unknown distribution option: 'install_requires' warnings.warn(msg) 'build/bdist.linux-riscv64' does not exist -- can't clean it 'build/scripts-3.8' does not exist -- can't clean it dh_autoreconf_clean -O--buildsystem=pybuild dh_clean -O--buildsystem=pybuild debian/rules build-arch dh build-arch --with python3 --buildsystem=pybuild dh_update_autotools_config -a -O--buildsystem=pybuild dh_autoreconf -a -O--buildsystem=pybuild dh_auto_configure -a -O--buildsystem=pybuild I: pybuild base:217: python3.8 setup.py config running config /usr/lib/python3.8/distutils/dist.py:274: UserWarning: Unknown distribution option: 'entry_points' warnings.warn(msg) /usr/lib/python3.8/distutils/dist.py:274: UserWarning: Unknown distribution option: 'install_requires' warnings.warn(msg) debian/rules override_dh_auto_build make[1]: Entering directory '/<>' dh_auto_build I: pybuild base:217: /usr/bin/python3 setup.py build running build running build_py creating /<>/.pybuild/cpython3_3.8/build/srst2 copying scripts/version.py -> /<>/.pybuild/cpython3_3.8/build/srst2 copying scripts/__init__.py -> /<>/.pybuild/cpython3_3.8/build/srst2 copying scripts/srst2.py -> /<>/.pybuild/cpython3_3.8/build/srst2 copying scripts/getmlst.py -> /<>/.pybuild/cpython3_3.8/build/srst2 copying scripts/qsub_srst2.py -> /<>/.pybuild/cpython3_3.8/build/srst2 copying scripts/consensus_alignment.py -> /<>/.pybuild/cpython3_3.8/build/srst2 copying scripts/analyseSRST2.py -> /<>/.pybuild/cpython3_3.8/build/srst2 copying scripts/slurm_srst2.py -> /<>/.pybuild/cpython3_3.8/build/srst2 running build_scripts creating build creating build/scripts-3.8 copying and adjusting scripts/getmlst.py -> build/scripts-3.8 copying and adjusting scripts/slurm_srst2.py -> build/scripts-3.8 changing mode of build/scripts-3.8/getmlst.py from 644 to 755 changing mode of build/scripts-3.8/slurm_srst2.py from 644 to 755 /usr/lib/python3.8/distutils/dist.py:274: UserWarning: Unknown distribution option: 'entry_points' warnings.warn(msg) /usr/lib/python3.8/distutils/dist.py:274: UserWarning: Unknown distribution option: 'install_requires' warnings.warn(msg) markdown README.md > README.html markdown database_clustering/README.md > database_clustering_README.html make[1]: Leaving directory '/<>' debian/rules override_dh_auto_test make[1]: Entering directory '/<>' cd tests && python3 test_slurm_srst2.py && python3 test_srst2.py ........... ---------------------------------------------------------------------- Ran 11 tests in 0.571s OK ................. ---------------------------------------------------------------------- Ran 17 tests in 0.834s OK make[1]: Leaving directory '/<>' create-stamp debian/debhelper-build-stamp fakeroot debian/rules binary-arch dh binary-arch --with python3 --buildsystem=pybuild dh_testroot -a -O--buildsystem=pybuild dh_prep -a -O--buildsystem=pybuild dh_auto_install -a -O--buildsystem=pybuild I: pybuild base:217: /usr/bin/python3 setup.py install --root /<>/debian/srst2 running install running build running build_py running build_scripts running install_lib creating /<>/debian/srst2/usr creating /<>/debian/srst2/usr/lib creating /<>/debian/srst2/usr/lib/python3.8 creating /<>/debian/srst2/usr/lib/python3.8/dist-packages creating /<>/debian/srst2/usr/lib/python3.8/dist-packages/srst2 copying /<>/.pybuild/cpython3_3.8/build/srst2/version.py -> /<>/debian/srst2/usr/lib/python3.8/dist-packages/srst2 copying /<>/.pybuild/cpython3_3.8/build/srst2/__init__.py -> /<>/debian/srst2/usr/lib/python3.8/dist-packages/srst2 copying /<>/.pybuild/cpython3_3.8/build/srst2/srst2.py -> /<>/debian/srst2/usr/lib/python3.8/dist-packages/srst2 copying /<>/.pybuild/cpython3_3.8/build/srst2/getmlst.py -> /<>/debian/srst2/usr/lib/python3.8/dist-packages/srst2 copying /<>/.pybuild/cpython3_3.8/build/srst2/qsub_srst2.py -> /<>/debian/srst2/usr/lib/python3.8/dist-packages/srst2 copying /<>/.pybuild/cpython3_3.8/build/srst2/consensus_alignment.py -> /<>/debian/srst2/usr/lib/python3.8/dist-packages/srst2 copying /<>/.pybuild/cpython3_3.8/build/srst2/analyseSRST2.py -> /<>/debian/srst2/usr/lib/python3.8/dist-packages/srst2 copying /<>/.pybuild/cpython3_3.8/build/srst2/slurm_srst2.py -> /<>/debian/srst2/usr/lib/python3.8/dist-packages/srst2 byte-compiling /<>/debian/srst2/usr/lib/python3.8/dist-packages/srst2/version.py to version.cpython-38.pyc byte-compiling /<>/debian/srst2/usr/lib/python3.8/dist-packages/srst2/__init__.py to __init__.cpython-38.pyc byte-compiling /<>/debian/srst2/usr/lib/python3.8/dist-packages/srst2/srst2.py to srst2.cpython-38.pyc byte-compiling /<>/debian/srst2/usr/lib/python3.8/dist-packages/srst2/getmlst.py to getmlst.cpython-38.pyc byte-compiling /<>/debian/srst2/usr/lib/python3.8/dist-packages/srst2/qsub_srst2.py to qsub_srst2.cpython-38.pyc byte-compiling /<>/debian/srst2/usr/lib/python3.8/dist-packages/srst2/consensus_alignment.py to consensus_alignment.cpython-38.pyc byte-compiling /<>/debian/srst2/usr/lib/python3.8/dist-packages/srst2/analyseSRST2.py to analyseSRST2.cpython-38.pyc byte-compiling /<>/debian/srst2/usr/lib/python3.8/dist-packages/srst2/slurm_srst2.py to slurm_srst2.cpython-38.pyc running install_scripts creating /<>/debian/srst2/usr/bin copying build/scripts-3.8/getmlst.py -> /<>/debian/srst2/usr/bin copying build/scripts-3.8/slurm_srst2.py -> /<>/debian/srst2/usr/bin changing mode of /<>/debian/srst2/usr/bin/getmlst.py to 755 changing mode of /<>/debian/srst2/usr/bin/slurm_srst2.py to 755 running install_egg_info Writing /<>/debian/srst2/usr/lib/python3.8/dist-packages/srst2-0.2.0.egg-info /usr/lib/python3.8/distutils/dist.py:274: UserWarning: Unknown distribution option: 'entry_points' warnings.warn(msg) /usr/lib/python3.8/distutils/dist.py:274: UserWarning: Unknown distribution option: 'install_requires' warnings.warn(msg) debian/rules override_dh_install make[1]: Entering directory '/<>' dh_install mv debian/srst2/usr/lib/*/dist-packages/srst2/* debian/srst2/usr/share/srst2 rm -rf debian/*/usr/bin/*.py debian/srst2/usr/lib/*/dist-packages/ # fix line endings to make sure Python3 interpreter will be found find debian/*/usr/share -name "VFDB*" -exec dos2unix \{\} \; dos2unix: converting file debian/srst2/usr/share/srst2/database_clustering/VFDB_cdhit_to_csv.py to Unix format... dos2unix: converting file debian/srst2/usr/share/srst2/database_clustering/VFDBgenus.py to Unix format... sed -i '1s:^#!/usr/local.*python[.0-9]*$:#!/usr/bin/python3:' debian/srst2/usr/share/srst2/qsub_srst2.py find debian -name __pycache__ -type d | xargs rm -rf make[1]: Leaving directory '/<>' debian/rules override_dh_installdocs make[1]: Entering directory '/<>' dh_installdocs sed -i "s?sys.path.append(os.path.abspath(os.path.join(os.path.dirname(__file__).*scripts.*?sys.path.append(os.path.abspath('/usr/share/srst2'))?" debian/srst2/usr/share/doc/srst2/tests/*.py make[1]: Leaving directory '/<>' dh_installchangelogs -a -O--buildsystem=pybuild dh_installman -a -O--buildsystem=pybuild dh_python3 -a -O--buildsystem=pybuild dh_installinit -a -O--buildsystem=pybuild dh_installsystemduser -a -O--buildsystem=pybuild dh_perl -a -O--buildsystem=pybuild dh_link -a -O--buildsystem=pybuild dh_strip_nondeterminism -a -O--buildsystem=pybuild dh_compress -a -O--buildsystem=pybuild debian/rules override_dh_fixperms make[1]: Entering directory '/<>' dh_fixperms chmod +x debian/srst2/usr/share/srst2/database_clustering/get_genus_vfdb.sh chmod +x debian/srst2/usr/share/srst2/database_clustering/get_all_vfdb.sh chmod -x debian/srst2/usr/share/srst2/database_clustering/align_plot_tree_min3.py for py in `find debian -name "*.py"` ; do \ if head -n 1 $py | grep -q '^#! */usr/bin/.*python' ; then chmod +x $py ; fi ; \ done make[1]: Leaving directory '/<>' dh_missing -a -O--buildsystem=pybuild dh_dwz -a -O--buildsystem=pybuild dh_strip -a -O--buildsystem=pybuild dh_makeshlibs -a -O--buildsystem=pybuild dh_shlibdeps -a -O--buildsystem=pybuild dh_installdeb -a -O--buildsystem=pybuild dh_gencontrol -a -O--buildsystem=pybuild dh_md5sums -a -O--buildsystem=pybuild dh_builddeb -a -O--buildsystem=pybuild INFO: pkgstriptranslations version 144 pkgstriptranslations: processing srst2 (in debian/srst2); do_strip: , oemstrip: pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " pkgstripfiles: processing control file: debian/srst2/DEBIAN/control, package srst2, directory debian/srst2 pkgstripfiles: Running PNG optimization (using 4 cpus) for package srst2 ... pkgstripfiles: No PNG files. dpkg-deb: building package 'srst2' in '../srst2_0.2.0-7_riscv64.deb'. dpkg-genbuildinfo --build=any dpkg-genchanges --build=any -mLaunchpad Build Daemon >../srst2_0.2.0-7_riscv64.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 2020-04-06T15:30:28Z Finished -------- I: Built successfully +------------------------------------------------------------------------------+ | Changes | +------------------------------------------------------------------------------+ srst2_0.2.0-7_riscv64.changes: ------------------------------ Format: 1.8 Date: Wed, 11 Dec 2019 17:08:14 +0100 Source: srst2 Binary: srst2 Architecture: riscv64 Version: 0.2.0-7 Distribution: focal Urgency: medium Maintainer: Launchpad Build Daemon Changed-By: Andreas Tille Description: srst2 - Short Read Sequence Typing for Bacterial Pathogens Closes: 938560 Changes: srst2 (0.2.0-7) unstable; urgency=medium . * Use 2to3 to port from Python2 to Python3 Closes: #938560 * debhelper-compat 12 * Standards-Version: 4.4.1 * Remove trailing whitespace in debian/rules * autopkgtest: s/ADTTMP/AUTOPKGTEST_TMP/g * Set upstream metadata fields: Repository, Repository-Browse. * Use markdown instead of python-markdown Checksums-Sha1: 2f5735d8cbd50a1aae68619e3ef76c9509ce6a20 7014 srst2_0.2.0-7_riscv64.buildinfo 87b19ad8e44fc126801e3afcab1b9666c94a1b80 60676 srst2_0.2.0-7_riscv64.deb Checksums-Sha256: 4b3df9c7359a250228f5afcb5c41ce0a892cd5b964a8620b9191c6dc878fb5c5 7014 srst2_0.2.0-7_riscv64.buildinfo 346d1a41379996ed92de23d2f9d273bed0d57ad1dcd3dd1e1ac162541f98bcb4 60676 srst2_0.2.0-7_riscv64.deb Files: c1765f7438c7c48ca76ccac4d29506e5 7014 science optional srst2_0.2.0-7_riscv64.buildinfo 2602b0a984b55db83e97eb97cba2ec65 60676 science optional srst2_0.2.0-7_riscv64.deb /<>/srst2_0.2.0-7_riscv64.changes.new could not be renamed to /<>/srst2_0.2.0-7_riscv64.changes: Illegal seek Distribution field may be wrong!!! +------------------------------------------------------------------------------+ | Buildinfo | +------------------------------------------------------------------------------+ Format: 1.0 Source: srst2 Binary: srst2 Architecture: riscv64 Version: 0.2.0-7 Checksums-Md5: 2602b0a984b55db83e97eb97cba2ec65 60676 srst2_0.2.0-7_riscv64.deb Checksums-Sha1: 87b19ad8e44fc126801e3afcab1b9666c94a1b80 60676 srst2_0.2.0-7_riscv64.deb Checksums-Sha256: 346d1a41379996ed92de23d2f9d273bed0d57ad1dcd3dd1e1ac162541f98bcb4 60676 srst2_0.2.0-7_riscv64.deb Build-Origin: Ubuntu Build-Architecture: riscv64 Build-Date: Mon, 06 Apr 2020 15:30:20 +0000 Build-Path: /<> Build-Tainted-By: usr-local-has-programs Installed-Build-Depends: autoconf (= 2.69-11.1), automake (= 1:1.16.1-4ubuntu6), autopoint (= 0.19.8.1-10build1), autotools-dev (= 20180224.1), base-files (= 11ubuntu4), base-passwd (= 3.5.47), bash (= 5.0-6ubuntu1), binutils (= 2.34-5ubuntu1), binutils-common (= 2.34-5ubuntu1), binutils-riscv64-linux-gnu (= 2.34-5ubuntu1), bowtie2 (= 2.3.5.1-6build1), bsdmainutils (= 11.1.2ubuntu3), bsdutils (= 1:2.34-0.1ubuntu8), build-essential (= 12.8ubuntu1), bzip2 (= 1.0.8-2), coreutils (= 8.30-3ubuntu2), cpp (= 4:9.3.0-1ubuntu2), cpp-9 (= 9.3.0-10ubuntu1), dash (= 0.5.10.2-6), debconf (= 1.5.73), debhelper (= 12.10ubuntu1), debianutils (= 4.9.1), dh-autoreconf (= 19), dh-python (= 4.20200315), dh-strip-nondeterminism (= 1.6.3-2), diffutils (= 1:3.7-3), dos2unix (= 7.4.0-2), dpkg (= 1.19.7ubuntu3), dpkg-dev (= 1.19.7ubuntu3), dwz (= 0.13-5), file (= 1:5.38-4), findutils (= 4.7.0-1ubuntu1), g++ (= 4:9.3.0-1ubuntu2), g++-9 (= 9.3.0-10ubuntu1), gcc (= 4:9.3.0-1ubuntu2), gcc-10-base (= 10-20200324-1ubuntu1), gcc-9 (= 9.3.0-10ubuntu1), gcc-9-base (= 9.3.0-10ubuntu1), gettext (= 0.19.8.1-10build1), gettext-base (= 0.19.8.1-10build1), grep (= 3.4-1), groff-base (= 1.22.4-4build1), gzip (= 1.10-0ubuntu4), hostname (= 3.23), init-system-helpers (= 1.57), intltool-debian (= 0.35.0+20060710.5), libacl1 (= 2.2.53-6), libarchive-zip-perl (= 1.67-2), libasn1-8-heimdal (= 7.7.0+dfsg-1ubuntu1), libatomic1 (= 10-20200324-1ubuntu1), libattr1 (= 1:2.4.48-5), libaudit-common (= 1:2.8.5-2ubuntu6), libaudit1 (= 1:2.8.5-2ubuntu6), libbinutils (= 2.34-5ubuntu1), libblas3 (= 3.9.0-1build1), libblkid1 (= 2.34-0.1ubuntu8), libbrotli1 (= 1.0.7-6build1), libbsd0 (= 0.10.0-1), libbz2-1.0 (= 1.0.8-2), libc-bin (= 2.31-0ubuntu7), libc-dev-bin (= 2.31-0ubuntu7), libc6 (= 2.31-0ubuntu7), libc6-dev (= 2.31-0ubuntu7), libcap-ng0 (= 0.7.9-2.1build1), libcc1-0 (= 10-20200324-1ubuntu1), libcom-err2 (= 1.45.5-2ubuntu1), libcroco3 (= 0.6.13-1), libcrypt-dev (= 1:4.4.10-10ubuntu4), libcrypt1 (= 1:4.4.10-10ubuntu4), libctf-nobfd0 (= 2.34-5ubuntu1), libctf0 (= 2.34-5ubuntu1), libcurl3-gnutls (= 7.68.0-1ubuntu1), libdb5.3 (= 5.3.28+dfsg1-0.6ubuntu2), libdebconfclient0 (= 0.251ubuntu1), libdebhelper-perl (= 12.10ubuntu1), libdeflate0 (= 1.5-3), libdpkg-perl (= 1.19.7ubuntu3), libelf1 (= 0.176-1.1build1), libexpat1 (= 2.2.9-1build1), libffi7 (= 3.3-4), libfile-stripnondeterminism-perl (= 1.6.3-2), libgcc-9-dev (= 9.3.0-10ubuntu1), libgcc-s1 (= 10-20200324-1ubuntu1), libgcrypt20 (= 1.8.5-5ubuntu1), libgdbm-compat4 (= 1.18.1-5), libgdbm6 (= 1.18.1-5), libgfortran5 (= 10-20200324-1ubuntu1), libglib2.0-0 (= 2.64.1-1), libgmp10 (= 2:6.2.0+dfsg-4), libgnutls30 (= 3.6.13-2ubuntu1), libgomp1 (= 10-20200324-1ubuntu1), libgpg-error0 (= 1.37-1), libgssapi-krb5-2 (= 1.17-6ubuntu4), libgssapi3-heimdal (= 7.7.0+dfsg-1ubuntu1), libhcrypto4-heimdal (= 7.7.0+dfsg-1ubuntu1), libheimbase1-heimdal (= 7.7.0+dfsg-1ubuntu1), libheimntlm0-heimdal (= 7.7.0+dfsg-1ubuntu1), libhogweed5 (= 3.5.1+really3.5.1-2), libhts3 (= 1.10.2-3), libhx509-5-heimdal (= 7.7.0+dfsg-1ubuntu1), libicu66 (= 66.1-2ubuntu2), libidn2-0 (= 2.2.0-2), libisl22 (= 0.22.1-1), libk5crypto3 (= 1.17-6ubuntu4), libkeyutils1 (= 1.6-6ubuntu1), libkrb5-26-heimdal (= 7.7.0+dfsg-1ubuntu1), libkrb5-3 (= 1.17-6ubuntu4), libkrb5support0 (= 1.17-6ubuntu4), liblapack3 (= 3.9.0-1build1), liblbfgsb0 (= 3.0+dfsg.3-7build1), libldap-2.4-2 (= 2.4.49+dfsg-2ubuntu1), libldap-common (= 2.4.49+dfsg-2ubuntu1), liblz4-1 (= 1.9.2-2), liblzma5 (= 5.2.4-1), libmagic-mgc (= 1:5.38-4), libmagic1 (= 1:5.38-4), libmount1 (= 2.34-0.1ubuntu8), libmpc3 (= 1.1.0-1), libmpdec2 (= 2.4.2-3), libmpfr6 (= 4.0.2-1), libncurses6 (= 6.2-0ubuntu2), libncursesw6 (= 6.2-0ubuntu2), libnettle7 (= 3.5.1+really3.5.1-2), libnghttp2-14 (= 1.40.0-1build1), libp11-kit0 (= 0.23.20-1build1), libpam-modules (= 1.3.1-5ubuntu4), libpam-modules-bin (= 1.3.1-5ubuntu4), libpam-runtime (= 1.3.1-5ubuntu4), libpam0g (= 1.3.1-5ubuntu4), libpcre2-8-0 (= 10.34-7), libpcre3 (= 2:8.39-12build1), libperl5.30 (= 5.30.0-9build1), libpipeline1 (= 1.5.2-2build1), libpsl5 (= 0.21.0-1ubuntu1), libpython3-stdlib (= 3.8.2-0ubuntu2), libpython3.8-minimal (= 3.8.2-1ubuntu1), libpython3.8-stdlib (= 3.8.2-1ubuntu1), libreadline8 (= 8.0-4), libroken18-heimdal (= 7.7.0+dfsg-1ubuntu1), librtmp1 (= 2.4+20151223.gitfa8646d.1-2build1), libsasl2-2 (= 2.1.27+dfsg-2), libsasl2-modules-db (= 2.1.27+dfsg-2), libselinux1 (= 3.0-1build2), libsigsegv2 (= 2.12-2), libsmartcols1 (= 2.34-0.1ubuntu8), libsqlite3-0 (= 3.31.1-4), libssh-4 (= 0.9.3-2ubuntu1), libssl1.1 (= 1.1.1d-2ubuntu6), libstdc++-9-dev (= 9.3.0-10ubuntu1), libstdc++6 (= 10-20200324-1ubuntu1), libsub-override-perl (= 0.09-2), libsystemd0 (= 245.2-1ubuntu3), libtasn1-6 (= 4.16.0-2), libtinfo6 (= 6.2-0ubuntu2), libtool (= 2.4.6-14), libuchardet0 (= 0.0.6-3build1), libudev1 (= 245.2-1ubuntu3), libunistring2 (= 0.9.10-2), libuuid1 (= 2.34-0.1ubuntu8), libwind0-heimdal (= 7.7.0+dfsg-1ubuntu1), libxml2 (= 2.9.10+dfsg-4build1), libzstd1 (= 1.4.4+dfsg-3), linux-libc-dev (= 5.4.0-21.25), login (= 1:4.8.1-1ubuntu4), lsb-base (= 11.1.0ubuntu2), m4 (= 1.4.18-4), make (= 4.2.1-1.2), man-db (= 2.9.1-1), markdown (= 1.0.1-10), mawk (= 1.3.4.20200120-2), mime-support (= 3.64ubuntu1), ncurses-base (= 6.2-0ubuntu2), ncurses-bin (= 6.2-0ubuntu2), patch (= 2.7.6-6), perl (= 5.30.0-9build1), perl-base (= 5.30.0-9build1), perl-modules-5.30 (= 5.30.0-9build1), po-debconf (= 1.0.21), python3 (= 3.8.2-0ubuntu2), python3-decorator (= 4.4.2-0ubuntu1), python3-distutils (= 3.8.2-1ubuntu1), python3-lib2to3 (= 3.8.2-1ubuntu1), python3-minimal (= 3.8.2-0ubuntu2), python3-mock (= 3.0.5-1build1), python3-numpy (= 1:1.17.4-5ubuntu3), python3-pbr (= 5.4.4-0ubuntu1), python3-pkg-resources (= 45.2.0-1), python3-scipy (= 1.3.3-3build1), python3-setuptools (= 45.2.0-1), python3-six (= 1.14.0-2), python3.8 (= 3.8.2-1ubuntu1), python3.8-minimal (= 3.8.2-1ubuntu1), readline-common (= 8.0-4), samtools (= 1.10-3), sed (= 4.7-1), sensible-utils (= 0.0.12+nmu1), sysvinit-utils (= 2.96-2.1ubuntu1), tar (= 1.30+dfsg-7), tzdata (= 2019c-3ubuntu1), util-linux (= 2.34-0.1ubuntu8), xz-utils (= 5.2.4-1), zlib1g (= 1:1.2.11.dfsg-2ubuntu1) Environment: DEB_BUILD_OPTIONS="parallel=4" LANG="C.UTF-8" LC_ALL="C.UTF-8" SOURCE_DATE_EPOCH="1576080494" +------------------------------------------------------------------------------+ | Package contents | +------------------------------------------------------------------------------+ srst2_0.2.0-7_riscv64.deb ------------------------- new Debian package, version 2.0. size 60676 bytes: control archive=1968 bytes. 701 bytes, 15 lines control 2257 bytes, 31 lines md5sums 267 bytes, 12 lines * postinst #!/bin/sh 384 bytes, 12 lines * prerm #!/bin/sh Package: srst2 Version: 0.2.0-7 Architecture: riscv64 Maintainer: Ubuntu Developers Original-Maintainer: Debian Med Packaging Team Installed-Size: 253 Depends: python3:any, bowtie2, cd-hit, samtools, python3-scipy, python3-biopython Recommends: python3-rpy2 Section: science Priority: optional Homepage: https://katholt.github.io/srst2/ Description: Short Read Sequence Typing for Bacterial Pathogens This program is designed to take Illumina sequence data, a MLST database and/or a database of gene sequences (e.g. resistance genes, virulence genes, etc) and report the presence of STs and/or reference genes. drwxr-xr-x root/root 0 2019-12-11 16:08 ./ drwxr-xr-x root/root 0 2019-12-11 16:08 ./usr/ drwxr-xr-x root/root 0 2019-12-11 16:08 ./usr/bin/ lrwxrwxrwx root/root 0 2019-12-11 16:08 ./usr/bin/VFDB_cdhit_to_csv -> ../share/srst2/database_clustering/VFDB_cdhit_to_csv.py lrwxrwxrwx root/root 0 2019-12-11 16:08 ./usr/bin/VFDBgenus -> ../share/srst2/database_clustering/VFDBgenus.py lrwxrwxrwx root/root 0 2019-12-11 16:08 ./usr/bin/csv_to_gene_db -> ../share/srst2/database_clustering/csv_to_gene_db.py lrwxrwxrwx root/root 0 2019-12-11 16:08 ./usr/bin/get_all_vfdb -> ../share/srst2/database_clustering/get_all_vfdb.sh lrwxrwxrwx root/root 0 2019-12-11 16:08 ./usr/bin/get_genus_vfdb -> ../share/srst2/database_clustering/get_genus_vfdb.sh lrwxrwxrwx root/root 0 2019-12-11 16:08 ./usr/bin/getmlst -> ../share/srst2/getmlst.py lrwxrwxrwx root/root 0 2019-12-11 16:08 ./usr/bin/slurm_srst2 -> ../share/srst2/slurm_srst2.py lrwxrwxrwx root/root 0 2019-12-11 16:08 ./usr/bin/srst2 -> ../share/srst2/srst2.py drwxr-xr-x root/root 0 2019-12-11 16:08 ./usr/share/ drwxr-xr-x root/root 0 2019-12-11 16:08 ./usr/share/doc-base/ -rw-r--r-- root/root 530 2019-12-11 16:08 ./usr/share/doc-base/srst2 drwxr-xr-x root/root 0 2019-12-11 16:08 ./usr/share/doc/ drwxr-xr-x root/root 0 2019-12-11 16:08 ./usr/share/doc/srst2/ -rw-r--r-- root/root 72441 2019-12-11 16:08 ./usr/share/doc/srst2/README.html -rw-r--r-- root/root 789 2019-12-11 16:08 ./usr/share/doc/srst2/changelog.Debian.gz -rw-r--r-- root/root 2022 2019-12-11 16:08 ./usr/share/doc/srst2/copyright -rw-r--r-- root/root 2333 2016-07-30 05:14 ./usr/share/doc/srst2/example.txt.gz drwxr-xr-x root/root 0 2019-12-11 16:08 ./usr/share/doc/srst2/tests/ -rw-r--r-- root/root 788 2019-12-11 16:08 ./usr/share/doc/srst2/tests/test_slurm_srst2.py.gz -rw-r--r-- root/root 1499 2019-12-11 16:08 ./usr/share/doc/srst2/tests/test_srst2.py.gz drwxr-xr-x root/root 0 2019-12-11 16:08 ./usr/share/man/ drwxr-xr-x root/root 0 2019-12-11 16:08 ./usr/share/man/man1/ -rw-r--r-- root/root 560 2019-12-11 16:08 ./usr/share/man/man1/VFDB_cdhit_to_csv.1.gz -rw-r--r-- root/root 555 2019-12-11 16:08 ./usr/share/man/man1/VFDBgenus.1.gz -rw-r--r-- root/root 784 2019-12-11 16:08 ./usr/share/man/man1/csv_to_gene_db.1.gz -rw-r--r-- root/root 413 2019-12-11 16:08 ./usr/share/man/man1/get_all_vfdb.1.gz -rw-r--r-- root/root 435 2019-12-11 16:08 ./usr/share/man/man1/get_genus_vfdb.1.gz -rw-r--r-- root/root 826 2019-12-11 16:08 ./usr/share/man/man1/getmlst.1.gz -rw-r--r-- root/root 795 2019-12-11 16:08 ./usr/share/man/man1/slurm_srst2.1.gz -rw-r--r-- root/root 2279 2019-12-11 16:08 ./usr/share/man/man1/srst2.1.gz drwxr-xr-x root/root 0 2019-12-11 16:08 ./usr/share/python3/ drwxr-xr-x root/root 0 2019-12-11 16:08 ./usr/share/python3/runtime.d/ -rwxr-xr-x root/root 125 2019-12-11 16:08 ./usr/share/python3/runtime.d/srst2.rtupdate drwxr-xr-x root/root 0 2019-12-11 16:08 ./usr/share/srst2/ -rw-r--r-- root/root 2 2016-07-30 05:14 ./usr/share/srst2/__init__.py -rwxr-xr-x root/root 11531 2019-12-11 16:08 ./usr/share/srst2/analyseSRST2.py -rw-r--r-- root/root 2046 2016-07-30 05:14 ./usr/share/srst2/consensus_alignment.py drwxr-xr-x root/root 0 2019-12-11 16:08 ./usr/share/srst2/database_clustering/ -rwxr-xr-x root/root 2041 2019-12-11 16:08 ./usr/share/srst2/database_clustering/VFDB_cdhit_to_csv.py -rwxr-xr-x root/root 1456 2019-12-11 16:08 ./usr/share/srst2/database_clustering/VFDBgenus.py -rw-r--r-- root/root 1883 2019-12-11 16:08 ./usr/share/srst2/database_clustering/align_plot_tree_min3.py -rw-r--r-- root/root 4191 2016-07-30 05:14 ./usr/share/srst2/database_clustering/cdhit_to_csv.py -rwxr-xr-x root/root 3812 2019-12-11 16:08 ./usr/share/srst2/database_clustering/csv_to_gene_db.py -rwxr-xr-x root/root 1952 2019-12-11 16:08 ./usr/share/srst2/database_clustering/get_all_vfdb.sh -rwxr-xr-x root/root 1597 2019-12-11 16:08 ./usr/share/srst2/database_clustering/get_genus_vfdb.sh -rwxr-xr-x root/root 7183 2019-12-11 16:08 ./usr/share/srst2/getmlst.py -rwxr-xr-x root/root 11123 2019-12-11 16:08 ./usr/share/srst2/qsub_srst2.py -rwxr-xr-x root/root 11081 2019-12-11 16:08 ./usr/share/srst2/slurm_srst2.py -rwxr-xr-x root/root 71949 2019-12-11 16:08 ./usr/share/srst2/srst2.py -rw-r--r-- root/root 330 2016-07-30 05:14 ./usr/share/srst2/version.py +------------------------------------------------------------------------------+ | Post Build | +------------------------------------------------------------------------------+ +------------------------------------------------------------------------------+ | Cleanup | +------------------------------------------------------------------------------+ Purging /<> Not removing build depends: as requested +------------------------------------------------------------------------------+ | Summary | +------------------------------------------------------------------------------+ Build Architecture: riscv64 Build Type: any Build-Space: 9812 Build-Time: 217 Distribution: focal Host Architecture: riscv64 Install-Time: 329 Job: srst2_0.2.0-7.dsc Machine Architecture: riscv64 Package: srst2 Package-Time: 573 Source-Version: 0.2.0-7 Space: 9812 Status: successful Version: 0.2.0-7 -------------------------------------------------------------------------------- Finished at 2020-04-06T15:30:28Z Build needed 00:09:33, 9812k disk space RUN: /usr/share/launchpad-buildd/bin/in-target scan-for-processes --backend=chroot --series=focal --arch=riscv64 PACKAGEBUILD-19112081 Scanning for processes to kill in build PACKAGEBUILD-19112081 RUN: /usr/share/launchpad-buildd/bin/in-target umount-chroot --backend=chroot --series=focal --arch=riscv64 PACKAGEBUILD-19112081 Stopping target for build PACKAGEBUILD-19112081 RUN: /usr/share/launchpad-buildd/bin/in-target remove-build --backend=chroot --series=focal --arch=riscv64 PACKAGEBUILD-19112081 Removing build PACKAGEBUILD-19112081