https://launchpad.net/ubuntu/+source/srst2/0.2.0-8/+build/20278000 RUN: /usr/share/launchpad-buildd/bin/builder-prep Kernel version: Linux lcy01-amd64-023 4.15.0-122-generic #124-Ubuntu SMP Thu Oct 15 13:03:05 UTC 2020 x86_64 Buildd toolchain package versions: launchpad-buildd_193~468~ubuntu18.04.1 python3-lpbuildd_193~468~ubuntu18.04.1 sbuild_0.75.0-1ubuntu1 bzr-builder_0.7.3+bzr174~ppa13~ubuntu16.04.1 bzr_2.7.0+bzr6622-10 git-build-recipe_0.3.6~git201906051340.ff11471~ubuntu18.04.1 git_1:2.17.1-1ubuntu0.7 dpkg-dev_1.19.0.5ubuntu2.3 python-debian_0.1.32 python3-debian_0.1.32. Syncing the system clock with the buildd NTP service... 10 Nov 23:20:41 ntpdate[1705]: adjust time server 10.211.37.1 offset 0.049341 sec RUN: /usr/share/launchpad-buildd/bin/in-target unpack-chroot --backend=chroot --series=hirsute --arch=amd64 PACKAGEBUILD-20278000 --image-type chroot /home/buildd/filecache-default/720a8366e1260e086c1691fe6381a3f2b1c21d81 Creating target for build PACKAGEBUILD-20278000 RUN: /usr/share/launchpad-buildd/bin/in-target mount-chroot --backend=chroot --series=hirsute --arch=amd64 PACKAGEBUILD-20278000 Starting target for build PACKAGEBUILD-20278000 RUN: /usr/share/launchpad-buildd/bin/in-target override-sources-list --backend=chroot --series=hirsute --arch=amd64 PACKAGEBUILD-20278000 'deb http://ftpmaster.internal/ubuntu hirsute main universe' 'deb http://ftpmaster.internal/ubuntu hirsute-security main universe' 'deb http://ftpmaster.internal/ubuntu hirsute-updates main universe' 'deb http://ftpmaster.internal/ubuntu hirsute-proposed main universe' Overriding sources.list in build-PACKAGEBUILD-20278000 RUN: /usr/share/launchpad-buildd/bin/in-target update-debian-chroot --backend=chroot --series=hirsute --arch=amd64 PACKAGEBUILD-20278000 Updating target for build PACKAGEBUILD-20278000 Get:1 http://ftpmaster.internal/ubuntu hirsute InRelease [267 kB] Get:2 http://ftpmaster.internal/ubuntu hirsute-security InRelease [88.4 kB] Get:3 http://ftpmaster.internal/ubuntu hirsute-updates InRelease [88.4 kB] Get:4 http://ftpmaster.internal/ubuntu hirsute-proposed InRelease [118 kB] Get:5 http://ftpmaster.internal/ubuntu hirsute/main amd64 Packages [1385 kB] Get:6 http://ftpmaster.internal/ubuntu hirsute/main Translation-en [509 kB] Get:7 http://ftpmaster.internal/ubuntu hirsute/universe amd64 Packages [12.7 MB] Get:8 http://ftpmaster.internal/ubuntu hirsute/universe Translation-en [5330 kB] Get:9 http://ftpmaster.internal/ubuntu hirsute-proposed/main amd64 Packages [233 kB] Get:10 http://ftpmaster.internal/ubuntu hirsute-proposed/main Translation-en [85.0 kB] Get:11 http://ftpmaster.internal/ubuntu hirsute-proposed/universe amd64 Packages [1897 kB] Get:12 http://ftpmaster.internal/ubuntu hirsute-proposed/universe Translation-en [655 kB] Fetched 23.4 MB in 8s (2856 kB/s) Reading package lists... Reading package lists... Building dependency tree... Reading state information... Calculating upgrade... The following packages were automatically installed and are no longer required: libperl5.30 perl-modules-5.30 Use 'sudo apt autoremove' to remove them. The following NEW packages will be installed: libperl5.32 perl-modules-5.32 The following packages will be upgraded: apt base-files base-passwd bash binutils binutils-common binutils-x86-64-linux-gnu coreutils cpp-10 fakeroot g++-10 gcc-10 gcc-10-base grep libapparmor1 libapt-pkg6.0 libasan6 libatomic1 libaudit-common libaudit1 libbinutils libc-bin libc-dev-bin libc6 libc6-dev libcap2 libcc1-0 libcrypt-dev libcrypt1 libcryptsetup12 libctf-nobfd0 libctf0 libdebconfclient0 libfakeroot libgcc-10-dev libgcc-s1 libgcrypt20 libgomp1 libidn2-0 libip4tc2 libitm1 liblsan0 libmpc3 libncurses6 libncursesw6 libnpth0 libquadmath0 libreadline8 libseccomp2 libselinux1 libsemanage-common libsemanage1 libstdc++-10-dev libstdc++6 libsystemd0 libtinfo6 libtirpc-common libtirpc-dev libtirpc3 libtsan0 libubsan1 libudev1 linux-libc-dev ncurses-base ncurses-bin perl perl-base readline-common systemd systemd-sysv systemd-timesyncd sysvinit-utils tzdata 73 upgraded, 2 newly installed, 0 to remove and 0 not upgraded. Need to get 241 MB of archives. After this operation, 928 MB of additional disk space will be used. Get:1 http://ftpmaster.internal/ubuntu hirsute-proposed/main amd64 libcrypt-dev amd64 1:4.4.17-1ubuntu1 [105 kB] Get:2 http://ftpmaster.internal/ubuntu hirsute-proposed/main amd64 libcrypt1 amd64 1:4.4.17-1ubuntu1 [78.8 kB] Get:3 http://ftpmaster.internal/ubuntu hirsute-proposed/main amd64 libc6-dev amd64 2.32-0ubuntu4 [2128 kB] Get:4 http://ftpmaster.internal/ubuntu hirsute-proposed/main amd64 libc-dev-bin amd64 2.32-0ubuntu4 [30.9 kB] Get:5 http://ftpmaster.internal/ubuntu hirsute-proposed/main amd64 linux-libc-dev amd64 5.8.0-26.27 [1165 kB] Get:6 http://ftpmaster.internal/ubuntu hirsute-proposed/main amd64 libtirpc-common all 1.2.6-3 [7444 B] Get:7 http://ftpmaster.internal/ubuntu hirsute-proposed/main amd64 libtirpc-dev amd64 1.2.6-3 [184 kB] Get:8 http://ftpmaster.internal/ubuntu hirsute-proposed/main amd64 libtirpc3 amd64 1.2.6-3 [77.2 kB] Get:9 http://ftpmaster.internal/ubuntu hirsute-proposed/main amd64 libcc1-0 amd64 10.2.0-16ubuntu1 [41.3 kB] Get:10 http://ftpmaster.internal/ubuntu hirsute-proposed/main amd64 gcc-10-base amd64 10.2.0-16ubuntu1 [19.6 kB] Get:11 http://ftpmaster.internal/ubuntu hirsute-proposed/main amd64 libgcc-s1 amd64 10.2.0-16ubuntu1 [41.7 kB] Get:12 http://ftpmaster.internal/ubuntu hirsute-proposed/main amd64 libgomp1 amd64 10.2.0-16ubuntu1 [102 kB] Get:13 http://ftpmaster.internal/ubuntu hirsute-proposed/main amd64 libitm1 amd64 10.2.0-16ubuntu1 [26.4 kB] Get:14 http://ftpmaster.internal/ubuntu hirsute-proposed/main amd64 libatomic1 amd64 10.2.0-16ubuntu1 [9284 B] Get:15 http://ftpmaster.internal/ubuntu hirsute-proposed/main amd64 libasan6 amd64 10.2.0-16ubuntu1 [344 kB] Get:16 http://ftpmaster.internal/ubuntu hirsute-proposed/main amd64 liblsan0 amd64 10.2.0-16ubuntu1 [144 kB] Get:17 http://ftpmaster.internal/ubuntu hirsute-proposed/main amd64 libtsan0 amd64 10.2.0-16ubuntu1 [320 kB] Get:18 http://ftpmaster.internal/ubuntu hirsute-proposed/main amd64 libubsan1 amd64 10.2.0-16ubuntu1 [136 kB] Get:19 http://ftpmaster.internal/ubuntu hirsute-proposed/main amd64 libquadmath0 amd64 10.2.0-16ubuntu1 [146 kB] Get:20 http://ftpmaster.internal/ubuntu hirsute-proposed/main amd64 g++-10 amd64 10.2.0-16ubuntu1 [70.1 MB] Get:21 http://ftpmaster.internal/ubuntu hirsute-proposed/main amd64 libstdc++-10-dev amd64 10.2.0-16ubuntu1 [1750 kB] Get:22 http://ftpmaster.internal/ubuntu hirsute-proposed/main amd64 libgcc-10-dev amd64 10.2.0-16ubuntu1 [2341 kB] Get:23 http://ftpmaster.internal/ubuntu hirsute-proposed/main amd64 gcc-10 amd64 10.2.0-16ubuntu1 [72.0 MB] Get:24 http://ftpmaster.internal/ubuntu hirsute-proposed/main amd64 cpp-10 amd64 10.2.0-16ubuntu1 [63.5 MB] Get:25 http://ftpmaster.internal/ubuntu hirsute-proposed/main amd64 libstdc++6 amd64 10.2.0-16ubuntu1 [501 kB] Get:26 http://ftpmaster.internal/ubuntu hirsute-proposed/main amd64 libmpc3 amd64 1.2.0-1 [44.3 kB] Get:27 http://ftpmaster.internal/ubuntu hirsute-proposed/main amd64 libctf-nobfd0 amd64 2.35.1-2ubuntu1 [48.2 kB] Get:28 http://ftpmaster.internal/ubuntu hirsute-proposed/main amd64 libctf0 amd64 2.35.1-2ubuntu1 [47.6 kB] Get:29 http://ftpmaster.internal/ubuntu hirsute-proposed/main amd64 libbinutils amd64 2.35.1-2ubuntu1 [481 kB] Get:30 http://ftpmaster.internal/ubuntu hirsute-proposed/main amd64 binutils-common amd64 2.35.1-2ubuntu1 [212 kB] Get:31 http://ftpmaster.internal/ubuntu hirsute-proposed/main amd64 binutils amd64 2.35.1-2ubuntu1 [3376 B] Get:32 http://ftpmaster.internal/ubuntu hirsute-proposed/main amd64 binutils-x86-64-linux-gnu amd64 2.35.1-2ubuntu1 [1646 kB] Get:33 http://ftpmaster.internal/ubuntu hirsute-proposed/main amd64 libc6 amd64 2.32-0ubuntu4 [2684 kB] Get:34 http://ftpmaster.internal/ubuntu hirsute/main amd64 base-files amd64 11ubuntu16 [60.5 kB] Get:35 http://ftpmaster.internal/ubuntu hirsute-proposed/main amd64 bash amd64 5.1~rc2-1ubuntu1 [680 kB] Get:36 http://ftpmaster.internal/ubuntu hirsute-proposed/main amd64 coreutils amd64 8.32-4ubuntu1 [1352 kB] Get:37 http://ftpmaster.internal/ubuntu hirsute/main amd64 grep amd64 3.6-1 [155 kB] Get:38 http://ftpmaster.internal/ubuntu hirsute-proposed/main amd64 libncursesw6 amd64 6.2+20200918-1 [132 kB] Get:39 http://ftpmaster.internal/ubuntu hirsute-proposed/main amd64 libncurses6 amd64 6.2+20200918-1 [102 kB] Get:40 http://ftpmaster.internal/ubuntu hirsute-proposed/main amd64 libtinfo6 amd64 6.2+20200918-1 [87.3 kB] Get:41 http://ftpmaster.internal/ubuntu hirsute-proposed/main amd64 ncurses-bin amd64 6.2+20200918-1 [173 kB] Get:42 http://ftpmaster.internal/ubuntu hirsute-proposed/main amd64 perl-modules-5.32 all 5.32.0-4 [2753 kB] Get:43 http://ftpmaster.internal/ubuntu hirsute-proposed/main amd64 libperl5.32 amd64 5.32.0-4 [4057 kB] Get:44 http://ftpmaster.internal/ubuntu hirsute-proposed/main amd64 perl amd64 5.32.0-4 [225 kB] Get:45 http://ftpmaster.internal/ubuntu hirsute-proposed/main amd64 perl-base amd64 5.32.0-4 [1562 kB] Get:46 http://ftpmaster.internal/ubuntu hirsute-proposed/main amd64 libdebconfclient0 amd64 0.255ubuntu1 [6184 B] Get:47 http://ftpmaster.internal/ubuntu hirsute/main amd64 base-passwd amd64 3.5.48 [47.5 kB] Get:48 http://ftpmaster.internal/ubuntu hirsute-proposed/main amd64 libc-bin amd64 2.32-0ubuntu4 [625 kB] Get:49 http://ftpmaster.internal/ubuntu hirsute-proposed/main amd64 ncurses-base all 6.2+20200918-1 [18.7 kB] Get:50 http://ftpmaster.internal/ubuntu hirsute/main amd64 sysvinit-utils amd64 2.96-5ubuntu1 [20.8 kB] Get:51 http://ftpmaster.internal/ubuntu hirsute-proposed/main amd64 libgcrypt20 amd64 1.8.7-2ubuntu1 [424 kB] Get:52 http://ftpmaster.internal/ubuntu hirsute-proposed/main amd64 systemd-timesyncd amd64 246.6-2ubuntu1 [28.2 kB] Get:53 http://ftpmaster.internal/ubuntu hirsute-proposed/main amd64 systemd-sysv amd64 246.6-2ubuntu1 [10.3 kB] Get:54 http://ftpmaster.internal/ubuntu hirsute-proposed/main amd64 libapparmor1 amd64 3.0.0-0ubuntu3 [36.2 kB] Get:55 http://ftpmaster.internal/ubuntu hirsute/main amd64 libaudit-common all 1:2.8.5-3ubuntu2 [4092 B] Get:56 http://ftpmaster.internal/ubuntu hirsute/main amd64 libaudit1 amd64 1:2.8.5-3ubuntu2 [39.5 kB] Get:57 http://ftpmaster.internal/ubuntu hirsute/main amd64 libcap2 amd64 1:2.44-1 [17.2 kB] Get:58 http://ftpmaster.internal/ubuntu hirsute-proposed/main amd64 libcryptsetup12 amd64 2:2.3.4-1ubuntu1 [195 kB] Get:59 http://ftpmaster.internal/ubuntu hirsute/main amd64 libidn2-0 amd64 2.3.0-2 [52.5 kB] Get:60 http://ftpmaster.internal/ubuntu hirsute/main amd64 libip4tc2 amd64 1.8.5-3ubuntu3 [18.7 kB] Get:61 http://ftpmaster.internal/ubuntu hirsute/main amd64 libseccomp2 amd64 2.4.3-1ubuntu5 [42.0 kB] Get:62 http://ftpmaster.internal/ubuntu hirsute-proposed/main amd64 systemd amd64 246.6-2ubuntu1 [4165 kB] Get:63 http://ftpmaster.internal/ubuntu hirsute-proposed/main amd64 libsystemd0 amd64 246.6-2ubuntu1 [273 kB] Get:64 http://ftpmaster.internal/ubuntu hirsute-proposed/main amd64 libudev1 amd64 246.6-2ubuntu1 [67.6 kB] Get:65 http://ftpmaster.internal/ubuntu hirsute/main amd64 libapt-pkg6.0 amd64 2.1.11 [848 kB] Get:66 http://ftpmaster.internal/ubuntu hirsute/main amd64 apt amd64 2.1.11 [1305 kB] Get:67 http://ftpmaster.internal/ubuntu hirsute/main amd64 libselinux1 amd64 3.1-2build1 [69.4 kB] Get:68 http://ftpmaster.internal/ubuntu hirsute/main amd64 libsemanage-common all 3.1-1build1 [10.1 kB] Get:69 http://ftpmaster.internal/ubuntu hirsute/main amd64 libsemanage1 amd64 3.1-1build1 [87.2 kB] Get:70 http://ftpmaster.internal/ubuntu hirsute-proposed/main amd64 readline-common all 8.1~rc2-2 [54.1 kB] Get:71 http://ftpmaster.internal/ubuntu hirsute-proposed/main amd64 libreadline8 amd64 8.1~rc2-2 [137 kB] Get:72 http://ftpmaster.internal/ubuntu hirsute/main amd64 tzdata all 2020d-1ubuntu1 [293 kB] Get:73 http://ftpmaster.internal/ubuntu hirsute-proposed/main amd64 libfakeroot amd64 1.25.3-1 [26.6 kB] Get:74 http://ftpmaster.internal/ubuntu hirsute-proposed/main amd64 fakeroot amd64 1.25.3-1 [62.9 kB] Get:75 http://ftpmaster.internal/ubuntu hirsute/main amd64 libnpth0 amd64 1.6-3 [8220 B] debconf: delaying package configuration, since apt-utils is not installed Fetched 241 MB in 9s (25.6 MB/s) (Reading database ... 12980 files and directories currently installed.) 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Current default time zone: 'Etc/UTC' Local time is now: Tue Nov 10 23:22:24 UTC 2020. Universal Time is now: Tue Nov 10 23:22:24 UTC 2020. Run 'dpkg-reconfigure tzdata' if you wish to change it. Setting up fakeroot (1.25.3-1) ... Setting up libncurses6:amd64 (6.2+20200918-1) ... Setting up libquadmath0:amd64 (10.2.0-16ubuntu1) ... Setting up libmpc3:amd64 (1.2.0-1) ... Setting up libatomic1:amd64 (10.2.0-16ubuntu1) ... Setting up libncursesw6:amd64 (6.2+20200918-1) ... Setting up libperl5.32:amd64 (5.32.0-4) ... Setting up libubsan1:amd64 (10.2.0-16ubuntu1) ... Setting up libcrypt-dev:amd64 (1:4.4.17-1ubuntu1) ... Setting up libcryptsetup12:amd64 (2:2.3.4-1ubuntu1) ... Setting up libbinutils:amd64 (2.35.1-2ubuntu1) ... Setting up libc-dev-bin (2.32-0ubuntu4) ... Setting up readline-common (8.1~rc2-2) ... Setting up libcc1-0:amd64 (10.2.0-16ubuntu1) ... Setting up liblsan0:amd64 (10.2.0-16ubuntu1) ... Setting up cpp-10 (10.2.0-16ubuntu1) ... 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RUN: /usr/share/launchpad-buildd/bin/sbuild-package PACKAGEBUILD-20278000 amd64 hirsute-proposed -c chroot:build-PACKAGEBUILD-20278000 --arch=amd64 --dist=hirsute-proposed --nolog -A srst2_0.2.0-8.dsc Initiating build PACKAGEBUILD-20278000 with 4 jobs across 4 processor cores. Kernel reported to sbuild: 4.15.0-122-generic #124-Ubuntu SMP Thu Oct 15 13:03:05 UTC 2020 x86_64 sbuild (Debian sbuild) 0.75.0 (21 Mar 2018) on lcy01-amd64-023.buildd +==============================================================================+ | srst2 0.2.0-8 (amd64) Tue, 10 Nov 2020 23:22:27 +0000 | +==============================================================================+ Package: srst2 Version: 0.2.0-8 Source Version: 0.2.0-8 Distribution: hirsute-proposed Machine Architecture: amd64 Host Architecture: amd64 Build Architecture: amd64 Build Type: binary I: NOTICE: Log filtering will replace 'home/buildd/build-PACKAGEBUILD-20278000/chroot-autobuild' with '<>' +------------------------------------------------------------------------------+ | Fetch source files | +------------------------------------------------------------------------------+ Local sources ------------- srst2_0.2.0-8.dsc exists in .; copying to chroot I: NOTICE: Log filtering will replace 'build/srst2-TULTd2/srst2-0.2.0' with '<>' I: NOTICE: Log filtering will replace 'build/srst2-TULTd2' with '<>' +------------------------------------------------------------------------------+ | Install build-essential | +------------------------------------------------------------------------------+ Setup apt archive ----------------- Merged Build-Depends: build-essential, fakeroot Filtered Build-Depends: build-essential, fakeroot dpkg-deb: building package 'sbuild-build-depends-core-dummy' in '/<>/resolver-Q2Kukk/apt_archive/sbuild-build-depends-core-dummy.deb'. dpkg-scanpackages: warning: Packages in archive but missing from override file: dpkg-scanpackages: warning: sbuild-build-depends-core-dummy dpkg-scanpackages: info: Wrote 1 entries to output Packages file. Ign:1 copy:/<>/resolver-Q2Kukk/apt_archive ./ InRelease Get:2 copy:/<>/resolver-Q2Kukk/apt_archive ./ Release [957 B] Ign:3 copy:/<>/resolver-Q2Kukk/apt_archive ./ Release.gpg Get:4 copy:/<>/resolver-Q2Kukk/apt_archive ./ Sources [349 B] Get:5 copy:/<>/resolver-Q2Kukk/apt_archive ./ Packages [433 B] Fetched 1739 B in 0s (94.8 kB/s) Reading package lists... Reading package lists... Install core build dependencies (apt-based resolver) ---------------------------------------------------- Installing build dependencies Reading package lists... Building dependency tree... Reading state information... The following packages were automatically installed and are no longer required: libperl5.30 perl-modules-5.30 Use 'apt autoremove' to remove them. The following NEW packages will be installed: sbuild-build-depends-core-dummy 0 upgraded, 1 newly installed, 0 to remove and 0 not upgraded. Need to get 852 B of archives. After this operation, 0 B of additional disk space will be used. Get:1 copy:/<>/resolver-Q2Kukk/apt_archive ./ sbuild-build-depends-core-dummy 0.invalid.0 [852 B] debconf: delaying package configuration, since apt-utils is not installed Fetched 852 B in 0s (0 B/s) Selecting previously unselected package sbuild-build-depends-core-dummy. (Reading database ... 14901 files and directories currently installed.) Preparing to unpack .../sbuild-build-depends-core-dummy_0.invalid.0_amd64.deb ... Unpacking sbuild-build-depends-core-dummy (0.invalid.0) ... Setting up sbuild-build-depends-core-dummy (0.invalid.0) ... +------------------------------------------------------------------------------+ | Check architectures | +------------------------------------------------------------------------------+ Arch check ok (amd64 included in any) +------------------------------------------------------------------------------+ | Install package build dependencies | +------------------------------------------------------------------------------+ Setup apt archive ----------------- Merged Build-Depends: debhelper-compat (= 13), dh-python, python3, python3-setuptools, markdown, dos2unix, python3-mock, python3-scipy, bowtie2, samtools Filtered Build-Depends: debhelper-compat (= 13), dh-python, python3, python3-setuptools, markdown, dos2unix, python3-mock, python3-scipy, bowtie2, samtools dpkg-deb: building package 'sbuild-build-depends-srst2-dummy' in '/<>/resolver-Q2Kukk/apt_archive/sbuild-build-depends-srst2-dummy.deb'. dpkg-scanpackages: warning: Packages in archive but missing from override file: dpkg-scanpackages: warning: sbuild-build-depends-core-dummy sbuild-build-depends-srst2-dummy dpkg-scanpackages: info: Wrote 2 entries to output Packages file. Ign:1 copy:/<>/resolver-Q2Kukk/apt_archive ./ InRelease Get:2 copy:/<>/resolver-Q2Kukk/apt_archive ./ Release [963 B] Ign:3 copy:/<>/resolver-Q2Kukk/apt_archive ./ Release.gpg Get:4 copy:/<>/resolver-Q2Kukk/apt_archive ./ Sources [559 B] Get:5 copy:/<>/resolver-Q2Kukk/apt_archive ./ Packages [625 B] Fetched 2147 B in 0s (102 kB/s) Reading package lists... Reading package lists... Install srst2 build dependencies (apt-based resolver) ----------------------------------------------------- Installing build dependencies Reading package lists... Building dependency tree... Reading state information... The following packages were automatically installed and are no longer required: libperl5.30 perl-modules-5.30 Use 'apt autoremove' to remove them. The following additional packages will be installed: autoconf automake autopoint autotools-dev bowtie2 bsdextrautils 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 libcroco3 libcurl3-gnutls libdebhelper-perl libdeflate0 libelf1 libexpat1 libfile-stripnondeterminism-perl libgfortran5 libglib2.0-0 libgssapi3-heimdal libhcrypto4-heimdal libheimbase1-heimdal libheimntlm0-heimdal libhts3 libhx509-5-heimdal libicu67 libkrb5-26-heimdal liblapack3 liblbfgsb0 libldap-2.4-2 libmagic-mgc libmagic1 libnghttp2-14 libpipeline1 libpsl5 libpython3-stdlib libpython3.8-minimal libpython3.8-stdlib libpython3.9-minimal libpython3.9-stdlib libroken18-heimdal librtmp1 libsasl2-2 libsasl2-modules-db libsigsegv2 libssh-4 libsub-override-perl libtbb2 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 python3.9 python3.9-minimal samtools Suggested packages: autoconf-archive gnu-standards autoconf-doc bowtie2-examples dh-make gettext-doc libasprintf-dev libgettextpo-dev groff 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 python3.9-venv python3.9-doc cwltool Recommended packages: curl | wget | lynx libarchive-cpio-perl libglib2.0-data shared-mime-info xdg-user-dirs libldap-common publicsuffix libsasl2-modules libltdl-dev libmail-sendmail-perl python3-pil The following NEW packages will be installed: autoconf automake autopoint autotools-dev bowtie2 bsdextrautils 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 libcroco3 libcurl3-gnutls libdebhelper-perl libdeflate0 libelf1 libexpat1 libfile-stripnondeterminism-perl libgfortran5 libglib2.0-0 libgssapi3-heimdal libhcrypto4-heimdal libheimbase1-heimdal libheimntlm0-heimdal libhts3 libhx509-5-heimdal libicu67 libkrb5-26-heimdal liblapack3 liblbfgsb0 libldap-2.4-2 libmagic-mgc libmagic1 libnghttp2-14 libpipeline1 libpsl5 libpython3-stdlib libpython3.8-minimal libpython3.8-stdlib libpython3.9-minimal libpython3.9-stdlib libroken18-heimdal librtmp1 libsasl2-2 libsasl2-modules-db libsigsegv2 libssh-4 libsub-override-perl libtbb2 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 python3.9 python3.9-minimal samtools sbuild-build-depends-srst2-dummy 0 upgraded, 86 newly installed, 0 to remove and 0 not upgraded. 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hirsute-proposed/main amd64 python3-six all 1.15.0-2 [12.0 kB] Get:80 http://ftpmaster.internal/ubuntu hirsute/main amd64 python3-pbr all 5.4.5-0ubuntu1 [64.0 kB] Get:81 http://ftpmaster.internal/ubuntu hirsute-proposed/universe amd64 samtools amd64 1.11-1 [516 kB] Get:82 http://ftpmaster.internal/ubuntu hirsute/universe amd64 libtbb2 amd64 2020.3-1 [125 kB] Get:83 http://ftpmaster.internal/ubuntu hirsute/universe amd64 bowtie2 amd64 2.4.2-1 [1329 kB] Get:84 http://ftpmaster.internal/ubuntu hirsute/universe amd64 dos2unix amd64 7.4.1-1 [374 kB] Get:85 http://ftpmaster.internal/ubuntu hirsute/universe amd64 python3-mock all 4.0.2-1 [28.4 kB] Get:86 http://ftpmaster.internal/ubuntu hirsute-proposed/universe amd64 python3-scipy amd64 1.5.3-2 [13.8 MB] debconf: delaying package configuration, since apt-utils is not installed Fetched 52.8 MB in 1s (52.6 MB/s) Selecting previously unselected package libpython3.8-minimal:amd64. 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Unpacking sbuild-build-depends-srst2-dummy (0.invalid.0) ... Setting up libpipeline1:amd64 (1.5.3-1) ... Setting up libpsl5:amd64 (0.21.0-1.1ubuntu1) ... Setting up mime-support (3.64ubuntu1) ... Setting up bsdextrautils (2.36-3ubuntu1) ... update-alternatives: using /usr/bin/write.ul to provide /usr/bin/write (write) in auto mode Setting up libicu67:amd64 (67.1-4) ... Setting up libmagic-mgc (1:5.38-5) ... Setting up libarchive-zip-perl (1.68-1) ... Setting up libglib2.0-0:amd64 (2.66.2-1) ... No schema files found: doing nothing. Setting up libpython3.9-minimal:amd64 (3.9.0-5) ... Setting up libdebhelper-perl (13.2.1ubuntu1) ... Setting up libbrotli1:amd64 (1.0.9-2build1) ... Setting up libtbb2:amd64 (2020.3-1) ... Setting up libnghttp2-14:amd64 (1.41.0-3) ... Setting up libmagic1:amd64 (1:5.38-5) ... Setting up libdeflate0:amd64 (1.6-1) ... Setting up gettext-base (0.19.8.1-10build1) ... Setting up file (1:5.38-5) ... Setting up libsasl2-modules-db:amd64 (2.1.27+dfsg-2ubuntu1) ... Setting up autotools-dev (20180224.1) ... Setting up libblas3:amd64 (3.9.0-3ubuntu1) ... update-alternatives: using /usr/lib/x86_64-linux-gnu/blas/libblas.so.3 to provide /usr/lib/x86_64-linux-gnu/libblas.so.3 (libblas.so.3-x86_64-linux-gnu) in auto mode Setting up librtmp1:amd64 (2.4+20151223.gitfa8646d.1-2build2) ... Setting up libsigsegv2:amd64 (2.12-2build1) ... Setting up autopoint (0.19.8.1-10build1) ... Setting up libsasl2-2:amd64 (2.1.27+dfsg-2ubuntu1) ... Setting up libssh-4:amd64 (0.9.4-1ubuntu3) ... Setting up libgfortran5:amd64 (10.2.0-16ubuntu1) ... Setting up libroken18-heimdal:amd64 (7.7.0+dfsg-2) ... Setting up libuchardet0:amd64 (0.0.7-1) ... Setting up libsub-override-perl (0.09-2) ... Setting up dos2unix (7.4.1-1) ... Setting up python3.9-minimal (3.9.0-5) ... Setting up libpython3.8-stdlib:amd64 (3.8.6-1) ... Setting up python3.8 (3.8.6-1) ... Setting up libelf1:amd64 (0.182-1) ... Setting up libxml2:amd64 (2.9.10+dfsg-6.2) ... Setting up markdown (1.0.1-10) ... Setting up libpython3.9-stdlib:amd64 (3.9.0-5) ... Setting up libpython3-stdlib:amd64 (3.8.6-1) ... Setting up libheimbase1-heimdal:amd64 (7.7.0+dfsg-2) ... Setting up libfile-stripnondeterminism-perl (1.9.0-1) ... Setting up liblapack3:amd64 (3.9.0-3ubuntu1) ... update-alternatives: using /usr/lib/x86_64-linux-gnu/lapack/liblapack.so.3 to provide /usr/lib/x86_64-linux-gnu/liblapack.so.3 (liblapack.so.3-x86_64-linux-gnu) in auto mode Setting up libtool (2.4.6-14) ... Setting up libasn1-8-heimdal:amd64 (7.7.0+dfsg-2) ... Setting up m4 (1.4.18-4) ... Setting up python3 (3.8.6-1) ... Setting up libhcrypto4-heimdal:amd64 (7.7.0+dfsg-2) ... Setting up bowtie2 (2.4.2-1) ... Setting up python3-six (1.15.0-2) ... Setting up python3-decorator (4.4.2-0ubuntu1) ... Setting up libwind0-heimdal:amd64 (7.7.0+dfsg-2) ... Setting up libcroco3:amd64 (0.6.13-1) ... Setting up autoconf (2.69-11.1) ... Setting up dh-strip-nondeterminism (1.9.0-1) ... Setting up dwz (0.13-5) ... Setting up groff-base (1.22.4-5) ... Setting up python3-lib2to3 (3.9.0-1) ... Setting up python3.9 (3.9.0-5) ... Setting up liblbfgsb0:amd64 (3.0+dfsg.3-9) ... Setting up python3-pkg-resources (50.3.0-1) ... Setting up automake (1:1.16.2-4ubuntu1) ... update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode Setting up python3-distutils (3.9.0-1) ... Setting up dh-python (4.20201102) ... Setting up gettext (0.19.8.1-10build1) ... Setting up python3-setuptools (50.3.0-1) ... Setting up python3-pbr (5.4.5-0ubuntu1) ... update-alternatives: using /usr/bin/python3-pbr to provide /usr/bin/pbr (pbr) in auto mode Setting up libhx509-5-heimdal:amd64 (7.7.0+dfsg-2) ... Setting up man-db (2.9.3-2) ... Not building database; man-db/auto-update is not 'true'. Created symlink /etc/systemd/system/timers.target.wants/man-db.timer → /lib/systemd/system/man-db.timer. Setting up intltool-debian (0.35.0+20060710.5) ... Setting up python3-mock (4.0.2-1) ... Setting up python3-numpy (1:1.19.4-1) ... Setting up libkrb5-26-heimdal:amd64 (7.7.0+dfsg-2) ... Setting up python3-scipy (1.5.3-2) ... Setting up po-debconf (1.0.21) ... Setting up libheimntlm0-heimdal:amd64 (7.7.0+dfsg-2) ... Setting up libgssapi3-heimdal:amd64 (7.7.0+dfsg-2) ... Setting up libldap-2.4-2:amd64 (2.4.53+dfsg-1ubuntu4) ... Setting up libcurl3-gnutls:amd64 (7.72.0-1ubuntu1) ... Setting up libhts3:amd64 (1.11-2) ... Setting up samtools (1.11-1) ... Setting up dh-autoreconf (19) ... Setting up debhelper (13.2.1ubuntu1) ... Setting up sbuild-build-depends-srst2-dummy (0.invalid.0) ... Processing triggers for libc-bin (2.32-0ubuntu4) ... +------------------------------------------------------------------------------+ | Build environment | +------------------------------------------------------------------------------+ Kernel: Linux 4.15.0-122-generic amd64 (x86_64) Toolchain package versions: binutils_2.35.1-2ubuntu1 dpkg-dev_1.20.5ubuntu2 g++-10_10.2.0-16ubuntu1 gcc-10_10.2.0-16ubuntu1 libc6-dev_2.32-0ubuntu4 libstdc++-10-dev_10.2.0-16ubuntu1 libstdc++6_10.2.0-16ubuntu1 linux-libc-dev_5.8.0-26.27 Package versions: adduser_3.118ubuntu2 advancecomp_2.1-2.1build1 apt_2.1.11 autoconf_2.69-11.1 automake_1:1.16.2-4ubuntu1 autopoint_0.19.8.1-10build1 autotools-dev_20180224.1 base-files_11ubuntu16 base-passwd_3.5.48 bash_5.1~rc2-1ubuntu1 binutils_2.35.1-2ubuntu1 binutils-common_2.35.1-2ubuntu1 binutils-x86-64-linux-gnu_2.35.1-2ubuntu1 bowtie2_2.4.2-1 bsdextrautils_2.36-3ubuntu1 bsdutils_1:2.36-3ubuntu1 build-essential_12.8ubuntu3 bzip2_1.0.8-4ubuntu2 ca-certificates_20200601 coreutils_8.32-4ubuntu1 cpp_4:10.2.0-1ubuntu1 cpp-10_10.2.0-16ubuntu1 dash_0.5.10.2-7 debconf_1.5.74 debhelper_13.2.1ubuntu1 debianutils_4.11.2 dh-autoreconf_19 dh-python_4.20201102 dh-strip-nondeterminism_1.9.0-1 diffutils_1:3.7-3ubuntu1 dos2unix_7.4.1-1 dpkg_1.20.5ubuntu2 dpkg-dev_1.20.5ubuntu2 dwz_0.13-5 e2fsprogs_1.45.6-1ubuntu1 fakeroot_1.25.3-1 file_1:5.38-5 findutils_4.7.0-1ubuntu2 g++_4:10.2.0-1ubuntu1 g++-10_10.2.0-16ubuntu1 gcc_4:10.2.0-1ubuntu1 gcc-10_10.2.0-16ubuntu1 gcc-10-base_10.2.0-16ubuntu1 gettext_0.19.8.1-10build1 gettext-base_0.19.8.1-10build1 gpg_2.2.20-1ubuntu1 gpg-agent_2.2.20-1ubuntu1 gpgconf_2.2.20-1ubuntu1 gpgv_2.2.20-1ubuntu1 grep_3.6-1 groff-base_1.22.4-5 gzip_1.10-2ubuntu1 hostname_3.23 init_1.58 init-system-helpers_1.58 intltool-debian_0.35.0+20060710.5 libacl1_2.2.53-8 libapparmor1_3.0.0-0ubuntu3 libapt-pkg6.0_2.1.11 libarchive-zip-perl_1.68-1 libargon2-1_0~20171227-0.2build20.10.0 libasan6_10.2.0-16ubuntu1 libasn1-8-heimdal_7.7.0+dfsg-2 libassuan0_2.5.3-7.1 libatomic1_10.2.0-16ubuntu1 libattr1_1:2.4.48-5 libaudit-common_1:2.8.5-3ubuntu2 libaudit1_1:2.8.5-3ubuntu2 libbinutils_2.35.1-2ubuntu1 libblas3_3.9.0-3ubuntu1 libblkid1_2.36-3ubuntu1 libbrotli1_1.0.9-2build1 libbz2-1.0_1.0.8-4ubuntu2 libc-bin_2.32-0ubuntu4 libc-dev-bin_2.32-0ubuntu4 libc6_2.32-0ubuntu4 libc6-dev_2.32-0ubuntu4 libcap-ng0_0.7.9-2.2 libcap2_1:2.44-1 libcc1-0_10.2.0-16ubuntu1 libcom-err2_1.45.6-1ubuntu1 libcroco3_0.6.13-1 libcrypt-dev_1:4.4.17-1ubuntu1 libcrypt1_1:4.4.17-1ubuntu1 libcryptsetup12_2:2.3.4-1ubuntu1 libctf-nobfd0_2.35.1-2ubuntu1 libctf0_2.35.1-2ubuntu1 libcurl3-gnutls_7.72.0-1ubuntu1 libdb5.3_5.3.28+dfsg1-0.6ubuntu3 libdebconfclient0_0.255ubuntu1 libdebhelper-perl_13.2.1ubuntu1 libdeflate0_1.6-1 libdevmapper1.02.1_2:1.02.167-1ubuntu3 libdpkg-perl_1.20.5ubuntu2 libelf1_0.182-1 libexpat1_2.2.10-1 libext2fs2_1.45.6-1ubuntu1 libfakeroot_1.25.3-1 libffi8ubuntu1_3.4~20200819gead65ca871-0ubuntu3 libfile-stripnondeterminism-perl_1.9.0-1 libgcc-10-dev_10.2.0-16ubuntu1 libgcc-s1_10.2.0-16ubuntu1 libgcrypt20_1.8.7-2ubuntu1 libgdbm-compat4_1.18.1-5.1 libgdbm6_1.18.1-5.1 libgfortran5_10.2.0-16ubuntu1 libglib2.0-0_2.66.2-1 libgmp10_2:6.2.0+dfsg-6ubuntu1 libgnutls30_3.6.15-4ubuntu2 libgomp1_10.2.0-16ubuntu1 libgpg-error0_1.38-2 libgssapi-krb5-2_1.17-10 libgssapi3-heimdal_7.7.0+dfsg-2 libhcrypto4-heimdal_7.7.0+dfsg-2 libheimbase1-heimdal_7.7.0+dfsg-2 libheimntlm0-heimdal_7.7.0+dfsg-2 libhogweed6_3.6-2 libhts3_1.11-2 libhx509-5-heimdal_7.7.0+dfsg-2 libicu67_67.1-4 libidn2-0_2.3.0-2 libip4tc2_1.8.5-3ubuntu3 libisl22_0.22.1-1 libitm1_10.2.0-16ubuntu1 libjson-c5_0.15-1 libk5crypto3_1.17-10 libkeyutils1_1.6.1-2ubuntu1 libkmod2_27+20200310-2ubuntu1 libkrb5-26-heimdal_7.7.0+dfsg-2 libkrb5-3_1.17-10 libkrb5support0_1.17-10 liblapack3_3.9.0-3ubuntu1 liblbfgsb0_3.0+dfsg.3-9 libldap-2.4-2_2.4.53+dfsg-1ubuntu4 liblockfile-bin_1.16-1.1 liblockfile1_1.16-1.1 liblsan0_10.2.0-16ubuntu1 liblz4-1_1.9.2-2 liblzma5_5.2.4-1ubuntu1 libmagic-mgc_1:5.38-5 libmagic1_1:5.38-5 libmount1_2.36-3ubuntu1 libmpc3_1.2.0-1 libmpfr6_4.1.0-3 libncurses6_6.2+20200918-1 libncursesw6_6.2+20200918-1 libnettle8_3.6-2 libnghttp2-14_1.41.0-3 libnpth0_1.6-3 libnsl-dev_1.3.0-0ubuntu3 libnsl2_1.3.0-0ubuntu3 libnss-nis_3.1-0ubuntu4 libnss-nisplus_1.3-0ubuntu4 libp11-kit0_0.23.21-2build1 libpam-modules_1.3.1-5ubuntu6 libpam-modules-bin_1.3.1-5ubuntu6 libpam-runtime_1.3.1-5ubuntu6 libpam0g_1.3.1-5ubuntu6 libpcre2-8-0_10.34-7 libpcre3_2:8.39-13 libperl5.30_5.30.3-4 libperl5.32_5.32.0-4 libpipeline1_1.5.3-1 libpng16-16_1.6.37-3 libprocps8_2:3.3.16-5ubuntu2 libpsl5_0.21.0-1.1ubuntu1 libpython3-stdlib_3.8.6-1 libpython3.8-minimal_3.8.6-1 libpython3.8-stdlib_3.8.6-1 libpython3.9-minimal_3.9.0-5 libpython3.9-stdlib_3.9.0-5 libquadmath0_10.2.0-16ubuntu1 libreadline8_8.1~rc2-2 libroken18-heimdal_7.7.0+dfsg-2 librtmp1_2.4+20151223.gitfa8646d.1-2build2 libsasl2-2_2.1.27+dfsg-2ubuntu1 libsasl2-modules-db_2.1.27+dfsg-2ubuntu1 libseccomp2_2.4.3-1ubuntu5 libselinux1_3.1-2build1 libsemanage-common_3.1-1build1 libsemanage1_3.1-1build1 libsepol1_3.1-1 libsigsegv2_2.12-2build1 libsmartcols1_2.36-3ubuntu1 libsqlite3-0_3.33.0-1 libss2_1.45.6-1ubuntu1 libssh-4_0.9.4-1ubuntu3 libssl1.1_1.1.1f-1ubuntu4 libstdc++-10-dev_10.2.0-16ubuntu1 libstdc++6_10.2.0-16ubuntu1 libsub-override-perl_0.09-2 libsystemd0_246.6-2ubuntu1 libtasn1-6_4.16.0-2 libtbb2_2020.3-1 libtinfo6_6.2+20200918-1 libtirpc-common_1.2.6-3 libtirpc-dev_1.2.6-3 libtirpc3_1.2.6-3 libtool_2.4.6-14 libtsan0_10.2.0-16ubuntu1 libubsan1_10.2.0-16ubuntu1 libuchardet0_0.0.7-1 libudev1_246.6-2ubuntu1 libunistring2_0.9.10-4 libuuid1_2.36-3ubuntu1 libwind0-heimdal_7.7.0+dfsg-2 libxml2_2.9.10+dfsg-6.2 libzstd1_1.4.5+dfsg-4 linux-libc-dev_5.8.0-26.27 lockfile-progs_0.1.18 login_1:4.8.1-1ubuntu6 logsave_1.45.6-1ubuntu1 lsb-base_11.1.0ubuntu2 m4_1.4.18-4 make_4.3-4ubuntu1 man-db_2.9.3-2 markdown_1.0.1-10 mawk_1.3.4.20200120-2 mime-support_3.64ubuntu1 mount_2.36-3ubuntu1 ncurses-base_6.2+20200918-1 ncurses-bin_6.2+20200918-1 openssl_1.1.1f-1ubuntu4 optipng_0.7.7-1 passwd_1:4.8.1-1ubuntu6 patch_2.7.6-6 perl_5.32.0-4 perl-base_5.32.0-4 perl-modules-5.30_5.30.3-4 perl-modules-5.32_5.32.0-4 pinentry-curses_1.1.0-4build1 pkgbinarymangler_146 po-debconf_1.0.21 policyrcd-script-zg2_0.1-3 procps_2:3.3.16-5ubuntu2 python3_3.8.6-1 python3-decorator_4.4.2-0ubuntu1 python3-distutils_3.9.0-1 python3-lib2to3_3.9.0-1 python3-minimal_3.8.6-1 python3-mock_4.0.2-1 python3-numpy_1:1.19.4-1 python3-pbr_5.4.5-0ubuntu1 python3-pkg-resources_50.3.0-1 python3-scipy_1.5.3-2 python3-setuptools_50.3.0-1 python3-six_1.15.0-2 python3.8_3.8.6-1 python3.8-minimal_3.8.6-1 python3.9_3.9.0-5 python3.9-minimal_3.9.0-5 readline-common_8.1~rc2-2 rpcsvc-proto_1.4.2-0ubuntu4 samtools_1.11-1 sbuild-build-depends-core-dummy_0.invalid.0 sbuild-build-depends-srst2-dummy_0.invalid.0 sed_4.7-1ubuntu1 sensible-utils_0.0.13 systemd_246.6-2ubuntu1 systemd-sysv_246.6-2ubuntu1 systemd-timesyncd_246.6-2ubuntu1 sysvinit-utils_2.96-5ubuntu1 tar_1.30+dfsg-7 tzdata_2020d-1ubuntu1 ubuntu-keyring_2020.06.17.1 util-linux_2.36-3ubuntu1 xz-utils_5.2.4-1ubuntu1 zlib1g_1:1.2.11.dfsg-2ubuntu4 +------------------------------------------------------------------------------+ | Build | +------------------------------------------------------------------------------+ Unpack source ------------- gpgv: Signature made Tue Nov 10 15:55:26 2020 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_0.2.0-8.dsc dpkg-source: info: extracting srst2 in /<> dpkg-source: info: unpacking srst2_0.2.0.orig.tar.gz dpkg-source: info: unpacking srst2_0.2.0-8.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 dpkg-source: info: applying biopython-1.78.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-20278000 SCHROOT_CHROOT_NAME=build-PACKAGEBUILD-20278000 SCHROOT_COMMAND=env SCHROOT_GID=2501 SCHROOT_GROUP=buildd SCHROOT_SESSION_ID=build-PACKAGEBUILD-20278000 SCHROOT_UID=2001 SCHROOT_USER=buildd SHELL=/bin/sh TERM=unknown USER=buildd V=1 dpkg-buildpackage ----------------- dpkg-buildpackage: info: source package srst2 dpkg-buildpackage: info: source version 0.2.0-8 dpkg-buildpackage: info: source distribution unstable dpkg-source --before-build . dpkg-buildpackage: info: host architecture amd64 debian/rules clean dh clean --with python3 --buildsystem=pybuild dh_auto_clean -O--buildsystem=pybuild I: pybuild base:232: 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-x86_64' 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 binary dh binary --with python3 --buildsystem=pybuild dh_update_autotools_config -O--buildsystem=pybuild dh_autoreconf -O--buildsystem=pybuild dh_auto_configure -O--buildsystem=pybuild I: pybuild base:232: 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:232: /usr/bin/python3 setup.py build running build running build_py creating /<>/.pybuild/cpython3_3.8/build/srst2 copying scripts/slurm_srst2.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/analyseSRST2.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/version.py -> /<>/.pybuild/cpython3_3.8/build/srst2 copying scripts/__init__.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 0.057s OK ................. ---------------------------------------------------------------------- Ran 17 tests in 0.083s OK make[1]: Leaving directory '/<>' create-stamp debian/debhelper-build-stamp dh_testroot -O--buildsystem=pybuild dh_prep -O--buildsystem=pybuild dh_auto_install -O--buildsystem=pybuild I: pybuild base:232: /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/slurm_srst2.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/analyseSRST2.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/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 byte-compiling /<>/debian/srst2/usr/lib/python3.8/dist-packages/srst2/slurm_srst2.py to slurm_srst2.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/analyseSRST2.py to analyseSRST2.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/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 running install_scripts creating /<>/debian/srst2/usr/bin copying build/scripts-3.8/slurm_srst2.py -> /<>/debian/srst2/usr/bin copying build/scripts-3.8/getmlst.py -> /<>/debian/srst2/usr/bin changing mode of /<>/debian/srst2/usr/bin/slurm_srst2.py to 755 changing mode of /<>/debian/srst2/usr/bin/getmlst.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/VFDBgenus.py to Unix format... dos2unix: converting file debian/srst2/usr/share/srst2/database_clustering/VFDB_cdhit_to_csv.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 -O--buildsystem=pybuild dh_installman -O--buildsystem=pybuild dh_python3 -O--buildsystem=pybuild dh_installsystemduser -O--buildsystem=pybuild dh_perl -O--buildsystem=pybuild dh_link -O--buildsystem=pybuild dh_strip_nondeterminism -O--buildsystem=pybuild dh_compress -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 -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 -O--buildsystem=pybuild dh_gencontrol -O--buildsystem=pybuild dh_md5sums -O--buildsystem=pybuild dh_builddeb -O--buildsystem=pybuild INFO: pkgstriptranslations version 146 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_0.2.0-8_amd64.deb'. dpkg-genbuildinfo --build=binary dpkg-genchanges --build=binary -mLaunchpad Build Daemon >../srst2_0.2.0-8_amd64.changes dpkg-genchanges: info: binary-only upload (no source code included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) -------------------------------------------------------------------------------- Build finished at 2020-11-10T23:23:22Z Finished -------- I: Built successfully +------------------------------------------------------------------------------+ | Post Build Chroot | +------------------------------------------------------------------------------+ +------------------------------------------------------------------------------+ | Changes | +------------------------------------------------------------------------------+ srst2_0.2.0-8_amd64.changes: ---------------------------- Format: 1.8 Date: Tue, 10 Nov 2020 15:50:29 +0100 Source: srst2 Binary: srst2 Architecture: amd64 Version: 0.2.0-8 Distribution: hirsute-proposed Urgency: medium Maintainer: Launchpad Build Daemon Changed-By: Étienne Mollier Description: srst2 - Short Read Sequence Typing for Bacterial Pathogens Changes: srst2 (0.2.0-8) unstable; urgency=medium . [ Étienne Mollier ] * Add myself to Uploaders. * Add patch biopython-1.78 for compatibility with Bio.Alphabet removal. * Bump watch file to version 4. * Standards-Version: 4.5.0 (routine-update) * debhelper-compat 13 (routine-update) * Add salsa-ci file (routine-update) * Rules-Requires-Root: no (routine-update) * Set upstream metadata fields: Bug-Database, Bug-Submit. . [ Andreas Tille ] * Restrict test architectures to those where bowtie2 is available Checksums-Sha1: fc278a1d68396e3a63efcffe66a2c84a13086118 7228 srst2_0.2.0-8_amd64.buildinfo 5a2bbea3b78acb898d5be07f27ef5b2c0bf42e3a 60920 srst2_0.2.0-8_amd64.deb Checksums-Sha256: 293dee72340d3101e518fd0196dba425d078fc5a798b5d3b8bfdf96b149df746 7228 srst2_0.2.0-8_amd64.buildinfo 67c2c76b9f6e875f725de65701128992ecf165819487acd0409bb9f91b88a5cd 60920 srst2_0.2.0-8_amd64.deb Files: 8e72ffd6cc4cea3ee2013798f8fc3ae4 7228 science optional srst2_0.2.0-8_amd64.buildinfo 08469429d765464919c8cd69a9c887db 60920 science optional srst2_0.2.0-8_amd64.deb +------------------------------------------------------------------------------+ | Buildinfo | +------------------------------------------------------------------------------+ Format: 1.0 Source: srst2 Binary: srst2 Architecture: amd64 Version: 0.2.0-8 Checksums-Md5: 08469429d765464919c8cd69a9c887db 60920 srst2_0.2.0-8_amd64.deb Checksums-Sha1: 5a2bbea3b78acb898d5be07f27ef5b2c0bf42e3a 60920 srst2_0.2.0-8_amd64.deb Checksums-Sha256: 67c2c76b9f6e875f725de65701128992ecf165819487acd0409bb9f91b88a5cd 60920 srst2_0.2.0-8_amd64.deb Build-Origin: Ubuntu Build-Architecture: amd64 Build-Date: Tue, 10 Nov 2020 23:23:22 +0000 Build-Path: /<> Build-Tainted-By: usr-local-has-programs Installed-Build-Depends: autoconf (= 2.69-11.1), automake (= 1:1.16.2-4ubuntu1), autopoint (= 0.19.8.1-10build1), autotools-dev (= 20180224.1), base-files (= 11ubuntu16), base-passwd (= 3.5.48), bash (= 5.1~rc2-1ubuntu1), binutils (= 2.35.1-2ubuntu1), binutils-common (= 2.35.1-2ubuntu1), binutils-x86-64-linux-gnu (= 2.35.1-2ubuntu1), bowtie2 (= 2.4.2-1), bsdextrautils (= 2.36-3ubuntu1), bsdutils (= 1:2.36-3ubuntu1), build-essential (= 12.8ubuntu3), bzip2 (= 1.0.8-4ubuntu2), coreutils (= 8.32-4ubuntu1), cpp (= 4:10.2.0-1ubuntu1), cpp-10 (= 10.2.0-16ubuntu1), dash (= 0.5.10.2-7), debconf (= 1.5.74), debhelper (= 13.2.1ubuntu1), debianutils (= 4.11.2), dh-autoreconf (= 19), dh-python (= 4.20201102), dh-strip-nondeterminism (= 1.9.0-1), diffutils (= 1:3.7-3ubuntu1), dos2unix (= 7.4.1-1), dpkg (= 1.20.5ubuntu2), dpkg-dev (= 1.20.5ubuntu2), dwz (= 0.13-5), file (= 1:5.38-5), findutils (= 4.7.0-1ubuntu2), g++ (= 4:10.2.0-1ubuntu1), g++-10 (= 10.2.0-16ubuntu1), gcc (= 4:10.2.0-1ubuntu1), gcc-10 (= 10.2.0-16ubuntu1), gcc-10-base (= 10.2.0-16ubuntu1), gettext (= 0.19.8.1-10build1), gettext-base (= 0.19.8.1-10build1), grep (= 3.6-1), groff-base (= 1.22.4-5), gzip (= 1.10-2ubuntu1), hostname (= 3.23), init-system-helpers (= 1.58), intltool-debian (= 0.35.0+20060710.5), libacl1 (= 2.2.53-8), libarchive-zip-perl (= 1.68-1), libasan6 (= 10.2.0-16ubuntu1), libasn1-8-heimdal (= 7.7.0+dfsg-2), libatomic1 (= 10.2.0-16ubuntu1), libattr1 (= 1:2.4.48-5), libaudit-common (= 1:2.8.5-3ubuntu2), libaudit1 (= 1:2.8.5-3ubuntu2), libbinutils (= 2.35.1-2ubuntu1), libblas3 (= 3.9.0-3ubuntu1), libblkid1 (= 2.36-3ubuntu1), libbrotli1 (= 1.0.9-2build1), libbz2-1.0 (= 1.0.8-4ubuntu2), libc-bin (= 2.32-0ubuntu4), libc-dev-bin (= 2.32-0ubuntu4), libc6 (= 2.32-0ubuntu4), libc6-dev (= 2.32-0ubuntu4), libcap-ng0 (= 0.7.9-2.2), libcc1-0 (= 10.2.0-16ubuntu1), libcom-err2 (= 1.45.6-1ubuntu1), libcroco3 (= 0.6.13-1), libcrypt-dev (= 1:4.4.17-1ubuntu1), libcrypt1 (= 1:4.4.17-1ubuntu1), libctf-nobfd0 (= 2.35.1-2ubuntu1), libctf0 (= 2.35.1-2ubuntu1), libcurl3-gnutls (= 7.72.0-1ubuntu1), libdb5.3 (= 5.3.28+dfsg1-0.6ubuntu3), libdebconfclient0 (= 0.255ubuntu1), libdebhelper-perl (= 13.2.1ubuntu1), libdeflate0 (= 1.6-1), libdpkg-perl (= 1.20.5ubuntu2), libelf1 (= 0.182-1), libexpat1 (= 2.2.10-1), libffi8ubuntu1 (= 3.4~20200819gead65ca871-0ubuntu3), libfile-stripnondeterminism-perl (= 1.9.0-1), libgcc-10-dev (= 10.2.0-16ubuntu1), libgcc-s1 (= 10.2.0-16ubuntu1), libgcrypt20 (= 1.8.7-2ubuntu1), libgdbm-compat4 (= 1.18.1-5.1), libgdbm6 (= 1.18.1-5.1), libgfortran5 (= 10.2.0-16ubuntu1), libglib2.0-0 (= 2.66.2-1), libgmp10 (= 2:6.2.0+dfsg-6ubuntu1), libgnutls30 (= 3.6.15-4ubuntu2), libgomp1 (= 10.2.0-16ubuntu1), libgpg-error0 (= 1.38-2), libgssapi-krb5-2 (= 1.17-10), libgssapi3-heimdal (= 7.7.0+dfsg-2), libhcrypto4-heimdal (= 7.7.0+dfsg-2), libheimbase1-heimdal (= 7.7.0+dfsg-2), libheimntlm0-heimdal (= 7.7.0+dfsg-2), libhogweed6 (= 3.6-2), libhts3 (= 1.11-2), libhx509-5-heimdal (= 7.7.0+dfsg-2), libicu67 (= 67.1-4), libidn2-0 (= 2.3.0-2), libisl22 (= 0.22.1-1), libitm1 (= 10.2.0-16ubuntu1), libk5crypto3 (= 1.17-10), libkeyutils1 (= 1.6.1-2ubuntu1), libkrb5-26-heimdal (= 7.7.0+dfsg-2), libkrb5-3 (= 1.17-10), libkrb5support0 (= 1.17-10), liblapack3 (= 3.9.0-3ubuntu1), liblbfgsb0 (= 3.0+dfsg.3-9), libldap-2.4-2 (= 2.4.53+dfsg-1ubuntu4), liblsan0 (= 10.2.0-16ubuntu1), liblz4-1 (= 1.9.2-2), liblzma5 (= 5.2.4-1ubuntu1), libmagic-mgc (= 1:5.38-5), libmagic1 (= 1:5.38-5), libmount1 (= 2.36-3ubuntu1), libmpc3 (= 1.2.0-1), libmpfr6 (= 4.1.0-3), libncurses6 (= 6.2+20200918-1), libncursesw6 (= 6.2+20200918-1), libnettle8 (= 3.6-2), libnghttp2-14 (= 1.41.0-3), libnsl-dev (= 1.3.0-0ubuntu3), libnsl2 (= 1.3.0-0ubuntu3), libp11-kit0 (= 0.23.21-2build1), libpam-modules (= 1.3.1-5ubuntu6), libpam-modules-bin (= 1.3.1-5ubuntu6), libpam-runtime (= 1.3.1-5ubuntu6), libpam0g (= 1.3.1-5ubuntu6), libpcre2-8-0 (= 10.34-7), libpcre3 (= 2:8.39-13), libperl5.32 (= 5.32.0-4), libpipeline1 (= 1.5.3-1), libpsl5 (= 0.21.0-1.1ubuntu1), libpython3-stdlib (= 3.8.6-1), libpython3.8-minimal (= 3.8.6-1), libpython3.8-stdlib (= 3.8.6-1), libpython3.9-minimal (= 3.9.0-5), libpython3.9-stdlib (= 3.9.0-5), libquadmath0 (= 10.2.0-16ubuntu1), libreadline8 (= 8.1~rc2-2), libroken18-heimdal (= 7.7.0+dfsg-2), librtmp1 (= 2.4+20151223.gitfa8646d.1-2build2), libsasl2-2 (= 2.1.27+dfsg-2ubuntu1), libsasl2-modules-db (= 2.1.27+dfsg-2ubuntu1), libseccomp2 (= 2.4.3-1ubuntu5), libselinux1 (= 3.1-2build1), libsigsegv2 (= 2.12-2build1), libsmartcols1 (= 2.36-3ubuntu1), libsqlite3-0 (= 3.33.0-1), libssh-4 (= 0.9.4-1ubuntu3), libssl1.1 (= 1.1.1f-1ubuntu4), libstdc++-10-dev (= 10.2.0-16ubuntu1), libstdc++6 (= 10.2.0-16ubuntu1), libsub-override-perl (= 0.09-2), libsystemd0 (= 246.6-2ubuntu1), libtasn1-6 (= 4.16.0-2), libtbb2 (= 2020.3-1), libtinfo6 (= 6.2+20200918-1), libtirpc-common (= 1.2.6-3), libtirpc-dev (= 1.2.6-3), libtirpc3 (= 1.2.6-3), libtool (= 2.4.6-14), libtsan0 (= 10.2.0-16ubuntu1), libubsan1 (= 10.2.0-16ubuntu1), libuchardet0 (= 0.0.7-1), libudev1 (= 246.6-2ubuntu1), libunistring2 (= 0.9.10-4), libuuid1 (= 2.36-3ubuntu1), libwind0-heimdal (= 7.7.0+dfsg-2), libxml2 (= 2.9.10+dfsg-6.2), libzstd1 (= 1.4.5+dfsg-4), linux-libc-dev (= 5.8.0-26.27), login (= 1:4.8.1-1ubuntu6), lsb-base (= 11.1.0ubuntu2), m4 (= 1.4.18-4), make (= 4.3-4ubuntu1), man-db (= 2.9.3-2), markdown (= 1.0.1-10), mawk (= 1.3.4.20200120-2), mime-support (= 3.64ubuntu1), ncurses-base (= 6.2+20200918-1), ncurses-bin (= 6.2+20200918-1), patch (= 2.7.6-6), perl (= 5.32.0-4), perl-base (= 5.32.0-4), perl-modules-5.32 (= 5.32.0-4), po-debconf (= 1.0.21), python3 (= 3.8.6-1), python3-decorator (= 4.4.2-0ubuntu1), python3-distutils (= 3.9.0-1), python3-lib2to3 (= 3.9.0-1), python3-minimal (= 3.8.6-1), python3-mock (= 4.0.2-1), python3-numpy (= 1:1.19.4-1), python3-pbr (= 5.4.5-0ubuntu1), python3-pkg-resources (= 50.3.0-1), python3-scipy (= 1.5.3-2), python3-setuptools (= 50.3.0-1), python3-six (= 1.15.0-2), python3.8 (= 3.8.6-1), python3.8-minimal (= 3.8.6-1), python3.9 (= 3.9.0-5), python3.9-minimal (= 3.9.0-5), readline-common (= 8.1~rc2-2), rpcsvc-proto (= 1.4.2-0ubuntu4), samtools (= 1.11-1), sed (= 4.7-1ubuntu1), sensible-utils (= 0.0.13), sysvinit-utils (= 2.96-5ubuntu1), tar (= 1.30+dfsg-7), util-linux (= 2.36-3ubuntu1), xz-utils (= 5.2.4-1ubuntu1), zlib1g (= 1:1.2.11.dfsg-2ubuntu4) Environment: DEB_BUILD_OPTIONS="parallel=4" LANG="C.UTF-8" LC_ALL="C.UTF-8" SOURCE_DATE_EPOCH="1605019829" +------------------------------------------------------------------------------+ | Package contents | +------------------------------------------------------------------------------+ srst2_0.2.0-8_amd64.deb ----------------------- new Debian package, version 2.0. size 60920 bytes: control archive=1968 bytes. 699 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: 0.2.0-8 Architecture: amd64 Maintainer: Ubuntu Developers Original-Maintainer: Debian Med Packaging Team Installed-Size: 254 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 2020-11-10 14:50 ./ drwxr-xr-x root/root 0 2020-11-10 14:50 ./usr/ drwxr-xr-x root/root 0 2020-11-10 14:50 ./usr/bin/ lrwxrwxrwx root/root 0 2020-11-10 14:50 ./usr/bin/VFDB_cdhit_to_csv -> ../share/srst2/database_clustering/VFDB_cdhit_to_csv.py lrwxrwxrwx root/root 0 2020-11-10 14:50 ./usr/bin/VFDBgenus -> ../share/srst2/database_clustering/VFDBgenus.py lrwxrwxrwx root/root 0 2020-11-10 14:50 ./usr/bin/csv_to_gene_db -> ../share/srst2/database_clustering/csv_to_gene_db.py lrwxrwxrwx root/root 0 2020-11-10 14:50 ./usr/bin/get_all_vfdb -> ../share/srst2/database_clustering/get_all_vfdb.sh lrwxrwxrwx root/root 0 2020-11-10 14:50 ./usr/bin/get_genus_vfdb -> ../share/srst2/database_clustering/get_genus_vfdb.sh lrwxrwxrwx root/root 0 2020-11-10 14:50 ./usr/bin/getmlst -> ../share/srst2/getmlst.py lrwxrwxrwx root/root 0 2020-11-10 14:50 ./usr/bin/slurm_srst2 -> ../share/srst2/slurm_srst2.py lrwxrwxrwx root/root 0 2020-11-10 14:50 ./usr/bin/srst2 -> ../share/srst2/srst2.py drwxr-xr-x root/root 0 2020-11-10 14:50 ./usr/share/ drwxr-xr-x root/root 0 2020-11-10 14:50 ./usr/share/doc-base/ -rw-r--r-- root/root 530 2020-11-10 14:50 ./usr/share/doc-base/srst2 drwxr-xr-x root/root 0 2020-11-10 14:50 ./usr/share/doc/ drwxr-xr-x root/root 0 2020-11-10 14:50 ./usr/share/doc/srst2/ -rw-r--r-- root/root 72441 2020-11-10 14:50 ./usr/share/doc/srst2/README.html -rw-r--r-- root/root 1033 2020-11-10 14:50 ./usr/share/doc/srst2/changelog.Debian.gz -rw-r--r-- root/root 2022 2020-11-10 14:50 ./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 2020-11-10 14:50 ./usr/share/doc/srst2/tests/ -rw-r--r-- root/root 788 2020-11-10 14:50 ./usr/share/doc/srst2/tests/test_slurm_srst2.py.gz -rw-r--r-- root/root 1499 2020-11-10 14:50 ./usr/share/doc/srst2/tests/test_srst2.py.gz drwxr-xr-x root/root 0 2020-11-10 14:50 ./usr/share/man/ drwxr-xr-x root/root 0 2020-11-10 14:50 ./usr/share/man/man1/ -rw-r--r-- root/root 560 2020-11-10 14:50 ./usr/share/man/man1/VFDB_cdhit_to_csv.1.gz -rw-r--r-- root/root 555 2020-11-10 14:50 ./usr/share/man/man1/VFDBgenus.1.gz -rw-r--r-- root/root 784 2020-11-10 14:50 ./usr/share/man/man1/csv_to_gene_db.1.gz -rw-r--r-- root/root 413 2020-11-10 14:50 ./usr/share/man/man1/get_all_vfdb.1.gz -rw-r--r-- root/root 435 2020-11-10 14:50 ./usr/share/man/man1/get_genus_vfdb.1.gz -rw-r--r-- root/root 826 2020-11-10 14:50 ./usr/share/man/man1/getmlst.1.gz -rw-r--r-- root/root 795 2020-11-10 14:50 ./usr/share/man/man1/slurm_srst2.1.gz -rw-r--r-- root/root 2279 2020-11-10 14:50 ./usr/share/man/man1/srst2.1.gz drwxr-xr-x root/root 0 2020-11-10 14:50 ./usr/share/python3/ drwxr-xr-x root/root 0 2020-11-10 14:50 ./usr/share/python3/runtime.d/ -rwxr-xr-x root/root 125 2020-11-10 14:50 ./usr/share/python3/runtime.d/srst2.rtupdate drwxr-xr-x root/root 0 2020-11-10 14:50 ./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 2020-11-10 14:50 ./usr/share/srst2/analyseSRST2.py -rw-r--r-- root/root 2015 2020-11-10 14:50 ./usr/share/srst2/consensus_alignment.py drwxr-xr-x root/root 0 2020-11-10 14:50 ./usr/share/srst2/database_clustering/ -rwxr-xr-x root/root 2041 2020-11-10 14:50 ./usr/share/srst2/database_clustering/VFDB_cdhit_to_csv.py -rwxr-xr-x root/root 1425 2020-11-10 14:50 ./usr/share/srst2/database_clustering/VFDBgenus.py -rw-r--r-- root/root 1883 2020-11-10 14:50 ./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 3750 2020-11-10 14:50 ./usr/share/srst2/database_clustering/csv_to_gene_db.py -rwxr-xr-x root/root 1952 2020-11-10 14:50 ./usr/share/srst2/database_clustering/get_all_vfdb.sh -rwxr-xr-x root/root 1597 2020-11-10 14:50 ./usr/share/srst2/database_clustering/get_genus_vfdb.sh -rwxr-xr-x root/root 7183 2020-11-10 14:50 ./usr/share/srst2/getmlst.py -rwxr-xr-x root/root 11123 2020-11-10 14:50 ./usr/share/srst2/qsub_srst2.py -rwxr-xr-x root/root 11081 2020-11-10 14:50 ./usr/share/srst2/slurm_srst2.py -rwxr-xr-x root/root 71949 2020-11-10 14:50 ./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: amd64 Build Type: binary Build-Space: n/a Build-Time: 11 Distribution: hirsute-proposed Host Architecture: amd64 Install-Time: 43 Job: srst2_0.2.0-8.dsc Machine Architecture: amd64 Package: srst2 Package-Time: 55 Source-Version: 0.2.0-8 Space: n/a Status: successful Version: 0.2.0-8 -------------------------------------------------------------------------------- Finished at 2020-11-10T23:23:22Z Build needed 00:00:55, no disk space RUN: /usr/share/launchpad-buildd/bin/in-target scan-for-processes --backend=chroot --series=hirsute --arch=amd64 PACKAGEBUILD-20278000 Scanning for processes to kill in build PACKAGEBUILD-20278000