https://launchpad.net/ubuntu/+source/python-pyvcf/0.6.8+git20170215.476169c-7/+build/18751200 RUN: /usr/share/launchpad-buildd/bin/builder-prep Kernel version: Linux bos02-arm64-059 4.4.0-174-generic #204-Ubuntu SMP Wed Jan 29 06:42:38 UTC 2020 aarch64 Buildd toolchain package versions: launchpad-buildd_186 python-lpbuildd_186 sbuild_0.67.0-2ubuntu7.1 bzr-builder_0.7.3+bzr174~ppa13~ubuntu14.10.1 bzr_2.7.0-2ubuntu3.1 git-build-recipe_0.3.6~git201906051340.ff11471~ubuntu16.04.1 git_1:2.7.4-0ubuntu1.7 dpkg-dev_1.18.4ubuntu1.6 python-debian_0.1.27ubuntu2. Syncing the system clock with the buildd NTP service... 23 Feb 11:34:49 ntpdate[1926]: adjust time server 10.211.37.1 offset 0.026426 sec RUN: /usr/share/launchpad-buildd/bin/in-target unpack-chroot --backend=chroot --series=focal --arch=armhf PACKAGEBUILD-18751200 --image-type chroot /home/buildd/filecache-default/f005b6164729459c78307140747b338a2f357aa2 Creating target for build PACKAGEBUILD-18751200 RUN: /usr/share/launchpad-buildd/bin/in-target mount-chroot --backend=chroot --series=focal --arch=armhf PACKAGEBUILD-18751200 Starting target for build PACKAGEBUILD-18751200 RUN: /usr/share/launchpad-buildd/bin/in-target override-sources-list --backend=chroot --series=focal --arch=armhf PACKAGEBUILD-18751200 'deb http://ftpmaster.internal/ubuntu focal main universe' 'deb http://ftpmaster.internal/ubuntu focal-security main universe' 'deb http://ftpmaster.internal/ubuntu focal-updates main universe' 'deb http://ftpmaster.internal/ubuntu focal-proposed main universe' Overriding sources.list in build-PACKAGEBUILD-18751200 RUN: /usr/share/launchpad-buildd/bin/in-target update-debian-chroot --backend=chroot --series=focal --arch=armhf PACKAGEBUILD-18751200 Updating target for build PACKAGEBUILD-18751200 Get:1 http://ftpmaster.internal/ubuntu focal InRelease [255 kB] Get:2 http://ftpmaster.internal/ubuntu focal-security InRelease [79.7 kB] Get:3 http://ftpmaster.internal/ubuntu focal-updates InRelease [79.7 kB] Get:4 http://ftpmaster.internal/ubuntu focal-proposed InRelease [255 kB] Get:5 http://ftpmaster.internal/ubuntu focal/main armhf Packages [944 kB] Get:6 http://ftpmaster.internal/ubuntu focal/main Translation-en [505 kB] Get:7 http://ftpmaster.internal/ubuntu focal/universe armhf Packages [8359 kB] Get:8 http://ftpmaster.internal/ubuntu focal/universe Translation-en [5150 kB] Get:9 http://ftpmaster.internal/ubuntu focal-proposed/main armhf Packages [112 kB] Get:10 http://ftpmaster.internal/ubuntu focal-proposed/main Translation-en [54.6 kB] Get:11 http://ftpmaster.internal/ubuntu focal-proposed/universe armhf Packages [501 kB] Get:12 http://ftpmaster.internal/ubuntu focal-proposed/universe Translation-en [272 kB] Fetched 16.6 MB in 7s (2436 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: libffi6 libhogweed4 libisl21 libnettle6 libperl5.28 perl-modules-5.28 Use 'sudo apt autoremove' to remove them. The following NEW packages will be installed: gcc-10-base libctf-nobfd0 libctf0 libffi7 libgcc-s1 libhogweed5 libisl22 libnettle7 libperl5.30 libprocps8 perl-modules-5.30 The following packages will be upgraded: apt base-files base-passwd bash binutils binutils-arm-linux-gnueabihf binutils-common bsdutils bzip2 cpp-9 debianutils e2fsprogs fdisk findutils g++-9 gcc-9 gcc-9-base gpg gpg-agent gpgconf gpgv grep gzip hostname libacl1 libapparmor1 libapt-pkg5.90 libasan5 libassuan0 libatomic1 libattr1 libaudit-common libaudit1 libbinutils libblkid1 libbz2-1.0 libc-bin libc-dev-bin libc6 libc6-dev libcap-ng0 libcap2 libcc1-0 libcom-err2 libcryptsetup12 libdebconfclient0 libdevmapper1.02.1 libext2fs2 libfdisk1 libgcc-9-dev libgcc1 libgcrypt20 libgmp10 libgnutls30 libgomp1 libgpg-error0 libip4tc2 libjson-c4 libkmod2 liblockfile-bin liblockfile1 liblz4-1 libmount1 libncurses6 libncursesw6 libp11-kit0 libpam-modules libpam-modules-bin libpam-runtime libpam0g libpcre2-8-0 libpng16-16 libseccomp2 libselinux1 libsemanage-common libsemanage1 libsepol1 libsmartcols1 libsqlite3-0 libss2 libssl1.1 libstdc++-9-dev libstdc++6 libsystemd0 libtasn1-6 libtinfo6 libubsan1 libudev1 libuuid1 libzstd1 linux-libc-dev login logsave lsb-base mount ncurses-base ncurses-bin openssl passwd perl perl-base procps sensible-utils systemd systemd-sysv sysvinit-utils ubuntu-keyring util-linux 108 upgraded, 11 newly installed, 0 to remove and 0 not upgraded. Need to get 57.5 MB of archives. After this operation, 38.0 MB of additional disk space will be used. Get:1 http://ftpmaster.internal/ubuntu focal/main armhf libc6-dev armhf 2.30-0ubuntu3 [1943 kB] Get:2 http://ftpmaster.internal/ubuntu focal/main armhf libc-dev-bin armhf 2.30-0ubuntu3 [63.6 kB] Get:3 http://ftpmaster.internal/ubuntu focal-proposed/main armhf linux-libc-dev armhf 5.4.0-15.18 [1128 kB] Get:4 http://ftpmaster.internal/ubuntu focal-proposed/main armhf gcc-10-base armhf 10-20200222-1ubuntu1 [18.7 kB] Get:5 http://ftpmaster.internal/ubuntu focal-proposed/main armhf libgcc-s1 armhf 10-20200222-1ubuntu1 [36.5 kB] Get:6 http://ftpmaster.internal/ubuntu focal-proposed/main armhf libgcc1 armhf 1:10-20200222-1ubuntu1 [36.3 kB] Get:7 http://ftpmaster.internal/ubuntu focal/main armhf libc6 armhf 2.30-0ubuntu3 [2144 kB] Get:8 http://ftpmaster.internal/ubuntu focal/main armhf base-files armhf 11ubuntu2 [59.8 kB] Get:9 http://ftpmaster.internal/ubuntu focal/main armhf debianutils armhf 4.9.1 [84.6 kB] Get:10 http://ftpmaster.internal/ubuntu focal/main armhf bash armhf 5.0-5ubuntu1 [576 kB] Get:11 http://ftpmaster.internal/ubuntu focal/main armhf bsdutils armhf 1:2.34-0.1ubuntu7 [58.3 kB] Get:12 http://ftpmaster.internal/ubuntu focal/main armhf findutils armhf 4.7.0-1ubuntu1 [307 kB] Get:13 http://ftpmaster.internal/ubuntu focal/main armhf grep armhf 3.4-1 [141 kB] Get:14 http://ftpmaster.internal/ubuntu focal/main armhf gzip armhf 1.10-0ubuntu4 [91.1 kB] Get:15 http://ftpmaster.internal/ubuntu focal/main armhf hostname armhf 3.23 [10.4 kB] Get:16 http://ftpmaster.internal/ubuntu focal/main armhf login armhf 1:4.8.1-1ubuntu1 [217 kB] Get:17 http://ftpmaster.internal/ubuntu focal/main armhf ncurses-bin armhf 6.1+20191019-1ubuntu1 [163 kB] Get:18 http://ftpmaster.internal/ubuntu focal/main armhf perl-modules-5.30 all 5.30.0-9 [2739 kB] Get:19 http://ftpmaster.internal/ubuntu focal/main armhf libperl5.30 armhf 5.30.0-9 [3286 kB] Get:20 http://ftpmaster.internal/ubuntu focal/main armhf perl armhf 5.30.0-9 [224 kB] Get:21 http://ftpmaster.internal/ubuntu focal/main armhf perl-base armhf 5.30.0-9 [1408 kB] Get:22 http://ftpmaster.internal/ubuntu focal/main armhf bzip2 armhf 1.0.8-2 [32.4 kB] Get:23 http://ftpmaster.internal/ubuntu focal/main armhf libbz2-1.0 armhf 1.0.8-2 [31.0 kB] Get:24 http://ftpmaster.internal/ubuntu focal/main armhf libblkid1 armhf 2.34-0.1ubuntu7 [124 kB] Get:25 http://ftpmaster.internal/ubuntu focal/main armhf libuuid1 armhf 2.34-0.1ubuntu7 [19.7 kB] Get:26 http://ftpmaster.internal/ubuntu focal/main armhf libfdisk1 armhf 2.34-0.1ubuntu7 [163 kB] Get:27 http://ftpmaster.internal/ubuntu focal/main armhf libpcre2-8-0 armhf 10.34-7 [172 kB] Get:28 http://ftpmaster.internal/ubuntu focal-proposed/main armhf libselinux1 armhf 3.0-1build1 [60.1 kB] Get:29 http://ftpmaster.internal/ubuntu focal/main armhf libmount1 armhf 2.34-0.1ubuntu7 [135 kB] Get:30 http://ftpmaster.internal/ubuntu focal/main armhf libncurses6 armhf 6.1+20191019-1ubuntu1 [79.7 kB] Get:31 http://ftpmaster.internal/ubuntu focal/main armhf libtinfo6 armhf 6.1+20191019-1ubuntu1 [72.8 kB] Get:32 http://ftpmaster.internal/ubuntu focal/main armhf libncursesw6 armhf 6.1+20191019-1ubuntu1 [106 kB] Get:33 http://ftpmaster.internal/ubuntu focal/main armhf libsmartcols1 armhf 2.34-0.1ubuntu7 [89.0 kB] Get:34 http://ftpmaster.internal/ubuntu focal/main armhf fdisk armhf 2.34-0.1ubuntu7 [109 kB] Get:35 http://ftpmaster.internal/ubuntu focal/main armhf util-linux armhf 2.34-0.1ubuntu7 [957 kB] Get:36 http://ftpmaster.internal/ubuntu focal/main armhf libdebconfclient0 armhf 0.251ubuntu1 [5592 B] Get:37 http://ftpmaster.internal/ubuntu focal/main armhf base-passwd armhf 3.5.47 [46.4 kB] Get:38 http://ftpmaster.internal/ubuntu focal/main armhf libc-bin armhf 2.30-0ubuntu3 [496 kB] Get:39 http://ftpmaster.internal/ubuntu focal/main armhf ncurses-base all 6.1+20191019-1ubuntu1 [17.9 kB] Get:40 http://ftpmaster.internal/ubuntu focal/main armhf lsb-base all 11.1.0ubuntu2 [12.1 kB] Get:41 http://ftpmaster.internal/ubuntu focal/main armhf sysvinit-utils armhf 2.96-2.1ubuntu1 [19.1 kB] Get:42 http://ftpmaster.internal/ubuntu focal/main armhf libgpg-error0 armhf 1.37-1 [50.0 kB] Get:43 http://ftpmaster.internal/ubuntu focal/main armhf libgcrypt20 armhf 1.8.5-3ubuntu1 [364 kB] Get:44 http://ftpmaster.internal/ubuntu focal/main armhf liblz4-1 armhf 1.9.2-2 [51.7 kB] Get:45 http://ftpmaster.internal/ubuntu focal-proposed/main armhf libstdc++6 armhf 10-20200222-1ubuntu1 [441 kB] Get:46 http://ftpmaster.internal/ubuntu focal/main armhf systemd-sysv armhf 244.2-1ubuntu1 [9368 B] Get:47 http://ftpmaster.internal/ubuntu focal/main armhf libacl1 armhf 2.2.53-5ubuntu1 [15.8 kB] Get:48 http://ftpmaster.internal/ubuntu focal/main armhf libapparmor1 armhf 2.13.3-7ubuntu2 [29.1 kB] Get:49 http://ftpmaster.internal/ubuntu focal/main armhf libaudit-common all 1:2.8.5-2ubuntu6 [3936 B] Get:50 http://ftpmaster.internal/ubuntu focal/main armhf libcap-ng0 armhf 0.7.9-2.1build1 [9688 B] Get:51 http://ftpmaster.internal/ubuntu focal/main armhf libaudit1 armhf 1:2.8.5-2ubuntu6 [35.8 kB] Get:52 http://ftpmaster.internal/ubuntu focal-proposed/main armhf libcap2 armhf 1:2.32-1 [14.0 kB] Get:53 http://ftpmaster.internal/ubuntu focal/main armhf libudev1 armhf 244.2-1ubuntu1 [69.6 kB] Get:54 http://ftpmaster.internal/ubuntu focal/main armhf libdevmapper1.02.1 armhf 2:1.02.167-1ubuntu1 [118 kB] Get:55 http://ftpmaster.internal/ubuntu focal/main armhf libjson-c4 armhf 0.13.1+dfsg-7 [25.6 kB] Get:56 http://ftpmaster.internal/ubuntu focal/main armhf libssl1.1 armhf 1.1.1d-2ubuntu3 [1080 kB] Get:57 http://ftpmaster.internal/ubuntu focal/main armhf libcryptsetup12 armhf 2:2.2.2-3ubuntu1 [163 kB] Get:58 http://ftpmaster.internal/ubuntu focal/main armhf libnettle7 armhf 3.5.1+really3.5.1-2 [126 kB] Get:59 http://ftpmaster.internal/ubuntu focal/main armhf libgmp10 armhf 2:6.2.0+dfsg-3 [192 kB] Get:60 http://ftpmaster.internal/ubuntu focal/main armhf libhogweed5 armhf 3.5.1+really3.5.1-2 [127 kB] Get:61 http://ftpmaster.internal/ubuntu focal/main armhf libffi7 armhf 3.3-3 [16.5 kB] Get:62 http://ftpmaster.internal/ubuntu focal/main armhf libp11-kit0 armhf 0.23.20-1build1 [167 kB] Get:63 http://ftpmaster.internal/ubuntu focal/main armhf libtasn1-6 armhf 4.16.0-2 [33.1 kB] Get:64 http://ftpmaster.internal/ubuntu focal/main armhf libgnutls30 armhf 3.6.11.1-2ubuntu2 [733 kB] Get:65 http://ftpmaster.internal/ubuntu focal/main armhf libip4tc2 armhf 1.8.4-3ubuntu1 [16.8 kB] Get:66 http://ftpmaster.internal/ubuntu focal-proposed/main armhf libkmod2 armhf 27-1ubuntu1 [38.3 kB] Get:67 http://ftpmaster.internal/ubuntu focal/main armhf libpam0g armhf 1.3.1-5ubuntu4 [49.6 kB] Get:68 http://ftpmaster.internal/ubuntu focal-proposed/main armhf libseccomp2 armhf 2.4.2-2ubuntu3 [32.2 kB] Get:69 http://ftpmaster.internal/ubuntu focal/main armhf mount armhf 2.34-0.1ubuntu7 [108 kB] Get:70 http://ftpmaster.internal/ubuntu focal/main armhf systemd armhf 244.2-1ubuntu1 [3535 kB] Get:71 http://ftpmaster.internal/ubuntu focal/main armhf libsystemd0 armhf 244.2-1ubuntu1 [241 kB] Get:72 http://ftpmaster.internal/ubuntu focal/main armhf libzstd1 armhf 1.4.4+dfsg-3 [207 kB] Get:73 http://ftpmaster.internal/ubuntu focal/main armhf libapt-pkg5.90 armhf 1.9.10 [774 kB] Get:74 http://ftpmaster.internal/ubuntu focal/main armhf gpgv armhf 2.2.17-3ubuntu1 [170 kB] Get:75 http://ftpmaster.internal/ubuntu focal/main armhf ubuntu-keyring all 2020.02.11.1 [22.3 kB] Get:76 http://ftpmaster.internal/ubuntu focal/main armhf apt armhf 1.9.10 [1237 kB] Get:77 http://ftpmaster.internal/ubuntu focal/main armhf libpam-modules-bin armhf 1.3.1-5ubuntu4 [33.8 kB] Get:78 http://ftpmaster.internal/ubuntu focal/main armhf libpam-modules armhf 1.3.1-5ubuntu4 [232 kB] Get:79 http://ftpmaster.internal/ubuntu focal/main armhf logsave armhf 1.45.5-2ubuntu1 [9568 B] Get:80 http://ftpmaster.internal/ubuntu focal/main armhf libext2fs2 armhf 1.45.5-2ubuntu1 [170 kB] Get:81 http://ftpmaster.internal/ubuntu focal/main armhf e2fsprogs armhf 1.45.5-2ubuntu1 [508 kB] Get:82 http://ftpmaster.internal/ubuntu focal/main armhf libattr1 armhf 1:2.4.48-5 [11.5 kB] Get:83 http://ftpmaster.internal/ubuntu focal/main armhf libpam-runtime all 1.3.1-5ubuntu4 [37.3 kB] Get:84 http://ftpmaster.internal/ubuntu focal/main armhf libsepol1 armhf 3.0-1 [220 kB] Get:85 http://ftpmaster.internal/ubuntu focal/main armhf libsemanage-common all 3.0-1build1 [9876 B] Get:86 http://ftpmaster.internal/ubuntu focal/main armhf libsemanage1 armhf 3.0-1build1 [74.1 kB] Get:87 http://ftpmaster.internal/ubuntu focal/main armhf passwd armhf 1:4.8.1-1ubuntu1 [749 kB] Get:88 http://ftpmaster.internal/ubuntu focal-proposed/main armhf libgomp1 armhf 10-20200222-1ubuntu1 [86.6 kB] Get:89 http://ftpmaster.internal/ubuntu focal-proposed/main armhf libatomic1 armhf 10-20200222-1ubuntu1 [7232 B] Get:90 http://ftpmaster.internal/ubuntu focal/main armhf libasan5 armhf 9.2.1-29ubuntu1 [387 kB] Get:91 http://ftpmaster.internal/ubuntu focal-proposed/main armhf libubsan1 armhf 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sensible-utils all 0.0.12+nmu1 [15.0 kB] Get:111 http://ftpmaster.internal/ubuntu focal/main armhf libsqlite3-0 armhf 3.31.1-1ubuntu1 [467 kB] Get:112 http://ftpmaster.internal/ubuntu focal/main armhf openssl armhf 1.1.1d-2ubuntu3 [595 kB] Get:113 http://ftpmaster.internal/ubuntu focal/main armhf libpng16-16 armhf 1.6.37-2 [162 kB] Get:114 http://ftpmaster.internal/ubuntu focal/main armhf libassuan0 armhf 2.5.3-7ubuntu2 [29.1 kB] Get:115 http://ftpmaster.internal/ubuntu focal/main armhf gpg armhf 2.2.17-3ubuntu1 [421 kB] Get:116 http://ftpmaster.internal/ubuntu focal/main armhf gpgconf armhf 2.2.17-3ubuntu1 [107 kB] Get:117 http://ftpmaster.internal/ubuntu focal/main armhf gpg-agent armhf 2.2.17-3ubuntu1 [195 kB] Get:118 http://ftpmaster.internal/ubuntu focal/main armhf liblockfile-bin armhf 1.16-1.1 [10.5 kB] Get:119 http://ftpmaster.internal/ubuntu focal/main armhf liblockfile1 armhf 1.16-1.1 [5620 B] debconf: delaying package configuration, since apt-utils is not installed Fetched 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Setting up libkmod2:armhf (27-1ubuntu1) ... Setting up gcc-9-base:armhf (9.2.1-29ubuntu1) ... Setting up libctf0:armhf (2.34-3ubuntu1) ... Setting up gpg-agent (2.2.17-3ubuntu1) ... Installing new version of config file /etc/logcheck/ignore.d.server/gpg-agent ... Created symlink /etc/systemd/user/sockets.target.wants/gpg-agent-browser.socket -> /usr/lib/systemd/user/gpg-agent-browser.socket. Created symlink /etc/systemd/user/sockets.target.wants/gpg-agent-extra.socket -> /usr/lib/systemd/user/gpg-agent-extra.socket. Created symlink /etc/systemd/user/sockets.target.wants/gpg-agent-ssh.socket -> /usr/lib/systemd/user/gpg-agent-ssh.socket. Created symlink /etc/systemd/user/sockets.target.wants/gpg-agent.socket -> /usr/lib/systemd/user/gpg-agent.socket. Setting up e2fsprogs (1.45.5-2ubuntu1) ... Setting up libasan5:armhf (9.2.1-29ubuntu1) ... Setting up perl (5.30.0-9) ... Setting up procps (2:3.3.16-1ubuntu1) ... Removing obsolete conffile /etc/sysctl.d/protect-links.conf ... 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RUN: /usr/share/launchpad-buildd/bin/sbuild-package PACKAGEBUILD-18751200 armhf focal-proposed -c chroot:build-PACKAGEBUILD-18751200 --arch=armhf --dist=focal-proposed --nolog python-pyvcf_0.6.8+git20170215.476169c-7.dsc Initiating build PACKAGEBUILD-18751200 with 4 jobs across 4 processor cores. Kernel reported to sbuild: 4.4.0-174-generic #204-Ubuntu SMP Wed Jan 29 06:42:38 UTC 2020 armv7l sbuild (Debian sbuild) 0.67.0 (26 Dec 2015) on bos02-arm64-059.buildd +==============================================================================+ | python-pyvcf 0.6.8+git20170215.476169c-7 (armhf) 23 Feb 2020 11:35 | +==============================================================================+ Package: python-pyvcf Version: 0.6.8+git20170215.476169c-7 Source Version: 0.6.8+git20170215.476169c-7 Distribution: focal-proposed Machine Architecture: arm64 Host Architecture: armhf Build Architecture: armhf I: NOTICE: Log filtering will replace 'build/python-pyvcf-hw6FUj/python-pyvcf-0.6.8+git20170215.476169c' with '<>' I: NOTICE: Log filtering will replace 'build/python-pyvcf-hw6FUj' with '<>' I: NOTICE: Log filtering will replace 'home/buildd/build-PACKAGEBUILD-18751200/chroot-autobuild' with '<>' +------------------------------------------------------------------------------+ | Fetch source files | +------------------------------------------------------------------------------+ Local sources ------------- python-pyvcf_0.6.8+git20170215.476169c-7.dsc exists in .; copying to chroot Check architectures ------------------- Check dependencies ------------------ Merged Build-Depends: build-essential, fakeroot Filtered Build-Depends: build-essential, fakeroot dpkg-deb: building package 'sbuild-build-depends-core-dummy' in '/<>/resolver-SpzfzL/apt_archive/sbuild-build-depends-core-dummy.deb'. Ign:1 copy:/<>/resolver-SpzfzL/apt_archive ./ InRelease Get:2 copy:/<>/resolver-SpzfzL/apt_archive ./ Release [2119 B] Ign:3 copy:/<>/resolver-SpzfzL/apt_archive ./ Release.gpg Get:4 copy:/<>/resolver-SpzfzL/apt_archive ./ Sources [214 B] Get:5 copy:/<>/resolver-SpzfzL/apt_archive ./ Packages [523 B] Fetched 2856 B in 0s (76.2 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: libffi6 libhogweed4 libisl21 libnettle6 libperl5.28 perl-modules-5.28 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-SpzfzL/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 (64.4 kB/s) Selecting previously unselected package sbuild-build-depends-core-dummy. (Reading database ... 14419 files and directories currently installed.) Preparing to unpack .../sbuild-build-depends-core-dummy_0.invalid.0_armhf.deb ... Unpacking sbuild-build-depends-core-dummy (0.invalid.0) ... Setting up sbuild-build-depends-core-dummy (0.invalid.0) ... Merged Build-Depends: debhelper-compat (= 12), dh-python, cython3, python3-all-dev, python3-setuptools, python3-pytest, python3-pysam Filtered Build-Depends: debhelper-compat (= 12), dh-python, cython3, python3-all-dev, python3-setuptools, python3-pytest, python3-pysam dpkg-deb: building package 'sbuild-build-depends-python-pyvcf-dummy' in '/<>/resolver-CMMefz/apt_archive/sbuild-build-depends-python-pyvcf-dummy.deb'. Ign:1 copy:/<>/resolver-CMMefz/apt_archive ./ InRelease Get:2 copy:/<>/resolver-CMMefz/apt_archive ./ Release [2119 B] Ign:3 copy:/<>/resolver-CMMefz/apt_archive ./ Release.gpg Get:4 copy:/<>/resolver-CMMefz/apt_archive ./ Sources [260 B] Get:5 copy:/<>/resolver-CMMefz/apt_archive ./ Packages [569 B] Fetched 2948 B in 0s (83.3 kB/s) Reading package lists... Reading package lists... +------------------------------------------------------------------------------+ | Install python-pyvcf 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: libffi6 libhogweed4 libisl21 libnettle6 libperl5.28 perl-modules-5.28 Use 'apt autoremove' to remove them. The following additional packages will be installed: autoconf automake autopoint autotools-dev bsdmainutils cython3 debhelper dh-autoreconf dh-python dh-strip-nondeterminism dwz file gettext gettext-base groff-base intltool-debian libarchive-zip-perl libasn1-8-heimdal libbrotli1 libbsd0 libcroco3 libcurl3-gnutls libdebhelper-perl libdeflate0 libelf1 libexpat1 libexpat1-dev libfile-stripnondeterminism-perl libglib2.0-0 libgssapi-krb5-2 libgssapi3-heimdal libhcrypto4-heimdal libheimbase1-heimdal libheimntlm0-heimdal libhts3 libhx509-5-heimdal libicu65 libk5crypto3 libkeyutils1 libkrb5-26-heimdal libkrb5-3 libkrb5support0 libldap-2.4-2 libldap-common libmagic-mgc libmagic1 libmpdec2 libnghttp2-14 libpipeline1 libpsl5 libpython3-all-dev libpython3-dev libpython3-stdlib libpython3.8 libpython3.8-dev 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 mime-support po-debconf python3 python3-all python3-all-dev python3-atomicwrites python3-attr python3-dev python3-distutils python3-importlib-metadata python3-lib2to3 python3-minimal python3-more-itertools python3-packaging python3-pkg-resources python3-pluggy python3-py python3-pyparsing python3-pysam python3-pytest python3-setuptools python3-six python3-wcwidth python3-zipp python3.8 python3.8-dev python3.8-minimal zlib1g-dev Suggested packages: autoconf-archive gnu-standards autoconf-doc wamerican | wordlist whois vacation cython-doc 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-attr-doc subversion python-pyparsing-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 The following NEW packages will be installed: autoconf automake autopoint autotools-dev bsdmainutils cython3 debhelper dh-autoreconf dh-python dh-strip-nondeterminism dwz file gettext gettext-base groff-base intltool-debian libarchive-zip-perl libasn1-8-heimdal libbrotli1 libbsd0 libcroco3 libcurl3-gnutls libdebhelper-perl libdeflate0 libelf1 libexpat1 libexpat1-dev libfile-stripnondeterminism-perl libglib2.0-0 libgssapi-krb5-2 libgssapi3-heimdal libhcrypto4-heimdal libheimbase1-heimdal libheimntlm0-heimdal libhts3 libhx509-5-heimdal libicu65 libk5crypto3 libkeyutils1 libkrb5-26-heimdal libkrb5-3 libkrb5support0 libldap-2.4-2 libldap-common libmagic-mgc libmagic1 libmpdec2 libnghttp2-14 libpipeline1 libpsl5 libpython3-all-dev libpython3-dev libpython3-stdlib libpython3.8 libpython3.8-dev 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 mime-support po-debconf python3 python3-all python3-all-dev python3-atomicwrites python3-attr python3-dev python3-distutils python3-importlib-metadata python3-lib2to3 python3-minimal python3-more-itertools python3-packaging python3-pkg-resources python3-pluggy python3-py python3-pyparsing python3-pysam python3-pytest python3-setuptools python3-six python3-wcwidth python3-zipp python3.8 python3.8-dev python3.8-minimal sbuild-build-depends-python-pyvcf-dummy zlib1g-dev 0 upgraded, 99 newly installed, 0 to remove and 0 not upgraded. Need to get 33.0 MB of archives. After this operation, 119 MB of additional disk space will be used. Get:1 copy:/<>/resolver-CMMefz/apt_archive ./ sbuild-build-depends-python-pyvcf-dummy 0.invalid.0 [900 B] Get:2 http://ftpmaster.internal/ubuntu focal-proposed/main armhf libpython3.8-minimal armhf 3.8.2~rc2-2 [697 kB] Get:3 http://ftpmaster.internal/ubuntu focal/main armhf libexpat1 armhf 2.2.9-1 [53.2 kB] Get:4 http://ftpmaster.internal/ubuntu focal-proposed/main armhf python3.8-minimal armhf 3.8.2~rc2-2 [1579 kB] Get:5 http://ftpmaster.internal/ubuntu focal/main armhf python3-minimal armhf 3.8.0-3ubuntu1 [23.3 kB] Get:6 http://ftpmaster.internal/ubuntu focal/main armhf mime-support all 3.64ubuntu1 [30.6 kB] Get:7 http://ftpmaster.internal/ubuntu focal/main armhf libmpdec2 armhf 2.4.2-2 [66.4 kB] Get:8 http://ftpmaster.internal/ubuntu focal-proposed/main armhf libpython3.8-stdlib armhf 3.8.2~rc2-2 [1596 kB] Get:9 http://ftpmaster.internal/ubuntu focal-proposed/main armhf python3.8 armhf 3.8.2~rc2-2 [363 kB] Get:10 http://ftpmaster.internal/ubuntu focal/main armhf libpython3-stdlib 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libtool all 2.4.6-13 [161 kB] Get:42 http://ftpmaster.internal/ubuntu focal/main armhf dh-autoreconf all 19 [16.1 kB] Get:43 http://ftpmaster.internal/ubuntu focal/main armhf libdebhelper-perl all 12.9ubuntu1 [62.0 kB] Get:44 http://ftpmaster.internal/ubuntu focal/main armhf libarchive-zip-perl all 1.67-1 [90.4 kB] Get:45 http://ftpmaster.internal/ubuntu focal/main armhf libsub-override-perl all 0.09-2 [9532 B] Get:46 http://ftpmaster.internal/ubuntu focal/main armhf libfile-stripnondeterminism-perl all 1.6.3-2 [16.0 kB] Get:47 http://ftpmaster.internal/ubuntu focal/main armhf dh-strip-nondeterminism all 1.6.3-2 [5228 B] Get:48 http://ftpmaster.internal/ubuntu focal/main armhf dwz armhf 0.13-5 [153 kB] Get:49 http://ftpmaster.internal/ubuntu focal/main armhf libcroco3 armhf 0.6.13-1 [70.5 kB] Get:50 http://ftpmaster.internal/ubuntu focal/main armhf gettext armhf 0.19.8.1-10 [836 kB] Get:51 http://ftpmaster.internal/ubuntu focal/main armhf intltool-debian all 0.35.0+20060710.5 [24.9 kB] Get:52 http://ftpmaster.internal/ubuntu focal/main armhf po-debconf all 1.0.21 [233 kB] Get:53 http://ftpmaster.internal/ubuntu focal/main armhf debhelper all 12.9ubuntu1 [869 kB] Get:54 http://ftpmaster.internal/ubuntu focal-proposed/main armhf python3-lib2to3 all 3.8.0-1ubuntu1 [74.1 kB] Get:55 http://ftpmaster.internal/ubuntu focal-proposed/main armhf python3-distutils all 3.8.0-1ubuntu1 [140 kB] Get:56 http://ftpmaster.internal/ubuntu focal/main armhf dh-python all 4.20191017ubuntu5 [88.0 kB] Get:57 http://ftpmaster.internal/ubuntu focal/main armhf libroken18-heimdal armhf 7.7.0+dfsg-1 [34.7 kB] Get:58 http://ftpmaster.internal/ubuntu focal/main armhf libasn1-8-heimdal armhf 7.7.0+dfsg-1 [140 kB] Get:59 http://ftpmaster.internal/ubuntu focal/main armhf libbrotli1 armhf 1.0.7-6build1 [256 kB] Get:60 http://ftpmaster.internal/ubuntu focal/main armhf libheimbase1-heimdal armhf 7.7.0+dfsg-1 [24.4 kB] Get:61 http://ftpmaster.internal/ubuntu focal/main armhf libhcrypto4-heimdal armhf 7.7.0+dfsg-1 [78.5 kB] Get:62 http://ftpmaster.internal/ubuntu focal/main armhf libwind0-heimdal armhf 7.7.0+dfsg-1 [46.9 kB] Get:63 http://ftpmaster.internal/ubuntu focal/main armhf libhx509-5-heimdal armhf 7.7.0+dfsg-1 [88.7 kB] Get:64 http://ftpmaster.internal/ubuntu focal/main armhf libkrb5-26-heimdal armhf 7.7.0+dfsg-1 [170 kB] Get:65 http://ftpmaster.internal/ubuntu focal/main armhf libheimntlm0-heimdal armhf 7.7.0+dfsg-1 [13.2 kB] Get:66 http://ftpmaster.internal/ubuntu focal/main armhf libgssapi3-heimdal armhf 7.7.0+dfsg-1 [80.0 kB] Get:67 http://ftpmaster.internal/ubuntu focal/main armhf libsasl2-modules-db armhf 2.1.27+dfsg-2 [13.4 kB] Get:68 http://ftpmaster.internal/ubuntu focal/main armhf libsasl2-2 armhf 2.1.27+dfsg-2 [42.7 kB] Get:69 http://ftpmaster.internal/ubuntu focal/main armhf libldap-common all 2.4.49+dfsg-1ubuntu1 [17.2 kB] Get:70 http://ftpmaster.internal/ubuntu focal/main armhf libldap-2.4-2 armhf 2.4.49+dfsg-1ubuntu1 [133 kB] Get:71 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[7036 B] Get:81 http://ftpmaster.internal/ubuntu focal/main armhf libpython3-all-dev armhf 3.8.0-3ubuntu1 [1112 B] Get:82 http://ftpmaster.internal/ubuntu focal/main armhf python3-all armhf 3.8.0-3ubuntu1 [1100 B] Get:83 http://ftpmaster.internal/ubuntu focal/main armhf zlib1g-dev armhf 1:1.2.11.dfsg-1ubuntu3 [166 kB] Get:84 http://ftpmaster.internal/ubuntu focal-proposed/main armhf python3.8-dev armhf 3.8.2~rc2-2 [516 kB] Get:85 http://ftpmaster.internal/ubuntu focal/main armhf python3-dev armhf 3.8.0-3ubuntu1 [1212 B] Get:86 http://ftpmaster.internal/ubuntu focal/main armhf python3-all-dev armhf 3.8.0-3ubuntu1 [1116 B] Get:87 http://ftpmaster.internal/ubuntu focal/universe armhf python3-atomicwrites all 1.1.5-2build1 [7016 B] Get:88 http://ftpmaster.internal/ubuntu focal/main armhf python3-attr all 19.3.0-1 [33.7 kB] Get:89 http://ftpmaster.internal/ubuntu focal/main armhf python3-more-itertools all 4.2.0-1build1 [39.4 kB] Get:90 http://ftpmaster.internal/ubuntu focal/main armhf python3-zipp all 1.0.0-1 [5312 B] Get:91 http://ftpmaster.internal/ubuntu focal/main armhf python3-importlib-metadata all 1.5.0-1 [9992 B] Get:92 http://ftpmaster.internal/ubuntu focal/main armhf python3-pyparsing all 2.4.6-1 [61.3 kB] Get:93 http://ftpmaster.internal/ubuntu focal/main armhf python3-packaging all 20.1-1 [26.8 kB] Get:94 http://ftpmaster.internal/ubuntu focal/universe armhf python3-pluggy all 0.13.0-2 [18.4 kB] Get:95 http://ftpmaster.internal/ubuntu focal/universe armhf python3-py all 1.8.1-1 [65.4 kB] Get:96 http://ftpmaster.internal/ubuntu focal-proposed/universe armhf python3-pysam armhf 0.15.4+ds-1build1 [1665 kB] Get:97 http://ftpmaster.internal/ubuntu focal/main armhf python3-wcwidth all 0.1.8+dfsg1-3 [17.4 kB] Get:98 http://ftpmaster.internal/ubuntu focal-proposed/universe armhf python3-pytest all 4.6.9-1 [178 kB] Get:99 http://ftpmaster.internal/ubuntu focal/main armhf python3-setuptools all 44.0.0-1 [257 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 33.0 MB in 1s (24.5 MB/s) Selecting previously unselected package libpython3.8-minimal:armhf. (Reading database ... 14419 files and directories currently installed.) Preparing to unpack .../libpython3.8-minimal_3.8.2~rc2-2_armhf.deb ... Unpacking libpython3.8-minimal:armhf (3.8.2~rc2-2) ... Selecting previously unselected package libexpat1:armhf. Preparing to unpack .../libexpat1_2.2.9-1_armhf.deb ... Unpacking libexpat1:armhf (2.2.9-1) ... Selecting previously unselected package python3.8-minimal. Preparing to unpack .../python3.8-minimal_3.8.2~rc2-2_armhf.deb ... Unpacking python3.8-minimal (3.8.2~rc2-2) ... Setting up libpython3.8-minimal:armhf (3.8.2~rc2-2) ... Setting up libexpat1:armhf (2.2.9-1) ... Setting up python3.8-minimal (3.8.2~rc2-2) ... Selecting previously unselected package python3-minimal. (Reading database ... 14710 files and directories currently installed.) Preparing to unpack .../0-python3-minimal_3.8.0-3ubuntu1_armhf.deb ... Unpacking python3-minimal (3.8.0-3ubuntu1) ... Selecting previously unselected package mime-support. 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Setting up python3-minimal (3.8.0-3ubuntu1) ... /usr/lib/python3.8/subprocess.py:838: RuntimeWarning: line buffering (buffering=1) isn't supported in binary mode, the default buffer size will be used self.stdin = io.open(p2cwrite, 'wb', bufsize) Selecting previously unselected package python3. (Reading database ... 15112 files and directories currently installed.) Preparing to unpack .../00-python3_3.8.0-3ubuntu1_armhf.deb ... Unpacking python3 (3.8.0-3ubuntu1) ... Selecting previously unselected package libbsd0:armhf. Preparing to unpack .../01-libbsd0_0.10.0-1_armhf.deb ... Unpacking libbsd0:armhf (0.10.0-1) ... Selecting previously unselected package bsdmainutils. Preparing to unpack .../02-bsdmainutils_11.1.2ubuntu2_armhf.deb ... Unpacking bsdmainutils (11.1.2ubuntu2) ... Selecting previously unselected package libuchardet0:armhf. Preparing to unpack .../03-libuchardet0_0.0.6-3_armhf.deb ... Unpacking libuchardet0:armhf (0.0.6-3) ... 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Preparing to unpack .../89-sbuild-build-depends-python-pyvcf-dummy_0.invalid.0_armhf.deb ... Unpacking sbuild-build-depends-python-pyvcf-dummy (0.invalid.0) ... Setting up libpipeline1:armhf (1.5.2-2build1) ... Setting up libkeyutils1:armhf (1.6-6ubuntu1) ... Setting up libpsl5:armhf (0.20.2-2) ... Setting up mime-support (3.64ubuntu1) ... Setting up libmagic-mgc (1:5.38-4) ... Setting up libarchive-zip-perl (1.67-1) ... Setting up libglib2.0-0:armhf (2.63.5-2) ... No schema files found: doing nothing. Setting up libdebhelper-perl (12.9ubuntu1) ... Setting up libbrotli1:armhf (1.0.7-6build1) ... Setting up libicu65:armhf (65.1-1ubuntu2) ... Setting up libnghttp2-14:armhf (1.40.0-1) ... Setting up libmagic1:armhf (1:5.38-4) ... Setting up libdeflate0 (1.5-3) ... Setting up gettext-base (0.19.8.1-10) ... Setting up file (1:5.38-4) ... Setting up libldap-common (2.4.49+dfsg-1ubuntu1) ... Setting up libkrb5support0:armhf (1.17-6ubuntu4) ... Setting up libsasl2-modules-db:armhf (2.1.27+dfsg-2) ... Setting up autotools-dev (20180224.1) ... Setting up libexpat1-dev:armhf (2.2.9-1) ... Setting up librtmp1:armhf (2.4+20151223.gitfa8646d.1-2build1) ... Setting up libsigsegv2:armhf (2.12-2) ... Setting up autopoint (0.19.8.1-10) ... Setting up libk5crypto3:armhf (1.17-6ubuntu4) ... Setting up libsasl2-2:armhf (2.1.27+dfsg-2) ... Setting up libroken18-heimdal:armhf (7.7.0+dfsg-1) ... Setting up zlib1g-dev:armhf (1:1.2.11.dfsg-1ubuntu3) ... Setting up libuchardet0:armhf (0.0.6-3) ... Setting up libsub-override-perl (0.09-2) ... Setting up libkrb5-3:armhf (1.17-6ubuntu4) ... Setting up libmpdec2:armhf (2.4.2-2) ... Setting up libpython3.8-stdlib:armhf (3.8.2~rc2-2) ... Setting up python3.8 (3.8.2~rc2-2) ... Setting up libbsd0:armhf (0.10.0-1) ... Setting up libelf1:armhf (0.176-1.1build1) ... Setting up libxml2:armhf (2.9.10+dfsg-1ubuntu3) ... Setting up libpython3-stdlib:armhf (3.8.0-3ubuntu1) ... Setting up libheimbase1-heimdal:armhf (7.7.0+dfsg-1) ... Setting up libfile-stripnondeterminism-perl (1.6.3-2) ... Setting up libtool (2.4.6-13) ... Setting up libasn1-8-heimdal:armhf (7.7.0+dfsg-1) ... Setting up m4 (1.4.18-4) ... Setting up python3 (3.8.0-3ubuntu1) ... /usr/lib/python3.8/subprocess.py:838: RuntimeWarning: line buffering (buffering=1) isn't supported in binary mode, the default buffer size will be used self.stdin = io.open(p2cwrite, 'wb', bufsize) /usr/lib/python3.8/subprocess.py:838: RuntimeWarning: line buffering (buffering=1) isn't supported in binary mode, the default buffer size will be used self.stdin = io.open(p2cwrite, 'wb', bufsize) Setting up libhcrypto4-heimdal:armhf (7.7.0+dfsg-1) ... Setting up python3-atomicwrites (1.1.5-2build1) ... /usr/lib/python3.8/subprocess.py:838: RuntimeWarning: line buffering (buffering=1) isn't supported in binary mode, the default buffer size will be used self.stdin = io.open(p2cwrite, 'wb', bufsize) Setting up python3-six (1.14.0-2) ... /usr/lib/python3.8/subprocess.py:838: RuntimeWarning: line buffering (buffering=1) isn't supported in binary mode, the default buffer size will be used self.stdin = io.open(p2cwrite, 'wb', bufsize) Setting up libwind0-heimdal:armhf (7.7.0+dfsg-1) ... Setting up python3-wcwidth (0.1.8+dfsg1-3) ... /usr/lib/python3.8/subprocess.py:838: RuntimeWarning: line buffering (buffering=1) isn't supported in binary mode, the default buffer size will be used self.stdin = io.open(p2cwrite, 'wb', bufsize) Setting up python3-pyparsing (2.4.6-1) ... /usr/lib/python3.8/subprocess.py:838: RuntimeWarning: line buffering (buffering=1) isn't supported in binary mode, the default buffer size will be used self.stdin = io.open(p2cwrite, 'wb', bufsize) Setting up libpython3.8:armhf (3.8.2~rc2-2) ... Setting up bsdmainutils (11.1.2ubuntu2) ... 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:armhf (1.17-6ubuntu4) ... Setting up cython3 (0.29.14-0.1ubuntu3) ... /usr/lib/python3.8/subprocess.py:838: RuntimeWarning: line buffering (buffering=1) isn't supported in binary mode, the default buffer size will be used self.stdin = io.open(p2cwrite, 'wb', bufsize) Setting up libcroco3:armhf (0.6.13-1) ... Setting up libssh-4:armhf (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 (1.22.4-4) ... Setting up python3-lib2to3 (3.8.0-1ubuntu1) ... Setting up python3-pkg-resources (44.0.0-1) ... /usr/lib/python3.8/subprocess.py:838: RuntimeWarning: line buffering (buffering=1) isn't supported in binary mode, the default buffer size will be used self.stdin = io.open(p2cwrite, 'wb', bufsize) 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 (3.8.0-1ubuntu1) ... Setting up dh-python (4.20191017ubuntu5) ... /usr/lib/python3.8/subprocess.py:838: RuntimeWarning: line buffering (buffering=1) isn't supported in binary mode, the default buffer size will be used self.stdin = io.open(p2cwrite, 'wb', bufsize) Setting up python3-more-itertools (4.2.0-1build1) ... /usr/lib/python3.8/subprocess.py:838: RuntimeWarning: line buffering (buffering=1) isn't supported in binary mode, the default buffer size will be used self.stdin = io.open(p2cwrite, 'wb', bufsize) Setting up python3-attr (19.3.0-1) ... /usr/lib/python3.8/subprocess.py:838: RuntimeWarning: line buffering (buffering=1) isn't supported in binary mode, the default buffer size will be used self.stdin = io.open(p2cwrite, 'wb', bufsize) Setting up gettext (0.19.8.1-10) ... Setting up python3-setuptools (44.0.0-1) ... /usr/lib/python3.8/subprocess.py:838: RuntimeWarning: line buffering (buffering=1) isn't supported in binary mode, the default buffer size will be used self.stdin = io.open(p2cwrite, 'wb', bufsize) Setting up python3-py (1.8.1-1) ... /usr/lib/python3.8/subprocess.py:838: RuntimeWarning: line buffering (buffering=1) isn't supported in binary mode, the default buffer size will be used self.stdin = io.open(p2cwrite, 'wb', bufsize) Setting up libhx509-5-heimdal:armhf (7.7.0+dfsg-1) ... Setting up python3-all (3.8.0-3ubuntu1) ... Setting up python3-zipp (1.0.0-1) ... /usr/lib/python3.8/subprocess.py:838: RuntimeWarning: line buffering (buffering=1) isn't supported in binary mode, the default buffer size will be used self.stdin = io.open(p2cwrite, 'wb', bufsize) Setting up man-db (2.9.0-2) ... 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-packaging (20.1-1) ... /usr/lib/python3.8/subprocess.py:838: RuntimeWarning: line buffering (buffering=1) isn't supported in binary mode, the default buffer size will be used self.stdin = io.open(p2cwrite, 'wb', bufsize) Setting up libpython3.8-dev:armhf (3.8.2~rc2-2) ... Setting up python3.8-dev (3.8.2~rc2-2) ... Setting up libkrb5-26-heimdal:armhf (7.7.0+dfsg-1) ... Setting up libpython3-dev:armhf (3.8.0-3ubuntu1) ... Setting up python3-importlib-metadata (1.5.0-1) ... /usr/lib/python3.8/subprocess.py:838: RuntimeWarning: line buffering (buffering=1) isn't supported in binary mode, the default buffer size will be used self.stdin = io.open(p2cwrite, 'wb', bufsize) Setting up po-debconf (1.0.21) ... Setting up libheimntlm0-heimdal:armhf (7.7.0+dfsg-1) ... Setting up libgssapi3-heimdal:armhf (7.7.0+dfsg-1) ... Setting up libpython3-all-dev:armhf (3.8.0-3ubuntu1) ... Setting up python3-dev (3.8.0-3ubuntu1) ... Setting up python3-pluggy (0.13.0-2) ... /usr/lib/python3.8/subprocess.py:838: RuntimeWarning: line buffering (buffering=1) isn't supported in binary mode, the default buffer size will be used self.stdin = io.open(p2cwrite, 'wb', bufsize) Setting up python3-all-dev (3.8.0-3ubuntu1) ... Setting up python3-pytest (4.6.9-1) ... /usr/lib/python3.8/subprocess.py:838: RuntimeWarning: line buffering (buffering=1) isn't supported in binary mode, the default buffer size will be used self.stdin = io.open(p2cwrite, 'wb', bufsize) Setting up libldap-2.4-2:armhf (2.4.49+dfsg-1ubuntu1) ... Setting up libcurl3-gnutls:armhf (7.67.0-2ubuntu1) ... Setting up libhts3:armhf (1.10.2-3) ... Setting up python3-pysam (0.15.4+ds-1build1) ... /usr/lib/python3.8/subprocess.py:838: RuntimeWarning: line buffering (buffering=1) isn't supported in binary mode, the default buffer size will be used self.stdin = io.open(p2cwrite, 'wb', bufsize) Setting up dh-autoreconf (19) ... Setting up debhelper (12.9ubuntu1) ... Setting up sbuild-build-depends-python-pyvcf-dummy (0.invalid.0) ... Processing triggers for libc-bin (2.30-0ubuntu3) ... +------------------------------------------------------------------------------+ | Build environment | +------------------------------------------------------------------------------+ Kernel: Linux 4.4.0-174-generic arm64 (armv7l) Toolchain package versions: binutils_2.34-3ubuntu1 dpkg-dev_1.19.7ubuntu2 g++-9_9.2.1-29ubuntu1 gcc-9_9.2.1-29ubuntu1 libc6-dev_2.30-0ubuntu3 libstdc++-9-dev_9.2.1-29ubuntu1 libstdc++6_10-20200222-1ubuntu1 linux-libc-dev_5.4.0-15.18 Package versions: adduser_3.118ubuntu1 advancecomp_2.1-2.1 apt_1.9.10 autoconf_2.69-11.1 automake_1:1.16.1-4ubuntu6 autopoint_0.19.8.1-10 autotools-dev_20180224.1 base-files_11ubuntu2 base-passwd_3.5.47 bash_5.0-5ubuntu1 binutils_2.34-3ubuntu1 binutils-arm-linux-gnueabihf_2.34-3ubuntu1 binutils-common_2.34-3ubuntu1 bsdmainutils_11.1.2ubuntu2 bsdutils_1:2.34-0.1ubuntu7 build-essential_12.8ubuntu1 bzip2_1.0.8-2 ca-certificates_20190110 coreutils_8.30-3ubuntu2 cpp_4:9.2.1-3.1ubuntu1 cpp-9_9.2.1-29ubuntu1 cython3_0.29.14-0.1ubuntu3 dash_0.5.10.2-6 debconf_1.5.73 debhelper_12.9ubuntu1 debianutils_4.9.1 dh-autoreconf_19 dh-python_4.20191017ubuntu5 dh-strip-nondeterminism_1.6.3-2 diffutils_1:3.7-3 dpkg_1.19.7ubuntu2 dpkg-dev_1.19.7ubuntu2 dwz_0.13-5 e2fsprogs_1.45.5-2ubuntu1 fakeroot_1.24-1 fdisk_2.34-0.1ubuntu7 file_1:5.38-4 findutils_4.7.0-1ubuntu1 g++_4:9.2.1-3.1ubuntu1 g++-9_9.2.1-29ubuntu1 gcc_4:9.2.1-3.1ubuntu1 gcc-10-base_10-20200222-1ubuntu1 gcc-9_9.2.1-29ubuntu1 gcc-9-base_9.2.1-29ubuntu1 gettext_0.19.8.1-10 gettext-base_0.19.8.1-10 gpg_2.2.17-3ubuntu1 gpg-agent_2.2.17-3ubuntu1 gpgconf_2.2.17-3ubuntu1 gpgv_2.2.17-3ubuntu1 grep_3.4-1 groff-base_1.22.4-4 gzip_1.10-0ubuntu4 hostname_3.23 init_1.57 init-system-helpers_1.57 intltool-debian_0.35.0+20060710.5 libacl1_2.2.53-5ubuntu1 libapparmor1_2.13.3-7ubuntu2 libapt-pkg5.90_1.9.10 libarchive-zip-perl_1.67-1 libargon2-1_0~20171227-0.2 libasan5_9.2.1-29ubuntu1 libasn1-8-heimdal_7.7.0+dfsg-1 libassuan0_2.5.3-7ubuntu2 libatomic1_10-20200222-1ubuntu1 libattr1_1:2.4.48-5 libaudit-common_1:2.8.5-2ubuntu6 libaudit1_1:2.8.5-2ubuntu6 libbinutils_2.34-3ubuntu1 libblkid1_2.34-0.1ubuntu7 libbrotli1_1.0.7-6build1 libbsd0_0.10.0-1 libbz2-1.0_1.0.8-2 libc-bin_2.30-0ubuntu3 libc-dev-bin_2.30-0ubuntu3 libc6_2.30-0ubuntu3 libc6-dev_2.30-0ubuntu3 libcap-ng0_0.7.9-2.1build1 libcap2_1:2.32-1 libcc1-0_10-20200222-1ubuntu1 libcom-err2_1.45.5-2ubuntu1 libcroco3_0.6.13-1 libcryptsetup12_2:2.2.2-3ubuntu1 libctf-nobfd0_2.34-3ubuntu1 libctf0_2.34-3ubuntu1 libcurl3-gnutls_7.67.0-2ubuntu1 libdb5.3_5.3.28+dfsg1-0.6ubuntu1 libdebconfclient0_0.251ubuntu1 libdebhelper-perl_12.9ubuntu1 libdeflate0_1.5-3 libdevmapper1.02.1_2:1.02.167-1ubuntu1 libdpkg-perl_1.19.7ubuntu2 libelf1_0.176-1.1build1 libexpat1_2.2.9-1 libexpat1-dev_2.2.9-1 libext2fs2_1.45.5-2ubuntu1 libfakeroot_1.24-1 libfdisk1_2.34-0.1ubuntu7 libffi6_3.2.1-9 libffi7_3.3-3 libfile-stripnondeterminism-perl_1.6.3-2 libgcc-9-dev_9.2.1-29ubuntu1 libgcc-s1_10-20200222-1ubuntu1 libgcc1_1:10-20200222-1ubuntu1 libgcrypt20_1.8.5-3ubuntu1 libgdbm-compat4_1.18.1-5 libgdbm6_1.18.1-5 libglib2.0-0_2.63.5-2 libgmp10_2:6.2.0+dfsg-3 libgnutls30_3.6.11.1-2ubuntu2 libgomp1_10-20200222-1ubuntu1 libgpg-error0_1.37-1 libgssapi-krb5-2_1.17-6ubuntu4 libgssapi3-heimdal_7.7.0+dfsg-1 libhcrypto4-heimdal_7.7.0+dfsg-1 libheimbase1-heimdal_7.7.0+dfsg-1 libheimntlm0-heimdal_7.7.0+dfsg-1 libhogweed4_3.4.1-1 libhogweed5_3.5.1+really3.5.1-2 libhts3_1.10.2-3 libhx509-5-heimdal_7.7.0+dfsg-1 libicu65_65.1-1ubuntu2 libidn2-0_2.2.0-2 libip4tc2_1.8.4-3ubuntu1 libisl21_0.21-2 libisl22_0.22.1-1 libjson-c4_0.13.1+dfsg-7 libk5crypto3_1.17-6ubuntu4 libkeyutils1_1.6-6ubuntu1 libkmod2_27-1ubuntu1 libkrb5-26-heimdal_7.7.0+dfsg-1 libkrb5-3_1.17-6ubuntu4 libkrb5support0_1.17-6ubuntu4 libldap-2.4-2_2.4.49+dfsg-1ubuntu1 libldap-common_2.4.49+dfsg-1ubuntu1 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_2.34-0.1ubuntu7 libmpc3_1.1.0-1 libmpdec2_2.4.2-2 libmpfr6_4.0.2-1 libncurses6_6.1+20191019-1ubuntu1 libncursesw6_6.1+20191019-1ubuntu1 libnettle6_3.4.1-1 libnettle7_3.5.1+really3.5.1-2 libnghttp2-14_1.40.0-1 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_2:8.39-12 libperl5.28_5.28.1-6build1 libperl5.30_5.30.0-9 libpipeline1_1.5.2-2build1 libpng16-16_1.6.37-2 libprocps7_2:3.3.15-2ubuntu3 libprocps8_2:3.3.16-1ubuntu1 libpsl5_0.20.2-2 libpython3-all-dev_3.8.0-3ubuntu1 libpython3-dev_3.8.0-3ubuntu1 libpython3-stdlib_3.8.0-3ubuntu1 libpython3.8_3.8.2~rc2-2 libpython3.8-dev_3.8.2~rc2-2 libpython3.8-minimal_3.8.2~rc2-2 libpython3.8-stdlib_3.8.2~rc2-2 libreadline8_8.0-3 libroken18-heimdal_7.7.0+dfsg-1 librtmp1_2.4+20151223.gitfa8646d.1-2build1 libsasl2-2_2.1.27+dfsg-2 libsasl2-modules-db_2.1.27+dfsg-2 libseccomp2_2.4.2-2ubuntu3 libselinux1_3.0-1build1 libsemanage-common_3.0-1build1 libsemanage1_3.0-1build1 libsepol1_3.0-1 libsigsegv2_2.12-2 libsmartcols1_2.34-0.1ubuntu7 libsqlite3-0_3.31.1-1ubuntu1 libss2_1.45.5-2ubuntu1 libssh-4_0.9.3-2ubuntu1 libssl1.1_1.1.1d-2ubuntu3 libstdc++-9-dev_9.2.1-29ubuntu1 libstdc++6_10-20200222-1ubuntu1 libsub-override-perl_0.09-2 libsystemd0_244.2-1ubuntu1 libtasn1-6_4.16.0-2 libtinfo6_6.1+20191019-1ubuntu1 libtool_2.4.6-13 libubsan1_10-20200222-1ubuntu1 libuchardet0_0.0.6-3 libudev1_244.2-1ubuntu1 libunistring2_0.9.10-2 libuuid1_2.34-0.1ubuntu7 libwind0-heimdal_7.7.0+dfsg-1 libxml2_2.9.10+dfsg-1ubuntu3 libzstd1_1.4.4+dfsg-3 linux-libc-dev_5.4.0-15.18 lockfile-progs_0.1.18 login_1:4.8.1-1ubuntu1 logsave_1.45.5-2ubuntu1 lsb-base_11.1.0ubuntu2 m4_1.4.18-4 make_4.2.1-1.2 man-db_2.9.0-2 mawk_1.3.3-17ubuntu3 mime-support_3.64ubuntu1 mount_2.34-0.1ubuntu7 ncurses-base_6.1+20191019-1ubuntu1 ncurses-bin_6.1+20191019-1ubuntu1 openssl_1.1.1d-2ubuntu3 optipng_0.7.7-1 passwd_1:4.8.1-1ubuntu1 patch_2.7.6-6 perl_5.30.0-9 perl-base_5.30.0-9 perl-modules-5.28_5.28.1-6build1 perl-modules-5.30_5.30.0-9 pinentry-curses_1.1.0-3 pkgbinarymangler_144 po-debconf_1.0.21 policyrcd-script-zg2_0.1-3 procps_2:3.3.16-1ubuntu1 python3_3.8.0-3ubuntu1 python3-all_3.8.0-3ubuntu1 python3-all-dev_3.8.0-3ubuntu1 python3-atomicwrites_1.1.5-2build1 python3-attr_19.3.0-1 python3-dev_3.8.0-3ubuntu1 python3-distutils_3.8.0-1ubuntu1 python3-importlib-metadata_1.5.0-1 python3-lib2to3_3.8.0-1ubuntu1 python3-minimal_3.8.0-3ubuntu1 python3-more-itertools_4.2.0-1build1 python3-packaging_20.1-1 python3-pkg-resources_44.0.0-1 python3-pluggy_0.13.0-2 python3-py_1.8.1-1 python3-pyparsing_2.4.6-1 python3-pysam_0.15.4+ds-1build1 python3-pytest_4.6.9-1 python3-setuptools_44.0.0-1 python3-six_1.14.0-2 python3-wcwidth_0.1.8+dfsg1-3 python3-zipp_1.0.0-1 python3.8_3.8.2~rc2-2 python3.8-dev_3.8.2~rc2-2 python3.8-minimal_3.8.2~rc2-2 readline-common_8.0-3 sbuild-build-depends-core-dummy_0.invalid.0 sbuild-build-depends-python-pyvcf-dummy_0.invalid.0 sed_4.7-1 sensible-utils_0.0.12+nmu1 systemd_244.2-1ubuntu1 systemd-sysv_244.2-1ubuntu1 sysvinit-utils_2.96-2.1ubuntu1 tar_1.30+dfsg-6 tzdata_2019c-3 ubuntu-keyring_2020.02.11.1 util-linux_2.34-0.1ubuntu7 xz-utils_5.2.4-1 zlib1g_1:1.2.11.dfsg-1ubuntu3 zlib1g-dev_1:1.2.11.dfsg-1ubuntu3 +------------------------------------------------------------------------------+ | Build | +------------------------------------------------------------------------------+ Unpack source ------------- gpgv: Signature made Sat Feb 22 16:11:36 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 ./python-pyvcf_0.6.8+git20170215.476169c-7.dsc dpkg-source: info: extracting python-pyvcf in python-pyvcf-0.6.8+git20170215.476169c dpkg-source: info: unpacking python-pyvcf_0.6.8+git20170215.476169c.orig.tar.xz dpkg-source: info: unpacking python-pyvcf_0.6.8+git20170215.476169c-7.debian.tar.xz Check disc 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-18751200 SCHROOT_CHROOT_NAME=build-PACKAGEBUILD-18751200 SCHROOT_COMMAND=env SCHROOT_GID=2501 SCHROOT_GROUP=buildd SCHROOT_SESSION_ID=build-PACKAGEBUILD-18751200 SCHROOT_UID=2001 SCHROOT_USER=buildd SHELL=/bin/sh TERM=unknown USER=buildd V=1 dpkg-buildpackage ----------------- dpkg-buildpackage: info: source package python-pyvcf dpkg-buildpackage: info: source version 0.6.8+git20170215.476169c-7 dpkg-buildpackage: info: source distribution unstable dpkg-source --before-build . dpkg-buildpackage: info: host architecture armhf 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 '/<>/python-pyvcf-0.6.8+git20170215.476169c/.pybuild/cpython3_3.8_vcf/build' (and everything under it) 'build/bdist.linux-armhf' 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 dh_auto_build -a -O--buildsystem=pybuild I: pybuild base:217: /usr/bin/python3 setup.py build running build running build_py creating /<>/python-pyvcf-0.6.8+git20170215.476169c/.pybuild/cpython3_3.8_vcf/build/vcf copying vcf/utils.py -> /<>/python-pyvcf-0.6.8+git20170215.476169c/.pybuild/cpython3_3.8_vcf/build/vcf copying vcf/model.py -> /<>/python-pyvcf-0.6.8+git20170215.476169c/.pybuild/cpython3_3.8_vcf/build/vcf copying vcf/__init__.py -> /<>/python-pyvcf-0.6.8+git20170215.476169c/.pybuild/cpython3_3.8_vcf/build/vcf copying vcf/sample_filter.py -> /<>/python-pyvcf-0.6.8+git20170215.476169c/.pybuild/cpython3_3.8_vcf/build/vcf copying vcf/filters.py -> /<>/python-pyvcf-0.6.8+git20170215.476169c/.pybuild/cpython3_3.8_vcf/build/vcf copying vcf/parser.py -> /<>/python-pyvcf-0.6.8+git20170215.476169c/.pybuild/cpython3_3.8_vcf/build/vcf creating /<>/python-pyvcf-0.6.8+git20170215.476169c/.pybuild/cpython3_3.8_vcf/build/vcf/test copying vcf/test/test_vcf.py -> /<>/python-pyvcf-0.6.8+git20170215.476169c/.pybuild/cpython3_3.8_vcf/build/vcf/test copying vcf/test/__init__.py -> /<>/python-pyvcf-0.6.8+git20170215.476169c/.pybuild/cpython3_3.8_vcf/build/vcf/test copying vcf/test/prof.py -> /<>/python-pyvcf-0.6.8+git20170215.476169c/.pybuild/cpython3_3.8_vcf/build/vcf/test running egg_info creating PyVCF.egg-info writing PyVCF.egg-info/PKG-INFO writing dependency_links to PyVCF.egg-info/dependency_links.txt writing entry points to PyVCF.egg-info/entry_points.txt writing requirements to PyVCF.egg-info/requires.txt writing top-level names to PyVCF.egg-info/top_level.txt writing manifest file 'PyVCF.egg-info/SOURCES.txt' reading manifest file 'PyVCF.egg-info/SOURCES.txt' reading manifest template 'MANIFEST.in' writing manifest file 'PyVCF.egg-info/SOURCES.txt' copying vcf/cparse.pyx -> /<>/python-pyvcf-0.6.8+git20170215.476169c/.pybuild/cpython3_3.8_vcf/build/vcf copying vcf/test/metadata-whitespace.vcf -> /<>/python-pyvcf-0.6.8+git20170215.476169c/.pybuild/cpython3_3.8_vcf/build/vcf/test copying vcf/test/issue-140-file3.vcf -> /<>/python-pyvcf-0.6.8+git20170215.476169c/.pybuild/cpython3_3.8_vcf/build/vcf/test copying vcf/test/1kg.sites.vcf -> /<>/python-pyvcf-0.6.8+git20170215.476169c/.pybuild/cpython3_3.8_vcf/build/vcf/test copying vcf/test/uncalled_genotypes.vcf -> /<>/python-pyvcf-0.6.8+git20170215.476169c/.pybuild/cpython3_3.8_vcf/build/vcf/test copying vcf/test/example-4.1-sv.vcf -> /<>/python-pyvcf-0.6.8+git20170215.476169c/.pybuild/cpython3_3.8_vcf/build/vcf/test copying vcf/test/example-4.1-info-multiple-values.vcf -> /<>/python-pyvcf-0.6.8+git20170215.476169c/.pybuild/cpython3_3.8_vcf/build/vcf/test copying vcf/test/bad-info-character.vcf -> /<>/python-pyvcf-0.6.8+git20170215.476169c/.pybuild/cpython3_3.8_vcf/build/vcf/test copying vcf/test/issue-254.vcf -> /<>/python-pyvcf-0.6.8+git20170215.476169c/.pybuild/cpython3_3.8_vcf/build/vcf/test copying vcf/test/contig_idonly.vcf -> /<>/python-pyvcf-0.6.8+git20170215.476169c/.pybuild/cpython3_3.8_vcf/build/vcf/test copying vcf/test/mixed-filtering.vcf -> /<>/python-pyvcf-0.6.8+git20170215.476169c/.pybuild/cpython3_3.8_vcf/build/vcf/test copying vcf/test/freebayes.vcf -> /<>/python-pyvcf-0.6.8+git20170215.476169c/.pybuild/cpython3_3.8_vcf/build/vcf/test copying vcf/test/issue-140-file1.vcf -> /<>/python-pyvcf-0.6.8+git20170215.476169c/.pybuild/cpython3_3.8_vcf/build/vcf/test copying vcf/test/strelka.vcf -> /<>/python-pyvcf-0.6.8+git20170215.476169c/.pybuild/cpython3_3.8_vcf/build/vcf/test copying vcf/test/example-4.1-bnd.vcf -> /<>/python-pyvcf-0.6.8+git20170215.476169c/.pybuild/cpython3_3.8_vcf/build/vcf/test copying vcf/test/issue-140-file2.vcf -> /<>/python-pyvcf-0.6.8+git20170215.476169c/.pybuild/cpython3_3.8_vcf/build/vcf/test copying vcf/test/issue_49.vcf -> /<>/python-pyvcf-0.6.8+git20170215.476169c/.pybuild/cpython3_3.8_vcf/build/vcf/test copying vcf/test/samtools.vcf -> /<>/python-pyvcf-0.6.8+git20170215.476169c/.pybuild/cpython3_3.8_vcf/build/vcf/test copying vcf/test/walk_left.vcf -> /<>/python-pyvcf-0.6.8+git20170215.476169c/.pybuild/cpython3_3.8_vcf/build/vcf/test copying vcf/test/FT.vcf -> /<>/python-pyvcf-0.6.8+git20170215.476169c/.pybuild/cpython3_3.8_vcf/build/vcf/test copying vcf/test/walk_refcall.vcf -> /<>/python-pyvcf-0.6.8+git20170215.476169c/.pybuild/cpython3_3.8_vcf/build/vcf/test copying vcf/test/example-4.0.vcf -> /<>/python-pyvcf-0.6.8+git20170215.476169c/.pybuild/cpython3_3.8_vcf/build/vcf/test copying vcf/test/null_genotype_mono.vcf -> /<>/python-pyvcf-0.6.8+git20170215.476169c/.pybuild/cpython3_3.8_vcf/build/vcf/test copying vcf/test/parse-meta-line.vcf -> /<>/python-pyvcf-0.6.8+git20170215.476169c/.pybuild/cpython3_3.8_vcf/build/vcf/test copying vcf/test/bcftools.vcf -> /<>/python-pyvcf-0.6.8+git20170215.476169c/.pybuild/cpython3_3.8_vcf/build/vcf/test copying vcf/test/gonl.chr20.release4.gtc.vcf -> /<>/python-pyvcf-0.6.8+git20170215.476169c/.pybuild/cpython3_3.8_vcf/build/vcf/test copying vcf/test/info-type-character.vcf -> /<>/python-pyvcf-0.6.8+git20170215.476169c/.pybuild/cpython3_3.8_vcf/build/vcf/test copying vcf/test/example-4.2.vcf -> /<>/python-pyvcf-0.6.8+git20170215.476169c/.pybuild/cpython3_3.8_vcf/build/vcf/test copying vcf/test/example-4.1.vcf -> /<>/python-pyvcf-0.6.8+git20170215.476169c/.pybuild/cpython3_3.8_vcf/build/vcf/test copying vcf/test/issue-16.vcf -> /<>/python-pyvcf-0.6.8+git20170215.476169c/.pybuild/cpython3_3.8_vcf/build/vcf/test copying vcf/test/gatk_26_meta.vcf -> /<>/python-pyvcf-0.6.8+git20170215.476169c/.pybuild/cpython3_3.8_vcf/build/vcf/test copying vcf/test/gatk.vcf -> /<>/python-pyvcf-0.6.8+git20170215.476169c/.pybuild/cpython3_3.8_vcf/build/vcf/test copying vcf/test/samples-space.vcf -> /<>/python-pyvcf-0.6.8+git20170215.476169c/.pybuild/cpython3_3.8_vcf/build/vcf/test copying vcf/test/example-4.1-ploidy.vcf -> /<>/python-pyvcf-0.6.8+git20170215.476169c/.pybuild/cpython3_3.8_vcf/build/vcf/test copying vcf/test/issue-214.vcf -> /<>/python-pyvcf-0.6.8+git20170215.476169c/.pybuild/cpython3_3.8_vcf/build/vcf/test copying vcf/test/string_as_flag.vcf -> /<>/python-pyvcf-0.6.8+git20170215.476169c/.pybuild/cpython3_3.8_vcf/build/vcf/test copying vcf/test/tb.vcf.gz -> /<>/python-pyvcf-0.6.8+git20170215.476169c/.pybuild/cpython3_3.8_vcf/build/vcf/test copying vcf/test/issue-201.vcf.gz -> /<>/python-pyvcf-0.6.8+git20170215.476169c/.pybuild/cpython3_3.8_vcf/build/vcf/test copying vcf/test/1kg.vcf.gz -> /<>/python-pyvcf-0.6.8+git20170215.476169c/.pybuild/cpython3_3.8_vcf/build/vcf/test copying vcf/test/tb.vcf.gz.tbi -> /<>/python-pyvcf-0.6.8+git20170215.476169c/.pybuild/cpython3_3.8_vcf/build/vcf/test copying vcf/test/issue-201.vcf.gz.tbi -> /<>/python-pyvcf-0.6.8+git20170215.476169c/.pybuild/cpython3_3.8_vcf/build/vcf/test Fixing /<>/python-pyvcf-0.6.8+git20170215.476169c/.pybuild/cpython3_3.8_vcf/build/vcf/utils.py /<>/python-pyvcf-0.6.8+git20170215.476169c/.pybuild/cpython3_3.8_vcf/build/vcf/model.py /<>/python-pyvcf-0.6.8+git20170215.476169c/.pybuild/cpython3_3.8_vcf/build/vcf/__init__.py /<>/python-pyvcf-0.6.8+git20170215.476169c/.pybuild/cpython3_3.8_vcf/build/vcf/sample_filter.py /<>/python-pyvcf-0.6.8+git20170215.476169c/.pybuild/cpython3_3.8_vcf/build/vcf/filters.py /<>/python-pyvcf-0.6.8+git20170215.476169c/.pybuild/cpython3_3.8_vcf/build/vcf/parser.py /<>/python-pyvcf-0.6.8+git20170215.476169c/.pybuild/cpython3_3.8_vcf/build/vcf/test/test_vcf.py /<>/python-pyvcf-0.6.8+git20170215.476169c/.pybuild/cpython3_3.8_vcf/build/vcf/test/__init__.py /<>/python-pyvcf-0.6.8+git20170215.476169c/.pybuild/cpython3_3.8_vcf/build/vcf/test/prof.py Skipping optional fixer: buffer Skipping optional fixer: idioms Skipping optional fixer: set_literal Skipping optional fixer: ws_comma Fixing /<>/python-pyvcf-0.6.8+git20170215.476169c/.pybuild/cpython3_3.8_vcf/build/vcf/utils.py /<>/python-pyvcf-0.6.8+git20170215.476169c/.pybuild/cpython3_3.8_vcf/build/vcf/model.py /<>/python-pyvcf-0.6.8+git20170215.476169c/.pybuild/cpython3_3.8_vcf/build/vcf/__init__.py /<>/python-pyvcf-0.6.8+git20170215.476169c/.pybuild/cpython3_3.8_vcf/build/vcf/sample_filter.py /<>/python-pyvcf-0.6.8+git20170215.476169c/.pybuild/cpython3_3.8_vcf/build/vcf/filters.py /<>/python-pyvcf-0.6.8+git20170215.476169c/.pybuild/cpython3_3.8_vcf/build/vcf/parser.py /<>/python-pyvcf-0.6.8+git20170215.476169c/.pybuild/cpython3_3.8_vcf/build/vcf/test/test_vcf.py /<>/python-pyvcf-0.6.8+git20170215.476169c/.pybuild/cpython3_3.8_vcf/build/vcf/test/__init__.py /<>/python-pyvcf-0.6.8+git20170215.476169c/.pybuild/cpython3_3.8_vcf/build/vcf/test/prof.py Skipping optional fixer: buffer Skipping optional fixer: idioms Skipping optional fixer: set_literal Skipping optional fixer: ws_comma running build_ext cythoning vcf/cparse.pyx to vcf/cparse.c building 'vcf.cparse' extension creating build creating build/temp.linux-armhf-3.8 creating build/temp.linux-armhf-3.8/vcf arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -fdebug-prefix-map=/<>/python-pyvcf-0.6.8+git20170215.476169c=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python3.8 -c vcf/cparse.c -o build/temp.linux-armhf-3.8/vcf/cparse.o arm-linux-gnueabihf-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -g -O2 -fdebug-prefix-map=/<>/python-pyvcf-0.6.8+git20170215.476169c=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-armhf-3.8/vcf/cparse.o -o /<>/python-pyvcf-0.6.8+git20170215.476169c/.pybuild/cpython3_3.8_vcf/build/vcf/cparse.cpython-38-arm-linux-gnueabihf.so running build_scripts creating build/scripts-3.8 copying and adjusting scripts/vcf_melt -> build/scripts-3.8 copying and adjusting scripts/vcf_filter.py -> build/scripts-3.8 copying and adjusting scripts/vcf_sample_filter.py -> build/scripts-3.8 changing mode of build/scripts-3.8/vcf_melt from 644 to 755 changing mode of build/scripts-3.8/vcf_filter.py from 644 to 755 changing mode of build/scripts-3.8/vcf_sample_filter.py from 644 to 755 /usr/lib/python3/dist-packages/Cython/Compiler/Main.py:369: FutureWarning: Cython directive 'language_level' not set, using 2 for now (Py2). This will change in a later release! File: /<>/python-pyvcf-0.6.8+git20170215.476169c/vcf/cparse.pyx tree = Parsing.p_module(s, pxd, full_module_name) warning: vcf/cparse.pyx:29:14: Non-trivial type declarators in shared declaration (e.g. mix of pointers and values). Each pointer declaration should be on its own line. warning: vcf/cparse.pyx:29:21: Non-trivial type declarators in shared declaration (e.g. mix of pointers and values). Each pointer declaration should be on its own line. warning: vcf/cparse.pyx:29:27: Non-trivial type declarators in shared declaration (e.g. mix of pointers and values). Each pointer declaration should be on its own line. warning: vcf/cparse.pyx:29:40: Non-trivial type declarators in shared declaration (e.g. mix of pointers and values). Each pointer declaration should be on its own line. dh_auto_test -a -O--buildsystem=pybuild I: pybuild base:217: cd /<>/python-pyvcf-0.6.8+git20170215.476169c/.pybuild/cpython3_3.8_vcf/build; python3.8 -m pytest ============================= test session starts ============================== platform linux -- Python 3.8.2rc2, pytest-4.6.9, py-1.8.1, pluggy-0.13.0 rootdir: /<>/python-pyvcf-0.6.8+git20170215.476169c collected 104 items vcf/test/test_vcf.py ................................................... [ 49%] ........................................ss.ss........ [100%] =============================== warnings summary =============================== vcf/parser.py:278 /<>/python-pyvcf-0.6.8+git20170215.476169c/.pybuild/cpython3_3.8_vcf/build/vcf/parser.py:278: DeprecationWarning: invalid escape sequence \[ self._alt_pattern = re.compile('[\[\]]') vcf/parser.py:536 /<>/python-pyvcf-0.6.8+git20170215.476169c/.pybuild/cpython3_3.8_vcf/build/vcf/parser.py:536: DeprecationWarning: invalid escape sequence \[ remoteOrientation = (re.search('\[', str) is not None) -- Docs: https://docs.pytest.org/en/latest/warnings.html ============== 100 passed, 4 skipped, 2 warnings in 13.61 seconds ============== 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 /<>/python-pyvcf-0.6.8+git20170215.476169c/debian/python3-vcf running install running build running build_py running egg_info writing PyVCF.egg-info/PKG-INFO writing dependency_links to PyVCF.egg-info/dependency_links.txt writing entry points to PyVCF.egg-info/entry_points.txt writing requirements to PyVCF.egg-info/requires.txt writing top-level names to PyVCF.egg-info/top_level.txt reading manifest file 'PyVCF.egg-info/SOURCES.txt' reading manifest template 'MANIFEST.in' writing manifest file 'PyVCF.egg-info/SOURCES.txt' running build_ext skipping 'vcf/cparse.c' Cython extension (up-to-date) running build_scripts running install_lib creating /<>/python-pyvcf-0.6.8+git20170215.476169c/debian/python3-vcf creating /<>/python-pyvcf-0.6.8+git20170215.476169c/debian/python3-vcf/usr creating /<>/python-pyvcf-0.6.8+git20170215.476169c/debian/python3-vcf/usr/lib creating /<>/python-pyvcf-0.6.8+git20170215.476169c/debian/python3-vcf/usr/lib/python3.8 creating /<>/python-pyvcf-0.6.8+git20170215.476169c/debian/python3-vcf/usr/lib/python3.8/dist-packages creating /<>/python-pyvcf-0.6.8+git20170215.476169c/debian/python3-vcf/usr/lib/python3.8/dist-packages/vcf copying /<>/python-pyvcf-0.6.8+git20170215.476169c/.pybuild/cpython3_3.8_vcf/build/vcf/utils.py -> /<>/python-pyvcf-0.6.8+git20170215.476169c/debian/python3-vcf/usr/lib/python3.8/dist-packages/vcf copying /<>/python-pyvcf-0.6.8+git20170215.476169c/.pybuild/cpython3_3.8_vcf/build/vcf/model.py -> /<>/python-pyvcf-0.6.8+git20170215.476169c/debian/python3-vcf/usr/lib/python3.8/dist-packages/vcf copying /<>/python-pyvcf-0.6.8+git20170215.476169c/.pybuild/cpython3_3.8_vcf/build/vcf/cparse.cpython-38-arm-linux-gnueabihf.so -> /<>/python-pyvcf-0.6.8+git20170215.476169c/debian/python3-vcf/usr/lib/python3.8/dist-packages/vcf copying /<>/python-pyvcf-0.6.8+git20170215.476169c/.pybuild/cpython3_3.8_vcf/build/vcf/__init__.py -> /<>/python-pyvcf-0.6.8+git20170215.476169c/debian/python3-vcf/usr/lib/python3.8/dist-packages/vcf copying /<>/python-pyvcf-0.6.8+git20170215.476169c/.pybuild/cpython3_3.8_vcf/build/vcf/cparse.pyx -> /<>/python-pyvcf-0.6.8+git20170215.476169c/debian/python3-vcf/usr/lib/python3.8/dist-packages/vcf copying /<>/python-pyvcf-0.6.8+git20170215.476169c/.pybuild/cpython3_3.8_vcf/build/vcf/sample_filter.py -> /<>/python-pyvcf-0.6.8+git20170215.476169c/debian/python3-vcf/usr/lib/python3.8/dist-packages/vcf creating /<>/python-pyvcf-0.6.8+git20170215.476169c/debian/python3-vcf/usr/lib/python3.8/dist-packages/vcf/__pycache__ copying /<>/python-pyvcf-0.6.8+git20170215.476169c/.pybuild/cpython3_3.8_vcf/build/vcf/__pycache__/parser.cpython-38.pyc -> /<>/python-pyvcf-0.6.8+git20170215.476169c/debian/python3-vcf/usr/lib/python3.8/dist-packages/vcf/__pycache__ copying /<>/python-pyvcf-0.6.8+git20170215.476169c/.pybuild/cpython3_3.8_vcf/build/vcf/__pycache__/__init__.cpython-38.pyc -> /<>/python-pyvcf-0.6.8+git20170215.476169c/debian/python3-vcf/usr/lib/python3.8/dist-packages/vcf/__pycache__ copying /<>/python-pyvcf-0.6.8+git20170215.476169c/.pybuild/cpython3_3.8_vcf/build/vcf/__pycache__/model.cpython-38.pyc -> /<>/python-pyvcf-0.6.8+git20170215.476169c/debian/python3-vcf/usr/lib/python3.8/dist-packages/vcf/__pycache__ copying /<>/python-pyvcf-0.6.8+git20170215.476169c/.pybuild/cpython3_3.8_vcf/build/vcf/__pycache__/filters.cpython-38.pyc -> /<>/python-pyvcf-0.6.8+git20170215.476169c/debian/python3-vcf/usr/lib/python3.8/dist-packages/vcf/__pycache__ copying /<>/python-pyvcf-0.6.8+git20170215.476169c/.pybuild/cpython3_3.8_vcf/build/vcf/__pycache__/utils.cpython-38.pyc -> /<>/python-pyvcf-0.6.8+git20170215.476169c/debian/python3-vcf/usr/lib/python3.8/dist-packages/vcf/__pycache__ copying /<>/python-pyvcf-0.6.8+git20170215.476169c/.pybuild/cpython3_3.8_vcf/build/vcf/__pycache__/sample_filter.cpython-38.pyc -> /<>/python-pyvcf-0.6.8+git20170215.476169c/debian/python3-vcf/usr/lib/python3.8/dist-packages/vcf/__pycache__ creating /<>/python-pyvcf-0.6.8+git20170215.476169c/debian/python3-vcf/usr/lib/python3.8/dist-packages/vcf/test copying /<>/python-pyvcf-0.6.8+git20170215.476169c/.pybuild/cpython3_3.8_vcf/build/vcf/test/metadata-whitespace.vcf -> /<>/python-pyvcf-0.6.8+git20170215.476169c/debian/python3-vcf/usr/lib/python3.8/dist-packages/vcf/test copying /<>/python-pyvcf-0.6.8+git20170215.476169c/.pybuild/cpython3_3.8_vcf/build/vcf/test/issue-140-file3.vcf -> /<>/python-pyvcf-0.6.8+git20170215.476169c/debian/python3-vcf/usr/lib/python3.8/dist-packages/vcf/test copying /<>/python-pyvcf-0.6.8+git20170215.476169c/.pybuild/cpython3_3.8_vcf/build/vcf/test/1kg.sites.vcf -> /<>/python-pyvcf-0.6.8+git20170215.476169c/debian/python3-vcf/usr/lib/python3.8/dist-packages/vcf/test copying /<>/python-pyvcf-0.6.8+git20170215.476169c/.pybuild/cpython3_3.8_vcf/build/vcf/test/uncalled_genotypes.vcf -> /<>/python-pyvcf-0.6.8+git20170215.476169c/debian/python3-vcf/usr/lib/python3.8/dist-packages/vcf/test copying /<>/python-pyvcf-0.6.8+git20170215.476169c/.pybuild/cpython3_3.8_vcf/build/vcf/test/example-4.1-sv.vcf -> /<>/python-pyvcf-0.6.8+git20170215.476169c/debian/python3-vcf/usr/lib/python3.8/dist-packages/vcf/test copying /<>/python-pyvcf-0.6.8+git20170215.476169c/.pybuild/cpython3_3.8_vcf/build/vcf/test/test_vcf.py -> /<>/python-pyvcf-0.6.8+git20170215.476169c/debian/python3-vcf/usr/lib/python3.8/dist-packages/vcf/test copying /<>/python-pyvcf-0.6.8+git20170215.476169c/.pybuild/cpython3_3.8_vcf/build/vcf/test/example-4.1-info-multiple-values.vcf -> /<>/python-pyvcf-0.6.8+git20170215.476169c/debian/python3-vcf/usr/lib/python3.8/dist-packages/vcf/test copying /<>/python-pyvcf-0.6.8+git20170215.476169c/.pybuild/cpython3_3.8_vcf/build/vcf/test/__init__.py -> /<>/python-pyvcf-0.6.8+git20170215.476169c/debian/python3-vcf/usr/lib/python3.8/dist-packages/vcf/test copying /<>/python-pyvcf-0.6.8+git20170215.476169c/.pybuild/cpython3_3.8_vcf/build/vcf/test/bad-info-character.vcf -> /<>/python-pyvcf-0.6.8+git20170215.476169c/debian/python3-vcf/usr/lib/python3.8/dist-packages/vcf/test copying /<>/python-pyvcf-0.6.8+git20170215.476169c/.pybuild/cpython3_3.8_vcf/build/vcf/test/issue-254.vcf -> /<>/python-pyvcf-0.6.8+git20170215.476169c/debian/python3-vcf/usr/lib/python3.8/dist-packages/vcf/test copying /<>/python-pyvcf-0.6.8+git20170215.476169c/.pybuild/cpython3_3.8_vcf/build/vcf/test/contig_idonly.vcf -> /<>/python-pyvcf-0.6.8+git20170215.476169c/debian/python3-vcf/usr/lib/python3.8/dist-packages/vcf/test copying /<>/python-pyvcf-0.6.8+git20170215.476169c/.pybuild/cpython3_3.8_vcf/build/vcf/test/mixed-filtering.vcf -> /<>/python-pyvcf-0.6.8+git20170215.476169c/debian/python3-vcf/usr/lib/python3.8/dist-packages/vcf/test copying /<>/python-pyvcf-0.6.8+git20170215.476169c/.pybuild/cpython3_3.8_vcf/build/vcf/test/tb.vcf.gz.tbi -> /<>/python-pyvcf-0.6.8+git20170215.476169c/debian/python3-vcf/usr/lib/python3.8/dist-packages/vcf/test copying /<>/python-pyvcf-0.6.8+git20170215.476169c/.pybuild/cpython3_3.8_vcf/build/vcf/test/freebayes.vcf -> /<>/python-pyvcf-0.6.8+git20170215.476169c/debian/python3-vcf/usr/lib/python3.8/dist-packages/vcf/test copying /<>/python-pyvcf-0.6.8+git20170215.476169c/.pybuild/cpython3_3.8_vcf/build/vcf/test/issue-140-file1.vcf -> /<>/python-pyvcf-0.6.8+git20170215.476169c/debian/python3-vcf/usr/lib/python3.8/dist-packages/vcf/test copying /<>/python-pyvcf-0.6.8+git20170215.476169c/.pybuild/cpython3_3.8_vcf/build/vcf/test/strelka.vcf -> /<>/python-pyvcf-0.6.8+git20170215.476169c/debian/python3-vcf/usr/lib/python3.8/dist-packages/vcf/test copying /<>/python-pyvcf-0.6.8+git20170215.476169c/.pybuild/cpython3_3.8_vcf/build/vcf/test/example-4.1-bnd.vcf -> /<>/python-pyvcf-0.6.8+git20170215.476169c/debian/python3-vcf/usr/lib/python3.8/dist-packages/vcf/test copying /<>/python-pyvcf-0.6.8+git20170215.476169c/.pybuild/cpython3_3.8_vcf/build/vcf/test/issue-140-file2.vcf -> /<>/python-pyvcf-0.6.8+git20170215.476169c/debian/python3-vcf/usr/lib/python3.8/dist-packages/vcf/test copying /<>/python-pyvcf-0.6.8+git20170215.476169c/.pybuild/cpython3_3.8_vcf/build/vcf/test/issue_49.vcf -> /<>/python-pyvcf-0.6.8+git20170215.476169c/debian/python3-vcf/usr/lib/python3.8/dist-packages/vcf/test copying /<>/python-pyvcf-0.6.8+git20170215.476169c/.pybuild/cpython3_3.8_vcf/build/vcf/test/samtools.vcf -> /<>/python-pyvcf-0.6.8+git20170215.476169c/debian/python3-vcf/usr/lib/python3.8/dist-packages/vcf/test creating /<>/python-pyvcf-0.6.8+git20170215.476169c/debian/python3-vcf/usr/lib/python3.8/dist-packages/vcf/test/__pycache__ copying /<>/python-pyvcf-0.6.8+git20170215.476169c/.pybuild/cpython3_3.8_vcf/build/vcf/test/__pycache__/__init__.cpython-38.pyc -> /<>/python-pyvcf-0.6.8+git20170215.476169c/debian/python3-vcf/usr/lib/python3.8/dist-packages/vcf/test/__pycache__ copying /<>/python-pyvcf-0.6.8+git20170215.476169c/.pybuild/cpython3_3.8_vcf/build/vcf/test/__pycache__/test_vcf.cpython-38-PYTEST.pyc -> /<>/python-pyvcf-0.6.8+git20170215.476169c/debian/python3-vcf/usr/lib/python3.8/dist-packages/vcf/test/__pycache__ copying /<>/python-pyvcf-0.6.8+git20170215.476169c/.pybuild/cpython3_3.8_vcf/build/vcf/test/walk_left.vcf -> /<>/python-pyvcf-0.6.8+git20170215.476169c/debian/python3-vcf/usr/lib/python3.8/dist-packages/vcf/test copying /<>/python-pyvcf-0.6.8+git20170215.476169c/.pybuild/cpython3_3.8_vcf/build/vcf/test/FT.vcf -> /<>/python-pyvcf-0.6.8+git20170215.476169c/debian/python3-vcf/usr/lib/python3.8/dist-packages/vcf/test copying /<>/python-pyvcf-0.6.8+git20170215.476169c/.pybuild/cpython3_3.8_vcf/build/vcf/test/tb.vcf.gz -> /<>/python-pyvcf-0.6.8+git20170215.476169c/debian/python3-vcf/usr/lib/python3.8/dist-packages/vcf/test copying /<>/python-pyvcf-0.6.8+git20170215.476169c/.pybuild/cpython3_3.8_vcf/build/vcf/test/walk_refcall.vcf -> /<>/python-pyvcf-0.6.8+git20170215.476169c/debian/python3-vcf/usr/lib/python3.8/dist-packages/vcf/test copying /<>/python-pyvcf-0.6.8+git20170215.476169c/.pybuild/cpython3_3.8_vcf/build/vcf/test/prof.py -> /<>/python-pyvcf-0.6.8+git20170215.476169c/debian/python3-vcf/usr/lib/python3.8/dist-packages/vcf/test copying /<>/python-pyvcf-0.6.8+git20170215.476169c/.pybuild/cpython3_3.8_vcf/build/vcf/test/example-4.0.vcf -> /<>/python-pyvcf-0.6.8+git20170215.476169c/debian/python3-vcf/usr/lib/python3.8/dist-packages/vcf/test copying /<>/python-pyvcf-0.6.8+git20170215.476169c/.pybuild/cpython3_3.8_vcf/build/vcf/test/null_genotype_mono.vcf -> /<>/python-pyvcf-0.6.8+git20170215.476169c/debian/python3-vcf/usr/lib/python3.8/dist-packages/vcf/test copying /<>/python-pyvcf-0.6.8+git20170215.476169c/.pybuild/cpython3_3.8_vcf/build/vcf/test/parse-meta-line.vcf -> /<>/python-pyvcf-0.6.8+git20170215.476169c/debian/python3-vcf/usr/lib/python3.8/dist-packages/vcf/test copying /<>/python-pyvcf-0.6.8+git20170215.476169c/.pybuild/cpython3_3.8_vcf/build/vcf/test/issue-201.vcf.gz -> /<>/python-pyvcf-0.6.8+git20170215.476169c/debian/python3-vcf/usr/lib/python3.8/dist-packages/vcf/test copying /<>/python-pyvcf-0.6.8+git20170215.476169c/.pybuild/cpython3_3.8_vcf/build/vcf/test/bcftools.vcf -> /<>/python-pyvcf-0.6.8+git20170215.476169c/debian/python3-vcf/usr/lib/python3.8/dist-packages/vcf/test copying /<>/python-pyvcf-0.6.8+git20170215.476169c/.pybuild/cpython3_3.8_vcf/build/vcf/test/gonl.chr20.release4.gtc.vcf -> /<>/python-pyvcf-0.6.8+git20170215.476169c/debian/python3-vcf/usr/lib/python3.8/dist-packages/vcf/test copying /<>/python-pyvcf-0.6.8+git20170215.476169c/.pybuild/cpython3_3.8_vcf/build/vcf/test/info-type-character.vcf -> /<>/python-pyvcf-0.6.8+git20170215.476169c/debian/python3-vcf/usr/lib/python3.8/dist-packages/vcf/test copying /<>/python-pyvcf-0.6.8+git20170215.476169c/.pybuild/cpython3_3.8_vcf/build/vcf/test/example-4.2.vcf -> /<>/python-pyvcf-0.6.8+git20170215.476169c/debian/python3-vcf/usr/lib/python3.8/dist-packages/vcf/test copying /<>/python-pyvcf-0.6.8+git20170215.476169c/.pybuild/cpython3_3.8_vcf/build/vcf/test/example-4.1.vcf -> /<>/python-pyvcf-0.6.8+git20170215.476169c/debian/python3-vcf/usr/lib/python3.8/dist-packages/vcf/test copying /<>/python-pyvcf-0.6.8+git20170215.476169c/.pybuild/cpython3_3.8_vcf/build/vcf/test/issue-16.vcf -> /<>/python-pyvcf-0.6.8+git20170215.476169c/debian/python3-vcf/usr/lib/python3.8/dist-packages/vcf/test copying /<>/python-pyvcf-0.6.8+git20170215.476169c/.pybuild/cpython3_3.8_vcf/build/vcf/test/1kg.vcf.gz -> /<>/python-pyvcf-0.6.8+git20170215.476169c/debian/python3-vcf/usr/lib/python3.8/dist-packages/vcf/test copying /<>/python-pyvcf-0.6.8+git20170215.476169c/.pybuild/cpython3_3.8_vcf/build/vcf/test/gatk_26_meta.vcf -> /<>/python-pyvcf-0.6.8+git20170215.476169c/debian/python3-vcf/usr/lib/python3.8/dist-packages/vcf/test copying /<>/python-pyvcf-0.6.8+git20170215.476169c/.pybuild/cpython3_3.8_vcf/build/vcf/test/gatk.vcf -> /<>/python-pyvcf-0.6.8+git20170215.476169c/debian/python3-vcf/usr/lib/python3.8/dist-packages/vcf/test copying /<>/python-pyvcf-0.6.8+git20170215.476169c/.pybuild/cpython3_3.8_vcf/build/vcf/test/samples-space.vcf -> /<>/python-pyvcf-0.6.8+git20170215.476169c/debian/python3-vcf/usr/lib/python3.8/dist-packages/vcf/test copying /<>/python-pyvcf-0.6.8+git20170215.476169c/.pybuild/cpython3_3.8_vcf/build/vcf/test/example-4.1-ploidy.vcf -> /<>/python-pyvcf-0.6.8+git20170215.476169c/debian/python3-vcf/usr/lib/python3.8/dist-packages/vcf/test copying /<>/python-pyvcf-0.6.8+git20170215.476169c/.pybuild/cpython3_3.8_vcf/build/vcf/test/issue-201.vcf.gz.tbi -> /<>/python-pyvcf-0.6.8+git20170215.476169c/debian/python3-vcf/usr/lib/python3.8/dist-packages/vcf/test copying /<>/python-pyvcf-0.6.8+git20170215.476169c/.pybuild/cpython3_3.8_vcf/build/vcf/test/issue-214.vcf -> /<>/python-pyvcf-0.6.8+git20170215.476169c/debian/python3-vcf/usr/lib/python3.8/dist-packages/vcf/test copying /<>/python-pyvcf-0.6.8+git20170215.476169c/.pybuild/cpython3_3.8_vcf/build/vcf/test/string_as_flag.vcf -> /<>/python-pyvcf-0.6.8+git20170215.476169c/debian/python3-vcf/usr/lib/python3.8/dist-packages/vcf/test copying /<>/python-pyvcf-0.6.8+git20170215.476169c/.pybuild/cpython3_3.8_vcf/build/vcf/filters.py -> /<>/python-pyvcf-0.6.8+git20170215.476169c/debian/python3-vcf/usr/lib/python3.8/dist-packages/vcf copying /<>/python-pyvcf-0.6.8+git20170215.476169c/.pybuild/cpython3_3.8_vcf/build/vcf/parser.py -> /<>/python-pyvcf-0.6.8+git20170215.476169c/debian/python3-vcf/usr/lib/python3.8/dist-packages/vcf byte-compiling /<>/python-pyvcf-0.6.8+git20170215.476169c/debian/python3-vcf/usr/lib/python3.8/dist-packages/vcf/utils.py to utils.cpython-38.pyc byte-compiling /<>/python-pyvcf-0.6.8+git20170215.476169c/debian/python3-vcf/usr/lib/python3.8/dist-packages/vcf/model.py to model.cpython-38.pyc byte-compiling /<>/python-pyvcf-0.6.8+git20170215.476169c/debian/python3-vcf/usr/lib/python3.8/dist-packages/vcf/__init__.py to __init__.cpython-38.pyc byte-compiling /<>/python-pyvcf-0.6.8+git20170215.476169c/debian/python3-vcf/usr/lib/python3.8/dist-packages/vcf/sample_filter.py to sample_filter.cpython-38.pyc byte-compiling /<>/python-pyvcf-0.6.8+git20170215.476169c/debian/python3-vcf/usr/lib/python3.8/dist-packages/vcf/test/test_vcf.py to test_vcf.cpython-38.pyc byte-compiling /<>/python-pyvcf-0.6.8+git20170215.476169c/debian/python3-vcf/usr/lib/python3.8/dist-packages/vcf/test/__init__.py to __init__.cpython-38.pyc byte-compiling /<>/python-pyvcf-0.6.8+git20170215.476169c/debian/python3-vcf/usr/lib/python3.8/dist-packages/vcf/test/prof.py to prof.cpython-38.pyc byte-compiling /<>/python-pyvcf-0.6.8+git20170215.476169c/debian/python3-vcf/usr/lib/python3.8/dist-packages/vcf/filters.py to filters.cpython-38.pyc byte-compiling /<>/python-pyvcf-0.6.8+git20170215.476169c/debian/python3-vcf/usr/lib/python3.8/dist-packages/vcf/parser.py to parser.cpython-38.pyc running install_egg_info Copying PyVCF.egg-info to /<>/python-pyvcf-0.6.8+git20170215.476169c/debian/python3-vcf/usr/lib/python3.8/dist-packages/PyVCF-0.6.8.egg-info Skipping SOURCES.txt running install_scripts creating /<>/python-pyvcf-0.6.8+git20170215.476169c/debian/python3-vcf/usr/bin copying build/scripts-3.8/vcf_filter.py -> /<>/python-pyvcf-0.6.8+git20170215.476169c/debian/python3-vcf/usr/bin copying build/scripts-3.8/vcf_sample_filter.py -> /<>/python-pyvcf-0.6.8+git20170215.476169c/debian/python3-vcf/usr/bin copying build/scripts-3.8/vcf_melt -> /<>/python-pyvcf-0.6.8+git20170215.476169c/debian/python3-vcf/usr/bin changing mode of /<>/python-pyvcf-0.6.8+git20170215.476169c/debian/python3-vcf/usr/bin/vcf_filter.py to 755 changing mode of /<>/python-pyvcf-0.6.8+git20170215.476169c/debian/python3-vcf/usr/bin/vcf_sample_filter.py to 755 changing mode of /<>/python-pyvcf-0.6.8+git20170215.476169c/debian/python3-vcf/usr/bin/vcf_melt to 755 debian/rules override_dh_install make[1]: Entering directory '/<>/python-pyvcf-0.6.8+git20170215.476169c' dh_install # move testdata to separate dir mkdir -p debian/python-pyvcf-examples/usr/share/doc/python3-vcf mv `find debian/python3-vcf -type d -name test | head -n 1` debian/python-pyvcf-examples/usr/share/doc/python3-vcf find debian/python3-vcf -type d -name test | xargs rm -rf find debian/python-pyvcf-examples/usr/share/doc/python3-vcf -name "__pycache__" | xargs rm -rf mkdir -p debian/pyvcf/usr mv debian/python3-vcf/usr/bin debian/pyvcf/usr # strip .py extension for py in debian/pyvcf/usr/bin/*.py ; do \ mv ${py} debian/pyvcf/usr/bin/`basename ${py} .py` ; \ done make[1]: Leaving directory '/<>/python-pyvcf-0.6.8+git20170215.476169c' dh_installdocs -a -O--buildsystem=pybuild dh_installchangelogs -a -O--buildsystem=pybuild dh_installman -a -O--buildsystem=pybuild debian/rules override_dh_python3 make[1]: Entering directory '/<>/python-pyvcf-0.6.8+git20170215.476169c' dh_python3 --verbose D: dh_python3 dh_python3:161: version: 4.20191017ubuntu5 D: dh_python3 dh_python3:162: argv: ['/usr/bin/dh_python3', '--verbose'] D: dh_python3 dh_python3:163: options: {'guess_deps': True, 'skip_private': False, 'verbose': True, 'arch': None, 'package': None, 'no_package': None, 'compile_all': False, 'vrange': None, 'regexpr': None, 'accept_upstream_versions': False, 'depends': None, 'depends_section': None, 'recommends': None, 'recommends_section': None, 'suggests': None, 'suggests_section': None, 'requires': None, 'shebang': None, 'ignore_shebangs': False, 'clean_dbg_pkg': True, 'no_ext_rename': False, 'no_shebang_rewrite': False, 'O': None} D: dh_python3 dh_python3:164: args: [] D: dh_python3 dh_python3:165: supported Python versions: 3.8 (default=3.8) D: dh_python3 debhelper:107: skipping package: python-pyvcf-examples D: dh_python3 debhelper:152: source=python-pyvcf, binary packages=['python3-vcf', 'pyvcf'] D: dh_python3 dh_python3:183: processing package python3-vcf... D: dh_python3 fs:49: moving files from debian/python3-vcf/usr/lib/python3.8/dist-packages to debian/python3-vcf/usr/lib/python3/dist-packages/ D: dh_python3 tools:232: invoking: /usr/bin/python3.8 -c 'import sysconfig as s;print("__SEP__".join(i or "" for i in s.get_config_vars("SOABI", "MULTIARCH", "INCLUDEPY", "LIBPL", "LDLIBRARY")))' D: dh_python3 fs:260: package python3-vcf details = {'requires.txt': {'debian/python3-vcf/usr/lib/python3/dist-packages/PyVCF-0.6.8.egg-info/requires.txt'}, 'egg-info': set(), 'nsp.txt': set(), 'shebangs': set(), 'public_vers': {Version('3')}, 'private_dirs': {}, 'compile': True, 'ext_vers': {Version('3.8')}, 'ext_no_version': set()} D: dh_python3 depends:117: generating dependencies for package python3-vcf D: dh_python3 pydist:137: trying to find dependency for setuptools (python=None) D: dh_python3 depends:275: D={'python3 (>= 3.8~)', 'python3:any', 'python3 (<< 3.9)', 'python3-pkg-resources'}; R=[]; S=[]; E=[], B=[]; RT=[] D: dh_python3 dh_python3:183: processing package pyvcf... D: dh_python3 fs:260: package pyvcf details = {'requires.txt': set(), 'egg-info': set(), 'nsp.txt': set(), 'shebangs': {/usr/bin/python3, /usr/bin/python3, /usr/bin/python3}, 'public_vers': set(), 'private_dirs': {}, 'compile': False, 'ext_vers': set(), 'ext_no_version': set()} D: dh_python3 depends:117: generating dependencies for package pyvcf D: dh_python3 depends:275: D={'python3:any'}; R=[]; S=[]; E=[], B=[]; RT=[] make[1]: Leaving directory '/<>/python-pyvcf-0.6.8+git20170215.476169c' 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 dh_fixperms -a -O--buildsystem=pybuild 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 dpkg-gencontrol: warning: package python3-vcf: substitution variable ${python3:Provides} unused, but is defined dpkg-gencontrol: warning: package python3-vcf: substitution variable ${python3:Versions} unused, but is defined dpkg-gencontrol: warning: package python3-vcf: substitution variable ${python3:Provides} unused, but is defined dpkg-gencontrol: warning: package python3-vcf: substitution variable ${python3:Versions} unused, but is defined dh_md5sums -a -O--buildsystem=pybuild dh_builddeb -a -O--buildsystem=pybuild INFO: pkgstriptranslations version 144 INFO: pkgstriptranslations version 144 pkgstriptranslations: processing python3-vcf (in debian/python3-vcf); do_strip: , oemstrip: pkgstriptranslations: processing python3-vcf-dbgsym (in debian/.debhelper/python3-vcf/dbgsym-root); do_strip: , oemstrip: pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " pkgstripfiles: processing control file: debian/python3-vcf/DEBIAN/control, package python3-vcf, directory debian/python3-vcf pkgstripfiles: processing control file: debian/.debhelper/python3-vcf/dbgsym-root/DEBIAN/control, package python3-vcf-dbgsym, directory debian/.debhelper/python3-vcf/dbgsym-root pkgstripfiles: Running PNG optimization (using 4 cpus) for package python3-vcf ... dpkg-deb: building package 'python3-vcf-dbgsym' in 'debian/.debhelper/scratch-space/build-python3-vcf/python3-vcf-dbgsym_0.6.8+git20170215.476169c-7_armhf.deb'. pkgstripfiles: No PNG files. dpkg-deb: building package 'python3-vcf' in '../python3-vcf_0.6.8+git20170215.476169c-7_armhf.deb'. Renaming python3-vcf-dbgsym_0.6.8+git20170215.476169c-7_armhf.deb to python3-vcf-dbgsym_0.6.8+git20170215.476169c-7_armhf.ddeb dpkg-genbuildinfo --build=any dpkg-genchanges --build=any -mLaunchpad Build Daemon >../python-pyvcf_0.6.8+git20170215.476169c-7_armhf.changes dpkg-genchanges: info: binary-only arch-specific upload (source code and arch-indep packages not included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) -------------------------------------------------------------------------------- Build finished at 20200223-1137 Finished -------- I: Built successfully +------------------------------------------------------------------------------+ | Post Build Chroot | +------------------------------------------------------------------------------+ +------------------------------------------------------------------------------+ | Changes | +------------------------------------------------------------------------------+ python-pyvcf_0.6.8+git20170215.476169c-7_armhf.changes: ------------------------------------------------------- Format: 1.8 Date: Sat, 22 Feb 2020 17:08:31 +0100 Source: python-pyvcf Binary: python3-vcf Architecture: armhf Version: 0.6.8+git20170215.476169c-7 Distribution: focal-proposed Urgency: medium Maintainer: Launchpad Build Daemon Changed-By: Andreas Tille Description: python3-vcf - Variant Call Format (VCF) parser for Python 3 Closes: 951863 Changes: python-pyvcf (0.6.8+git20170215.476169c-7) unstable; urgency=medium . * Test-Depends: python3-pytest Closes: #951863 * Standards-Version: 4.5.0 (routine-update) * Add salsa-ci file (routine-update) Checksums-Sha1: a1ac8bd46ff019a3ba1a6a6cb996549b8f12bb18 7795 python-pyvcf_0.6.8+git20170215.476169c-7_armhf.buildinfo 13f2ce3d533c872b99a9f80ba68eff654ce528e8 97352 python3-vcf-dbgsym_0.6.8+git20170215.476169c-7_armhf.ddeb 0b7cf91b2cf19f33b56d195e12dee50ed4a84bc5 41648 python3-vcf_0.6.8+git20170215.476169c-7_armhf.deb Checksums-Sha256: ddd7b8e2723956df0ba8b9d3f4170cf9d54ce5c5d9ee19b37ec22cf721ee9a90 7795 python-pyvcf_0.6.8+git20170215.476169c-7_armhf.buildinfo 74d8edc9e33d554a32c3692d28066a4c095a200350e51f639f0b8317e87d1db1 97352 python3-vcf-dbgsym_0.6.8+git20170215.476169c-7_armhf.ddeb c78cf0610d7d0626703a668d265f074cfd808860b14398c1282173fcf23847db 41648 python3-vcf_0.6.8+git20170215.476169c-7_armhf.deb Files: e02782c2bbf8670b5494a133aa16af12 7795 python optional python-pyvcf_0.6.8+git20170215.476169c-7_armhf.buildinfo 4c883195fe0385ca5b3b7aa2315a8846 97352 debug optional python3-vcf-dbgsym_0.6.8+git20170215.476169c-7_armhf.ddeb 2237d47d4c1cb1825c6a63e1b71d3622 41648 python optional python3-vcf_0.6.8+git20170215.476169c-7_armhf.deb +------------------------------------------------------------------------------+ | Package contents | +------------------------------------------------------------------------------+ python3-vcf_0.6.8+git20170215.476169c-7_armhf.deb ------------------------------------------------- new debian package, version 2.0. size 41648 bytes: control archive=1868 bytes. 1394 bytes, 30 lines control 1313 bytes, 15 lines md5sums 248 bytes, 12 lines * postinst #!/bin/sh 397 bytes, 12 lines * prerm #!/bin/sh Package: python3-vcf Source: python-pyvcf Version: 0.6.8+git20170215.476169c-7 Architecture: armhf Maintainer: Ubuntu Developers Original-Maintainer: Debian Med Packaging Team Installed-Size: 131 Depends: libc6 (>= 2.4), python3 (<< 3.9), python3 (>= 3.8~), python3-pkg-resources, python3:any, python3-pysam Breaks: python3-pyvcf Replaces: python3-pyvcf Provides: python3-pyvcf Section: python Priority: optional Homepage: https://pypi.python.org/pypi/PyVCF Description: Variant Call Format (VCF) parser for Python 3 The Variant Call Format (VCF) specifies the format of a text file used in bioinformatics for storing gene sequence variations. The format has been developed with the advent of large-scale genotyping and DNA sequencing projects, such as the 1000 Genomes Project. . The intent of this module is to mimic the ``csv`` module in the Python stdlib, as opposed to more flexible serialization formats like JSON or YAML. ``vcf`` will attempt to parse the content of each record based on the data types specified in the meta-information lines -- specifically the ##INFO and ##FORMAT lines. If these lines are missing or incomplete, it will check against the reserved types mentioned in the spec. Failing that, it will just return strings. . This package provides the Python 3 modules. drwxr-xr-x root/root 0 2020-02-22 16:08 ./ drwxr-xr-x root/root 0 2020-02-22 16:08 ./usr/ drwxr-xr-x root/root 0 2020-02-22 16:08 ./usr/lib/ drwxr-xr-x root/root 0 2020-02-22 16:08 ./usr/lib/python3/ drwxr-xr-x root/root 0 2020-02-22 16:08 ./usr/lib/python3/dist-packages/ drwxr-xr-x root/root 0 2020-02-22 16:08 ./usr/lib/python3/dist-packages/PyVCF-0.6.8.egg-info/ -rw-r--r-- root/root 1173 2020-02-22 16:08 ./usr/lib/python3/dist-packages/PyVCF-0.6.8.egg-info/PKG-INFO -rw-r--r-- root/root 1 2020-02-22 16:08 ./usr/lib/python3/dist-packages/PyVCF-0.6.8.egg-info/dependency_links.txt -rw-r--r-- root/root 232 2020-02-22 16:08 ./usr/lib/python3/dist-packages/PyVCF-0.6.8.egg-info/entry_points.txt -rw-r--r-- root/root 0 2020-02-22 16:08 ./usr/lib/python3/dist-packages/PyVCF-0.6.8.egg-info/requires.txt -rw-r--r-- root/root 4 2020-02-22 16:08 ./usr/lib/python3/dist-packages/PyVCF-0.6.8.egg-info/top_level.txt drwxr-xr-x root/root 0 2020-02-22 16:08 ./usr/lib/python3/dist-packages/vcf/ -rw-r--r-- root/root 384 2017-02-15 13:48 ./usr/lib/python3/dist-packages/vcf/__init__.py -rw-r--r-- root/root 39532 2020-02-22 16:08 ./usr/lib/python3/dist-packages/vcf/cparse.cpython-38-arm-linux-gnueabihf.so -rw-r--r-- root/root 2821 2017-02-15 13:48 ./usr/lib/python3/dist-packages/vcf/cparse.pyx -rw-r--r-- root/root 6240 2017-02-15 13:48 ./usr/lib/python3/dist-packages/vcf/filters.py -rw-r--r-- root/root 24390 2020-02-22 16:08 ./usr/lib/python3/dist-packages/vcf/model.py -rw-r--r-- root/root 28057 2020-02-22 16:08 ./usr/lib/python3/dist-packages/vcf/parser.py -rw-r--r-- root/root 4023 2020-02-22 16:08 ./usr/lib/python3/dist-packages/vcf/sample_filter.py -rw-r--r-- root/root 3278 2020-02-22 16:08 ./usr/lib/python3/dist-packages/vcf/utils.py drwxr-xr-x root/root 0 2020-02-22 16:08 ./usr/share/ drwxr-xr-x root/root 0 2020-02-22 16:08 ./usr/share/doc/ drwxr-xr-x root/root 0 2020-02-22 16:08 ./usr/share/doc/python3-vcf/ -rw-r--r-- root/root 954 2020-02-22 16:08 ./usr/share/doc/python3-vcf/changelog.Debian.gz -rw-r--r-- root/root 1904 2020-02-22 16:08 ./usr/share/doc/python3-vcf/copyright +------------------------------------------------------------------------------+ | Post Build | +------------------------------------------------------------------------------+ +------------------------------------------------------------------------------+ | Cleanup | +------------------------------------------------------------------------------+ Purging /<> Not removing build depends: as requested +------------------------------------------------------------------------------+ | Summary | +------------------------------------------------------------------------------+ Build Architecture: armhf Build-Space: 6416 Build-Time: 49 Distribution: focal-proposed Host Architecture: armhf Install-Time: 42 Job: python-pyvcf_0.6.8+git20170215.476169c-7.dsc Machine Architecture: arm64 Package: python-pyvcf Package-Time: 93 Source-Version: 0.6.8+git20170215.476169c-7 Space: 6416 Status: successful Version: 0.6.8+git20170215.476169c-7 -------------------------------------------------------------------------------- Finished at 20200223-1137 Build needed 00:01:33, 6416k disc space RUN: /usr/share/launchpad-buildd/bin/in-target scan-for-processes --backend=chroot --series=focal --arch=armhf PACKAGEBUILD-18751200 Scanning for processes to kill in build PACKAGEBUILD-18751200