https://launchpad.net/ubuntu/+source/cyvcf2/0.11.6-1/+build/18764289 RUN: /usr/share/launchpad-buildd/bin/builder-prep Kernel version: Linux bos02-ppc64el-007 4.4.0-174-generic #204-Ubuntu SMP Wed Jan 29 06:41:38 UTC 2020 ppc64le 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... 25 Feb 23:12:51 ntpdate[1880]: adjust time server 10.211.37.1 offset 0.002230 sec RUN: /usr/share/launchpad-buildd/bin/in-target unpack-chroot --backend=chroot --series=focal --arch=ppc64el PACKAGEBUILD-18764289 --image-type chroot /home/buildd/filecache-default/dc614fa4772464ee6d43f8f857199c7f024663c7 Creating target for build PACKAGEBUILD-18764289 RUN: /usr/share/launchpad-buildd/bin/in-target mount-chroot --backend=chroot --series=focal --arch=ppc64el PACKAGEBUILD-18764289 Starting target for build PACKAGEBUILD-18764289 RUN: /usr/share/launchpad-buildd/bin/in-target override-sources-list --backend=chroot --series=focal --arch=ppc64el PACKAGEBUILD-18764289 '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-18764289 RUN: /usr/share/launchpad-buildd/bin/in-target update-debian-chroot --backend=chroot --series=focal --arch=ppc64el PACKAGEBUILD-18764289 Updating target for build PACKAGEBUILD-18764289 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 ppc64el Packages [950 kB] Get:6 http://ftpmaster.internal/ubuntu focal/main Translation-en [506 kB] Get:7 http://ftpmaster.internal/ubuntu focal/universe ppc64el Packages [8412 kB] Get:8 http://ftpmaster.internal/ubuntu focal/universe Translation-en [5156 kB] Get:9 http://ftpmaster.internal/ubuntu focal-proposed/main ppc64el Packages [137 kB] Get:10 http://ftpmaster.internal/ubuntu focal-proposed/main Translation-en [65.0 kB] Get:11 http://ftpmaster.internal/ubuntu focal-proposed/universe ppc64el Packages [514 kB] Get:12 http://ftpmaster.internal/ubuntu focal-proposed/universe Translation-en [283 kB] Fetched 16.7 MB in 4s (3890 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-common binutils-powerpc64le-linux-gnu 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 libitm1 libjson-c4 libkmod2 liblockfile-bin liblockfile1 liblsan0 liblz4-1 libmount1 libncurses6 libncursesw6 libp11-kit0 libpam-modules libpam-modules-bin libpam-runtime libpam0g libpcre2-8-0 libpng16-16 libquadmath0 libreadline8 libseccomp2 libselinux1 libsemanage-common libsemanage1 libsepol1 libsmartcols1 libsqlite3-0 libss2 libssl1.1 libstdc++-9-dev libstdc++6 libsystemd0 libtasn1-6 libtinfo6 libtsan0 libubsan1 libudev1 libuuid1 libzstd1 linux-libc-dev login logsave lsb-base mawk mount ncurses-base ncurses-bin openssl passwd perl perl-base procps readline-common sensible-utils systemd systemd-sysv sysvinit-utils ubuntu-keyring util-linux zlib1g 116 upgraded, 11 newly installed, 0 to remove and 0 not upgraded. Need to get 67.9 MB of archives. After this operation, 53.1 MB of additional disk space will be used. Get:1 http://ftpmaster.internal/ubuntu focal/main ppc64el libc6-dev ppc64el 2.30-0ubuntu3 [2556 kB] Get:2 http://ftpmaster.internal/ubuntu focal/main ppc64el libc-dev-bin ppc64el 2.30-0ubuntu3 [72.8 kB] Get:3 http://ftpmaster.internal/ubuntu focal-proposed/main ppc64el linux-libc-dev ppc64el 5.4.0-15.18 [1139 kB] Get:4 http://ftpmaster.internal/ubuntu focal/main ppc64el gcc-10-base ppc64el 10-20200222-1ubuntu1 [18.8 kB] Get:5 http://ftpmaster.internal/ubuntu focal/main ppc64el libgcc-s1 ppc64el 10-20200222-1ubuntu1 [30.3 kB] Get:6 http://ftpmaster.internal/ubuntu focal/main ppc64el libgcc1 ppc64el 1:10-20200222-1ubuntu1 [30.2 kB] Get:7 http://ftpmaster.internal/ubuntu focal/main ppc64el libc6 ppc64el 2.30-0ubuntu3 [2700 kB] Get:8 http://ftpmaster.internal/ubuntu focal/main ppc64el base-files ppc64el 11ubuntu2 [60.3 kB] Get:9 http://ftpmaster.internal/ubuntu focal/main ppc64el debianutils ppc64el 4.9.1 [86.6 kB] Get:10 http://ftpmaster.internal/ubuntu focal-proposed/main ppc64el bash ppc64el 5.0-6ubuntu1 [716 kB] Get:11 http://ftpmaster.internal/ubuntu focal/main ppc64el bsdutils ppc64el 1:2.34-0.1ubuntu7 [67.7 kB] Get:12 http://ftpmaster.internal/ubuntu focal/main ppc64el findutils ppc64el 4.7.0-1ubuntu1 [362 kB] Get:13 http://ftpmaster.internal/ubuntu focal/main ppc64el grep ppc64el 3.4-1 [155 kB] Get:14 http://ftpmaster.internal/ubuntu focal/main ppc64el gzip ppc64el 1.10-0ubuntu4 [104 kB] Get:15 http://ftpmaster.internal/ubuntu focal/main ppc64el hostname ppc64el 3.23 [11.8 kB] Get:16 http://ftpmaster.internal/ubuntu focal/main ppc64el login ppc64el 1:4.8.1-1ubuntu1 [224 kB] Get:17 http://ftpmaster.internal/ubuntu focal/main ppc64el ncurses-bin ppc64el 6.1+20191019-1ubuntu1 [179 kB] Get:18 http://ftpmaster.internal/ubuntu focal/main ppc64el perl-modules-5.30 all 5.30.0-9 [2739 kB] Get:19 http://ftpmaster.internal/ubuntu focal/main ppc64el libperl5.30 ppc64el 5.30.0-9 [3914 kB] Get:20 http://ftpmaster.internal/ubuntu focal/main ppc64el perl ppc64el 5.30.0-9 [224 kB] Get:21 http://ftpmaster.internal/ubuntu focal/main ppc64el perl-base ppc64el 5.30.0-9 [1494 kB] Get:22 http://ftpmaster.internal/ubuntu focal/main ppc64el bzip2 ppc64el 1.0.8-2 [36.9 kB] Get:23 http://ftpmaster.internal/ubuntu focal/main ppc64el libbz2-1.0 ppc64el 1.0.8-2 [43.3 kB] Get:24 http://ftpmaster.internal/ubuntu focal-proposed/main ppc64el zlib1g ppc64el 1:1.2.11.dfsg-2ubuntu1 [62.0 kB] Get:25 http://ftpmaster.internal/ubuntu focal/main ppc64el libblkid1 ppc64el 2.34-0.1ubuntu7 [158 kB] Get:26 http://ftpmaster.internal/ubuntu focal/main ppc64el libuuid1 ppc64el 2.34-0.1ubuntu7 [21.7 kB] Get:27 http://ftpmaster.internal/ubuntu focal/main ppc64el libfdisk1 ppc64el 2.34-0.1ubuntu7 [193 kB] Get:28 http://ftpmaster.internal/ubuntu focal/main ppc64el libpcre2-8-0 ppc64el 10.34-7 [203 kB] Get:29 http://ftpmaster.internal/ubuntu focal-proposed/main ppc64el libselinux1 ppc64el 3.0-1build1 [81.0 kB] Get:30 http://ftpmaster.internal/ubuntu focal/main ppc64el libmount1 ppc64el 2.34-0.1ubuntu7 [170 kB] Get:31 http://ftpmaster.internal/ubuntu focal/main ppc64el libncurses6 ppc64el 6.1+20191019-1ubuntu1 [120 kB] Get:32 http://ftpmaster.internal/ubuntu focal/main ppc64el libtinfo6 ppc64el 6.1+20191019-1ubuntu1 [101 kB] Get:33 http://ftpmaster.internal/ubuntu focal/main ppc64el libncursesw6 ppc64el 6.1+20191019-1ubuntu1 [152 kB] Get:34 http://ftpmaster.internal/ubuntu focal/main ppc64el libsmartcols1 ppc64el 2.34-0.1ubuntu7 [113 kB] Get:35 http://ftpmaster.internal/ubuntu focal/main ppc64el fdisk ppc64el 2.34-0.1ubuntu7 [128 kB] Get:36 http://ftpmaster.internal/ubuntu focal/main ppc64el util-linux ppc64el 2.34-0.1ubuntu7 [1064 kB] Get:37 http://ftpmaster.internal/ubuntu focal/main ppc64el libdebconfclient0 ppc64el 0.251ubuntu1 [6088 B] Get:38 http://ftpmaster.internal/ubuntu focal/main ppc64el base-passwd ppc64el 3.5.47 [50.2 kB] Get:39 http://ftpmaster.internal/ubuntu focal/main ppc64el libc-bin ppc64el 2.30-0ubuntu3 [626 kB] Get:40 http://ftpmaster.internal/ubuntu focal/main ppc64el ncurses-base all 6.1+20191019-1ubuntu1 [17.9 kB] Get:41 http://ftpmaster.internal/ubuntu focal/main ppc64el lsb-base all 11.1.0ubuntu2 [12.1 kB] Get:42 http://ftpmaster.internal/ubuntu focal/main ppc64el sysvinit-utils ppc64el 2.96-2.1ubuntu1 [22.8 kB] Get:43 http://ftpmaster.internal/ubuntu focal/main ppc64el libgpg-error0 ppc64el 1.37-1 [69.0 kB] Get:44 http://ftpmaster.internal/ubuntu focal/main ppc64el libgcrypt20 ppc64el 1.8.5-5ubuntu1 [439 kB] Get:45 http://ftpmaster.internal/ubuntu focal/main ppc64el liblz4-1 ppc64el 1.9.2-2 [62.0 kB] Get:46 http://ftpmaster.internal/ubuntu focal/main ppc64el libstdc++6 ppc64el 10-20200222-1ubuntu1 [546 kB] Get:47 http://ftpmaster.internal/ubuntu focal-proposed/main ppc64el systemd-sysv ppc64el 244.3-1ubuntu1 [9376 B] Get:48 http://ftpmaster.internal/ubuntu focal/main ppc64el libacl1 ppc64el 2.2.53-5ubuntu1 [20.3 kB] Get:49 http://ftpmaster.internal/ubuntu focal/main ppc64el libapparmor1 ppc64el 2.13.3-7ubuntu2 [37.9 kB] Get:50 http://ftpmaster.internal/ubuntu focal/main ppc64el libaudit-common all 1:2.8.5-2ubuntu6 [3936 B] Get:51 http://ftpmaster.internal/ubuntu focal/main ppc64el libcap-ng0 ppc64el 0.7.9-2.1build1 [11.7 kB] Get:52 http://ftpmaster.internal/ubuntu focal/main ppc64el libaudit1 ppc64el 1:2.8.5-2ubuntu6 [42.5 kB] Get:53 http://ftpmaster.internal/ubuntu focal-proposed/main ppc64el libcap2 ppc64el 1:2.32-1 [17.3 kB] Get:54 http://ftpmaster.internal/ubuntu focal-proposed/main ppc64el libudev1 ppc64el 244.3-1ubuntu1 [89.5 kB] Get:55 http://ftpmaster.internal/ubuntu focal/main ppc64el libdevmapper1.02.1 ppc64el 2:1.02.167-1ubuntu1 [154 kB] Get:56 http://ftpmaster.internal/ubuntu focal/main ppc64el libjson-c4 ppc64el 0.13.1+dfsg-7 [33.2 kB] Get:57 http://ftpmaster.internal/ubuntu focal/main ppc64el libssl1.1 ppc64el 1.1.1d-2ubuntu3 [1359 kB] Get:58 http://ftpmaster.internal/ubuntu focal/main ppc64el libcryptsetup12 ppc64el 2:2.2.2-3ubuntu1 [213 kB] Get:59 http://ftpmaster.internal/ubuntu focal/main ppc64el libnettle7 ppc64el 3.5.1+really3.5.1-2 [145 kB] Get:60 http://ftpmaster.internal/ubuntu focal/main ppc64el libgmp10 ppc64el 2:6.2.0+dfsg-4 [235 kB] Get:61 http://ftpmaster.internal/ubuntu focal/main ppc64el libhogweed5 ppc64el 3.5.1+really3.5.1-2 [140 kB] Get:62 http://ftpmaster.internal/ubuntu focal/main ppc64el libffi7 ppc64el 3.3-3 [21.8 kB] Get:63 http://ftpmaster.internal/ubuntu focal/main ppc64el libp11-kit0 ppc64el 0.23.20-1build1 [201 kB] Get:64 http://ftpmaster.internal/ubuntu focal/main ppc64el libtasn1-6 ppc64el 4.16.0-2 [45.3 kB] Get:65 http://ftpmaster.internal/ubuntu focal/main ppc64el libgnutls30 ppc64el 3.6.11.1-2ubuntu2 [774 kB] Get:66 http://ftpmaster.internal/ubuntu focal/main ppc64el libip4tc2 ppc64el 1.8.4-3ubuntu1 [21.7 kB] Get:67 http://ftpmaster.internal/ubuntu focal/main ppc64el libkmod2 ppc64el 27-1ubuntu1 [51.7 kB] Get:68 http://ftpmaster.internal/ubuntu focal/main ppc64el libpam0g ppc64el 1.3.1-5ubuntu4 [60.8 kB] Get:69 http://ftpmaster.internal/ubuntu focal/main ppc64el libseccomp2 ppc64el 2.4.2-2ubuntu3 [49.2 kB] Get:70 http://ftpmaster.internal/ubuntu focal/main ppc64el mount ppc64el 2.34-0.1ubuntu7 [122 kB] Get:71 http://ftpmaster.internal/ubuntu focal-proposed/main ppc64el systemd ppc64el 244.3-1ubuntu1 [4411 kB] Get:72 http://ftpmaster.internal/ubuntu focal-proposed/main ppc64el libsystemd0 ppc64el 244.3-1ubuntu1 [301 kB] Get:73 http://ftpmaster.internal/ubuntu focal/main ppc64el libzstd1 ppc64el 1.4.4+dfsg-3 [298 kB] Get:74 http://ftpmaster.internal/ubuntu focal/main ppc64el libapt-pkg5.90 ppc64el 1.9.10 [916 kB] Get:75 http://ftpmaster.internal/ubuntu focal/main ppc64el gpgv ppc64el 2.2.17-3ubuntu1 [232 kB] Get:76 http://ftpmaster.internal/ubuntu focal/main ppc64el ubuntu-keyring all 2020.02.11.1 [22.3 kB] Get:77 http://ftpmaster.internal/ubuntu focal/main ppc64el apt ppc64el 1.9.10 [1310 kB] Get:78 http://ftpmaster.internal/ubuntu focal/main ppc64el libpam-modules-bin ppc64el 1.3.1-5ubuntu4 [42.5 kB] Get:79 http://ftpmaster.internal/ubuntu focal/main ppc64el libpam-modules ppc64el 1.3.1-5ubuntu4 [282 kB] Get:80 http://ftpmaster.internal/ubuntu focal/main ppc64el logsave ppc64el 1.45.5-2ubuntu1 [10.7 kB] Get:81 http://ftpmaster.internal/ubuntu focal/main ppc64el libext2fs2 ppc64el 1.45.5-2ubuntu1 [214 kB] Get:82 http://ftpmaster.internal/ubuntu focal/main ppc64el e2fsprogs ppc64el 1.45.5-2ubuntu1 [556 kB] Get:83 http://ftpmaster.internal/ubuntu focal/main ppc64el libattr1 ppc64el 1:2.4.48-5 [13.6 kB] Get:84 http://ftpmaster.internal/ubuntu focal/main ppc64el libpam-runtime all 1.3.1-5ubuntu4 [37.3 kB] Get:85 http://ftpmaster.internal/ubuntu focal/main ppc64el libsepol1 ppc64el 3.0-1 [284 kB] Get:86 http://ftpmaster.internal/ubuntu focal/main ppc64el libsemanage-common all 3.0-1build1 [9876 B] Get:87 http://ftpmaster.internal/ubuntu focal/main ppc64el libsemanage1 ppc64el 3.0-1build1 [95.3 kB] Get:88 http://ftpmaster.internal/ubuntu focal/main ppc64el passwd ppc64el 1:4.8.1-1ubuntu1 [805 kB] Get:89 http://ftpmaster.internal/ubuntu focal/main ppc64el libgomp1 ppc64el 10-20200222-1ubuntu1 [107 kB] Get:90 http://ftpmaster.internal/ubuntu focal/main ppc64el libitm1 ppc64el 10-20200222-1ubuntu1 [28.7 kB] Get:91 http://ftpmaster.internal/ubuntu focal/main ppc64el libatomic1 ppc64el 10-20200222-1ubuntu1 [9876 B] Get:92 http://ftpmaster.internal/ubuntu focal-proposed/main ppc64el libasan5 ppc64el 9.2.1-30ubuntu1 [408 kB] Get:93 http://ftpmaster.internal/ubuntu focal/main ppc64el liblsan0 ppc64el 10-20200222-1ubuntu1 [157 kB] Get:94 http://ftpmaster.internal/ubuntu focal/main ppc64el libtsan0 ppc64el 10-20200222-1ubuntu1 [326 kB] Get:95 http://ftpmaster.internal/ubuntu focal/main ppc64el libubsan1 ppc64el 10-20200222-1ubuntu1 [149 kB] Get:96 http://ftpmaster.internal/ubuntu focal/main ppc64el libquadmath0 ppc64el 10-20200222-1ubuntu1 [153 kB] Get:97 http://ftpmaster.internal/ubuntu focal-proposed/main ppc64el g++-9 ppc64el 9.2.1-30ubuntu1 [7743 kB] Get:98 http://ftpmaster.internal/ubuntu focal-proposed/main ppc64el gcc-9 ppc64el 9.2.1-30ubuntu1 [7546 kB] Get:99 http://ftpmaster.internal/ubuntu focal-proposed/main ppc64el libstdc++-9-dev ppc64el 9.2.1-30ubuntu1 [1748 kB] Get:100 http://ftpmaster.internal/ubuntu focal-proposed/main ppc64el libgcc-9-dev ppc64el 9.2.1-30ubuntu1 [1261 kB] Get:101 http://ftpmaster.internal/ubuntu focal/main ppc64el libisl22 ppc64el 0.22.1-1 [691 kB] Get:102 http://ftpmaster.internal/ubuntu focal/main ppc64el libcc1-0 ppc64el 10-20200222-1ubuntu1 [41.8 kB] Get:103 http://ftpmaster.internal/ubuntu focal-proposed/main ppc64el binutils-powerpc64le-linux-gnu ppc64el 2.34-3ubuntu1 [1745 kB] Get:104 http://ftpmaster.internal/ubuntu focal-proposed/main ppc64el libbinutils ppc64el 2.34-3ubuntu1 [516 kB] Get:105 http://ftpmaster.internal/ubuntu focal-proposed/main ppc64el binutils ppc64el 2.34-3ubuntu1 [3368 B] Get:106 http://ftpmaster.internal/ubuntu focal-proposed/main ppc64el binutils-common ppc64el 2.34-3ubuntu1 [207 kB] Get:107 http://ftpmaster.internal/ubuntu focal-proposed/main ppc64el libctf-nobfd0 ppc64el 2.34-3ubuntu1 [53.2 kB] Get:108 http://ftpmaster.internal/ubuntu focal-proposed/main ppc64el libctf0 ppc64el 2.34-3ubuntu1 [52.8 kB] Get:109 http://ftpmaster.internal/ubuntu focal-proposed/main ppc64el cpp-9 ppc64el 9.2.1-30ubuntu1 [6833 kB] Get:110 http://ftpmaster.internal/ubuntu focal-proposed/main ppc64el gcc-9-base ppc64el 9.2.1-30ubuntu1 [19.1 kB] Get:111 http://ftpmaster.internal/ubuntu focal/main ppc64el libcom-err2 ppc64el 1.45.5-2ubuntu1 [9972 B] Get:112 http://ftpmaster.internal/ubuntu focal/main ppc64el libss2 ppc64el 1.45.5-2ubuntu1 [12.5 kB] Get:113 http://ftpmaster.internal/ubuntu focal/main ppc64el mawk ppc64el 1.3.4.20200120-2 [103 kB] Get:114 http://ftpmaster.internal/ubuntu focal-proposed/main ppc64el libprocps8 ppc64el 2:3.3.16-1ubuntu1 [36.3 kB] Get:115 http://ftpmaster.internal/ubuntu focal-proposed/main ppc64el procps ppc64el 2:3.3.16-1ubuntu1 [250 kB] Get:116 http://ftpmaster.internal/ubuntu focal/main ppc64el sensible-utils all 0.0.12+nmu1 [15.0 kB] Get:117 http://ftpmaster.internal/ubuntu focal-proposed/main ppc64el readline-common all 8.0-4 [53.5 kB] Get:118 http://ftpmaster.internal/ubuntu focal-proposed/main ppc64el libreadline8 ppc64el 8.0-4 [143 kB] Get:119 http://ftpmaster.internal/ubuntu focal/main ppc64el libsqlite3-0 ppc64el 3.31.1-1ubuntu1 [577 kB] Get:120 http://ftpmaster.internal/ubuntu focal/main ppc64el openssl ppc64el 1.1.1d-2ubuntu3 [618 kB] Get:121 http://ftpmaster.internal/ubuntu focal/main ppc64el libpng16-16 ppc64el 1.6.37-2 [208 kB] Get:122 http://ftpmaster.internal/ubuntu focal/main ppc64el libassuan0 ppc64el 2.5.3-7ubuntu2 [38.3 kB] Get:123 http://ftpmaster.internal/ubuntu focal/main ppc64el gpg ppc64el 2.2.17-3ubuntu1 [532 kB] Get:124 http://ftpmaster.internal/ubuntu focal/main ppc64el gpgconf ppc64el 2.2.17-3ubuntu1 [144 kB] Get:125 http://ftpmaster.internal/ubuntu focal/main ppc64el gpg-agent ppc64el 2.2.17-3ubuntu1 [267 kB] Get:126 http://ftpmaster.internal/ubuntu focal/main ppc64el liblockfile-bin ppc64el 1.16-1.1 [12.1 kB] Get:127 http://ftpmaster.internal/ubuntu focal/main ppc64el liblockfile1 ppc64el 1.16-1.1 [7236 B] debconf: delaying package configuration, since apt-utils is not installed Fetched 67.9 MB in 1s (78.4 MB/s) (Reading database ... 12684 files and directories currently installed.) Preparing to unpack .../libc6-dev_2.30-0ubuntu3_ppc64el.deb ... Unpacking libc6-dev:ppc64el (2.30-0ubuntu3) over (2.30-0ubuntu2) ... Preparing to unpack .../libc-dev-bin_2.30-0ubuntu3_ppc64el.deb ... Unpacking libc-dev-bin (2.30-0ubuntu3) over (2.30-0ubuntu2) ... Preparing to unpack .../linux-libc-dev_5.4.0-15.18_ppc64el.deb ... Unpacking linux-libc-dev:ppc64el (5.4.0-15.18) over (5.3.0-18.19) ... Selecting previously unselected package gcc-10-base:ppc64el. Preparing to unpack .../gcc-10-base_10-20200222-1ubuntu1_ppc64el.deb ... Unpacking gcc-10-base:ppc64el (10-20200222-1ubuntu1) ... Setting up gcc-10-base:ppc64el (10-20200222-1ubuntu1) ... Selecting previously unselected package libgcc-s1:ppc64el. (Reading database ... 12694 files and directories currently installed.) Preparing to unpack .../libgcc-s1_10-20200222-1ubuntu1_ppc64el.deb ... Unpacking libgcc-s1:ppc64el (10-20200222-1ubuntu1) ... Replacing files in old package libgcc1:ppc64el (1:9.2.1-9ubuntu2) ... 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Setting up libatomic1:ppc64el (10-20200222-1ubuntu1) ... Setting up libss2:ppc64el (1.45.5-2ubuntu1) ... Setting up logsave (1.45.5-2ubuntu1) ... Setting up libubsan1:ppc64el (10-20200222-1ubuntu1) ... Setting up libdevmapper1.02.1:ppc64el (2:1.02.167-1ubuntu1) ... Setting up mount (2.34-0.1ubuntu7) ... Setting up sensible-utils (0.0.12+nmu1) ... Setting up libperl5.30:ppc64el (5.30.0-9) ... Setting up libisl22:ppc64el (0.22.1-1) ... Setting up mawk (1.3.4.20200120-2) ... Setting up liblockfile1:ppc64el (1.16-1.1) ... Setting up libjson-c4:ppc64el (0.13.1+dfsg-7) ... Setting up libbinutils:ppc64el (2.34-3ubuntu1) ... Setting up libc-dev-bin (2.30-0ubuntu3) ... Setting up openssl (1.1.1d-2ubuntu3) ... Setting up readline-common (8.0-4) ... Setting up libcc1-0:ppc64el (10-20200222-1ubuntu1) ... Setting up liblsan0:ppc64el (10-20200222-1ubuntu1) ... Setting up libprocps8:ppc64el (2:3.3.16-1ubuntu1) ... Setting up libitm1:ppc64el (10-20200222-1ubuntu1) ... Setting up libkmod2:ppc64el (27-1ubuntu1) ... Setting up gcc-9-base:ppc64el (9.2.1-30ubuntu1) ... Setting up libtsan0:ppc64el (10-20200222-1ubuntu1) ... Setting up libctf0:ppc64el (2.34-3ubuntu1) ... Setting up libreadline8:ppc64el (8.0-4) ... Setting up e2fsprogs (1.45.5-2ubuntu1) ... Setting up libasan5:ppc64el (9.2.1-30ubuntu1) ... Setting up perl (5.30.0-9) ... Setting up procps (2:3.3.16-1ubuntu1) ... Removing obsolete conffile /etc/sysctl.d/protect-links.conf ... Removing obsolete conffile /etc/sysctl.d/10-link-restrictions.conf ... Setting up gpgconf (2.2.17-3ubuntu1) ... Setting up cpp-9 (9.2.1-30ubuntu1) ... Setting up libc6-dev:ppc64el (2.30-0ubuntu3) ... Setting up libcryptsetup12:ppc64el (2:2.2.2-3ubuntu1) ... Setting up binutils-powerpc64le-linux-gnu (2.34-3ubuntu1) ... Setting up gpg (2.2.17-3ubuntu1) ... 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 systemd (244.3-1ubuntu1) ... Installing new version of config file /etc/dhcp/dhclient-enter-hooks.d/resolved ... Installing new version of config file /etc/systemd/networkd.conf ... Installing new version of config file /etc/systemd/system.conf ... Installing new version of config file /etc/systemd/user.conf ... Initializing machine ID from random generator. Setting up binutils (2.34-3ubuntu1) ... Setting up libgcc-9-dev:ppc64el (9.2.1-30ubuntu1) ... Setting up gcc-9 (9.2.1-30ubuntu1) ... Setting up systemd-sysv (244.3-1ubuntu1) ... Setting up libstdc++-9-dev:ppc64el (9.2.1-30ubuntu1) ... Setting up g++-9 (9.2.1-30ubuntu1) ... Processing triggers for libc-bin (2.30-0ubuntu3) ... RUN: /usr/share/launchpad-buildd/bin/sbuild-package PACKAGEBUILD-18764289 ppc64el focal-proposed -c chroot:build-PACKAGEBUILD-18764289 --arch=ppc64el --dist=focal-proposed --nolog cyvcf2_0.11.6-1.dsc Initiating build PACKAGEBUILD-18764289 with 4 jobs across 4 processor cores. Kernel reported to sbuild: 4.4.0-174-generic #204-Ubuntu SMP Wed Jan 29 06:41:38 UTC 2020 ppc64le sbuild (Debian sbuild) 0.67.0 (26 Dec 2015) on bos02-ppc64el-007.buildd +==============================================================================+ | cyvcf2 0.11.6-1 (ppc64el) 25 Feb 2020 23:13 | +==============================================================================+ Package: cyvcf2 Version: 0.11.6-1 Source Version: 0.11.6-1 Distribution: focal-proposed Machine Architecture: ppc64el Host Architecture: ppc64el Build Architecture: ppc64el I: NOTICE: Log filtering will replace 'build/cyvcf2-IvwkH0/cyvcf2-0.11.6' with '<>' I: NOTICE: Log filtering will replace 'build/cyvcf2-IvwkH0' with '<>' I: NOTICE: Log filtering will replace 'home/buildd/build-PACKAGEBUILD-18764289/chroot-autobuild' with '<>' +------------------------------------------------------------------------------+ | Fetch source files | +------------------------------------------------------------------------------+ Local sources ------------- cyvcf2_0.11.6-1.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-snqCPu/apt_archive/sbuild-build-depends-core-dummy.deb'. Ign:1 copy:/<>/resolver-snqCPu/apt_archive ./ InRelease Get:2 copy:/<>/resolver-snqCPu/apt_archive ./ Release [2119 B] Ign:3 copy:/<>/resolver-snqCPu/apt_archive ./ Release.gpg Get:4 copy:/<>/resolver-snqCPu/apt_archive ./ Sources [214 B] Get:5 copy:/<>/resolver-snqCPu/apt_archive ./ Packages [530 B] Fetched 2863 B in 0s (166 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 856 B of archives. After this operation, 0 B of additional disk space will be used. Get:1 copy:/<>/resolver-snqCPu/apt_archive ./ sbuild-build-depends-core-dummy 0.invalid.0 [856 B] debconf: delaying package configuration, since apt-utils is not installed Fetched 856 B in 0s (0 B/s) Selecting previously unselected package sbuild-build-depends-core-dummy. (Reading database ... 14620 files and directories currently installed.) Preparing to unpack .../sbuild-build-depends-core-dummy_0.invalid.0_ppc64el.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, zlib1g-dev, cython3, python3-setuptools, python3-all-dev, python3-numpy, python3-coloredlogs, python3-click, python3-nose, libssl-dev, libcurl4-gnutls-dev | libcurl4-openssl-dev, libhts-dev, libbz2-dev, help2man Filtered Build-Depends: debhelper-compat (= 12), dh-python, zlib1g-dev, cython3, python3-setuptools, python3-all-dev, python3-numpy, python3-coloredlogs, python3-click, python3-nose, libssl-dev, libcurl4-gnutls-dev | libcurl4-openssl-dev, libhts-dev, libbz2-dev, help2man dpkg-deb: building package 'sbuild-build-depends-cyvcf2-dummy' in '/<>/resolver-fUDy6s/apt_archive/sbuild-build-depends-cyvcf2-dummy.deb'. Ign:1 copy:/<>/resolver-fUDy6s/apt_archive ./ InRelease Get:2 copy:/<>/resolver-fUDy6s/apt_archive ./ Release [2119 B] Ign:3 copy:/<>/resolver-fUDy6s/apt_archive ./ Release.gpg Get:4 copy:/<>/resolver-fUDy6s/apt_archive ./ Sources [319 B] Get:5 copy:/<>/resolver-fUDy6s/apt_archive ./ Packages [635 B] Fetched 3073 B in 0s (193 kB/s) Reading package lists... Reading package lists... +------------------------------------------------------------------------------+ | Install cyvcf2 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 help2man intltool-debian libarchive-zip-perl libasn1-8-heimdal libblas3 libbrotli1 libbsd0 libbz2-dev libcroco3 libcurl3-gnutls libcurl4-gnutls-dev libdebhelper-perl libdeflate0 libelf1 libexpat1 libexpat1-dev libfile-stripnondeterminism-perl libgfortran5 libglib2.0-0 libgssapi-krb5-2 libgssapi3-heimdal libhcrypto4-heimdal libheimbase1-heimdal libheimntlm0-heimdal libhts-dev libhts3 libhx509-5-heimdal libicu65 libk5crypto3 libkeyutils1 libkrb5-26-heimdal libkrb5-3 libkrb5support0 liblapack3 libldap-2.4-2 libldap-common liblocale-gettext-perl liblzma-dev 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 libssl-dev libsub-override-perl libtool libuchardet0 libwind0-heimdal libxml2 m4 man-db mime-support po-debconf python3 python3-all python3-all-dev python3-click python3-colorama python3-coloredlogs python3-dev python3-distutils python3-humanfriendly python3-lib2to3 python3-minimal python3-nose python3-numpy python3-pkg-resources python3-setuptools 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 libcurl4-doc libgnutls28-dev libidn11-dev libkrb5-dev libldap2-dev librtmp-dev libssh2-1-dev pkg-config krb5-doc krb5-user liblzma-doc libssl-doc libtool-doc gfortran | fortran95-compiler gcj-jdk m4-doc apparmor less www-browser libmail-box-perl python3-doc python3-tk python3-venv python-nose-doc gfortran python-numpy-doc python3-pytest python3-numpy-dbg python-setuptools-doc python3.8-venv python3.8-doc binfmt-support Recommended packages: curl | wget | lynx bzip2-doc 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 help2man intltool-debian libarchive-zip-perl libasn1-8-heimdal libblas3 libbrotli1 libbsd0 libbz2-dev libcroco3 libcurl3-gnutls libcurl4-gnutls-dev libdebhelper-perl libdeflate0 libelf1 libexpat1 libexpat1-dev libfile-stripnondeterminism-perl libgfortran5 libglib2.0-0 libgssapi-krb5-2 libgssapi3-heimdal libhcrypto4-heimdal libheimbase1-heimdal libheimntlm0-heimdal libhts-dev libhts3 libhx509-5-heimdal libicu65 libk5crypto3 libkeyutils1 libkrb5-26-heimdal libkrb5-3 libkrb5support0 liblapack3 libldap-2.4-2 libldap-common liblocale-gettext-perl liblzma-dev 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 libssl-dev libsub-override-perl libtool libuchardet0 libwind0-heimdal libxml2 m4 man-db mime-support po-debconf python3 python3-all python3-all-dev python3-click python3-colorama python3-coloredlogs python3-dev python3-distutils python3-humanfriendly python3-lib2to3 python3-minimal python3-nose python3-numpy python3-pkg-resources python3-setuptools python3.8 python3.8-dev python3.8-minimal sbuild-build-depends-cyvcf2-dummy zlib1g-dev 0 upgraded, 102 newly installed, 0 to remove and 0 not upgraded. Need to get 45.3 MB of archives. After this operation, 205 MB of additional disk space will be used. Get:1 copy:/<>/resolver-fUDy6s/apt_archive ./ sbuild-build-depends-cyvcf2-dummy 0.invalid.0 [968 B] Get:2 http://ftpmaster.internal/ubuntu focal/main ppc64el liblocale-gettext-perl ppc64el 1.07-4 [17.5 kB] Get:3 http://ftpmaster.internal/ubuntu focal-proposed/main ppc64el libpython3.8-minimal ppc64el 3.8.2-1 [708 kB] Get:4 http://ftpmaster.internal/ubuntu focal/main ppc64el libexpat1 ppc64el 2.2.9-1 [77.4 kB] Get:5 http://ftpmaster.internal/ubuntu focal-proposed/main ppc64el python3.8-minimal ppc64el 3.8.2-1 [2148 kB] Get:6 http://ftpmaster.internal/ubuntu focal/main ppc64el python3-minimal ppc64el 3.8.0-3ubuntu1 [23.3 kB] Get:7 http://ftpmaster.internal/ubuntu focal/main ppc64el mime-support all 3.64ubuntu1 [30.6 kB] Get:8 http://ftpmaster.internal/ubuntu focal/main ppc64el libmpdec2 ppc64el 2.4.2-2 [86.8 kB] Get:9 http://ftpmaster.internal/ubuntu focal-proposed/main ppc64el libpython3.8-stdlib ppc64el 3.8.2-1 [1715 kB] Get:10 http://ftpmaster.internal/ubuntu focal-proposed/main ppc64el python3.8 ppc64el 3.8.2-1 [364 kB] Get:11 http://ftpmaster.internal/ubuntu focal/main ppc64el libpython3-stdlib ppc64el 3.8.0-3ubuntu1 [6872 B] Get:12 http://ftpmaster.internal/ubuntu focal/main ppc64el python3 ppc64el 3.8.0-3ubuntu1 [47.6 kB] Get:13 http://ftpmaster.internal/ubuntu focal/main ppc64el libbsd0 ppc64el 0.10.0-1 [55.1 kB] Get:14 http://ftpmaster.internal/ubuntu focal/main ppc64el bsdmainutils ppc64el 11.1.2ubuntu2 [185 kB] Get:15 http://ftpmaster.internal/ubuntu focal/main ppc64el libuchardet0 ppc64el 0.0.6-3 [67.7 kB] Get:16 http://ftpmaster.internal/ubuntu focal/main ppc64el groff-base ppc64el 1.22.4-4 [941 kB] Get:17 http://ftpmaster.internal/ubuntu focal/main ppc64el libpipeline1 ppc64el 1.5.2-2build1 [28.9 kB] Get:18 http://ftpmaster.internal/ubuntu focal/main ppc64el man-db ppc64el 2.9.0-2 [1145 kB] Get:19 http://ftpmaster.internal/ubuntu focal/main ppc64el libmagic-mgc ppc64el 1:5.38-4 [218 kB] Get:20 http://ftpmaster.internal/ubuntu focal/main ppc64el libmagic1 ppc64el 1:5.38-4 [93.1 kB] Get:21 http://ftpmaster.internal/ubuntu focal/main ppc64el file ppc64el 1:5.38-4 [24.2 kB] Get:22 http://ftpmaster.internal/ubuntu focal/main ppc64el libelf1 ppc64el 0.176-1.1build1 [53.4 kB] Get:23 http://ftpmaster.internal/ubuntu focal/main ppc64el libglib2.0-0 ppc64el 2.63.5-2 [1381 kB] Get:24 http://ftpmaster.internal/ubuntu focal-proposed/main ppc64el libicu65 ppc64el 65.1-1ubuntu2 [8695 kB] Get:25 http://ftpmaster.internal/ubuntu focal-proposed/main ppc64el libxml2 ppc64el 2.9.10+dfsg-1ubuntu3 [670 kB] Get:26 http://ftpmaster.internal/ubuntu focal-proposed/main ppc64el python3-pkg-resources all 45.2.0-1 [130 kB] Get:27 http://ftpmaster.internal/ubuntu focal/main ppc64el gettext-base ppc64el 0.19.8.1-10 [52.7 kB] Get:28 http://ftpmaster.internal/ubuntu focal/main ppc64el libkrb5support0 ppc64el 1.17-6ubuntu4 [34.9 kB] Get:29 http://ftpmaster.internal/ubuntu focal/main ppc64el libk5crypto3 ppc64el 1.17-6ubuntu4 [102 kB] Get:30 http://ftpmaster.internal/ubuntu focal/main ppc64el libkeyutils1 ppc64el 1.6-6ubuntu1 [11.3 kB] Get:31 http://ftpmaster.internal/ubuntu focal/main ppc64el libkrb5-3 ppc64el 1.17-6ubuntu4 [371 kB] Get:32 http://ftpmaster.internal/ubuntu focal/main ppc64el libgssapi-krb5-2 ppc64el 1.17-6ubuntu4 [135 kB] Get:33 http://ftpmaster.internal/ubuntu focal/main ppc64el libpsl5 ppc64el 0.20.2-2 [52.2 kB] Get:34 http://ftpmaster.internal/ubuntu focal/main ppc64el libsigsegv2 ppc64el 2.12-2 [13.9 kB] Get:35 http://ftpmaster.internal/ubuntu focal/main ppc64el m4 ppc64el 1.4.18-4 [210 kB] Get:36 http://ftpmaster.internal/ubuntu focal/main ppc64el autoconf all 2.69-11.1 [321 kB] Get:37 http://ftpmaster.internal/ubuntu focal/main ppc64el autotools-dev all 20180224.1 [39.6 kB] Get:38 http://ftpmaster.internal/ubuntu focal/main ppc64el automake all 1:1.16.1-4ubuntu6 [522 kB] Get:39 http://ftpmaster.internal/ubuntu focal/main ppc64el autopoint all 0.19.8.1-10 [412 kB] Get:40 http://ftpmaster.internal/ubuntu focal/universe ppc64el cython3 ppc64el 0.29.14-0.1ubuntu3 [1363 kB] Get:41 http://ftpmaster.internal/ubuntu focal/main ppc64el libtool all 2.4.6-13 [161 kB] Get:42 http://ftpmaster.internal/ubuntu focal/main ppc64el dh-autoreconf all 19 [16.1 kB] Get:43 http://ftpmaster.internal/ubuntu focal/main ppc64el libdebhelper-perl all 12.9ubuntu1 [62.0 kB] Get:44 http://ftpmaster.internal/ubuntu focal/main ppc64el libarchive-zip-perl all 1.67-1 [90.4 kB] Get:45 http://ftpmaster.internal/ubuntu focal/main ppc64el libsub-override-perl all 0.09-2 [9532 B] Get:46 http://ftpmaster.internal/ubuntu focal/main ppc64el libfile-stripnondeterminism-perl all 1.6.3-2 [16.0 kB] Get:47 http://ftpmaster.internal/ubuntu focal/main ppc64el dh-strip-nondeterminism all 1.6.3-2 [5228 B] Get:48 http://ftpmaster.internal/ubuntu focal/main ppc64el dwz ppc64el 0.13-5 [136 kB] Get:49 http://ftpmaster.internal/ubuntu focal/main ppc64el libcroco3 ppc64el 0.6.13-1 [92.1 kB] Get:50 http://ftpmaster.internal/ubuntu focal/main ppc64el gettext ppc64el 0.19.8.1-10 [959 kB] Get:51 http://ftpmaster.internal/ubuntu focal/main ppc64el intltool-debian all 0.35.0+20060710.5 [24.9 kB] Get:52 http://ftpmaster.internal/ubuntu focal/main ppc64el po-debconf all 1.0.21 [233 kB] Get:53 http://ftpmaster.internal/ubuntu focal/main ppc64el debhelper all 12.9ubuntu1 [869 kB] Get:54 http://ftpmaster.internal/ubuntu focal-proposed/main ppc64el python3-lib2to3 all 3.8.0-1ubuntu1 [74.1 kB] Get:55 http://ftpmaster.internal/ubuntu focal-proposed/main ppc64el python3-distutils all 3.8.0-1ubuntu1 [140 kB] Get:56 http://ftpmaster.internal/ubuntu focal/main ppc64el dh-python all 4.20191017ubuntu7 [87.1 kB] Get:57 http://ftpmaster.internal/ubuntu focal/universe ppc64el help2man ppc64el 1.47.12 [173 kB] Get:58 http://ftpmaster.internal/ubuntu focal/main ppc64el libroken18-heimdal ppc64el 7.7.0+dfsg-1 [46.5 kB] Get:59 http://ftpmaster.internal/ubuntu focal/main ppc64el libasn1-8-heimdal ppc64el 7.7.0+dfsg-1 [176 kB] Get:60 http://ftpmaster.internal/ubuntu focal/main ppc64el libblas3 ppc64el 3.9.0-1 [211 kB] Get:61 http://ftpmaster.internal/ubuntu focal/main ppc64el libbrotli1 ppc64el 1.0.7-6build1 [292 kB] Get:62 http://ftpmaster.internal/ubuntu focal/main ppc64el libbz2-dev ppc64el 1.0.8-2 [43.2 kB] Get:63 http://ftpmaster.internal/ubuntu focal/main ppc64el libheimbase1-heimdal ppc64el 7.7.0+dfsg-1 [32.5 kB] Get:64 http://ftpmaster.internal/ubuntu focal/main ppc64el libhcrypto4-heimdal ppc64el 7.7.0+dfsg-1 [108 kB] Get:65 http://ftpmaster.internal/ubuntu focal/main ppc64el libwind0-heimdal ppc64el 7.7.0+dfsg-1 [49.0 kB] Get:66 http://ftpmaster.internal/ubuntu focal/main ppc64el libhx509-5-heimdal ppc64el 7.7.0+dfsg-1 [120 kB] Get:67 http://ftpmaster.internal/ubuntu focal/main ppc64el libkrb5-26-heimdal ppc64el 7.7.0+dfsg-1 [234 kB] Get:68 http://ftpmaster.internal/ubuntu focal/main ppc64el libheimntlm0-heimdal ppc64el 7.7.0+dfsg-1 [17.4 kB] Get:69 http://ftpmaster.internal/ubuntu focal/main ppc64el libgssapi3-heimdal ppc64el 7.7.0+dfsg-1 [105 kB] Get:70 http://ftpmaster.internal/ubuntu focal/main ppc64el libsasl2-modules-db ppc64el 2.1.27+dfsg-2 [16.9 kB] Get:71 http://ftpmaster.internal/ubuntu focal/main ppc64el libsasl2-2 ppc64el 2.1.27+dfsg-2 [60.2 kB] Get:72 http://ftpmaster.internal/ubuntu focal/main ppc64el libldap-common all 2.4.49+dfsg-1ubuntu1 [17.2 kB] Get:73 http://ftpmaster.internal/ubuntu focal/main ppc64el libldap-2.4-2 ppc64el 2.4.49+dfsg-1ubuntu1 [176 kB] Get:74 http://ftpmaster.internal/ubuntu focal/main ppc64el libnghttp2-14 ppc64el 1.40.0-1 [91.7 kB] Get:75 http://ftpmaster.internal/ubuntu focal/main ppc64el librtmp1 ppc64el 2.4+20151223.gitfa8646d.1-2build1 [59.3 kB] Get:76 http://ftpmaster.internal/ubuntu focal/main ppc64el libssh-4 ppc64el 0.9.3-2ubuntu1 [195 kB] Get:77 http://ftpmaster.internal/ubuntu focal/main ppc64el libcurl3-gnutls ppc64el 7.68.0-1ubuntu1 [255 kB] Get:78 http://ftpmaster.internal/ubuntu focal/main ppc64el libcurl4-gnutls-dev ppc64el 7.68.0-1ubuntu1 [358 kB] Get:79 http://ftpmaster.internal/ubuntu focal/universe ppc64el libdeflate0 ppc64el 1.5-3 [63.7 kB] Get:80 http://ftpmaster.internal/ubuntu focal/main ppc64el libexpat1-dev ppc64el 2.2.9-1 [121 kB] Get:81 http://ftpmaster.internal/ubuntu focal/main ppc64el libgfortran5 ppc64el 10-20200222-1ubuntu1 [684 kB] Get:82 http://ftpmaster.internal/ubuntu focal/universe ppc64el libhts3 ppc64el 1.10.2-3 [397 kB] Get:83 http://ftpmaster.internal/ubuntu focal/main ppc64el liblzma-dev ppc64el 5.2.4-1 [166 kB] Get:84 http://ftpmaster.internal/ubuntu focal-proposed/main ppc64el zlib1g-dev ppc64el 1:1.2.11.dfsg-2ubuntu1 [165 kB] Get:85 http://ftpmaster.internal/ubuntu focal/universe ppc64el libhts-dev ppc64el 1.10.2-3 [92.0 kB] Get:86 http://ftpmaster.internal/ubuntu focal/main ppc64el liblapack3 ppc64el 3.9.0-1 [2114 kB] Get:87 http://ftpmaster.internal/ubuntu focal-proposed/main ppc64el libpython3.8 ppc64el 3.8.2-1 [1688 kB] Get:88 http://ftpmaster.internal/ubuntu focal-proposed/main ppc64el libpython3.8-dev ppc64el 3.8.2-1 [4324 kB] Get:89 http://ftpmaster.internal/ubuntu focal/main ppc64el libpython3-dev ppc64el 3.8.0-3ubuntu1 [7032 B] Get:90 http://ftpmaster.internal/ubuntu focal/main ppc64el libpython3-all-dev ppc64el 3.8.0-3ubuntu1 [1116 B] Get:91 http://ftpmaster.internal/ubuntu focal/main ppc64el libssl-dev ppc64el 1.1.1d-2ubuntu3 [1666 kB] Get:92 http://ftpmaster.internal/ubuntu focal/main ppc64el python3-all ppc64el 3.8.0-3ubuntu1 [1104 B] Get:93 http://ftpmaster.internal/ubuntu focal-proposed/main ppc64el python3.8-dev ppc64el 3.8.2-1 [518 kB] Get:94 http://ftpmaster.internal/ubuntu focal/main ppc64el python3-dev ppc64el 3.8.0-3ubuntu1 [1212 B] Get:95 http://ftpmaster.internal/ubuntu focal/main ppc64el python3-all-dev ppc64el 3.8.0-3ubuntu1 [1116 B] Get:96 http://ftpmaster.internal/ubuntu focal/main ppc64el python3-colorama all 0.4.3-1build1 [23.9 kB] Get:97 http://ftpmaster.internal/ubuntu focal/main ppc64el python3-click all 7.0-3 [64.8 kB] Get:98 http://ftpmaster.internal/ubuntu focal/universe ppc64el python3-humanfriendly all 4.18-2 [60.8 kB] Get:99 http://ftpmaster.internal/ubuntu focal/universe ppc64el python3-coloredlogs all 7.3-2 [28.0 kB] Get:100 http://ftpmaster.internal/ubuntu focal/universe ppc64el python3-nose all 1.3.7-5 [116 kB] Get:101 http://ftpmaster.internal/ubuntu focal-proposed/main ppc64el python3-numpy ppc64el 1:1.17.4-5ubuntu3 [4342 kB] Get:102 http://ftpmaster.internal/ubuntu focal-proposed/main ppc64el python3-setuptools all 45.2.0-1 [330 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 45.3 MB in 2s (19.7 MB/s) Selecting previously unselected package liblocale-gettext-perl. (Reading database ... 14620 files and directories currently installed.) Preparing to unpack .../liblocale-gettext-perl_1.07-4_ppc64el.deb ... Unpacking liblocale-gettext-perl (1.07-4) ... Selecting previously unselected package libpython3.8-minimal:ppc64el. Preparing to unpack .../libpython3.8-minimal_3.8.2-1_ppc64el.deb ... Unpacking libpython3.8-minimal:ppc64el (3.8.2-1) ... Selecting previously unselected package libexpat1:ppc64el. Preparing to unpack .../libexpat1_2.2.9-1_ppc64el.deb ... Unpacking libexpat1:ppc64el (2.2.9-1) ... Selecting previously unselected package python3.8-minimal. Preparing to unpack .../python3.8-minimal_3.8.2-1_ppc64el.deb ... Unpacking python3.8-minimal (3.8.2-1) ... Setting up libpython3.8-minimal:ppc64el (3.8.2-1) ... Setting up libexpat1:ppc64el (2.2.9-1) ... Setting up python3.8-minimal (3.8.2-1) ... Selecting previously unselected package python3-minimal. (Reading database ... 14925 files and directories currently installed.) 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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 ... 15327 files and directories currently installed.) Preparing to unpack .../00-python3_3.8.0-3ubuntu1_ppc64el.deb ... Unpacking python3 (3.8.0-3ubuntu1) ... Selecting previously unselected package libbsd0:ppc64el. Preparing to unpack .../01-libbsd0_0.10.0-1_ppc64el.deb ... Unpacking libbsd0:ppc64el (0.10.0-1) ... Selecting previously unselected package bsdmainutils. Preparing to unpack .../02-bsdmainutils_11.1.2ubuntu2_ppc64el.deb ... Unpacking bsdmainutils (11.1.2ubuntu2) ... Selecting previously unselected package libuchardet0:ppc64el. Preparing to unpack .../03-libuchardet0_0.0.6-3_ppc64el.deb ... Unpacking libuchardet0:ppc64el (0.0.6-3) ... 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Unpacking help2man (1.47.12) ... Selecting previously unselected package libroken18-heimdal:ppc64el. Preparing to unpack .../46-libroken18-heimdal_7.7.0+dfsg-1_ppc64el.deb ... Unpacking libroken18-heimdal:ppc64el (7.7.0+dfsg-1) ... Selecting previously unselected package libasn1-8-heimdal:ppc64el. Preparing to unpack .../47-libasn1-8-heimdal_7.7.0+dfsg-1_ppc64el.deb ... Unpacking libasn1-8-heimdal:ppc64el (7.7.0+dfsg-1) ... Selecting previously unselected package libblas3:ppc64el. Preparing to unpack .../48-libblas3_3.9.0-1_ppc64el.deb ... Unpacking libblas3:ppc64el (3.9.0-1) ... Selecting previously unselected package libbrotli1:ppc64el. Preparing to unpack .../49-libbrotli1_1.0.7-6build1_ppc64el.deb ... Unpacking libbrotli1:ppc64el (1.0.7-6build1) ... Selecting previously unselected package libbz2-dev:ppc64el. Preparing to unpack .../50-libbz2-dev_1.0.8-2_ppc64el.deb ... Unpacking libbz2-dev:ppc64el (1.0.8-2) ... Selecting previously unselected package libheimbase1-heimdal:ppc64el. 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Selecting previously unselected package zlib1g-dev:ppc64el. Preparing to unpack .../72-zlib1g-dev_1%3a1.2.11.dfsg-2ubuntu1_ppc64el.deb ... Unpacking zlib1g-dev:ppc64el (1:1.2.11.dfsg-2ubuntu1) ... Selecting previously unselected package libhts-dev:ppc64el. Preparing to unpack .../73-libhts-dev_1.10.2-3_ppc64el.deb ... Unpacking libhts-dev:ppc64el (1.10.2-3) ... Selecting previously unselected package liblapack3:ppc64el. Preparing to unpack .../74-liblapack3_3.9.0-1_ppc64el.deb ... Unpacking liblapack3:ppc64el (3.9.0-1) ... Selecting previously unselected package libpython3.8:ppc64el. Preparing to unpack .../75-libpython3.8_3.8.2-1_ppc64el.deb ... Unpacking libpython3.8:ppc64el (3.8.2-1) ... Selecting previously unselected package libpython3.8-dev:ppc64el. Preparing to unpack .../76-libpython3.8-dev_3.8.2-1_ppc64el.deb ... Unpacking libpython3.8-dev:ppc64el (3.8.2-1) ... Selecting previously unselected package libpython3-dev:ppc64el. 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No schema files found: doing nothing. Setting up libdebhelper-perl (12.9ubuntu1) ... Setting up libbrotli1:ppc64el (1.0.7-6build1) ... Setting up libicu65:ppc64el (65.1-1ubuntu2) ... Setting up libnghttp2-14:ppc64el (1.40.0-1) ... Setting up libmagic1:ppc64el (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:ppc64el (1.17-6ubuntu4) ... Setting up libsasl2-modules-db:ppc64el (2.1.27+dfsg-2) ... Setting up autotools-dev (20180224.1) ... Setting up libblas3:ppc64el (3.9.0-1) ... update-alternatives: using /usr/lib/powerpc64le-linux-gnu/blas/libblas.so.3 to provide /usr/lib/powerpc64le-linux-gnu/libblas.so.3 (libblas.so.3-powerpc64le-linux-gnu) in auto mode Setting up libexpat1-dev:ppc64el (2.2.9-1) ... Setting up librtmp1:ppc64el (2.4+20151223.gitfa8646d.1-2build1) ... Setting up libsigsegv2:ppc64el (2.12-2) ... Setting up libssl-dev:ppc64el (1.1.1d-2ubuntu3) ... Setting up autopoint (0.19.8.1-10) ... Setting up libk5crypto3:ppc64el (1.17-6ubuntu4) ... Setting up libsasl2-2:ppc64el (2.1.27+dfsg-2) ... Setting up libgfortran5:ppc64el (10-20200222-1ubuntu1) ... Setting up libroken18-heimdal:ppc64el (7.7.0+dfsg-1) ... Setting up liblzma-dev:ppc64el (5.2.4-1) ... Setting up zlib1g-dev:ppc64el (1:1.2.11.dfsg-2ubuntu1) ... Setting up libuchardet0:ppc64el (0.0.6-3) ... Setting up libsub-override-perl (0.09-2) ... Setting up libkrb5-3:ppc64el (1.17-6ubuntu4) ... Setting up libmpdec2:ppc64el (2.4.2-2) ... Setting up libpython3.8-stdlib:ppc64el (3.8.2-1) ... Setting up python3.8 (3.8.2-1) ... Setting up libbsd0:ppc64el (0.10.0-1) ... Setting up libelf1:ppc64el (0.176-1.1build1) ... Setting up libxml2:ppc64el (2.9.10+dfsg-1ubuntu3) ... Setting up liblocale-gettext-perl (1.07-4) ... Setting up libpython3-stdlib:ppc64el (3.8.0-3ubuntu1) ... Setting up libheimbase1-heimdal:ppc64el (7.7.0+dfsg-1) ... Setting up libbz2-dev:ppc64el (1.0.8-2) ... Setting up libfile-stripnondeterminism-perl (1.6.3-2) ... Setting up liblapack3:ppc64el (3.9.0-1) ... update-alternatives: using /usr/lib/powerpc64le-linux-gnu/lapack/liblapack.so.3 to provide /usr/lib/powerpc64le-linux-gnu/liblapack.so.3 (liblapack.so.3-powerpc64le-linux-gnu) in auto mode Setting up libtool (2.4.6-13) ... Setting up libasn1-8-heimdal:ppc64el (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:ppc64el (7.7.0+dfsg-1) ... Setting up help2man (1.47.12) ... Setting up libwind0-heimdal:ppc64el (7.7.0+dfsg-1) ... Setting up python3-humanfriendly (4.18-2) ... /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 libpython3.8:ppc64el (3.8.2-1) ... 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:ppc64el (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:ppc64el (0.6.13-1) ... Setting up libssh-4:ppc64el (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-coloredlogs (7.3-2) ... /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-pkg-resources (45.2.0-1) ... /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 (4.20191017ubuntu7) ... /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 (45.2.0-1) ... /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-colorama (0.4.3-1build1) ... /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 libhx509-5-heimdal:ppc64el (7.7.0+dfsg-1) ... Setting up python3-all (3.8.0-3ubuntu1) ... Setting up python3-click (7.0-3) ... /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 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 python3-nose (1.3.7-5) ... /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 intltool-debian (0.35.0+20060710.5) ... Setting up libpython3.8-dev:ppc64el (3.8.2-1) ... Setting up python3-numpy (1:1.17.4-5ubuntu3) ... /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 python3.8-dev (3.8.2-1) ... Setting up libkrb5-26-heimdal:ppc64el (7.7.0+dfsg-1) ... Setting up libpython3-dev:ppc64el (3.8.0-3ubuntu1) ... Setting up po-debconf (1.0.21) ... Setting up libheimntlm0-heimdal:ppc64el (7.7.0+dfsg-1) ... Setting up libgssapi3-heimdal:ppc64el (7.7.0+dfsg-1) ... Setting up libpython3-all-dev:ppc64el (3.8.0-3ubuntu1) ... Setting up python3-dev (3.8.0-3ubuntu1) ... Setting up python3-all-dev (3.8.0-3ubuntu1) ... Setting up libldap-2.4-2:ppc64el (2.4.49+dfsg-1ubuntu1) ... Setting up libcurl3-gnutls:ppc64el (7.68.0-1ubuntu1) ... Setting up libcurl4-gnutls-dev:ppc64el (7.68.0-1ubuntu1) ... Setting up libhts3:ppc64el (1.10.2-3) ... Setting up libhts-dev:ppc64el (1.10.2-3) ... Setting up dh-autoreconf (19) ... Setting up debhelper (12.9ubuntu1) ... Setting up sbuild-build-depends-cyvcf2-dummy (0.invalid.0) ... Processing triggers for libc-bin (2.30-0ubuntu3) ... +------------------------------------------------------------------------------+ | Build environment | +------------------------------------------------------------------------------+ Kernel: Linux 4.4.0-174-generic ppc64el (ppc64le) Toolchain package versions: binutils_2.34-3ubuntu1 dpkg-dev_1.19.7ubuntu2 g++-9_9.2.1-30ubuntu1 gcc-9_9.2.1-30ubuntu1 libc6-dev_2.30-0ubuntu3 libstdc++-9-dev_9.2.1-30ubuntu1 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_5.0-6ubuntu1 binutils_2.34-3ubuntu1 binutils-common_2.34-3ubuntu1 binutils-powerpc64le-linux-gnu_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_9.2.1-30ubuntu1 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_4.20191017ubuntu7 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_9.2.1-30ubuntu1 gcc_4:9.2.1-3.1ubuntu1 gcc-10-base_10-20200222-1ubuntu1 gcc-9_9.2.1-30ubuntu1 gcc-9-base_9.2.1-30ubuntu1 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 help2man_1.47.12 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_9.2.1-30ubuntu1 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 libblas3_3.9.0-1 libblkid1_2.34-0.1ubuntu7 libbrotli1_1.0.7-6build1 libbsd0_0.10.0-1 libbz2-1.0_1.0.8-2 libbz2-dev_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_7.68.0-1ubuntu1 libcurl4-gnutls-dev_7.68.0-1ubuntu1 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 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liblapack3_3.9.0-1 libldap-2.4-2_2.4.49+dfsg-1ubuntu1 libldap-common_2.4.49+dfsg-1ubuntu1 liblocale-gettext-perl_1.07-4 liblockfile-bin_1.16-1.1 liblockfile1_1.16-1.1 liblsan0_10-20200222-1ubuntu1 liblz4-1_1.9.2-2 liblzma-dev_5.2.4-1 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_3.8.2-1 libpython3.8-dev_3.8.2-1 libpython3.8-minimal_3.8.2-1 libpython3.8-stdlib_3.8.2-1 libquadmath0_10-20200222-1ubuntu1 libreadline8_8.0-4 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 libssl-dev_1.1.1d-2ubuntu3 libssl1.1_1.1.1d-2ubuntu3 libstdc++-9-dev_9.2.1-30ubuntu1 libstdc++6_10-20200222-1ubuntu1 libsub-override-perl_0.09-2 libsystemd0_244.3-1ubuntu1 libtasn1-6_4.16.0-2 libtinfo6_6.1+20191019-1ubuntu1 libtool_2.4.6-13 libtsan0_10-20200222-1ubuntu1 libubsan1_10-20200222-1ubuntu1 libuchardet0_0.0.6-3 libudev1_244.3-1ubuntu1 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_1.3.4.20200120-2 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-click_7.0-3 python3-colorama_0.4.3-1build1 python3-coloredlogs_7.3-2 python3-dev_3.8.0-3ubuntu1 python3-distutils_3.8.0-1ubuntu1 python3-humanfriendly_4.18-2 python3-lib2to3_3.8.0-1ubuntu1 python3-minimal_3.8.0-3ubuntu1 python3-nose_1.3.7-5 python3-numpy_1:1.17.4-5ubuntu3 python3-pkg-resources_45.2.0-1 python3-setuptools_45.2.0-1 python3.8_3.8.2-1 python3.8-dev_3.8.2-1 python3.8-minimal_3.8.2-1 readline-common_8.0-4 sbuild-build-depends-core-dummy_0.invalid.0 sbuild-build-depends-cyvcf2-dummy_0.invalid.0 sed_4.7-1 sensible-utils_0.0.12+nmu1 systemd_244.3-1ubuntu1 systemd-sysv_244.3-1ubuntu1 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-2ubuntu1 zlib1g-dev_1:1.2.11.dfsg-2ubuntu1 +------------------------------------------------------------------------------+ | Build | +------------------------------------------------------------------------------+ Unpack source ------------- gpgv: Signature made Tue Feb 25 14:12:02 2020 UTC gpgv: using RSA key 84C1977A89E7EFED3E5CA62E2FD8BEDAC020EED1 gpgv: issuer "moeller@debian.org" gpgv: Can't check signature: No public key dpkg-source: warning: failed to verify signature on ./cyvcf2_0.11.6-1.dsc dpkg-source: info: extracting cyvcf2 in cyvcf2-0.11.6 dpkg-source: info: unpacking cyvcf2_0.11.6.orig.tar.gz dpkg-source: info: unpacking cyvcf2_0.11.6-1.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying add_htslib_link_dependency.patch 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-18764289 SCHROOT_CHROOT_NAME=build-PACKAGEBUILD-18764289 SCHROOT_COMMAND=env SCHROOT_GID=2501 SCHROOT_GROUP=buildd SCHROOT_SESSION_ID=build-PACKAGEBUILD-18764289 SCHROOT_UID=2001 SCHROOT_USER=buildd SHELL=/bin/sh TERM=unknown USER=buildd V=1 dpkg-buildpackage ----------------- dpkg-buildpackage: info: source package cyvcf2 dpkg-buildpackage: info: source version 0.11.6-1 dpkg-buildpackage: info: source distribution unstable dpkg-source --before-build . dpkg-buildpackage: info: host architecture ppc64el dpkg-source: info: using options from cyvcf2-0.11.6/debian/source/options: --extend-diff-ignore=^[^/]*[.]egg-info/ debian/rules clean dh clean --with python3 --buildsystem=pybuild dh_auto_clean -O--buildsystem=pybuild I: pybuild base:217: python3.8 setup.py clean running clean removing '/<>/.pybuild/cpython3_3.8_cyvcf2/build' (and everything under it) 'build/bdist.linux-ppc64el' does not exist -- can't clean it 'build/scripts-3.8' does not exist -- can't clean it dh_autoreconf_clean -O--buildsystem=pybuild debian/rules override_dh_clean make[1]: Entering directory '/<>' dh_clean rm -rf cyvcf2.egg-info cyvcf2/cyvcf2.c __o.vcf find . -name "*.so" -delete make[1]: Leaving directory '/<>' debian/rules binary-arch dh binary-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 /<>/.pybuild/cpython3_3.8_cyvcf2/build/cyvcf2 copying cyvcf2/__init__.py -> /<>/.pybuild/cpython3_3.8_cyvcf2/build/cyvcf2 copying cyvcf2/__main__.py -> /<>/.pybuild/cpython3_3.8_cyvcf2/build/cyvcf2 copying cyvcf2/cli.py -> /<>/.pybuild/cpython3_3.8_cyvcf2/build/cyvcf2 creating /<>/.pybuild/cpython3_3.8_cyvcf2/build/cyvcf2/tests copying cyvcf2/tests/__init__.py -> /<>/.pybuild/cpython3_3.8_cyvcf2/build/cyvcf2/tests copying cyvcf2/tests/test_cli.py -> /<>/.pybuild/cpython3_3.8_cyvcf2/build/cyvcf2/tests copying cyvcf2/tests/test_hemi.py -> /<>/.pybuild/cpython3_3.8_cyvcf2/build/cyvcf2/tests copying cyvcf2/tests/test_reader.py -> /<>/.pybuild/cpython3_3.8_cyvcf2/build/cyvcf2/tests running egg_info creating cyvcf2.egg-info writing cyvcf2.egg-info/PKG-INFO writing dependency_links to cyvcf2.egg-info/dependency_links.txt writing entry points to cyvcf2.egg-info/entry_points.txt writing requirements to cyvcf2.egg-info/requires.txt writing top-level names to cyvcf2.egg-info/top_level.txt writing manifest file 'cyvcf2.egg-info/SOURCES.txt' reading manifest file 'cyvcf2.egg-info/SOURCES.txt' reading manifest template 'MANIFEST.in' warning: no files found matching 'htslib/*.c' warning: no files found matching 'htslib/*.h' warning: no files found matching 'htslib/htslib/*.h' warning: no files found matching 'htslib/cram/*.c' warning: no files found matching 'htslib/cram/*.h' writing manifest file 'cyvcf2.egg-info/SOURCES.txt' copying cyvcf2/cyvcf2.pxd -> /<>/.pybuild/cpython3_3.8_cyvcf2/build/cyvcf2 copying cyvcf2/cyvcf2.pyx -> /<>/.pybuild/cpython3_3.8_cyvcf2/build/cyvcf2 copying cyvcf2/helpers.c -> /<>/.pybuild/cpython3_3.8_cyvcf2/build/cyvcf2 copying cyvcf2/helpers.h -> /<>/.pybuild/cpython3_3.8_cyvcf2/build/cyvcf2 copying cyvcf2/relatedness.h -> /<>/.pybuild/cpython3_3.8_cyvcf2/build/cyvcf2 copying cyvcf2/tests/bug.vcf.gz -> /<>/.pybuild/cpython3_3.8_cyvcf2/build/cyvcf2/tests copying cyvcf2/tests/decomposed.vcf -> /<>/.pybuild/cpython3_3.8_cyvcf2/build/cyvcf2/tests copying cyvcf2/tests/empty.vcf -> /<>/.pybuild/cpython3_3.8_cyvcf2/build/cyvcf2/tests copying cyvcf2/tests/issue_44.vcf -> /<>/.pybuild/cpython3_3.8_cyvcf2/build/cyvcf2/tests copying cyvcf2/tests/no-seq-len.vcf -> /<>/.pybuild/cpython3_3.8_cyvcf2/build/cyvcf2/tests copying cyvcf2/tests/no-seq-names.vcf -> /<>/.pybuild/cpython3_3.8_cyvcf2/build/cyvcf2/tests copying cyvcf2/tests/o.vcf.gz -> /<>/.pybuild/cpython3_3.8_cyvcf2/build/cyvcf2/tests copying cyvcf2/tests/seg.vcf.gz -> /<>/.pybuild/cpython3_3.8_cyvcf2/build/cyvcf2/tests copying cyvcf2/tests/test-alt-repr.vcf -> /<>/.pybuild/cpython3_3.8_cyvcf2/build/cyvcf2/tests copying cyvcf2/tests/test-diff.csi -> /<>/.pybuild/cpython3_3.8_cyvcf2/build/cyvcf2/tests copying cyvcf2/tests/test-format-string.vcf -> /<>/.pybuild/cpython3_3.8_cyvcf2/build/cyvcf2/tests copying cyvcf2/tests/test-haploidX.vcf -> /<>/.pybuild/cpython3_3.8_cyvcf2/build/cyvcf2/tests copying cyvcf2/tests/test-hemi.vcf -> /<>/.pybuild/cpython3_3.8_cyvcf2/build/cyvcf2/tests copying cyvcf2/tests/test-multiallelic-homozygous-alt.vcf.gz -> /<>/.pybuild/cpython3_3.8_cyvcf2/build/cyvcf2/tests copying cyvcf2/tests/test-multiallelic-homozygous-alt.vcf.gz.tbi -> /<>/.pybuild/cpython3_3.8_cyvcf2/build/cyvcf2/tests copying cyvcf2/tests/test-strict-gt-option-flag.vcf.gz -> /<>/.pybuild/cpython3_3.8_cyvcf2/build/cyvcf2/tests copying cyvcf2/tests/test-strict-gt-option-flag.vcf.gz.tbi -> /<>/.pybuild/cpython3_3.8_cyvcf2/build/cyvcf2/tests copying cyvcf2/tests/test.bug.117.vcf -> /<>/.pybuild/cpython3_3.8_cyvcf2/build/cyvcf2/tests copying cyvcf2/tests/test.comp_het.3.vcf -> /<>/.pybuild/cpython3_3.8_cyvcf2/build/cyvcf2/tests copying cyvcf2/tests/test.snpeff.bcf -> /<>/.pybuild/cpython3_3.8_cyvcf2/build/cyvcf2/tests copying cyvcf2/tests/test.snpeff.bcf.csi -> /<>/.pybuild/cpython3_3.8_cyvcf2/build/cyvcf2/tests copying cyvcf2/tests/test.snpeff.vcf -> /<>/.pybuild/cpython3_3.8_cyvcf2/build/cyvcf2/tests copying cyvcf2/tests/test.vcf.gz -> /<>/.pybuild/cpython3_3.8_cyvcf2/build/cyvcf2/tests copying cyvcf2/tests/test.vcf.gz.tbi -> /<>/.pybuild/cpython3_3.8_cyvcf2/build/cyvcf2/tests copying cyvcf2/tests/test_gt_alt_freqs.vcf -> /<>/.pybuild/cpython3_3.8_cyvcf2/build/cyvcf2/tests copying cyvcf2/tests/test_gt_bases.vcf.gz -> /<>/.pybuild/cpython3_3.8_cyvcf2/build/cyvcf2/tests running build_ext cythoning cyvcf2/cyvcf2.pyx to cyvcf2/cyvcf2.c building 'cyvcf2.cyvcf2' extension creating build creating build/temp.linux-ppc64el-3.8 creating build/temp.linux-ppc64el-3.8/cyvcf2 powerpc64le-linux-gnu-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -fexceptions -g -fwrapv -O2 -g -O3 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Ihtslib -Icyvcf2 -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include/python3.8 -c cyvcf2/cyvcf2.c -o build/temp.linux-ppc64el-3.8/cyvcf2/cyvcf2.o In file included from /usr/lib/python3/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1830, from /usr/lib/python3/dist-packages/numpy/core/include/numpy/ndarrayobject.h:12, from /usr/lib/python3/dist-packages/numpy/core/include/numpy/arrayobject.h:4, from cyvcf2/cyvcf2.c:599: /usr/lib/python3/dist-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp] 17 | #warning "Using deprecated NumPy API, disable it with " \ | ^~~~~~~ cyvcf2/cyvcf2.c: In function ‘__pyx_pf_6cyvcf2_6cyvcf2_3VCF_4add_to_header’: cyvcf2/cyvcf2.c:7934:44: warning: passing argument 1 of ‘bcf_hdr_append’ discards ‘const’ qualifier from pointer target type [-Wdiscarded-qualifiers] 7934 | __pyx_v_ret = bcf_hdr_append(__pyx_v_self->hdr, __pyx_t_2); | ~~~~~~~~~~~~^~~~~ In file included from cyvcf2/helpers.h:1, from cyvcf2/cyvcf2.c:602: /usr/include/htslib/vcf.h:561:35: note: expected ‘bcf_hdr_t *’ {aka ‘struct *’} but argument is of type ‘const bcf_hdr_t *’ {aka ‘const struct *’} 561 | int bcf_hdr_append(bcf_hdr_t *h, const char *line); | ~~~~~~~~~~~^ cyvcf2/cyvcf2.c:7976:42: warning: passing argument 1 of ‘bcf_hdr_sync’ discards ‘const’ qualifier from pointer target type [-Wdiscarded-qualifiers] 7976 | __pyx_v_ret = bcf_hdr_sync(__pyx_v_self->hdr); | ~~~~~~~~~~~~^~~~~ In file included from cyvcf2/helpers.h:1, from cyvcf2/cyvcf2.c:602: /usr/include/htslib/vcf.h:624:33: note: expected ‘bcf_hdr_t *’ {aka ‘struct *’} but argument is of type ‘const bcf_hdr_t *’ {aka ‘const struct *’} 624 | int bcf_hdr_sync(bcf_hdr_t *h) HTS_RESULT_USED; | ~~~~~~~~~~~^ cyvcf2/cyvcf2.c: In function ‘__pyx_pf_6cyvcf2_6cyvcf2_3VCF_12set_samples’: cyvcf2/cyvcf2.c:8492:49: warning: passing argument 1 of ‘bcf_hdr_set_samples’ discards ‘const’ qualifier from pointer target type [-Wdiscarded-qualifiers] 8492 | __pyx_v_ret = bcf_hdr_set_samples(__pyx_v_self->hdr, ((char const *)__pyx_t_6), 0); | ~~~~~~~~~~~~^~~~~ In file included from cyvcf2/helpers.h:1, from cyvcf2/cyvcf2.c:602: /usr/include/htslib/vcf.h:342:40: note: expected ‘bcf_hdr_t *’ {aka ‘struct *’} but argument is of type ‘const bcf_hdr_t *’ {aka ‘const struct *’} 342 | int bcf_hdr_set_samples(bcf_hdr_t *hdr, const char *samples, int is_file) HTS_RESULT_USED; | ~~~~~~~~~~~^~~ cyvcf2/cyvcf2.c: In function ‘__pyx_pf_6cyvcf2_6cyvcf2_3VCF_14update’: cyvcf2/cyvcf2.c:8790:44: warning: passing argument 1 of ‘bcf_hdr_append’ discards ‘const’ qualifier from pointer target type [-Wdiscarded-qualifiers] 8790 | __pyx_v_ret = bcf_hdr_append(__pyx_v_self->hdr, __pyx_t_4); | ~~~~~~~~~~~~^~~~~ In file included from cyvcf2/helpers.h:1, from cyvcf2/cyvcf2.c:602: /usr/include/htslib/vcf.h:561:35: note: expected ‘bcf_hdr_t *’ {aka ‘struct *’} but argument is of type ‘const bcf_hdr_t *’ {aka ‘const struct *’} 561 | int bcf_hdr_append(bcf_hdr_t *h, const char *line); | ~~~~~~~~~~~^ cyvcf2/cyvcf2.c:8843:42: warning: passing argument 1 of ‘bcf_hdr_sync’ discards ‘const’ qualifier from pointer target type [-Wdiscarded-qualifiers] 8843 | __pyx_v_ret = bcf_hdr_sync(__pyx_v_self->hdr); | ~~~~~~~~~~~~^~~~~ In file included from cyvcf2/helpers.h:1, from cyvcf2/cyvcf2.c:602: /usr/include/htslib/vcf.h:624:33: note: expected ‘bcf_hdr_t *’ {aka ‘struct *’} but argument is of type ‘const bcf_hdr_t *’ {aka ‘const struct *’} 624 | int bcf_hdr_sync(bcf_hdr_t *h) HTS_RESULT_USED; | ~~~~~~~~~~~^ cyvcf2/cyvcf2.c: In function ‘__pyx_gb_6cyvcf2_6cyvcf2_3VCF_20generator’: cyvcf2/cyvcf2.c:9263:115: warning: passing argument 4 of ‘hts_itr_querys’ discards ‘const’ qualifier from pointer target type [-Wdiscarded-qualifiers] 9263 | __pyx_cur_scope->__pyx_v_itr = bcf_itr_querys(__pyx_cur_scope->__pyx_v_self->hidx, __pyx_cur_scope->__pyx_v_self->hdr, __pyx_t_2); | ^ In file included from /usr/include/htslib/vcf.h:40, from cyvcf2/helpers.h:1, from cyvcf2/cyvcf2.c:602: /usr/include/htslib/hts.h:1074:12: note: expected ‘void *’ but argument is of type ‘const bcf_hdr_t *’ {aka ‘const struct *’} 1074 | hts_itr_t *hts_itr_querys(const hts_idx_t *idx, const char *reg, hts_name2id_f getid, void *hdr, hts_itr_query_func *itr_query, hts_readrec_func *readrec); | ^~~~~~~~~~~~~~ cyvcf2/cyvcf2.c: In function ‘__pyx_gb_6cyvcf2_6cyvcf2_3VCF_26generator2’: cyvcf2/cyvcf2.c:10548:163: warning: passing argument 2 of ‘__pyx_f_6cyvcf2_6cyvcf2_newHREC’ discards ‘const’ qualifier from pointer target type [-Wdiscarded-qualifiers] 10548 | __pyx_t_4 = ((PyObject *)__pyx_f_6cyvcf2_6cyvcf2_newHREC((__pyx_cur_scope->__pyx_v_self->hdr->hrec[__pyx_cur_scope->__pyx_v_i]), __pyx_cur_scope->__pyx_v_self->hdr)); if (unlikely(!__pyx_t_4)) __PYX_ERR(0, 418, __pyx_L1_error) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ cyvcf2/cyvcf2.c:2913:61: note: expected ‘bcf_hdr_t *’ {aka ‘struct *’} but argument is of type ‘const bcf_hdr_t *’ {aka ‘const struct *’} 2913 | static CYTHON_INLINE struct __pyx_obj_6cyvcf2_6cyvcf2_HREC *__pyx_f_6cyvcf2_6cyvcf2_newHREC(bcf_hrec_t *, bcf_hdr_t *); /*proto*/ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ cyvcf2/cyvcf2.c: In function ‘__pyx_pf_6cyvcf2_6cyvcf2_3VCF_37__dealloc__’: cyvcf2/cyvcf2.c:12204:33: warning: passing argument 1 of ‘bcf_hdr_destroy’ discards ‘const’ qualifier from pointer target type [-Wdiscarded-qualifiers] 12204 | bcf_hdr_destroy(__pyx_v_self->hdr); | ~~~~~~~~~~~~^~~~~ In file included from cyvcf2/helpers.h:1, from cyvcf2/cyvcf2.c:602: /usr/include/htslib/vcf.h:271:37: note: expected ‘bcf_hdr_t *’ {aka ‘struct *’} but argument is of type ‘const bcf_hdr_t *’ {aka ‘const struct *’} 271 | void bcf_hdr_destroy(bcf_hdr_t *h); | ~~~~~~~~~~~^ cyvcf2/cyvcf2.c: In function ‘__pyx_pf_6cyvcf2_6cyvcf2_3VCF_10raw_header___get__’: cyvcf2/cyvcf2.c:12685:3: warning: ‘bcf_hdr_fmt_text’ is deprecated: use bcf_hdr_format() instead [-Wdeprecated-declarations] 12685 | __pyx_v_s = bcf_hdr_fmt_text(__pyx_v_self->hdr, 0, (&__pyx_v_hlen)); | ^~~~~~~~~ In file included from cyvcf2/helpers.h:1, from cyvcf2/cyvcf2.c:602: /usr/include/htslib/vcf.h:556:11: note: declared here 556 | char *bcf_hdr_fmt_text(const bcf_hdr_t *hdr, int is_bcf, int *len) | ^~~~~~~~~~~~~~~~ cyvcf2/cyvcf2.c: In function ‘__pyx_pf_6cyvcf2_6cyvcf2_3VCF_8seqnames___get__’: cyvcf2/cyvcf2.c:12979:18: warning: assignment to ‘char **’ from incompatible pointer type ‘const char **’ [-Wincompatible-pointer-types] 12979 | __pyx_v_cnames = bcf_hdr_seqnames(__pyx_v_self->hdr, (&__pyx_v_n)); | ^ In file included from cyvcf2/helpers.h:1, from cyvcf2/cyvcf2.c:602: cyvcf2/cyvcf2.c:13088:75: warning: passing argument 4 of ‘hts_idx_seqnames’ discards ‘const’ qualifier from pointer target type [-Wdiscarded-qualifiers] 13088 | __pyx_v_cnames = bcf_index_seqnames(__pyx_v_self->hidx, __pyx_v_self->hdr, (&__pyx_v_n)); | ^ In file included from /usr/include/htslib/vcf.h:40, from cyvcf2/helpers.h:1, from cyvcf2/cyvcf2.c:602: /usr/include/htslib/hts.h:1097:14: note: expected ‘void *’ but argument is of type ‘const bcf_hdr_t *’ {aka ‘const struct *’} 1097 | const char **hts_idx_seqnames(const hts_idx_t *idx, int *n, hts_id2name_f getid, void *hdr); // free only the array, not the values | ^~~~~~~~~~~~~~~~ cyvcf2/cyvcf2.c:13088:22: warning: assignment to ‘char **’ from incompatible pointer type ‘const char **’ [-Wincompatible-pointer-types] 13088 | __pyx_v_cnames = bcf_index_seqnames(__pyx_v_self->hidx, __pyx_v_self->hdr, (&__pyx_v_n)); | ^ cyvcf2/cyvcf2.c:13171:22: warning: assignment to ‘char **’ from incompatible pointer type ‘const char **’ [-Wincompatible-pointer-types] 13171 | __pyx_v_cnames = tbx_seqnames(__pyx_v_self->idx, (&__pyx_v_n)); | ^ cyvcf2/cyvcf2.c: In function ‘__pyx_pf_6cyvcf2_6cyvcf2_7Variant_8gt_bases___get__’: cyvcf2/cyvcf2.c:24200:33: warning: comparison of integer expressions of different signedness: ‘int’ and ‘uint32_t’ {aka ‘unsigned int’} [-Wsign-compare] 24200 | for (__pyx_t_2 = 0; __pyx_t_2 < __pyx_t_5; __pyx_t_2+=1) { | ^ cyvcf2/cyvcf2.c: In function ‘__pyx_pf_6cyvcf2_6cyvcf2_7Variant_6FORMAT___get__’: cyvcf2/cyvcf2.c:26211:17: warning: assignment discards ‘const’ qualifier from pointer target type [-Wdiscarded-qualifiers] 26211 | __pyx_v_key = bcf_hdr_int2id(__pyx_v_self->vcf->hdr, BCF_DT_ID, __pyx_v_fmt.id); | ^ cyvcf2/cyvcf2.c: In function ‘__pyx_pf_6cyvcf2_6cyvcf2_7Variant_3ALT___get__’: cyvcf2/cyvcf2.c:33773:33: warning: comparison of integer expressions of different signedness: ‘int’ and ‘uint32_t’ {aka ‘unsigned int’} [-Wsign-compare] 33773 | for (__pyx_t_4 = 1; __pyx_t_4 < __pyx_t_3; __pyx_t_4+=1) { | ^ cyvcf2/cyvcf2.c: In function ‘__pyx_pf_6cyvcf2_6cyvcf2_7Variant_6is_snp___get__’: cyvcf2/cyvcf2.c:34038:33: warning: comparison of integer expressions of different signedness: ‘int’ and ‘uint32_t’ {aka ‘unsigned int’} [-Wsign-compare] 34038 | for (__pyx_t_5 = 1; __pyx_t_5 < __pyx_t_4; __pyx_t_5+=1) { | ^ cyvcf2/cyvcf2.c: In function ‘__pyx_pf_6cyvcf2_6cyvcf2_7Variant_8is_indel___get__’: cyvcf2/cyvcf2.c:34252:33: warning: comparison of integer expressions of different signedness: ‘int’ and ‘uint32_t’ {aka ‘unsigned int’} [-Wsign-compare] 34252 | for (__pyx_t_9 = 1; __pyx_t_9 < __pyx_t_8; __pyx_t_9+=1) { | ^ cyvcf2/cyvcf2.c:34310:29: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘long unsigned int’} and ‘Py_ssize_t’ {aka ‘long int’} [-Wsign-compare] 34310 | __pyx_t_2 = ((__pyx_t_3 != __pyx_t_6) != 0); | ^~ cyvcf2/cyvcf2.c: In function ‘__pyx_pf_6cyvcf2_6cyvcf2_7Variant_6FILTER_2__set__’: cyvcf2/cyvcf2.c:36422:13: warning: assignment discards ‘const’ qualifier from pointer target type [-Wdiscarded-qualifiers] 36422 | __pyx_v_h = __pyx_t_6; | ^ cyvcf2/cyvcf2.c: In function ‘__pyx_pf_6cyvcf2_6cyvcf2_4INFO_12__next__’: cyvcf2/cyvcf2.c:39465:16: warning: assignment discards ‘const’ qualifier from pointer target type [-Wdiscarded-qualifiers] 39465 | __pyx_v_name = bcf_hdr_int2id(__pyx_v_self->hdr, BCF_DT_ID, __pyx_v_info->key); | ^ cyvcf2/cyvcf2.c: In function ‘__pyx_f_6cyvcf2_6cyvcf2_newVariant’: cyvcf2/cyvcf2.c:40448:18: warning: assignment discards ‘const’ qualifier from pointer target type [-Wdiscarded-qualifiers] 40448 | __pyx_v_i->hdr = __pyx_t_4; | ^ cyvcf2/cyvcf2.c: In function ‘__pyx_pf_6cyvcf2_6cyvcf2_6Writer___init__’: cyvcf2/cyvcf2.c:41102:35: warning: passing argument 1 of ‘bcf_hdr_sync’ discards ‘const’ qualifier from pointer target type [-Wdiscarded-qualifiers] 41102 | (void)(bcf_hdr_sync(__pyx_v_tmpl->hdr)); | ~~~~~~~~~~~~^~~~~ In file included from cyvcf2/helpers.h:1, from cyvcf2/cyvcf2.c:602: /usr/include/htslib/vcf.h:624:33: note: expected ‘bcf_hdr_t *’ {aka ‘struct *’} but argument is of type ‘const bcf_hdr_t *’ {aka ‘const struct *’} 624 | int bcf_hdr_sync(bcf_hdr_t *h) HTS_RESULT_USED; | ~~~~~~~~~~~^ cyvcf2/cyvcf2.c:41130:47: warning: passing argument 1 of ‘bcf_hdr_sync’ discards ‘const’ qualifier from pointer target type [-Wdiscarded-qualifiers] 41130 | (void)(bcf_hdr_sync(__pyx_v_self->__pyx_base.hdr)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~ In file included from cyvcf2/helpers.h:1, from cyvcf2/cyvcf2.c:602: /usr/include/htslib/vcf.h:624:33: note: expected ‘bcf_hdr_t *’ {aka ‘struct *’} but argument is of type ‘const bcf_hdr_t *’ {aka ‘const struct *’} 624 | int bcf_hdr_sync(bcf_hdr_t *h) HTS_RESULT_USED; | ~~~~~~~~~~~^ cyvcf2/cyvcf2.c: In function ‘__pyx_pf_6cyvcf2_6cyvcf2_6Writer_2from_string’: cyvcf2/cyvcf2.c:41457:55: warning: passing argument 1 of ‘bcf_hdr_parse’ discards ‘const’ qualifier from pointer target type [-Wdiscarded-qualifiers] 41457 | __pyx_t_2 = ((bcf_hdr_parse(__pyx_v_self->__pyx_base.hdr, __pyx_t_7) != 0) != 0); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~ In file included from cyvcf2/helpers.h:1, from cyvcf2/cyvcf2.c:602: /usr/include/htslib/vcf.h:613:34: note: expected ‘bcf_hdr_t *’ {aka ‘struct *’} but argument is of type ‘const bcf_hdr_t *’ {aka ‘const struct *’} 613 | int bcf_hdr_parse(bcf_hdr_t *hdr, char *htxt); | ~~~~~~~~~~~^~~ cyvcf2/cyvcf2.c:41493:54: warning: passing argument 1 of ‘bcf_hdr_sync’ discards ‘const’ qualifier from pointer target type [-Wdiscarded-qualifiers] 41493 | __pyx_t_2 = ((bcf_hdr_sync(__pyx_v_self->__pyx_base.hdr) != 0) != 0); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~ In file included from cyvcf2/helpers.h:1, from cyvcf2/cyvcf2.c:602: /usr/include/htslib/vcf.h:624:33: note: expected ‘bcf_hdr_t *’ {aka ‘struct *’} but argument is of type ‘const bcf_hdr_t *’ {aka ‘const struct *’} 624 | int bcf_hdr_sync(bcf_hdr_t *h) HTS_RESULT_USED; | ~~~~~~~~~~~^ cyvcf2/cyvcf2.c: In function ‘__pyx_pf_6cyvcf2_6cyvcf2_6Writer_6write_header’: cyvcf2/cyvcf2.c:41871:78: warning: passing argument 2 of ‘bcf_hdr_write’ discards ‘const’ qualifier from pointer target type [-Wdiscarded-qualifiers] 41871 | (void)(bcf_hdr_write(__pyx_v_self->__pyx_base.hts, __pyx_v_self->__pyx_base.hdr)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~ In file included from cyvcf2/helpers.h:1, from cyvcf2/cyvcf2.c:602: /usr/include/htslib/vcf.h:353:47: note: expected ‘bcf_hdr_t *’ {aka ‘struct *’} but argument is of type ‘const bcf_hdr_t *’ {aka ‘const struct *’} 353 | int bcf_hdr_write(htsFile *fp, bcf_hdr_t *h) HTS_RESULT_USED; | ~~~~~~~~~~~^ cyvcf2/cyvcf2.c: In function ‘__pyx_pf_6cyvcf2_6cyvcf2_6Writer_8write_record’: cyvcf2/cyvcf2.c:42043:60: warning: passing argument 1 of ‘bcf_hdr_add_hrec’ discards ‘const’ qualifier from pointer target type [-Wdiscarded-qualifiers] 42043 | __pyx_t_1 = ((bcf_hdr_add_hrec(__pyx_v_self->__pyx_base.hdr, __pyx_v_h) < 0) != 0); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~ In file included from cyvcf2/helpers.h:1, from cyvcf2/cyvcf2.c:602: /usr/include/htslib/vcf.h:638:37: note: expected ‘bcf_hdr_t *’ {aka ‘struct *’} but argument is of type ‘const bcf_hdr_t *’ {aka ‘const struct *’} 638 | int bcf_hdr_add_hrec(bcf_hdr_t *hdr, bcf_hrec_t *hrec); | ~~~~~~~~~~~^~~ cyvcf2/cyvcf2.c:42081:49: warning: passing argument 1 of ‘bcf_hdr_sync’ discards ‘const’ qualifier from pointer target type [-Wdiscarded-qualifiers] 42081 | (void)(bcf_hdr_sync(__pyx_v_self->__pyx_base.hdr)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~ In file included from cyvcf2/helpers.h:1, from cyvcf2/cyvcf2.c:602: /usr/include/htslib/vcf.h:624:33: note: expected ‘bcf_hdr_t *’ {aka ‘struct *’} but argument is of type ‘const bcf_hdr_t *’ {aka ‘const struct *’} 624 | int bcf_hdr_sync(bcf_hdr_t *h) HTS_RESULT_USED; | ~~~~~~~~~~~^ cyvcf2/cyvcf2.c:42140:100: warning: passing argument 2 of ‘bcf_write’ discards ‘const’ qualifier from pointer target type [-Wdiscarded-qualifiers] 42140 | __pyx_t_2 = __Pyx_PyInt_From_int(bcf_write(__pyx_v_self->__pyx_base.hts, __pyx_v_self->__pyx_base.hdr, __pyx_v_var->b)); if (unlikely(!__pyx_t_2)) __PYX_ERR(0, 2251, __pyx_L1_error) | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~ In file included from cyvcf2/helpers.h:1, from cyvcf2/cyvcf2.c:602: /usr/include/htslib/vcf.h:419:43: note: expected ‘bcf_hdr_t *’ {aka ‘struct *’} but argument is of type ‘const bcf_hdr_t *’ {aka ‘const struct *’} 419 | int bcf_write(htsFile *fp, bcf_hdr_t *h, bcf1_t *v) HTS_RESULT_USED; | ~~~~~~~~~~~^ At top level: cyvcf2/cyvcf2.c:6618:18: warning: ‘__pyx_f_6cyvcf2_6cyvcf2_xstr’ defined but not used [-Wunused-function] 6618 | static PyObject *__pyx_f_6cyvcf2_6cyvcf2_xstr(PyObject *__pyx_v_s) { | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ powerpc64le-linux-gnu-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -fexceptions -g -fwrapv -O2 -g -O3 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Ihtslib -Icyvcf2 -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include/python3.8 -c cyvcf2/helpers.c -o build/temp.linux-ppc64el-3.8/cyvcf2/helpers.o powerpc64le-linux-gnu-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 -O3 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-ppc64el-3.8/cyvcf2/cyvcf2.o build/temp.linux-ppc64el-3.8/cyvcf2/helpers.o -lz -lbz2 -llzma -lcurl -lssl -lhts -lcrypt -o /<>/.pybuild/cpython3_3.8_cyvcf2/build/cyvcf2/cyvcf2.cpython-38-powerpc64le-linux-gnu.so /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: /<>/cyvcf2/cyvcf2.pxd tree = Parsing.p_module(s, pxd, full_module_name) warning: cyvcf2/cyvcf2.pxd:26:16: Declarations should not be declared inline. warning: cyvcf2/cyvcf2.pxd:190:14: 'BCF_HT_FLAG' redeclared warning: cyvcf2/cyvcf2.pxd:283:30: Declarations should not be declared inline. debian/rules override_dh_auto_test make[1]: Entering directory '/<>' dh_auto_test I: pybuild base:217: cd /<>/.pybuild/cpython3_3.8_cyvcf2/build; python3.8 -m nose -v cyvcf2.tests.test_cli.test_version ... ok make sure that we are getting the correct gt_types ... ok cyvcf2.tests.test_reader.test_init ... ok cyvcf2.tests.test_reader.test_type ... ok cyvcf2.tests.test_reader.test_format_str ... [W::vcf_parse] Contig '7' is not defined in the header. (Quick workaround: index the file with tabix.) ok cyvcf2.tests.test_reader.test_missing_samples ... ok cyvcf2.tests.test_reader.test_ibd ... ok cyvcf2.tests.test_reader.test_relatedness ... tested: 44 variants out of 115 ok cyvcf2.tests.test_reader.test_pls ... ok cyvcf2.tests.test_reader.test_gt_alt_freqs ... ok cyvcf2.tests.test_reader.test_str ... ok cyvcf2.tests.test_reader.test_region ... ok cyvcf2.tests.test_reader.test_empty_info ... ok cyvcf2.tests.test_reader.test_phases ... ok cyvcf2.tests.test_reader.test_bad_init ... [E::hts_open_format] Failed to open file "XXXXX" : No such file or directory ok cyvcf2.tests.test_reader.test_samples ... ok cyvcf2.tests.test_reader.test_next ... ok cyvcf2.tests.test_reader.test_variant ... ok cyvcf2.tests.test_reader.test_info_dict ... ok cyvcf2.tests.test_reader.test_attrs ... ok cyvcf2.tests.test_reader.test_empty ... ok cyvcf2.tests.test_reader.test_format_field ... ok cyvcf2.tests.test_reader.test_writer_from_string ... [W::vcf_parse] Contig 'chr1' is not defined in the header. (Quick workaround: index the file with tabix.) ok cyvcf2.tests.test_reader.test_writer ... ok cyvcf2.tests.test_reader.test_add_info_to_header ... ok cyvcf2.tests.test_reader.test_read_flag ... ok cyvcf2.tests.test_reader.test_add_flag ... ok cyvcf2.tests.test_reader.test_constants ... ok cyvcf2.tests.test_reader.test_add_filter_to_header ... ok cyvcf2.tests.test_reader.test_seqnames ... ok cyvcf2.tests.test_reader.test_different_index ... ok cyvcf2.tests.test_reader.test_var_type ... ok cyvcf2.tests.test_reader.test_header_info ... ok cyvcf2.tests.test_reader.test_snpeff_header ... ok cyvcf2.tests.test_reader.test_gt_types ... ok cyvcf2.tests.test_reader.test_raw_header ... ok cyvcf2.tests.test_reader.test_iterate ... ok cyvcf2.tests.test_reader.test_empty_call ... ok cyvcf2.tests.test_reader.test_haploid ... ok cyvcf2.tests.test_reader.test_diploid ... ok cyvcf2.tests.test_reader.test_format ... ok cyvcf2.tests.test_reader.test_header_stuff ... ok cyvcf2.tests.test_reader.test_bcf ... OK no intervals found for b'/<>/.pybuild/cpython3_3.8_cyvcf2/build/cyvcf2/tests/test.snpeff.bcf' at 1:69260-69438 ok cyvcf2.tests.test_reader.test_issue12 ... [W::vcf_parse] Contig '7' is not defined in the header. (Quick workaround: index the file with tabix.) ok Ensure gt_bases works with more complex base representations. ... ok cyvcf2.tests.test_reader.test_set_format_float ... [W::vcf_parse] Contig '7' is not defined in the header. (Quick workaround: index the file with tabix.) /<>/.pybuild/cpython3_3.8_cyvcf2/build/cyvcf2/tests/test_reader.py:586: FutureWarning: Conversion of the second argument of issubdtype from `int` to `np.signedinteger` is deprecated. In future, it will be treated as `np.int64 == np.dtype(int).type`. v.set_format("PS", np.array([0.555, 1.111], dtype=np.float)) /<>/.pybuild/cpython3_3.8_cyvcf2/build/cyvcf2/tests/test_reader.py:586: FutureWarning: Conversion of the second argument of issubdtype from `float` to `np.floating` is deprecated. In future, it will be treated as `np.float64 == np.dtype(float).type`. v.set_format("PS", np.array([0.555, 1.111], dtype=np.float)) /<>/.pybuild/cpython3_3.8_cyvcf2/build/cyvcf2/tests/test_reader.py:589: FutureWarning: Conversion of the second argument of issubdtype from `int` to `np.signedinteger` is deprecated. In future, it will be treated as `np.int64 == np.dtype(int).type`. v.set_format("PS", np.array([8.555, 11.111], dtype=np.float64)) /<>/.pybuild/cpython3_3.8_cyvcf2/build/cyvcf2/tests/test_reader.py:589: FutureWarning: Conversion of the second argument of issubdtype from `float` to `np.floating` is deprecated. In future, it will be treated as `np.float64 == np.dtype(float).type`. v.set_format("PS", np.array([8.555, 11.111], dtype=np.float64)) /<>/.pybuild/cpython3_3.8_cyvcf2/build/cyvcf2/tests/test_reader.py:592: FutureWarning: Conversion of the second argument of issubdtype from `int` to `np.signedinteger` is deprecated. In future, it will be treated as `np.int64 == np.dtype(int).type`. v.set_format("PS", np.array([9998.555, 99911.111], dtype=np.float32)) /<>/.pybuild/cpython3_3.8_cyvcf2/build/cyvcf2/tests/test_reader.py:592: FutureWarning: Conversion of the second argument of issubdtype from `float` to `np.floating` is deprecated. In future, it will be treated as `np.float64 == np.dtype(float).type`. v.set_format("PS", np.array([9998.555, 99911.111], dtype=np.float32)) ok cyvcf2.tests.test_reader.test_set_format_int_a ... [W::vcf_parse] Contig '7' is not defined in the header. (Quick workaround: index the file with tabix.) /<>/.pybuild/cpython3_3.8_cyvcf2/build/cyvcf2/tests/test_reader.py:600: FutureWarning: Conversion of the second argument of issubdtype from `int` to `np.signedinteger` is deprecated. In future, it will be treated as `np.int64 == np.dtype(int).type`. v.set_format("PI", np.array([5, 1], dtype=np.int)) ok cyvcf2.tests.test_reader.test_set_format_int_b ... [W::vcf_parse] Contig '7' is not defined in the header. (Quick workaround: index the file with tabix.) /<>/.pybuild/cpython3_3.8_cyvcf2/build/cyvcf2/tests/test_reader.py:608: FutureWarning: Conversion of the second argument of issubdtype from `int` to `np.signedinteger` is deprecated. In future, it will be treated as `np.int64 == np.dtype(int).type`. v.set_format("PI", np.array([855, 11], dtype=np.int64)) ok cyvcf2.tests.test_reader.test_set_format_int_c ... [W::vcf_parse] Contig '7' is not defined in the header. (Quick workaround: index the file with tabix.) /<>/.pybuild/cpython3_3.8_cyvcf2/build/cyvcf2/tests/test_reader.py:616: FutureWarning: Conversion of the second argument of issubdtype from `int` to `np.signedinteger` is deprecated. In future, it will be treated as `np.int64 == np.dtype(int).type`. v.set_format("PI", np.array([9998, 99911], dtype=np.int32)) ok test that we can handle multiple (in this case 3) values per sample ... [W::vcf_parse] Contig '7' is not defined in the header. (Quick workaround: index the file with tabix.) /<>/.pybuild/cpython3_3.8_cyvcf2/build/cyvcf2/tests/test_reader.py:626: FutureWarning: Conversion of the second argument of issubdtype from `int` to `np.signedinteger` is deprecated. In future, it will be treated as `np.int64 == np.dtype(int).type`. v.set_format("P3", exp) ok cyvcf2.tests.test_reader.test_set_gts ... [W::vcf_parse] Contig '7' is not defined in the header. (Quick workaround: index the file with tabix.) ok cyvcf2.tests.test_reader.test_info_del ... ok cyvcf2.tests.test_reader.test_filter_id ... ok cyvcf2.tests.test_reader.test_access_gts ... [W::vcf_parse] Contig '7' is not defined in the header. (Quick workaround: index the file with tabix.) ok cyvcf2.tests.test_reader.test_access_genotype ... [W::vcf_parse] Contig '7' is not defined in the header. (Quick workaround: index the file with tabix.) ok cyvcf2.tests.test_reader.test_alt_homozygous_gt ... ok cyvcf2.tests.test_reader.test_write_missing_contig ... [W::vcf_parse] Contig '1' is not defined in the header. (Quick workaround: index the file with tabix.) ok cyvcf2.tests.test_reader.test_set_samples ... ok cyvcf2.tests.test_reader.test_hrec ... ok cyvcf2.tests.test_reader.test_issue44 ... ok cyvcf2.tests.test_reader.test_id_field_updates ... ok cyvcf2.tests.test_reader.test_set_pos ... ok cyvcf2.tests.test_reader.test_set_qual ... ok cyvcf2.tests.test_reader.test_strict_gt_option_flag ... ok cyvcf2.tests.test_reader.test_alt_repr ... ok cyvcf2.tests.test_reader.test_closed_iter ... ok cyvcf2.tests.test_reader.test_issue72 ... ok cyvcf2.tests.test_reader.test_is_transition ... ok cyvcf2.tests.test_reader.test_decomposed ... ok cyvcf2.tests.test_reader.test_fd ... ok cyvcf2.tests.test_reader.test_set_reference ... ok cyvcf2.tests.test_reader.test_set_alternates ... ok cyvcf2.tests.test_reader.test_no_seqlen ... ok ---------------------------------------------------------------------- Ran 73 tests in 1.163s OK # clean up after testing find . -name out.vcf -delete make[1]: Leaving directory '/<>' create-stamp debian/debhelper-build-stamp dh_testroot -a -O--buildsystem=pybuild dh_prep -a -O--buildsystem=pybuild dh_auto_install -a -O--buildsystem=pybuild I: pybuild base:217: /usr/bin/python3 setup.py install --root /<>/debian/python3-cyvcf2 running install running build running build_py running egg_info writing cyvcf2.egg-info/PKG-INFO writing dependency_links to cyvcf2.egg-info/dependency_links.txt writing entry points to cyvcf2.egg-info/entry_points.txt writing requirements to cyvcf2.egg-info/requires.txt writing top-level names to cyvcf2.egg-info/top_level.txt reading manifest file 'cyvcf2.egg-info/SOURCES.txt' reading manifest template 'MANIFEST.in' warning: no files found matching 'htslib/*.c' warning: no files found matching 'htslib/*.h' warning: no files found matching 'htslib/htslib/*.h' warning: no files found matching 'htslib/cram/*.c' warning: no files found matching 'htslib/cram/*.h' writing manifest file 'cyvcf2.egg-info/SOURCES.txt' copying cyvcf2/cyvcf2.c -> /<>/.pybuild/cpython3_3.8_cyvcf2/build/cyvcf2 running build_ext skipping 'cyvcf2/cyvcf2.c' Cython extension (up-to-date) running install_lib creating /<>/debian/python3-cyvcf2/usr creating /<>/debian/python3-cyvcf2/usr/lib creating /<>/debian/python3-cyvcf2/usr/lib/python3.8 creating /<>/debian/python3-cyvcf2/usr/lib/python3.8/dist-packages creating /<>/debian/python3-cyvcf2/usr/lib/python3.8/dist-packages/cyvcf2 copying /<>/.pybuild/cpython3_3.8_cyvcf2/build/cyvcf2/__init__.py -> /<>/debian/python3-cyvcf2/usr/lib/python3.8/dist-packages/cyvcf2 copying /<>/.pybuild/cpython3_3.8_cyvcf2/build/cyvcf2/cyvcf2.cpython-38-powerpc64le-linux-gnu.so -> /<>/debian/python3-cyvcf2/usr/lib/python3.8/dist-packages/cyvcf2 creating /<>/debian/python3-cyvcf2/usr/lib/python3.8/dist-packages/cyvcf2/__pycache__ copying /<>/.pybuild/cpython3_3.8_cyvcf2/build/cyvcf2/__pycache__/__init__.cpython-38.pyc -> /<>/debian/python3-cyvcf2/usr/lib/python3.8/dist-packages/cyvcf2/__pycache__ copying /<>/.pybuild/cpython3_3.8_cyvcf2/build/cyvcf2/__pycache__/cli.cpython-38.pyc -> /<>/debian/python3-cyvcf2/usr/lib/python3.8/dist-packages/cyvcf2/__pycache__ copying /<>/.pybuild/cpython3_3.8_cyvcf2/build/cyvcf2/helpers.h -> /<>/debian/python3-cyvcf2/usr/lib/python3.8/dist-packages/cyvcf2 creating /<>/debian/python3-cyvcf2/usr/lib/python3.8/dist-packages/cyvcf2/tests copying /<>/.pybuild/cpython3_3.8_cyvcf2/build/cyvcf2/tests/__init__.py -> /<>/debian/python3-cyvcf2/usr/lib/python3.8/dist-packages/cyvcf2/tests copying /<>/.pybuild/cpython3_3.8_cyvcf2/build/cyvcf2/tests/seg.vcf.gz -> /<>/debian/python3-cyvcf2/usr/lib/python3.8/dist-packages/cyvcf2/tests copying /<>/.pybuild/cpython3_3.8_cyvcf2/build/cyvcf2/tests/test.bug.117.vcf -> /<>/debian/python3-cyvcf2/usr/lib/python3.8/dist-packages/cyvcf2/tests creating /<>/debian/python3-cyvcf2/usr/lib/python3.8/dist-packages/cyvcf2/tests/__pycache__ copying /<>/.pybuild/cpython3_3.8_cyvcf2/build/cyvcf2/tests/__pycache__/__init__.cpython-38.pyc -> /<>/debian/python3-cyvcf2/usr/lib/python3.8/dist-packages/cyvcf2/tests/__pycache__ copying /<>/.pybuild/cpython3_3.8_cyvcf2/build/cyvcf2/tests/__pycache__/test_reader.cpython-38.pyc -> /<>/debian/python3-cyvcf2/usr/lib/python3.8/dist-packages/cyvcf2/tests/__pycache__ copying /<>/.pybuild/cpython3_3.8_cyvcf2/build/cyvcf2/tests/__pycache__/test_cli.cpython-38.pyc -> /<>/debian/python3-cyvcf2/usr/lib/python3.8/dist-packages/cyvcf2/tests/__pycache__ copying /<>/.pybuild/cpython3_3.8_cyvcf2/build/cyvcf2/tests/__pycache__/test_hemi.cpython-38.pyc -> /<>/debian/python3-cyvcf2/usr/lib/python3.8/dist-packages/cyvcf2/tests/__pycache__ copying /<>/.pybuild/cpython3_3.8_cyvcf2/build/cyvcf2/tests/test-strict-gt-option-flag.vcf.gz.tbi -> /<>/debian/python3-cyvcf2/usr/lib/python3.8/dist-packages/cyvcf2/tests copying /<>/.pybuild/cpython3_3.8_cyvcf2/build/cyvcf2/tests/test-diff.csi -> /<>/debian/python3-cyvcf2/usr/lib/python3.8/dist-packages/cyvcf2/tests copying /<>/.pybuild/cpython3_3.8_cyvcf2/build/cyvcf2/tests/test-haploidX.vcf -> /<>/debian/python3-cyvcf2/usr/lib/python3.8/dist-packages/cyvcf2/tests copying /<>/.pybuild/cpython3_3.8_cyvcf2/build/cyvcf2/tests/test_cli.py -> /<>/debian/python3-cyvcf2/usr/lib/python3.8/dist-packages/cyvcf2/tests copying /<>/.pybuild/cpython3_3.8_cyvcf2/build/cyvcf2/tests/test.vcf.gz -> /<>/debian/python3-cyvcf2/usr/lib/python3.8/dist-packages/cyvcf2/tests copying /<>/.pybuild/cpython3_3.8_cyvcf2/build/cyvcf2/tests/bug.vcf.gz -> /<>/debian/python3-cyvcf2/usr/lib/python3.8/dist-packages/cyvcf2/tests copying /<>/.pybuild/cpython3_3.8_cyvcf2/build/cyvcf2/tests/test_gt_alt_freqs.vcf -> /<>/debian/python3-cyvcf2/usr/lib/python3.8/dist-packages/cyvcf2/tests copying /<>/.pybuild/cpython3_3.8_cyvcf2/build/cyvcf2/tests/test_hemi.py -> /<>/debian/python3-cyvcf2/usr/lib/python3.8/dist-packages/cyvcf2/tests copying /<>/.pybuild/cpython3_3.8_cyvcf2/build/cyvcf2/tests/test.vcf.gz.tbi -> /<>/debian/python3-cyvcf2/usr/lib/python3.8/dist-packages/cyvcf2/tests copying /<>/.pybuild/cpython3_3.8_cyvcf2/build/cyvcf2/tests/test-strict-gt-option-flag.vcf.gz -> /<>/debian/python3-cyvcf2/usr/lib/python3.8/dist-packages/cyvcf2/tests copying /<>/.pybuild/cpython3_3.8_cyvcf2/build/cyvcf2/tests/test.comp_het.3.vcf -> /<>/debian/python3-cyvcf2/usr/lib/python3.8/dist-packages/cyvcf2/tests copying /<>/.pybuild/cpython3_3.8_cyvcf2/build/cyvcf2/tests/test.snpeff.bcf.csi -> /<>/debian/python3-cyvcf2/usr/lib/python3.8/dist-packages/cyvcf2/tests copying /<>/.pybuild/cpython3_3.8_cyvcf2/build/cyvcf2/tests/test_gt_bases.vcf.gz -> /<>/debian/python3-cyvcf2/usr/lib/python3.8/dist-packages/cyvcf2/tests copying /<>/.pybuild/cpython3_3.8_cyvcf2/build/cyvcf2/tests/decomposed.vcf -> /<>/debian/python3-cyvcf2/usr/lib/python3.8/dist-packages/cyvcf2/tests copying /<>/.pybuild/cpython3_3.8_cyvcf2/build/cyvcf2/tests/empty.vcf -> /<>/debian/python3-cyvcf2/usr/lib/python3.8/dist-packages/cyvcf2/tests copying /<>/.pybuild/cpython3_3.8_cyvcf2/build/cyvcf2/tests/no-seq-len.vcf -> /<>/debian/python3-cyvcf2/usr/lib/python3.8/dist-packages/cyvcf2/tests copying /<>/.pybuild/cpython3_3.8_cyvcf2/build/cyvcf2/tests/test.snpeff.vcf -> /<>/debian/python3-cyvcf2/usr/lib/python3.8/dist-packages/cyvcf2/tests copying /<>/.pybuild/cpython3_3.8_cyvcf2/build/cyvcf2/tests/test.snpeff.bcf -> /<>/debian/python3-cyvcf2/usr/lib/python3.8/dist-packages/cyvcf2/tests copying /<>/.pybuild/cpython3_3.8_cyvcf2/build/cyvcf2/tests/test-hemi.vcf -> /<>/debian/python3-cyvcf2/usr/lib/python3.8/dist-packages/cyvcf2/tests copying /<>/.pybuild/cpython3_3.8_cyvcf2/build/cyvcf2/tests/o.vcf.gz -> /<>/debian/python3-cyvcf2/usr/lib/python3.8/dist-packages/cyvcf2/tests copying /<>/.pybuild/cpython3_3.8_cyvcf2/build/cyvcf2/tests/test-multiallelic-homozygous-alt.vcf.gz.tbi -> /<>/debian/python3-cyvcf2/usr/lib/python3.8/dist-packages/cyvcf2/tests copying /<>/.pybuild/cpython3_3.8_cyvcf2/build/cyvcf2/tests/test-alt-repr.vcf -> /<>/debian/python3-cyvcf2/usr/lib/python3.8/dist-packages/cyvcf2/tests copying /<>/.pybuild/cpython3_3.8_cyvcf2/build/cyvcf2/tests/issue_44.vcf -> /<>/debian/python3-cyvcf2/usr/lib/python3.8/dist-packages/cyvcf2/tests copying /<>/.pybuild/cpython3_3.8_cyvcf2/build/cyvcf2/tests/test_reader.py -> /<>/debian/python3-cyvcf2/usr/lib/python3.8/dist-packages/cyvcf2/tests copying /<>/.pybuild/cpython3_3.8_cyvcf2/build/cyvcf2/tests/test-multiallelic-homozygous-alt.vcf.gz -> /<>/debian/python3-cyvcf2/usr/lib/python3.8/dist-packages/cyvcf2/tests copying /<>/.pybuild/cpython3_3.8_cyvcf2/build/cyvcf2/tests/test-format-string.vcf -> /<>/debian/python3-cyvcf2/usr/lib/python3.8/dist-packages/cyvcf2/tests copying /<>/.pybuild/cpython3_3.8_cyvcf2/build/cyvcf2/tests/no-seq-names.vcf -> /<>/debian/python3-cyvcf2/usr/lib/python3.8/dist-packages/cyvcf2/tests copying /<>/.pybuild/cpython3_3.8_cyvcf2/build/cyvcf2/helpers.c -> /<>/debian/python3-cyvcf2/usr/lib/python3.8/dist-packages/cyvcf2 copying /<>/.pybuild/cpython3_3.8_cyvcf2/build/cyvcf2/__main__.py -> /<>/debian/python3-cyvcf2/usr/lib/python3.8/dist-packages/cyvcf2 copying /<>/.pybuild/cpython3_3.8_cyvcf2/build/cyvcf2/cyvcf2.c -> /<>/debian/python3-cyvcf2/usr/lib/python3.8/dist-packages/cyvcf2 copying /<>/.pybuild/cpython3_3.8_cyvcf2/build/cyvcf2/cyvcf2.pyx -> /<>/debian/python3-cyvcf2/usr/lib/python3.8/dist-packages/cyvcf2 copying /<>/.pybuild/cpython3_3.8_cyvcf2/build/cyvcf2/cli.py -> /<>/debian/python3-cyvcf2/usr/lib/python3.8/dist-packages/cyvcf2 copying /<>/.pybuild/cpython3_3.8_cyvcf2/build/cyvcf2/cyvcf2.pxd -> /<>/debian/python3-cyvcf2/usr/lib/python3.8/dist-packages/cyvcf2 copying /<>/.pybuild/cpython3_3.8_cyvcf2/build/cyvcf2/relatedness.h -> /<>/debian/python3-cyvcf2/usr/lib/python3.8/dist-packages/cyvcf2 byte-compiling /<>/debian/python3-cyvcf2/usr/lib/python3.8/dist-packages/cyvcf2/__init__.py to __init__.cpython-38.pyc byte-compiling /<>/debian/python3-cyvcf2/usr/lib/python3.8/dist-packages/cyvcf2/tests/__init__.py to __init__.cpython-38.pyc byte-compiling /<>/debian/python3-cyvcf2/usr/lib/python3.8/dist-packages/cyvcf2/tests/test_cli.py to test_cli.cpython-38.pyc byte-compiling /<>/debian/python3-cyvcf2/usr/lib/python3.8/dist-packages/cyvcf2/tests/test_hemi.py to test_hemi.cpython-38.pyc byte-compiling /<>/debian/python3-cyvcf2/usr/lib/python3.8/dist-packages/cyvcf2/tests/test_reader.py to test_reader.cpython-38.pyc byte-compiling /<>/debian/python3-cyvcf2/usr/lib/python3.8/dist-packages/cyvcf2/__main__.py to __main__.cpython-38.pyc byte-compiling /<>/debian/python3-cyvcf2/usr/lib/python3.8/dist-packages/cyvcf2/cli.py to cli.cpython-38.pyc running install_egg_info Copying cyvcf2.egg-info to /<>/debian/python3-cyvcf2/usr/lib/python3.8/dist-packages/cyvcf2-0.11.6.egg-info Skipping SOURCES.txt running install_scripts Installing cyvcf2 script to /<>/debian/python3-cyvcf2/usr/bin debian/rules override_dh_install make[1]: Entering directory '/<>' dh_numpy3 dh_install make[1]: Leaving directory '/<>' dh_installdocs -a -O--buildsystem=pybuild dh_installchangelogs -a -O--buildsystem=pybuild debian/rules override_dh_installman make[1]: Entering directory '/<>' PATH=$PATH:/<>/debian/python3-cyvcf2/usr/bin \ PYTHONPATH=/<>/debian/python3-cyvcf2/usr/lib/python3.8/dist-packages/ \ help2man --no-info \ --name="fast parsing of VCF and BCF including region-queries" \ --version-string=0.11.6 cyvcf2 > debian/cyvcf2.1 dh_installman make[1]: Leaving directory '/<>' dh_python3 -a -O--buildsystem=pybuild dh_installinit -a -O--buildsystem=pybuild dh_installsystemduser -a -O--buildsystem=pybuild dh_perl -a -O--buildsystem=pybuild dh_link -a -O--buildsystem=pybuild dh_strip_nondeterminism -a -O--buildsystem=pybuild dh_compress -a -O--buildsystem=pybuild 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-cyvcf2: substitution variable ${python3:Provides} unused, but is defined dpkg-gencontrol: warning: package python3-cyvcf2: substitution variable ${python3:Versions} unused, but is defined dpkg-gencontrol: warning: package python3-cyvcf2: substitution variable ${python3:Provides} unused, but is defined dpkg-gencontrol: warning: package python3-cyvcf2: 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-cyvcf2 (in debian/python3-cyvcf2); do_strip: , oemstrip: pkgstriptranslations: processing python3-cyvcf2-dbgsym (in debian/.debhelper/python3-cyvcf2/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-cyvcf2/DEBIAN/control, package python3-cyvcf2, directory debian/python3-cyvcf2 pkgstripfiles: processing control file: debian/.debhelper/python3-cyvcf2/dbgsym-root/DEBIAN/control, package python3-cyvcf2-dbgsym, directory debian/.debhelper/python3-cyvcf2/dbgsym-root dpkg-deb: building package 'python3-cyvcf2-dbgsym' in 'debian/.debhelper/scratch-space/build-python3-cyvcf2/python3-cyvcf2-dbgsym_0.11.6-1_ppc64el.deb'. pkgstripfiles: Truncating usr/share/doc/python3-cyvcf2/changelog.Debian.gz to topmost ten records pkgstripfiles: Running PNG optimization (using 4 cpus) for package python3-cyvcf2 ... pkgstripfiles: No PNG files. dpkg-deb: building package 'python3-cyvcf2' in '../python3-cyvcf2_0.11.6-1_ppc64el.deb'. Renaming python3-cyvcf2-dbgsym_0.11.6-1_ppc64el.deb to python3-cyvcf2-dbgsym_0.11.6-1_ppc64el.ddeb dpkg-genbuildinfo --build=any dpkg-genchanges --build=any -mLaunchpad Build Daemon >../cyvcf2_0.11.6-1_ppc64el.changes dpkg-genchanges: info: binary-only arch-specific upload (source code and arch-indep packages not included) dpkg-source --after-build . dpkg-source: info: using options from cyvcf2-0.11.6/debian/source/options: --extend-diff-ignore=^[^/]*[.]egg-info/ dpkg-buildpackage: info: binary-only upload (no source included) -------------------------------------------------------------------------------- Build finished at 20200225-2314 Finished -------- I: Built successfully +------------------------------------------------------------------------------+ | Post Build Chroot | +------------------------------------------------------------------------------+ +------------------------------------------------------------------------------+ | Changes | +------------------------------------------------------------------------------+ cyvcf2_0.11.6-1_ppc64el.changes: -------------------------------- Format: 1.8 Date: Tue, 25 Feb 2020 14:57:29 +0100 Source: cyvcf2 Binary: python3-cyvcf2 Architecture: ppc64el Version: 0.11.6-1 Distribution: focal-proposed Urgency: medium Maintainer: Launchpad Build Daemon Changed-By: Steffen Moeller Description: python3-cyvcf2 - VCF parser based on htslib (Python 3) Changes: cyvcf2 (0.11.6-1) unstable; urgency=medium . * New upstream version * Standards-Version: 4.5.0 (routine-update) * Adjusted spelling fixes - 4 already fixed upstream, submitted PR for the last on https://github.com/brentp/cyvcf2/pull/140 Checksums-Sha1: f810434cf10e169457c65bdae220590114ee6b83 7831 cyvcf2_0.11.6-1_ppc64el.buildinfo 2e015d35ad06641d674d97611f13e914a8181b2c 1480672 python3-cyvcf2-dbgsym_0.11.6-1_ppc64el.ddeb 7ee795058e65509461e0e01e0f7de2ea0ab13c2c 830132 python3-cyvcf2_0.11.6-1_ppc64el.deb Checksums-Sha256: 141b4c3919f8e5ac597e5d099671b7fffff28cb747fa2085e13badb69c8968ea 7831 cyvcf2_0.11.6-1_ppc64el.buildinfo 2ee0549e211042ab30f122cbd2d8faeb750c9a38b2aa7cc0f000c49d29cf6bbd 1480672 python3-cyvcf2-dbgsym_0.11.6-1_ppc64el.ddeb 2f90cf1ba6d29707151b25ba8df6b62b535526d6aca483d2f8d8f853f207bdc3 830132 python3-cyvcf2_0.11.6-1_ppc64el.deb Files: d684775725bc87a6b180bf0f954208f8 7831 science optional cyvcf2_0.11.6-1_ppc64el.buildinfo f2b2a3266c647bb690316f1570b11913 1480672 debug optional python3-cyvcf2-dbgsym_0.11.6-1_ppc64el.ddeb 69cb7c274003d75055e591315b1f03c3 830132 python optional python3-cyvcf2_0.11.6-1_ppc64el.deb +------------------------------------------------------------------------------+ | Package contents | +------------------------------------------------------------------------------+ python3-cyvcf2_0.11.6-1_ppc64el.deb ----------------------------------- new debian package, version 2.0. size 830132 bytes: control archive=2576 bytes. 997 bytes, 21 lines control 4594 bytes, 50 lines md5sums 254 bytes, 12 lines * postinst #!/bin/sh 403 bytes, 12 lines * prerm #!/bin/sh Package: python3-cyvcf2 Source: cyvcf2 Version: 0.11.6-1 Architecture: ppc64el Maintainer: Ubuntu Developers Original-Maintainer: Debian Med Packaging Team Installed-Size: 4875 Depends: python3-numpy (>= 1:1.16.0~rc1), python3-numpy-abi9, python3 (<< 3.9), python3 (>= 3.8~), python3:any, libc6 (>= 2.17), libhts3 (>= 1.10), python3-coloredlogs, python3-click Section: python Priority: optional Homepage: https://github.com/brentp/cyvcf2 Description: VCF parser based on htslib (Python 3) This modules allows fast parsing of VCF and BCF including region-queries with Python. This is essential for efficient analyses of nucleotide variation with Python on high-throughput sequencing data. . cyvcf2 is a cython wrapper around htslib. Attributes like variant.gt_ref_depths return a numpy array directly so they are immediately ready for downstream use. . 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successful Version: 0.11.6-1 -------------------------------------------------------------------------------- Finished at 20200225-2314 Build needed 00:01:21, 46600k disc space RUN: /usr/share/launchpad-buildd/bin/in-target scan-for-processes --backend=chroot --series=focal --arch=ppc64el PACKAGEBUILD-18764289 Scanning for processes to kill in build PACKAGEBUILD-18764289