https://launchpad.net/ubuntu/+source/kallisto/0.48.0+dfsg-4/+build/26016520 RUN: /usr/share/launchpad-buildd/bin/builder-prep Kernel version: Linux bos02-s390x-003 5.4.0-147-generic #164-Ubuntu SMP Tue Mar 21 14:22:27 UTC 2023 s390x Buildd toolchain package versions: launchpad-buildd_231~626~ubuntu20.04.1 python3-lpbuildd_231~626~ubuntu20.04.1 sbuild_0.79.0-1ubuntu1 git-build-recipe_0.3.6 git_1:2.25.1-1ubuntu3.10 dpkg-dev_1.19.7ubuntu3.2 python3-debian_0.1.36ubuntu1. Syncing the system clock with the buildd NTP service... 2 May 02:45:59 ntpdate[1896]: 10.211.37.1 rate limit response from server. 2 May 02:45:59 ntpdate[1896]: adjust time server 10.211.37.1 offset 0.000543 sec RUN: /usr/share/launchpad-buildd/bin/in-target unpack-chroot --backend=chroot --series=mantic --arch=s390x PACKAGEBUILD-26016520 --image-type chroot /home/buildd/filecache-default/22b7ec405c1fe881d1e0795ebcfd3bff662be15c Creating target for build PACKAGEBUILD-26016520 RUN: /usr/share/launchpad-buildd/bin/in-target mount-chroot --backend=chroot --series=mantic --arch=s390x PACKAGEBUILD-26016520 Starting target for build PACKAGEBUILD-26016520 RUN: /usr/share/launchpad-buildd/bin/in-target override-sources-list --backend=chroot --series=mantic --arch=s390x PACKAGEBUILD-26016520 'deb http://ftpmaster.internal/ubuntu mantic main universe' 'deb http://ftpmaster.internal/ubuntu mantic-security main universe' 'deb http://ftpmaster.internal/ubuntu mantic-updates main universe' 'deb http://ftpmaster.internal/ubuntu mantic-proposed main universe' Overriding sources.list in build-PACKAGEBUILD-26016520 RUN: /usr/share/launchpad-buildd/bin/in-target update-debian-chroot --backend=chroot --series=mantic --arch=s390x PACKAGEBUILD-26016520 Updating target for build PACKAGEBUILD-26016520 Get:1 http://ftpmaster.internal/ubuntu mantic InRelease [212 kB] Get:2 http://ftpmaster.internal/ubuntu mantic-security InRelease [74.9 kB] Get:3 http://ftpmaster.internal/ubuntu mantic-updates InRelease [74.9 kB] Get:4 http://ftpmaster.internal/ubuntu mantic-proposed InRelease [74.9 kB] Get:5 http://ftpmaster.internal/ubuntu mantic/main s390x Packages [1321 kB] Get:6 http://ftpmaster.internal/ubuntu mantic/main Translation-en [514 kB] Get:7 http://ftpmaster.internal/ubuntu mantic/universe s390x Packages [13.8 MB] Get:8 http://ftpmaster.internal/ubuntu mantic/universe Translation-en [5906 kB] Get:9 http://ftpmaster.internal/ubuntu mantic-proposed/main s390x Packages [74.9 kB] Get:10 http://ftpmaster.internal/ubuntu mantic-proposed/main Translation-en [40.4 kB] Get:11 http://ftpmaster.internal/ubuntu mantic-proposed/universe s390x Packages [203 kB] Get:12 http://ftpmaster.internal/ubuntu mantic-proposed/universe Translation-en [144 kB] Fetched 22.4 MB in 7s (3082 kB/s) Reading package lists... Reading package lists... Building dependency tree... Reading state information... Calculating upgrade... The following NEW packages will be installed: gcc-13-base libproc2-0 The following packages will be upgraded: adduser advancecomp apt base-files bash binutils binutils-common binutils-s390x-linux-gnu ca-certificates coreutils cpp cpp-12 dash debconf diffutils dpkg dpkg-dev e2fsprogs fakeroot g++ g++-12 gcc gcc-12 gcc-12-base gpg gpg-agent gpgconf gpgv grep hostname libacl1 libapparmor1 libapt-pkg6.0 libargon2-1 libasan8 libatomic1 libattr1 libaudit-common libaudit1 libbinutils libc-bin libc-dev-bin libc6 libc6-dev libcap-ng0 libcap2 libcc1-0 libcom-err2 libcrypt-dev libcrypt1 libcryptsetup12 libctf-nobfd0 libctf0 libdb5.3 libdebconfclient0 libdpkg-perl libext2fs2 libfakeroot libgcc-12-dev libgcc-s1 libgcrypt20 libgnutls30 libgomp1 libitm1 libkmod2 liblzma5 libmpfr6 libncurses6 libncursesw6 libp11-kit0 libpcre2-8-0 libperl5.36 libreadline8 libseccomp2 libselinux1 libsemanage-common libsemanage2 libsqlite3-0 libss2 libssl3 libstdc++-12-dev libstdc++6 libsystemd-shared libsystemd0 libtinfo6 libubsan1 libudev1 libzstd1 linux-libc-dev logsave lsb-base lto-disabled-list ncurses-base ncurses-bin openssl perl perl-base perl-modules-5.36 pkgbinarymangler procps readline-common sed sensible-utils systemd systemd-sysv sysvinit-utils tar tzdata xz-utils zlib1g 110 upgraded, 2 newly installed, 0 to remove and 0 not upgraded. Need to get 86.3 MB of archives. After this operation, 1037 kB disk space will be freed. Get:1 http://ftpmaster.internal/ubuntu mantic/main s390x libcrypt-dev s390x 1:4.4.33-2 [114 kB] Get:2 http://ftpmaster.internal/ubuntu mantic/main s390x libc6-dev s390x 2.37-0ubuntu2 [1511 kB] Get:3 http://ftpmaster.internal/ubuntu mantic/main s390x libc-dev-bin s390x 2.37-0ubuntu2 [19.6 kB] Get:4 http://ftpmaster.internal/ubuntu mantic/main s390x libcrypt1 s390x 1:4.4.33-2 [82.2 kB] Get:5 http://ftpmaster.internal/ubuntu mantic/main s390x linux-libc-dev s390x 6.2.0-21.21 [1503 kB] Get:6 http://ftpmaster.internal/ubuntu mantic/main s390x libc6 s390x 2.37-0ubuntu2 [2684 kB] Get:7 http://ftpmaster.internal/ubuntu mantic/main s390x libc-bin s390x 2.37-0ubuntu2 [599 kB] Get:8 http://ftpmaster.internal/ubuntu mantic-proposed/main s390x gcc-13-base s390x 13.1.0-1ubuntu1 [40.8 kB] Get:9 http://ftpmaster.internal/ubuntu mantic-proposed/main s390x libgcc-s1 s390x 13.1.0-1ubuntu1 [35.6 kB] Get:10 http://ftpmaster.internal/ubuntu mantic/main s390x base-files s390x 12.3ubuntu3 [76.0 kB] Get:11 http://ftpmaster.internal/ubuntu mantic/main s390x bash s390x 5.2.15-2ubuntu1 [786 kB] Get:12 http://ftpmaster.internal/ubuntu mantic/main s390x coreutils s390x 9.1-1ubuntu2 [1390 kB] Get:13 http://ftpmaster.internal/ubuntu mantic/main s390x liblzma5 s390x 5.4.1-0.2 [124 kB] Get:14 http://ftpmaster.internal/ubuntu mantic/main s390x libgcrypt20 s390x 1.10.1-3ubuntu1 [466 kB] Get:15 http://ftpmaster.internal/ubuntu mantic-proposed/main s390x libstdc++6 s390x 13.1.0-1ubuntu1 [876 kB] Get:16 http://ftpmaster.internal/ubuntu mantic/main s390x libacl1 s390x 2.3.1-3 [16.5 kB] Get:17 http://ftpmaster.internal/ubuntu mantic/main s390x libapparmor1 s390x 3.0.8-1ubuntu2 [46.2 kB] Get:18 http://ftpmaster.internal/ubuntu mantic/main s390x libaudit-common all 1:3.0.9-1 [5142 B] Get:19 http://ftpmaster.internal/ubuntu mantic/main s390x libcap-ng0 s390x 0.8.3-1build2 [15.1 kB] Get:20 http://ftpmaster.internal/ubuntu mantic/main s390x libaudit1 s390x 1:3.0.9-1 [45.9 kB] Get:21 http://ftpmaster.internal/ubuntu mantic/main s390x libcap2 s390x 1:2.66-3ubuntu2 [28.4 kB] Get:22 http://ftpmaster.internal/ubuntu mantic/main s390x libperl5.36 s390x 5.36.0-7 [4716 kB] Get:23 http://ftpmaster.internal/ubuntu mantic/main s390x perl s390x 5.36.0-7 [235 kB] Get:24 http://ftpmaster.internal/ubuntu mantic/main s390x perl-base s390x 5.36.0-7 [1713 kB] Get:25 http://ftpmaster.internal/ubuntu mantic/main s390x perl-modules-5.36 all 5.36.0-7 [2984 kB] Get:26 http://ftpmaster.internal/ubuntu mantic/main s390x libdb5.3 s390x 5.3.28+dfsg2-1 [707 kB] Get:27 http://ftpmaster.internal/ubuntu mantic/main s390x zlib1g s390x 1:1.2.13.dfsg-1ubuntu4 [65.6 kB] Get:28 http://ftpmaster.internal/ubuntu mantic/main s390x debconf all 1.5.82 [125 kB] Get:29 http://ftpmaster.internal/ubuntu mantic/main s390x libssl3 s390x 3.0.8-1ubuntu1 [1576 kB] Get:30 http://ftpmaster.internal/ubuntu mantic-proposed/main s390x libzstd1 s390x 1.5.4+dfsg2-5 [269 kB] Get:31 http://ftpmaster.internal/ubuntu mantic/main s390x libkmod2 s390x 30+20221128-1ubuntu1 [48.1 kB] Get:32 http://ftpmaster.internal/ubuntu mantic/main s390x libseccomp2 s390x 2.5.4-1ubuntu3 [49.1 kB] Get:33 http://ftpmaster.internal/ubuntu mantic/main s390x libpcre2-8-0 s390x 10.42-1 [210 kB] Get:34 http://ftpmaster.internal/ubuntu mantic/main s390x libselinux1 s390x 3.4-1build4 [77.2 kB] Get:35 http://ftpmaster.internal/ubuntu mantic/main s390x systemd-sysv s390x 252.5-2ubuntu3 [11.5 kB] Get:36 http://ftpmaster.internal/ubuntu mantic/main s390x systemd s390x 252.5-2ubuntu3 [2861 kB] Get:37 http://ftpmaster.internal/ubuntu mantic/main s390x libsystemd-shared s390x 252.5-2ubuntu3 [1731 kB] Get:38 http://ftpmaster.internal/ubuntu mantic-proposed/main s390x libargon2-1 s390x 0~20190702+dfsg-3 [50.4 kB] Get:39 http://ftpmaster.internal/ubuntu mantic/main s390x libcryptsetup12 s390x 2:2.6.1-1ubuntu1 [215 kB] Get:40 http://ftpmaster.internal/ubuntu mantic/main s390x libp11-kit0 s390x 0.24.1-2ubuntu1 [249 kB] Get:41 http://ftpmaster.internal/ubuntu mantic/main s390x libsystemd0 s390x 252.5-2ubuntu3 [378 kB] Get:42 http://ftpmaster.internal/ubuntu mantic/main s390x libudev1 s390x 252.5-2ubuntu3 [148 kB] Get:43 http://ftpmaster.internal/ubuntu mantic/main s390x libapt-pkg6.0 s390x 2.6.0 [888 kB] Get:44 http://ftpmaster.internal/ubuntu mantic/main s390x tar s390x 1.34+dfsg-1.2 [289 kB] Get:45 http://ftpmaster.internal/ubuntu mantic/main s390x dpkg s390x 1.21.21ubuntu1 [1380 kB] Get:46 http://ftpmaster.internal/ubuntu mantic/main s390x dash s390x 0.5.12-2ubuntu1 [88.8 kB] Get:47 http://ftpmaster.internal/ubuntu mantic/main s390x diffutils s390x 1:3.8-4 [177 kB] Get:48 http://ftpmaster.internal/ubuntu mantic/main s390x grep s390x 3.8-5 [160 kB] Get:49 http://ftpmaster.internal/ubuntu mantic/main s390x hostname s390x 3.23+nmu1ubuntu1 [10.8 kB] Get:50 http://ftpmaster.internal/ubuntu mantic/main s390x ncurses-bin s390x 6.4-2 [186 kB] Get:51 http://ftpmaster.internal/ubuntu mantic/main s390x sed s390x 4.9-1 [193 kB] Get:52 http://ftpmaster.internal/ubuntu mantic/main s390x ncurses-base all 6.4-2 [21.3 kB] Get:53 http://ftpmaster.internal/ubuntu mantic/main s390x sysvinit-utils s390x 3.06-2ubuntu1 [32.7 kB] Get:54 http://ftpmaster.internal/ubuntu mantic/main s390x lsb-base all 11.6 [4606 B] Get:55 http://ftpmaster.internal/ubuntu mantic/main s390x adduser all 3.129ubuntu1 [59.0 kB] Get:56 http://ftpmaster.internal/ubuntu mantic/main s390x gpgv s390x 2.2.40-1.1ubuntu1 [136 kB] Get:57 http://ftpmaster.internal/ubuntu mantic/main s390x libgnutls30 s390x 3.7.8-5ubuntu1 [892 kB] Get:58 http://ftpmaster.internal/ubuntu mantic/main s390x apt s390x 2.6.0 [1360 kB] Get:59 http://ftpmaster.internal/ubuntu mantic/main s390x logsave s390x 1.47.0-1ubuntu1 [14.1 kB] Get:60 http://ftpmaster.internal/ubuntu mantic/main s390x libext2fs2 s390x 1.47.0-1ubuntu1 [212 kB] Get:61 http://ftpmaster.internal/ubuntu mantic/main s390x e2fsprogs s390x 1.47.0-1ubuntu1 [589 kB] Get:62 http://ftpmaster.internal/ubuntu mantic/main s390x libattr1 s390x 1:2.5.1-4 [12.4 kB] Get:63 http://ftpmaster.internal/ubuntu mantic/main s390x libdebconfclient0 s390x 0.267ubuntu1 [7838 B] Get:64 http://ftpmaster.internal/ubuntu mantic/main s390x libsemanage-common all 3.4-1build4 [9852 B] Get:65 http://ftpmaster.internal/ubuntu mantic/main s390x libsemanage2 s390x 3.4-1build4 [88.5 kB] Get:66 http://ftpmaster.internal/ubuntu mantic/main s390x libncurses6 s390x 6.4-2 [111 kB] Get:67 http://ftpmaster.internal/ubuntu mantic/main s390x libncursesw6 s390x 6.4-2 [143 kB] Get:68 http://ftpmaster.internal/ubuntu mantic/main s390x libtinfo6 s390x 6.4-2 [101 kB] Get:69 http://ftpmaster.internal/ubuntu mantic/main s390x libcom-err2 s390x 1.47.0-1ubuntu1 [14.4 kB] Get:70 http://ftpmaster.internal/ubuntu mantic/main s390x libproc2-0 s390x 2:4.0.3-1ubuntu1 [52.0 kB] Get:71 http://ftpmaster.internal/ubuntu mantic/main s390x libss2 s390x 1.47.0-1ubuntu1 [16.6 kB] Get:72 http://ftpmaster.internal/ubuntu mantic/main s390x procps s390x 2:4.0.3-1ubuntu1 [605 kB] Get:73 http://ftpmaster.internal/ubuntu mantic/main s390x sensible-utils all 0.0.17+nmu1 [19.3 kB] Get:74 http://ftpmaster.internal/ubuntu mantic/main s390x openssl s390x 3.0.8-1ubuntu1 [1166 kB] Get:75 http://ftpmaster.internal/ubuntu mantic/main s390x ca-certificates all 20230311 [155 kB] Get:76 http://ftpmaster.internal/ubuntu mantic/main s390x readline-common all 8.2-1.3 [55.7 kB] Get:77 http://ftpmaster.internal/ubuntu mantic/main s390x libreadline8 s390x 8.2-1.3 [151 kB] Get:78 http://ftpmaster.internal/ubuntu mantic-proposed/main s390x libsqlite3-0 s390x 3.40.1-2 [645 kB] Get:79 http://ftpmaster.internal/ubuntu mantic/main s390x tzdata all 2023c-2exp1ubuntu1 [273 kB] Get:80 http://ftpmaster.internal/ubuntu mantic/main s390x xz-utils s390x 5.4.1-0.2 [270 kB] Get:81 http://ftpmaster.internal/ubuntu mantic/main s390x advancecomp s390x 2.5-1 [174 kB] Get:82 http://ftpmaster.internal/ubuntu mantic/main s390x libctf0 s390x 2.40-2ubuntu4 [94.2 kB] Get:83 http://ftpmaster.internal/ubuntu mantic/main s390x libctf-nobfd0 s390x 2.40-2ubuntu4 [95.4 kB] Get:84 http://ftpmaster.internal/ubuntu mantic/main s390x binutils-s390x-linux-gnu s390x 2.40-2ubuntu4 [2061 kB] Get:85 http://ftpmaster.internal/ubuntu mantic/main s390x libbinutils s390x 2.40-2ubuntu4 [462 kB] Get:86 http://ftpmaster.internal/ubuntu mantic/main s390x binutils s390x 2.40-2ubuntu4 [3046 B] Get:87 http://ftpmaster.internal/ubuntu mantic/main s390x binutils-common s390x 2.40-2ubuntu4 [226 kB] Get:88 http://ftpmaster.internal/ubuntu mantic/main s390x libmpfr6 s390x 4.2.0-1 [278 kB] Get:89 http://ftpmaster.internal/ubuntu mantic/main s390x g++-12 s390x 12.2.0-17ubuntu1 [9435 kB] Get:90 http://ftpmaster.internal/ubuntu mantic/main s390x gcc-12 s390x 12.2.0-17ubuntu1 [16.2 MB] Get:91 http://ftpmaster.internal/ubuntu mantic/main s390x cpp-12 s390x 12.2.0-17ubuntu1 [8164 kB] Get:92 http://ftpmaster.internal/ubuntu mantic-proposed/main s390x libubsan1 s390x 13.1.0-1ubuntu1 [1113 kB] Get:93 http://ftpmaster.internal/ubuntu mantic-proposed/main s390x libgomp1 s390x 13.1.0-1ubuntu1 [146 kB] Get:94 http://ftpmaster.internal/ubuntu mantic-proposed/main s390x libitm1 s390x 13.1.0-1ubuntu1 [31.3 kB] Get:95 http://ftpmaster.internal/ubuntu mantic-proposed/main s390x libatomic1 s390x 13.1.0-1ubuntu1 [9392 B] Get:96 http://ftpmaster.internal/ubuntu mantic-proposed/main s390x libasan8 s390x 13.1.0-1ubuntu1 [2845 kB] Get:97 http://ftpmaster.internal/ubuntu mantic/main s390x libstdc++-12-dev s390x 12.2.0-17ubuntu1 [2191 kB] Get:98 http://ftpmaster.internal/ubuntu mantic/main s390x libgcc-12-dev s390x 12.2.0-17ubuntu1 [852 kB] Get:99 http://ftpmaster.internal/ubuntu mantic-proposed/main s390x libcc1-0 s390x 13.1.0-1ubuntu1 [50.3 kB] Get:100 http://ftpmaster.internal/ubuntu mantic/main s390x gcc-12-base s390x 12.2.0-17ubuntu1 [41.4 kB] Get:101 http://ftpmaster.internal/ubuntu mantic/main s390x g++ s390x 4:12.2.0-3ubuntu1 [1116 B] Get:102 http://ftpmaster.internal/ubuntu mantic/main s390x gcc s390x 4:12.2.0-3ubuntu1 [5168 B] Get:103 http://ftpmaster.internal/ubuntu mantic/main s390x cpp s390x 4:12.2.0-3ubuntu1 [27.8 kB] Get:104 http://ftpmaster.internal/ubuntu mantic/main s390x dpkg-dev all 1.21.21ubuntu1 [1117 kB] Get:105 http://ftpmaster.internal/ubuntu mantic/main s390x libdpkg-perl all 1.21.21ubuntu1 [247 kB] Get:106 http://ftpmaster.internal/ubuntu mantic-proposed/main s390x lto-disabled-list all 40 [12.4 kB] Get:107 http://ftpmaster.internal/ubuntu mantic-proposed/main s390x libfakeroot s390x 1.31-1.2 [31.1 kB] Get:108 http://ftpmaster.internal/ubuntu mantic-proposed/main s390x fakeroot s390x 1.31-1.2 [59.6 kB] Get:109 http://ftpmaster.internal/ubuntu mantic/main s390x gpg s390x 2.2.40-1.1ubuntu1 [508 kB] Get:110 http://ftpmaster.internal/ubuntu mantic/main s390x gpgconf s390x 2.2.40-1.1ubuntu1 [97.4 kB] Get:111 http://ftpmaster.internal/ubuntu mantic/main s390x gpg-agent s390x 2.2.40-1.1ubuntu1 [213 kB] Get:112 http://ftpmaster.internal/ubuntu mantic/main s390x pkgbinarymangler all 152 [16.2 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 86.3 MB in 6s (13.9 MB/s) (Reading database ... 12875 files and directories currently installed.) Preparing to unpack .../libcrypt-dev_1%3a4.4.33-2_s390x.deb ... Unpacking libcrypt-dev:s390x (1:4.4.33-2) over (1:4.4.33-1) ... Preparing to unpack .../libc6-dev_2.37-0ubuntu2_s390x.deb ... Unpacking libc6-dev:s390x (2.37-0ubuntu2) over (2.36-0ubuntu4) ... Preparing to unpack .../libc-dev-bin_2.37-0ubuntu2_s390x.deb ... Unpacking libc-dev-bin (2.37-0ubuntu2) over (2.36-0ubuntu4) ... Preparing to unpack .../libcrypt1_1%3a4.4.33-2_s390x.deb ... Unpacking libcrypt1:s390x (1:4.4.33-2) over (1:4.4.33-1) ... Setting up libcrypt1:s390x (1:4.4.33-2) ... (Reading database ... 12875 files and directories currently installed.) Preparing to unpack .../linux-libc-dev_6.2.0-21.21_s390x.deb ... Unpacking linux-libc-dev:s390x (6.2.0-21.21) over (5.19.0-21.21) ... Preparing to unpack .../libc6_2.37-0ubuntu2_s390x.deb ... Unpacking libc6:s390x (2.37-0ubuntu2) over (2.36-0ubuntu4) ... Setting up libc6:s390x (2.37-0ubuntu2) ... (Reading database ... 12884 files and directories currently installed.) 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Installing new version of config file /etc/issue.net ... Installing new version of config file /etc/lsb-release ... (Reading database ... 12889 files and directories currently installed.) Preparing to unpack .../bash_5.2.15-2ubuntu1_s390x.deb ... Unpacking bash (5.2.15-2ubuntu1) over (5.2-1ubuntu2) ... Setting up bash (5.2.15-2ubuntu1) ... update-alternatives: using /usr/share/man/man7/bash-builtins.7.gz to provide /usr/share/man/man7/builtins.7.gz (builtins.7.gz) in auto mode (Reading database ... 12889 files and directories currently installed.) Preparing to unpack .../coreutils_9.1-1ubuntu2_s390x.deb ... Unpacking coreutils (9.1-1ubuntu2) over (8.32-4.1ubuntu1) ... Setting up coreutils (9.1-1ubuntu2) ... (Reading database ... 12889 files and directories currently installed.) Preparing to unpack .../liblzma5_5.4.1-0.2_s390x.deb ... Unpacking liblzma5:s390x (5.4.1-0.2) over (5.2.9-0.0) ... Setting up liblzma5:s390x (5.4.1-0.2) ... 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Unpacking gpg-agent (2.2.40-1.1ubuntu1) over (2.2.40-1ubuntu1) ... Preparing to unpack .../43-pkgbinarymangler_152_all.deb ... Unpacking pkgbinarymangler (152) over (149) ... Setting up lsb-base (11.6) ... Setting up lto-disabled-list (40) ... Setting up libapparmor1:s390x (3.0.8-1ubuntu2) ... Setting up libargon2-1:s390x (0~20190702+dfsg-3) ... Setting up libsqlite3-0:s390x (3.40.1-2) ... Setting up binutils-common:s390x (2.40-2ubuntu4) ... Setting up linux-libc-dev:s390x (6.2.0-21.21) ... Setting up libctf-nobfd0:s390x (2.40-2ubuntu4) ... Setting up libcom-err2:s390x (1.47.0-1ubuntu1) ... Setting up libgomp1:s390x (13.1.0-1ubuntu1) ... Setting up libfakeroot:s390x (1.31-1.2) ... Setting up gcc-12-base:s390x (12.2.0-17ubuntu1) ... Setting up tzdata (2023c-2exp1ubuntu1) ... Current default time zone: 'Etc/UTC' Local time is now: Tue May 2 02:46:25 UTC 2023. Universal Time is now: Tue May 2 02:46:25 UTC 2023. Run 'dpkg-reconfigure tzdata' if you wish to change it. Setting up fakeroot (1.31-1.2) ... Setting up perl-modules-5.36 (5.36.0-7) ... Setting up libmpfr6:s390x (4.2.0-1) ... Setting up libncurses6:s390x (6.4-2) ... Setting up xz-utils (5.4.1-0.2) ... Setting up libproc2-0:s390x (2:4.0.3-1ubuntu1) ... Setting up libatomic1:s390x (13.1.0-1ubuntu1) ... Setting up libss2:s390x (1.47.0-1ubuntu1) ... Setting up libncursesw6:s390x (6.4-2) ... Setting up logsave (1.47.0-1ubuntu1) ... Setting up libubsan1:s390x (13.1.0-1ubuntu1) ... Setting up advancecomp (2.5-1) ... Setting up sensible-utils (0.0.17+nmu1) ... Setting up libcrypt-dev:s390x (1:4.4.33-2) ... Setting up libasan8:s390x (13.1.0-1ubuntu1) ... Setting up procps (2:4.0.3-1ubuntu1) ... Setting up libcryptsetup12:s390x (2:2.6.1-1ubuntu1) ... Setting up libbinutils:s390x (2.40-2ubuntu4) ... Setting up libc-dev-bin (2.37-0ubuntu2) ... Setting up openssl (3.0.8-1ubuntu1) ... Installing new version of config file /etc/ssl/openssl.cnf ... Setting up readline-common (8.2-1.3) ... Setting up libcc1-0:s390x (13.1.0-1ubuntu1) ... Setting up libperl5.36:s390x (5.36.0-7) ... Setting up libitm1:s390x (13.1.0-1ubuntu1) ... Setting up libkmod2:s390x (30+20221128-1ubuntu1) ... Setting up libctf0:s390x (2.40-2ubuntu4) ... Setting up cpp-12 (12.2.0-17ubuntu1) ... Setting up binutils-s390x-linux-gnu (2.40-2ubuntu4) ... Setting up pkgbinarymangler (152) ... Setting up libreadline8:s390x (8.2-1.3) ... Setting up e2fsprogs (1.47.0-1ubuntu1) ... Installing new version of config file /etc/mke2fs.conf ... Setting up binutils (2.40-2ubuntu4) ... Setting up ca-certificates (20230311) ... Updating certificates in /etc/ssl/certs... rehash: warning: skipping ca-certificates.crt,it does not contain exactly one certificate or CRL 22 added, 6 removed; done. Setting up perl (5.36.0-7) ... Setting up libgcc-12-dev:s390x (12.2.0-17ubuntu1) ... Setting up libsystemd-shared:s390x (252.5-2ubuntu3) ... Setting up libdpkg-perl (1.21.21ubuntu1) ... Setting up cpp (4:12.2.0-3ubuntu1) ... Setting up gpgconf (2.2.40-1.1ubuntu1) ... Setting up libc6-dev:s390x (2.37-0ubuntu2) ... Setting up gpg (2.2.40-1.1ubuntu1) ... Setting up gpg-agent (2.2.40-1.1ubuntu1) ... Setting up libstdc++-12-dev:s390x (12.2.0-17ubuntu1) ... Setting up systemd (252.5-2ubuntu3) ... Installing new version of config file /etc/systemd/logind.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 dpkg-dev (1.21.21ubuntu1) ... Setting up gcc-12 (12.2.0-17ubuntu1) ... Setting up g++-12 (12.2.0-17ubuntu1) ... Setting up systemd-sysv (252.5-2ubuntu3) ... Setting up gcc (4:12.2.0-3ubuntu1) ... Setting up g++ (4:12.2.0-3ubuntu1) ... Processing triggers for libc-bin (2.37-0ubuntu2) ... Processing triggers for debianutils (5.7-0.4) ... Processing triggers for ca-certificates (20230311) ... Updating certificates in /etc/ssl/certs... 0 added, 0 removed; done. Running hooks in /etc/ca-certificates/update.d... done. RUN: /usr/share/launchpad-buildd/bin/sbuild-package PACKAGEBUILD-26016520 s390x mantic-proposed -c chroot:build-PACKAGEBUILD-26016520 --arch=s390x --dist=mantic-proposed --nolog kallisto_0.48.0+dfsg-4.dsc Initiating build PACKAGEBUILD-26016520 with 4 jobs across 4 processor cores. Kernel reported to sbuild: 5.4.0-147-generic #164-Ubuntu SMP Tue Mar 21 14:22:27 UTC 2023 s390x sbuild (Debian sbuild) 0.79.0 (05 February 2020) on bos02-s390x-003.buildd +==============================================================================+ | kallisto 0.48.0+dfsg-4 (s390x) Tue, 02 May 2023 02:46:28 +0000 | +==============================================================================+ Package: kallisto Version: 0.48.0+dfsg-4 Source Version: 0.48.0+dfsg-4 Distribution: mantic-proposed Machine Architecture: s390x Host Architecture: s390x Build Architecture: s390x Build Type: any I: NOTICE: Log filtering will replace 'home/buildd/build-PACKAGEBUILD-26016520/chroot-autobuild' with '<>' I: NOTICE: Log filtering will replace 'build/kallisto-oICOmP/resolver-RzQ76c' with '<>' +------------------------------------------------------------------------------+ | Fetch source files | +------------------------------------------------------------------------------+ Local sources ------------- kallisto_0.48.0+dfsg-4.dsc exists in .; copying to chroot I: NOTICE: Log filtering will replace 'build/kallisto-oICOmP/kallisto-0.48.0+dfsg' with '<>' I: NOTICE: Log filtering will replace 'build/kallisto-oICOmP' with '<>' +------------------------------------------------------------------------------+ | Install package build dependencies | +------------------------------------------------------------------------------+ Setup apt archive ----------------- Merged Build-Depends: debhelper-compat (= 13), catch2, cmake, libhdf5-dev, libhts-dev, snakemake, build-essential, fakeroot Filtered Build-Depends: debhelper-compat (= 13), catch2, cmake, libhdf5-dev, libhts-dev, snakemake, build-essential, fakeroot dpkg-deb: building package 'sbuild-build-depends-main-dummy' in '/<>/apt_archive/sbuild-build-depends-main-dummy.deb'. Ign:1 copy:/<>/apt_archive ./ InRelease Get:2 copy:/<>/apt_archive ./ Release [957 B] Ign:3 copy:/<>/apt_archive ./ Release.gpg Get:4 copy:/<>/apt_archive ./ Sources [404 B] Get:5 copy:/<>/apt_archive ./ Packages [478 B] Fetched 1839 B in 0s (0 B/s) Reading package lists... Reading package lists... Install main build dependencies (apt-based resolver) ---------------------------------------------------- Installing build dependencies Reading package lists... Building dependency tree... Reading state information... The following additional packages will be installed: autoconf automake autopoint autotools-dev bsdextrautils catch2 cmake cmake-data coinor-cbc coinor-libcbc3 coinor-libcgl1 coinor-libclp1 coinor-libcoinutils3v5 coinor-libosi1v5 debhelper debugedit dh-autoreconf dh-strip-nondeterminism docutils-common dwz file fonts-glyphicons-halflings gettext gettext-base gir1.2-glib-2.0 git git-man groff-base hdf5-helpers intltool-debian libaec-dev libaec0 libarchive-zip-perl libarchive13 libblas3 libbrotli1 libcurl3-gnutls libcurl4 libcurl4-gnutls-dev libdatrie1 libdebhelper-perl libdeflate-dev libdeflate0 libdw1 libelf1 liberror-perl libexpat1 libfile-stripnondeterminism-perl libgfortran5 libgirepository-1.0-1 libglib2.0-0 libhdf5-103-1 libhdf5-cpp-103-1 libhdf5-dev libhdf5-fortran-102 libhdf5-hl-100 libhdf5-hl-cpp-100 libhdf5-hl-fortran-100 libhts-dev libhts3 libhtscodecs2 libicu72 libjpeg-dev libjpeg-turbo8 libjpeg-turbo8-dev libjpeg8 libjpeg8-dev libjs-bootstrap libjs-jquery libjsoncpp25 liblapack3 libldap2 liblzma-dev libmagic-mgc libmagic1 libnghttp2-14 libpipeline1 libpsl5 libpython3-stdlib libpython3.11-minimal libpython3.11-stdlib librhash0 librtmp1 libsasl2-2 libsasl2-modules-db libsodium23 libssh-4 libssl-dev libsub-override-perl libsz2 libtool libuchardet0 libuv1 libxml2 libyaml-0-2 m4 man-db media-types po-debconf python3 python3-adal python3-aiohttp python3-aiosignal python3-appdirs python3-async-timeout python3-attr python3-avro python3-azure python3-azure-storage python3-bcrypt python3-blinker python3-boto3 python3-botocore python3-certifi python3-cffi-backend python3-chardet python3-charset-normalizer python3-colorama python3-configargparse python3-connection-pool python3-cryptography python3-dateutil python3-datrie python3-decorator python3-distutils python3-docutils python3-fastjsonschema python3-frozenlist python3-gi python3-git python3-gitdb python3-humanfriendly python3-idna python3-isodate python3-jinja2 python3-jmespath python3-jsonschema python3-jupyter-core python3-jwt python3-lib2to3 python3-markupsafe python3-marshmallow python3-minimal python3-msal python3-msal-extensions python3-msrest python3-msrestazure python3-multidict python3-nacl python3-nbformat python3-oauthlib python3-packaging python3-paramiko python3-pkg-resources python3-portalocker python3-psutil python3-pulp python3-py python3-pyparsing python3-pyrsistent python3-ratelimiter python3-requests python3-requests-oauthlib python3-retry python3-roman python3-ruamel.yaml python3-ruamel.yaml.clib python3-s3transfer python3-setuptools python3-six python3-smart-open python3-smmap python3-stopit python3-strictyaml python3-tabulate python3-throttler python3-toposort python3-tqdm python3-traitlets python3-typing-extensions python3-uamqp python3-urllib3 python3-wrapt python3-yaml python3-yarl python3.11 python3.11-minimal sgml-base snakemake xml-core zlib1g-dev Suggested packages: autoconf-archive gnu-standards autoconf-doc cmake-doc cmake-format elpa-cmake-mode ninja-build dh-make gettext-doc libasprintf-dev libgettextpo-dev git-daemon-run | git-daemon-sysvinit git-doc git-email git-gui gitk gitweb git-cvs git-mediawiki git-svn groff lrzip libcurl4-doc libgnutls28-dev libidn-dev libkrb5-dev libldap2-dev librtmp-dev libssh2-1-dev pkg-config low-memory-monitor libhdf5-doc 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-attr-doc python-azure-doc python-blinker-doc python-cryptography-doc python3-cryptography-vectors docutils-doc fonts-linuxlibertine | ttf-linux-libertine texlive-lang-french texlive-latex-base texlive-latex-recommended python-fastjsonschema-doc python-git-doc python-jinja2-doc python-jsonschema-doc python3-json-pointer python3-rfc3987 python3-uritemplate python3-webcolors python3-pip python3-crypto python-nacl-doc python3-gssapi python3-invoke python-psutil-doc subversion python3-pytest python-pyparsing-doc python3-openssl python3-socks python-requests-doc python-setuptools-doc python3-nose python3-brotli python3.11-venv python3.11-doc binfmt-support sgml-base-doc slurm-client snakemake-doc Recommended packages: curl | wget | lynx less ssh-client libarchive-cpio-perl libglib2.0-data shared-mime-info xdg-user-dirs javascript-common libldap-common publicsuffix libsasl2-modules libltdl-dev libmail-sendmail-perl libpaper-utils python3-pil python3-pygments python3-babel cwltool imagemagick python3-tz python3-yappi python3-biopython python3-dropbox python3-flask python3-ftputil python3-irodsclient python3-kubernetes The following NEW packages will be installed: autoconf automake autopoint autotools-dev bsdextrautils catch2 cmake cmake-data coinor-cbc coinor-libcbc3 coinor-libcgl1 coinor-libclp1 coinor-libcoinutils3v5 coinor-libosi1v5 debhelper debugedit dh-autoreconf dh-strip-nondeterminism docutils-common dwz file fonts-glyphicons-halflings gettext gettext-base gir1.2-glib-2.0 git git-man groff-base hdf5-helpers intltool-debian libaec-dev libaec0 libarchive-zip-perl libarchive13 libblas3 libbrotli1 libcurl3-gnutls libcurl4 libcurl4-gnutls-dev libdatrie1 libdebhelper-perl libdeflate-dev libdeflate0 libdw1 libelf1 liberror-perl libexpat1 libfile-stripnondeterminism-perl libgfortran5 libgirepository-1.0-1 libglib2.0-0 libhdf5-103-1 libhdf5-cpp-103-1 libhdf5-dev libhdf5-fortran-102 libhdf5-hl-100 libhdf5-hl-cpp-100 libhdf5-hl-fortran-100 libhts-dev libhts3 libhtscodecs2 libicu72 libjpeg-dev libjpeg-turbo8 libjpeg-turbo8-dev libjpeg8 libjpeg8-dev libjs-bootstrap libjs-jquery libjsoncpp25 liblapack3 libldap2 liblzma-dev libmagic-mgc libmagic1 libnghttp2-14 libpipeline1 libpsl5 libpython3-stdlib libpython3.11-minimal libpython3.11-stdlib librhash0 librtmp1 libsasl2-2 libsasl2-modules-db libsodium23 libssh-4 libssl-dev libsub-override-perl libsz2 libtool libuchardet0 libuv1 libxml2 libyaml-0-2 m4 man-db media-types po-debconf python3 python3-adal python3-aiohttp python3-aiosignal python3-appdirs python3-async-timeout python3-attr python3-avro python3-azure python3-azure-storage python3-bcrypt python3-blinker python3-boto3 python3-botocore python3-certifi python3-cffi-backend python3-chardet python3-charset-normalizer python3-colorama python3-configargparse python3-connection-pool python3-cryptography python3-dateutil python3-datrie python3-decorator python3-distutils python3-docutils python3-fastjsonschema python3-frozenlist python3-gi python3-git python3-gitdb python3-humanfriendly python3-idna python3-isodate python3-jinja2 python3-jmespath python3-jsonschema python3-jupyter-core python3-jwt python3-lib2to3 python3-markupsafe python3-marshmallow python3-minimal python3-msal python3-msal-extensions python3-msrest python3-msrestazure python3-multidict python3-nacl python3-nbformat python3-oauthlib python3-packaging python3-paramiko python3-pkg-resources python3-portalocker python3-psutil python3-pulp python3-py python3-pyparsing python3-pyrsistent python3-ratelimiter python3-requests python3-requests-oauthlib python3-retry python3-roman python3-ruamel.yaml python3-ruamel.yaml.clib python3-s3transfer python3-setuptools python3-six python3-smart-open python3-smmap python3-stopit python3-strictyaml python3-tabulate python3-throttler python3-toposort python3-tqdm python3-traitlets python3-typing-extensions python3-uamqp python3-urllib3 python3-wrapt python3-yaml python3-yarl python3.11 python3.11-minimal sbuild-build-depends-main-dummy sgml-base snakemake xml-core zlib1g-dev 0 upgraded, 192 newly installed, 0 to remove and 0 not upgraded. Need to get 87.5 MB of archives. After this operation, 925 MB of additional disk space will be used. 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mantic/main s390x libdebhelper-perl all 13.11.4ubuntu3 [66.1 kB] Get:53 http://ftpmaster.internal/ubuntu mantic/main s390x libtool all 2.4.7-5 [166 kB] Get:54 http://ftpmaster.internal/ubuntu mantic/main s390x dh-autoreconf all 20 [16.1 kB] Get:55 http://ftpmaster.internal/ubuntu mantic/main s390x libarchive-zip-perl all 1.68-1 [90.2 kB] Get:56 http://ftpmaster.internal/ubuntu mantic/main s390x libsub-override-perl all 0.09-4 [8706 B] Get:57 http://ftpmaster.internal/ubuntu mantic/main s390x libfile-stripnondeterminism-perl all 1.13.1-1 [18.1 kB] Get:58 http://ftpmaster.internal/ubuntu mantic/main s390x dh-strip-nondeterminism all 1.13.1-1 [5362 B] Get:59 http://ftpmaster.internal/ubuntu mantic/main s390x libdw1 s390x 0.188-2.1 [247 kB] Get:60 http://ftpmaster.internal/ubuntu mantic/main s390x debugedit s390x 1:5.0-5 [47.5 kB] Get:61 http://ftpmaster.internal/ubuntu mantic/main s390x dwz s390x 0.15-1 [108 kB] Get:62 http://ftpmaster.internal/ubuntu mantic-proposed/main s390x gettext s390x 0.21-12 [851 kB] Get:63 http://ftpmaster.internal/ubuntu mantic/main s390x intltool-debian all 0.35.0+20060710.6 [23.2 kB] Get:64 http://ftpmaster.internal/ubuntu mantic/main s390x po-debconf all 1.0.21+nmu1 [233 kB] Get:65 http://ftpmaster.internal/ubuntu mantic/main s390x debhelper all 13.11.4ubuntu3 [925 kB] Get:66 http://ftpmaster.internal/ubuntu mantic/main s390x xml-core all 0.18+nmu1 [21.6 kB] Get:67 http://ftpmaster.internal/ubuntu mantic/main s390x docutils-common all 0.19+dfsg-6 [129 kB] Get:68 http://ftpmaster.internal/ubuntu mantic/universe s390x fonts-glyphicons-halflings all 1.009~3.4.1+dfsg-3 [118 kB] Get:69 http://ftpmaster.internal/ubuntu mantic/main s390x libcurl3-gnutls s390x 7.88.1-8ubuntu1 [294 kB] Get:70 http://ftpmaster.internal/ubuntu mantic/main s390x liberror-perl all 0.17029-2 [25.6 kB] Get:71 http://ftpmaster.internal/ubuntu mantic-proposed/main s390x git-man all 1:2.39.2-1ubuntu1.1 [1075 kB] Get:72 http://ftpmaster.internal/ubuntu mantic-proposed/main s390x git s390x 1:2.39.2-1ubuntu1.1 [3486 kB] Get:73 http://ftpmaster.internal/ubuntu mantic/universe s390x hdf5-helpers s390x 1.10.8+repack1-1ubuntu1 [13.9 kB] Get:74 http://ftpmaster.internal/ubuntu mantic/universe s390x libaec0 s390x 1.0.6-1 [21.1 kB] Get:75 http://ftpmaster.internal/ubuntu mantic/main s390x libblas3 s390x 3.11.0-2 [180 kB] Get:76 http://ftpmaster.internal/ubuntu mantic/main s390x libcurl4-gnutls-dev s390x 7.88.1-8ubuntu1 [399 kB] Get:77 http://ftpmaster.internal/ubuntu mantic/main s390x libdatrie1 s390x 0.2.13-2 [19.9 kB] Get:78 http://ftpmaster.internal/ubuntu mantic/main s390x libdeflate0 s390x 1.15-1 [36.6 kB] Get:79 http://ftpmaster.internal/ubuntu mantic/main s390x libdeflate-dev s390x 1.15-1 [43.5 kB] Get:80 http://ftpmaster.internal/ubuntu mantic-proposed/main s390x libgfortran5 s390x 13.1.0-1ubuntu1 [564 kB] Get:81 http://ftpmaster.internal/ubuntu mantic/universe s390x libsz2 s390x 1.0.6-1 [5144 B] Get:82 http://ftpmaster.internal/ubuntu mantic/universe s390x libhdf5-103-1 s390x 1.10.8+repack1-1ubuntu1 [1213 kB] Get:83 http://ftpmaster.internal/ubuntu mantic/universe s390x libhdf5-cpp-103-1 s390x 1.10.8+repack1-1ubuntu1 [117 kB] Get:84 http://ftpmaster.internal/ubuntu mantic/universe s390x libhdf5-fortran-102 s390x 1.10.8+repack1-1ubuntu1 [86.8 kB] Get:85 http://ftpmaster.internal/ubuntu mantic/universe s390x libhdf5-hl-100 s390x 1.10.8+repack1-1ubuntu1 [54.9 kB] Get:86 http://ftpmaster.internal/ubuntu mantic/universe s390x libhdf5-hl-fortran-100 s390x 1.10.8+repack1-1ubuntu1 [30.5 kB] Get:87 http://ftpmaster.internal/ubuntu mantic/universe s390x libhdf5-hl-cpp-100 s390x 1.10.8+repack1-1ubuntu1 [10.7 kB] Get:88 http://ftpmaster.internal/ubuntu mantic/main s390x zlib1g-dev s390x 1:1.2.13.dfsg-1ubuntu4 [896 kB] Get:89 http://ftpmaster.internal/ubuntu mantic/main s390x libjpeg-turbo8 s390x 2.1.5-2ubuntu1 [128 kB] Get:90 http://ftpmaster.internal/ubuntu mantic/main s390x libjpeg-turbo8-dev s390x 2.1.5-2ubuntu1 [264 kB] Get:91 http://ftpmaster.internal/ubuntu mantic/main s390x libjpeg8 s390x 8c-2ubuntu11 [2146 B] Get:92 http://ftpmaster.internal/ubuntu mantic/main s390x libjpeg8-dev s390x 8c-2ubuntu11 [1484 B] Get:93 http://ftpmaster.internal/ubuntu mantic/main s390x libjpeg-dev s390x 8c-2ubuntu11 [1484 B] Get:94 http://ftpmaster.internal/ubuntu mantic/universe s390x libaec-dev s390x 1.0.6-1 [19.1 kB] Get:95 http://ftpmaster.internal/ubuntu mantic/main s390x libssl-dev s390x 3.0.8-1ubuntu1 [2035 kB] Get:96 http://ftpmaster.internal/ubuntu mantic/universe s390x libhdf5-dev s390x 1.10.8+repack1-1ubuntu1 [2677 kB] Get:97 http://ftpmaster.internal/ubuntu mantic/universe s390x libhtscodecs2 s390x 1.3.0-4 [74.8 kB] Get:98 http://ftpmaster.internal/ubuntu mantic/universe s390x libhts3 s390x 1.16+ds-3 [405 kB] Get:99 http://ftpmaster.internal/ubuntu mantic/main s390x liblzma-dev s390x 5.4.1-0.2 [175 kB] Get:100 http://ftpmaster.internal/ubuntu mantic/universe s390x libhts-dev s390x 1.16+ds-3 [5595 kB] Get:101 http://ftpmaster.internal/ubuntu mantic/universe s390x libjs-bootstrap all 3.4.1+dfsg-3 [129 kB] Get:102 http://ftpmaster.internal/ubuntu mantic/main s390x libjs-jquery all 3.6.1+dfsg+~3.5.14-1 [328 kB] Get:103 http://ftpmaster.internal/ubuntu mantic/main s390x liblapack3 s390x 3.11.0-2 [2233 kB] Get:104 http://ftpmaster.internal/ubuntu mantic/main s390x libsodium23 s390x 1.0.18-1build2 [134 kB] Get:105 http://ftpmaster.internal/ubuntu mantic/main s390x python3-cffi-backend s390x 1.15.1-5build1 [74.6 kB] Get:106 http://ftpmaster.internal/ubuntu mantic-proposed/main s390x python3-cryptography s390x 38.0.4-3 [806 kB] Get:107 http://ftpmaster.internal/ubuntu mantic/main s390x python3-six all 1.16.0-4 [12.4 kB] Get:108 http://ftpmaster.internal/ubuntu mantic-proposed/main s390x python3-dateutil all 2.8.2-2 [79.2 kB] Get:109 http://ftpmaster.internal/ubuntu mantic/main s390x python3-jwt all 2.6.0-1 [18.2 kB] Get:110 http://ftpmaster.internal/ubuntu mantic/main s390x python3-certifi all 2022.9.24-1 [155 kB] Get:111 http://ftpmaster.internal/ubuntu mantic/main s390x python3-chardet all 5.1.0+dfsg-2 [119 kB] Get:112 http://ftpmaster.internal/ubuntu mantic/main s390x python3-idna all 3.3-1 [49.3 kB] Get:113 http://ftpmaster.internal/ubuntu mantic/main s390x python3-urllib3 all 1.26.12-1 [99.7 kB] Get:114 http://ftpmaster.internal/ubuntu mantic/main s390x python3-requests all 2.28.1+dfsg-1ubuntu1 [49.9 kB] Get:115 http://ftpmaster.internal/ubuntu mantic/universe s390x python3-adal all 1.2.7-2 [32.7 kB] Get:116 http://ftpmaster.internal/ubuntu mantic/universe s390x python3-multidict s390x 6.0.4-1build1 [30.8 kB] Get:117 http://ftpmaster.internal/ubuntu mantic/universe s390x python3-yarl s390x 1.8.2-1build1 [45.0 kB] Get:118 http://ftpmaster.internal/ubuntu mantic/universe s390x python3-typing-extensions all 4.4.0-1 [44.0 kB] Get:119 http://ftpmaster.internal/ubuntu mantic/universe s390x python3-async-timeout all 4.0.2-1 [6286 B] Get:120 http://ftpmaster.internal/ubuntu mantic/universe s390x python3-frozenlist s390x 1.3.3-1build1 [29.7 kB] Get:121 http://ftpmaster.internal/ubuntu mantic/universe s390x python3-aiosignal all 1.3.1-1 [5172 B] Get:122 http://ftpmaster.internal/ubuntu mantic/main s390x python3-attr all 22.2.0-1 [49.6 kB] Get:123 http://ftpmaster.internal/ubuntu mantic/universe s390x python3-charset-normalizer all 3.0.1-2 [46.6 kB] Get:124 http://ftpmaster.internal/ubuntu mantic/universe s390x python3-aiohttp s390x 3.8.4-1 [240 kB] Get:125 http://ftpmaster.internal/ubuntu mantic/main s390x python3-appdirs all 1.4.4-3 [10.8 kB] Get:126 http://ftpmaster.internal/ubuntu mantic/universe s390x python3-avro all 1.11.1+dfsg-2 [71.6 kB] Get:127 http://ftpmaster.internal/ubuntu mantic/universe s390x python3-isodate all 0.6.1-1 [24.7 kB] Get:128 http://ftpmaster.internal/ubuntu mantic/main s390x python3-blinker all 1.5-1 [14.0 kB] Get:129 http://ftpmaster.internal/ubuntu mantic/main s390x python3-oauthlib all 3.2.2-1 [89.7 kB] Get:130 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[827 kB] Get:178 http://ftpmaster.internal/ubuntu mantic/universe s390x coinor-libcgl1 s390x 0.60.3+repack1-4 [386 kB] Get:179 http://ftpmaster.internal/ubuntu mantic/universe s390x coinor-libcbc3 s390x 2.10.8+ds1-1 [727 kB] Get:180 http://ftpmaster.internal/ubuntu mantic/universe s390x coinor-cbc s390x 2.10.8+ds1-1 [11.2 kB] Get:181 http://ftpmaster.internal/ubuntu mantic/main s390x python3-pyparsing all 3.0.9-1 [83.1 kB] Get:182 http://ftpmaster.internal/ubuntu mantic/universe s390x python3-pulp all 2.6.0+dfsg-1 [65.0 kB] Get:183 http://ftpmaster.internal/ubuntu mantic/universe s390x python3-py all 1.11.0-1 [73.2 kB] Get:184 http://ftpmaster.internal/ubuntu mantic/universe s390x python3-ratelimiter s390x 1.2.0.post0-4 [5508 B] Get:185 http://ftpmaster.internal/ubuntu mantic/universe s390x python3-retry all 0.9.2-2 [5858 B] Get:186 http://ftpmaster.internal/ubuntu mantic/universe s390x python3-smart-open all 5.2.1-5 [81.4 kB] Get:187 http://ftpmaster.internal/ubuntu mantic/universe s390x python3-stopit all 1.1.2-2 [12.5 kB] Get:188 http://ftpmaster.internal/ubuntu mantic/main s390x python3-tabulate all 0.8.9-0ubuntu1 [35.0 kB] Get:189 http://ftpmaster.internal/ubuntu mantic/universe s390x python3-throttler all 1.2.2-2 [7138 B] Get:190 http://ftpmaster.internal/ubuntu mantic/universe s390x python3-toposort all 1.9-1 [6342 B] Get:191 http://ftpmaster.internal/ubuntu mantic/main s390x python3-wrapt s390x 1.14.1-2build1 [33.4 kB] Get:192 http://ftpmaster.internal/ubuntu mantic/universe s390x snakemake all 7.21.0-1 [262 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 87.5 MB in 7s (12.6 MB/s) Selecting previously unselected package libpython3.11-minimal:s390x. 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Preparing to unpack .../139-python3-uamqp_1.5.3-1build2_s390x.deb ... Unpacking python3-uamqp (1.5.3-1build2) ... Selecting previously unselected package python3-azure. Preparing to unpack .../140-python3-azure_20230112+git-1_all.deb ... Unpacking python3-azure (20230112+git-1) ... Selecting previously unselected package python3-jmespath. Preparing to unpack .../141-python3-jmespath_1.0.1-1_all.deb ... Unpacking python3-jmespath (1.0.1-1) ... Selecting previously unselected package python3-botocore. Preparing to unpack .../142-python3-botocore_1.29.27+repack-1_all.deb ... Unpacking python3-botocore (1.29.27+repack-1) ... Selecting previously unselected package python3-s3transfer. Preparing to unpack .../143-python3-s3transfer_0.6.0-1_all.deb ... Unpacking python3-s3transfer (0.6.0-1) ... Selecting previously unselected package python3-boto3. Preparing to unpack .../144-python3-boto3_1.26.27+dfsg-1_all.deb ... Unpacking python3-boto3 (1.26.27+dfsg-1) ... Selecting previously unselected package python3-configargparse. Preparing to unpack .../145-python3-configargparse_1.5.3-1_all.deb ... Unpacking python3-configargparse (1.5.3-1) ... Selecting previously unselected package python3-connection-pool. Preparing to unpack .../146-python3-connection-pool_0.0.3-2_all.deb ... Unpacking python3-connection-pool (0.0.3-2) ... Selecting previously unselected package python3-datrie:s390x. Preparing to unpack .../147-python3-datrie_0.8.2-4build1_s390x.deb ... Unpacking python3-datrie:s390x (0.8.2-4build1) ... Selecting previously unselected package python3-decorator. Preparing to unpack .../148-python3-decorator_5.1.1-3_all.deb ... Unpacking python3-decorator (5.1.1-3) ... Selecting previously unselected package python3-roman. Preparing to unpack .../149-python3-roman_3.3-3_all.deb ... Unpacking python3-roman (3.3-3) ... Selecting previously unselected package python3-docutils. Preparing to unpack .../150-python3-docutils_0.19+dfsg-6_all.deb ... Unpacking python3-docutils (0.19+dfsg-6) ... Selecting previously unselected package python3-fastjsonschema. Preparing to unpack .../151-python3-fastjsonschema_2.16.2-1_all.deb ... Unpacking python3-fastjsonschema (2.16.2-1) ... Selecting previously unselected package python3-smmap. Preparing to unpack .../152-python3-smmap_5.0.0-1_all.deb ... Unpacking python3-smmap (5.0.0-1) ... Selecting previously unselected package python3-gitdb. Preparing to unpack .../153-python3-gitdb_4.0.9-2_all.deb ... Unpacking python3-gitdb (4.0.9-2) ... Selecting previously unselected package python3-git. Preparing to unpack .../154-python3-git_3.1.30-1_all.deb ... Unpacking python3-git (3.1.30-1) ... Selecting previously unselected package python3-humanfriendly. Preparing to unpack .../155-python3-humanfriendly_10.0-3_all.deb ... Unpacking python3-humanfriendly (10.0-3) ... Selecting previously unselected package python3-markupsafe. Preparing to unpack .../156-python3-markupsafe_2.1.2-1build1_s390x.deb ... Unpacking python3-markupsafe (2.1.2-1build1) ... Selecting previously unselected package python3-jinja2. Preparing to unpack .../157-python3-jinja2_3.1.2-1_all.deb ... Unpacking python3-jinja2 (3.1.2-1) ... Selecting previously unselected package python3-traitlets. Preparing to unpack .../158-python3-traitlets_5.5.0-1_all.deb ... Unpacking python3-traitlets (5.5.0-1) ... Selecting previously unselected package python3-jupyter-core. Preparing to unpack .../159-python3-jupyter-core_4.12.0-1_all.deb ... Unpacking python3-jupyter-core (4.12.0-1) ... Selecting previously unselected package python3-nacl. Preparing to unpack .../160-python3-nacl_1.5.0-2_s390x.deb ... Unpacking python3-nacl (1.5.0-2) ... Selecting previously unselected package python3-nbformat. Preparing to unpack .../161-python3-nbformat_5.5.0-1_all.deb ... Unpacking python3-nbformat (5.5.0-1) ... Selecting previously unselected package python3-bcrypt. Preparing to unpack .../162-python3-bcrypt_3.2.2-1_s390x.deb ... Unpacking python3-bcrypt (3.2.2-1) ... Selecting previously unselected package python3-paramiko. Preparing to unpack .../163-python3-paramiko_2.12.0-2ubuntu1_all.deb ... Unpacking python3-paramiko (2.12.0-2ubuntu1) ... Selecting previously unselected package python3-psutil. Preparing to unpack .../164-python3-psutil_5.9.4-1build1_s390x.deb ... Unpacking python3-psutil (5.9.4-1build1) ... Selecting previously unselected package coinor-libcoinutils3v5:s390x. Preparing to unpack .../165-coinor-libcoinutils3v5_2.11.4+repack1-2_s390x.deb ... Unpacking coinor-libcoinutils3v5:s390x (2.11.4+repack1-2) ... Selecting previously unselected package coinor-libosi1v5:s390x. Preparing to unpack .../166-coinor-libosi1v5_0.108.6+repack1-2_s390x.deb ... Unpacking coinor-libosi1v5:s390x (0.108.6+repack1-2) ... Selecting previously unselected package coinor-libclp1:s390x. Preparing to unpack .../167-coinor-libclp1_1.17.6-3_s390x.deb ... Unpacking coinor-libclp1:s390x (1.17.6-3) ... Selecting previously unselected package coinor-libcgl1:s390x. Preparing to unpack .../168-coinor-libcgl1_0.60.3+repack1-4_s390x.deb ... Unpacking coinor-libcgl1:s390x (0.60.3+repack1-4) ... Selecting previously unselected package coinor-libcbc3:s390x. Preparing to unpack .../169-coinor-libcbc3_2.10.8+ds1-1_s390x.deb ... Unpacking coinor-libcbc3:s390x (2.10.8+ds1-1) ... Selecting previously unselected package coinor-cbc. Preparing to unpack .../170-coinor-cbc_2.10.8+ds1-1_s390x.deb ... Unpacking coinor-cbc (2.10.8+ds1-1) ... Selecting previously unselected package python3-pyparsing. Preparing to unpack .../171-python3-pyparsing_3.0.9-1_all.deb ... Unpacking python3-pyparsing (3.0.9-1) ... Selecting previously unselected package python3-pulp. Preparing to unpack .../172-python3-pulp_2.6.0+dfsg-1_all.deb ... Unpacking python3-pulp (2.6.0+dfsg-1) ... Selecting previously unselected package python3-py. Preparing to unpack .../173-python3-py_1.11.0-1_all.deb ... Unpacking python3-py (1.11.0-1) ... Selecting previously unselected package python3-ratelimiter. Preparing to unpack .../174-python3-ratelimiter_1.2.0.post0-4_s390x.deb ... Unpacking python3-ratelimiter (1.2.0.post0-4) ... Selecting previously unselected package python3-retry. Preparing to unpack .../175-python3-retry_0.9.2-2_all.deb ... Unpacking python3-retry (0.9.2-2) ... Selecting previously unselected package python3-smart-open. Preparing to unpack .../176-python3-smart-open_5.2.1-5_all.deb ... Unpacking python3-smart-open (5.2.1-5) ... Selecting previously unselected package python3-stopit. Preparing to unpack .../177-python3-stopit_1.1.2-2_all.deb ... Unpacking python3-stopit (1.1.2-2) ... Selecting previously unselected package python3-tabulate. Preparing to unpack .../178-python3-tabulate_0.8.9-0ubuntu1_all.deb ... Unpacking python3-tabulate (0.8.9-0ubuntu1) ... Selecting previously unselected package python3-throttler. Preparing to unpack .../179-python3-throttler_1.2.2-2_all.deb ... Unpacking python3-throttler (1.2.2-2) ... Selecting previously unselected package python3-toposort. Preparing to unpack .../180-python3-toposort_1.9-1_all.deb ... Unpacking python3-toposort (1.9-1) ... Selecting previously unselected package python3-wrapt. Preparing to unpack .../181-python3-wrapt_1.14.1-2build1_s390x.deb ... Unpacking python3-wrapt (1.14.1-2build1) ... Selecting previously unselected package snakemake. Preparing to unpack .../182-snakemake_7.21.0-1_all.deb ... Unpacking snakemake (7.21.0-1) ... Selecting previously unselected package sbuild-build-depends-main-dummy. Preparing to unpack .../183-sbuild-build-depends-main-dummy_0.invalid.0_s390x.deb ... Unpacking sbuild-build-depends-main-dummy (0.invalid.0) ... Setting up libhtscodecs2:s390x (1.3.0-4) ... Setting up media-types (10.0.0) ... Setting up libpipeline1:s390x (1.5.7-1) ... Setting up catch2 (2.13.10-1) ... Setting up libpsl5:s390x (0.21.2-1) ... Setting up libsodium23:s390x (1.0.18-1build2) ... Setting up libicu72:s390x (72.1-3ubuntu2) ... Setting up bsdextrautils (2.38.1-4ubuntu1) ... Setting up hdf5-helpers (1.10.8+repack1-1ubuntu1) ... Setting up libdatrie1:s390x (0.2.13-2) ... Setting up libmagic-mgc (1:5.44-3) ... Setting up libarchive-zip-perl (1.68-1) ... Setting up libyaml-0-2:s390x (0.2.5-1) ... Setting up libglib2.0-0:s390x (2.76.1-1) ... No schema files found: doing nothing. Setting up fonts-glyphicons-halflings (1.009~3.4.1+dfsg-3) ... Setting up libpython3.11-stdlib:s390x (3.11.2-6) ... Setting up libdebhelper-perl (13.11.4ubuntu3) ... Setting up libbrotli1:s390x (1.0.9-2build8) ... Setting up libnghttp2-14:s390x (1.52.0-1) ... Setting up libmagic1:s390x (1:5.44-3) ... Setting up libdeflate0:s390x (1.15-1) ... Setting up gettext-base (0.21-12) ... Setting up m4 (1.4.19-3) ... Setting up file (1:5.44-3) ... Setting up libaec0:s390x (1.0.6-1) ... Setting up libsasl2-modules-db:s390x (2.1.28+dfsg-11) ... Setting up liberror-perl (0.17029-2) ... Setting up autotools-dev (20220109.1) ... Setting up libblas3:s390x (3.11.0-2) ... update-alternatives: using /usr/lib/s390x-linux-gnu/blas/libblas.so.3 to provide /usr/lib/s390x-linux-gnu/libblas.so.3 (libblas.so.3-s390x-linux-gnu) in auto mode Setting up libuv1:s390x (1.44.2-1) ... Setting up librtmp1:s390x (2.4+20151223.gitfa8646d.1-2build4) ... Setting up libssl-dev:s390x (3.0.8-1ubuntu1) ... Setting up autopoint (0.21-12) ... Setting up libjsoncpp25:s390x (1.9.5-4) ... Setting up libjpeg-turbo8:s390x (2.1.5-2ubuntu1) ... Setting up libsasl2-2:s390x (2.1.28+dfsg-11) ... Setting up libssh-4:s390x (0.10.4-2) ... Setting up libgfortran5:s390x (13.1.0-1ubuntu1) ... Setting up autoconf (2.71-3) ... Setting up liblzma-dev:s390x (5.4.1-0.2) ... Setting up zlib1g-dev:s390x (1:1.2.13.dfsg-1ubuntu4) ... Setting up librhash0:s390x (1.4.3-3) ... Setting up libuchardet0:s390x (0.0.7-1build2) ... Setting up libsub-override-perl (0.09-4) ... Setting up git-man (1:2.39.2-1ubuntu1.1) ... Setting up libgirepository-1.0-1:s390x (1.76.1-1) ... Setting up sgml-base (1.31) ... Setting up cmake-data (3.25.1-1ubuntu1) ... Setting up libjs-jquery (3.6.1+dfsg+~3.5.14-1) ... Setting up libdeflate-dev:s390x (1.15-1) ... Setting up libelf1:s390x (0.188-2.1) ... Setting up libxml2:s390x (2.9.14+dfsg-1.2) ... Setting up libldap2:s390x (2.6.3+dfsg-1~exp1ubuntu2) ... Setting up libsz2:s390x (1.0.6-1) ... Setting up libjs-bootstrap (3.4.1+dfsg-3) ... Setting up libpython3-stdlib:s390x (3.11.2-1) ... Setting up libjpeg8:s390x (8c-2ubuntu11) ... Setting up automake (1:1.16.5-1.3) ... update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode Setting up libfile-stripnondeterminism-perl (1.13.1-1) ... Setting up python3.11 (3.11.2-6) ... Setting up libdw1:s390x (0.188-2.1) ... Setting up libjpeg-turbo8-dev:s390x (2.1.5-2ubuntu1) ... Setting up liblapack3:s390x (3.11.0-2) ... update-alternatives: using /usr/lib/s390x-linux-gnu/lapack/liblapack.so.3 to provide /usr/lib/s390x-linux-gnu/liblapack.so.3 (liblapack.so.3-s390x-linux-gnu) in auto mode Setting up gettext (0.21-12) ... Setting up libtool (2.4.7-5) ... Setting up libarchive13:s390x (3.6.2-1ubuntu1) ... Setting up libaec-dev:s390x (1.0.6-1) ... Setting up libcurl3-gnutls:s390x (7.88.1-8ubuntu1) ... Setting up python3 (3.11.2-1) ... Setting up libcurl4-gnutls-dev:s390x (7.88.1-8ubuntu1) ... Setting up python3-markupsafe (2.1.2-1build1) ... Setting up python3-psutil (5.9.4-1build1) ... Setting up python3-multidict (6.0.4-1build1) ... Setting up python3-frozenlist (1.3.3-1build1) ... Setting up python3-aiosignal (1.3.1-1) ... Setting up intltool-debian (0.35.0+20060710.6) ... Setting up python3-ratelimiter (1.2.0.post0-4) ... Setting up python3-async-timeout (4.0.2-1) ... Setting up python3-six (1.16.0-4) ... Setting up dh-autoreconf (20) ... Setting up coinor-libcoinutils3v5:s390x (2.11.4+repack1-2) ... Setting up python3-isodate (0.6.1-1) ... Setting up python3-roman (3.3-3) ... Setting up python3-decorator (5.1.1-3) ... Setting up python3-jinja2 (3.1.2-1) ... Setting up python3-packaging (23.0-1) ... Setting up python3-pyparsing (3.0.9-1) ... Setting up python3-humanfriendly (10.0-3) ... Setting up python3-certifi (2022.9.24-1) ... Setting up python3-avro (1.11.1+dfsg-2) ... Setting up python3-jmespath (1.0.1-1) ... Setting up python3-connection-pool (0.0.3-2) ... Setting up python3-idna (3.3-1) ... Setting up python3-wrapt (1.14.1-2build1) ... Setting up python3-throttler (1.2.2-2) ... Setting up python3-typing-extensions (4.4.0-1) ... Setting up git (1:2.39.2-1ubuntu1.1) ... Setting up gir1.2-glib-2.0:s390x (1.76.1-1) ... Setting up coinor-libosi1v5:s390x (0.108.6+repack1-2) ... Setting up python3-urllib3 (1.26.12-1) ... Setting up dh-strip-nondeterminism (1.13.1-1) ... Setting up python3-fastjsonschema (2.16.2-1) ... Setting up python3-pyrsistent:s390x (0.18.1-1build3) ... Setting up dwz (0.15-1) ... Setting up groff-base (1.22.4-10) ... Setting up xml-core (0.18+nmu1) ... Setting up python3-traitlets (5.5.0-1) ... Setting up python3-portalocker (2.2.1-1) ... Setting up debugedit (1:5.0-5) ... Setting up libcurl4:s390x (7.88.1-8ubuntu1) ... Setting up python3-dateutil (2.8.2-2) ... Setting up python3-datrie:s390x (0.8.2-4build1) ... Setting up libjpeg8-dev:s390x (8c-2ubuntu11) ... Setting up python3-lib2to3 (3.11.2-2) ... Setting up python3-appdirs (1.4.4-3) ... Setting up python3-yarl (1.8.2-1build1) ... Setting up python3-smmap (5.0.0-1) ... Setting up python3-cffi-backend:s390x (1.15.1-5build1) ... Setting up python3-blinker (1.5-1) ... Setting up python3-pkg-resources (66.1.1-1) ... Setting up python3-distutils (3.11.2-2) ... Setting up python3-toposort (1.9-1) ... Setting up python3-configargparse (1.5.3-1) ... Setting up python3-attr (22.2.0-1) ... Setting up libhts3:s390x (1.16+ds-3) ... Setting up python3-setuptools (66.1.1-1) ... Setting up python3-py (1.11.0-1) ... Setting up python3-jwt (2.6.0-1) ... Setting up python3-colorama (0.4.6-2) ... Setting up python3-charset-normalizer (3.0.1-2) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up python3-bcrypt (3.2.2-1) ... Setting up python3-tqdm (4.64.1-1) ... Setting up python3-ruamel.yaml.clib:s390x (0.2.7-1build1) ... Setting up libjpeg-dev:s390x (8c-2ubuntu11) ... Setting up python3-aiohttp (3.8.4-1) ... Setting up python3-marshmallow (3.18.0-1) ... Setting up libhts-dev:s390x (1.16+ds-3) ... Setting up python3-tabulate (0.8.9-0ubuntu1) ... Setting up python3-yaml (6.0-3build1) ... Setting up python3-gitdb (4.0.9-2) ... Setting up python3-uamqp (1.5.3-1build2) ... Setting up man-db (2.11.2-2) ... 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-chardet (5.1.0+dfsg-2) ... Setting up python3-jsonschema (4.6.0-3ubuntu1) ... Setting up coinor-libclp1:s390x (1.17.6-3) ... Setting up python3-cryptography (38.0.4-3) ... Setting up python3-git (3.1.30-1) ... Setting up python3-gi (3.44.1-1) ... Setting up python3-requests (2.28.1+dfsg-1ubuntu1) ... Setting up python3-retry (0.9.2-2) ... Setting up python3-ruamel.yaml (0.17.21-1) ... Setting up libhdf5-103-1:s390x (1.10.8+repack1-1ubuntu1) ... Setting up python3-adal (1.2.7-2) ... Setting up python3-stopit (1.1.2-2) ... Setting up libhdf5-cpp-103-1:s390x (1.10.8+repack1-1ubuntu1) ... Setting up cmake (3.25.1-1ubuntu1) ... Setting up coinor-libcgl1:s390x (0.60.3+repack1-4) ... Setting up python3-jupyter-core (4.12.0-1) ... Setting up python3-nacl (1.5.0-2) ... Setting up libhdf5-hl-100:s390x (1.10.8+repack1-1ubuntu1) ... Setting up coinor-libcbc3:s390x (2.10.8+ds1-1) ... Setting up python3-msal (1.21.0-1) ... Setting up python3-msal-extensions (1.0.0-2) ... Setting up debhelper (13.11.4ubuntu3) ... Setting up python3-nbformat (5.5.0-1) ... Setting up python3-strictyaml (1.6.1-3) ... Setting up libhdf5-hl-cpp-100:s390x (1.10.8+repack1-1ubuntu1) ... Setting up python3-oauthlib (3.2.2-1) ... Setting up coinor-cbc (2.10.8+ds1-1) ... Setting up python3-botocore (1.29.27+repack-1) ... Setting up libhdf5-fortran-102:s390x (1.10.8+repack1-1ubuntu1) ... Setting up libhdf5-hl-fortran-100:s390x (1.10.8+repack1-1ubuntu1) ... Setting up python3-paramiko (2.12.0-2ubuntu1) ... Setting up python3-requests-oauthlib (1.3.0+ds-1) ... Setting up python3-pulp (2.6.0+dfsg-1) ... Setting up python3-s3transfer (0.6.0-1) ... Setting up python3-msrest (0.6.21-2) ... Setting up libhdf5-dev (1.10.8+repack1-1ubuntu1) ... update-alternatives: using /usr/lib/s390x-linux-gnu/pkgconfig/hdf5-serial.pc to provide /usr/lib/s390x-linux-gnu/pkgconfig/hdf5.pc (hdf5.pc) in auto mode Setting up python3-boto3 (1.26.27+dfsg-1) ... Setting up python3-msrestazure (0.6.4-2) ... Setting up python3-azure (20230112+git-1) ... Setting up python3-azure-storage (20230112+git-1) ... Setting up python3-smart-open (5.2.1-5) ... Processing triggers for libc-bin (2.37-0ubuntu2) ... Processing triggers for systemd (252.5-2ubuntu3) ... Processing triggers for sgml-base (1.31) ... Setting up docutils-common (0.19+dfsg-6) ... Processing triggers for sgml-base (1.31) ... Setting up python3-docutils (0.19+dfsg-6) ... Setting up snakemake (7.21.0-1) ... Setting up sbuild-build-depends-main-dummy (0.invalid.0) ... +------------------------------------------------------------------------------+ | Check architectures | +------------------------------------------------------------------------------+ Arch check ok (s390x included in any-amd64 arm64 mips64el ppc64el s390x alpha hppa ia64 ppc64 riscv64 sparc64 all) +------------------------------------------------------------------------------+ | Build environment | +------------------------------------------------------------------------------+ Kernel: Linux 5.4.0-147-generic #164-Ubuntu SMP Tue Mar 21 14:22:27 UTC 2023 s390x (s390x) Toolchain package versions: binutils_2.40-2ubuntu4 dpkg-dev_1.21.21ubuntu1 g++-12_12.2.0-17ubuntu1 gcc-12_12.2.0-17ubuntu1 libc6-dev_2.37-0ubuntu2 libstdc++-12-dev_12.2.0-17ubuntu1 libstdc++6_13.1.0-1ubuntu1 linux-libc-dev_6.2.0-21.21 Package versions: adduser_3.129ubuntu1 advancecomp_2.5-1 apt_2.6.0 autoconf_2.71-3 automake_1:1.16.5-1.3 autopoint_0.21-12 autotools-dev_20220109.1 base-files_12.3ubuntu3 base-passwd_3.6.1 bash_5.2.15-2ubuntu1 binutils_2.40-2ubuntu4 binutils-common_2.40-2ubuntu4 binutils-s390x-linux-gnu_2.40-2ubuntu4 bsdextrautils_2.38.1-4ubuntu1 bsdutils_1:2.38.1-4ubuntu1 build-essential_12.9ubuntu3 bzip2_1.0.8-5build1 ca-certificates_20230311 catch2_2.13.10-1 cmake_3.25.1-1ubuntu1 cmake-data_3.25.1-1ubuntu1 coinor-cbc_2.10.8+ds1-1 coinor-libcbc3_2.10.8+ds1-1 coinor-libcgl1_0.60.3+repack1-4 coinor-libclp1_1.17.6-3 coinor-libcoinutils3v5_2.11.4+repack1-2 coinor-libosi1v5_0.108.6+repack1-2 coreutils_9.1-1ubuntu2 cpp_4:12.2.0-3ubuntu1 cpp-12_12.2.0-17ubuntu1 dash_0.5.12-2ubuntu1 debconf_1.5.82 debhelper_13.11.4ubuntu3 debianutils_5.7-0.4 debugedit_1:5.0-5 dh-autoreconf_20 dh-strip-nondeterminism_1.13.1-1 diffutils_1:3.8-4 docutils-common_0.19+dfsg-6 dpkg_1.21.21ubuntu1 dpkg-dev_1.21.21ubuntu1 dwz_0.15-1 e2fsprogs_1.47.0-1ubuntu1 fakeroot_1.31-1.2 file_1:5.44-3 findutils_4.9.0-3ubuntu1 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sed_4.9-1 sensible-utils_0.0.17+nmu1 sgml-base_1.31 snakemake_7.21.0-1 systemd_252.5-2ubuntu3 systemd-sysv_252.5-2ubuntu3 sysvinit-utils_3.06-2ubuntu1 tar_1.34+dfsg-1.2 tzdata_2023c-2exp1ubuntu1 ubuntu-keyring_2021.03.26 usrmerge_33ubuntu1 util-linux_2.38.1-4ubuntu1 util-linux-extra_2.38.1-4ubuntu1 xml-core_0.18+nmu1 xz-utils_5.4.1-0.2 zlib1g_1:1.2.13.dfsg-1ubuntu4 zlib1g-dev_1:1.2.13.dfsg-1ubuntu4 +------------------------------------------------------------------------------+ | Build | +------------------------------------------------------------------------------+ Unpack source ------------- -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA512 Format: 3.0 (quilt) Source: kallisto Binary: kallisto, kallisto-examples Architecture: any-amd64 arm64 mips64el ppc64el s390x alpha hppa ia64 ppc64 riscv64 sparc64 all Version: 0.48.0+dfsg-4 Maintainer: Debian Med Packaging Team Uploaders: Andreas Tille Homepage: https://pachterlab.github.io/kallisto Standards-Version: 4.6.1 Vcs-Browser: https://salsa.debian.org/med-team/kallisto Vcs-Git: https://salsa.debian.org/med-team/kallisto.git Testsuite: autopkgtest Build-Depends: debhelper-compat (= 13), catch2, cmake, libhdf5-dev, libhts-dev, snakemake Package-List: kallisto deb science optional arch=any-amd64,arm64,mips64el,ppc64el,s390x,alpha,hppa,ia64,ppc64,riscv64,sparc64 kallisto-examples deb science optional arch=all Checksums-Sha1: 50c8a540a62ab57f31aaf7deabf3687f296b6d7c 1085076 kallisto_0.48.0+dfsg.orig.tar.xz 5f317432603d010f34dd9935d6cc43f18e4a4394 7116 kallisto_0.48.0+dfsg-4.debian.tar.xz Checksums-Sha256: 304a7b7fbfa4f49b60543d476f1e1ad7b3ea3d2b53510bd6ba6bdc812e69215c 1085076 kallisto_0.48.0+dfsg.orig.tar.xz f0fa8ca0d2bb8ce6210e2c7725547397adc0e8520e3703889289524308e9b298 7116 kallisto_0.48.0+dfsg-4.debian.tar.xz Files: fcce4ec57b434469d66837f75030998e 1085076 kallisto_0.48.0+dfsg.orig.tar.xz 8e5675599154f7503ab32dff51b39063 7116 kallisto_0.48.0+dfsg-4.debian.tar.xz -----BEGIN PGP SIGNATURE----- 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No public key dpkg-source: warning: cannot verify inline signature for ./kallisto_0.48.0+dfsg-4.dsc: no acceptable signature found dpkg-source: info: extracting kallisto in /<> dpkg-source: info: unpacking kallisto_0.48.0+dfsg.orig.tar.xz dpkg-source: info: unpacking kallisto_0.48.0+dfsg-4.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying use_debian_packaged_htslib.patch dpkg-source: info: applying spelling dpkg-source: info: applying htslib1.3 dpkg-source: info: applying gcc11.patch dpkg-source: info: applying disable-failing-bustools-test.patch Check disk space ---------------- Sufficient free space for build User Environment ---------------- APT_CONFIG=/var/lib/sbuild/apt.conf DEB_BUILD_OPTIONS=parallel=4 HOME=/sbuild-nonexistent LANG=C.UTF-8 LC_ALL=C.UTF-8 LOGNAME=buildd PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games SCHROOT_ALIAS_NAME=build-PACKAGEBUILD-26016520 SCHROOT_CHROOT_NAME=build-PACKAGEBUILD-26016520 SCHROOT_COMMAND=env SCHROOT_GID=2501 SCHROOT_GROUP=buildd SCHROOT_SESSION_ID=build-PACKAGEBUILD-26016520 SCHROOT_UID=2001 SCHROOT_USER=buildd SHELL=/bin/sh TERM=unknown USER=buildd V=1 dpkg-buildpackage ----------------- Command: dpkg-buildpackage -us -uc -mLaunchpad Build Daemon -B -rfakeroot dpkg-buildpackage: info: source package kallisto dpkg-buildpackage: info: source version 0.48.0+dfsg-4 dpkg-buildpackage: info: source distribution unstable dpkg-source --before-build . dpkg-buildpackage: info: host architecture s390x debian/rules clean dh clean dh_clean debian/rules binary-arch dh binary-arch dh_update_autotools_config -a dh_autoreconf -a debian/rules override_dh_auto_configure make[1]: Entering directory '/<>' dh_auto_configure -- -DDEBIAN_BUILD=1 -DLINK=shared -DBUILD_FUNCTESTING=1 cd obj-s390x-linux-gnu && cmake -DCMAKE_INSTALL_PREFIX=/usr -DCMAKE_BUILD_TYPE=None -DCMAKE_INSTALL_SYSCONFDIR=/etc -DCMAKE_INSTALL_LOCALSTATEDIR=/var -DCMAKE_EXPORT_NO_PACKAGE_REGISTRY=ON -DCMAKE_FIND_USE_PACKAGE_REGISTRY=OFF -DCMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY=ON -DFETCHCONTENT_FULLY_DISCONNECTED=ON -DCMAKE_INSTALL_RUNSTATEDIR=/run -DCMAKE_SKIP_INSTALL_ALL_DEPENDENCY=ON "-GUnix Makefiles" -DCMAKE_VERBOSE_MAKEFILE=ON -DCMAKE_INSTALL_LIBDIR=lib/s390x-linux-gnu -DDEBIAN_BUILD=1 -DLINK=shared -DBUILD_FUNCTESTING=1 .. -- The C compiler identification is GNU 12.2.0 -- The CXX compiler identification is GNU 12.2.0 -- Detecting C compiler ABI info -- Detecting C compiler ABI info - done -- Check for working C compiler: /usr/bin/cc - skipped -- Detecting C compile features -- Detecting C compile features - done -- Detecting CXX compiler ABI info -- Detecting CXX compiler ABI info - done -- Check for working CXX compiler: /usr/bin/c++ - skipped -- Detecting CXX compile features -- Detecting CXX compile features - done shared build -- Performing Test CMAKE_HAVE_LIBC_PTHREAD -- Performing Test CMAKE_HAVE_LIBC_PTHREAD - Success -- Found Threads: TRUE -- Found ZLIB: /usr/lib/s390x-linux-gnu/libz.so (found version "1.2.13") Functional testing enabled. -- Configuring done -- Generating done CMake Warning: Manually-specified variables were not used by the project: CMAKE_EXPORT_NO_PACKAGE_REGISTRY CMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY FETCHCONTENT_FULLY_DISCONNECTED -- Build files have been written to: /<>/obj-s390x-linux-gnu make[1]: Leaving directory '/<>' dh_auto_build -a cd obj-s390x-linux-gnu && make -j4 "INSTALL=install --strip-program=true" VERBOSE=1 make[1]: Entering directory '/<>/obj-s390x-linux-gnu' /usr/bin/cmake -S/<> -B/<>/obj-s390x-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /<>/obj-s390x-linux-gnu/CMakeFiles /<>/obj-s390x-linux-gnu//CMakeFiles/progress.marks make -f CMakeFiles/Makefile2 all make[2]: Entering directory '/<>/obj-s390x-linux-gnu' make -f src/CMakeFiles/kallisto_core.dir/build.make src/CMakeFiles/kallisto_core.dir/depend make[3]: Entering directory '/<>/obj-s390x-linux-gnu' cd /<>/obj-s390x-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src /<>/obj-s390x-linux-gnu /<>/obj-s390x-linux-gnu/src /<>/obj-s390x-linux-gnu/src/CMakeFiles/kallisto_core.dir/DependInfo.cmake --color= make[3]: Leaving directory '/<>/obj-s390x-linux-gnu' make -f src/CMakeFiles/kallisto_core.dir/build.make src/CMakeFiles/kallisto_core.dir/build make[3]: Entering directory '/<>/obj-s390x-linux-gnu' [ 4%] Building CXX object src/CMakeFiles/kallisto_core.dir/BUSData.cpp.o [ 9%] Building CXX object src/CMakeFiles/kallisto_core.dir/BUSTools.cpp.o cd /<>/obj-s390x-linux-gnu/src && /usr/bin/c++ -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/kallisto-0.48.0+dfsg-4 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -MD -MT src/CMakeFiles/kallisto_core.dir/BUSData.cpp.o -MF CMakeFiles/kallisto_core.dir/BUSData.cpp.o.d -o CMakeFiles/kallisto_core.dir/BUSData.cpp.o -c /<>/src/BUSData.cpp [ 14%] Building CXX object src/CMakeFiles/kallisto_core.dir/Bootstrap.cpp.o cd /<>/obj-s390x-linux-gnu/src && /usr/bin/c++ -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/kallisto-0.48.0+dfsg-4 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -MD -MT src/CMakeFiles/kallisto_core.dir/BUSTools.cpp.o -MF CMakeFiles/kallisto_core.dir/BUSTools.cpp.o.d -o CMakeFiles/kallisto_core.dir/BUSTools.cpp.o -c /<>/src/BUSTools.cpp cd /<>/obj-s390x-linux-gnu/src && /usr/bin/c++ -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/kallisto-0.48.0+dfsg-4 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -MD -MT src/CMakeFiles/kallisto_core.dir/Bootstrap.cpp.o -MF CMakeFiles/kallisto_core.dir/Bootstrap.cpp.o.d -o CMakeFiles/kallisto_core.dir/Bootstrap.cpp.o -c /<>/src/Bootstrap.cpp [ 19%] Building CXX object src/CMakeFiles/kallisto_core.dir/GeneModel.cpp.o cd /<>/obj-s390x-linux-gnu/src && /usr/bin/c++ -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/kallisto-0.48.0+dfsg-4 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -MD -MT src/CMakeFiles/kallisto_core.dir/GeneModel.cpp.o -MF CMakeFiles/kallisto_core.dir/GeneModel.cpp.o.d -o CMakeFiles/kallisto_core.dir/GeneModel.cpp.o -c /<>/src/GeneModel.cpp [ 23%] Building CXX object src/CMakeFiles/kallisto_core.dir/H5Writer.cpp.o cd /<>/obj-s390x-linux-gnu/src && /usr/bin/c++ -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/kallisto-0.48.0+dfsg-4 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -MD -MT src/CMakeFiles/kallisto_core.dir/H5Writer.cpp.o -MF CMakeFiles/kallisto_core.dir/H5Writer.cpp.o.d -o CMakeFiles/kallisto_core.dir/H5Writer.cpp.o -c /<>/src/H5Writer.cpp [ 28%] Building CXX object src/CMakeFiles/kallisto_core.dir/Kmer.cpp.o cd /<>/obj-s390x-linux-gnu/src && /usr/bin/c++ -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/kallisto-0.48.0+dfsg-4 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -MD -MT src/CMakeFiles/kallisto_core.dir/Kmer.cpp.o -MF CMakeFiles/kallisto_core.dir/Kmer.cpp.o.d -o CMakeFiles/kallisto_core.dir/Kmer.cpp.o -c /<>/src/Kmer.cpp [ 33%] Building CXX object src/CMakeFiles/kallisto_core.dir/KmerIndex.cpp.o cd /<>/obj-s390x-linux-gnu/src && /usr/bin/c++ -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/kallisto-0.48.0+dfsg-4 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -MD -MT src/CMakeFiles/kallisto_core.dir/KmerIndex.cpp.o -MF CMakeFiles/kallisto_core.dir/KmerIndex.cpp.o.d -o CMakeFiles/kallisto_core.dir/KmerIndex.cpp.o -c /<>/src/KmerIndex.cpp [ 38%] Building CXX object src/CMakeFiles/kallisto_core.dir/KmerIterator.cpp.o cd /<>/obj-s390x-linux-gnu/src && /usr/bin/c++ -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/kallisto-0.48.0+dfsg-4 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -MD -MT src/CMakeFiles/kallisto_core.dir/KmerIterator.cpp.o -MF CMakeFiles/kallisto_core.dir/KmerIterator.cpp.o.d -o CMakeFiles/kallisto_core.dir/KmerIterator.cpp.o -c /<>/src/KmerIterator.cpp [ 42%] Building CXX object src/CMakeFiles/kallisto_core.dir/Merge.cpp.o cd /<>/obj-s390x-linux-gnu/src && /usr/bin/c++ -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/kallisto-0.48.0+dfsg-4 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -MD -MT src/CMakeFiles/kallisto_core.dir/Merge.cpp.o -MF CMakeFiles/kallisto_core.dir/Merge.cpp.o.d -o CMakeFiles/kallisto_core.dir/Merge.cpp.o -c /<>/src/Merge.cpp [ 47%] Building CXX object src/CMakeFiles/kallisto_core.dir/MinCollector.cpp.o cd /<>/obj-s390x-linux-gnu/src && /usr/bin/c++ -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/kallisto-0.48.0+dfsg-4 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -MD -MT src/CMakeFiles/kallisto_core.dir/MinCollector.cpp.o -MF CMakeFiles/kallisto_core.dir/MinCollector.cpp.o.d -o CMakeFiles/kallisto_core.dir/MinCollector.cpp.o -c /<>/src/MinCollector.cpp [ 52%] Building CXX object src/CMakeFiles/kallisto_core.dir/PlaintextWriter.cpp.o cd /<>/obj-s390x-linux-gnu/src && /usr/bin/c++ -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/kallisto-0.48.0+dfsg-4 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -MD -MT src/CMakeFiles/kallisto_core.dir/PlaintextWriter.cpp.o -MF CMakeFiles/kallisto_core.dir/PlaintextWriter.cpp.o.d -o CMakeFiles/kallisto_core.dir/PlaintextWriter.cpp.o -c /<>/src/PlaintextWriter.cpp [ 57%] Building CXX object src/CMakeFiles/kallisto_core.dir/ProcessReads.cpp.o cd /<>/obj-s390x-linux-gnu/src && /usr/bin/c++ -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/kallisto-0.48.0+dfsg-4 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -MD -MT src/CMakeFiles/kallisto_core.dir/ProcessReads.cpp.o -MF CMakeFiles/kallisto_core.dir/ProcessReads.cpp.o.d -o CMakeFiles/kallisto_core.dir/ProcessReads.cpp.o -c /<>/src/ProcessReads.cpp [ 61%] Building CXX object src/CMakeFiles/kallisto_core.dir/PseudoBam.cpp.o cd /<>/obj-s390x-linux-gnu/src && /usr/bin/c++ -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/kallisto-0.48.0+dfsg-4 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -MD -MT src/CMakeFiles/kallisto_core.dir/PseudoBam.cpp.o -MF CMakeFiles/kallisto_core.dir/PseudoBam.cpp.o.d -o CMakeFiles/kallisto_core.dir/PseudoBam.cpp.o -c /<>/src/PseudoBam.cpp [ 66%] Building CXX object src/CMakeFiles/kallisto_core.dir/common.cpp.o cd /<>/obj-s390x-linux-gnu/src && /usr/bin/c++ -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/kallisto-0.48.0+dfsg-4 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -MD -MT src/CMakeFiles/kallisto_core.dir/common.cpp.o -MF CMakeFiles/kallisto_core.dir/common.cpp.o.d -o CMakeFiles/kallisto_core.dir/common.cpp.o -c /<>/src/common.cpp [ 71%] Building CXX object src/CMakeFiles/kallisto_core.dir/h5utils.cpp.o cd /<>/obj-s390x-linux-gnu/src && /usr/bin/c++ -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/kallisto-0.48.0+dfsg-4 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -MD -MT src/CMakeFiles/kallisto_core.dir/h5utils.cpp.o -MF CMakeFiles/kallisto_core.dir/h5utils.cpp.o.d -o CMakeFiles/kallisto_core.dir/h5utils.cpp.o -c /<>/src/h5utils.cpp [ 76%] Building CXX object src/CMakeFiles/kallisto_core.dir/hash.cpp.o cd /<>/obj-s390x-linux-gnu/src && /usr/bin/c++ -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/kallisto-0.48.0+dfsg-4 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -MD -MT src/CMakeFiles/kallisto_core.dir/hash.cpp.o -MF CMakeFiles/kallisto_core.dir/hash.cpp.o.d -o CMakeFiles/kallisto_core.dir/hash.cpp.o -c /<>/src/hash.cpp [ 80%] Building CXX object src/CMakeFiles/kallisto_core.dir/main.cpp.o cd /<>/obj-s390x-linux-gnu/src && /usr/bin/c++ -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/kallisto-0.48.0+dfsg-4 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -MD -MT src/CMakeFiles/kallisto_core.dir/main.cpp.o -MF CMakeFiles/kallisto_core.dir/main.cpp.o.d -o CMakeFiles/kallisto_core.dir/main.cpp.o -c /<>/src/main.cpp [ 85%] Building CXX object src/CMakeFiles/kallisto_core.dir/weights.cpp.o cd /<>/obj-s390x-linux-gnu/src && /usr/bin/c++ -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/kallisto-0.48.0+dfsg-4 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -MD -MT src/CMakeFiles/kallisto_core.dir/weights.cpp.o -MF CMakeFiles/kallisto_core.dir/weights.cpp.o.d -o CMakeFiles/kallisto_core.dir/weights.cpp.o -c /<>/src/weights.cpp [ 90%] Linking CXX static library libkallisto_core.a cd /<>/obj-s390x-linux-gnu/src && /usr/bin/cmake -P CMakeFiles/kallisto_core.dir/cmake_clean_target.cmake cd /<>/obj-s390x-linux-gnu/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/kallisto_core.dir/link.txt --verbose=1 /usr/bin/ar qc libkallisto_core.a CMakeFiles/kallisto_core.dir/BUSData.cpp.o CMakeFiles/kallisto_core.dir/BUSTools.cpp.o CMakeFiles/kallisto_core.dir/Bootstrap.cpp.o CMakeFiles/kallisto_core.dir/GeneModel.cpp.o CMakeFiles/kallisto_core.dir/H5Writer.cpp.o CMakeFiles/kallisto_core.dir/Kmer.cpp.o CMakeFiles/kallisto_core.dir/KmerIndex.cpp.o CMakeFiles/kallisto_core.dir/KmerIterator.cpp.o CMakeFiles/kallisto_core.dir/Merge.cpp.o CMakeFiles/kallisto_core.dir/MinCollector.cpp.o CMakeFiles/kallisto_core.dir/PlaintextWriter.cpp.o CMakeFiles/kallisto_core.dir/ProcessReads.cpp.o CMakeFiles/kallisto_core.dir/PseudoBam.cpp.o CMakeFiles/kallisto_core.dir/common.cpp.o CMakeFiles/kallisto_core.dir/h5utils.cpp.o CMakeFiles/kallisto_core.dir/hash.cpp.o CMakeFiles/kallisto_core.dir/main.cpp.o CMakeFiles/kallisto_core.dir/weights.cpp.o /usr/bin/ranlib libkallisto_core.a make[3]: Leaving directory '/<>/obj-s390x-linux-gnu' [ 90%] Built target kallisto_core make -f src/CMakeFiles/kallisto.dir/build.make src/CMakeFiles/kallisto.dir/depend make[3]: Entering directory '/<>/obj-s390x-linux-gnu' cd /<>/obj-s390x-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src /<>/obj-s390x-linux-gnu /<>/obj-s390x-linux-gnu/src /<>/obj-s390x-linux-gnu/src/CMakeFiles/kallisto.dir/DependInfo.cmake --color= make[3]: Leaving directory '/<>/obj-s390x-linux-gnu' make -f src/CMakeFiles/kallisto.dir/build.make src/CMakeFiles/kallisto.dir/build make[3]: Entering directory '/<>/obj-s390x-linux-gnu' [ 95%] Building CXX object src/CMakeFiles/kallisto.dir/main.cpp.o cd /<>/obj-s390x-linux-gnu/src && /usr/bin/c++ -I/<>/src -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/kallisto-0.48.0+dfsg-4 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -MD -MT src/CMakeFiles/kallisto.dir/main.cpp.o -MF CMakeFiles/kallisto.dir/main.cpp.o.d -o CMakeFiles/kallisto.dir/main.cpp.o -c /<>/src/main.cpp [100%] Linking CXX executable kallisto cd /<>/obj-s390x-linux-gnu/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/kallisto.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/kallisto-0.48.0+dfsg-4 -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/kallisto.dir/main.cpp.o -o kallisto libkallisto_core.a -lpthread -lhts libkallisto_core.a -lz -lrt make[3]: Leaving directory '/<>/obj-s390x-linux-gnu' [100%] Built target kallisto make[2]: Leaving directory '/<>/obj-s390x-linux-gnu' /usr/bin/cmake -E cmake_progress_start /<>/obj-s390x-linux-gnu/CMakeFiles 0 make[1]: Leaving directory '/<>/obj-s390x-linux-gnu' debian/rules override_dh_auto_test make[1]: Entering directory '/<>' dh_auto_test cd obj-s390x-linux-gnu && make -j4 test ARGS\+=--verbose ARGS\+=-j4 make[2]: Entering directory '/<>/obj-s390x-linux-gnu' /usr/bin/cmake -S/<> -B/<>/obj-s390x-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 make -f CMakeFiles/Makefile2 test make[3]: Entering directory '/<>/obj-s390x-linux-gnu' /usr/bin/cmake -S/<> -B/<>/obj-s390x-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /<>/obj-s390x-linux-gnu/CMakeFiles 21 make -f CMakeFiles/Makefile2 CMakeFiles/test.dir/all make[4]: Entering directory '/<>/obj-s390x-linux-gnu' make -f src/CMakeFiles/kallisto_core.dir/build.make src/CMakeFiles/kallisto_core.dir/depend make[5]: Entering directory '/<>/obj-s390x-linux-gnu' cd /<>/obj-s390x-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src /<>/obj-s390x-linux-gnu /<>/obj-s390x-linux-gnu/src /<>/obj-s390x-linux-gnu/src/CMakeFiles/kallisto_core.dir/DependInfo.cmake --color= make[5]: Leaving directory '/<>/obj-s390x-linux-gnu' make -f src/CMakeFiles/kallisto_core.dir/build.make src/CMakeFiles/kallisto_core.dir/build make[5]: Entering directory '/<>/obj-s390x-linux-gnu' make[5]: Nothing to be done for 'src/CMakeFiles/kallisto_core.dir/build'. make[5]: Leaving directory '/<>/obj-s390x-linux-gnu' [ 90%] Built target kallisto_core make -f src/CMakeFiles/kallisto.dir/build.make src/CMakeFiles/kallisto.dir/depend make[5]: Entering directory '/<>/obj-s390x-linux-gnu' cd /<>/obj-s390x-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src /<>/obj-s390x-linux-gnu /<>/obj-s390x-linux-gnu/src /<>/obj-s390x-linux-gnu/src/CMakeFiles/kallisto.dir/DependInfo.cmake --color= make[5]: Leaving directory '/<>/obj-s390x-linux-gnu' make -f src/CMakeFiles/kallisto.dir/build.make src/CMakeFiles/kallisto.dir/build make[5]: Entering directory '/<>/obj-s390x-linux-gnu' make[5]: Nothing to be done for 'src/CMakeFiles/kallisto.dir/build'. make[5]: Leaving directory '/<>/obj-s390x-linux-gnu' [100%] Built target kallisto make -f CMakeFiles/test.dir/build.make CMakeFiles/test.dir/depend make[5]: Entering directory '/<>/obj-s390x-linux-gnu' cd /<>/obj-s390x-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<> /<>/obj-s390x-linux-gnu /<>/obj-s390x-linux-gnu /<>/obj-s390x-linux-gnu/CMakeFiles/test.dir/DependInfo.cmake --color= make[5]: Leaving directory '/<>/obj-s390x-linux-gnu' make -f CMakeFiles/test.dir/build.make CMakeFiles/test.dir/build make[5]: Entering directory '/<>/obj-s390x-linux-gnu' /bin/bash ./func_tests/runtests.sh [INDEX] ./src/kallisto index -i ./func_tests/basic7.idx -k 7 ./func_tests/simple.fasta ^[OK] ./src/kallisto inspect ./func_tests/basic7.idx 2>&1|head -4 ^[Output OK] ./src/kallisto index -i ./func_tests/basic9.idx -k 9 ./func_tests/simple.fasta ^[OK] ./src/kallisto inspect ./func_tests/basic9.idx 2>&1|head -4 ^[Output OK] ./src/kallisto index -i ./func_tests/nonATCG.idx -k 5 ./func_tests/nonATCG.fasta ^[OK] ./src/kallisto inspect ./func_tests/nonATCG.idx 2>&1|head -4 ^[Output OK] ./src/kallisto index -i ./func_tests/polyA.idx -k 5 ./func_tests/polyA.fasta ^[OK] ./src/kallisto inspect ./func_tests/polyA.idx 2>&1|head -4 ^[Output OK] ./src/kallisto index -i ./func_tests/basic_fail.idx -k 10 ./func_tests/simple.fasta ^[OK - Exited non-zero as expected] ./src/kallisto index -i ./func_tests/duplicates_fail.idx -k 11 ./func_tests/duplicates.fasta ^[OK - Exited non-zero as expected] ./src/kallisto index -i ./func_tests/duplicates.idx -k 11 --make-unique ./func_tests/duplicates.fasta ^[OK] ./src/kallisto inspect ./func_tests/duplicates.idx 2>&1|head -4 ^[Output OK] ./src/kallisto quant -o ./func_tests/quantbasic -i ./func_tests/basic7.idx --single -l 5 -s 2 ./func_tests/small.fastq.gz ^[OK] cat ./func_tests/quantbasic/abundance.tsv ^[Output OK] ./src/kallisto quant -o ./func_tests/quantnonATCG -i ./func_tests/nonATCG.idx --single -l 5 -s 2 ./func_tests/small.fastq.gz ^[OK] cat ./func_tests/quantnonATCG/abundance.tsv ^[Output OK] ./src/kallisto quant -o ./func_tests/quantpolyA -i ./func_tests/polyA.idx --single -l 5 -s 2 ./func_tests/small.fastq.gz ^[OK] cat ./func_tests/quantpolyA/abundance.tsv ^[Output OK] ./src/kallisto quant -o ./func_tests/quantduplicates -i ./func_tests/duplicates.idx --single -l 5 -s 2 ./func_tests/small.fastq.gz ^[OK] cat ./func_tests/quantduplicates/abundance.tsv ^[Output OK] ./src/kallisto quant -o ./func_tests/quantbasicfr -i ./func_tests/basic7.idx --single --fr-stranded -l 5 -s 2 ./func_tests/small.fastq.gz ^[OK] cat ./func_tests/quantbasicfr/abundance.tsv ^[Output OK] ./src/kallisto quant -o ./func_tests/quantbasicrf -i ./func_tests/basic7.idx --single --rf-stranded -l 5 -s 2 ./func_tests/small.fastq.gz ^[OK] cat ./func_tests/quantbasicrf/abundance.tsv ^[Output OK] ./src/kallisto quant -o ./func_tests/quantbasicpaired -i ./func_tests/basic7.idx ./func_tests/simple_pair1.fastq.gz ./func_tests/simple_pair2.fastq.gz ^[OK] cat ./func_tests/quantbasicpaired/abundance.tsv ^[Output OK] ./src/kallisto quant -o ./func_tests/quantbasicpairedfr -i ./func_tests/basic7.idx --fr-stranded ./func_tests/simple_pair1.fastq.gz ./func_tests/simple_pair2.fastq.gz ^[OK] cat ./func_tests/quantbasicpairedfr/abundance.tsv ^[Output OK] ./src/kallisto quant -o ./func_tests/quantbasicpairedrf -i ./func_tests/basic7.idx --rf-stranded ./func_tests/simple_pair1.fastq.gz ./func_tests/simple_pair2.fastq.gz ^[OK] cat ./func_tests/quantbasicpairedrf/abundance.tsv ^[Output OK] ./src/kallisto quant -o ./func_tests/quantbasicpairedmultfr -i ./func_tests/basic7.idx --fr-stranded ./func_tests/simple_pair1.fastq.gz ./func_tests/simple_pair2.fastq.gz ./func_tests/simple_pair2.fastq.gz ./func_tests/simple_pair1.fastq.gz ^[OK] cat ./func_tests/quantbasicpairedmultfr/abundance.tsv ^[Output OK] ./src/kallisto quant -o ./func_tests/quantlarge -t 12 -i ./func_tests/basic7.idx --single -l 5 -s 2 ./func_tests/large.fastq.gz ./func_tests/large.fastq.gz ./func_tests/large.fastq.gz ./func_tests/large.fastq.gz ./func_tests/large.fastq.gz ^[OK] cat ./func_tests/quantlarge/abundance.tsv ^[Output OK] Not testing with bustools as tests fail with bustools make[5]: Leaving directory '/<>/obj-s390x-linux-gnu' [100%] Built target test make[4]: Leaving directory '/<>/obj-s390x-linux-gnu' /usr/bin/cmake -E cmake_progress_start /<>/obj-s390x-linux-gnu/CMakeFiles 0 make[3]: Leaving directory '/<>/obj-s390x-linux-gnu' make[2]: Leaving directory '/<>/obj-s390x-linux-gnu' cd test && PATH=$(find ../obj-* -name src):/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games HOME=$(mktemp --directory) snakemake --cores 1 Building DAG of jobs... Using shell: /usr/bin/bash Provided cores: 1 (use --cores to define parallelism) Rules claiming more threads will be scaled down. Job stats: job count min threads max threads -------------- ------- ------------- ------------- all 1 1 1 index 1 1 1 kallisto_bus 1 1 1 kallisto_quant 1 1 1 total 4 1 1 Select jobs to execute... [Tue May 2 02:48:38 2023] rule index: input: transcripts.fasta.gz output: transcripts.kidx jobid: 2 reason: Missing output files: transcripts.kidx resources: tmpdir=/tmp [build] loading fasta file transcripts.fasta.gz [build] k-mer length: 31 [build] counting k-mers ... done. [build] building target de Bruijn graph ... done [build] creating equivalence classes ... done [build] target de Bruijn graph has 27 contigs and contains 22118 k-mers [Tue May 2 02:48:38 2023] Finished job 2. 1 of 4 steps (25%) done Select jobs to execute... [Tue May 2 02:48:38 2023] rule kallisto_quant: input: reads_1.fastq.gz, reads_2.fastq.gz, transcripts.kidx output: quant_out/abundance.tsv, quant_out/run_info.json jobid: 1 reason: Missing output files: quant_out/abundance.tsv; Input files updated by another job: transcripts.kidx resources: tmpdir=/tmp [quant] fragment length distribution will be estimated from the data Warning: kallisto was not compiled with HDF5 support so no bootstrapping will be performed. Run quant with --plaintext option or recompile with HDF5 support to obtain bootstrap estimates. [index] k-mer length: 31 [index] number of targets: 14 [index] number of k-mers: 22,118 [index] number of equivalence classes: 20 Warning: 13 transcripts were defined in GTF file, but not in the index [quant] running in paired-end mode [quant] will process pair 1: reads_1.fastq.gz reads_2.fastq.gz [quant] finding pseudoalignments for the reads ... done [quant] processed 10,000 reads, 9,413 reads pseudoaligned [quant] estimated average fragment length: 178.02 [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 52 rounds [ bam] writing pseudoalignments to BAM format .. done [ bam] sorting BAM files .. done [ bam] indexing BAM file .. done [Tue May 2 02:48:40 2023] Finished job 1. 2 of 4 steps (50%) done Select jobs to execute... [Tue May 2 02:48:40 2023] rule kallisto_bus: input: sc_reads_1.fastq.gz, sc_reads_2.fastq.gz, transcripts.kidx output: bus_out/matrix.ec, bus_out/transcripts.txt, bus_out/output.bus, bus_out/run_info.json jobid: 3 reason: Missing output files: bus_out/output.bus; Input files updated by another job: transcripts.kidx resources: tmpdir=/tmp [bus] Note: Strand option was not specified; setting it to --fr-stranded for specified technology [index] k-mer length: 31 [index] number of targets: 14 [index] number of k-mers: 22,118 [index] number of equivalence classes: 20 [quant] will process sample 1: sc_reads_1.fastq.gz sc_reads_2.fastq.gz [quant] finding pseudoalignments for the reads ... done [quant] processed 10,000 reads, 4,808 reads pseudoaligned [Tue May 2 02:48:40 2023] Finished job 3. 3 of 4 steps (75%) done Select jobs to execute... [Tue May 2 02:48:40 2023] localrule all: input: quant_out/abundance.tsv, bus_out/output.bus jobid: 0 reason: Input files updated by another job: bus_out/output.bus, quant_out/abundance.tsv resources: tmpdir=/tmp [Tue May 2 02:48:40 2023] Finished job 0. 4 of 4 steps (100%) done Complete log: .snakemake/log/2023-05-02T024838.486309.snakemake.log rm -rf test/.snakemake test/bus_out test/quant_out/run_info.json test/transcripts.kidx.gz make[1]: Leaving directory '/<>' create-stamp debian/debhelper-build-stamp dh_prep -a dh_auto_install -a cd obj-s390x-linux-gnu && make -j4 install DESTDIR=/<>/kallisto-0.48.0\+dfsg/debian/tmp AM_UPDATE_INFO_DIR=no "INSTALL=install --strip-program=true" make[1]: Entering directory '/<>/obj-s390x-linux-gnu' /usr/bin/cmake -S/<> -B/<>/obj-s390x-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 make -f CMakeFiles/Makefile2 preinstall make[2]: Entering directory '/<>/obj-s390x-linux-gnu' make[2]: Nothing to be done for 'preinstall'. make[2]: Leaving directory '/<>/obj-s390x-linux-gnu' Install the project... /usr/bin/cmake -P cmake_install.cmake -- Install configuration: "None" -- Installing: /<>/debian/tmp/usr/bin/kallisto make[1]: Leaving directory '/<>/obj-s390x-linux-gnu' dh_install -a dh_installdocs -a dh_installchangelogs -a dh_perl -a dh_link -a dh_strip_nondeterminism -a dh_compress -a dh_fixperms -a dh_missing -a dh_dwz -a dh_strip -a 2bc7317837834a207a4189fc53e112c853342f4b dh_makeshlibs -a dh_shlibdeps -a dh_installdeb -a dh_gencontrol -a dh_md5sums -a dh_builddeb -a INFO: pkgstriptranslations version 152 INFO: pkgstriptranslations version 152 pkgstriptranslations: processing kallisto (in debian/kallisto); do_strip: , oemstrip: pkgstriptranslations: processing kallisto-dbgsym (in debian/.debhelper/kallisto/dbgsym-root); do_strip: , oemstrip: pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " pkgstripfiles: processing control file: debian/kallisto/DEBIAN/control, package kallisto, directory debian/kallisto pkgstripfiles: processing control file: debian/.debhelper/kallisto/dbgsym-root/DEBIAN/control, package kallisto-dbgsym, directory debian/.debhelper/kallisto/dbgsym-root dpkg-deb: building package 'kallisto-dbgsym' in 'debian/.debhelper/scratch-space/build-kallisto/kallisto-dbgsym_0.48.0+dfsg-4_s390x.deb'. pkgstripfiles: Running PNG optimization (using 4 cpus) for package kallisto ... pkgstripfiles: No PNG files. dpkg-deb: building package 'kallisto' in '../kallisto_0.48.0+dfsg-4_s390x.deb'. Renaming kallisto-dbgsym_0.48.0+dfsg-4_s390x.deb to kallisto-dbgsym_0.48.0+dfsg-4_s390x.ddeb dpkg-genbuildinfo --build=any -O../kallisto_0.48.0+dfsg-4_s390x.buildinfo dpkg-genchanges --build=any -mLaunchpad Build Daemon -O../kallisto_0.48.0+dfsg-4_s390x.changes dpkg-genchanges: info: binary-only arch-specific upload (source code and arch-indep packages not included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) -------------------------------------------------------------------------------- Build finished at 2023-05-02T02:48:44Z Finished -------- I: Built successfully +------------------------------------------------------------------------------+ | Changes | +------------------------------------------------------------------------------+ kallisto_0.48.0+dfsg-4_s390x.changes: ------------------------------------- Format: 1.8 Date: Wed, 12 Apr 2023 07:44:19 +0200 Source: kallisto Binary: kallisto Built-For-Profiles: noudeb Architecture: s390x Version: 0.48.0+dfsg-4 Distribution: mantic-proposed Urgency: medium Maintainer: Launchpad Build Daemon Changed-By: Andreas Tille Description: kallisto - near-optimal RNA-Seq quantification Closes: 1004053 Changes: kallisto (0.48.0+dfsg-4) unstable; urgency=medium . [ Vagrant Cascadian ] * Remove quant_out/run_info.json to enable reproducible-builds Closes: #1004053 Checksums-Sha1: 4ba9664355294f9737fc81c65ccc0d6e343de63f 3484644 kallisto-dbgsym_0.48.0+dfsg-4_s390x.ddeb a2c47cb57c57f5334029044208480deefa25faf7 11291 kallisto_0.48.0+dfsg-4_s390x.buildinfo 1ec7ac598e10c167417d266bf5b1d682b6043645 256976 kallisto_0.48.0+dfsg-4_s390x.deb Checksums-Sha256: 151883d781e98b3f35eb515468cddefa304cdd77e9971b3847e7b3f322a08642 3484644 kallisto-dbgsym_0.48.0+dfsg-4_s390x.ddeb be5b9498f7fa385a108eb29da9cf83f7fca071a99493001bfaa8a3be7184a89f 11291 kallisto_0.48.0+dfsg-4_s390x.buildinfo 9c13833bea94cb5c10becff6caead74fde54580745462096cd0b2a385ca71050 256976 kallisto_0.48.0+dfsg-4_s390x.deb Files: 73b5aab6eaa7cd725581d4eeb869816b 3484644 debug optional kallisto-dbgsym_0.48.0+dfsg-4_s390x.ddeb ce35e8d86d8cb971ade30f6522eaaca1 11291 science optional kallisto_0.48.0+dfsg-4_s390x.buildinfo 6d1f4d766736ed19150b47c27be32e51 256976 science optional kallisto_0.48.0+dfsg-4_s390x.deb /<>/kallisto_0.48.0+dfsg-4_s390x.changes.new could not be renamed to /<>/kallisto_0.48.0+dfsg-4_s390x.changes: Illegal seek Distribution field may be wrong!!! +------------------------------------------------------------------------------+ | Buildinfo | +------------------------------------------------------------------------------+ Format: 1.0 Source: kallisto Binary: kallisto kallisto-dbgsym Architecture: s390x Version: 0.48.0+dfsg-4 Checksums-Md5: 73b5aab6eaa7cd725581d4eeb869816b 3484644 kallisto-dbgsym_0.48.0+dfsg-4_s390x.ddeb 6d1f4d766736ed19150b47c27be32e51 256976 kallisto_0.48.0+dfsg-4_s390x.deb Checksums-Sha1: 4ba9664355294f9737fc81c65ccc0d6e343de63f 3484644 kallisto-dbgsym_0.48.0+dfsg-4_s390x.ddeb 1ec7ac598e10c167417d266bf5b1d682b6043645 256976 kallisto_0.48.0+dfsg-4_s390x.deb Checksums-Sha256: 151883d781e98b3f35eb515468cddefa304cdd77e9971b3847e7b3f322a08642 3484644 kallisto-dbgsym_0.48.0+dfsg-4_s390x.ddeb 9c13833bea94cb5c10becff6caead74fde54580745462096cd0b2a385ca71050 256976 kallisto_0.48.0+dfsg-4_s390x.deb Build-Origin: Ubuntu Build-Architecture: s390x Build-Date: Tue, 02 May 2023 02:48:44 +0000 Build-Path: /<> Build-Tainted-By: merged-usr-via-aliased-dirs usr-local-has-programs Installed-Build-Depends: autoconf (= 2.71-3), automake (= 1:1.16.5-1.3), autopoint (= 0.21-12), autotools-dev (= 20220109.1), base-files (= 12.3ubuntu3), base-passwd (= 3.6.1), bash (= 5.2.15-2ubuntu1), binutils (= 2.40-2ubuntu4), binutils-common (= 2.40-2ubuntu4), binutils-s390x-linux-gnu (= 2.40-2ubuntu4), bsdextrautils (= 2.38.1-4ubuntu1), bsdutils (= 1:2.38.1-4ubuntu1), build-essential (= 12.9ubuntu3), bzip2 (= 1.0.8-5build1), ca-certificates (= 20230311), catch2 (= 2.13.10-1), cmake (= 3.25.1-1ubuntu1), cmake-data (= 3.25.1-1ubuntu1), coinor-cbc (= 2.10.8+ds1-1), coinor-libcbc3 (= 2.10.8+ds1-1), coinor-libcgl1 (= 0.60.3+repack1-4), coinor-libclp1 (= 1.17.6-3), coinor-libcoinutils3v5 (= 2.11.4+repack1-2), coinor-libosi1v5 (= 0.108.6+repack1-2), coreutils (= 9.1-1ubuntu2), cpp (= 4:12.2.0-3ubuntu1), cpp-12 (= 12.2.0-17ubuntu1), dash (= 0.5.12-2ubuntu1), debconf (= 1.5.82), debhelper (= 13.11.4ubuntu3), debianutils (= 5.7-0.4), debugedit (= 1:5.0-5), dh-autoreconf (= 20), dh-strip-nondeterminism (= 1.13.1-1), diffutils (= 1:3.8-4), docutils-common (= 0.19+dfsg-6), dpkg (= 1.21.21ubuntu1), dpkg-dev (= 1.21.21ubuntu1), dwz (= 0.15-1), file (= 1:5.44-3), findutils (= 4.9.0-3ubuntu1), fonts-glyphicons-halflings (= 1.009~3.4.1+dfsg-3), g++ (= 4:12.2.0-3ubuntu1), g++-12 (= 12.2.0-17ubuntu1), gcc (= 4:12.2.0-3ubuntu1), gcc-12 (= 12.2.0-17ubuntu1), gcc-12-base (= 12.2.0-17ubuntu1), gcc-13-base (= 13.1.0-1ubuntu1), gettext (= 0.21-12), gettext-base (= 0.21-12), gir1.2-glib-2.0 (= 1.76.1-1), git (= 1:2.39.2-1ubuntu1.1), git-man (= 1:2.39.2-1ubuntu1.1), grep (= 3.8-5), groff-base (= 1.22.4-10), gzip (= 1.12-1ubuntu1), hdf5-helpers (= 1.10.8+repack1-1ubuntu1), hostname (= 3.23+nmu1ubuntu1), init-system-helpers (= 1.65.2), intltool-debian (= 0.35.0+20060710.6), libacl1 (= 2.3.1-3), libaec-dev (= 1.0.6-1), libaec0 (= 1.0.6-1), libarchive-zip-perl (= 1.68-1), libarchive13 (= 3.6.2-1ubuntu1), libasan8 (= 13.1.0-1ubuntu1), libatomic1 (= 13.1.0-1ubuntu1), libattr1 (= 1:2.5.1-4), libaudit-common (= 1:3.0.9-1), libaudit1 (= 1:3.0.9-1), libbinutils (= 2.40-2ubuntu4), libblas3 (= 3.11.0-2), libblkid1 (= 2.38.1-4ubuntu1), libbrotli1 (= 1.0.9-2build8), libbz2-1.0 (= 1.0.8-5build1), libc-bin (= 2.37-0ubuntu2), libc-dev-bin (= 2.37-0ubuntu2), libc6 (= 2.37-0ubuntu2), libc6-dev (= 2.37-0ubuntu2), libcap-ng0 (= 0.8.3-1build2), libcap2 (= 1:2.66-3ubuntu2), libcc1-0 (= 13.1.0-1ubuntu1), libcom-err2 (= 1.47.0-1ubuntu1), libcrypt-dev (= 1:4.4.33-2), libcrypt1 (= 1:4.4.33-2), libctf-nobfd0 (= 2.40-2ubuntu4), libctf0 (= 2.40-2ubuntu4), libcurl3-gnutls (= 7.88.1-8ubuntu1), libcurl4 (= 7.88.1-8ubuntu1), libcurl4-gnutls-dev (= 7.88.1-8ubuntu1), libdatrie1 (= 0.2.13-2), libdb5.3 (= 5.3.28+dfsg2-1), libdebconfclient0 (= 0.267ubuntu1), libdebhelper-perl (= 13.11.4ubuntu3), libdeflate-dev (= 1.15-1), libdeflate0 (= 1.15-1), libdpkg-perl (= 1.21.21ubuntu1), libdw1 (= 0.188-2.1), libelf1 (= 0.188-2.1), liberror-perl (= 0.17029-2), libexpat1 (= 2.5.0-1), libffi8 (= 3.4.4-1), libfile-stripnondeterminism-perl (= 1.13.1-1), libgcc-12-dev (= 12.2.0-17ubuntu1), libgcc-s1 (= 13.1.0-1ubuntu1), libgcrypt20 (= 1.10.1-3ubuntu1), libgdbm-compat4 (= 1.23-3), libgdbm6 (= 1.23-3), libgfortran5 (= 13.1.0-1ubuntu1), libgirepository-1.0-1 (= 1.76.1-1), libglib2.0-0 (= 2.76.1-1), libgmp10 (= 2:6.2.1+dfsg1-1.1ubuntu1), libgnutls30 (= 3.7.8-5ubuntu1), libgomp1 (= 13.1.0-1ubuntu1), libgpg-error0 (= 1.46-1), libgssapi-krb5-2 (= 1.20.1-1build1), libhdf5-103-1 (= 1.10.8+repack1-1ubuntu1), libhdf5-cpp-103-1 (= 1.10.8+repack1-1ubuntu1), libhdf5-dev (= 1.10.8+repack1-1ubuntu1), libhdf5-fortran-102 (= 1.10.8+repack1-1ubuntu1), libhdf5-hl-100 (= 1.10.8+repack1-1ubuntu1), libhdf5-hl-cpp-100 (= 1.10.8+repack1-1ubuntu1), libhdf5-hl-fortran-100 (= 1.10.8+repack1-1ubuntu1), libhogweed6 (= 3.8.1-2), libhts-dev (= 1.16+ds-3), libhts3 (= 1.16+ds-3), libhtscodecs2 (= 1.3.0-4), libicu72 (= 72.1-3ubuntu2), libidn2-0 (= 2.3.3-1build1), libisl23 (= 0.25-1), libitm1 (= 13.1.0-1ubuntu1), libjansson4 (= 2.14-2), libjpeg-dev (= 8c-2ubuntu11), libjpeg-turbo8 (= 2.1.5-2ubuntu1), libjpeg-turbo8-dev (= 2.1.5-2ubuntu1), libjpeg8 (= 8c-2ubuntu11), libjpeg8-dev (= 8c-2ubuntu11), libjs-bootstrap (= 3.4.1+dfsg-3), libjs-jquery (= 3.6.1+dfsg+~3.5.14-1), libjsoncpp25 (= 1.9.5-4), libk5crypto3 (= 1.20.1-1build1), libkeyutils1 (= 1.6.3-2), libkrb5-3 (= 1.20.1-1build1), libkrb5support0 (= 1.20.1-1build1), liblapack3 (= 3.11.0-2), libldap2 (= 2.6.3+dfsg-1~exp1ubuntu2), liblz4-1 (= 1.9.4-1), liblzma-dev (= 5.4.1-0.2), liblzma5 (= 5.4.1-0.2), libmagic-mgc (= 1:5.44-3), libmagic1 (= 1:5.44-3), libmd0 (= 1.0.4-2), libmount1 (= 2.38.1-4ubuntu1), libmpc3 (= 1.3.1-1), libmpfr6 (= 4.2.0-1), libncursesw6 (= 6.4-2), libnettle8 (= 3.8.1-2), libnghttp2-14 (= 1.52.0-1), libnsl-dev (= 1.3.0-2build2), libnsl2 (= 1.3.0-2build2), libp11-kit0 (= 0.24.1-2ubuntu1), libpam-modules (= 1.5.2-5ubuntu1), libpam-modules-bin (= 1.5.2-5ubuntu1), libpam-runtime (= 1.5.2-5ubuntu1), libpam0g (= 1.5.2-5ubuntu1), libpcre2-8-0 (= 10.42-1), libperl5.36 (= 5.36.0-7), libpipeline1 (= 1.5.7-1), libproc2-0 (= 2:4.0.3-1ubuntu1), libpsl5 (= 0.21.2-1), libpython3-stdlib (= 3.11.2-1), libpython3.11-minimal (= 3.11.2-6), libpython3.11-stdlib (= 3.11.2-6), libreadline8 (= 8.2-1.3), librhash0 (= 1.4.3-3), librtmp1 (= 2.4+20151223.gitfa8646d.1-2build4), libsasl2-2 (= 2.1.28+dfsg-11), libsasl2-modules-db (= 2.1.28+dfsg-11), libseccomp2 (= 2.5.4-1ubuntu3), libselinux1 (= 3.4-1build4), libsmartcols1 (= 2.38.1-4ubuntu1), libsodium23 (= 1.0.18-1build2), libsqlite3-0 (= 3.40.1-2), libssh-4 (= 0.10.4-2), libssl-dev (= 3.0.8-1ubuntu1), libssl3 (= 3.0.8-1ubuntu1), libstdc++-12-dev (= 12.2.0-17ubuntu1), libstdc++6 (= 13.1.0-1ubuntu1), libsub-override-perl (= 0.09-4), libsystemd0 (= 252.5-2ubuntu3), libsz2 (= 1.0.6-1), libtasn1-6 (= 4.19.0-2), libtinfo6 (= 6.4-2), libtirpc-common (= 1.3.3+ds-1), libtirpc-dev (= 1.3.3+ds-1), libtirpc3 (= 1.3.3+ds-1), libtool (= 2.4.7-5), libubsan1 (= 13.1.0-1ubuntu1), libuchardet0 (= 0.0.7-1build2), libudev1 (= 252.5-2ubuntu3), libunistring2 (= 1.0-2), libuuid1 (= 2.38.1-4ubuntu1), libuv1 (= 1.44.2-1), libxml2 (= 2.9.14+dfsg-1.2), libyaml-0-2 (= 0.2.5-1), libzstd1 (= 1.5.4+dfsg2-5), linux-libc-dev (= 6.2.0-21.21), login (= 1:4.13+dfsg1-1ubuntu1), lto-disabled-list (= 40), m4 (= 1.4.19-3), make (= 4.3-4.1build1), man-db (= 2.11.2-2), mawk (= 1.3.4.20200120-3.1), media-types (= 10.0.0), ncurses-base (= 6.4-2), ncurses-bin (= 6.4-2), openssl (= 3.0.8-1ubuntu1), patch (= 2.7.6-7build2), perl (= 5.36.0-7), perl-base (= 5.36.0-7), perl-modules-5.36 (= 5.36.0-7), po-debconf (= 1.0.21+nmu1), procps (= 2:4.0.3-1ubuntu1), python3 (= 3.11.2-1), python3-adal (= 1.2.7-2), python3-aiohttp (= 3.8.4-1), python3-aiosignal (= 1.3.1-1), python3-appdirs (= 1.4.4-3), python3-async-timeout (= 4.0.2-1), python3-attr (= 22.2.0-1), python3-avro (= 1.11.1+dfsg-2), python3-azure (= 20230112+git-1), python3-azure-storage (= 20230112+git-1), python3-bcrypt (= 3.2.2-1), python3-blinker (= 1.5-1), python3-boto3 (= 1.26.27+dfsg-1), python3-botocore (= 1.29.27+repack-1), python3-certifi (= 2022.9.24-1), python3-cffi-backend (= 1.15.1-5build1), python3-chardet (= 5.1.0+dfsg-2), python3-charset-normalizer (= 3.0.1-2), python3-colorama (= 0.4.6-2), python3-configargparse (= 1.5.3-1), python3-connection-pool (= 0.0.3-2), python3-cryptography (= 38.0.4-3), python3-dateutil (= 2.8.2-2), python3-datrie (= 0.8.2-4build1), python3-decorator (= 5.1.1-3), python3-distutils (= 3.11.2-2), python3-docutils (= 0.19+dfsg-6), python3-fastjsonschema (= 2.16.2-1), python3-frozenlist (= 1.3.3-1build1), python3-gi (= 3.44.1-1), python3-git (= 3.1.30-1), python3-gitdb (= 4.0.9-2), python3-humanfriendly (= 10.0-3), python3-idna (= 3.3-1), python3-isodate (= 0.6.1-1), python3-jinja2 (= 3.1.2-1), python3-jmespath (= 1.0.1-1), python3-jsonschema (= 4.6.0-3ubuntu1), python3-jupyter-core (= 4.12.0-1), python3-jwt (= 2.6.0-1), python3-lib2to3 (= 3.11.2-2), python3-markupsafe (= 2.1.2-1build1), python3-marshmallow (= 3.18.0-1), python3-minimal (= 3.11.2-1), python3-msal (= 1.21.0-1), python3-msal-extensions (= 1.0.0-2), python3-msrest (= 0.6.21-2), python3-msrestazure (= 0.6.4-2), python3-multidict (= 6.0.4-1build1), python3-nacl (= 1.5.0-2), python3-nbformat (= 5.5.0-1), python3-oauthlib (= 3.2.2-1), python3-packaging (= 23.0-1), python3-paramiko (= 2.12.0-2ubuntu1), python3-pkg-resources (= 66.1.1-1), python3-portalocker (= 2.2.1-1), python3-psutil (= 5.9.4-1build1), python3-pulp (= 2.6.0+dfsg-1), python3-py (= 1.11.0-1), python3-pyparsing (= 3.0.9-1), python3-pyrsistent (= 0.18.1-1build3), python3-ratelimiter (= 1.2.0.post0-4), python3-requests (= 2.28.1+dfsg-1ubuntu1), python3-requests-oauthlib (= 1.3.0+ds-1), python3-retry (= 0.9.2-2), python3-roman (= 3.3-3), python3-ruamel.yaml (= 0.17.21-1), python3-ruamel.yaml.clib (= 0.2.7-1build1), python3-s3transfer (= 0.6.0-1), python3-setuptools (= 66.1.1-1), python3-six (= 1.16.0-4), python3-smart-open (= 5.2.1-5), python3-smmap (= 5.0.0-1), python3-stopit (= 1.1.2-2), python3-strictyaml (= 1.6.1-3), python3-tabulate (= 0.8.9-0ubuntu1), python3-throttler (= 1.2.2-2), python3-toposort (= 1.9-1), python3-tqdm (= 4.64.1-1), python3-traitlets (= 5.5.0-1), python3-typing-extensions (= 4.4.0-1), python3-uamqp (= 1.5.3-1build2), python3-urllib3 (= 1.26.12-1), python3-wrapt (= 1.14.1-2build1), python3-yaml (= 6.0-3build1), python3-yarl (= 1.8.2-1build1), python3.11 (= 3.11.2-6), python3.11-minimal (= 3.11.2-6), readline-common (= 8.2-1.3), rpcsvc-proto (= 1.4.2-0ubuntu6), sed (= 4.9-1), sensible-utils (= 0.0.17+nmu1), sgml-base (= 1.31), snakemake (= 7.21.0-1), sysvinit-utils (= 3.06-2ubuntu1), tar (= 1.34+dfsg-1.2), tzdata (= 2023c-2exp1ubuntu1), usrmerge (= 33ubuntu1), util-linux (= 2.38.1-4ubuntu1), util-linux-extra (= 2.38.1-4ubuntu1), xml-core (= 0.18+nmu1), xz-utils (= 5.4.1-0.2), zlib1g (= 1:1.2.13.dfsg-1ubuntu4), zlib1g-dev (= 1:1.2.13.dfsg-1ubuntu4) Environment: DEB_BUILD_OPTIONS="parallel=4" DEB_BUILD_PROFILES="noudeb" LANG="C.UTF-8" LC_ALL="C.UTF-8" SOURCE_DATE_EPOCH="1681278259" +------------------------------------------------------------------------------+ | Package contents | +------------------------------------------------------------------------------+ kallisto_0.48.0+dfsg-4_s390x.deb -------------------------------- new Debian package, version 2.0. size 256976 bytes: control archive=1045 bytes. 1377 bytes, 24 lines control 264 bytes, 4 lines md5sums Package: kallisto Version: 0.48.0+dfsg-4 Architecture: s390x Maintainer: Ubuntu Developers Original-Maintainer: Debian Med Packaging Team Installed-Size: 680 Depends: libc6 (>= 2.34), libgcc-s1 (>= 3.3.1), libhts3 (>= 1.10), libstdc++6 (>= 11), zlib1g (>= 1:1.1.4) Section: science Priority: optional Homepage: https://pachterlab.github.io/kallisto Description: near-optimal RNA-Seq quantification Kallisto is a program for quantifying abundances of transcripts from RNA-Seq data, or more generally of target sequences using high-throughput sequencing reads. It is based on the novel idea of pseudoalignment for rapidly determining the compatibility of reads with targets, without the need for alignment. On benchmarks with standard RNA-Seq data, kallisto can quantify 30 million human reads in less than 3 minutes on a Mac desktop computer using only the read sequences and a transcriptome index that itself takes less than 10 minutes to build. Pseudoalignment of reads preserves the key information needed for quantification, and kallisto is therefore not only fast, but also as accurate than existing quantification tools. In fact, because the pseudoalignment procedure is robust to errors in the reads, in many benchmarks kallisto significantly outperforms existing tools. drwxr-xr-x root/root 0 2023-04-12 05:44 ./ drwxr-xr-x root/root 0 2023-04-12 05:44 ./usr/ drwxr-xr-x root/root 0 2023-04-12 05:44 ./usr/bin/ -rwxr-xr-x root/root 682160 2023-04-12 05:44 ./usr/bin/kallisto drwxr-xr-x root/root 0 2023-04-12 05:44 ./usr/share/ drwxr-xr-x root/root 0 2023-04-12 05:44 ./usr/share/doc/ drwxr-xr-x root/root 0 2023-04-12 05:44 ./usr/share/doc/kallisto/ -rw-r--r-- root/root 323 2023-04-12 05:44 ./usr/share/doc/kallisto/README.test -rw-r--r-- root/root 1106 2023-04-12 05:44 ./usr/share/doc/kallisto/changelog.Debian.gz -rw-r--r-- root/root 3014 2023-04-12 05:44 ./usr/share/doc/kallisto/copyright +------------------------------------------------------------------------------+ | Post Build | +------------------------------------------------------------------------------+ +------------------------------------------------------------------------------+ | Cleanup | +------------------------------------------------------------------------------+ Purging /<> Not removing build depends: as requested +------------------------------------------------------------------------------+ | Summary | +------------------------------------------------------------------------------+ Build Architecture: s390x Build Type: any Build-Space: 165508 Build-Time: 49 Distribution: mantic-proposed Host Architecture: s390x Install-Time: 86 Job: kallisto_0.48.0+dfsg-4.dsc Machine Architecture: s390x Package: kallisto Package-Time: 136 Source-Version: 0.48.0+dfsg-4 Space: 165508 Status: successful Version: 0.48.0+dfsg-4 -------------------------------------------------------------------------------- Finished at 2023-05-02T02:48:44Z Build needed 00:02:16, 165508k disk space RUN: /usr/share/launchpad-buildd/bin/in-target scan-for-processes --backend=chroot --series=mantic --arch=s390x PACKAGEBUILD-26016520 Scanning for processes to kill in build PACKAGEBUILD-26016520