0s autopkgtest [05:29:26]: starting date: 2024-02-16 0s autopkgtest [05:29:26]: git checkout: d9c0295 adt_testbed.py: supress warnings from apt using a shell pipeline 0s autopkgtest [05:29:26]: host juju-7f2275-prod-proposed-migration-environment-2; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work.zg787a3e/out --timeout-copy=6000 --setup-commands /home/ubuntu/autopkgtest-cloud/worker-config-production/setup-canonical.sh --setup-commands /home/ubuntu/autopkgtest/setup-commands/setup-testbed --apt-pocket=proposed=src:lapack --apt-upgrade qtltools --timeout-short=300 --timeout-copy=20000 --timeout-build=20000 --env=ADT_TEST_TRIGGERS=lapack/3.12.0-3 -- ssh -s /home/ubuntu/autopkgtest/ssh-setup/nova -- --flavor autopkgtest --security-groups autopkgtest-juju-7f2275-prod-proposed-migration-environment-2@bos01-ppc64el-12.secgroup --name adt-noble-ppc64el-qtltools-20240216-052925-juju-7f2275-prod-proposed-migration-environment-2 --image adt/ubuntu-noble-ppc64el-server --keyname testbed-juju-7f2275-prod-proposed-migration-environment-2 --net-id=net_prod-proposed-migration -e TERM=linux -e ''"'"'http_proxy=http://squid.internal:3128'"'"'' -e ''"'"'https_proxy=http://squid.internal:3128'"'"'' -e ''"'"'no_proxy=127.0.0.1,127.0.1.1,login.ubuntu.com,localhost,localdomain,novalocal,internal,archive.ubuntu.com,ports.ubuntu.com,security.ubuntu.com,ddebs.ubuntu.com,changelogs.ubuntu.com,launchpadlibrarian.net,launchpadcontent.net,launchpad.net,10.24.0.0/24,keystone.ps5.canonical.com,objectstorage.prodstack5.canonical.com'"'"'' --mirror=http://us.ports.ubuntu.com/ubuntu-ports/ 225s autopkgtest [05:33:11]: @@@@@@@@@@@@@@@@@@@@ test bed setup 225s Get:1 http://ftpmaster.internal/ubuntu noble-proposed InRelease [117 kB] 226s Get:2 http://ftpmaster.internal/ubuntu noble-proposed/main Sources [111 kB] 226s Get:3 http://ftpmaster.internal/ubuntu noble-proposed/multiverse Sources [18.5 kB] 226s Get:4 http://ftpmaster.internal/ubuntu noble-proposed/restricted Sources [9892 B] 226s Get:5 http://ftpmaster.internal/ubuntu noble-proposed/universe Sources [881 kB] 226s Get:6 http://ftpmaster.internal/ubuntu noble-proposed/main ppc64el Packages [225 kB] 226s Get:7 http://ftpmaster.internal/ubuntu noble-proposed/main ppc64el c-n-f Metadata [3116 B] 226s Get:8 http://ftpmaster.internal/ubuntu noble-proposed/restricted ppc64el Packages [1180 B] 226s Get:9 http://ftpmaster.internal/ubuntu noble-proposed/restricted ppc64el c-n-f Metadata [116 B] 226s Get:10 http://ftpmaster.internal/ubuntu noble-proposed/universe ppc64el Packages [1003 kB] 226s Get:11 http://ftpmaster.internal/ubuntu noble-proposed/universe ppc64el c-n-f Metadata [8652 B] 226s Get:12 http://ftpmaster.internal/ubuntu noble-proposed/multiverse ppc64el Packages [20.2 kB] 226s Get:13 http://ftpmaster.internal/ubuntu noble-proposed/multiverse ppc64el c-n-f Metadata [116 B] 228s Fetched 2398 kB in 1s (2099 kB/s) 228s Reading package lists... 232s Reading package lists... 233s Building dependency tree... 233s Reading state information... 233s Calculating upgrade... 233s The following packages were automatically installed and are no longer required: 233s libperl5.36 perl-modules-5.36 233s Use 'sudo apt autoremove' to remove them. 233s The following NEW packages will be installed: 233s libperl5.38 perl-modules-5.38 233s The following packages will be upgraded: 233s hwdata info install-info libcap-ng0 libdrm-common libdrm2 libkeyutils1 233s libldap-common libldap2 liblocale-gettext-perl libtext-charwidth-perl 233s libtext-iconv-perl libuv1 perl perl-base python3-markupsafe tmux vim-common 233s vim-tiny xxd 233s 20 upgraded, 2 newly installed, 0 to remove and 0 not upgraded. 233s Need to get 13.1 MB of archives. 233s After this operation, 52.7 MB of additional disk space will be used. 233s Get:1 http://ftpmaster.internal/ubuntu noble/main ppc64el perl-modules-5.38 all 5.38.2-3 [3110 kB] 234s Get:2 http://ftpmaster.internal/ubuntu noble/main ppc64el libperl5.38 ppc64el 5.38.2-3 [4950 kB] 235s Get:3 http://ftpmaster.internal/ubuntu noble/main ppc64el perl ppc64el 5.38.2-3 [231 kB] 235s Get:4 http://ftpmaster.internal/ubuntu noble/main ppc64el perl-base ppc64el 5.38.2-3 [1909 kB] 235s Get:5 http://ftpmaster.internal/ubuntu noble/main ppc64el liblocale-gettext-perl ppc64el 1.07-6build1 [15.7 kB] 235s Get:6 http://ftpmaster.internal/ubuntu noble/main ppc64el libtext-iconv-perl ppc64el 1.7-8build1 [13.5 kB] 235s Get:7 http://ftpmaster.internal/ubuntu noble/main ppc64el libtext-charwidth-perl ppc64el 0.04-11build1 [9434 B] 235s Get:8 http://ftpmaster.internal/ubuntu noble/main ppc64el libcap-ng0 ppc64el 0.8.4-2 [16.2 kB] 235s Get:9 http://ftpmaster.internal/ubuntu noble/main ppc64el install-info ppc64el 7.1-3 [64.3 kB] 235s Get:10 http://ftpmaster.internal/ubuntu noble/main ppc64el libkeyutils1 ppc64el 1.6.3-3 [11.0 kB] 235s Get:11 http://ftpmaster.internal/ubuntu noble/main ppc64el vim-tiny ppc64el 2:9.1.0016-1ubuntu2 [1034 kB] 235s Get:12 http://ftpmaster.internal/ubuntu noble/main ppc64el vim-common all 2:9.1.0016-1ubuntu2 [385 kB] 235s Get:13 http://ftpmaster.internal/ubuntu noble/main ppc64el xxd ppc64el 2:9.1.0016-1ubuntu2 [63.6 kB] 235s Get:14 http://ftpmaster.internal/ubuntu noble/main ppc64el info ppc64el 7.1-3 [187 kB] 236s Get:15 http://ftpmaster.internal/ubuntu noble/main ppc64el libdrm-common all 2.4.120-2 [7998 B] 236s Get:16 http://ftpmaster.internal/ubuntu noble/main ppc64el libdrm2 ppc64el 2.4.120-2 [49.9 kB] 236s Get:17 http://ftpmaster.internal/ubuntu noble/main ppc64el libuv1 ppc64el 1.46.0-3ubuntu1 [116 kB] 236s Get:18 http://ftpmaster.internal/ubuntu noble/main ppc64el hwdata all 0.379-1 [29.1 kB] 236s Get:19 http://ftpmaster.internal/ubuntu noble/main ppc64el libldap-common all 2.6.7+dfsg-1~exp1ubuntu1 [31.0 kB] 236s Get:20 http://ftpmaster.internal/ubuntu noble/main ppc64el libldap2 ppc64el 2.6.7+dfsg-1~exp1ubuntu1 [232 kB] 236s Get:21 http://ftpmaster.internal/ubuntu noble/main ppc64el python3-markupsafe ppc64el 2.1.5-1 [14.6 kB] 236s Get:22 http://ftpmaster.internal/ubuntu noble/main ppc64el tmux ppc64el 3.4-1 [605 kB] 236s Fetched 13.1 MB in 3s (4699 kB/s) 236s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 68754 files and directories currently installed.) 236s Preparing to unpack .../perl_5.38.2-3_ppc64el.deb ... 236s Unpacking perl (5.38.2-3) over (5.36.0-10ubuntu1) ... 236s Selecting previously unselected package perl-modules-5.38. 236s Preparing to unpack .../perl-modules-5.38_5.38.2-3_all.deb ... 236s Unpacking perl-modules-5.38 (5.38.2-3) ... 236s Selecting previously unselected package libperl5.38:ppc64el. 236s Preparing to unpack .../libperl5.38_5.38.2-3_ppc64el.deb ... 236s Unpacking libperl5.38:ppc64el (5.38.2-3) ... 237s Preparing to unpack .../perl-base_5.38.2-3_ppc64el.deb ... 237s Unpacking perl-base (5.38.2-3) over (5.36.0-10ubuntu1) ... 237s Setting up perl-base (5.38.2-3) ... 237s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 70692 files and directories currently installed.) 237s Preparing to unpack .../liblocale-gettext-perl_1.07-6build1_ppc64el.deb ... 237s Unpacking liblocale-gettext-perl (1.07-6build1) over (1.07-6) ... 237s Preparing to unpack .../libtext-iconv-perl_1.7-8build1_ppc64el.deb ... 237s Unpacking libtext-iconv-perl:ppc64el (1.7-8build1) over (1.7-8) ... 237s Preparing to unpack .../libtext-charwidth-perl_0.04-11build1_ppc64el.deb ... 237s Unpacking libtext-charwidth-perl:ppc64el (0.04-11build1) over (0.04-11) ... 237s Preparing to unpack .../libcap-ng0_0.8.4-2_ppc64el.deb ... 237s Unpacking libcap-ng0:ppc64el (0.8.4-2) over (0.8.4-1) ... 237s Setting up libcap-ng0:ppc64el (0.8.4-2) ... 237s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 70692 files and directories currently installed.) 237s Preparing to unpack .../install-info_7.1-3_ppc64el.deb ... 237s Unpacking install-info (7.1-3) over (7.1-2) ... 237s Setting up install-info (7.1-3) ... 237s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 70692 files and directories currently installed.) 237s Preparing to unpack .../00-libkeyutils1_1.6.3-3_ppc64el.deb ... 237s Unpacking libkeyutils1:ppc64el (1.6.3-3) over (1.6.3-2) ... 237s Preparing to unpack .../01-vim-tiny_2%3a9.1.0016-1ubuntu2_ppc64el.deb ... 237s Unpacking vim-tiny (2:9.1.0016-1ubuntu2) over (2:9.1.0-1ubuntu1) ... 237s Preparing to unpack .../02-vim-common_2%3a9.1.0016-1ubuntu2_all.deb ... 237s Unpacking vim-common (2:9.1.0016-1ubuntu2) over (2:9.1.0-1ubuntu1) ... 237s Preparing to unpack .../03-xxd_2%3a9.1.0016-1ubuntu2_ppc64el.deb ... 237s Unpacking xxd (2:9.1.0016-1ubuntu2) over (2:9.1.0-1ubuntu1) ... 237s Preparing to unpack .../04-info_7.1-3_ppc64el.deb ... 237s Unpacking info (7.1-3) over (7.1-2) ... 237s Preparing to unpack .../05-libdrm-common_2.4.120-2_all.deb ... 237s Unpacking libdrm-common (2.4.120-2) over (2.4.117-1) ... 237s Preparing to unpack .../06-libdrm2_2.4.120-2_ppc64el.deb ... 237s Unpacking libdrm2:ppc64el (2.4.120-2) over (2.4.117-1) ... 237s Preparing to unpack .../07-libuv1_1.46.0-3ubuntu1_ppc64el.deb ... 237s Unpacking libuv1:ppc64el (1.46.0-3ubuntu1) over (1.46.0-3) ... 237s Preparing to unpack .../08-hwdata_0.379-1_all.deb ... 237s Unpacking hwdata (0.379-1) over (0.378-1) ... 237s Preparing to unpack .../09-libldap-common_2.6.7+dfsg-1~exp1ubuntu1_all.deb ... 237s Unpacking libldap-common (2.6.7+dfsg-1~exp1ubuntu1) over (2.6.6+dfsg-1~exp1ubuntu1) ... 237s Preparing to unpack .../10-libldap2_2.6.7+dfsg-1~exp1ubuntu1_ppc64el.deb ... 237s Unpacking libldap2:ppc64el (2.6.7+dfsg-1~exp1ubuntu1) over (2.6.6+dfsg-1~exp1ubuntu1) ... 237s Preparing to unpack .../11-python3-markupsafe_2.1.5-1_ppc64el.deb ... 238s Unpacking python3-markupsafe (2.1.5-1) over (2.1.3-1build1) ... 238s Preparing to unpack .../12-tmux_3.4-1_ppc64el.deb ... 238s Unpacking tmux (3.4-1) over (3.3a-5) ... 238s Setting up libtext-iconv-perl:ppc64el (1.7-8build1) ... 238s Setting up libtext-charwidth-perl:ppc64el (0.04-11build1) ... 238s Setting up libkeyutils1:ppc64el (1.6.3-3) ... 238s Setting up libldap-common (2.6.7+dfsg-1~exp1ubuntu1) ... 238s Setting up python3-markupsafe (2.1.5-1) ... 238s Setting up xxd (2:9.1.0016-1ubuntu2) ... 238s Setting up hwdata (0.379-1) ... 238s Setting up libuv1:ppc64el (1.46.0-3ubuntu1) ... 238s Setting up vim-common (2:9.1.0016-1ubuntu2) ... 238s Setting up perl-modules-5.38 (5.38.2-3) ... 238s Setting up libdrm-common (2.4.120-2) ... 238s Setting up tmux (3.4-1) ... 238s Setting up libldap2:ppc64el (2.6.7+dfsg-1~exp1ubuntu1) ... 238s Setting up info (7.1-3) ... 238s Setting up liblocale-gettext-perl (1.07-6build1) ... 238s Setting up libperl5.38:ppc64el (5.38.2-3) ... 238s Setting up vim-tiny (2:9.1.0016-1ubuntu2) ... 238s Setting up perl (5.38.2-3) ... 238s Setting up libdrm2:ppc64el (2.4.120-2) ... 238s Processing triggers for install-info (7.1-3) ... 238s Processing triggers for libc-bin (2.38-3ubuntu1) ... 238s Processing triggers for man-db (2.12.0-3) ... 239s Processing triggers for debianutils (5.16) ... 239s W: Target Packages (main/binary-ppc64el/Packages) is configured multiple times in /etc/apt/sources.list:1 and /etc/apt/sources.list.d/ubuntu.sources:1 239s W: Target Packages (main/binary-all/Packages) is configured multiple times in /etc/apt/sources.list:1 and /etc/apt/sources.list.d/ubuntu.sources:1 239s W: Target CNF (main/cnf/Commands-ppc64el) is configured multiple times in /etc/apt/sources.list:1 and /etc/apt/sources.list.d/ubuntu.sources:1 239s W: Target CNF (main/cnf/Commands-all) is configured multiple times in /etc/apt/sources.list:1 and /etc/apt/sources.list.d/ubuntu.sources:1 239s W: Target Packages (restricted/binary-ppc64el/Packages) is configured multiple times in /etc/apt/sources.list:1 and /etc/apt/sources.list.d/ubuntu.sources:1 239s W: Target Packages (restricted/binary-all/Packages) is configured multiple times in /etc/apt/sources.list:1 and /etc/apt/sources.list.d/ubuntu.sources:1 239s W: Target CNF (restricted/cnf/Commands-ppc64el) is configured multiple times in /etc/apt/sources.list:1 and /etc/apt/sources.list.d/ubuntu.sources:1 239s W: Target CNF (restricted/cnf/Commands-all) is configured multiple times in /etc/apt/sources.list:1 and /etc/apt/sources.list.d/ubuntu.sources:1 239s W: Target Packages (universe/binary-ppc64el/Packages) is configured multiple times in /etc/apt/sources.list:1 and /etc/apt/sources.list.d/ubuntu.sources:1 239s W: Target Packages (universe/binary-all/Packages) is configured multiple times in /etc/apt/sources.list:1 and /etc/apt/sources.list.d/ubuntu.sources:1 239s W: Target CNF (universe/cnf/Commands-ppc64el) is configured multiple times in /etc/apt/sources.list:1 and /etc/apt/sources.list.d/ubuntu.sources:1 239s W: Target CNF (universe/cnf/Commands-all) is configured multiple times in /etc/apt/sources.list:1 and /etc/apt/sources.list.d/ubuntu.sources:1 239s W: Target Packages (multiverse/binary-ppc64el/Packages) is configured multiple times in /etc/apt/sources.list:1 and /etc/apt/sources.list.d/ubuntu.sources:1 239s W: Target Packages (multiverse/binary-all/Packages) is configured multiple times in /etc/apt/sources.list:1 and /etc/apt/sources.list.d/ubuntu.sources:1 239s W: Target CNF (multiverse/cnf/Commands-ppc64el) is configured multiple times in /etc/apt/sources.list:1 and /etc/apt/sources.list.d/ubuntu.sources:1 239s W: Target CNF (multiverse/cnf/Commands-all) is configured multiple times in /etc/apt/sources.list:1 and /etc/apt/sources.list.d/ubuntu.sources:1 239s W: Target Packages (main/binary-ppc64el/Packages) is configured multiple times in /etc/apt/sources.list:2 and /etc/apt/sources.list.d/ubuntu.sources:1 239s W: Target Packages (main/binary-all/Packages) is configured multiple times in /etc/apt/sources.list:2 and /etc/apt/sources.list.d/ubuntu.sources:1 239s W: Target CNF (main/cnf/Commands-ppc64el) is configured multiple times in /etc/apt/sources.list:2 and /etc/apt/sources.list.d/ubuntu.sources:1 239s W: Target CNF (main/cnf/Commands-all) is configured multiple times in /etc/apt/sources.list:2 and /etc/apt/sources.list.d/ubuntu.sources:1 239s W: Target Packages (restricted/binary-ppc64el/Packages) is configured multiple times in /etc/apt/sources.list:2 and /etc/apt/sources.list.d/ubuntu.sources:1 239s W: Target Packages (restricted/binary-all/Packages) is configured multiple times in /etc/apt/sources.list:2 and /etc/apt/sources.list.d/ubuntu.sources:1 239s W: Target CNF (restricted/cnf/Commands-ppc64el) is configured multiple times in /etc/apt/sources.list:2 and /etc/apt/sources.list.d/ubuntu.sources:1 239s W: Target CNF (restricted/cnf/Commands-all) is configured multiple times in /etc/apt/sources.list:2 and /etc/apt/sources.list.d/ubuntu.sources:1 239s W: Target Packages (universe/binary-ppc64el/Packages) is configured multiple times in /etc/apt/sources.list:2 and /etc/apt/sources.list.d/ubuntu.sources:1 239s W: Target Packages (universe/binary-all/Packages) is configured multiple times in /etc/apt/sources.list:2 and /etc/apt/sources.list.d/ubuntu.sources:1 239s W: Target CNF (universe/cnf/Commands-ppc64el) is configured multiple times in /etc/apt/sources.list:2 and /etc/apt/sources.list.d/ubuntu.sources:1 239s W: Target CNF (universe/cnf/Commands-all) is configured multiple times in /etc/apt/sources.list:2 and /etc/apt/sources.list.d/ubuntu.sources:1 239s W: Target Packages (multiverse/binary-ppc64el/Packages) is configured multiple times in /etc/apt/sources.list:2 and /etc/apt/sources.list.d/ubuntu.sources:1 239s W: Target Packages (multiverse/binary-all/Packages) is configured multiple times in /etc/apt/sources.list:2 and /etc/apt/sources.list.d/ubuntu.sources:1 239s W: Target CNF (multiverse/cnf/Commands-ppc64el) is configured multiple times in /etc/apt/sources.list:2 and /etc/apt/sources.list.d/ubuntu.sources:1 239s W: Target CNF (multiverse/cnf/Commands-all) is configured multiple times in /etc/apt/sources.list:2 and /etc/apt/sources.list.d/ubuntu.sources:1 239s W: Target Packages (main/binary-ppc64el/Packages) is configured multiple times in /etc/apt/sources.list:3 and /etc/apt/sources.list.d/ubuntu.sources:2 239s W: Target Packages (main/binary-all/Packages) is configured multiple times in /etc/apt/sources.list:3 and /etc/apt/sources.list.d/ubuntu.sources:2 239s W: Target CNF (main/cnf/Commands-ppc64el) is configured multiple times in /etc/apt/sources.list:3 and /etc/apt/sources.list.d/ubuntu.sources:2 239s W: Target CNF (main/cnf/Commands-all) is configured multiple times in /etc/apt/sources.list:3 and /etc/apt/sources.list.d/ubuntu.sources:2 239s W: Target Packages (restricted/binary-ppc64el/Packages) is configured multiple times in /etc/apt/sources.list:3 and /etc/apt/sources.list.d/ubuntu.sources:2 239s W: Target Packages (restricted/binary-all/Packages) is configured multiple times in /etc/apt/sources.list:3 and /etc/apt/sources.list.d/ubuntu.sources:2 239s W: Target CNF (restricted/cnf/Commands-ppc64el) is configured multiple times in /etc/apt/sources.list:3 and /etc/apt/sources.list.d/ubuntu.sources:2 239s W: Target CNF (restricted/cnf/Commands-all) is configured multiple times in /etc/apt/sources.list:3 and /etc/apt/sources.list.d/ubuntu.sources:2 239s W: Target Packages (universe/binary-ppc64el/Packages) is configured multiple times in /etc/apt/sources.list:3 and /etc/apt/sources.list.d/ubuntu.sources:2 239s W: Target Packages (universe/binary-all/Packages) is configured multiple times in /etc/apt/sources.list:3 and /etc/apt/sources.list.d/ubuntu.sources:2 239s W: Target CNF (universe/cnf/Commands-ppc64el) is configured multiple times in /etc/apt/sources.list:3 and /etc/apt/sources.list.d/ubuntu.sources:2 239s W: Target CNF (universe/cnf/Commands-all) is configured multiple times in /etc/apt/sources.list:3 and /etc/apt/sources.list.d/ubuntu.sources:2 239s W: Target Packages (multiverse/binary-ppc64el/Packages) is configured multiple times in /etc/apt/sources.list:3 and /etc/apt/sources.list.d/ubuntu.sources:2 239s W: Target Packages (multiverse/binary-all/Packages) is configured multiple times in /etc/apt/sources.list:3 and /etc/apt/sources.list.d/ubuntu.sources:2 239s W: Target CNF (multiverse/cnf/Commands-ppc64el) is configured multiple times in /etc/apt/sources.list:3 and /etc/apt/sources.list.d/ubuntu.sources:2 239s W: Target CNF (multiverse/cnf/Commands-all) is configured multiple times in /etc/apt/sources.list:3 and /etc/apt/sources.list.d/ubuntu.sources:2 239s Reading package lists... 239s Building dependency tree... 239s Reading state information... 239s The following packages will be REMOVED: 239s libperl5.36* perl-modules-5.36* 240s 0 upgraded, 0 newly installed, 2 to remove and 0 not upgraded. 240s After this operation, 50.4 MB disk space will be freed. 240s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 70694 files and directories currently installed.) 240s Removing libperl5.36:ppc64el (5.36.0-10ubuntu1) ... 240s Removing perl-modules-5.36 (5.36.0-10ubuntu1) ... 240s Processing triggers for man-db (2.12.0-3) ... 240s Processing triggers for libc-bin (2.38-3ubuntu1) ... 241s sh: Attempting to set up Debian/Ubuntu apt sources automatically 241s sh: Distribution appears to be Ubuntu 244s Reading package lists... 244s Building dependency tree... 244s Reading state information... 245s W: Target Packages (main/binary-ppc64el/Packages) is configured multiple times in /etc/apt/sources.list:1 and /etc/apt/sources.list.d/ubuntu.sources:1 245s eatmydata is already the newest version (131-1). 245s dbus is already the newest version (1.14.10-3ubuntu1). 245s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 245s W: Target Packages (main/binary-all/Packages) is configured multiple times in /etc/apt/sources.list:1 and /etc/apt/sources.list.d/ubuntu.sources:1 245s W: Target CNF (main/cnf/Commands-ppc64el) is configured multiple times in /etc/apt/sources.list:1 and /etc/apt/sources.list.d/ubuntu.sources:1 245s W: Target CNF (main/cnf/Commands-all) is configured multiple times in /etc/apt/sources.list:1 and /etc/apt/sources.list.d/ubuntu.sources:1 245s W: Target Packages (restricted/binary-ppc64el/Packages) is configured multiple times in /etc/apt/sources.list:1 and /etc/apt/sources.list.d/ubuntu.sources:1 245s W: Target Packages (restricted/binary-all/Packages) is configured multiple times in /etc/apt/sources.list:1 and /etc/apt/sources.list.d/ubuntu.sources:1 245s W: Target CNF (restricted/cnf/Commands-ppc64el) is configured multiple times in /etc/apt/sources.list:1 and /etc/apt/sources.list.d/ubuntu.sources:1 245s W: Target CNF (restricted/cnf/Commands-all) is configured multiple times in /etc/apt/sources.list:1 and /etc/apt/sources.list.d/ubuntu.sources:1 245s W: Target Packages (universe/binary-ppc64el/Packages) is configured multiple times in /etc/apt/sources.list:1 and /etc/apt/sources.list.d/ubuntu.sources:1 245s W: Target Packages (universe/binary-all/Packages) is configured multiple times in /etc/apt/sources.list:1 and /etc/apt/sources.list.d/ubuntu.sources:1 245s W: Target CNF (universe/cnf/Commands-ppc64el) is configured multiple times in /etc/apt/sources.list:1 and /etc/apt/sources.list.d/ubuntu.sources:1 245s W: Target CNF (universe/cnf/Commands-all) is configured multiple times in /etc/apt/sources.list:1 and /etc/apt/sources.list.d/ubuntu.sources:1 245s W: Target Packages (multiverse/binary-ppc64el/Packages) is configured multiple times in /etc/apt/sources.list:1 and /etc/apt/sources.list.d/ubuntu.sources:1 245s W: Target Packages (multiverse/binary-all/Packages) is configured multiple times in /etc/apt/sources.list:1 and /etc/apt/sources.list.d/ubuntu.sources:1 245s W: Target CNF (multiverse/cnf/Commands-ppc64el) is configured multiple times in /etc/apt/sources.list:1 and /etc/apt/sources.list.d/ubuntu.sources:1 245s W: Target CNF (multiverse/cnf/Commands-all) is configured multiple times in /etc/apt/sources.list:1 and /etc/apt/sources.list.d/ubuntu.sources:1 245s W: Target Packages (main/binary-ppc64el/Packages) is configured multiple times in /etc/apt/sources.list:2 and /etc/apt/sources.list.d/ubuntu.sources:1 245s W: Target Packages (main/binary-all/Packages) is configured multiple times in /etc/apt/sources.list:2 and /etc/apt/sources.list.d/ubuntu.sources:1 245s W: Target CNF (main/cnf/Commands-ppc64el) is configured multiple times in /etc/apt/sources.list:2 and /etc/apt/sources.list.d/ubuntu.sources:1 245s W: Target CNF (main/cnf/Commands-all) is configured multiple times in /etc/apt/sources.list:2 and /etc/apt/sources.list.d/ubuntu.sources:1 245s W: Target Packages (restricted/binary-ppc64el/Packages) is configured multiple times in /etc/apt/sources.list:2 and /etc/apt/sources.list.d/ubuntu.sources:1 245s W: Target Packages (restricted/binary-all/Packages) is configured multiple times in /etc/apt/sources.list:2 and /etc/apt/sources.list.d/ubuntu.sources:1 245s W: Target CNF (restricted/cnf/Commands-ppc64el) is configured multiple times in /etc/apt/sources.list:2 and /etc/apt/sources.list.d/ubuntu.sources:1 245s W: Target CNF (restricted/cnf/Commands-all) is configured multiple times in /etc/apt/sources.list:2 and /etc/apt/sources.list.d/ubuntu.sources:1 245s W: Target Packages (universe/binary-ppc64el/Packages) is configured multiple times in /etc/apt/sources.list:2 and /etc/apt/sources.list.d/ubuntu.sources:1 245s W: Target Packages (universe/binary-all/Packages) is configured multiple times in /etc/apt/sources.list:2 and /etc/apt/sources.list.d/ubuntu.sources:1 245s W: Target CNF (universe/cnf/Commands-ppc64el) is configured multiple times in /etc/apt/sources.list:2 and /etc/apt/sources.list.d/ubuntu.sources:1 245s W: Target CNF (universe/cnf/Commands-all) is configured multiple times in /etc/apt/sources.list:2 and /etc/apt/sources.list.d/ubuntu.sources:1 245s W: Target Packages (multiverse/binary-ppc64el/Packages) is configured multiple times in /etc/apt/sources.list:2 and /etc/apt/sources.list.d/ubuntu.sources:1 245s W: Target Packages (multiverse/binary-all/Packages) is configured multiple times in /etc/apt/sources.list:2 and /etc/apt/sources.list.d/ubuntu.sources:1 245s W: Target CNF (multiverse/cnf/Commands-ppc64el) is configured multiple times in /etc/apt/sources.list:2 and /etc/apt/sources.list.d/ubuntu.sources:1 245s W: Target CNF (multiverse/cnf/Commands-all) is configured multiple times in /etc/apt/sources.list:2 and /etc/apt/sources.list.d/ubuntu.sources:1 245s W: Target Packages (main/binary-ppc64el/Packages) is configured multiple times in /etc/apt/sources.list:3 and /etc/apt/sources.list.d/ubuntu.sources:2 245s W: Target Packages (main/binary-all/Packages) is configured multiple times in /etc/apt/sources.list:3 and /etc/apt/sources.list.d/ubuntu.sources:2 245s W: Target CNF (main/cnf/Commands-ppc64el) is configured multiple times in /etc/apt/sources.list:3 and /etc/apt/sources.list.d/ubuntu.sources:2 245s W: Target CNF (main/cnf/Commands-all) is configured multiple times in /etc/apt/sources.list:3 and /etc/apt/sources.list.d/ubuntu.sources:2 245s W: Target Packages (restricted/binary-ppc64el/Packages) is configured multiple times in /etc/apt/sources.list:3 and /etc/apt/sources.list.d/ubuntu.sources:2 245s W: Target Packages (restricted/binary-all/Packages) is configured multiple times in /etc/apt/sources.list:3 and /etc/apt/sources.list.d/ubuntu.sources:2 245s W: Target CNF (restricted/cnf/Commands-ppc64el) is configured multiple times in /etc/apt/sources.list:3 and /etc/apt/sources.list.d/ubuntu.sources:2 245s W: Target CNF (restricted/cnf/Commands-all) is configured multiple times in /etc/apt/sources.list:3 and /etc/apt/sources.list.d/ubuntu.sources:2 245s W: Target Packages (universe/binary-ppc64el/Packages) is configured multiple times in /etc/apt/sources.list:3 and /etc/apt/sources.list.d/ubuntu.sources:2 245s W: Target Packages (universe/binary-all/Packages) is configured multiple times in /etc/apt/sources.list:3 and /etc/apt/sources.list.d/ubuntu.sources:2 245s W: Target CNF (universe/cnf/Commands-ppc64el) is configured multiple times in /etc/apt/sources.list:3 and /etc/apt/sources.list.d/ubuntu.sources:2 245s W: Target CNF (universe/cnf/Commands-all) is configured multiple times in /etc/apt/sources.list:3 and /etc/apt/sources.list.d/ubuntu.sources:2 245s W: Target Packages (multiverse/binary-ppc64el/Packages) is configured multiple times in /etc/apt/sources.list:3 and /etc/apt/sources.list.d/ubuntu.sources:2 245s W: Target Packages (multiverse/binary-all/Packages) is configured multiple times in /etc/apt/sources.list:3 and /etc/apt/sources.list.d/ubuntu.sources:2 245s W: Target CNF (multiverse/cnf/Commands-ppc64el) is configured multiple times in /etc/apt/sources.list:3 and /etc/apt/sources.list.d/ubuntu.sources:2 245s W: Target CNF (multiverse/cnf/Commands-all) is configured multiple times in /etc/apt/sources.list:3 and /etc/apt/sources.list.d/ubuntu.sources:2 245s Reading package lists... 245s Building dependency tree... 245s Reading state information... 245s rng-tools-debian is already the newest version (2.4). 245s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 245s Reading package lists... 245s Building dependency tree... 245s Reading state information... 245s haveged is already the newest version (1.9.14-1ubuntu1). 245s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 246s Reading package lists... 246s Building dependency tree... 246s Reading state information... 246s The following packages will be REMOVED: 246s cloud-init* python3-configobj* python3-debconf* 246s 0 upgraded, 0 newly installed, 3 to remove and 0 not upgraded. 246s After this operation, 3212 kB disk space will be freed. 246s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 68768 files and directories currently installed.) 246s Removing cloud-init (24.1~5g1f6eddd5-0ubuntu1) ... 247s Removing python3-configobj (5.0.8-3) ... 247s Removing python3-debconf (1.5.82) ... 247s Processing triggers for man-db (2.12.0-3) ... 247s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 68380 files and directories currently installed.) 247s Purging configuration files for cloud-init (24.1~5g1f6eddd5-0ubuntu1) ... 248s dpkg: warning: while removing cloud-init, directory '/etc/cloud/cloud.cfg.d' not empty so not removed 248s Processing triggers for rsyslog (8.2312.0-3ubuntu2) ... 248s Reading package lists... 248s Building dependency tree... 248s Reading state information... 248s linux-generic is already the newest version (6.6.0-14.14). 248s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 249s Hit:1 http://ftpmaster.internal/ubuntu noble InRelease 249s Hit:2 http://ftpmaster.internal/ubuntu noble-updates InRelease 249s Hit:3 http://ftpmaster.internal/ubuntu noble-security InRelease 249s Hit:4 http://ftpmaster.internal/ubuntu noble-proposed InRelease 249s Hit:5 http://ftpmaster.internal/ubuntu noble-backports InRelease 253s Reading package lists... 253s W: Target Packages (main/binary-ppc64el/Packages) is configured multiple times in /etc/apt/sources.list:1 and /etc/apt/sources.list.d/ubuntu.sources:1 253s W: Target Packages (main/binary-all/Packages) is configured multiple times in /etc/apt/sources.list:1 and /etc/apt/sources.list.d/ubuntu.sources:1 253s W: Target CNF (main/cnf/Commands-ppc64el) is configured multiple times in /etc/apt/sources.list:1 and /etc/apt/sources.list.d/ubuntu.sources:1 253s W: Target CNF (main/cnf/Commands-all) is configured multiple times in /etc/apt/sources.list:1 and /etc/apt/sources.list.d/ubuntu.sources:1 253s W: Target Packages (restricted/binary-ppc64el/Packages) is configured multiple times in /etc/apt/sources.list:1 and /etc/apt/sources.list.d/ubuntu.sources:1 253s W: Target Packages (restricted/binary-all/Packages) is configured multiple times in /etc/apt/sources.list:1 and /etc/apt/sources.list.d/ubuntu.sources:1 253s W: Target CNF (restricted/cnf/Commands-ppc64el) is configured multiple times in /etc/apt/sources.list:1 and /etc/apt/sources.list.d/ubuntu.sources:1 253s W: Target CNF (restricted/cnf/Commands-all) is configured multiple times in /etc/apt/sources.list:1 and /etc/apt/sources.list.d/ubuntu.sources:1 253s W: Target Packages (universe/binary-ppc64el/Packages) is configured multiple times in /etc/apt/sources.list:1 and /etc/apt/sources.list.d/ubuntu.sources:1 253s W: Target Packages (universe/binary-all/Packages) is configured multiple times in /etc/apt/sources.list:1 and /etc/apt/sources.list.d/ubuntu.sources:1 253s W: Target CNF (universe/cnf/Commands-ppc64el) is configured multiple times in /etc/apt/sources.list:1 and /etc/apt/sources.list.d/ubuntu.sources:1 253s W: Target CNF (universe/cnf/Commands-all) is configured multiple times in /etc/apt/sources.list:1 and /etc/apt/sources.list.d/ubuntu.sources:1 253s W: Target Packages (multiverse/binary-ppc64el/Packages) is configured multiple times in /etc/apt/sources.list:1 and /etc/apt/sources.list.d/ubuntu.sources:1 253s W: Target Packages (multiverse/binary-all/Packages) is configured multiple times in /etc/apt/sources.list:1 and /etc/apt/sources.list.d/ubuntu.sources:1 253s W: Target CNF (multiverse/cnf/Commands-ppc64el) is configured multiple times in /etc/apt/sources.list:1 and /etc/apt/sources.list.d/ubuntu.sources:1 253s W: Target CNF (multiverse/cnf/Commands-all) is configured multiple times in /etc/apt/sources.list:1 and /etc/apt/sources.list.d/ubuntu.sources:1 253s W: Target Packages (main/binary-ppc64el/Packages) is configured multiple times in /etc/apt/sources.list:2 and /etc/apt/sources.list.d/ubuntu.sources:1 253s W: Target Packages (main/binary-all/Packages) is configured multiple times in /etc/apt/sources.list:2 and /etc/apt/sources.list.d/ubuntu.sources:1 253s W: Target CNF (main/cnf/Commands-ppc64el) is configured multiple times in /etc/apt/sources.list:2 and /etc/apt/sources.list.d/ubuntu.sources:1 253s W: Target CNF (main/cnf/Commands-all) is configured multiple times in /etc/apt/sources.list:2 and /etc/apt/sources.list.d/ubuntu.sources:1 253s W: Target Packages (restricted/binary-ppc64el/Packages) is configured multiple times in /etc/apt/sources.list:2 and /etc/apt/sources.list.d/ubuntu.sources:1 253s W: Target Packages (restricted/binary-all/Packages) is configured multiple times in /etc/apt/sources.list:2 and /etc/apt/sources.list.d/ubuntu.sources:1 253s W: Target CNF (restricted/cnf/Commands-ppc64el) is configured multiple times in /etc/apt/sources.list:2 and /etc/apt/sources.list.d/ubuntu.sources:1 253s W: Target CNF (restricted/cnf/Commands-all) is configured multiple times in /etc/apt/sources.list:2 and /etc/apt/sources.list.d/ubuntu.sources:1 253s W: Target Packages (universe/binary-ppc64el/Packages) is configured multiple times in /etc/apt/sources.list:2 and /etc/apt/sources.list.d/ubuntu.sources:1 253s W: Target Packages (universe/binary-all/Packages) is configured multiple times in /etc/apt/sources.list:2 and /etc/apt/sources.list.d/ubuntu.sources:1 253s W: Target CNF (universe/cnf/Commands-ppc64el) is configured multiple times in /etc/apt/sources.list:2 and /etc/apt/sources.list.d/ubuntu.sources:1 253s W: Target CNF (universe/cnf/Commands-all) is configured multiple times in /etc/apt/sources.list:2 and /etc/apt/sources.list.d/ubuntu.sources:1 253s W: Target Packages (multiverse/binary-ppc64el/Packages) is configured multiple times in /etc/apt/sources.list:2 and /etc/apt/sources.list.d/ubuntu.sources:1 253s W: Target Packages (multiverse/binary-all/Packages) is configured multiple times in /etc/apt/sources.list:2 and /etc/apt/sources.list.d/ubuntu.sources:1 253s W: Target CNF (multiverse/cnf/Commands-ppc64el) is configured multiple times in /etc/apt/sources.list:2 and /etc/apt/sources.list.d/ubuntu.sources:1 253s W: Target CNF (multiverse/cnf/Commands-all) is configured multiple times in /etc/apt/sources.list:2 and /etc/apt/sources.list.d/ubuntu.sources:1 253s W: Target Packages (main/binary-ppc64el/Packages) is configured multiple times in /etc/apt/sources.list:3 and /etc/apt/sources.list.d/ubuntu.sources:2 253s W: Target Packages (main/binary-all/Packages) is configured multiple times in /etc/apt/sources.list:3 and /etc/apt/sources.list.d/ubuntu.sources:2 253s W: Target CNF (main/cnf/Commands-ppc64el) is configured multiple times in /etc/apt/sources.list:3 and /etc/apt/sources.list.d/ubuntu.sources:2 253s W: Target CNF (main/cnf/Commands-all) is configured multiple times in /etc/apt/sources.list:3 and /etc/apt/sources.list.d/ubuntu.sources:2 253s W: Target Packages (restricted/binary-ppc64el/Packages) is configured multiple times in /etc/apt/sources.list:3 and /etc/apt/sources.list.d/ubuntu.sources:2 253s W: Target Packages (restricted/binary-all/Packages) is configured multiple times in /etc/apt/sources.list:3 and /etc/apt/sources.list.d/ubuntu.sources:2 253s W: Target CNF (restricted/cnf/Commands-ppc64el) is configured multiple times in /etc/apt/sources.list:3 and /etc/apt/sources.list.d/ubuntu.sources:2 253s W: Target CNF (restricted/cnf/Commands-all) is configured multiple times in /etc/apt/sources.list:3 and /etc/apt/sources.list.d/ubuntu.sources:2 253s W: Target Packages (universe/binary-ppc64el/Packages) is configured multiple times in /etc/apt/sources.list:3 and /etc/apt/sources.list.d/ubuntu.sources:2 253s W: Target Packages (universe/binary-all/Packages) is configured multiple times in /etc/apt/sources.list:3 and /etc/apt/sources.list.d/ubuntu.sources:2 253s W: Target CNF (universe/cnf/Commands-ppc64el) is configured multiple times in /etc/apt/sources.list:3 and /etc/apt/sources.list.d/ubuntu.sources:2 253s W: Target CNF (universe/cnf/Commands-all) is configured multiple times in /etc/apt/sources.list:3 and /etc/apt/sources.list.d/ubuntu.sources:2 253s W: Target Packages (multiverse/binary-ppc64el/Packages) is configured multiple times in /etc/apt/sources.list:3 and /etc/apt/sources.list.d/ubuntu.sources:2 253s W: Target Packages (multiverse/binary-all/Packages) is configured multiple times in /etc/apt/sources.list:3 and /etc/apt/sources.list.d/ubuntu.sources:2 253s W: Target CNF (multiverse/cnf/Commands-ppc64el) is configured multiple times in /etc/apt/sources.list:3 and /etc/apt/sources.list.d/ubuntu.sources:2 253s W: Target CNF (multiverse/cnf/Commands-all) is configured multiple times in /etc/apt/sources.list:3 and /etc/apt/sources.list.d/ubuntu.sources:2 253s W: Target Packages (main/binary-ppc64el/Packages) is configured multiple times in /etc/apt/sources.list:1 and /etc/apt/sources.list.d/ubuntu.sources:1 253s W: Target Packages (main/binary-all/Packages) is configured multiple times in /etc/apt/sources.list:1 and /etc/apt/sources.list.d/ubuntu.sources:1 253s W: Target CNF (main/cnf/Commands-ppc64el) is configured multiple times in /etc/apt/sources.list:1 and /etc/apt/sources.list.d/ubuntu.sources:1 253s W: Target CNF (main/cnf/Commands-all) is configured multiple times in /etc/apt/sources.list:1 and /etc/apt/sources.list.d/ubuntu.sources:1 253s W: Target Packages (restricted/binary-ppc64el/Packages) is configured multiple times in /etc/apt/sources.list:1 and /etc/apt/sources.list.d/ubuntu.sources:1 253s W: Target Packages (restricted/binary-all/Packages) is configured multiple times in /etc/apt/sources.list:1 and /etc/apt/sources.list.d/ubuntu.sources:1 253s W: Target CNF (restricted/cnf/Commands-ppc64el) is configured multiple times in /etc/apt/sources.list:1 and /etc/apt/sources.list.d/ubuntu.sources:1 253s W: Target CNF (restricted/cnf/Commands-all) is configured multiple times in /etc/apt/sources.list:1 and /etc/apt/sources.list.d/ubuntu.sources:1 253s W: Target Packages (universe/binary-ppc64el/Packages) is configured multiple times in /etc/apt/sources.list:1 and /etc/apt/sources.list.d/ubuntu.sources:1 253s W: Target Packages (universe/binary-all/Packages) is configured multiple times in /etc/apt/sources.list:1 and /etc/apt/sources.list.d/ubuntu.sources:1 253s W: Target CNF (universe/cnf/Commands-ppc64el) is configured multiple times in /etc/apt/sources.list:1 and /etc/apt/sources.list.d/ubuntu.sources:1 253s W: Target CNF (universe/cnf/Commands-all) is configured multiple times in /etc/apt/sources.list:1 and /etc/apt/sources.list.d/ubuntu.sources:1 253s W: Target Packages (multiverse/binary-ppc64el/Packages) is configured multiple times in /etc/apt/sources.list:1 and /etc/apt/sources.list.d/ubuntu.sources:1 253s W: Target Packages (multiverse/binary-all/Packages) is configured multiple times in /etc/apt/sources.list:1 and /etc/apt/sources.list.d/ubuntu.sources:1 253s W: Target CNF (multiverse/cnf/Commands-ppc64el) is configured multiple times in /etc/apt/sources.list:1 and /etc/apt/sources.list.d/ubuntu.sources:1 253s W: Target CNF (multiverse/cnf/Commands-all) is configured multiple times in /etc/apt/sources.list:1 and /etc/apt/sources.list.d/ubuntu.sources:1 253s W: Target Packages (main/binary-ppc64el/Packages) is configured multiple times in /etc/apt/sources.list:2 and /etc/apt/sources.list.d/ubuntu.sources:1 253s W: Target Packages (main/binary-all/Packages) is configured multiple times in /etc/apt/sources.list:2 and /etc/apt/sources.list.d/ubuntu.sources:1 253s W: Target CNF (main/cnf/Commands-ppc64el) is configured multiple times in /etc/apt/sources.list:2 and /etc/apt/sources.list.d/ubuntu.sources:1 253s W: Target CNF (main/cnf/Commands-all) is configured multiple times in /etc/apt/sources.list:2 and /etc/apt/sources.list.d/ubuntu.sources:1 253s W: Target Packages (restricted/binary-ppc64el/Packages) is configured multiple times in /etc/apt/sources.list:2 and /etc/apt/sources.list.d/ubuntu.sources:1 253s W: Target Packages (restricted/binary-all/Packages) is configured multiple times in /etc/apt/sources.list:2 and /etc/apt/sources.list.d/ubuntu.sources:1 253s W: Target CNF (restricted/cnf/Commands-ppc64el) is configured multiple times in /etc/apt/sources.list:2 and /etc/apt/sources.list.d/ubuntu.sources:1 253s W: Target CNF (restricted/cnf/Commands-all) is configured multiple times in /etc/apt/sources.list:2 and /etc/apt/sources.list.d/ubuntu.sources:1 253s W: Target Packages (universe/binary-ppc64el/Packages) is configured multiple times in /etc/apt/sources.list:2 and /etc/apt/sources.list.d/ubuntu.sources:1 253s W: Target Packages (universe/binary-all/Packages) is configured multiple times in /etc/apt/sources.list:2 and /etc/apt/sources.list.d/ubuntu.sources:1 253s W: Target CNF (universe/cnf/Commands-ppc64el) is configured multiple times in /etc/apt/sources.list:2 and /etc/apt/sources.list.d/ubuntu.sources:1 253s W: Target CNF (universe/cnf/Commands-all) is configured multiple times in /etc/apt/sources.list:2 and /etc/apt/sources.list.d/ubuntu.sources:1 253s W: Target Packages (multiverse/binary-ppc64el/Packages) is configured multiple times in /etc/apt/sources.list:2 and /etc/apt/sources.list.d/ubuntu.sources:1 253s W: Target Packages (multiverse/binary-all/Packages) is configured multiple times in /etc/apt/sources.list:2 and /etc/apt/sources.list.d/ubuntu.sources:1 253s W: Target CNF (multiverse/cnf/Commands-ppc64el) is configured multiple times in /etc/apt/sources.list:2 and /etc/apt/sources.list.d/ubuntu.sources:1 253s W: Target CNF (multiverse/cnf/Commands-all) is configured multiple times in /etc/apt/sources.list:2 and /etc/apt/sources.list.d/ubuntu.sources:1 253s W: Target Packages (main/binary-ppc64el/Packages) is configured multiple times in /etc/apt/sources.list:3 and /etc/apt/sources.list.d/ubuntu.sources:2 253s W: Target Packages (main/binary-all/Packages) is configured multiple times in /etc/apt/sources.list:3 and /etc/apt/sources.list.d/ubuntu.sources:2 253s W: Target CNF (main/cnf/Commands-ppc64el) is configured multiple times in /etc/apt/sources.list:3 and /etc/apt/sources.list.d/ubuntu.sources:2 253s W: Target CNF (main/cnf/Commands-all) is configured multiple times in /etc/apt/sources.list:3 and /etc/apt/sources.list.d/ubuntu.sources:2 253s W: Target Packages (restricted/binary-ppc64el/Packages) is configured multiple times in /etc/apt/sources.list:3 and /etc/apt/sources.list.d/ubuntu.sources:2 253s W: Target Packages (restricted/binary-all/Packages) is configured multiple times in /etc/apt/sources.list:3 and /etc/apt/sources.list.d/ubuntu.sources:2 253s W: Target CNF (restricted/cnf/Commands-ppc64el) is configured multiple times in /etc/apt/sources.list:3 and /etc/apt/sources.list.d/ubuntu.sources:2 253s W: Target CNF (restricted/cnf/Commands-all) is configured multiple times in /etc/apt/sources.list:3 and /etc/apt/sources.list.d/ubuntu.sources:2 253s W: Target Packages (universe/binary-ppc64el/Packages) is configured multiple times in /etc/apt/sources.list:3 and /etc/apt/sources.list.d/ubuntu.sources:2 253s W: Target Packages (universe/binary-all/Packages) is configured multiple times in /etc/apt/sources.list:3 and /etc/apt/sources.list.d/ubuntu.sources:2 253s W: Target CNF (universe/cnf/Commands-ppc64el) is configured multiple times in /etc/apt/sources.list:3 and /etc/apt/sources.list.d/ubuntu.sources:2 253s W: Target CNF (universe/cnf/Commands-all) is configured multiple times in /etc/apt/sources.list:3 and /etc/apt/sources.list.d/ubuntu.sources:2 253s W: Target Packages (multiverse/binary-ppc64el/Packages) is configured multiple times in /etc/apt/sources.list:3 and /etc/apt/sources.list.d/ubuntu.sources:2 253s W: Target Packages (multiverse/binary-all/Packages) is configured multiple times in /etc/apt/sources.list:3 and /etc/apt/sources.list.d/ubuntu.sources:2 253s W: Target CNF (multiverse/cnf/Commands-ppc64el) is configured multiple times in /etc/apt/sources.list:3 and /etc/apt/sources.list.d/ubuntu.sources:2 253s W: Target CNF (multiverse/cnf/Commands-all) is configured multiple times in /etc/apt/sources.list:3 and /etc/apt/sources.list.d/ubuntu.sources:2 253s Reading package lists... 253s Building dependency tree... 253s Reading state information... 253s Calculating upgrade... 253s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 253s Reading package lists... 253s Building dependency tree... 253s Reading state information... 254s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 254s autopkgtest [05:33:40]: rebooting testbed after setup commands that affected boot 409s autopkgtest [05:36:15]: testbed running kernel: Linux 6.6.0-14-generic #14-Ubuntu SMP Thu Nov 30 10:29:25 UTC 2023 409s autopkgtest [05:36:15]: testbed dpkg architecture: ppc64el 410s autopkgtest [05:36:16]: @@@@@@@@@@@@@@@@@@@@ apt-source qtltools 411s W: Target Packages (main/binary-ppc64el/Packages) is configured multiple times in /etc/apt/sources.list:1 and /etc/apt/sources.list.d/ubuntu.sources:1 411s W: Target Packages (main/binary-all/Packages) is configured multiple times in /etc/apt/sources.list:1 and /etc/apt/sources.list.d/ubuntu.sources:1 411s W: Target CNF (main/cnf/Commands-ppc64el) is configured multiple times in /etc/apt/sources.list:1 and /etc/apt/sources.list.d/ubuntu.sources:1 411s W: Target CNF (main/cnf/Commands-all) is configured multiple times in /etc/apt/sources.list:1 and /etc/apt/sources.list.d/ubuntu.sources:1 411s W: Target Packages (restricted/binary-ppc64el/Packages) is configured multiple times in /etc/apt/sources.list:1 and /etc/apt/sources.list.d/ubuntu.sources:1 411s W: Target Packages (restricted/binary-all/Packages) is configured multiple times in /etc/apt/sources.list:1 and /etc/apt/sources.list.d/ubuntu.sources:1 411s W: Target CNF (restricted/cnf/Commands-ppc64el) is configured multiple times in /etc/apt/sources.list:1 and /etc/apt/sources.list.d/ubuntu.sources:1 411s W: Target CNF (restricted/cnf/Commands-all) is configured multiple times in /etc/apt/sources.list:1 and /etc/apt/sources.list.d/ubuntu.sources:1 411s W: Target Packages (universe/binary-ppc64el/Packages) is configured multiple times in /etc/apt/sources.list:1 and /etc/apt/sources.list.d/ubuntu.sources:1 411s W: Target Packages (universe/binary-all/Packages) is configured multiple times in /etc/apt/sources.list:1 and /etc/apt/sources.list.d/ubuntu.sources:1 411s W: Target CNF (universe/cnf/Commands-ppc64el) is configured multiple times in /etc/apt/sources.list:1 and /etc/apt/sources.list.d/ubuntu.sources:1 411s W: Target CNF (universe/cnf/Commands-all) is configured multiple times in /etc/apt/sources.list:1 and /etc/apt/sources.list.d/ubuntu.sources:1 411s W: Target Packages (multiverse/binary-ppc64el/Packages) is configured multiple times in /etc/apt/sources.list:1 and /etc/apt/sources.list.d/ubuntu.sources:1 411s W: Target Packages (multiverse/binary-all/Packages) is configured multiple times in /etc/apt/sources.list:1 and /etc/apt/sources.list.d/ubuntu.sources:1 411s W: Target CNF (multiverse/cnf/Commands-ppc64el) is configured multiple times in /etc/apt/sources.list:1 and /etc/apt/sources.list.d/ubuntu.sources:1 411s W: Target CNF (multiverse/cnf/Commands-all) is configured multiple times in /etc/apt/sources.list:1 and /etc/apt/sources.list.d/ubuntu.sources:1 411s W: Target Packages (main/binary-ppc64el/Packages) is configured multiple times in /etc/apt/sources.list:2 and /etc/apt/sources.list.d/ubuntu.sources:1 411s W: Target Packages (main/binary-all/Packages) is configured multiple times in /etc/apt/sources.list:2 and /etc/apt/sources.list.d/ubuntu.sources:1 411s W: Target CNF (main/cnf/Commands-ppc64el) is configured multiple times in /etc/apt/sources.list:2 and /etc/apt/sources.list.d/ubuntu.sources:1 411s W: Target CNF (main/cnf/Commands-all) is configured multiple times in /etc/apt/sources.list:2 and /etc/apt/sources.list.d/ubuntu.sources:1 411s W: Target Packages (restricted/binary-ppc64el/Packages) is configured multiple times in /etc/apt/sources.list:2 and /etc/apt/sources.list.d/ubuntu.sources:1 411s W: Target Packages (restricted/binary-all/Packages) is configured multiple times in /etc/apt/sources.list:2 and /etc/apt/sources.list.d/ubuntu.sources:1 411s W: Target CNF (restricted/cnf/Commands-ppc64el) is configured multiple times in /etc/apt/sources.list:2 and /etc/apt/sources.list.d/ubuntu.sources:1 411s W: Target CNF (restricted/cnf/Commands-all) is configured multiple times in /etc/apt/sources.list:2 and /etc/apt/sources.list.d/ubuntu.sources:1 411s W: Target Packages (universe/binary-ppc64el/Packages) is configured multiple times in /etc/apt/sources.list:2 and /etc/apt/sources.list.d/ubuntu.sources:1 411s W: Target Packages (universe/binary-all/Packages) is configured multiple times in /etc/apt/sources.list:2 and /etc/apt/sources.list.d/ubuntu.sources:1 411s W: Target CNF (universe/cnf/Commands-ppc64el) is configured multiple times in /etc/apt/sources.list:2 and /etc/apt/sources.list.d/ubuntu.sources:1 411s W: Target CNF (universe/cnf/Commands-all) is configured multiple times in /etc/apt/sources.list:2 and /etc/apt/sources.list.d/ubuntu.sources:1 411s W: Target Packages (multiverse/binary-ppc64el/Packages) is configured multiple times in /etc/apt/sources.list:2 and /etc/apt/sources.list.d/ubuntu.sources:1 411s W: Target Packages (multiverse/binary-all/Packages) is configured multiple times in /etc/apt/sources.list:2 and /etc/apt/sources.list.d/ubuntu.sources:1 411s W: Target CNF (multiverse/cnf/Commands-ppc64el) is configured multiple times in /etc/apt/sources.list:2 and /etc/apt/sources.list.d/ubuntu.sources:1 411s W: Target CNF (multiverse/cnf/Commands-all) is configured multiple times in /etc/apt/sources.list:2 and /etc/apt/sources.list.d/ubuntu.sources:1 411s W: Target Packages (main/binary-ppc64el/Packages) is configured multiple times in /etc/apt/sources.list:3 and /etc/apt/sources.list.d/ubuntu.sources:2 411s W: Target Packages (main/binary-all/Packages) is configured multiple times in /etc/apt/sources.list:3 and /etc/apt/sources.list.d/ubuntu.sources:2 411s W: Target CNF (main/cnf/Commands-ppc64el) is configured multiple times in /etc/apt/sources.list:3 and /etc/apt/sources.list.d/ubuntu.sources:2 411s W: Target CNF (main/cnf/Commands-all) is configured multiple times in /etc/apt/sources.list:3 and /etc/apt/sources.list.d/ubuntu.sources:2 411s W: Target Packages (restricted/binary-ppc64el/Packages) is configured multiple times in /etc/apt/sources.list:3 and /etc/apt/sources.list.d/ubuntu.sources:2 411s W: Target Packages (restricted/binary-all/Packages) is configured multiple times in /etc/apt/sources.list:3 and /etc/apt/sources.list.d/ubuntu.sources:2 411s W: Target CNF (restricted/cnf/Commands-ppc64el) is configured multiple times in /etc/apt/sources.list:3 and /etc/apt/sources.list.d/ubuntu.sources:2 411s W: Target CNF (restricted/cnf/Commands-all) is configured multiple times in /etc/apt/sources.list:3 and /etc/apt/sources.list.d/ubuntu.sources:2 411s W: Target Packages (universe/binary-ppc64el/Packages) is configured multiple times in /etc/apt/sources.list:3 and /etc/apt/sources.list.d/ubuntu.sources:2 411s W: Target Packages (universe/binary-all/Packages) is configured multiple times in /etc/apt/sources.list:3 and /etc/apt/sources.list.d/ubuntu.sources:2 411s W: Target CNF (universe/cnf/Commands-ppc64el) is configured multiple times in /etc/apt/sources.list:3 and /etc/apt/sources.list.d/ubuntu.sources:2 411s W: Target CNF (universe/cnf/Commands-all) is configured multiple times in /etc/apt/sources.list:3 and /etc/apt/sources.list.d/ubuntu.sources:2 411s W: Target Packages (multiverse/binary-ppc64el/Packages) is configured multiple times in /etc/apt/sources.list:3 and /etc/apt/sources.list.d/ubuntu.sources:2 411s W: Target Packages (multiverse/binary-all/Packages) is configured multiple times in /etc/apt/sources.list:3 and /etc/apt/sources.list.d/ubuntu.sources:2 411s W: Target CNF (multiverse/cnf/Commands-ppc64el) is configured multiple times in /etc/apt/sources.list:3 and /etc/apt/sources.list.d/ubuntu.sources:2 411s W: Target CNF (multiverse/cnf/Commands-all) is configured multiple times in /etc/apt/sources.list:3 and /etc/apt/sources.list.d/ubuntu.sources:2 413s Get:1 http://ftpmaster.internal/ubuntu noble/universe qtltools 1.3.1+dfsg-4build1 (dsc) [2214 B] 413s Get:2 http://ftpmaster.internal/ubuntu noble/universe qtltools 1.3.1+dfsg-4build1 (tar) [141 kB] 413s Get:3 http://ftpmaster.internal/ubuntu noble/universe qtltools 1.3.1+dfsg-4build1 (diff) [13.6 MB] 413s gpgv: Signature made Tue Dec 19 15:02:56 2023 UTC 413s gpgv: using RSA key 568BF22A66337CBFC9A6B9B72C83DBC8E9BD0E37 413s gpgv: Can't check signature: No public key 413s dpkg-source: warning: cannot verify inline signature for ./qtltools_1.3.1+dfsg-4build1.dsc: no acceptable signature found 414s autopkgtest [05:36:20]: testing package qtltools version 1.3.1+dfsg-4build1 414s autopkgtest [05:36:20]: build not needed 416s autopkgtest [05:36:22]: test run-sample-analysis: preparing testbed 419s Reading package lists... 419s Building dependency tree... 419s Reading state information... 419s Correcting dependencies...Starting pkgProblemResolver with broken count: 0 419s Starting 2 pkgProblemResolver with broken count: 0 419s Done 420s Done 420s Starting pkgProblemResolver with broken count: 0 420s Starting 2 pkgProblemResolver with broken count: 0 420s Done 420s The following additional packages will be installed: 420s fontconfig fontconfig-config fonts-dejavu-core fonts-dejavu-mono libblas3 420s libboost-iostreams1.83.0 libboost-program-options1.83.0 libcairo2 libdatrie1 420s libdeflate0 libfontconfig1 libgfortran5 libgomp1 libgraphite2-3 libgsl27 420s libgslcblas0 libharfbuzz0b libhts3 libhtscodecs2 libice6 libjbig0 420s libjpeg-turbo8 libjpeg8 liblapack3 liblerc4 libpango-1.0-0 420s libpangocairo-1.0-0 libpangoft2-1.0-0 libpaper-utils libpaper1 libpixman-1-0 420s libsharpyuv0 libsm6 libtcl8.6 libthai-data libthai0 libtiff6 libtk8.6 420s libwebp7 libxcb-render0 libxcb-shm0 libxft2 libxrender1 libxss1 libxt6 420s qtltools qtltools-example r-base-core r-mathlib unzip x11-common xdg-utils 420s zip 420s Suggested packages: 420s gsl-ref-psdoc | gsl-doc-pdf | gsl-doc-info | gsl-ref-html tcl8.6 tk8.6 420s elpa-ess r-doc-info | r-doc-pdf r-base-html 420s Recommended packages: 420s r-bioc-qvalue r-recommended r-base-dev r-doc-html libfile-mimeinfo-perl 420s libnet-dbus-perl libx11-protocol-perl x11-utils x11-xserver-utils 420s The following NEW packages will be installed: 420s fontconfig fontconfig-config fonts-dejavu-core fonts-dejavu-mono libblas3 420s libboost-iostreams1.83.0 libboost-program-options1.83.0 libcairo2 libdatrie1 420s libdeflate0 libfontconfig1 libgfortran5 libgomp1 libgraphite2-3 libgsl27 420s libgslcblas0 libharfbuzz0b libhts3 libhtscodecs2 libice6 libjbig0 420s libjpeg-turbo8 libjpeg8 liblapack3 liblerc4 libpango-1.0-0 420s libpangocairo-1.0-0 libpangoft2-1.0-0 libpaper-utils libpaper1 libpixman-1-0 420s libsharpyuv0 libsm6 libtcl8.6 libthai-data libthai0 libtiff6 libtk8.6 420s libwebp7 libxcb-render0 libxcb-shm0 libxft2 libxrender1 libxss1 libxt6 420s qtltools qtltools-example r-base-core r-mathlib unzip x11-common xdg-utils 420s zip 420s 0 upgraded, 53 newly installed, 0 to remove and 0 not upgraded. 420s 1 not fully installed or removed. 420s Need to get 58.8 MB of archives. 420s After this operation, 115 MB of additional disk space will be used. 420s Get:1 http://ftpmaster.internal/ubuntu noble-proposed/main ppc64el libblas3 ppc64el 3.12.0-3 [227 kB] 421s Get:2 http://ftpmaster.internal/ubuntu noble/main ppc64el libboost-iostreams1.83.0 ppc64el 1.83.0-2ubuntu1 [340 kB] 421s Get:3 http://ftpmaster.internal/ubuntu noble/main ppc64el libboost-program-options1.83.0 ppc64el 1.83.0-2ubuntu1 [421 kB] 421s Get:4 http://ftpmaster.internal/ubuntu noble/universe ppc64el libgslcblas0 ppc64el 2.7.1+dfsg-6ubuntu1 [85.3 kB] 421s Get:5 http://ftpmaster.internal/ubuntu noble/universe ppc64el libgsl27 ppc64el 2.7.1+dfsg-6ubuntu1 [1064 kB] 421s Get:6 http://ftpmaster.internal/ubuntu noble/main ppc64el libdeflate0 ppc64el 1.19-1 [61.9 kB] 421s Get:7 http://ftpmaster.internal/ubuntu noble/universe ppc64el libhtscodecs2 ppc64el 1.6.0-1 [110 kB] 421s Get:8 http://ftpmaster.internal/ubuntu noble/universe ppc64el libhts3 ppc64el 1.18+ds-1 [553 kB] 421s Get:9 http://ftpmaster.internal/ubuntu noble/universe ppc64el r-mathlib ppc64el 4.3.2-1build1 [2425 kB] 421s Get:10 http://ftpmaster.internal/ubuntu noble/main ppc64el zip ppc64el 3.0-13 [192 kB] 421s Get:11 http://ftpmaster.internal/ubuntu noble/main ppc64el unzip ppc64el 6.0-28ubuntu2 [191 kB] 421s Get:12 http://ftpmaster.internal/ubuntu noble/main ppc64el libpaper1 ppc64el 1.1.29 [13.5 kB] 421s Get:13 http://ftpmaster.internal/ubuntu noble/main ppc64el libpaper-utils ppc64el 1.1.29 [8710 B] 421s Get:14 http://ftpmaster.internal/ubuntu noble/main ppc64el xdg-utils all 1.1.3-4.1ubuntu3 [62.0 kB] 421s Get:15 http://ftpmaster.internal/ubuntu noble/main ppc64el fonts-dejavu-mono all 2.37-8 [502 kB] 421s Get:16 http://ftpmaster.internal/ubuntu noble/main ppc64el fonts-dejavu-core all 2.37-8 [835 kB] 421s Get:17 http://ftpmaster.internal/ubuntu noble/main ppc64el fontconfig-config ppc64el 2.14.2-6ubuntu1 [36.0 kB] 421s Get:18 http://ftpmaster.internal/ubuntu noble/main ppc64el libfontconfig1 ppc64el 2.14.2-6ubuntu1 [184 kB] 421s Get:19 http://ftpmaster.internal/ubuntu noble/main ppc64el libpixman-1-0 ppc64el 0.42.2-1 [300 kB] 421s Get:20 http://ftpmaster.internal/ubuntu noble/main ppc64el libxcb-render0 ppc64el 1.15-1 [17.2 kB] 421s Get:21 http://ftpmaster.internal/ubuntu noble/main ppc64el libxcb-shm0 ppc64el 1.15-1 [5896 B] 421s Get:22 http://ftpmaster.internal/ubuntu noble/main ppc64el libxrender1 ppc64el 1:0.9.10-1.1 [23.3 kB] 421s Get:23 http://ftpmaster.internal/ubuntu noble/main ppc64el libcairo2 ppc64el 1.18.0-1 [735 kB] 421s Get:24 http://ftpmaster.internal/ubuntu noble/main ppc64el libgomp1 ppc64el 14-20240201-3ubuntu1 [161 kB] 421s Get:25 http://ftpmaster.internal/ubuntu noble/main ppc64el libjpeg-turbo8 ppc64el 2.1.5-2ubuntu1 [212 kB] 421s Get:26 http://ftpmaster.internal/ubuntu noble/main ppc64el libjpeg8 ppc64el 8c-2ubuntu11 [2148 B] 421s Get:27 http://ftpmaster.internal/ubuntu noble/main ppc64el libgfortran5 ppc64el 14-20240201-3ubuntu1 [572 kB] 421s Get:28 http://ftpmaster.internal/ubuntu noble-proposed/main ppc64el liblapack3 ppc64el 3.12.0-3 [2804 kB] 421s Get:29 http://ftpmaster.internal/ubuntu noble/main ppc64el fontconfig ppc64el 2.14.2-6ubuntu1 [192 kB] 422s Get:30 http://ftpmaster.internal/ubuntu noble/main ppc64el libgraphite2-3 ppc64el 1.3.14-2 [105 kB] 422s Get:31 http://ftpmaster.internal/ubuntu noble/main ppc64el libharfbuzz0b ppc64el 8.3.0-2 [576 kB] 422s Get:32 http://ftpmaster.internal/ubuntu noble/main ppc64el libthai-data all 0.1.29-2 [158 kB] 422s Get:33 http://ftpmaster.internal/ubuntu noble/main ppc64el libdatrie1 ppc64el 0.2.13-3 [25.1 kB] 422s Get:34 http://ftpmaster.internal/ubuntu noble/main ppc64el libthai0 ppc64el 0.1.29-2 [21.4 kB] 422s Get:35 http://ftpmaster.internal/ubuntu noble/main ppc64el libpango-1.0-0 ppc64el 1.51.0+ds-4 [266 kB] 422s Get:36 http://ftpmaster.internal/ubuntu noble/main ppc64el libpangoft2-1.0-0 ppc64el 1.51.0+ds-4 [49.5 kB] 422s Get:37 http://ftpmaster.internal/ubuntu noble/main ppc64el libpangocairo-1.0-0 ppc64el 1.51.0+ds-4 [31.2 kB] 422s Get:38 http://ftpmaster.internal/ubuntu noble/main ppc64el libtcl8.6 ppc64el 8.6.13+dfsg-2 [1179 kB] 422s Get:39 http://ftpmaster.internal/ubuntu noble/main ppc64el libjbig0 ppc64el 2.1-6.1ubuntu1 [34.7 kB] 422s Get:40 http://ftpmaster.internal/ubuntu noble/main ppc64el liblerc4 ppc64el 4.0.0+ds-4ubuntu1 [266 kB] 422s Get:41 http://ftpmaster.internal/ubuntu noble/main ppc64el libsharpyuv0 ppc64el 1.3.2-0.3 [27.9 kB] 422s Get:42 http://ftpmaster.internal/ubuntu noble/main ppc64el libwebp7 ppc64el 1.3.2-0.3 [308 kB] 422s Get:43 http://ftpmaster.internal/ubuntu noble/main ppc64el libtiff6 ppc64el 4.5.1+git230720-3ubuntu1 [323 kB] 422s Get:44 http://ftpmaster.internal/ubuntu noble/main ppc64el libxft2 ppc64el 2.3.6-1 [59.8 kB] 422s Get:45 http://ftpmaster.internal/ubuntu noble/main ppc64el x11-common all 1:7.7+23ubuntu2 [23.4 kB] 422s Get:46 http://ftpmaster.internal/ubuntu noble/main ppc64el libxss1 ppc64el 1:1.2.3-1build2 [8982 B] 422s Get:47 http://ftpmaster.internal/ubuntu noble/main ppc64el libtk8.6 ppc64el 8.6.13-2 [916 kB] 422s Get:48 http://ftpmaster.internal/ubuntu noble/main ppc64el libice6 ppc64el 2:1.0.10-1build2 [49.3 kB] 422s Get:49 http://ftpmaster.internal/ubuntu noble/main ppc64el libsm6 ppc64el 2:1.2.3-1build2 [18.5 kB] 422s Get:50 http://ftpmaster.internal/ubuntu noble/main ppc64el libxt6 ppc64el 1:1.2.1-1.1 [198 kB] 422s Get:51 http://ftpmaster.internal/ubuntu noble/universe ppc64el r-base-core ppc64el 4.3.2-1build1 [27.4 MB] 423s Get:52 http://ftpmaster.internal/ubuntu noble/universe ppc64el qtltools ppc64el 1.3.1+dfsg-4build1 [823 kB] 423s Get:53 http://ftpmaster.internal/ubuntu noble/universe ppc64el qtltools-example all 1.3.1+dfsg-4build1 [13.6 MB] 424s Preconfiguring packages ... 424s Fetched 58.8 MB in 3s (19.3 MB/s) 424s Selecting previously unselected package libblas3:ppc64el. 424s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 68325 files and directories currently installed.) 424s Preparing to unpack .../00-libblas3_3.12.0-3_ppc64el.deb ... 424s Unpacking libblas3:ppc64el (3.12.0-3) ... 424s Selecting previously unselected package libboost-iostreams1.83.0:ppc64el. 424s Preparing to unpack .../01-libboost-iostreams1.83.0_1.83.0-2ubuntu1_ppc64el.deb ... 424s Unpacking libboost-iostreams1.83.0:ppc64el (1.83.0-2ubuntu1) ... 424s Selecting previously unselected package libboost-program-options1.83.0:ppc64el. 424s Preparing to unpack .../02-libboost-program-options1.83.0_1.83.0-2ubuntu1_ppc64el.deb ... 424s Unpacking libboost-program-options1.83.0:ppc64el (1.83.0-2ubuntu1) ... 424s Selecting previously unselected package libgslcblas0:ppc64el. 424s Preparing to unpack .../03-libgslcblas0_2.7.1+dfsg-6ubuntu1_ppc64el.deb ... 424s Unpacking libgslcblas0:ppc64el (2.7.1+dfsg-6ubuntu1) ... 424s Selecting previously unselected package libgsl27:ppc64el. 424s Preparing to unpack .../04-libgsl27_2.7.1+dfsg-6ubuntu1_ppc64el.deb ... 424s Unpacking libgsl27:ppc64el (2.7.1+dfsg-6ubuntu1) ... 424s Selecting previously unselected package libdeflate0:ppc64el. 424s Preparing to unpack .../05-libdeflate0_1.19-1_ppc64el.deb ... 424s Unpacking libdeflate0:ppc64el (1.19-1) ... 424s Selecting previously unselected package libhtscodecs2:ppc64el. 424s Preparing to unpack .../06-libhtscodecs2_1.6.0-1_ppc64el.deb ... 424s Unpacking libhtscodecs2:ppc64el (1.6.0-1) ... 424s Selecting previously unselected package libhts3:ppc64el. 424s Preparing to unpack .../07-libhts3_1.18+ds-1_ppc64el.deb ... 424s Unpacking libhts3:ppc64el (1.18+ds-1) ... 424s Selecting previously unselected package r-mathlib. 424s Preparing to unpack .../08-r-mathlib_4.3.2-1build1_ppc64el.deb ... 424s Unpacking r-mathlib (4.3.2-1build1) ... 424s Selecting previously unselected package zip. 424s Preparing to unpack .../09-zip_3.0-13_ppc64el.deb ... 424s Unpacking zip (3.0-13) ... 424s Selecting previously unselected package unzip. 424s Preparing to unpack .../10-unzip_6.0-28ubuntu2_ppc64el.deb ... 424s Unpacking unzip (6.0-28ubuntu2) ... 424s Selecting previously unselected package libpaper1:ppc64el. 424s Preparing to unpack .../11-libpaper1_1.1.29_ppc64el.deb ... 424s Unpacking libpaper1:ppc64el (1.1.29) ... 424s Selecting previously unselected package libpaper-utils. 424s Preparing to unpack .../12-libpaper-utils_1.1.29_ppc64el.deb ... 424s Unpacking libpaper-utils (1.1.29) ... 424s 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libpixman-1-0:ppc64el. 424s Preparing to unpack .../18-libpixman-1-0_0.42.2-1_ppc64el.deb ... 424s Unpacking libpixman-1-0:ppc64el (0.42.2-1) ... 424s Selecting previously unselected package libxcb-render0:ppc64el. 424s Preparing to unpack .../19-libxcb-render0_1.15-1_ppc64el.deb ... 424s Unpacking libxcb-render0:ppc64el (1.15-1) ... 424s Selecting previously unselected package libxcb-shm0:ppc64el. 424s Preparing to unpack .../20-libxcb-shm0_1.15-1_ppc64el.deb ... 424s Unpacking libxcb-shm0:ppc64el (1.15-1) ... 424s Selecting previously unselected package libxrender1:ppc64el. 424s Preparing to unpack .../21-libxrender1_1%3a0.9.10-1.1_ppc64el.deb ... 424s Unpacking libxrender1:ppc64el (1:0.9.10-1.1) ... 424s Selecting previously unselected package libcairo2:ppc64el. 424s Preparing to unpack .../22-libcairo2_1.18.0-1_ppc64el.deb ... 424s Unpacking libcairo2:ppc64el (1.18.0-1) ... 424s Selecting previously unselected package libgomp1:ppc64el. 424s Preparing to unpack .../23-libgomp1_14-20240201-3ubuntu1_ppc64el.deb ... 424s Unpacking libgomp1:ppc64el (14-20240201-3ubuntu1) ... 424s Selecting previously unselected package libjpeg-turbo8:ppc64el. 424s Preparing to unpack .../24-libjpeg-turbo8_2.1.5-2ubuntu1_ppc64el.deb ... 424s Unpacking libjpeg-turbo8:ppc64el (2.1.5-2ubuntu1) ... 424s Selecting previously unselected package libjpeg8:ppc64el. 424s Preparing to unpack .../25-libjpeg8_8c-2ubuntu11_ppc64el.deb ... 424s Unpacking libjpeg8:ppc64el (8c-2ubuntu11) ... 424s Selecting previously unselected package libgfortran5:ppc64el. 424s Preparing to unpack .../26-libgfortran5_14-20240201-3ubuntu1_ppc64el.deb ... 424s Unpacking libgfortran5:ppc64el (14-20240201-3ubuntu1) ... 424s Selecting previously unselected package liblapack3:ppc64el. 424s Preparing to unpack .../27-liblapack3_3.12.0-3_ppc64el.deb ... 424s Unpacking liblapack3:ppc64el (3.12.0-3) ... 424s Selecting previously unselected package fontconfig. 424s Preparing to unpack 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(2.1-6.1ubuntu1) ... 425s Selecting previously unselected package liblerc4:ppc64el. 425s Preparing to unpack .../39-liblerc4_4.0.0+ds-4ubuntu1_ppc64el.deb ... 425s Unpacking liblerc4:ppc64el (4.0.0+ds-4ubuntu1) ... 425s Selecting previously unselected package libsharpyuv0:ppc64el. 425s Preparing to unpack .../40-libsharpyuv0_1.3.2-0.3_ppc64el.deb ... 425s Unpacking libsharpyuv0:ppc64el (1.3.2-0.3) ... 425s Selecting previously unselected package libwebp7:ppc64el. 425s Preparing to unpack .../41-libwebp7_1.3.2-0.3_ppc64el.deb ... 425s Unpacking libwebp7:ppc64el (1.3.2-0.3) ... 425s Selecting previously unselected package libtiff6:ppc64el. 425s Preparing to unpack .../42-libtiff6_4.5.1+git230720-3ubuntu1_ppc64el.deb ... 425s Unpacking libtiff6:ppc64el (4.5.1+git230720-3ubuntu1) ... 425s Selecting previously unselected package libxft2:ppc64el. 425s Preparing to unpack .../43-libxft2_2.3.6-1_ppc64el.deb ... 425s Unpacking libxft2:ppc64el (2.3.6-1) ... 425s Selecting previously unselected package x11-common. 425s Preparing to unpack .../44-x11-common_1%3a7.7+23ubuntu2_all.deb ... 425s Unpacking x11-common (1:7.7+23ubuntu2) ... 425s Selecting previously unselected package libxss1:ppc64el. 425s Preparing to unpack .../45-libxss1_1%3a1.2.3-1build2_ppc64el.deb ... 425s Unpacking libxss1:ppc64el (1:1.2.3-1build2) ... 425s Selecting previously unselected package libtk8.6:ppc64el. 425s Preparing to unpack .../46-libtk8.6_8.6.13-2_ppc64el.deb ... 425s Unpacking libtk8.6:ppc64el (8.6.13-2) ... 425s Selecting previously unselected package libice6:ppc64el. 425s Preparing to unpack .../47-libice6_2%3a1.0.10-1build2_ppc64el.deb ... 425s Unpacking libice6:ppc64el (2:1.0.10-1build2) ... 425s Selecting previously unselected package libsm6:ppc64el. 425s Preparing to unpack .../48-libsm6_2%3a1.2.3-1build2_ppc64el.deb ... 425s Unpacking libsm6:ppc64el (2:1.2.3-1build2) ... 425s Selecting previously unselected package libxt6:ppc64el. 425s Preparing to unpack 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425s Setting up libpaper1:ppc64el (1.1.29) ... 426s 426s Creating config file /etc/papersize with new version 426s Setting up liblerc4:ppc64el (4.0.0+ds-4ubuntu1) ... 426s Setting up libxrender1:ppc64el (1:0.9.10-1.1) ... 426s Setting up libdatrie1:ppc64el (0.2.13-3) ... 426s Setting up libgslcblas0:ppc64el (2.7.1+dfsg-6ubuntu1) ... 426s Setting up libxcb-render0:ppc64el (1.15-1) ... 426s Setting up unzip (6.0-28ubuntu2) ... 426s Setting up x11-common (1:7.7+23ubuntu2) ... 426s Setting up libdeflate0:ppc64el (1.19-1) ... 426s Setting up libgsl27:ppc64el (2.7.1+dfsg-6ubuntu1) ... 426s Setting up libxcb-shm0:ppc64el (1.15-1) ... 426s Setting up libpaper-utils (1.1.29) ... 426s Setting up libgomp1:ppc64el (14-20240201-3ubuntu1) ... 426s Setting up libjbig0:ppc64el (2.1-6.1ubuntu1) ... 426s Setting up zip (3.0-13) ... 426s Setting up libblas3:ppc64el (3.12.0-3) ... 426s update-alternatives: using /usr/lib/powerpc64le-linux-gnu/blas/libblas.so.3 to provide /usr/lib/powerpc64le-linux-gnu/libblas.so.3 (libblas.so.3-powerpc64le-linux-gnu) in auto mode 426s Setting up libboost-iostreams1.83.0:ppc64el (1.83.0-2ubuntu1) ... 426s Setting up fonts-dejavu-mono (2.37-8) ... 426s Setting up libtcl8.6:ppc64el (8.6.13+dfsg-2) ... 426s Setting up fonts-dejavu-core (2.37-8) ... 426s Setting up libjpeg-turbo8:ppc64el (2.1.5-2ubuntu1) ... 426s Setting up libgfortran5:ppc64el (14-20240201-3ubuntu1) ... 426s Setting up libwebp7:ppc64el (1.3.2-0.3) ... 426s Setting up r-mathlib (4.3.2-1build1) ... 426s Setting up libharfbuzz0b:ppc64el (8.3.0-2) ... 426s Setting up libthai-data (0.1.29-2) ... 426s Setting up libxss1:ppc64el (1:1.2.3-1build2) ... 426s Setting up xdg-utils (1.1.3-4.1ubuntu3) ... 426s update-alternatives: using /usr/bin/xdg-open to provide /usr/bin/open (open) in auto mode 426s Setting up libjpeg8:ppc64el (8c-2ubuntu11) ... 426s Setting up libice6:ppc64el (2:1.0.10-1build2) ... 426s Setting up liblapack3:ppc64el (3.12.0-3) ... 426s update-alternatives: using /usr/lib/powerpc64le-linux-gnu/lapack/liblapack.so.3 to provide /usr/lib/powerpc64le-linux-gnu/liblapack.so.3 (liblapack.so.3-powerpc64le-linux-gnu) in auto mode 426s Setting up libhts3:ppc64el (1.18+ds-1) ... 426s Setting up fontconfig-config (2.14.2-6ubuntu1) ... 426s Setting up libthai0:ppc64el (0.1.29-2) ... 426s Setting up libtiff6:ppc64el (4.5.1+git230720-3ubuntu1) ... 426s Setting up libfontconfig1:ppc64el (2.14.2-6ubuntu1) ... 426s Setting up libsm6:ppc64el (2:1.2.3-1build2) ... 426s Setting up fontconfig (2.14.2-6ubuntu1) ... 428s Regenerating fonts cache... done. 428s Setting up libxft2:ppc64el (2.3.6-1) ... 428s Setting up libtk8.6:ppc64el (8.6.13-2) ... 428s Setting up libpango-1.0-0:ppc64el (1.51.0+ds-4) ... 428s Setting up libcairo2:ppc64el (1.18.0-1) ... 428s Setting up libxt6:ppc64el (1:1.2.1-1.1) ... 428s Setting up libpangoft2-1.0-0:ppc64el (1.51.0+ds-4) ... 428s Setting up libpangocairo-1.0-0:ppc64el (1.51.0+ds-4) ... 428s Setting up r-base-core (4.3.2-1build1) ... 428s 428s Creating config file /etc/R/Renviron with new version 428s Setting up qtltools (1.3.1+dfsg-4build1) ... 428s Setting up autopkgtest-satdep (0) ... 428s Processing triggers for man-db (2.12.0-3) ... 429s Processing triggers for install-info (7.1-3) ... 429s Processing triggers for libc-bin (2.38-3ubuntu1) ... 433s (Reading database ... 70420 files and directories currently installed.) 433s Removing autopkgtest-satdep (0) ... 434s autopkgtest [05:36:40]: test run-sample-analysis: [----------------------- 434s ./genes.50percent.chr22.bed.gz 434s ./genes.50percent.chr22.bed.gz.tbi 434s ./genes.covariates.pc50.txt.gz 434s ./genes.simulated.chr22.bed.gz 434s ./genes.simulated.chr22.bed.gz.tbi 434s ./genotypes.chr22.vcf.gz 435s ./genotypes.chr22.vcf.gz.tbi 435s 435s QTLtools 435s * Authors : Olivier DELANEAU / Halit ONGEN / Emmanouil DERMITZAKIS 435s * Contact : olivier.delaneau@gmail.com / halit.ongen@unige.ch / Emmanouil.Dermitzakis@unige.ch 435s * Webpage : https://qtltools.github.io/qtltools/ 435s * Version : 1.3.1 435s * Date : 16/02/2024 - 05:36:40 435s * Citation: A complete tool set for molecular QTL discovery and analysis, https://doi.org/10.1038/ncomms15452 435s 435s CONDUCT PCA ON DATA 435s 435s Initialize random number generator 435s * Built-in seed is 15112011 435s * First Integer = 30553 435s * First Double = 0.0126695 435s 435s Reading sample list from [genes.50percent.chr22.bed.gz] 435s * #samples = 358 435s 435s Merging sample sets from all input files 435s * #files = 1 435s * #samples in all files = 358 435s 435s Reading phenotype data in [genes.50percent.chr22.bed.gz] 435s * 358 samples included 435s * 608 phenotypes included 435s 435s Calculating PCA with a matrix 358 x 608 435s * Calculated mean and sd 435s * 0 sd==0 columns removed 435s * Variables centered 435s * Variables scaled to unit variance 435s * Running SVD 436s * SVD complete 436s * Calculated sd and var for PCs 436s * Calculated cumulative var for PCs 436s * Done! 436s 436s Running time: 0 seconds 436s 436s QTLtools 436s * Authors : Olivier DELANEAU / Halit ONGEN / Emmanouil DERMITZAKIS 436s * Contact : olivier.delaneau@gmail.com / halit.ongen@unige.ch / Emmanouil.Dermitzakis@unige.ch 436s * Webpage : https://qtltools.github.io/qtltools/ 436s * Version : 1.3.1 436s * Date : 16/02/2024 - 05:36:40 436s * Citation: A complete tool set for molecular QTL discovery and analysis, https://doi.org/10.1038/ncomms15452 436s 436s MAPPING QTL IN CIS 436s * TASK: Report all nominal associations with p <= 0.01 436s * Linear model: Phe ~ Var + Cov 436s * Cis-window size is 1000000 bp 436s * Region = [chr22:17000000-18000000] 436s 436s Initialize random number generator 436s * Built-in seed is 15112011 436s * First Integer = 30553 436s * First Double = 0.0126695 436s 436s Reading sample list from [genes.50percent.chr22.bed.gz] 436s * #samples = 358 436s 436s Read sample list from [genotypes.chr22.vcf.gz] 436s * #samples = 358 436s 436s Reading sample list from [genes.covariates.pc50.txt.gz] 436s * #samples = 358 436s 436s Merging sample sets from all input files 436s * #files = 3 436s * #samples in all files = 358 436s 436s Reading phenotype data in [genes.50percent.chr22.bed.gz] 436s * target region [chr22:17000000-18000000] 436s * 8 phenotypes included 436s * 3 phenotypes are on the negative strand 436s 436s Reading genotype data in [genotypes.chr22.vcf.gz] 436s * File format detected: VCF 436s * target region [chr22:16000000-19000000] 436s * 6404 variants included 436s 436s Reading covariates in [genes.covariates.pc50.txt.gz] 436s * 53 covariates included 436s 436s Residualize phenotypes for covariates 436s * #covariates = 53 436s 436s Processing phenotype [ENSG00000237438.2] [1/8] 436s * #variants in cis = 5095 436s * Best hit: [id=22_17542810, d=25350, pv=1.1864e-25, s=-0.7518] 436s 436s Processing phenotype [ENSG00000273203.1] [2/8] 436s * #variants in cis = 5170 436s * Best hit: [id=22_17517388, d=-31323, pv=5.86611e-06, s=-0.1406] 436s 436s Processing phenotype [ENSG00000273442.1] [3/8] 436s * #variants in cis = 5188 436s * Best hit: [id=22_17553526, d=-8065, pv=0.000244522, s=0.1340] 436s 436s Processing phenotype [ENSG00000177663.9] [4/8] 436s * #variants in cis = 5193 436s * Best hit: [id=22_17513703, d=-52141, pv=8.03358e-14, s=-0.2096] 436s 436s Processing phenotype [ENSG00000183307.3] [5/8] 436s * #variants in cis = 5230 436s * Best hit: [id=22_17587975, d=14282, pv=1.56789e-07, s=-0.0078] 436s 436s Processing phenotype [ENSG00000069998.8] [6/8] 436s * #variants in cis = 5291 436s * Best hit: [id=22_17620429, d=25748, pv=1.37287e-14, s=-1.5147] 436s 436s Processing phenotype [ENSG00000093072.11] [7/8] 436s * #variants in cis = 5293 436s * Best hit: [id=22_17699630, d=3249, pv=0.000578649, s=0.6404] 436s 436s Processing phenotype [ENSG00000099954.14] [8/8] 436s * #variants in cis = 5435 436s * Best hit: [id=22_17175937, d=-664900, pv=0.000866455, s=0.0067] 436s 436s Running time: 0 seconds 436s 436s QTLtools 436s * Authors : Olivier DELANEAU / Halit ONGEN / Emmanouil DERMITZAKIS 436s * Contact : olivier.delaneau@gmail.com / halit.ongen@unige.ch / Emmanouil.Dermitzakis@unige.ch 436s * Webpage : https://qtltools.github.io/qtltools/ 436s * Version : 1.3.1 436s * Date : 16/02/2024 - 05:36:40 436s * Citation: A complete tool set for molecular QTL discovery and analysis, https://doi.org/10.1038/ncomms15452 436s 436s MAPPING QTL IN CIS 436s * TASK: Perform 1000 permutations 436s * Linear model: Phe ~ Var + Cov 436s * Cis-window size is 1000000 bp 436s * Region = [chr22:17000000-18000000] 436s 436s Initialize random number generator 436s * Built-in seed is 15112011 436s * First Integer = 30553 436s * First Double = 0.0126695 436s 436s Reading sample list from [genes.50percent.chr22.bed.gz] 436s * #samples = 358 436s 436s Read sample list from [genotypes.chr22.vcf.gz] 436s * #samples = 358 436s 436s Reading sample list from [genes.covariates.pc50.txt.gz] 436s * #samples = 358 436s 436s Merging sample sets from all input files 436s * #files = 3 436s * #samples in all files = 358 436s 436s Reading phenotype data in [genes.50percent.chr22.bed.gz] 436s * target region [chr22:17000000-18000000] 436s * 8 phenotypes included 436s * 3 phenotypes are on the negative strand 436s 436s Reading genotype data in [genotypes.chr22.vcf.gz] 436s * File format detected: VCF 436s * target region [chr22:16000000-19000000] 436s * 6404 variants included 436s 436s Reading covariates in [genes.covariates.pc50.txt.gz] 436s * 53 covariates included 436s 436s Residualize phenotypes for covariates 436s * #covariates = 53 436s 436s Processing phenotype [ENSG00000237438.2] [1/8] 436s * #variants in cis = 5095 437s * Best hit: [id=22_17542810, d=25350, pv=1.1864e-25, s=-0.7518] 437s * Beta parameters: [s1=1.00995, s2=621.053] 437s * Adjusted p-values: [emp=0.000999001, beta=1.28062e-20] 437s 437s Processing phenotype [ENSG00000273203.1] [2/8] 437s * #variants in cis = 5170 438s * Best hit: [id=22_17517388, d=-31323, pv=5.86611e-06, s=-0.1406] 438s * Beta parameters: [s1=1.11817, s2=641.379] 438s * Adjusted p-values: [emp=0.00799201, beta=0.00751892] 438s 438s Processing phenotype [ENSG00000273442.1] [3/8] 438s * #variants in cis = 5188 439s * Best hit: [id=22_17553526, d=-8065, pv=0.000244522, s=0.1340] 439s * Beta parameters: [s1=1.08364, s2=467.63] 439s * Adjusted p-values: [emp=0.297702, beta=0.293948] 439s 439s Processing phenotype [ENSG00000177663.9] [4/8] 439s * #variants in cis = 5193 441s * Best hit: [id=22_17513703, d=-52141, pv=8.03358e-14, s=-0.2096] 441s * Beta parameters: [s1=0.989061, s2=704.553] 441s * Adjusted p-values: [emp=0.000999001, beta=7.91291e-10] 441s 441s Processing phenotype [ENSG00000183307.3] [5/8] 441s * #variants in cis = 5230 442s * Best hit: [id=22_17587975, d=14282, pv=1.56789e-07, s=-0.0078] 442s * Beta parameters: [s1=1.01322, s2=559.49] 442s * Adjusted p-values: [emp=0.000999001, beta=0.00050707] 442s 442s Processing phenotype [ENSG00000069998.8] [6/8] 442s * #variants in cis = 5291 443s * Best hit: [id=22_17620429, d=25748, pv=1.37287e-14, s=-1.5147] 443s * Beta parameters: [s1=1.02312, s2=563.339] 443s * Adjusted p-values: [emp=0.000999001, beta=2.56935e-10] 443s 443s Processing phenotype [ENSG00000093072.11] [7/8] 443s * #variants in cis = 5293 444s * Best hit: [id=22_17699630, d=3249, pv=0.000578649, s=0.6404] 444s * Beta parameters: [s1=0.957514, s2=559.397] 444s * Adjusted p-values: [emp=0.574426, beta=0.562826] 444s 444s Processing phenotype [ENSG00000099954.14] [8/8] 444s * #variants in cis = 5435 445s * Best hit: [id=22_17175937, d=-664900, pv=0.000866455, s=0.0067] 445s * Beta parameters: [s1=0.938041, s2=226.852] 445s * Adjusted p-values: [emp=0.842158, beta=0.84836] 445s 445s Running time: 10 seconds 445s 445s QTLtools 445s * Authors : Olivier DELANEAU / Halit ONGEN / Emmanouil DERMITZAKIS 445s * Contact : olivier.delaneau@gmail.com / halit.ongen@unige.ch / Emmanouil.Dermitzakis@unige.ch 445s * Webpage : https://qtltools.github.io/qtltools/ 445s * Version : 1.3.1 445s * Date : 16/02/2024 - 05:36:51 445s * Citation: A complete tool set for molecular QTL discovery and analysis, https://doi.org/10.1038/ncomms15452 445s 445s MAPPING QTL IN TRANS 445s * TASK: Perform a full nominal pass, do not adjust p-values 445s * Cis-window size is 5000000 bp 445s * #bins = 1000 445s * threshold = 1e-05 445s 445s Initialize random number generator 445s * Built-in seed is 15112011 445s * First Integer = 30553 445s * First Double = 0.0126695 445s 445s Read sample list from [genotypes.chr22.vcf.gz] 445s * #samples = 358 445s 445s Checking sample list in [genes.simulated.chr22.bed.gz] 445s * #samples = 358 445s 445s Reading phenotype data in [genes.simulated.chr22.bed.gz] from line 0 to 0 445s * 358 samples included 445s * 608 phenotypes included 445s * 275 phenotypes is on the negative strand 445s 445s Calculate correlation threshold 445s * thres = 1e-05 445s * corr = 0.2311 445s 445s Sweep through genotype data in [genotypes.chr22.vcf.gz] 446s * #variants=1950 #multi_allelic=0 #not_processed=0 #hits=101/1000000 speed=3.68MT/s 446s * #variants=4001 #multi_allelic=0 #not_processed=0 #hits=153/2000000 speed=3.64MT/s 446s * #variants=6187 #multi_allelic=0 #not_processed=0 #hits=244/3000000 speed=3.58MT/s 446s * #variants=8537 #multi_allelic=0 #not_processed=0 #hits=285/4000000 speed=3.52MT/s 447s * #variants=11025 #multi_allelic=0 #not_processed=0 #hits=312/5000000 speed=3.47MT/s 447s * #variants=13621 #multi_allelic=0 #not_processed=0 #hits=320/6000000 speed=3.44MT/s 447s * #variants=16217 #multi_allelic=0 #not_processed=0 #hits=342/7000000 speed=3.45MT/s 448s * #variants=18755 #multi_allelic=0 #not_processed=0 #hits=401/8000000 speed=3.45MT/s 448s * #variants=21237 #multi_allelic=0 #not_processed=0 #hits=402/9000000 speed=3.47MT/s 448s * #variants=23680 #multi_allelic=0 #not_processed=0 #hits=455/10000000 speed=3.48MT/s 448s * #variants=26171 #multi_allelic=0 #not_processed=0 #hits=463/11000000 speed=3.47MT/s 449s * #variants=28609 #multi_allelic=0 #not_processed=0 #hits=469/12000000 speed=3.48MT/s 449s * #variants=30861 #multi_allelic=0 #not_processed=0 #hits=973/13000000 speed=3.52MT/s 449s * #variants=32932 #multi_allelic=0 #not_processed=0 #hits=979/14000000 speed=3.62MT/s 450s * #variants=34974 #multi_allelic=0 #not_processed=0 #hits=1085/15000000 speed=3.62MT/s 450s * #variants=37021 #multi_allelic=0 #not_processed=0 #hits=1086/16000000 speed=3.62MT/s 450s * #variants=39122 #multi_allelic=0 #not_processed=0 #hits=1089/17000000 speed=3.57MT/s 450s * #variants=41334 #multi_allelic=0 #not_processed=0 #hits=1089/18000000 speed=3.53MT/s 451s * #variants=43627 #multi_allelic=0 #not_processed=0 #hits=1096/19000000 speed=3.53MT/s 451s * #variants=45897 #multi_allelic=0 #not_processed=0 #hits=1153/20000000 speed=3.53MT/s 451s * #variants=48114 #multi_allelic=0 #not_processed=0 #hits=1243/21000000 speed=3.56MT/s 451s * #variants=50410 #multi_allelic=0 #not_processed=0 #hits=1249/22000000 speed=3.53MT/s 452s * #variants=52820 #multi_allelic=0 #not_processed=0 #hits=1259/23000000 speed=3.48MT/s 452s * #variants=55279 #multi_allelic=0 #not_processed=0 #hits=1498/24000000 speed=3.41MT/s 452s * #variants=57789 #multi_allelic=0 #not_processed=0 #hits=1724/25000000 speed=3.44MT/s 453s * #variants=60201 #multi_allelic=0 #not_processed=0 #hits=2168/26000000 speed=3.46MT/s 453s * #variants=62476 #multi_allelic=0 #not_processed=0 #hits=2452/27000000 speed=3.52MT/s 453s * #variants=64608 #multi_allelic=0 #not_processed=0 #hits=2544/28000000 speed=3.60MT/s 453s * #variants=66709 #multi_allelic=0 #not_processed=0 #hits=2684/29000000 speed=3.60MT/s 454s * #variants=68871 #multi_allelic=0 #not_processed=0 #hits=2688/30000000 speed=3.60MT/s 454s * #variants=71070 #multi_allelic=0 #not_processed=0 #hits=2720/31000000 speed=3.57MT/s 454s * #variants=73151 #multi_allelic=0 #not_processed=0 #hits=2891/32000000 speed=3.60MT/s 455s * #variants=75122 #multi_allelic=0 #not_processed=0 #hits=3110/33000000 speed=3.64MT/s 455s * #variants=77058 #multi_allelic=0 #not_processed=0 #hits=3209/34000000 speed=3.68MT/s 455s * #variants=78989 #multi_allelic=0 #not_processed=0 #hits=3218/35000000 speed=3.68MT/s 455s * #variants=80903 #multi_allelic=0 #not_processed=0 #hits=3250/36000000 speed=3.64MT/s 456s * #variants=82811 #multi_allelic=0 #not_processed=0 #hits=3463/37000000 speed=3.64MT/s 456s * #variants=84694 #multi_allelic=0 #not_processed=0 #hits=4035/38000000 speed=3.65MT/s 456s * #variants=85485 #multi_allelic=0 #not_processed=0 #hits=4036/38425275 speed=3.70MT/s 456s 456s Running time: 10 seconds 456s 456s QTLtools 456s * Authors : Olivier DELANEAU / Halit ONGEN / Emmanouil DERMITZAKIS 456s * Contact : olivier.delaneau@gmail.com / halit.ongen@unige.ch / Emmanouil.Dermitzakis@unige.ch 456s * Webpage : https://qtltools.github.io/qtltools/ 456s * Version : 1.3.1 456s * Date : 16/02/2024 - 05:37:02 456s * Citation: A complete tool set for molecular QTL discovery and analysis, https://doi.org/10.1038/ncomms15452 456s 456s MAPPING QTL IN TRANS 456s * TASK: Permute randomly chosen phenotypes 1000 times and test 456s * Cis-window size is 5000000 bp 456s * #bins = 1000 456s * threshold = 1e-05 456s 456s Initialize random number generator 456s * Built-in seed is 15112011 456s * First Integer = 30553 456s * First Double = 0.0126695 456s 456s Read sample list from [genotypes.chr22.vcf.gz] 456s * #samples = 358 456s 456s Checking sample list in [genes.simulated.chr22.bed.gz] 456s * #samples = 358 456s 456s Reading phenotype data in [genes.simulated.chr22.bed.gz] from line 0 to 0 456s * 358 samples included 456s * 608 phenotypes included 456s * 275 phenotypes is on the negative strand 456s 456s Normal transform phenotypes 456s 456s Calculate correlation threshold 456s * thres = 1e-05 456s * corr = 0.2311 456s 456s Sweep through genotype data in [genotypes.chr22.vcf.gz] 456s * #variants=1177 #multi_allelic=0 #not_processed=0 #hits=28/1000000 speed=3.85MT/s 457s * #variants=2383 #multi_allelic=0 #not_processed=0 #hits=38/2000000 speed=3.85MT/s 457s * #variants=3633 #multi_allelic=0 #not_processed=0 #hits=53/3000000 speed=3.79MT/s 457s * #variants=4928 #multi_allelic=0 #not_processed=0 #hits=53/4000000 speed=3.77MT/s 458s * #variants=6269 #multi_allelic=0 #not_processed=0 #hits=71/5000000 speed=3.73MT/s 458s * #variants=7675 #multi_allelic=0 #not_processed=0 #hits=72/6000000 speed=3.68MT/s 458s * #variants=9151 #multi_allelic=0 #not_processed=0 #hits=88/7000000 speed=3.64MT/s 458s * #variants=10663 #multi_allelic=0 #not_processed=0 #hits=96/8000000 speed=3.60MT/s 459s * #variants=12202 #multi_allelic=0 #not_processed=0 #hits=96/9000000 speed=3.56MT/s 459s * #variants=13804 #multi_allelic=0 #not_processed=0 #hits=96/10000000 speed=3.53MT/s 459s * #variants=15381 #multi_allelic=0 #not_processed=0 #hits=120/11000000 speed=3.53MT/s 460s * #variants=16946 #multi_allelic=0 #not_processed=0 #hits=123/12000000 speed=3.52MT/s 460s * #variants=18483 #multi_allelic=0 #not_processed=0 #hits=129/13000000 speed=3.56MT/s 460s * #variants=19995 #multi_allelic=0 #not_processed=0 #hits=131/14000000 speed=3.56MT/s 460s * #variants=21489 #multi_allelic=0 #not_processed=0 #hits=132/15000000 speed=3.58MT/s 461s * #variants=22947 #multi_allelic=0 #not_processed=0 #hits=151/16000000 speed=3.62MT/s 461s * #variants=24445 #multi_allelic=0 #not_processed=0 #hits=168/17000000 speed=3.58MT/s 461s * #variants=25965 #multi_allelic=0 #not_processed=0 #hits=175/18000000 speed=3.52MT/s 461s * #variants=27472 #multi_allelic=0 #not_processed=0 #hits=179/19000000 speed=3.58MT/s 462s * #variants=28933 #multi_allelic=0 #not_processed=0 #hits=181/20000000 speed=3.62MT/s 462s * #variants=30325 #multi_allelic=0 #not_processed=0 #hits=181/21000000 speed=3.68MT/s 462s * #variants=31617 #multi_allelic=0 #not_processed=0 #hits=182/22000000 speed=3.76MT/s 463s * #variants=32875 #multi_allelic=0 #not_processed=0 #hits=190/23000000 speed=3.79MT/s 463s * #variants=34127 #multi_allelic=0 #not_processed=0 #hits=192/24000000 speed=3.79MT/s 463s * #variants=35392 #multi_allelic=0 #not_processed=0 #hits=206/25000000 speed=3.79MT/s 463s * #variants=36652 #multi_allelic=0 #not_processed=0 #hits=206/26000000 speed=3.79MT/s 464s * #variants=37940 #multi_allelic=0 #not_processed=0 #hits=213/27000000 speed=3.76MT/s 464s * #variants=39255 #multi_allelic=0 #not_processed=0 #hits=238/28000000 speed=3.72MT/s 464s * #variants=40602 #multi_allelic=0 #not_processed=0 #hits=239/29000000 speed=3.70MT/s 464s * #variants=41998 #multi_allelic=0 #not_processed=0 #hits=245/30000000 speed=3.66MT/s 465s * #variants=43398 #multi_allelic=0 #not_processed=0 #hits=245/31000000 speed=3.68MT/s 465s * #variants=44803 #multi_allelic=0 #not_processed=0 #hits=260/32000000 speed=3.66MT/s 465s * #variants=46187 #multi_allelic=0 #not_processed=0 #hits=261/33000000 speed=3.69MT/s 466s * #variants=47545 #multi_allelic=0 #not_processed=0 #hits=268/34000000 speed=3.70MT/s 466s * #variants=48904 #multi_allelic=0 #not_processed=0 #hits=280/35000000 speed=3.69MT/s 466s * #variants=50309 #multi_allelic=0 #not_processed=0 #hits=306/36000000 speed=3.66MT/s 466s * #variants=51731 #multi_allelic=0 #not_processed=0 #hits=314/37000000 speed=3.66MT/s 467s * #variants=53171 #multi_allelic=0 #not_processed=0 #hits=320/38000000 speed=3.64MT/s 467s * #variants=54621 #multi_allelic=0 #not_processed=0 #hits=323/39000000 speed=3.65MT/s 467s * #variants=56099 #multi_allelic=0 #not_processed=0 #hits=323/40000000 speed=3.64MT/s 467s * #variants=57584 #multi_allelic=0 #not_processed=0 #hits=340/41000000 speed=3.61MT/s 468s * #variants=59032 #multi_allelic=0 #not_processed=0 #hits=344/42000000 speed=3.65MT/s 468s * #variants=60437 #multi_allelic=0 #not_processed=0 #hits=345/43000000 speed=3.68MT/s 468s * #variants=61810 #multi_allelic=0 #not_processed=0 #hits=357/44000000 speed=3.69MT/s 469s * #variants=63129 #multi_allelic=0 #not_processed=0 #hits=384/45000000 speed=3.73MT/s 469s * #variants=64409 #multi_allelic=0 #not_processed=0 #hits=391/46000000 speed=3.77MT/s 469s * #variants=65679 #multi_allelic=0 #not_processed=0 #hits=430/47000000 speed=3.79MT/s 469s * #variants=66953 #multi_allelic=0 #not_processed=0 #hits=436/48000000 speed=3.77MT/s 470s * #variants=68247 #multi_allelic=0 #not_processed=0 #hits=446/49000000 speed=3.76MT/s 470s * #variants=69595 #multi_allelic=0 #not_processed=0 #hits=460/50000000 speed=3.72MT/s 470s * #variants=70918 #multi_allelic=0 #not_processed=0 #hits=481/51000000 speed=3.73MT/s 470s * #variants=72211 #multi_allelic=0 #not_processed=0 #hits=492/52000000 speed=3.76MT/s 471s * #variants=73449 #multi_allelic=0 #not_processed=0 #hits=492/53000000 speed=3.82MT/s 471s * #variants=74662 #multi_allelic=0 #not_processed=0 #hits=500/54000000 speed=3.82MT/s 471s * #variants=75863 #multi_allelic=0 #not_processed=0 #hits=506/55000000 speed=3.85MT/s 471s * #variants=77058 #multi_allelic=0 #not_processed=0 #hits=513/56000000 speed=3.83MT/s 472s * #variants=78253 #multi_allelic=0 #not_processed=0 #hits=515/57000000 speed=3.85MT/s 472s * #variants=79446 #multi_allelic=0 #not_processed=0 #hits=530/58000000 speed=3.86MT/s 472s * #variants=80634 #multi_allelic=0 #not_processed=0 #hits=581/59000000 speed=3.86MT/s 472s * #variants=81817 #multi_allelic=0 #not_processed=0 #hits=594/60000000 speed=3.86MT/s 473s * #variants=82993 #multi_allelic=0 #not_processed=0 #hits=598/61000000 speed=3.88MT/s 473s * #variants=84160 #multi_allelic=0 #not_processed=0 #hits=599/62000000 speed=3.88MT/s 473s * #variants=85304 #multi_allelic=0 #not_processed=0 #hits=609/63000000 speed=3.89MT/s 473s * #variants=85485 #multi_allelic=0 #not_processed=0 #hits=609/63157827 speed=3.95MT/s 473s 473s Running time: 17 seconds 474s autopkgtest [05:37:20]: test run-sample-analysis: -----------------------] 474s run-sample-analysis PASS 474s autopkgtest [05:37:20]: test run-sample-analysis: - - - - - - - - - - results - - - - - - - - - - 475s autopkgtest [05:37:21]: @@@@@@@@@@@@@@@@@@@@ summary 475s run-sample-analysis PASS 489s Creating nova instance adt-noble-ppc64el-qtltools-20240216-052925-juju-7f2275-prod-proposed-migration-environment-2 from image adt/ubuntu-noble-ppc64el-server-20240215.img (UUID be98a8c3-e59c-434c-a732-d89f369ee394)...