0s autopkgtest [11:51:51]: starting date: 2024-03-13 0s autopkgtest [11:51:51]: git checkout: d9c0295 adt_testbed.py: supress warnings from apt using a shell pipeline 0s autopkgtest [11:51:51]: host juju-7f2275-prod-proposed-migration-environment-2; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work.18g1io9l/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:perl,src:db5.3,src:gdbm,src:mmdebstrap --apt-upgrade pique --timeout-short=300 --timeout-copy=20000 --timeout-build=20000 '--env=ADT_TEST_TRIGGERS=perl/5.38.2-3.2 db5.3/5.3.28+dfsg2-5 gdbm/1.23-5.1 mmdebstrap/1.4.3-6' -- ssh -s /home/ubuntu/autopkgtest/ssh-setup/nova -- --flavor autopkgtest --security-groups autopkgtest-juju-7f2275-prod-proposed-migration-environment-2@bos01-ppc64el-1.secgroup --name adt-noble-ppc64el-pique-20240313-115151-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/ 110s autopkgtest [11:53:41]: @@@@@@@@@@@@@@@@@@@@ test bed setup 110s Get:1 http://ftpmaster.internal/ubuntu noble-proposed InRelease [117 kB] 111s Get:2 http://ftpmaster.internal/ubuntu noble-proposed/multiverse Sources [40.4 kB] 111s Get:3 http://ftpmaster.internal/ubuntu noble-proposed/main Sources [448 kB] 111s Get:4 http://ftpmaster.internal/ubuntu noble-proposed/restricted Sources [4812 B] 111s Get:5 http://ftpmaster.internal/ubuntu noble-proposed/universe Sources [2754 kB] 111s Get:6 http://ftpmaster.internal/ubuntu noble-proposed/main ppc64el Packages [594 kB] 111s Get:7 http://ftpmaster.internal/ubuntu noble-proposed/main ppc64el c-n-f Metadata [3116 B] 111s Get:8 http://ftpmaster.internal/ubuntu noble-proposed/restricted ppc64el Packages [1372 B] 111s Get:9 http://ftpmaster.internal/ubuntu noble-proposed/restricted ppc64el c-n-f Metadata [116 B] 111s Get:10 http://ftpmaster.internal/ubuntu noble-proposed/universe ppc64el Packages [3111 kB] 111s Get:11 http://ftpmaster.internal/ubuntu noble-proposed/universe ppc64el c-n-f Metadata [8652 B] 111s Get:12 http://ftpmaster.internal/ubuntu noble-proposed/multiverse ppc64el Packages [39.1 kB] 111s Get:13 http://ftpmaster.internal/ubuntu noble-proposed/multiverse ppc64el c-n-f Metadata [116 B] 114s Fetched 7121 kB in 2s (3754 kB/s) 114s Reading package lists... 119s Reading package lists... 119s Building dependency tree... 119s Reading state information... 119s Calculating upgrade... 119s The following packages were automatically installed and are no longer required: 119s libgdbm-compat4t64 libperl5.38 lto-disabled-list make perl-modules-5.38 119s Use 'sudo apt autoremove' to remove them. 119s The following packages will be REMOVED: 119s dpkg-dev libdpkg-perl libgdbm-compat4 libgdbm6 perl 119s The following NEW packages will be installed: 119s libgdbm-compat4t64 libgdbm6t64 119s The following packages have been kept back: 119s libperl5.38 119s The following packages will be upgraded: 120s cloud-init gdisk perl-base perl-modules-5.38 120s 4 upgraded, 2 newly installed, 5 to remove and 1 not upgraded. 120s Need to get 5932 kB of archives. 120s After this operation, 4151 kB disk space will be freed. 120s Get:1 http://ftpmaster.internal/ubuntu noble-proposed/main ppc64el perl-base ppc64el 5.38.2-3.2 [1916 kB] 120s Get:2 http://ftpmaster.internal/ubuntu noble-proposed/main ppc64el libgdbm6t64 ppc64el 1.23-5.1 [41.9 kB] 120s Get:3 http://ftpmaster.internal/ubuntu noble-proposed/main ppc64el libgdbm-compat4t64 ppc64el 1.23-5.1 [6972 B] 120s Get:4 http://ftpmaster.internal/ubuntu noble-proposed/main ppc64el perl-modules-5.38 all 5.38.2-3.2 [3110 kB] 121s Get:5 http://ftpmaster.internal/ubuntu noble/main ppc64el cloud-init all 24.1.1-0ubuntu1 [597 kB] 121s Get:6 http://ftpmaster.internal/ubuntu noble/main ppc64el gdisk ppc64el 1.0.10-1 [260 kB] 121s Preconfiguring packages ... 121s Fetched 5932 kB in 1s (4346 kB/s) 121s (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 ... 70112 files and directories currently installed.) 121s Removing dpkg-dev (1.22.4ubuntu5) ... 121s Removing libdpkg-perl (1.22.4ubuntu5) ... 122s Removing perl (5.38.2-3) ... 122s (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 ... 69531 files and directories currently installed.) 122s Preparing to unpack .../perl-base_5.38.2-3.2_ppc64el.deb ... 122s Unpacking perl-base (5.38.2-3.2) over (5.38.2-3) ... 122s Setting up perl-base (5.38.2-3.2) ... 122s dpkg: libgdbm6:ppc64el: dependency problems, but removing anyway as you requested: 122s python3-gdbm:ppc64el depends on libgdbm6 (>= 1.16). 122s man-db depends on libgdbm6 (>= 1.16). 122s libperl5.38:ppc64el depends on libgdbm6 (>= 1.21). 122s libgdbm-compat4:ppc64el depends on libgdbm6 (>= 1.16). 122s 122s (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 ... 69531 files and directories currently installed.) 122s Removing libgdbm6:ppc64el (1.23-5) ... 122s Selecting previously unselected package libgdbm6t64:ppc64el. 122s (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 ... 69526 files and directories currently installed.) 122s Preparing to unpack .../libgdbm6t64_1.23-5.1_ppc64el.deb ... 122s Unpacking libgdbm6t64:ppc64el (1.23-5.1) ... 122s dpkg: libgdbm-compat4:ppc64el: dependency problems, but removing anyway as you requested: 122s libperl5.38:ppc64el depends on libgdbm-compat4 (>= 1.18-3). 122s 122s (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 ... 69532 files and directories currently installed.) 122s Removing libgdbm-compat4:ppc64el (1.23-5) ... 122s Selecting previously unselected package libgdbm-compat4t64:ppc64el. 122s (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 ... 69527 files and directories currently installed.) 122s Preparing to unpack .../libgdbm-compat4t64_1.23-5.1_ppc64el.deb ... 122s Unpacking libgdbm-compat4t64:ppc64el (1.23-5.1) ... 122s Preparing to unpack .../perl-modules-5.38_5.38.2-3.2_all.deb ... 122s Unpacking perl-modules-5.38 (5.38.2-3.2) over (5.38.2-3) ... 122s Preparing to unpack .../cloud-init_24.1.1-0ubuntu1_all.deb ... 123s Unpacking cloud-init (24.1.1-0ubuntu1) over (24.1-0ubuntu1) ... 123s Preparing to unpack .../gdisk_1.0.10-1_ppc64el.deb ... 123s Unpacking gdisk (1.0.10-1) over (1.0.9-2.1) ... 123s Setting up cloud-init (24.1.1-0ubuntu1) ... 124s Setting up libgdbm6t64:ppc64el (1.23-5.1) ... 124s Setting up libgdbm-compat4t64:ppc64el (1.23-5.1) ... 124s Setting up gdisk (1.0.10-1) ... 124s Setting up perl-modules-5.38 (5.38.2-3.2) ... 124s Processing triggers for rsyslog (8.2312.0-3ubuntu3) ... 124s Processing triggers for man-db (2.12.0-3) ... 126s Processing triggers for libc-bin (2.39-0ubuntu2) ... 126s 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 126s 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 126s 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 126s 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 126s 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 126s 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 126s 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 126s 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 126s 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 126s 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 126s 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 126s 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 126s 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 126s 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 126s 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 126s 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 126s 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 126s 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 126s 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 126s 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 126s 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 126s 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 126s 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 126s 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 126s 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 126s 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 126s 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 126s 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 126s 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 126s 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 126s 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 126s 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 126s 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 126s 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 126s 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 126s 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 126s 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 126s 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 126s 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 126s 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 126s 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 126s 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 126s 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 126s 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 126s 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 126s 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 126s 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 126s 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 126s Reading package lists... 126s Building dependency tree... 126s Reading state information... 126s The following packages will be REMOVED: 126s libgdbm-compat4t64* libperl5.38* lto-disabled-list* make* perl-modules-5.38* 126s 0 upgraded, 0 newly installed, 5 to remove and 0 not upgraded. 126s After this operation, 53.0 MB disk space will be freed. 127s (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 ... 69533 files and directories currently installed.) 127s Removing libperl5.38:ppc64el (5.38.2-3) ... 127s Removing libgdbm-compat4t64:ppc64el (1.23-5.1) ... 127s Removing lto-disabled-list (47) ... 127s Removing make (4.3-4.1build1) ... 127s Removing perl-modules-5.38 (5.38.2-3.2) ... 127s Processing triggers for man-db (2.12.0-3) ... 127s Processing triggers for libc-bin (2.39-0ubuntu2) ... 128s sh: Attempting to set up Debian/Ubuntu apt sources automatically 128s sh: Distribution appears to be Ubuntu 131s Reading package lists... 132s Building dependency tree... 132s Reading state information... 132s eatmydata is already the newest version (131-1). 132s dbus is already the newest version (1.14.10-4ubuntu1). 132s dbus set to manually installed. 132s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 132s 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 132s 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 132s 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 132s 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 132s 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 132s 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 132s 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 132s 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 132s 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 132s 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 132s 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 132s 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 132s 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 132s 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 132s 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 132s 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 132s 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 132s 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 132s 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 132s 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 132s 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 132s 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 132s 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 132s 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 132s 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 132s 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 132s 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 132s 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 132s 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 132s 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 132s 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 132s 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 132s 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 132s 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 132s 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 132s 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 132s 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 132s 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 132s 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 132s 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 132s 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 132s 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 132s 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 132s 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 132s 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 132s 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 132s 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 132s 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 132s Reading package lists... 132s Building dependency tree... 132s Reading state information... 132s rng-tools-debian is already the newest version (2.4). 132s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 132s Reading package lists... 133s Building dependency tree... 133s Reading state information... 133s haveged is already the newest version (1.9.14-1ubuntu1). 133s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 133s Reading package lists... 133s Building dependency tree... 133s Reading state information... 133s The following additional packages will be installed: 133s libdb5.3t64 libdpkg-perl libgdbm-compat4t64 libperl5.38t64 lto-disabled-list 133s make perl perl-modules-5.38 133s Suggested packages: 133s debian-keyring gcc | c-compiler git bzr make-doc perl-doc 133s libterm-readline-gnu-perl | libterm-readline-perl-perl 133s libtap-harness-archive-perl 133s Recommended packages: 133s build-essential gcc | c-compiler fakeroot libalgorithm-merge-perl 133s libfile-fcntllock-perl 133s The following packages will be REMOVED: 133s libdb5.3 133s The following NEW packages will be installed: 133s dpkg-dev libdb5.3t64 libdpkg-perl libgdbm-compat4t64 libperl5.38t64 133s lto-disabled-list make perl perl-modules-5.38 133s 0 upgraded, 9 newly installed, 1 to remove and 0 not upgraded. 133s Need to get 7626 kB/10.7 MB of archives. 133s After this operation, 57.2 MB of additional disk space will be used. 133s Get:1 http://ftpmaster.internal/ubuntu noble-proposed/main ppc64el libdb5.3t64 ppc64el 5.3.28+dfsg2-5build1 [868 kB] 134s Get:2 http://ftpmaster.internal/ubuntu noble-proposed/main ppc64el libperl5.38t64 ppc64el 5.38.2-3.2 [4957 kB] 134s Get:3 http://ftpmaster.internal/ubuntu noble-proposed/main ppc64el perl ppc64el 5.38.2-3.2 [231 kB] 134s Get:4 http://ftpmaster.internal/ubuntu noble/main ppc64el libdpkg-perl all 1.22.4ubuntu5 [268 kB] 134s Get:5 http://ftpmaster.internal/ubuntu noble/main ppc64el make ppc64el 4.3-4.1build1 [211 kB] 134s Get:6 http://ftpmaster.internal/ubuntu noble/main ppc64el lto-disabled-list all 47 [12.4 kB] 134s Get:7 http://ftpmaster.internal/ubuntu noble/main ppc64el dpkg-dev all 1.22.4ubuntu5 [1078 kB] 135s Fetched 7626 kB in 1s (5743 kB/s) 135s dpkg: libdb5.3:ppc64el: dependency problems, but removing anyway as you requested: 135s libsasl2-modules-db:ppc64el depends on libdb5.3. 135s libpython3.12-stdlib:ppc64el depends on libdb5.3. 135s libpython3.11-stdlib:ppc64el depends on libdb5.3. 135s libpam-modules:ppc64el depends on libdb5.3. 135s iproute2 depends on libdb5.3. 135s apt-utils depends on libdb5.3. 135s 135s (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 ... 67568 files and directories currently installed.) 135s Removing libdb5.3:ppc64el (5.3.28+dfsg2-4) ... 135s Selecting previously unselected package libdb5.3t64:ppc64el. 135s (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 ... 67562 files and directories currently installed.) 135s Preparing to unpack .../libdb5.3t64_5.3.28+dfsg2-5build1_ppc64el.deb ... 135s Unpacking libdb5.3t64:ppc64el (5.3.28+dfsg2-5build1) ... 135s Setting up libdb5.3t64:ppc64el (5.3.28+dfsg2-5build1) ... 135s Selecting previously unselected package perl-modules-5.38. 135s (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 ... 67568 files and directories currently installed.) 135s Preparing to unpack .../0-perl-modules-5.38_5.38.2-3.2_all.deb ... 135s Unpacking perl-modules-5.38 (5.38.2-3.2) ... 136s Selecting previously unselected package libgdbm-compat4t64:ppc64el. 136s Preparing to unpack .../1-libgdbm-compat4t64_1.23-5.1_ppc64el.deb ... 136s Unpacking libgdbm-compat4t64:ppc64el (1.23-5.1) ... 136s Selecting previously unselected package libperl5.38t64:ppc64el. 136s Preparing to unpack .../2-libperl5.38t64_5.38.2-3.2_ppc64el.deb ... 136s Unpacking libperl5.38t64:ppc64el (5.38.2-3.2) ... 136s Selecting previously unselected package perl. 136s Preparing to unpack .../3-perl_5.38.2-3.2_ppc64el.deb ... 136s Unpacking perl (5.38.2-3.2) ... 136s Selecting previously unselected package libdpkg-perl. 136s Preparing to unpack .../4-libdpkg-perl_1.22.4ubuntu5_all.deb ... 136s Unpacking libdpkg-perl (1.22.4ubuntu5) ... 136s Selecting previously unselected package make. 136s Preparing to unpack .../5-make_4.3-4.1build1_ppc64el.deb ... 136s Unpacking make (4.3-4.1build1) ... 136s Selecting previously unselected package lto-disabled-list. 136s Preparing to unpack .../6-lto-disabled-list_47_all.deb ... 136s Unpacking lto-disabled-list (47) ... 136s Selecting previously unselected package dpkg-dev. 136s Preparing to unpack .../7-dpkg-dev_1.22.4ubuntu5_all.deb ... 136s Unpacking dpkg-dev (1.22.4ubuntu5) ... 136s Setting up lto-disabled-list (47) ... 136s Setting up libgdbm-compat4t64:ppc64el (1.23-5.1) ... 136s Setting up make (4.3-4.1build1) ... 136s Setting up perl-modules-5.38 (5.38.2-3.2) ... 136s Setting up libperl5.38t64:ppc64el (5.38.2-3.2) ... 136s Setting up perl (5.38.2-3.2) ... 136s Setting up libdpkg-perl (1.22.4ubuntu5) ... 136s Setting up dpkg-dev (1.22.4ubuntu5) ... 136s Processing triggers for man-db (2.12.0-3) ... 137s Processing triggers for libc-bin (2.39-0ubuntu2) ... 137s Reading package lists... 137s Building dependency tree... 137s Reading state information... 138s The following packages will be REMOVED: 138s cloud-init* python3-configobj* python3-debconf* 138s 0 upgraded, 0 newly installed, 3 to remove and 0 not upgraded. 138s After this operation, 3252 kB disk space will be freed. 138s (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 ... 70114 files and directories currently installed.) 138s Removing cloud-init (24.1.1-0ubuntu1) ... 138s Removing python3-configobj (5.0.8-3) ... 138s Removing python3-debconf (1.5.86) ... 138s Processing triggers for man-db (2.12.0-3) ... 139s (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 ... 69725 files and directories currently installed.) 139s Purging configuration files for cloud-init (24.1.1-0ubuntu1) ... 139s dpkg: warning: while removing cloud-init, directory '/etc/cloud/cloud.cfg.d' not empty so not removed 139s Processing triggers for rsyslog (8.2312.0-3ubuntu3) ... 140s Reading package lists... 140s Building dependency tree... 140s Reading state information... 140s linux-generic is already the newest version (6.8.0-11.11+1). 140s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 141s Hit:1 http://ftpmaster.internal/ubuntu noble InRelease 141s Hit:2 http://ftpmaster.internal/ubuntu noble-updates InRelease 141s Hit:3 http://ftpmaster.internal/ubuntu noble-security InRelease 141s Hit:4 http://ftpmaster.internal/ubuntu noble-proposed InRelease 141s Hit:5 http://ftpmaster.internal/ubuntu noble-backports InRelease 145s Reading package lists... 145s 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 145s 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 145s 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 145s 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 145s 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 145s 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 145s 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 145s 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 145s 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 145s 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 145s 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 145s 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 145s 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 145s 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 145s 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 145s 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 145s 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 145s 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 145s 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 145s 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 145s 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 145s 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 145s 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 145s 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 145s 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 145s 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 145s 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 145s 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 145s 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 145s 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 145s 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 145s 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 145s 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 145s 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 145s 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 145s 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 145s 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 145s 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 145s 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 145s 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 145s 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 145s 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 145s 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 145s 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 145s 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 145s 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 145s 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 145s 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 145s 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 145s 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 145s 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 145s 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 145s 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 145s 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 145s 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 145s 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 145s 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 145s 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 145s 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 145s 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 145s 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 145s 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 145s 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 145s 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 145s 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 145s 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 145s 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 145s 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 145s 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 145s 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 145s 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 145s 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 145s 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 145s 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 145s 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 145s 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 145s 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 145s 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 145s 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 145s 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 145s 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 145s 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 145s 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 145s 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 145s 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 145s 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 145s 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 145s 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 145s 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 145s 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 145s 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 145s 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 145s 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 145s 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 145s 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 145s 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 145s Reading package lists... 145s Building dependency tree... 145s Reading state information... 145s Calculating upgrade... 145s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 146s Reading package lists... 146s Building dependency tree... 146s Reading state information... 146s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 146s autopkgtest [11:54:17]: rebooting testbed after setup commands that affected boot 303s autopkgtest [11:56:54]: testbed running kernel: Linux 6.8.0-11-generic #11-Ubuntu SMP Wed Feb 14 00:33:03 UTC 2024 304s autopkgtest [11:56:55]: testbed dpkg architecture: ppc64el 305s autopkgtest [11:56:56]: @@@@@@@@@@@@@@@@@@@@ apt-source pique 305s 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 305s 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 305s 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 306s 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 306s 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 306s 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 306s 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 306s 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 306s 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 306s 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 306s 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 306s 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 306s 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 306s 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 306s 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 306s 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 306s 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 306s 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 306s 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 306s 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 306s 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 306s 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 306s 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 306s 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 306s 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 306s 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 306s 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 306s 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 306s 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 306s 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 306s 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 306s 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 306s 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 306s 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 306s 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 306s 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 306s 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 306s 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 306s 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 306s 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 306s 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 306s 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 306s 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 306s 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 306s 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 306s 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 306s 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 306s 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 307s Get:1 http://ftpmaster.internal/ubuntu noble/universe pique 1.0-7 (dsc) [2005 B] 307s Get:2 http://ftpmaster.internal/ubuntu noble/universe pique 1.0-7 (tar) [2017 kB] 307s Get:3 http://ftpmaster.internal/ubuntu noble/universe pique 1.0-7 (diff) [5236 B] 307s gpgv: Signature made Tue Dec 12 20:17:37 2023 UTC 307s gpgv: using RSA key F1F007320A035541F0A663CA578A0494D1C646D1 307s gpgv: issuer "tille@debian.org" 307s gpgv: Can't check signature: No public key 307s dpkg-source: warning: cannot verify inline signature for ./pique_1.0-7.dsc: no acceptable signature found 307s autopkgtest [11:56:58]: testing package pique version 1.0-7 307s autopkgtest [11:56:58]: build not needed 308s autopkgtest [11:56:59]: test run-unit-test: preparing testbed 310s Reading package lists... 310s Building dependency tree... 310s Reading state information... 310s Correcting dependencies...Starting pkgProblemResolver with broken count: 0 310s Starting 2 pkgProblemResolver with broken count: 0 310s Done 310s Done 311s Starting pkgProblemResolver with broken count: 0 311s Starting 2 pkgProblemResolver with broken count: 0 311s Done 311s The following additional packages will be installed: 311s eigensoft emmax fontconfig fontconfig-config fonts-dejavu-core 311s fonts-dejavu-mono fonts-font-awesome fonts-glyphicons-halflings 311s fonts-mathjax javascript-common libb-hooks-op-check-perl libblas3 libcairo2 311s libclass-method-modifiers-perl libclass-xsaccessor-perl libdatrie1 311s libdeflate0 libdevel-callchecker-perl libdynaloader-functions-perl 311s libfile-slurp-perl libfontconfig1 libgfortran5 libgomp1 libgraphite2-3 311s libgsl27 libgslcblas0 libharfbuzz0b libice6 libimport-into-perl libjbig0 311s libjpeg-turbo8 libjpeg8 libjs-bootstrap libjs-bootstrap4 libjs-d3 311s libjs-es5-shim libjs-highlight.js libjs-jquery libjs-jquery-datatables 311s libjs-jquery-selectize.js libjs-jquery-ui libjs-json libjs-mathjax 311s libjs-microplugin.js libjs-modernizr libjs-popper.js libjs-prettify 311s libjs-sifter.js libjs-twitter-bootstrap-datepicker liblapack3 liblapacke 311s liblerc4 libmodule-runtime-perl libmoo-perl libpango-1.0-0 311s libpangocairo-1.0-0 libpangoft2-1.0-0 libpaper-utils libpaper1 311s libparallel-forkmanager-perl libparams-classify-perl libpixman-1-0 311s libreadonly-perl librole-tiny-perl libsharpyuv0 libsm6 libsub-quote-perl 311s libtcl8.6 libthai-data libthai0 libtiff6 libtk8.6 libtmglib3 libwebp7 311s libxcb-render0 libxcb-shm0 libxft2 libxrender1 libxss1 libxt6 littler 311s node-bootstrap-sass node-html5shiv node-normalize.css pandoc pandoc-data 311s pique pique-doc plink r-base-core r-bioc-biobase r-bioc-biocgenerics 311s r-bioc-multtest r-cran-acepack r-cran-backports r-cran-base64enc 311s r-cran-bslib r-cran-cachem r-cran-checkmate r-cran-chron r-cran-cli 311s r-cran-cluster r-cran-colorspace r-cran-commonmark r-cran-cpp11 311s r-cran-crayon r-cran-curl r-cran-data.table r-cran-deldir r-cran-digest 311s r-cran-dplyr r-cran-ellipsis r-cran-evaluate r-cran-fansi r-cran-farver 311s r-cran-fastmap r-cran-fontawesome r-cran-forecast r-cran-foreign 311s r-cran-formula r-cran-fracdiff r-cran-fs r-cran-generics r-cran-getopt 311s r-cran-ggplot2 r-cran-glue r-cran-gridextra r-cran-gtable r-cran-highr 311s r-cran-hmisc r-cran-htmltable r-cran-htmltools r-cran-htmlwidgets 311s r-cran-httpuv r-cran-interp r-cran-isoband r-cran-jpeg r-cran-jquerylib 311s r-cran-jsonlite r-cran-knitr r-cran-labeling r-cran-later r-cran-lattice 311s r-cran-latticeextra r-cran-lifecycle r-cran-littler r-cran-lmtest 311s r-cran-magrittr r-cran-mass r-cran-matrix r-cran-memoise r-cran-mgcv 311s r-cran-mime r-cran-munsell r-cran-nlme r-cran-nnet r-cran-optparse 311s r-cran-pillar r-cran-pkgconfig r-cran-pkgkitten r-cran-png r-cran-promises 311s r-cran-purrr r-cran-quadprog r-cran-quantmod r-cran-r6 r-cran-rappdirs 311s r-cran-rcolorbrewer r-cran-rcpp r-cran-rcpparmadillo r-cran-rcppeigen 311s r-cran-rlang r-cran-rmarkdown r-cran-rpart r-cran-rstudioapi r-cran-sass 311s r-cran-scales r-cran-shiny r-cran-sourcetools r-cran-stringi r-cran-stringr 311s r-cran-survival r-cran-tibble r-cran-tidyr r-cran-tidyselect r-cran-timedate 311s r-cran-tinytex r-cran-tseries r-cran-ttr r-cran-urca r-cran-uroot 311s r-cran-utf8 r-cran-vctrs r-cran-viridis r-cran-viridislite r-cran-withr 311s r-cran-xfun r-cran-xtable r-cran-xts r-cran-yaml r-cran-zoo unzip x11-common 311s xdg-utils zip 311s Suggested packages: 311s apache2 | lighttpd | httpd gsl-ref-psdoc | gsl-doc-pdf | gsl-doc-info 311s | gsl-ref-html libjs-jquery-ui-docs fonts-mathjax-extras fonts-stix 311s libjs-mathjax-doc libscalar-number-perl libxstring-perl tcl8.6 tk8.6 nodejs 311s texlive-latex-recommended texlive-xetex texlive-luatex pandoc-citeproc 311s texlive-latex-extra context wkhtmltopdf librsvg2-bin groff ghc php python 311s ruby libjs-katex citation-style-language-styles elpa-ess r-doc-info 311s | r-doc-pdf r-mathlib r-base-html r-bioc-all r-cran-runit r-bioc-biocstyle 311s r-bioc-s4vectors r-bioc-iranges r-bioc-genomicranges r-bioc-delayedarray 311s r-bioc-biostrings r-bioc-rsamtools r-bioc-annotationdbi r-bioc-affy 311s r-bioc-deseq2 r-bioc-annotate r-cran-snow r-cran-kernsmooth r-cran-kernlab 311s r-cran-mvtnorm r-cran-vcd r-cran-shinyjs r-cran-polyclip r-cran-covr 311s r-cran-markdown r-cran-sp r-cran-scatterplot3d r-cran-magick r-cran-sf 311s r-cran-testthat r-cran-httr r-cran-bit64 r-cran-dbi r-cran-formattable 311s r-cran-nanotime r-cran-palmerpenguins r-cran-units r-cran-vdiffr 311s r-cran-roxygen2 r-cran-inline r-cran-bench r-cran-blob r-cran-brio 311s r-cran-callr r-cran-here r-cran-hms r-cran-pkgbuild r-cran-pkgload 311s r-cran-plm 311s Recommended packages: 311s gnuplot node-jquery libnamespace-clean-perl med-config r-recommended 311s r-base-dev r-doc-html r-cran-testthat r-cran-thematic r-cran-fastmatch 311s r-cran-devtools r-cran-tinytest r-cran-callr r-cran-covr r-cran-mockery 311s r-cran-processx r-cran-ps r-cran-rprojroot r-cran-whoami r-cran-xml2 311s r-cran-bench r-cran-brio r-cran-decor r-cran-desc r-cran-lobstr 311s r-cran-progress r-cran-spelling r-cran-webutils r-cran-bit64 r-cran-bit 311s r-cran-r.utils r-cran-nanotime r-cran-broom r-cran-dbi r-cran-dbplyr 311s r-cran-rmysql r-cran-rpostgresql r-cran-rsqlite r-cran-unitizer r-cran-rsvg 311s r-cran-pkgload r-cran-hexbin r-cran-mapproj r-cran-maps r-cran-multcomp 311s r-cran-profvis r-cran-quantreg r-cran-ragg r-cran-sf r-cran-svglite 311s r-cran-vdiffr r-cran-waldo r-cran-testit r-cran-cairo r-cran-markdown 311s r-cran-httr r-cran-r.rsp r-cran-codetools r-cran-formatr r-cran-gridsvg 311s r-cran-magick r-cran-reticulate r-cran-rgl r-cran-tikzdevice r-cran-webshot 311s node-highlight.js r-cran-lintr r-cran-tidyverse r-cran-lubridate 311s r-cran-future r-cran-usethis r-cran-dygraphs r-cran-rsconnect r-cran-downlit 311s r-cran-dichromat r-cran-hms r-cran-mockr r-cran-formattable r-cran-readr 311s r-cran-pkgdown r-cran-zeallot r-cran-remotes r-cran-renv r-cran-timeseries 311s r-cran-runit libfile-mimeinfo-perl libnet-dbus-perl libx11-protocol-perl 311s x11-utils x11-xserver-utils 311s The following NEW packages will be installed: 311s eigensoft emmax fontconfig fontconfig-config fonts-dejavu-core 311s fonts-dejavu-mono fonts-font-awesome fonts-glyphicons-halflings 311s fonts-mathjax javascript-common libb-hooks-op-check-perl libblas3 libcairo2 311s libclass-method-modifiers-perl libclass-xsaccessor-perl libdatrie1 311s libdeflate0 libdevel-callchecker-perl libdynaloader-functions-perl 311s libfile-slurp-perl libfontconfig1 libgfortran5 libgomp1 libgraphite2-3 311s libgsl27 libgslcblas0 libharfbuzz0b libice6 libimport-into-perl libjbig0 311s libjpeg-turbo8 libjpeg8 libjs-bootstrap libjs-bootstrap4 libjs-d3 311s libjs-es5-shim libjs-highlight.js libjs-jquery libjs-jquery-datatables 311s libjs-jquery-selectize.js libjs-jquery-ui libjs-json libjs-mathjax 311s libjs-microplugin.js libjs-modernizr libjs-popper.js libjs-prettify 311s libjs-sifter.js libjs-twitter-bootstrap-datepicker liblapack3 liblapacke 311s liblerc4 libmodule-runtime-perl libmoo-perl libpango-1.0-0 311s libpangocairo-1.0-0 libpangoft2-1.0-0 libpaper-utils libpaper1 311s libparallel-forkmanager-perl libparams-classify-perl libpixman-1-0 311s libreadonly-perl librole-tiny-perl libsharpyuv0 libsm6 libsub-quote-perl 311s libtcl8.6 libthai-data libthai0 libtiff6 libtk8.6 libtmglib3 libwebp7 311s libxcb-render0 libxcb-shm0 libxft2 libxrender1 libxss1 libxt6 littler 311s node-bootstrap-sass node-html5shiv node-normalize.css pandoc pandoc-data 311s pique pique-doc plink r-base-core r-bioc-biobase r-bioc-biocgenerics 311s r-bioc-multtest r-cran-acepack r-cran-backports r-cran-base64enc 311s r-cran-bslib r-cran-cachem r-cran-checkmate r-cran-chron r-cran-cli 311s r-cran-cluster r-cran-colorspace r-cran-commonmark r-cran-cpp11 311s r-cran-crayon r-cran-curl r-cran-data.table r-cran-deldir r-cran-digest 311s r-cran-dplyr r-cran-ellipsis r-cran-evaluate r-cran-fansi r-cran-farver 311s r-cran-fastmap r-cran-fontawesome r-cran-forecast r-cran-foreign 311s r-cran-formula r-cran-fracdiff r-cran-fs r-cran-generics r-cran-getopt 311s r-cran-ggplot2 r-cran-glue r-cran-gridextra r-cran-gtable r-cran-highr 311s r-cran-hmisc r-cran-htmltable r-cran-htmltools r-cran-htmlwidgets 311s r-cran-httpuv r-cran-interp r-cran-isoband r-cran-jpeg r-cran-jquerylib 311s r-cran-jsonlite r-cran-knitr r-cran-labeling r-cran-later r-cran-lattice 311s r-cran-latticeextra r-cran-lifecycle r-cran-littler r-cran-lmtest 311s r-cran-magrittr r-cran-mass r-cran-matrix r-cran-memoise r-cran-mgcv 311s r-cran-mime r-cran-munsell r-cran-nlme r-cran-nnet r-cran-optparse 311s r-cran-pillar r-cran-pkgconfig r-cran-pkgkitten r-cran-png r-cran-promises 311s r-cran-purrr r-cran-quadprog r-cran-quantmod r-cran-r6 r-cran-rappdirs 311s r-cran-rcolorbrewer r-cran-rcpp r-cran-rcpparmadillo r-cran-rcppeigen 311s r-cran-rlang r-cran-rmarkdown r-cran-rpart r-cran-rstudioapi r-cran-sass 311s r-cran-scales r-cran-shiny r-cran-sourcetools r-cran-stringi r-cran-stringr 311s r-cran-survival r-cran-tibble r-cran-tidyr r-cran-tidyselect r-cran-timedate 311s r-cran-tinytex r-cran-tseries r-cran-ttr r-cran-urca r-cran-uroot 311s r-cran-utf8 r-cran-vctrs r-cran-viridis r-cran-viridislite r-cran-withr 311s r-cran-xfun r-cran-xtable r-cran-xts r-cran-yaml r-cran-zoo unzip x11-common 311s xdg-utils zip 311s 0 upgraded, 205 newly installed, 0 to remove and 0 not upgraded. 311s 1 not fully installed or removed. 311s Need to get 171 MB of archives. 311s After this operation, 557 MB of additional disk space will be used. 311s Get:1 http://ftpmaster.internal/ubuntu noble/main ppc64el zip ppc64el 3.0-13 [192 kB] 311s Get:2 http://ftpmaster.internal/ubuntu noble/main ppc64el unzip ppc64el 6.0-28ubuntu3 [192 kB] 311s Get:3 http://ftpmaster.internal/ubuntu noble/main ppc64el libpaper1 ppc64el 1.1.29 [13.5 kB] 311s Get:4 http://ftpmaster.internal/ubuntu noble/main ppc64el libpaper-utils ppc64el 1.1.29 [8710 B] 312s Get:5 http://ftpmaster.internal/ubuntu noble/main ppc64el xdg-utils all 1.1.3-4.1ubuntu3 [62.0 kB] 312s Get:6 http://ftpmaster.internal/ubuntu noble/main ppc64el libblas3 ppc64el 3.12.0-3 [227 kB] 312s Get:7 http://ftpmaster.internal/ubuntu noble/main ppc64el fonts-dejavu-mono all 2.37-8 [502 kB] 312s Get:8 http://ftpmaster.internal/ubuntu noble/main ppc64el fonts-dejavu-core all 2.37-8 [835 kB] 312s Get:9 http://ftpmaster.internal/ubuntu noble/main ppc64el fontconfig-config ppc64el 2.15.0-1ubuntu1 [37.0 kB] 312s Get:10 http://ftpmaster.internal/ubuntu noble/main ppc64el libfontconfig1 ppc64el 2.15.0-1ubuntu1 [190 kB] 312s Get:11 http://ftpmaster.internal/ubuntu noble/main ppc64el libpixman-1-0 ppc64el 0.42.2-1 [300 kB] 312s Get:12 http://ftpmaster.internal/ubuntu noble/main ppc64el libxcb-render0 ppc64el 1.15-1 [17.2 kB] 312s Get:13 http://ftpmaster.internal/ubuntu noble/main ppc64el libxcb-shm0 ppc64el 1.15-1 [5896 B] 312s Get:14 http://ftpmaster.internal/ubuntu noble/main ppc64el libxrender1 ppc64el 1:0.9.10-1.1 [23.3 kB] 312s Get:15 http://ftpmaster.internal/ubuntu noble/main ppc64el libcairo2 ppc64el 1.18.0-1 [735 kB] 312s Get:16 http://ftpmaster.internal/ubuntu noble/main ppc64el libgomp1 ppc64el 14-20240303-1ubuntu1 [161 kB] 312s Get:17 http://ftpmaster.internal/ubuntu noble/main ppc64el libjpeg-turbo8 ppc64el 2.1.5-2ubuntu1 [212 kB] 312s Get:18 http://ftpmaster.internal/ubuntu noble/main ppc64el libjpeg8 ppc64el 8c-2ubuntu11 [2148 B] 312s Get:19 http://ftpmaster.internal/ubuntu noble/main ppc64el libgfortran5 ppc64el 14-20240303-1ubuntu1 [574 kB] 312s Get:20 http://ftpmaster.internal/ubuntu noble/main ppc64el liblapack3 ppc64el 3.12.0-3 [2804 kB] 312s Get:21 http://ftpmaster.internal/ubuntu noble/main ppc64el fontconfig ppc64el 2.15.0-1ubuntu1 [192 kB] 312s Get:22 http://ftpmaster.internal/ubuntu noble/main ppc64el libgraphite2-3 ppc64el 1.3.14-2 [105 kB] 312s Get:23 http://ftpmaster.internal/ubuntu noble/main ppc64el libharfbuzz0b ppc64el 8.3.0-2 [576 kB] 312s Get:24 http://ftpmaster.internal/ubuntu noble/main ppc64el libthai-data all 0.1.29-2 [158 kB] 312s Get:25 http://ftpmaster.internal/ubuntu noble/main ppc64el libdatrie1 ppc64el 0.2.13-3 [25.1 kB] 312s Get:26 http://ftpmaster.internal/ubuntu noble/main ppc64el libthai0 ppc64el 0.1.29-2 [21.4 kB] 312s Get:27 http://ftpmaster.internal/ubuntu noble/main ppc64el libpango-1.0-0 ppc64el 1.51.0+ds-4 [266 kB] 312s Get:28 http://ftpmaster.internal/ubuntu noble/main ppc64el libpangoft2-1.0-0 ppc64el 1.51.0+ds-4 [49.5 kB] 312s Get:29 http://ftpmaster.internal/ubuntu noble/main ppc64el libpangocairo-1.0-0 ppc64el 1.51.0+ds-4 [31.2 kB] 312s Get:30 http://ftpmaster.internal/ubuntu noble/main ppc64el libtcl8.6 ppc64el 8.6.13+dfsg-2 [1179 kB] 313s Get:31 http://ftpmaster.internal/ubuntu noble/main ppc64el libdeflate0 ppc64el 1.19-1 [61.9 kB] 313s Get:32 http://ftpmaster.internal/ubuntu noble/main ppc64el libjbig0 ppc64el 2.1-6.1ubuntu1 [34.7 kB] 313s Get:33 http://ftpmaster.internal/ubuntu noble/main ppc64el liblerc4 ppc64el 4.0.0+ds-4ubuntu1 [266 kB] 313s Get:34 http://ftpmaster.internal/ubuntu noble/main ppc64el libsharpyuv0 ppc64el 1.3.2-0.4 [28.7 kB] 313s Get:35 http://ftpmaster.internal/ubuntu noble/main ppc64el libwebp7 ppc64el 1.3.2-0.4 [312 kB] 313s Get:36 http://ftpmaster.internal/ubuntu noble/main ppc64el libtiff6 ppc64el 4.5.1+git230720-3ubuntu1 [323 kB] 313s Get:37 http://ftpmaster.internal/ubuntu noble/main ppc64el libxft2 ppc64el 2.3.6-1 [59.8 kB] 313s Get:38 http://ftpmaster.internal/ubuntu noble/main ppc64el x11-common all 1:7.7+23ubuntu2 [23.4 kB] 313s Get:39 http://ftpmaster.internal/ubuntu noble/main ppc64el libxss1 ppc64el 1:1.2.3-1build2 [8982 B] 313s Get:40 http://ftpmaster.internal/ubuntu noble/main ppc64el libtk8.6 ppc64el 8.6.13-2 [916 kB] 313s Get:41 http://ftpmaster.internal/ubuntu noble/main ppc64el libice6 ppc64el 2:1.0.10-1build2 [49.3 kB] 313s Get:42 http://ftpmaster.internal/ubuntu noble/main ppc64el libsm6 ppc64el 2:1.2.3-1build2 [18.5 kB] 313s Get:43 http://ftpmaster.internal/ubuntu noble/main ppc64el libxt6 ppc64el 1:1.2.1-1.1 [198 kB] 313s Get:44 http://ftpmaster.internal/ubuntu noble/universe ppc64el r-base-core ppc64el 4.3.2-1build1 [27.4 MB] 314s Get:45 http://ftpmaster.internal/ubuntu noble/main ppc64el libtmglib3 ppc64el 3.12.0-3 [144 kB] 314s Get:46 http://ftpmaster.internal/ubuntu noble/main ppc64el liblapacke ppc64el 3.12.0-3 [464 kB] 314s Get:47 http://ftpmaster.internal/ubuntu noble/universe ppc64el emmax ppc64el 0~beta.20100307-5 [37.3 kB] 314s Get:48 http://ftpmaster.internal/ubuntu noble/universe ppc64el plink ppc64el 1.07+dfsg-4 [1118 kB] 314s Get:49 http://ftpmaster.internal/ubuntu noble/universe ppc64el libgslcblas0 ppc64el 2.7.1+dfsg-6ubuntu1 [85.3 kB] 314s Get:50 http://ftpmaster.internal/ubuntu noble/universe ppc64el libgsl27 ppc64el 2.7.1+dfsg-6ubuntu1 [1064 kB] 314s Get:51 http://ftpmaster.internal/ubuntu noble/universe ppc64el eigensoft ppc64el 8.0.0+dfsg-2 [368 kB] 314s Get:52 http://ftpmaster.internal/ubuntu noble/universe ppc64el libreadonly-perl all 2.050-3 [19.9 kB] 314s Get:53 http://ftpmaster.internal/ubuntu noble/main ppc64el libclass-method-modifiers-perl all 2.15-1 [16.1 kB] 314s Get:54 http://ftpmaster.internal/ubuntu noble/main ppc64el libclass-xsaccessor-perl ppc64el 1.19-4build2 [36.0 kB] 314s Get:55 http://ftpmaster.internal/ubuntu noble/main ppc64el libb-hooks-op-check-perl ppc64el 0.22-2build2 [9726 B] 314s Get:56 http://ftpmaster.internal/ubuntu noble/main ppc64el libdynaloader-functions-perl all 0.003-3 [12.1 kB] 314s Get:57 http://ftpmaster.internal/ubuntu noble/main ppc64el libdevel-callchecker-perl ppc64el 0.008-2build1 [13.8 kB] 314s Get:58 http://ftpmaster.internal/ubuntu noble/main ppc64el libparams-classify-perl ppc64el 0.015-2build3 [21.8 kB] 314s Get:59 http://ftpmaster.internal/ubuntu noble/main ppc64el libmodule-runtime-perl all 0.016-2 [16.4 kB] 314s Get:60 http://ftpmaster.internal/ubuntu noble/main ppc64el libimport-into-perl all 1.002005-2 [10.7 kB] 314s Get:61 http://ftpmaster.internal/ubuntu noble/main ppc64el librole-tiny-perl all 2.002004-1 [16.3 kB] 314s Get:62 http://ftpmaster.internal/ubuntu noble/main ppc64el libsub-quote-perl all 2.006008-1ubuntu1 [20.7 kB] 314s Get:63 http://ftpmaster.internal/ubuntu noble/main ppc64el libmoo-perl all 2.005005-1 [47.4 kB] 314s Get:64 http://ftpmaster.internal/ubuntu noble/universe ppc64el libparallel-forkmanager-perl all 2.02-1 [27.7 kB] 314s Get:65 http://ftpmaster.internal/ubuntu noble/universe ppc64el libfile-slurp-perl all 9999.32-2 [21.7 kB] 314s Get:66 http://ftpmaster.internal/ubuntu noble/universe ppc64el r-cran-getopt all 1.20.4-1 [38.4 kB] 314s Get:67 http://ftpmaster.internal/ubuntu noble/universe ppc64el r-cran-colorspace ppc64el 2.1-0+dfsg-1 [1542 kB] 314s Get:68 http://ftpmaster.internal/ubuntu noble/universe ppc64el r-cran-fracdiff ppc64el 1.5-3-1 [118 kB] 314s Get:69 http://ftpmaster.internal/ubuntu noble/universe ppc64el r-cran-generics all 0.1.3-1 [81.3 kB] 314s Get:70 http://ftpmaster.internal/ubuntu noble/universe ppc64el r-cran-cli ppc64el 3.6.2-1 [1405 kB] 314s Get:71 http://ftpmaster.internal/ubuntu noble/universe ppc64el r-cran-glue ppc64el 1.7.0-1 [155 kB] 314s Get:72 http://ftpmaster.internal/ubuntu noble/universe ppc64el r-cran-rlang ppc64el 1.1.3-1 [1696 kB] 314s Get:73 http://ftpmaster.internal/ubuntu noble/universe ppc64el r-cran-lifecycle all 1.0.4+dfsg-1 [110 kB] 314s Get:74 http://ftpmaster.internal/ubuntu noble/universe ppc64el r-cran-gtable all 0.3.4+dfsg-1 [191 kB] 314s Get:75 http://ftpmaster.internal/ubuntu noble/universe ppc64el r-cran-isoband ppc64el 0.2.7-1 [1486 kB] 314s Get:76 http://ftpmaster.internal/ubuntu noble/universe ppc64el r-cran-mass ppc64el 7.3-60.0.1-1 [1126 kB] 315s Get:77 http://ftpmaster.internal/ubuntu noble/universe ppc64el r-cran-lattice ppc64el 0.22-5-1 [1343 kB] 315s Get:78 http://ftpmaster.internal/ubuntu noble/universe ppc64el r-cran-nlme ppc64el 3.1.164-1 [2281 kB] 315s Get:79 http://ftpmaster.internal/ubuntu noble/universe ppc64el r-cran-matrix ppc64el 1.6-5-1 [4057 kB] 315s Get:80 http://ftpmaster.internal/ubuntu noble/universe ppc64el r-cran-mgcv ppc64el 1.9-1-1 [3393 kB] 315s Get:81 http://ftpmaster.internal/ubuntu noble/universe ppc64el r-cran-farver ppc64el 2.1.1-1 [1365 kB] 315s Get:82 http://ftpmaster.internal/ubuntu noble/universe ppc64el r-cran-labeling all 0.4.3-1 [62.1 kB] 315s Get:83 http://ftpmaster.internal/ubuntu noble/universe ppc64el r-cran-munsell all 0.5.0-2build1 [208 kB] 315s Get:84 http://ftpmaster.internal/ubuntu noble/universe ppc64el r-cran-r6 all 2.5.1-1 [99.0 kB] 315s Get:85 http://ftpmaster.internal/ubuntu noble/universe ppc64el r-cran-rcolorbrewer all 1.1-3-1build1 [55.4 kB] 315s Get:86 http://ftpmaster.internal/ubuntu noble/universe ppc64el r-cran-viridislite all 0.4.2-2 [1088 kB] 315s Get:87 http://ftpmaster.internal/ubuntu noble/universe ppc64el r-cran-scales all 1.3.0-1 [603 kB] 315s Get:88 http://ftpmaster.internal/ubuntu noble/universe ppc64el r-cran-fansi ppc64el 1.0.5-1 [627 kB] 315s Get:89 http://ftpmaster.internal/ubuntu noble/universe ppc64el r-cran-magrittr ppc64el 2.0.3-1 [154 kB] 315s Get:90 http://ftpmaster.internal/ubuntu noble/universe ppc64el r-cran-utf8 ppc64el 1.2.4-1 [148 kB] 315s Get:91 http://ftpmaster.internal/ubuntu noble/universe ppc64el r-cran-vctrs ppc64el 0.6.5-1 [1399 kB] 315s Get:92 http://ftpmaster.internal/ubuntu noble/universe ppc64el r-cran-pillar all 1.9.0+dfsg-1 [464 kB] 315s Get:93 http://ftpmaster.internal/ubuntu noble/universe ppc64el r-cran-pkgconfig all 2.0.3-2build1 [19.7 kB] 315s Get:94 http://ftpmaster.internal/ubuntu noble/universe ppc64el r-cran-tibble ppc64el 3.2.1+dfsg-2 [415 kB] 315s Get:95 http://ftpmaster.internal/ubuntu noble/universe ppc64el r-cran-withr all 2.5.0-1 [225 kB] 315s Get:96 http://ftpmaster.internal/ubuntu noble/universe ppc64el r-cran-ggplot2 all 3.4.4+dfsg-1 [3411 kB] 315s Get:97 http://ftpmaster.internal/ubuntu noble/universe ppc64el r-cran-zoo ppc64el 1.8-12-2 [986 kB] 315s Get:98 http://ftpmaster.internal/ubuntu noble/universe ppc64el r-cran-lmtest ppc64el 0.9.40-1 [397 kB] 315s Get:99 http://ftpmaster.internal/ubuntu noble/universe ppc64el r-cran-nnet ppc64el 7.3-19-2 [118 kB] 315s Get:100 http://ftpmaster.internal/ubuntu noble/universe ppc64el r-cran-littler ppc64el 0.3.19-1 [95.1 kB] 315s Get:101 http://ftpmaster.internal/ubuntu noble/universe ppc64el littler all 0.3.19-1 [2472 B] 315s Get:102 http://ftpmaster.internal/ubuntu noble/universe ppc64el r-cran-pkgkitten all 0.2.3-1 [25.1 kB] 315s Get:103 http://ftpmaster.internal/ubuntu noble/universe ppc64el r-cran-rcpp ppc64el 1.0.12-1 [1989 kB] 316s Get:104 http://ftpmaster.internal/ubuntu noble/universe ppc64el r-cran-timedate ppc64el 4032.109-1 [1229 kB] 316s Get:105 http://ftpmaster.internal/ubuntu noble/universe ppc64el r-cran-quadprog ppc64el 1.5-8-1build1 [34.2 kB] 316s Get:106 http://ftpmaster.internal/ubuntu noble/universe ppc64el r-cran-xts ppc64el 0.13.2-1 [789 kB] 316s Get:107 http://ftpmaster.internal/ubuntu noble/universe ppc64el r-cran-curl ppc64el 5.2.0+dfsg-1 [192 kB] 316s Get:108 http://ftpmaster.internal/ubuntu noble/universe ppc64el r-cran-ttr ppc64el 0.24.4-1 [516 kB] 317s Get:109 http://ftpmaster.internal/ubuntu noble/universe ppc64el r-cran-jsonlite ppc64el 1.8.8+dfsg-1 [449 kB] 317s Get:110 http://ftpmaster.internal/ubuntu noble/universe ppc64el r-cran-quantmod all 0.4.26-1 [1027 kB] 317s Get:111 http://ftpmaster.internal/ubuntu noble/universe ppc64el r-cran-tseries ppc64el 0.10-55-1 [375 kB] 317s Get:112 http://ftpmaster.internal/ubuntu noble/universe ppc64el r-cran-urca ppc64el 1.3-3-1 [1074 kB] 317s Get:113 http://ftpmaster.internal/ubuntu noble/universe ppc64el r-cran-rcpparmadillo ppc64el 0.12.8.0.0-1 [874 kB] 317s Get:114 http://ftpmaster.internal/ubuntu noble/universe ppc64el r-cran-forecast ppc64el 8.21.1-1 [1580 kB] 317s Get:115 http://ftpmaster.internal/ubuntu noble/universe ppc64el r-bioc-biocgenerics all 0.48.1-2 [595 kB] 317s Get:116 http://ftpmaster.internal/ubuntu noble/universe ppc64el r-bioc-biobase ppc64el 2.62.0-1 [2138 kB] 317s Get:117 http://ftpmaster.internal/ubuntu noble/universe ppc64el r-cran-survival ppc64el 3.5-8-1 [6160 kB] 317s Get:118 http://ftpmaster.internal/ubuntu noble/universe ppc64el r-bioc-multtest ppc64el 2.58.0-1 [844 kB] 317s Get:119 http://ftpmaster.internal/ubuntu noble/universe ppc64el r-cran-optparse all 1.7.4-1 [81.6 kB] 317s Get:120 http://ftpmaster.internal/ubuntu noble/universe ppc64el r-cran-uroot all 2.1-3-1 [1927 kB] 318s Get:121 http://ftpmaster.internal/ubuntu noble/universe ppc64el pique all 1.0-7 [21.3 kB] 318s Get:122 http://ftpmaster.internal/ubuntu noble/universe ppc64el pique-doc all 1.0-7 [1931 kB] 318s Get:123 http://ftpmaster.internal/ubuntu noble/universe ppc64el r-cran-cluster ppc64el 2.1.6-1 [568 kB] 318s Get:124 http://ftpmaster.internal/ubuntu noble/universe ppc64el r-cran-rpart ppc64el 4.1.23-1 [672 kB] 318s Get:125 http://ftpmaster.internal/ubuntu noble/universe ppc64el r-cran-foreign ppc64el 0.8.86-1 [251 kB] 318s Get:126 http://ftpmaster.internal/ubuntu noble/universe ppc64el r-cran-gridextra all 2.3-3build1 [1024 kB] 318s Get:127 http://ftpmaster.internal/ubuntu noble/universe ppc64el r-cran-data.table ppc64el 1.14.10+dfsg-1 [1909 kB] 318s Get:128 http://ftpmaster.internal/ubuntu noble/universe ppc64el r-cran-stringi ppc64el 1.8.3-1 [919 kB] 318s Get:129 http://ftpmaster.internal/ubuntu noble/universe ppc64el r-cran-stringr all 1.5.1-1 [290 kB] 318s Get:130 http://ftpmaster.internal/ubuntu noble/universe ppc64el r-cran-evaluate all 0.23-1 [90.2 kB] 318s Get:131 http://ftpmaster.internal/ubuntu noble/universe ppc64el r-cran-xfun ppc64el 0.41+dfsg-1 [415 kB] 318s Get:132 http://ftpmaster.internal/ubuntu noble/universe ppc64el libjs-highlight.js all 9.18.5+dfsg1-2 [385 kB] 318s Get:133 http://ftpmaster.internal/ubuntu noble/main ppc64el libjs-jquery all 3.6.1+dfsg+~3.5.14-1 [328 kB] 318s Get:134 http://ftpmaster.internal/ubuntu noble/universe ppc64el r-cran-highr all 0.10+dfsg-1 [38.3 kB] 318s Get:135 http://ftpmaster.internal/ubuntu noble/universe ppc64el r-cran-yaml ppc64el 2.3.8-1 [139 kB] 318s Get:136 http://ftpmaster.internal/ubuntu noble/main ppc64el fonts-mathjax all 2.7.9+dfsg-1 [2208 kB] 318s Get:137 http://ftpmaster.internal/ubuntu noble/main ppc64el libjs-mathjax all 2.7.9+dfsg-1 [5665 kB] 319s Get:138 http://ftpmaster.internal/ubuntu noble/universe ppc64el fonts-glyphicons-halflings all 1.009~3.4.1+dfsg-3 [118 kB] 319s Get:139 http://ftpmaster.internal/ubuntu noble/universe ppc64el libjs-bootstrap all 3.4.1+dfsg-3 [129 kB] 319s Get:140 http://ftpmaster.internal/ubuntu noble/universe ppc64el libjs-jquery-datatables all 1.11.5+dfsg-2 [146 kB] 319s Get:141 http://ftpmaster.internal/ubuntu noble/universe ppc64el node-normalize.css all 8.0.1-5 [10.8 kB] 319s Get:142 http://ftpmaster.internal/ubuntu noble/universe ppc64el r-cran-knitr all 1.45+dfsg-1 [917 kB] 319s Get:143 http://ftpmaster.internal/ubuntu noble/universe ppc64el r-cran-backports ppc64el 1.4.1-1 [101 kB] 319s Get:144 http://ftpmaster.internal/ubuntu noble/universe ppc64el r-cran-checkmate ppc64el 2.3.1-1 [721 kB] 319s Get:145 http://ftpmaster.internal/ubuntu noble/universe ppc64el r-cran-base64enc ppc64el 0.1-3-3 [28.1 kB] 319s Get:146 http://ftpmaster.internal/ubuntu noble/universe ppc64el r-cran-digest ppc64el 0.6.34-1 [198 kB] 319s Get:147 http://ftpmaster.internal/ubuntu noble/universe ppc64el r-cran-ellipsis ppc64el 0.3.2-2 [35.9 kB] 319s Get:148 http://ftpmaster.internal/ubuntu noble/universe ppc64el r-cran-fastmap ppc64el 1.1.1-1 [72.4 kB] 319s Get:149 http://ftpmaster.internal/ubuntu noble/universe ppc64el r-cran-htmltools ppc64el 0.5.7-1 [369 kB] 319s Get:150 http://ftpmaster.internal/ubuntu noble/universe ppc64el r-cran-cachem ppc64el 1.0.8-1 [72.2 kB] 319s Get:151 http://ftpmaster.internal/ubuntu noble/universe ppc64el r-cran-jquerylib all 0.1.4+dfsg-4 [13.5 kB] 319s Get:152 http://ftpmaster.internal/ubuntu noble/universe ppc64el r-cran-memoise all 2.0.1-1 [53.9 kB] 319s Get:153 http://ftpmaster.internal/ubuntu noble/universe ppc64el r-cran-mime ppc64el 0.12-1 [36.1 kB] 319s Get:154 http://ftpmaster.internal/ubuntu noble/universe ppc64el r-cran-fs ppc64el 1.6.3+dfsg-1 [231 kB] 319s Get:155 http://ftpmaster.internal/ubuntu noble/universe ppc64el r-cran-rappdirs ppc64el 0.3.3-1 [47.7 kB] 319s Get:156 http://ftpmaster.internal/ubuntu noble/universe ppc64el r-cran-sass ppc64el 0.4.8+dfsg-1 [1026 kB] 319s Get:157 http://ftpmaster.internal/ubuntu noble/universe ppc64el node-bootstrap-sass all 3.4.3-2 [187 kB] 319s Get:158 http://ftpmaster.internal/ubuntu noble/main ppc64el javascript-common all 11+nmu1 [5936 B] 319s Get:159 http://ftpmaster.internal/ubuntu noble/universe ppc64el libjs-popper.js all 1.16.1+ds-6 [54.1 kB] 319s Get:160 http://ftpmaster.internal/ubuntu noble/universe ppc64el libjs-bootstrap4 all 4.6.1+dfsg1-4 [537 kB] 319s Get:161 http://ftpmaster.internal/ubuntu noble/universe ppc64el r-cran-bslib all 0.6.1+dfsg-1 [5138 kB] 320s Get:162 http://ftpmaster.internal/ubuntu noble/universe ppc64el r-cran-fontawesome all 0.5.2-1 [1300 kB] 320s Get:163 http://ftpmaster.internal/ubuntu noble/universe ppc64el r-cran-tinytex all 0.49-1 [141 kB] 320s Get:164 http://ftpmaster.internal/ubuntu noble/universe ppc64el libjs-jquery-ui all 1.13.2+dfsg-1 [252 kB] 320s Get:165 http://ftpmaster.internal/ubuntu noble/universe ppc64el libjs-modernizr all 2.6.2+ds1-5 [48.3 kB] 320s Get:166 http://ftpmaster.internal/ubuntu noble/universe ppc64el libjs-prettify all 2015.12.04+dfsg-1.1 [39.3 kB] 320s Get:167 http://ftpmaster.internal/ubuntu noble/main ppc64el fonts-font-awesome all 5.0.10+really4.7.0~dfsg-4.1 [516 kB] 320s Get:168 http://ftpmaster.internal/ubuntu noble/universe ppc64el pandoc-data all 3.1.3-1 [92.4 kB] 320s Get:169 http://ftpmaster.internal/ubuntu noble/universe ppc64el pandoc ppc64el 3.1.3+ds-2 [22.5 MB] 322s Get:170 http://ftpmaster.internal/ubuntu noble/universe ppc64el r-cran-later ppc64el 1.3.2+dfsg-1 [127 kB] 322s Get:171 http://ftpmaster.internal/ubuntu noble/universe ppc64el r-cran-promises ppc64el 1.2.1+dfsg-1 [285 kB] 322s Get:172 http://ftpmaster.internal/ubuntu noble/universe ppc64el r-cran-httpuv ppc64el 1.6.14+dfsg-1 [527 kB] 322s Get:173 http://ftpmaster.internal/ubuntu noble/universe ppc64el r-cran-xtable all 1:1.8-4-2 [689 kB] 322s Get:174 http://ftpmaster.internal/ubuntu noble/universe ppc64el r-cran-sourcetools ppc64el 0.1.7-1-1 [52.4 kB] 322s Get:175 http://ftpmaster.internal/ubuntu noble/universe ppc64el r-cran-crayon all 1.5.2-1 [164 kB] 322s Get:176 http://ftpmaster.internal/ubuntu noble/universe ppc64el r-cran-commonmark ppc64el 1.9.1-1 [142 kB] 322s Get:177 http://ftpmaster.internal/ubuntu noble/universe ppc64el libjs-json all 0~20221030+~1.0.8-1 [20.6 kB] 322s Get:178 http://ftpmaster.internal/ubuntu noble/universe ppc64el libjs-es5-shim all 4.6.7-2 [39.8 kB] 322s Get:179 http://ftpmaster.internal/ubuntu noble/universe ppc64el libjs-twitter-bootstrap-datepicker all 1.3.1+dfsg1-4.1 [28.5 kB] 322s Get:180 http://ftpmaster.internal/ubuntu noble/universe ppc64el libjs-sifter.js all 0.6.0+dfsg-3 [12.6 kB] 322s Get:181 http://ftpmaster.internal/ubuntu noble/universe ppc64el libjs-microplugin.js all 0.0.3+dfsg-1.1 [3712 B] 322s Get:182 http://ftpmaster.internal/ubuntu noble/universe ppc64el libjs-jquery-selectize.js all 0.12.6+dfsg-1.1 [51.0 kB] 322s Get:183 http://ftpmaster.internal/ubuntu noble/universe ppc64el libjs-d3 all 3.5.17-4 [132 kB] 322s Get:184 http://ftpmaster.internal/ubuntu noble/universe ppc64el node-html5shiv all 3.7.3+dfsg-5 [13.5 kB] 322s Get:185 http://ftpmaster.internal/ubuntu noble/universe ppc64el r-cran-shiny all 1.8.0+dfsg-1 [2762 kB] 322s Get:186 http://ftpmaster.internal/ubuntu noble/universe ppc64el r-cran-rmarkdown all 2.25+dfsg-3 [1481 kB] 323s Get:187 http://ftpmaster.internal/ubuntu noble/universe ppc64el r-cran-htmlwidgets all 1.6.4+dfsg-1 [123 kB] 323s Get:188 http://ftpmaster.internal/ubuntu noble/universe ppc64el r-cran-rstudioapi all 0.15.0-1 [277 kB] 323s Get:189 http://ftpmaster.internal/ubuntu noble/universe ppc64el r-cran-tidyselect ppc64el 1.2.0+dfsg-1 [218 kB] 323s Get:190 http://ftpmaster.internal/ubuntu noble/universe ppc64el r-cran-dplyr ppc64el 1.1.4-1 [1516 kB] 323s Get:191 http://ftpmaster.internal/ubuntu noble/universe ppc64el r-cran-purrr ppc64el 1.0.2-1 [503 kB] 323s Get:192 http://ftpmaster.internal/ubuntu noble/universe ppc64el r-cran-cpp11 all 0.4.7-1 [266 kB] 323s Get:193 http://ftpmaster.internal/ubuntu noble/universe ppc64el r-cran-tidyr ppc64el 1.3.1-1 [1163 kB] 323s Get:194 http://ftpmaster.internal/ubuntu noble/universe ppc64el r-cran-htmltable all 2.4.2-1 [381 kB] 323s Get:195 http://ftpmaster.internal/ubuntu noble/universe ppc64el r-cran-viridis all 0.6.5-1 [2770 kB] 323s Get:196 http://ftpmaster.internal/ubuntu noble/universe ppc64el r-cran-formula all 1.2-5-1 [158 kB] 323s Get:197 http://ftpmaster.internal/ubuntu noble/universe ppc64el r-cran-chron ppc64el 2.3-61-2 [187 kB] 323s Get:198 http://ftpmaster.internal/ubuntu noble/universe ppc64el r-cran-png ppc64el 0.1-8-1 [44.1 kB] 323s Get:199 http://ftpmaster.internal/ubuntu noble/universe ppc64el r-cran-jpeg ppc64el 0.1-10-1 [37.0 kB] 323s Get:200 http://ftpmaster.internal/ubuntu noble/universe ppc64el r-cran-deldir ppc64el 2.0-4-1 [273 kB] 323s Get:201 http://ftpmaster.internal/ubuntu noble/universe ppc64el r-cran-rcppeigen ppc64el 0.3.3.9.4-1 [1216 kB] 323s Get:202 http://ftpmaster.internal/ubuntu noble/universe ppc64el r-cran-interp ppc64el 1.1-6-1 [1492 kB] 324s Get:203 http://ftpmaster.internal/ubuntu noble/universe ppc64el r-cran-latticeextra all 0.6-30-1 [2198 kB] 324s Get:204 http://ftpmaster.internal/ubuntu noble/universe ppc64el r-cran-acepack ppc64el 1.4.2-1 [69.8 kB] 324s Get:205 http://ftpmaster.internal/ubuntu noble/universe ppc64el r-cran-hmisc ppc64el 5.1-1-1 [3493 kB] 325s Preconfiguring packages ... 325s Fetched 171 MB in 13s (12.8 MB/s) 325s Selecting previously unselected package zip. 326s (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 ... 69670 files and directories currently installed.) 326s Preparing to unpack .../000-zip_3.0-13_ppc64el.deb ... 326s Unpacking zip (3.0-13) ... 326s Selecting previously unselected package unzip. 326s Preparing to unpack .../001-unzip_6.0-28ubuntu3_ppc64el.deb ... 326s Unpacking unzip (6.0-28ubuntu3) ... 326s Selecting previously unselected package libpaper1:ppc64el. 326s Preparing to unpack .../002-libpaper1_1.1.29_ppc64el.deb ... 326s Unpacking libpaper1:ppc64el (1.1.29) ... 326s Selecting previously unselected package libpaper-utils. 326s Preparing to unpack .../003-libpaper-utils_1.1.29_ppc64el.deb ... 326s Unpacking libpaper-utils (1.1.29) ... 326s Selecting previously unselected package xdg-utils. 326s Preparing to unpack .../004-xdg-utils_1.1.3-4.1ubuntu3_all.deb ... 326s Unpacking xdg-utils (1.1.3-4.1ubuntu3) ... 326s Selecting previously unselected package libblas3:ppc64el. 326s Preparing to unpack .../005-libblas3_3.12.0-3_ppc64el.deb ... 326s Unpacking libblas3:ppc64el (3.12.0-3) ... 326s Selecting previously unselected package fonts-dejavu-mono. 326s Preparing to unpack .../006-fonts-dejavu-mono_2.37-8_all.deb ... 326s Unpacking fonts-dejavu-mono (2.37-8) ... 326s Selecting previously unselected package fonts-dejavu-core. 326s Preparing to unpack .../007-fonts-dejavu-core_2.37-8_all.deb ... 326s Unpacking fonts-dejavu-core (2.37-8) ... 326s Selecting previously unselected package fontconfig-config. 326s Preparing to unpack .../008-fontconfig-config_2.15.0-1ubuntu1_ppc64el.deb ... 326s Unpacking fontconfig-config (2.15.0-1ubuntu1) ... 326s Selecting previously unselected package libfontconfig1:ppc64el. 326s Preparing to unpack .../009-libfontconfig1_2.15.0-1ubuntu1_ppc64el.deb ... 326s Unpacking libfontconfig1:ppc64el (2.15.0-1ubuntu1) ... 326s Selecting previously unselected package libpixman-1-0:ppc64el. 326s Preparing to unpack .../010-libpixman-1-0_0.42.2-1_ppc64el.deb ... 326s Unpacking libpixman-1-0:ppc64el (0.42.2-1) ... 326s Selecting previously unselected package libxcb-render0:ppc64el. 326s Preparing to unpack .../011-libxcb-render0_1.15-1_ppc64el.deb ... 326s Unpacking libxcb-render0:ppc64el (1.15-1) ... 326s Selecting previously unselected package libxcb-shm0:ppc64el. 326s Preparing to unpack .../012-libxcb-shm0_1.15-1_ppc64el.deb ... 326s Unpacking libxcb-shm0:ppc64el (1.15-1) ... 326s Selecting previously unselected package libxrender1:ppc64el. 326s Preparing to unpack .../013-libxrender1_1%3a0.9.10-1.1_ppc64el.deb ... 326s Unpacking libxrender1:ppc64el (1:0.9.10-1.1) ... 326s Selecting previously unselected package libcairo2:ppc64el. 326s Preparing to unpack .../014-libcairo2_1.18.0-1_ppc64el.deb ... 326s Unpacking libcairo2:ppc64el (1.18.0-1) ... 326s Selecting previously unselected package libgomp1:ppc64el. 326s Preparing to unpack .../015-libgomp1_14-20240303-1ubuntu1_ppc64el.deb ... 326s Unpacking libgomp1:ppc64el (14-20240303-1ubuntu1) ... 326s Selecting previously unselected package libjpeg-turbo8:ppc64el. 326s Preparing to unpack .../016-libjpeg-turbo8_2.1.5-2ubuntu1_ppc64el.deb ... 326s Unpacking libjpeg-turbo8:ppc64el (2.1.5-2ubuntu1) ... 326s Selecting previously unselected package libjpeg8:ppc64el. 326s Preparing to unpack .../017-libjpeg8_8c-2ubuntu11_ppc64el.deb ... 326s Unpacking libjpeg8:ppc64el (8c-2ubuntu11) ... 326s Selecting previously unselected package libgfortran5:ppc64el. 326s Preparing to unpack .../018-libgfortran5_14-20240303-1ubuntu1_ppc64el.deb ... 326s Unpacking libgfortran5:ppc64el (14-20240303-1ubuntu1) ... 326s Selecting previously unselected package liblapack3:ppc64el. 326s Preparing to unpack .../019-liblapack3_3.12.0-3_ppc64el.deb ... 326s Unpacking liblapack3:ppc64el (3.12.0-3) ... 326s Selecting previously unselected package fontconfig. 326s Preparing to unpack .../020-fontconfig_2.15.0-1ubuntu1_ppc64el.deb ... 326s Unpacking fontconfig (2.15.0-1ubuntu1) ... 326s Selecting previously unselected package libgraphite2-3:ppc64el. 326s Preparing to unpack .../021-libgraphite2-3_1.3.14-2_ppc64el.deb ... 326s Unpacking libgraphite2-3:ppc64el (1.3.14-2) ... 326s Selecting previously unselected package libharfbuzz0b:ppc64el. 326s Preparing to unpack .../022-libharfbuzz0b_8.3.0-2_ppc64el.deb ... 326s Unpacking libharfbuzz0b:ppc64el (8.3.0-2) ... 326s Selecting previously unselected package libthai-data. 326s Preparing to unpack .../023-libthai-data_0.1.29-2_all.deb ... 326s Unpacking libthai-data (0.1.29-2) ... 326s Selecting previously unselected package libdatrie1:ppc64el. 326s Preparing to unpack .../024-libdatrie1_0.2.13-3_ppc64el.deb ... 326s Unpacking libdatrie1:ppc64el (0.2.13-3) ... 326s Selecting previously unselected package libthai0:ppc64el. 326s Preparing to unpack .../025-libthai0_0.1.29-2_ppc64el.deb ... 326s Unpacking libthai0:ppc64el (0.1.29-2) ... 326s Selecting previously unselected package libpango-1.0-0:ppc64el. 326s Preparing to unpack .../026-libpango-1.0-0_1.51.0+ds-4_ppc64el.deb ... 326s Unpacking libpango-1.0-0:ppc64el (1.51.0+ds-4) ... 326s Selecting previously unselected package libpangoft2-1.0-0:ppc64el. 326s Preparing to unpack .../027-libpangoft2-1.0-0_1.51.0+ds-4_ppc64el.deb ... 326s Unpacking libpangoft2-1.0-0:ppc64el (1.51.0+ds-4) ... 326s Selecting previously unselected package libpangocairo-1.0-0:ppc64el. 326s Preparing to unpack .../028-libpangocairo-1.0-0_1.51.0+ds-4_ppc64el.deb ... 326s Unpacking libpangocairo-1.0-0:ppc64el (1.51.0+ds-4) ... 326s Selecting previously unselected package libtcl8.6:ppc64el. 326s Preparing to unpack .../029-libtcl8.6_8.6.13+dfsg-2_ppc64el.deb ... 326s Unpacking libtcl8.6:ppc64el (8.6.13+dfsg-2) ... 326s Selecting previously unselected package libdeflate0:ppc64el. 326s Preparing to unpack .../030-libdeflate0_1.19-1_ppc64el.deb ... 326s Unpacking libdeflate0:ppc64el (1.19-1) ... 326s Selecting previously unselected package libjbig0:ppc64el. 326s Preparing to unpack .../031-libjbig0_2.1-6.1ubuntu1_ppc64el.deb ... 326s Unpacking libjbig0:ppc64el (2.1-6.1ubuntu1) ... 326s Selecting previously unselected package liblerc4:ppc64el. 326s Preparing to unpack .../032-liblerc4_4.0.0+ds-4ubuntu1_ppc64el.deb ... 326s Unpacking liblerc4:ppc64el (4.0.0+ds-4ubuntu1) ... 326s Selecting previously unselected package libsharpyuv0:ppc64el. 326s Preparing to unpack .../033-libsharpyuv0_1.3.2-0.4_ppc64el.deb ... 326s Unpacking libsharpyuv0:ppc64el (1.3.2-0.4) ... 326s Selecting previously unselected package libwebp7:ppc64el. 326s Preparing to unpack .../034-libwebp7_1.3.2-0.4_ppc64el.deb ... 326s Unpacking libwebp7:ppc64el (1.3.2-0.4) ... 326s Selecting previously unselected package libtiff6:ppc64el. 326s Preparing to unpack .../035-libtiff6_4.5.1+git230720-3ubuntu1_ppc64el.deb ... 326s Unpacking libtiff6:ppc64el (4.5.1+git230720-3ubuntu1) ... 326s Selecting previously unselected package libxft2:ppc64el. 326s Preparing to unpack .../036-libxft2_2.3.6-1_ppc64el.deb ... 326s Unpacking libxft2:ppc64el (2.3.6-1) ... 326s Selecting previously unselected package x11-common. 326s Preparing to unpack .../037-x11-common_1%3a7.7+23ubuntu2_all.deb ... 326s Unpacking x11-common (1:7.7+23ubuntu2) ... 326s Selecting previously unselected package libxss1:ppc64el. 326s Preparing to unpack .../038-libxss1_1%3a1.2.3-1build2_ppc64el.deb ... 326s Unpacking libxss1:ppc64el (1:1.2.3-1build2) ... 326s Selecting previously unselected package libtk8.6:ppc64el. 326s Preparing to unpack .../039-libtk8.6_8.6.13-2_ppc64el.deb ... 326s Unpacking libtk8.6:ppc64el (8.6.13-2) ... 327s Selecting previously unselected package libice6:ppc64el. 327s Preparing to unpack .../040-libice6_2%3a1.0.10-1build2_ppc64el.deb ... 327s Unpacking libice6:ppc64el (2:1.0.10-1build2) ... 327s Selecting previously unselected package libsm6:ppc64el. 327s Preparing to unpack .../041-libsm6_2%3a1.2.3-1build2_ppc64el.deb ... 327s Unpacking libsm6:ppc64el (2:1.2.3-1build2) ... 327s Selecting previously unselected package libxt6:ppc64el. 327s Preparing to unpack .../042-libxt6_1%3a1.2.1-1.1_ppc64el.deb ... 327s Unpacking libxt6:ppc64el (1:1.2.1-1.1) ... 327s Selecting previously unselected package r-base-core. 327s Preparing to unpack .../043-r-base-core_4.3.2-1build1_ppc64el.deb ... 327s Unpacking r-base-core (4.3.2-1build1) ... 327s Selecting previously unselected package libtmglib3:ppc64el. 327s Preparing to unpack .../044-libtmglib3_3.12.0-3_ppc64el.deb ... 327s Unpacking libtmglib3:ppc64el (3.12.0-3) ... 327s Selecting previously unselected package liblapacke:ppc64el. 327s Preparing to unpack .../045-liblapacke_3.12.0-3_ppc64el.deb ... 327s Unpacking liblapacke:ppc64el (3.12.0-3) ... 327s Selecting previously unselected package emmax. 327s Preparing to unpack .../046-emmax_0~beta.20100307-5_ppc64el.deb ... 327s Unpacking emmax (0~beta.20100307-5) ... 327s Selecting previously unselected package plink. 327s Preparing to unpack .../047-plink_1.07+dfsg-4_ppc64el.deb ... 327s Unpacking plink (1.07+dfsg-4) ... 327s Selecting previously unselected package libgslcblas0:ppc64el. 327s Preparing to unpack .../048-libgslcblas0_2.7.1+dfsg-6ubuntu1_ppc64el.deb ... 327s Unpacking libgslcblas0:ppc64el (2.7.1+dfsg-6ubuntu1) ... 327s Selecting previously unselected package libgsl27:ppc64el. 327s Preparing to unpack .../049-libgsl27_2.7.1+dfsg-6ubuntu1_ppc64el.deb ... 327s Unpacking libgsl27:ppc64el (2.7.1+dfsg-6ubuntu1) ... 327s Selecting previously unselected package eigensoft. 327s Preparing to unpack .../050-eigensoft_8.0.0+dfsg-2_ppc64el.deb ... 327s Unpacking eigensoft (8.0.0+dfsg-2) ... 327s Selecting previously unselected package libreadonly-perl. 327s Preparing to unpack .../051-libreadonly-perl_2.050-3_all.deb ... 327s Unpacking libreadonly-perl (2.050-3) ... 327s Selecting previously unselected package libclass-method-modifiers-perl. 327s Preparing to unpack .../052-libclass-method-modifiers-perl_2.15-1_all.deb ... 327s Unpacking libclass-method-modifiers-perl (2.15-1) ... 327s Selecting previously unselected package libclass-xsaccessor-perl. 327s Preparing to unpack .../053-libclass-xsaccessor-perl_1.19-4build2_ppc64el.deb ... 327s Unpacking libclass-xsaccessor-perl (1.19-4build2) ... 327s Selecting previously unselected package libb-hooks-op-check-perl:ppc64el. 327s Preparing to unpack .../054-libb-hooks-op-check-perl_0.22-2build2_ppc64el.deb ... 327s Unpacking libb-hooks-op-check-perl:ppc64el (0.22-2build2) ... 327s Selecting previously unselected package libdynaloader-functions-perl. 327s Preparing to unpack .../055-libdynaloader-functions-perl_0.003-3_all.deb ... 327s Unpacking libdynaloader-functions-perl (0.003-3) ... 327s Selecting previously unselected package libdevel-callchecker-perl:ppc64el. 327s Preparing to unpack .../056-libdevel-callchecker-perl_0.008-2build1_ppc64el.deb ... 327s Unpacking libdevel-callchecker-perl:ppc64el (0.008-2build1) ... 327s Selecting previously unselected package libparams-classify-perl:ppc64el. 327s Preparing to unpack .../057-libparams-classify-perl_0.015-2build3_ppc64el.deb ... 327s Unpacking libparams-classify-perl:ppc64el (0.015-2build3) ... 327s Selecting previously unselected package libmodule-runtime-perl. 327s Preparing to unpack .../058-libmodule-runtime-perl_0.016-2_all.deb ... 327s Unpacking libmodule-runtime-perl (0.016-2) ... 327s Selecting previously unselected package libimport-into-perl. 327s Preparing to unpack .../059-libimport-into-perl_1.002005-2_all.deb ... 327s Unpacking libimport-into-perl (1.002005-2) ... 327s Selecting previously unselected package librole-tiny-perl. 327s Preparing to unpack .../060-librole-tiny-perl_2.002004-1_all.deb ... 327s Unpacking librole-tiny-perl (2.002004-1) ... 327s Selecting previously unselected package libsub-quote-perl. 327s Preparing to unpack .../061-libsub-quote-perl_2.006008-1ubuntu1_all.deb ... 327s Unpacking libsub-quote-perl (2.006008-1ubuntu1) ... 327s Selecting previously unselected package libmoo-perl. 327s Preparing to unpack .../062-libmoo-perl_2.005005-1_all.deb ... 327s Unpacking libmoo-perl (2.005005-1) ... 327s Selecting previously unselected package libparallel-forkmanager-perl. 327s Preparing to unpack .../063-libparallel-forkmanager-perl_2.02-1_all.deb ... 327s Unpacking libparallel-forkmanager-perl (2.02-1) ... 327s Selecting previously unselected package libfile-slurp-perl. 327s Preparing to unpack .../064-libfile-slurp-perl_9999.32-2_all.deb ... 327s Unpacking libfile-slurp-perl (9999.32-2) ... 327s Selecting previously unselected package r-cran-getopt. 327s Preparing to unpack .../065-r-cran-getopt_1.20.4-1_all.deb ... 327s Unpacking r-cran-getopt (1.20.4-1) ... 327s Selecting previously unselected package r-cran-colorspace. 327s Preparing to unpack .../066-r-cran-colorspace_2.1-0+dfsg-1_ppc64el.deb ... 327s Unpacking r-cran-colorspace (2.1-0+dfsg-1) ... 328s Selecting previously unselected package r-cran-fracdiff. 328s Preparing to unpack .../067-r-cran-fracdiff_1.5-3-1_ppc64el.deb ... 328s Unpacking r-cran-fracdiff (1.5-3-1) ... 328s Selecting previously unselected package r-cran-generics. 328s Preparing to unpack .../068-r-cran-generics_0.1.3-1_all.deb ... 328s Unpacking r-cran-generics (0.1.3-1) ... 328s Selecting previously unselected package r-cran-cli. 328s Preparing to unpack .../069-r-cran-cli_3.6.2-1_ppc64el.deb ... 328s Unpacking r-cran-cli (3.6.2-1) ... 328s Selecting previously unselected package r-cran-glue. 328s Preparing to unpack .../070-r-cran-glue_1.7.0-1_ppc64el.deb ... 328s Unpacking r-cran-glue (1.7.0-1) ... 328s Selecting previously unselected package r-cran-rlang. 328s Preparing to unpack .../071-r-cran-rlang_1.1.3-1_ppc64el.deb ... 328s Unpacking r-cran-rlang (1.1.3-1) ... 328s Selecting previously unselected package r-cran-lifecycle. 328s Preparing to unpack .../072-r-cran-lifecycle_1.0.4+dfsg-1_all.deb ... 328s Unpacking r-cran-lifecycle (1.0.4+dfsg-1) ... 328s Selecting previously unselected package r-cran-gtable. 328s Preparing to unpack .../073-r-cran-gtable_0.3.4+dfsg-1_all.deb ... 328s Unpacking r-cran-gtable (0.3.4+dfsg-1) ... 328s Selecting previously unselected package r-cran-isoband. 328s Preparing to unpack .../074-r-cran-isoband_0.2.7-1_ppc64el.deb ... 328s Unpacking r-cran-isoband (0.2.7-1) ... 328s Selecting previously unselected package r-cran-mass. 328s Preparing to unpack .../075-r-cran-mass_7.3-60.0.1-1_ppc64el.deb ... 328s Unpacking r-cran-mass (7.3-60.0.1-1) ... 328s Selecting previously unselected package r-cran-lattice. 328s Preparing to unpack .../076-r-cran-lattice_0.22-5-1_ppc64el.deb ... 328s Unpacking r-cran-lattice (0.22-5-1) ... 328s Selecting previously unselected package r-cran-nlme. 328s Preparing to unpack .../077-r-cran-nlme_3.1.164-1_ppc64el.deb ... 328s Unpacking r-cran-nlme (3.1.164-1) ... 328s Selecting previously unselected package r-cran-matrix. 328s Preparing to unpack .../078-r-cran-matrix_1.6-5-1_ppc64el.deb ... 328s Unpacking r-cran-matrix (1.6-5-1) ... 328s Selecting previously unselected package r-cran-mgcv. 328s Preparing to unpack .../079-r-cran-mgcv_1.9-1-1_ppc64el.deb ... 328s Unpacking r-cran-mgcv (1.9-1-1) ... 328s Selecting previously unselected package r-cran-farver. 328s Preparing to unpack .../080-r-cran-farver_2.1.1-1_ppc64el.deb ... 328s Unpacking r-cran-farver (2.1.1-1) ... 328s Selecting previously unselected package r-cran-labeling. 328s Preparing to unpack .../081-r-cran-labeling_0.4.3-1_all.deb ... 328s Unpacking r-cran-labeling (0.4.3-1) ... 328s Selecting previously unselected package r-cran-munsell. 328s Preparing to unpack .../082-r-cran-munsell_0.5.0-2build1_all.deb ... 328s Unpacking r-cran-munsell (0.5.0-2build1) ... 328s Selecting previously unselected package r-cran-r6. 328s Preparing to unpack .../083-r-cran-r6_2.5.1-1_all.deb ... 328s Unpacking r-cran-r6 (2.5.1-1) ... 328s Selecting previously unselected package r-cran-rcolorbrewer. 328s Preparing to unpack .../084-r-cran-rcolorbrewer_1.1-3-1build1_all.deb ... 328s Unpacking r-cran-rcolorbrewer (1.1-3-1build1) ... 328s Selecting previously unselected package r-cran-viridislite. 328s Preparing to unpack .../085-r-cran-viridislite_0.4.2-2_all.deb ... 328s Unpacking r-cran-viridislite (0.4.2-2) ... 328s Selecting previously unselected package r-cran-scales. 328s Preparing to unpack .../086-r-cran-scales_1.3.0-1_all.deb ... 328s Unpacking r-cran-scales (1.3.0-1) ... 328s Selecting previously unselected package r-cran-fansi. 328s Preparing to unpack .../087-r-cran-fansi_1.0.5-1_ppc64el.deb ... 328s Unpacking r-cran-fansi (1.0.5-1) ... 328s Selecting previously unselected package r-cran-magrittr. 328s Preparing to unpack .../088-r-cran-magrittr_2.0.3-1_ppc64el.deb ... 328s Unpacking r-cran-magrittr (2.0.3-1) ... 328s Selecting previously unselected package r-cran-utf8. 328s Preparing to unpack .../089-r-cran-utf8_1.2.4-1_ppc64el.deb ... 328s Unpacking r-cran-utf8 (1.2.4-1) ... 328s Selecting previously unselected package r-cran-vctrs. 328s Preparing to unpack .../090-r-cran-vctrs_0.6.5-1_ppc64el.deb ... 328s Unpacking r-cran-vctrs (0.6.5-1) ... 328s Selecting previously unselected package r-cran-pillar. 328s Preparing to unpack .../091-r-cran-pillar_1.9.0+dfsg-1_all.deb ... 328s Unpacking r-cran-pillar (1.9.0+dfsg-1) ... 328s Selecting previously unselected package r-cran-pkgconfig. 328s Preparing to unpack .../092-r-cran-pkgconfig_2.0.3-2build1_all.deb ... 328s Unpacking r-cran-pkgconfig (2.0.3-2build1) ... 328s Selecting previously unselected package r-cran-tibble. 328s Preparing to unpack .../093-r-cran-tibble_3.2.1+dfsg-2_ppc64el.deb ... 328s Unpacking r-cran-tibble (3.2.1+dfsg-2) ... 328s Selecting previously unselected package r-cran-withr. 328s Preparing to unpack .../094-r-cran-withr_2.5.0-1_all.deb ... 328s Unpacking r-cran-withr (2.5.0-1) ... 328s Selecting previously unselected package r-cran-ggplot2. 328s Preparing to unpack .../095-r-cran-ggplot2_3.4.4+dfsg-1_all.deb ... 328s Unpacking r-cran-ggplot2 (3.4.4+dfsg-1) ... 329s Selecting previously unselected package r-cran-zoo. 329s Preparing to unpack .../096-r-cran-zoo_1.8-12-2_ppc64el.deb ... 329s Unpacking r-cran-zoo (1.8-12-2) ... 329s Selecting previously unselected package r-cran-lmtest. 329s Preparing to unpack .../097-r-cran-lmtest_0.9.40-1_ppc64el.deb ... 329s Unpacking r-cran-lmtest (0.9.40-1) ... 329s Selecting previously unselected package r-cran-nnet. 329s Preparing to unpack .../098-r-cran-nnet_7.3-19-2_ppc64el.deb ... 329s Unpacking r-cran-nnet (7.3-19-2) ... 329s Selecting previously unselected package r-cran-littler. 329s Preparing to unpack .../099-r-cran-littler_0.3.19-1_ppc64el.deb ... 329s Unpacking r-cran-littler (0.3.19-1) ... 329s Selecting previously unselected package littler. 329s Preparing to unpack .../100-littler_0.3.19-1_all.deb ... 329s Unpacking littler (0.3.19-1) ... 329s Selecting previously unselected package r-cran-pkgkitten. 329s Preparing to unpack .../101-r-cran-pkgkitten_0.2.3-1_all.deb ... 329s Unpacking r-cran-pkgkitten (0.2.3-1) ... 329s Selecting previously unselected package r-cran-rcpp. 329s Preparing to unpack .../102-r-cran-rcpp_1.0.12-1_ppc64el.deb ... 329s Unpacking r-cran-rcpp (1.0.12-1) ... 329s Selecting previously unselected package r-cran-timedate. 329s Preparing to unpack .../103-r-cran-timedate_4032.109-1_ppc64el.deb ... 329s Unpacking r-cran-timedate (4032.109-1) ... 329s Selecting previously unselected package r-cran-quadprog. 329s Preparing to unpack .../104-r-cran-quadprog_1.5-8-1build1_ppc64el.deb ... 329s Unpacking r-cran-quadprog (1.5-8-1build1) ... 329s Selecting previously unselected package r-cran-xts. 329s Preparing to unpack .../105-r-cran-xts_0.13.2-1_ppc64el.deb ... 329s Unpacking r-cran-xts (0.13.2-1) ... 329s Selecting previously unselected package r-cran-curl. 329s Preparing to unpack .../106-r-cran-curl_5.2.0+dfsg-1_ppc64el.deb ... 329s Unpacking r-cran-curl (5.2.0+dfsg-1) ... 329s Selecting previously unselected package r-cran-ttr. 329s Preparing to unpack .../107-r-cran-ttr_0.24.4-1_ppc64el.deb ... 329s Unpacking r-cran-ttr (0.24.4-1) ... 329s Selecting previously unselected package r-cran-jsonlite. 329s Preparing to unpack .../108-r-cran-jsonlite_1.8.8+dfsg-1_ppc64el.deb ... 329s Unpacking r-cran-jsonlite (1.8.8+dfsg-1) ... 329s Selecting previously unselected package r-cran-quantmod. 329s Preparing to unpack .../109-r-cran-quantmod_0.4.26-1_all.deb ... 329s Unpacking r-cran-quantmod (0.4.26-1) ... 329s Selecting previously unselected package r-cran-tseries. 329s Preparing to unpack .../110-r-cran-tseries_0.10-55-1_ppc64el.deb ... 329s Unpacking r-cran-tseries (0.10-55-1) ... 329s Selecting previously unselected package r-cran-urca. 329s Preparing to unpack .../111-r-cran-urca_1.3-3-1_ppc64el.deb ... 329s Unpacking r-cran-urca (1.3-3-1) ... 329s Selecting previously unselected package r-cran-rcpparmadillo. 329s Preparing to unpack .../112-r-cran-rcpparmadillo_0.12.8.0.0-1_ppc64el.deb ... 329s Unpacking r-cran-rcpparmadillo (0.12.8.0.0-1) ... 329s Selecting previously unselected package r-cran-forecast. 329s Preparing to unpack .../113-r-cran-forecast_8.21.1-1_ppc64el.deb ... 329s Unpacking r-cran-forecast (8.21.1-1) ... 329s Selecting previously unselected package r-bioc-biocgenerics. 329s Preparing to unpack .../114-r-bioc-biocgenerics_0.48.1-2_all.deb ... 329s Unpacking r-bioc-biocgenerics (0.48.1-2) ... 329s Selecting previously unselected package r-bioc-biobase. 329s Preparing to unpack .../115-r-bioc-biobase_2.62.0-1_ppc64el.deb ... 329s Unpacking r-bioc-biobase (2.62.0-1) ... 329s Selecting previously unselected package r-cran-survival. 329s Preparing to unpack .../116-r-cran-survival_3.5-8-1_ppc64el.deb ... 329s Unpacking r-cran-survival (3.5-8-1) ... 329s Selecting previously unselected package r-bioc-multtest. 329s Preparing to unpack .../117-r-bioc-multtest_2.58.0-1_ppc64el.deb ... 329s Unpacking r-bioc-multtest (2.58.0-1) ... 329s Selecting previously unselected package r-cran-optparse. 330s Preparing to unpack .../118-r-cran-optparse_1.7.4-1_all.deb ... 330s Unpacking r-cran-optparse (1.7.4-1) ... 330s Selecting previously unselected package r-cran-uroot. 330s Preparing to unpack .../119-r-cran-uroot_2.1-3-1_all.deb ... 330s Unpacking r-cran-uroot (2.1-3-1) ... 330s Selecting previously unselected package pique. 330s Preparing to unpack .../120-pique_1.0-7_all.deb ... 330s Unpacking pique (1.0-7) ... 330s Selecting previously unselected package pique-doc. 330s Preparing to unpack .../121-pique-doc_1.0-7_all.deb ... 330s Unpacking pique-doc (1.0-7) ... 330s Selecting previously unselected package r-cran-cluster. 330s Preparing to unpack .../122-r-cran-cluster_2.1.6-1_ppc64el.deb ... 330s Unpacking r-cran-cluster (2.1.6-1) ... 330s Selecting previously unselected package r-cran-rpart. 330s Preparing to unpack .../123-r-cran-rpart_4.1.23-1_ppc64el.deb ... 330s Unpacking r-cran-rpart (4.1.23-1) ... 330s Selecting previously unselected package r-cran-foreign. 330s Preparing to unpack .../124-r-cran-foreign_0.8.86-1_ppc64el.deb ... 330s Unpacking r-cran-foreign (0.8.86-1) ... 330s Selecting previously unselected package r-cran-gridextra. 330s Preparing to unpack .../125-r-cran-gridextra_2.3-3build1_all.deb ... 330s Unpacking r-cran-gridextra (2.3-3build1) ... 330s Selecting previously unselected package r-cran-data.table. 330s Preparing to unpack .../126-r-cran-data.table_1.14.10+dfsg-1_ppc64el.deb ... 330s Unpacking r-cran-data.table (1.14.10+dfsg-1) ... 330s Selecting previously unselected package r-cran-stringi. 330s Preparing to unpack .../127-r-cran-stringi_1.8.3-1_ppc64el.deb ... 330s Unpacking r-cran-stringi (1.8.3-1) ... 330s Selecting previously unselected package r-cran-stringr. 330s Preparing to unpack .../128-r-cran-stringr_1.5.1-1_all.deb ... 330s Unpacking r-cran-stringr (1.5.1-1) ... 330s Selecting previously unselected package r-cran-evaluate. 330s Preparing to unpack .../129-r-cran-evaluate_0.23-1_all.deb ... 330s Unpacking r-cran-evaluate (0.23-1) ... 330s Selecting previously unselected package r-cran-xfun. 330s Preparing to unpack .../130-r-cran-xfun_0.41+dfsg-1_ppc64el.deb ... 330s Unpacking r-cran-xfun (0.41+dfsg-1) ... 330s Selecting previously unselected package libjs-highlight.js. 330s Preparing to unpack .../131-libjs-highlight.js_9.18.5+dfsg1-2_all.deb ... 330s Unpacking libjs-highlight.js (9.18.5+dfsg1-2) ... 330s Selecting previously unselected package libjs-jquery. 330s Preparing to unpack .../132-libjs-jquery_3.6.1+dfsg+~3.5.14-1_all.deb ... 330s Unpacking libjs-jquery (3.6.1+dfsg+~3.5.14-1) ... 330s Selecting previously unselected package r-cran-highr. 330s Preparing to unpack .../133-r-cran-highr_0.10+dfsg-1_all.deb ... 330s Unpacking r-cran-highr (0.10+dfsg-1) ... 330s Selecting previously unselected package r-cran-yaml. 330s Preparing to unpack .../134-r-cran-yaml_2.3.8-1_ppc64el.deb ... 330s Unpacking r-cran-yaml (2.3.8-1) ... 330s Selecting previously unselected package fonts-mathjax. 330s Preparing to unpack .../135-fonts-mathjax_2.7.9+dfsg-1_all.deb ... 330s Unpacking fonts-mathjax (2.7.9+dfsg-1) ... 330s Selecting previously unselected package libjs-mathjax. 330s Preparing to unpack .../136-libjs-mathjax_2.7.9+dfsg-1_all.deb ... 330s Unpacking libjs-mathjax (2.7.9+dfsg-1) ... 332s Selecting previously unselected package fonts-glyphicons-halflings. 332s Preparing to unpack .../137-fonts-glyphicons-halflings_1.009~3.4.1+dfsg-3_all.deb ... 332s Unpacking fonts-glyphicons-halflings (1.009~3.4.1+dfsg-3) ... 332s Selecting previously unselected package libjs-bootstrap. 332s Preparing to unpack .../138-libjs-bootstrap_3.4.1+dfsg-3_all.deb ... 332s Unpacking libjs-bootstrap (3.4.1+dfsg-3) ... 332s Selecting previously unselected package libjs-jquery-datatables. 332s Preparing to unpack .../139-libjs-jquery-datatables_1.11.5+dfsg-2_all.deb ... 332s Unpacking libjs-jquery-datatables (1.11.5+dfsg-2) ... 332s Selecting previously unselected package node-normalize.css. 332s Preparing to unpack .../140-node-normalize.css_8.0.1-5_all.deb ... 332s Unpacking node-normalize.css (8.0.1-5) ... 332s Selecting previously unselected package r-cran-knitr. 332s Preparing to unpack .../141-r-cran-knitr_1.45+dfsg-1_all.deb ... 332s Unpacking r-cran-knitr (1.45+dfsg-1) ... 332s Selecting previously unselected package r-cran-backports. 332s Preparing to unpack .../142-r-cran-backports_1.4.1-1_ppc64el.deb ... 332s Unpacking r-cran-backports (1.4.1-1) ... 332s Selecting previously unselected package r-cran-checkmate. 332s Preparing to unpack .../143-r-cran-checkmate_2.3.1-1_ppc64el.deb ... 332s Unpacking r-cran-checkmate (2.3.1-1) ... 332s Selecting previously unselected package r-cran-base64enc. 332s Preparing to unpack .../144-r-cran-base64enc_0.1-3-3_ppc64el.deb ... 332s Unpacking r-cran-base64enc (0.1-3-3) ... 332s Selecting previously unselected package r-cran-digest. 332s Preparing to unpack .../145-r-cran-digest_0.6.34-1_ppc64el.deb ... 332s Unpacking r-cran-digest (0.6.34-1) ... 332s Selecting previously unselected package r-cran-ellipsis. 332s Preparing to unpack .../146-r-cran-ellipsis_0.3.2-2_ppc64el.deb ... 332s Unpacking r-cran-ellipsis (0.3.2-2) ... 332s Selecting previously unselected package r-cran-fastmap. 332s Preparing to unpack .../147-r-cran-fastmap_1.1.1-1_ppc64el.deb ... 332s Unpacking r-cran-fastmap (1.1.1-1) ... 332s Selecting previously unselected package r-cran-htmltools. 332s Preparing to unpack .../148-r-cran-htmltools_0.5.7-1_ppc64el.deb ... 332s Unpacking r-cran-htmltools (0.5.7-1) ... 332s Selecting previously unselected package r-cran-cachem. 332s Preparing to unpack .../149-r-cran-cachem_1.0.8-1_ppc64el.deb ... 332s Unpacking r-cran-cachem (1.0.8-1) ... 332s Selecting previously unselected package r-cran-jquerylib. 332s Preparing to unpack .../150-r-cran-jquerylib_0.1.4+dfsg-4_all.deb ... 332s Unpacking r-cran-jquerylib (0.1.4+dfsg-4) ... 332s Selecting previously unselected package r-cran-memoise. 332s Preparing to unpack .../151-r-cran-memoise_2.0.1-1_all.deb ... 332s Unpacking r-cran-memoise (2.0.1-1) ... 332s Selecting previously unselected package r-cran-mime. 332s Preparing to unpack .../152-r-cran-mime_0.12-1_ppc64el.deb ... 332s Unpacking r-cran-mime (0.12-1) ... 332s Selecting previously unselected package r-cran-fs. 332s Preparing to unpack .../153-r-cran-fs_1.6.3+dfsg-1_ppc64el.deb ... 332s Unpacking r-cran-fs (1.6.3+dfsg-1) ... 332s Selecting previously unselected package r-cran-rappdirs. 332s Preparing to unpack .../154-r-cran-rappdirs_0.3.3-1_ppc64el.deb ... 332s Unpacking r-cran-rappdirs (0.3.3-1) ... 332s Selecting previously unselected package r-cran-sass. 332s Preparing to unpack .../155-r-cran-sass_0.4.8+dfsg-1_ppc64el.deb ... 332s Unpacking r-cran-sass (0.4.8+dfsg-1) ... 332s Selecting previously unselected package node-bootstrap-sass. 332s Preparing to unpack .../156-node-bootstrap-sass_3.4.3-2_all.deb ... 332s Unpacking node-bootstrap-sass (3.4.3-2) ... 332s Selecting previously unselected package javascript-common. 332s Preparing to unpack .../157-javascript-common_11+nmu1_all.deb ... 332s Unpacking javascript-common (11+nmu1) ... 332s Selecting previously unselected package libjs-popper.js. 332s Preparing to unpack .../158-libjs-popper.js_1.16.1+ds-6_all.deb ... 332s Unpacking libjs-popper.js (1.16.1+ds-6) ... 332s Selecting previously unselected package libjs-bootstrap4. 332s Preparing to unpack .../159-libjs-bootstrap4_4.6.1+dfsg1-4_all.deb ... 332s Unpacking libjs-bootstrap4 (4.6.1+dfsg1-4) ... 332s Selecting previously unselected package r-cran-bslib. 332s Preparing to unpack .../160-r-cran-bslib_0.6.1+dfsg-1_all.deb ... 332s Unpacking r-cran-bslib (0.6.1+dfsg-1) ... 332s Selecting previously unselected package r-cran-fontawesome. 332s Preparing to unpack .../161-r-cran-fontawesome_0.5.2-1_all.deb ... 332s Unpacking r-cran-fontawesome (0.5.2-1) ... 332s Selecting previously unselected package r-cran-tinytex. 332s Preparing to unpack .../162-r-cran-tinytex_0.49-1_all.deb ... 332s Unpacking r-cran-tinytex (0.49-1) ... 332s Selecting previously unselected package libjs-jquery-ui. 332s Preparing to unpack .../163-libjs-jquery-ui_1.13.2+dfsg-1_all.deb ... 332s Unpacking libjs-jquery-ui (1.13.2+dfsg-1) ... 333s Selecting previously unselected package libjs-modernizr. 333s Preparing to unpack .../164-libjs-modernizr_2.6.2+ds1-5_all.deb ... 333s Unpacking libjs-modernizr (2.6.2+ds1-5) ... 333s Selecting previously unselected package libjs-prettify. 333s Preparing to unpack .../165-libjs-prettify_2015.12.04+dfsg-1.1_all.deb ... 333s Unpacking libjs-prettify (2015.12.04+dfsg-1.1) ... 333s Selecting previously unselected package fonts-font-awesome. 333s Preparing to unpack .../166-fonts-font-awesome_5.0.10+really4.7.0~dfsg-4.1_all.deb ... 333s Unpacking fonts-font-awesome (5.0.10+really4.7.0~dfsg-4.1) ... 333s Selecting previously unselected package pandoc-data. 333s Preparing to unpack .../167-pandoc-data_3.1.3-1_all.deb ... 333s Unpacking pandoc-data (3.1.3-1) ... 333s Selecting previously unselected package pandoc. 333s Preparing to unpack .../168-pandoc_3.1.3+ds-2_ppc64el.deb ... 333s Unpacking pandoc (3.1.3+ds-2) ... 334s Selecting previously unselected package r-cran-later. 334s Preparing to unpack .../169-r-cran-later_1.3.2+dfsg-1_ppc64el.deb ... 334s Unpacking r-cran-later (1.3.2+dfsg-1) ... 334s Selecting previously unselected package r-cran-promises. 334s Preparing to unpack .../170-r-cran-promises_1.2.1+dfsg-1_ppc64el.deb ... 334s Unpacking r-cran-promises (1.2.1+dfsg-1) ... 334s Selecting previously unselected package r-cran-httpuv. 334s Preparing to unpack .../171-r-cran-httpuv_1.6.14+dfsg-1_ppc64el.deb ... 334s Unpacking r-cran-httpuv (1.6.14+dfsg-1) ... 334s Selecting previously unselected package r-cran-xtable. 334s Preparing to unpack .../172-r-cran-xtable_1%3a1.8-4-2_all.deb ... 334s Unpacking r-cran-xtable (1:1.8-4-2) ... 335s Selecting previously unselected package r-cran-sourcetools. 335s Preparing to unpack .../173-r-cran-sourcetools_0.1.7-1-1_ppc64el.deb ... 335s Unpacking r-cran-sourcetools (0.1.7-1-1) ... 335s Selecting previously unselected package r-cran-crayon. 335s Preparing to unpack .../174-r-cran-crayon_1.5.2-1_all.deb ... 335s Unpacking r-cran-crayon (1.5.2-1) ... 335s Selecting previously unselected package r-cran-commonmark. 335s Preparing to unpack .../175-r-cran-commonmark_1.9.1-1_ppc64el.deb ... 335s Unpacking r-cran-commonmark (1.9.1-1) ... 335s Selecting previously unselected package libjs-json. 335s Preparing to unpack .../176-libjs-json_0~20221030+~1.0.8-1_all.deb ... 335s Unpacking libjs-json (0~20221030+~1.0.8-1) ... 335s Selecting previously unselected package libjs-es5-shim. 335s Preparing to unpack .../177-libjs-es5-shim_4.6.7-2_all.deb ... 335s Unpacking libjs-es5-shim (4.6.7-2) ... 335s Selecting previously unselected package libjs-twitter-bootstrap-datepicker. 335s Preparing to unpack .../178-libjs-twitter-bootstrap-datepicker_1.3.1+dfsg1-4.1_all.deb ... 335s Unpacking libjs-twitter-bootstrap-datepicker (1.3.1+dfsg1-4.1) ... 335s Selecting previously unselected package libjs-sifter.js. 335s Preparing to unpack .../179-libjs-sifter.js_0.6.0+dfsg-3_all.deb ... 335s Unpacking libjs-sifter.js (0.6.0+dfsg-3) ... 335s Selecting previously unselected package libjs-microplugin.js. 335s Preparing to unpack .../180-libjs-microplugin.js_0.0.3+dfsg-1.1_all.deb ... 335s Unpacking libjs-microplugin.js (0.0.3+dfsg-1.1) ... 335s Selecting previously unselected package libjs-jquery-selectize.js. 335s Preparing to unpack .../181-libjs-jquery-selectize.js_0.12.6+dfsg-1.1_all.deb ... 335s Unpacking libjs-jquery-selectize.js (0.12.6+dfsg-1.1) ... 335s Selecting previously unselected package libjs-d3. 335s Preparing to unpack .../182-libjs-d3_3.5.17-4_all.deb ... 335s Unpacking libjs-d3 (3.5.17-4) ... 335s Selecting previously unselected package node-html5shiv. 335s Preparing to unpack .../183-node-html5shiv_3.7.3+dfsg-5_all.deb ... 335s Unpacking node-html5shiv (3.7.3+dfsg-5) ... 335s Selecting previously unselected package r-cran-shiny. 335s Preparing to unpack .../184-r-cran-shiny_1.8.0+dfsg-1_all.deb ... 335s Unpacking r-cran-shiny (1.8.0+dfsg-1) ... 335s Selecting previously unselected package r-cran-rmarkdown. 335s Preparing to unpack .../185-r-cran-rmarkdown_2.25+dfsg-3_all.deb ... 335s Unpacking r-cran-rmarkdown (2.25+dfsg-3) ... 335s Selecting previously unselected package r-cran-htmlwidgets. 335s Preparing to unpack .../186-r-cran-htmlwidgets_1.6.4+dfsg-1_all.deb ... 335s Unpacking r-cran-htmlwidgets (1.6.4+dfsg-1) ... 335s Selecting previously unselected package r-cran-rstudioapi. 335s Preparing to unpack .../187-r-cran-rstudioapi_0.15.0-1_all.deb ... 335s Unpacking r-cran-rstudioapi (0.15.0-1) ... 335s Selecting previously unselected package r-cran-tidyselect. 335s Preparing to unpack .../188-r-cran-tidyselect_1.2.0+dfsg-1_ppc64el.deb ... 335s Unpacking r-cran-tidyselect (1.2.0+dfsg-1) ... 335s Selecting previously unselected package r-cran-dplyr. 335s Preparing to unpack .../189-r-cran-dplyr_1.1.4-1_ppc64el.deb ... 335s Unpacking r-cran-dplyr (1.1.4-1) ... 335s Selecting previously unselected package r-cran-purrr. 335s Preparing to unpack .../190-r-cran-purrr_1.0.2-1_ppc64el.deb ... 335s Unpacking r-cran-purrr (1.0.2-1) ... 335s Selecting previously unselected package r-cran-cpp11. 335s Preparing to unpack .../191-r-cran-cpp11_0.4.7-1_all.deb ... 335s Unpacking r-cran-cpp11 (0.4.7-1) ... 335s Selecting previously unselected package r-cran-tidyr. 335s Preparing to unpack .../192-r-cran-tidyr_1.3.1-1_ppc64el.deb ... 335s Unpacking r-cran-tidyr (1.3.1-1) ... 335s Selecting previously unselected package r-cran-htmltable. 335s Preparing to unpack .../193-r-cran-htmltable_2.4.2-1_all.deb ... 335s Unpacking r-cran-htmltable (2.4.2-1) ... 335s Selecting previously unselected package r-cran-viridis. 335s Preparing to unpack .../194-r-cran-viridis_0.6.5-1_all.deb ... 335s Unpacking r-cran-viridis (0.6.5-1) ... 335s Selecting previously unselected package r-cran-formula. 335s Preparing to unpack .../195-r-cran-formula_1.2-5-1_all.deb ... 335s Unpacking r-cran-formula (1.2-5-1) ... 335s Selecting previously unselected package r-cran-chron. 335s Preparing to unpack .../196-r-cran-chron_2.3-61-2_ppc64el.deb ... 335s Unpacking r-cran-chron (2.3-61-2) ... 335s Selecting previously unselected package r-cran-png. 335s Preparing to unpack .../197-r-cran-png_0.1-8-1_ppc64el.deb ... 335s Unpacking r-cran-png (0.1-8-1) ... 335s Selecting previously unselected package r-cran-jpeg. 335s Preparing to unpack .../198-r-cran-jpeg_0.1-10-1_ppc64el.deb ... 335s Unpacking r-cran-jpeg (0.1-10-1) ... 335s Selecting previously unselected package r-cran-deldir. 335s Preparing to unpack .../199-r-cran-deldir_2.0-4-1_ppc64el.deb ... 335s Unpacking r-cran-deldir (2.0-4-1) ... 335s Selecting previously unselected package r-cran-rcppeigen. 335s Preparing to unpack .../200-r-cran-rcppeigen_0.3.3.9.4-1_ppc64el.deb ... 335s Unpacking r-cran-rcppeigen (0.3.3.9.4-1) ... 335s Selecting previously unselected package r-cran-interp. 335s Preparing to unpack .../201-r-cran-interp_1.1-6-1_ppc64el.deb ... 335s Unpacking r-cran-interp (1.1-6-1) ... 335s Selecting previously unselected package r-cran-latticeextra. 335s Preparing to unpack .../202-r-cran-latticeextra_0.6-30-1_all.deb ... 335s Unpacking r-cran-latticeextra (0.6-30-1) ... 335s Selecting previously unselected package r-cran-acepack. 335s Preparing to unpack .../203-r-cran-acepack_1.4.2-1_ppc64el.deb ... 335s Unpacking r-cran-acepack (1.4.2-1) ... 335s Selecting previously unselected package r-cran-hmisc. 335s Preparing to unpack .../204-r-cran-hmisc_5.1-1-1_ppc64el.deb ... 335s Unpacking r-cran-hmisc (5.1-1-1) ... 335s Setting up libjs-json (0~20221030+~1.0.8-1) ... 335s Setting up javascript-common (11+nmu1) ... 335s Setting up libgraphite2-3:ppc64el (1.3.14-2) ... 335s Setting up libpixman-1-0:ppc64el (0.42.2-1) ... 335s Setting up libsharpyuv0:ppc64el (1.3.2-0.4) ... 335s Setting up libpaper1:ppc64el (1.1.29) ... 336s 336s Creating config file /etc/papersize with new version 336s Setting up libfile-slurp-perl (9999.32-2) ... 336s Setting up fonts-mathjax (2.7.9+dfsg-1) ... 336s Setting up liblerc4:ppc64el (4.0.0+ds-4ubuntu1) ... 336s Setting up libjs-mathjax (2.7.9+dfsg-1) ... 336s Setting up pique-doc (1.0-7) ... 336s Setting up libxrender1:ppc64el (1:0.9.10-1.1) ... 336s Setting up libdynaloader-functions-perl (0.003-3) ... 336s Setting up libdatrie1:ppc64el (0.2.13-3) ... 336s Setting up libgslcblas0:ppc64el (2.7.1+dfsg-6ubuntu1) ... 336s Setting up libclass-method-modifiers-perl (2.15-1) ... 336s Setting up libjs-popper.js (1.16.1+ds-6) ... 336s Setting up libxcb-render0:ppc64el (1.15-1) ... 336s Setting up libjs-sifter.js (0.6.0+dfsg-3) ... 336s Setting up fonts-glyphicons-halflings (1.009~3.4.1+dfsg-3) ... 336s Setting up unzip (6.0-28ubuntu3) ... 336s Setting up x11-common (1:7.7+23ubuntu2) ... 336s Setting up node-html5shiv (3.7.3+dfsg-5) ... 336s Setting up libdeflate0:ppc64el (1.19-1) ... 336s Setting up libgsl27:ppc64el (2.7.1+dfsg-6ubuntu1) ... 336s Setting up libjs-microplugin.js (0.0.3+dfsg-1.1) ... 336s Setting up libxcb-shm0:ppc64el (1.15-1) ... 336s Setting up libpaper-utils (1.1.29) ... 336s Setting up libgomp1:ppc64el (14-20240303-1ubuntu1) ... 336s Setting up libjs-modernizr (2.6.2+ds1-5) ... 336s Setting up libjbig0:ppc64el (2.1-6.1ubuntu1) ... 336s Setting up libjs-es5-shim (4.6.7-2) ... 336s Setting up libreadonly-perl (2.050-3) ... 336s Setting up zip (3.0-13) ... 336s Setting up libblas3:ppc64el (3.12.0-3) ... 336s 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 336s Setting up libjs-d3 (3.5.17-4) ... 336s Setting up fonts-dejavu-mono (2.37-8) ... 336s Setting up libtcl8.6:ppc64el (8.6.13+dfsg-2) ... 336s Setting up libb-hooks-op-check-perl:ppc64el (0.22-2build2) ... 336s Setting up fonts-dejavu-core (2.37-8) ... 336s Setting up libjpeg-turbo8:ppc64el (2.1.5-2ubuntu1) ... 336s Setting up libgfortran5:ppc64el (14-20240303-1ubuntu1) ... 336s Setting up libwebp7:ppc64el (1.3.2-0.4) ... 336s Setting up plink (1.07+dfsg-4) ... 336s Setting up libjs-highlight.js (9.18.5+dfsg1-2) ... 336s Setting up librole-tiny-perl (2.002004-1) ... 336s Setting up libharfbuzz0b:ppc64el (8.3.0-2) ... 336s Setting up libthai-data (0.1.29-2) ... 336s Setting up node-bootstrap-sass (3.4.3-2) ... 336s Setting up libsub-quote-perl (2.006008-1ubuntu1) ... 336s Setting up libjs-prettify (2015.12.04+dfsg-1.1) ... 336s Setting up libclass-xsaccessor-perl (1.19-4build2) ... 336s Setting up libxss1:ppc64el (1:1.2.3-1build2) ... 336s Setting up libjs-bootstrap4 (4.6.1+dfsg1-4) ... 336s Setting up pandoc-data (3.1.3-1) ... 336s Setting up libjs-jquery (3.6.1+dfsg+~3.5.14-1) ... 336s Setting up node-normalize.css (8.0.1-5) ... 336s Setting up fonts-font-awesome (5.0.10+really4.7.0~dfsg-4.1) ... 336s Setting up xdg-utils (1.1.3-4.1ubuntu3) ... 336s update-alternatives: using /usr/bin/xdg-open to provide /usr/bin/open (open) in auto mode 336s Setting up libjs-bootstrap (3.4.1+dfsg-3) ... 336s Setting up libjs-jquery-selectize.js (0.12.6+dfsg-1.1) ... 336s Setting up libjpeg8:ppc64el (8c-2ubuntu11) ... 336s Setting up libice6:ppc64el (2:1.0.10-1build2) ... 336s Setting up liblapack3:ppc64el (3.12.0-3) ... 336s 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 336s Setting up fontconfig-config (2.15.0-1ubuntu1) ... 336s Setting up libjs-twitter-bootstrap-datepicker (1.3.1+dfsg1-4.1) ... 336s Setting up libdevel-callchecker-perl:ppc64el (0.008-2build1) ... 336s Setting up libjs-jquery-datatables (1.11.5+dfsg-2) ... 336s Setting up libthai0:ppc64el (0.1.29-2) ... 336s Setting up libtmglib3:ppc64el (3.12.0-3) ... 336s Setting up libjs-jquery-ui (1.13.2+dfsg-1) ... 336s Setting up pandoc (3.1.3+ds-2) ... 336s Setting up liblapacke:ppc64el (3.12.0-3) ... 336s Setting up libtiff6:ppc64el (4.5.1+git230720-3ubuntu1) ... 336s Setting up libfontconfig1:ppc64el (2.15.0-1ubuntu1) ... 336s Setting up eigensoft 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(2.02-1) ... 339s Setting up r-cran-labeling (0.4.3-1) ... 339s Setting up r-cran-sourcetools (0.1.7-1-1) ... 339s Setting up r-cran-lattice (0.22-5-1) ... 339s Setting up r-cran-nlme (3.1.164-1) ... 339s Setting up r-cran-farver (2.1.1-1) ... 339s Setting up r-cran-formula (1.2-5-1) ... 339s Setting up r-cran-viridislite (0.4.2-2) ... 339s Setting up r-cran-cluster (2.1.6-1) ... 339s Setting up r-cran-nnet (7.3-19-2) ... 339s Setting up r-cran-commonmark (1.9.1-1) ... 339s Setting up r-cran-r6 (2.5.1-1) ... 339s Setting up r-cran-pkgkitten (0.2.3-1) ... 339s Setting up r-cran-jpeg (0.1-10-1) ... 339s Setting up r-cran-chron (2.3-61-2) ... 339s Setting up r-cran-magrittr (2.0.3-1) ... 339s Setting up r-cran-rappdirs (0.3.3-1) ... 339s Setting up r-cran-quadprog (1.5-8-1build1) ... 339s Setting up r-cran-littler (0.3.19-1) ... 339s Setting up r-cran-fs (1.6.3+dfsg-1) ... 339s Setting up r-cran-rcpp (1.0.12-1) ... 339s Setting up r-cran-curl (5.2.0+dfsg-1) ... 339s Setting up 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(1.3.2+dfsg-1) ... 339s Setting up r-cran-matrix (1.6-5-1) ... 339s Setting up r-cran-tinytex (0.49-1) ... 339s Setting up r-cran-knitr (1.45+dfsg-1) ... 339s Setting up r-cran-mgcv (1.9-1-1) ... 339s Setting up r-cran-cachem (1.0.8-1) ... 339s Setting up r-cran-lmtest (0.9.40-1) ... 339s Setting up r-cran-rcpparmadillo (0.12.8.0.0-1) ... 339s Setting up r-cran-optparse (1.7.4-1) ... 339s Setting up r-cran-vctrs (0.6.5-1) ... 339s Setting up r-cran-rcppeigen (0.3.3.9.4-1) ... 339s Setting up r-cran-pillar (1.9.0+dfsg-1) ... 339s Setting up r-cran-ellipsis (0.3.2-2) ... 339s Setting up r-cran-stringr (1.5.1-1) ... 339s Setting up r-cran-munsell (0.5.0-2build1) ... 339s Setting up r-cran-tibble (3.2.1+dfsg-2) ... 339s Setting up r-cran-survival (3.5-8-1) ... 339s Setting up r-cran-xts (0.13.2-1) ... 339s Setting up r-cran-tidyselect (1.2.0+dfsg-1) ... 339s Setting up r-cran-interp (1.1-6-1) ... 339s Setting up r-cran-gridextra (2.3-3build1) ... 339s Setting up r-cran-scales (1.3.0-1) ... 339s Setting up r-cran-memoise (2.0.1-1) ... 339s Setting up r-cran-promises (1.2.1+dfsg-1) ... 339s Setting up r-cran-purrr (1.0.2-1) ... 339s Setting up r-cran-htmltools (0.5.7-1) ... 339s Setting up r-cran-sass (0.4.8+dfsg-1) ... 339s Setting up r-cran-dplyr (1.1.4-1) ... 339s Setting up r-cran-ttr (0.24.4-1) ... 339s Setting up r-bioc-multtest (2.58.0-1) ... 339s Setting up r-cran-ggplot2 (3.4.4+dfsg-1) ... 339s Setting up r-cran-httpuv (1.6.14+dfsg-1) ... 339s Setting up r-cran-rpart (4.1.23-1) ... 339s Setting up r-cran-fontawesome (0.5.2-1) ... 339s Setting up r-cran-latticeextra (0.6-30-1) ... 339s Setting up r-cran-jquerylib (0.1.4+dfsg-4) ... 339s Setting up r-cran-viridis (0.6.5-1) ... 339s Setting up r-cran-bslib (0.6.1+dfsg-1) ... 339s Setting up r-cran-tidyr (1.3.1-1) ... 339s Setting up r-cran-quantmod (0.4.26-1) ... 339s Setting up r-cran-shiny (1.8.0+dfsg-1) ... 339s Setting up r-cran-tseries (0.10-55-1) ... 339s Setting up r-cran-rmarkdown (2.25+dfsg-3) ... 339s Setting up r-cran-forecast (8.21.1-1) ... 339s Setting up r-cran-htmlwidgets (1.6.4+dfsg-1) ... 339s Setting up pique (1.0-7) ... 339s Setting up r-cran-htmltable (2.4.2-1) ... 339s Setting up r-cran-hmisc (5.1-1-1) ... 339s Setting up autopkgtest-satdep (0) ... 339s Processing triggers for man-db (2.12.0-3) ... 340s Processing triggers for install-info (7.1-3) ... 340s Processing triggers for libc-bin (2.39-0ubuntu2) ... 349s (Reading database ... 89854 files and directories currently installed.) 349s Removing autopkgtest-satdep (0) ... 350s autopkgtest [11:57:41]: test run-unit-test: [----------------------- 350s wget --no-check-certificate http://ricediversity.org/data/sets/44kgwas/RiceDiversity.44K.MSU6.Genotypes_PLINK.zip 350s --2024-03-13 11:57:41-- http://ricediversity.org/data/sets/44kgwas/RiceDiversity.44K.MSU6.Genotypes_PLINK.zip 350s Resolving squid.internal (squid.internal)... 185.125.188.86, 185.125.188.85 350s Connecting to squid.internal (squid.internal)|185.125.188.86|:3128... connected. 350s Proxy request sent, awaiting response... 200 OK 350s Length: 7107854 (6.8M) [application/zip] 350s Saving to: ‘RiceDiversity.44K.MSU6.Genotypes_PLINK.zip’ 350s 351s 0K .......... .......... .......... .......... .......... 0% 289K 24s 351s 50K .......... .......... .......... .......... .......... 1% 628K 17s 351s 100K .......... .......... .......... .......... .......... 2% 1.48M 13s 351s 150K .......... .......... .......... .......... .......... 2% 688K 12s 351s 200K .......... .......... .......... .......... .......... 3% 2.08M 10s 351s 250K .......... .......... .......... .......... .......... 4% 2.84M 9s 351s 300K .......... .......... .......... .......... .......... 5% 1.20M 8s 351s 350K .......... .......... .......... .......... .......... 5% 3.06M 7s 351s 400K .......... .......... .......... .......... .......... 6% 3.98M 7s 351s 450K .......... .......... .......... .......... .......... 7% 3.90M 6s 351s 500K 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.......... .......... .......... 98% 14.3M 0s 351s 6850K .......... .......... .......... .......... .......... 99% 24.2M 0s 351s 6900K .......... .......... .......... .......... . 100% 121M=0.8s 351s 351s 2024-03-13 11:57:42 (8.44 MB/s) - ‘RiceDiversity.44K.MSU6.Genotypes_PLINK.zip’ saved [7107854/7107854] 351s 351s unzip RiceDiversity.44K.MSU6.Genotypes_PLINK.zip 351s Archive: RiceDiversity.44K.MSU6.Genotypes_PLINK.zip 351s creating: RiceDiversity_44K_Genotypes_PLINK/ 351s inflating: RiceDiversity_44K_Genotypes_PLINK/sativas413.fam 351s creating: __MACOSX/ 351s creating: __MACOSX/RiceDiversity_44K_Genotypes_PLINK/ 351s inflating: __MACOSX/RiceDiversity_44K_Genotypes_PLINK/._sativas413.fam 351s inflating: RiceDiversity_44K_Genotypes_PLINK/sativas413.map 351s inflating: __MACOSX/RiceDiversity_44K_Genotypes_PLINK/._sativas413.map 352s inflating: RiceDiversity_44K_Genotypes_PLINK/sativas413.ped 352s inflating: __MACOSX/RiceDiversity_44K_Genotypes_PLINK/._sativas413.ped 352s mv -i ./RiceDiversity_44K_Genotypes_PLINK/sativas* . 352s rmdir RiceDiversity_44K_Genotypes_PLINK 352s rm RiceDiversity.44K.MSU6.Genotypes_PLINK.zip 352s pique-input -d -v -i sativas413 -o sativas_GWAS -p rice_phenotype.txt -k -c -e 5 352s Pre-process input data... 352s /usr/bin/p-link --missing-genotype 0 --recode12 --file sativas413 --out sativas413_recode12 352s 352s @----------------------------------------------------------@ 352s | PLINK! | v1.07 | 10/Aug/2009 | 352s |----------------------------------------------------------| 352s | (C) 2009 Shaun Purcell, GNU General Public License, v2 | 352s |----------------------------------------------------------| 352s | For documentation, citation & bug-report instructions: | 352s | http://pngu.mgh.harvard.edu/purcell/plink/ | 352s @----------------------------------------------------------@ 352s 352s Web-based version check ( --noweb to skip ) 486s Connecting to web... failed connection 486s 486s Problem connecting to web 486s 486s Writing this text to log file [ sativas413_recode12.log ] 486s Analysis started: Wed Mar 13 11:59:57 2024 486s 486s Options in effect: 486s --missing-genotype 0 486s --recode12 486s --file sativas413 486s --out sativas413_recode12 486s 486s 36901 (of 36901) markers to be included from [ sativas413.map ] 487s Warning, found 413 individuals with ambiguous sex codes 487s Writing list of these individuals to [ sativas413_recode12.nosex ] 487s 413 individuals read from [ sativas413.ped ] 487s 0 individuals with nonmissing phenotypes 487s Assuming a disease phenotype (1=unaff, 2=aff, 0=miss) 487s Missing phenotype value is also -9 487s 0 cases, 0 controls and 413 missing 487s 0 males, 0 females, and 413 of unspecified sex 487s Before frequency and genotyping pruning, there are 36901 SNPs 487s 413 founders and 0 non-founders found 487s Total genotyping rate in remaining individuals is 0.956644 487s 0 SNPs failed missingness test ( GENO > 1 ) 487s 0 SNPs failed frequency test ( MAF < 0 ) 487s After frequency and genotyping pruning, there are 36901 SNPs 487s After filtering, 0 cases, 0 controls and 413 missing 487s After filtering, 0 males, 0 females, and 413 of unspecified sex 487s Writing recoded ped file to [ sativas413_recode12.ped ] 488s Writing new map file to [ sativas413_recode12.map ] 488s 488s Analysis finished: Wed Mar 13 11:59:59 2024 488s 488s Store phenotype data indexed by genotype... 488s cd sativas_GWAS 488s Filter accessions for phenotype from ../sativas413_recode12... 488s Checking concurrence of id's in .ped and .pheno input files... 488s 488s Total number of accession ids in ../sativas413_recode12.ped: 413 488s Number of accession id's in ../sativas413_recode12.ped not present in rice_phenotype.txt: 35 488s '398' '399' '400' '616' '619' '621' '622' '628' '635' '636' '637' '638' '639' '640' '641' '642' '643' '644' '645' '647' '651' '652' '648' '620' '623' '624' '625' '626' '627' '630' '632' '633' '634' '629' '618' 488s Total number of accession id's in rice_phenotype.txt: 378 488s Number of accession id's in rice_phenotype.txt not present in ../sativas413_recode12.ped: 0 488s 488s Quality control sativas_GWAS... 488s 488s Calculating MAF... 488s /usr/bin/p-link --missing-genotype 0 --freq --file sativas_GWAS --out sativas_GWAS 488s 488s @----------------------------------------------------------@ 488s | PLINK! | v1.07 | 10/Aug/2009 | 488s |----------------------------------------------------------| 488s | (C) 2009 Shaun Purcell, GNU General Public License, v2 | 488s |----------------------------------------------------------| 488s | For documentation, citation & bug-report instructions: | 488s | http://pngu.mgh.harvard.edu/purcell/plink/ | 488s @----------------------------------------------------------@ 488s 488s Web-based version check ( --noweb to skip ) 623s Connecting to web... failed connection 623s 623s Problem connecting to web 623s 623s Writing this text to log file [ sativas_GWAS.log ] 623s Analysis started: Wed Mar 13 12:02:14 2024 623s 623s Options in effect: 623s --missing-genotype 0 623s --freq 623s --file sativas_GWAS 623s --out sativas_GWAS 623s 623s 36901 (of 36901) markers to be included from [ sativas_GWAS.map ] 624s Warning, found 378 individuals with ambiguous sex codes 624s These individuals will be set to missing ( or use --allow-no-sex ) 624s Writing list of these individuals to [ sativas_GWAS.nosex ] 624s 378 individuals read from [ sativas_GWAS.ped ] 624s 0 individuals with nonmissing phenotypes 624s Assuming a disease phenotype (1=unaff, 2=aff, 0=miss) 624s Missing phenotype value is also -9 624s 0 cases, 0 controls and 378 missing 624s 0 males, 0 females, and 378 of unspecified sex 624s Before frequency and genotyping pruning, there are 36901 SNPs 624s 378 founders and 0 non-founders found 624s Writing allele frequencies (founders-only) to [ sativas_GWAS.frq ] 624s 624s Analysis finished: Wed Mar 13 12:02:15 2024 624s 624s Create sativas_GWAS.covar file... 624s /usr/lib/eigensoft/smartpca -p sativas_GWAS.par > sativas_GWAS-smartpca.log 634s Transpose sativas_GWAS... 634s /usr/bin/p-link --missing-genotype 0 --recode --transpose --file sativas_GWAS --out sativas_GWAS 634s 634s @----------------------------------------------------------@ 634s | PLINK! | v1.07 | 10/Aug/2009 | 634s |----------------------------------------------------------| 634s | (C) 2009 Shaun Purcell, GNU General Public License, v2 | 634s |----------------------------------------------------------| 634s | For documentation, citation & bug-report instructions: | 634s | http://pngu.mgh.harvard.edu/purcell/plink/ | 634s @----------------------------------------------------------@ 634s 634s Web-based version check ( --noweb to skip ) 634s Recent cached web-check found...Problem connecting to web 634s 634s Writing this text to log file [ sativas_GWAS.log ] 634s Analysis started: Wed Mar 13 12:02:25 2024 634s 634s Options in effect: 634s --missing-genotype 0 634s --recode 634s --transpose 634s --file sativas_GWAS 634s --out sativas_GWAS 634s 634s 36901 (of 36901) markers to be included from [ sativas_GWAS.map ] 636s Warning, found 378 individuals with ambiguous sex codes 636s Writing list of these individuals to [ sativas_GWAS.nosex ] 636s 378 individuals read from [ sativas_GWAS.ped ] 636s 0 individuals with nonmissing phenotypes 636s Assuming a disease phenotype (1=unaff, 2=aff, 0=miss) 636s Missing phenotype value is also -9 636s 0 cases, 0 controls and 378 missing 636s 0 males, 0 females, and 378 of unspecified sex 636s Before frequency and genotyping pruning, there are 36901 SNPs 636s 378 founders and 0 non-founders found 636s Total genotyping rate in remaining individuals is 0.956642 636s 0 SNPs failed missingness test ( GENO > 1 ) 636s 0 SNPs failed frequency test ( MAF < 0 ) 636s After frequency and genotyping pruning, there are 36901 SNPs 636s After filtering, 0 cases, 0 controls and 378 missing 636s After filtering, 0 males, 0 females, and 378 of unspecified sex 636s Writing transposed ped file to [ sativas_GWAS.tped ] 637s Writing family information to [ sativas_GWAS.tfam ] 637s 637s Analysis finished: Wed Mar 13 12:02:28 2024 637s 637s Creating sativas_GWAS.hIBS.kin kinship file using IBS method... 637s /usr/bin/emmax-kin -v -h -s -d 10 sativas_GWAS 637s 637s Reading TFAM file sativas_GWAS.tfam .... 637s 637s Reading TPED file sativas_GWAS.tped .... 637s Reading 0 SNPs 637s Reading 1000 SNPs 637s Reading 2000 SNPs 637s Reading 3000 SNPs 637s Reading 4000 SNPs 638s Reading 5000 SNPs 638s Reading 6000 SNPs 638s Reading 7000 SNPs 638s Reading 8000 SNPs 638s Reading 9000 SNPs 638s Reading 10000 SNPs 638s Reading 11000 SNPs 638s Reading 12000 SNPs 639s Reading 13000 SNPs 639s Reading 14000 SNPs 639s Reading 15000 SNPs 639s Reading 16000 SNPs 639s Reading 17000 SNPs 639s Reading 18000 SNPs 639s Reading 19000 SNPs 639s Reading 20000 SNPs 640s Reading 21000 SNPs 640s Reading 22000 SNPs 640s Reading 23000 SNPs 640s Reading 24000 SNPs 640s Reading 25000 SNPs 640s Reading 26000 SNPs 640s Reading 27000 SNPs 640s Reading 28000 SNPs 641s Reading 29000 SNPs 641s Reading 30000 SNPs 641s Reading 31000 SNPs 641s Reading 32000 SNPs 641s Reading 33000 SNPs 641s Reading 34000 SNPs 641s Reading 35000 SNPs 641s Reading 36000 SNPs 641s Printing the kinship matrix to file 642s Creating phenotype files in sub-directory sativas_GWAS... 642s 642s cd .. 642s removing temp files... 642s pique-run -d -v -i sativas_GWAS -k IBS -c sativas_GWAS.covar -n 16 642s Warning can't run 16 threads on this system - default to max = 1 threads 642s cd sativas_GWAS 642s cd Q_grain_As 642s processing phenotype Q_grain_As... 642s 642s nice emmax -d 10 -t ../sativas_GWAS -p Q_grain_As.pheno -k ../sativas_GWAS.hIBS.kinf -o Q_grain_As_sativas_GWAS -c ../sativas_GWAS.covar 642s nmiss = 90 , mphenoflag = 1 642s evals[0] = -0.000000, evals[1] = -0.000000, evals[n-1] = 2.444551 642s k = 282, n-q = 282 649s 649s number of SNP ids in Q_grain_As_sativas_GWAS.ps for 'Q_grain_As' phenotype: 36901 649s number of SNP ids in Q_grain_As_sativas_GWAS.ps not present in sativas_GWAS.tped for 'Q_grain_As' phenotype: 0 649s 649s number of SNP ids in sativas_GWAS.tped: 36901 649s number of SNP ids in sativas_GWAS.tped not present in Q_grain_As_sativas_GWAS.ps: 0 649s 649s Error in file(filename, "r", encoding = encoding) : 649s cannot open the connection 649s Calls: source -> file 649s In addition: Warning message: 649s In file(filename, "r", encoding = encoding) : 649s cannot open file '/usr/bin/GWAS_manhattanplots.R': No such file or directory 649s Execution halted 649s cd .. 649s cd Q_grain_Zn 649s processing phenotype Q_grain_Zn... 649s 649s nice emmax -d 10 -t ../sativas_GWAS -p Q_grain_Zn.pheno -k ../sativas_GWAS.hIBS.kinf -o Q_grain_Zn_sativas_GWAS -c ../sativas_GWAS.covar 649s nmiss = 90 , mphenoflag = 1 649s evals[0] = -0.000000, evals[1] = -0.000000, evals[n-1] = 2.444551 649s k = 282, n-q = 282 657s 657s number of SNP ids in Q_grain_Zn_sativas_GWAS.ps for 'Q_grain_Zn' phenotype: 36901 657s number of SNP ids in Q_grain_Zn_sativas_GWAS.ps not present in sativas_GWAS.tped for 'Q_grain_Zn' phenotype: 0 657s 657s number of SNP ids in sativas_GWAS.tped: 36901 657s number of SNP ids in sativas_GWAS.tped not present in Q_grain_Zn_sativas_GWAS.ps: 0 657s 657s Error in file(filename, "r", encoding = encoding) : 657s cannot open the connection 657s Calls: source -> file 657s In addition: Warning message: 657s In file(filename, "r", encoding = encoding) : 657s cannot open file '/usr/bin/GWAS_manhattanplots.R': No such file or directory 657s Execution halted 657s cd .. 657s cd Q_PH 657s processing phenotype Q_PH... 657s 657s nice emmax -d 10 -t ../sativas_GWAS -p Q_PH.pheno -k ../sativas_GWAS.hIBS.kinf -o Q_PH_sativas_GWAS -c ../sativas_GWAS.covar 657s nmiss = 87 , mphenoflag = 1 657s evals[0] = -0.000000, evals[1] = -0.000000, evals[n-1] = 2.413538 657s k = 285, n-q = 285 664s 664s number of SNP ids in Q_PH_sativas_GWAS.ps for 'Q_PH' phenotype: 36901 664s number of SNP ids in Q_PH_sativas_GWAS.ps not present in sativas_GWAS.tped for 'Q_PH' phenotype: 0 664s 664s number of SNP ids in sativas_GWAS.tped: 36901 664s number of SNP ids in sativas_GWAS.tped not present in Q_PH_sativas_GWAS.ps: 0 664s 664s Error in file(filename, "r", encoding = encoding) : 664s cannot open the connection 664s Calls: source -> file 664s In addition: Warning message: 664s In file(filename, "r", encoding = encoding) : 664s cannot open file '/usr/bin/GWAS_manhattanplots.R': No such file or directory 664s Execution halted 664s cd .. 664s cd A_PH 664s processing phenotype A_PH... 664s 664s nice emmax -d 10 -t ../sativas_GWAS -p A_PH.pheno -k ../sativas_GWAS.hIBS.kinf -o A_PH_sativas_GWAS -c ../sativas_GWAS.covar 664s nmiss = 29 , mphenoflag = 1 665s evals[0] = -0.000000, evals[1] = -0.000000, evals[n-1] = 2.570052 665s k = 343, n-q = 343 674s 674s number of SNP ids in A_PH_sativas_GWAS.ps for 'A_PH' phenotype: 36901 674s number of SNP ids in A_PH_sativas_GWAS.ps not present in sativas_GWAS.tped for 'A_PH' phenotype: 0 674s 674s number of SNP ids in sativas_GWAS.tped: 36901 674s number of SNP ids in sativas_GWAS.tped not present in A_PH_sativas_GWAS.ps: 0 674s 675s Error in file(filename, "r", encoding = encoding) : 675s cannot open the connection 675s Calls: source -> file 675s In addition: Warning message: 675s In file(filename, "r", encoding = encoding) : 675s cannot open file '/usr/bin/GWAS_manhattanplots.R': No such file or directory 675s Execution halted 675s cd .. 675s cd A_Tiller_no. 675s processing phenotype A_Tiller_no.... 675s 675s nice emmax -d 10 -t ../sativas_GWAS -p A_Tiller_no..pheno -k ../sativas_GWAS.hIBS.kinf -o A_Tiller_no._sativas_GWAS -c ../sativas_GWAS.covar 675s nmiss = 46 , mphenoflag = 1 675s evals[0] = -0.000000, evals[1] = -0.000000, evals[n-1] = 2.524438 675s k = 326, n-q = 326 684s 684s number of SNP ids in A_Tiller_no._sativas_GWAS.ps for 'A_Tiller_no.' phenotype: 36901 684s number of SNP ids in A_Tiller_no._sativas_GWAS.ps not present in sativas_GWAS.tped for 'A_Tiller_no.' phenotype: 0 684s 684s number of SNP ids in sativas_GWAS.tped: 36901 684s number of SNP ids in sativas_GWAS.tped not present in A_Tiller_no._sativas_GWAS.ps: 0 684s 684s Error in file(filename, "r", encoding = encoding) : 684s cannot open the connection 684s Calls: source -> file 684s In addition: Warning message: 684s In file(filename, "r", encoding = encoding) : 684s cannot open file '/usr/bin/GWAS_manhattanplots.R': No such file or directory 684s Execution halted 684s cd .. 684s cd Q_grain_Co 684s processing phenotype Q_grain_Co... 684s 684s nice emmax -d 10 -t ../sativas_GWAS -p Q_grain_Co.pheno -k ../sativas_GWAS.hIBS.kinf -o Q_grain_Co_sativas_GWAS -c ../sativas_GWAS.covar 684s nmiss = 90 , mphenoflag = 1 684s evals[0] = -0.000000, evals[1] = -0.000000, evals[n-1] = 2.444551 684s k = 282, n-q = 282 691s 691s number of SNP ids in Q_grain_Co_sativas_GWAS.ps for 'Q_grain_Co' phenotype: 36901 691s number of SNP ids in Q_grain_Co_sativas_GWAS.ps not present in sativas_GWAS.tped for 'Q_grain_Co' phenotype: 0 691s 691s number of SNP ids in sativas_GWAS.tped: 36901 691s number of SNP ids in sativas_GWAS.tped not present in Q_grain_Co_sativas_GWAS.ps: 0 691s 691s Error in file(filename, "r", encoding = encoding) : 691s cannot open the connection 691s Calls: source -> file 691s In addition: Warning message: 691s In file(filename, "r", encoding = encoding) : 691s cannot open file '/usr/bin/GWAS_manhattanplots.R': No such file or directory 691s Execution halted 691s cd .. 691s cd Daniel_shoot_As 691s processing phenotype Daniel_shoot_As... 691s 691s nice emmax -d 10 -t ../sativas_GWAS -p Daniel_shoot_As.pheno -k ../sativas_GWAS.hIBS.kinf -o Daniel_shoot_As_sativas_GWAS -c ../sativas_GWAS.covar 692s nmiss = 40 , mphenoflag = 1 692s evals[0] = -0.000000, evals[1] = -0.000000, evals[n-1] = 2.552770 692s k = 332, n-q = 332 701s 701s number of SNP ids in Daniel_shoot_As_sativas_GWAS.ps for 'Daniel_shoot_As' phenotype: 36901 701s number of SNP ids in Daniel_shoot_As_sativas_GWAS.ps not present in sativas_GWAS.tped for 'Daniel_shoot_As' phenotype: 0 701s 701s number of SNP ids in sativas_GWAS.tped: 36901 701s number of SNP ids in sativas_GWAS.tped not present in Daniel_shoot_As_sativas_GWAS.ps: 0 701s 701s Error in file(filename, "r", encoding = encoding) : 701s cannot open the connection 701s Calls: source -> file 701s In addition: Warning message: 701s In file(filename, "r", encoding = encoding) : 701s cannot open file '/usr/bin/GWAS_manhattanplots.R': No such file or directory 701s Execution halted 701s cd .. 701s cd H_R_S 701s processing phenotype H_R_S... 701s 701s nice emmax -d 10 -t ../sativas_GWAS -p H_R_S.pheno -k ../sativas_GWAS.hIBS.kinf -o H_R_S_sativas_GWAS -c ../sativas_GWAS.covar 701s nmiss = 260 , mphenoflag = 1 701s evals[0] = -0.000000, evals[1] = -0.000000, evals[n-1] = 1.929689 701s k = 112, n-q = 112 704s 704s number of SNP ids in H_R_S_sativas_GWAS.ps for 'H_R_S' phenotype: 36901 704s number of SNP ids in H_R_S_sativas_GWAS.ps not present in sativas_GWAS.tped for 'H_R_S' phenotype: 0 704s 704s number of SNP ids in sativas_GWAS.tped: 36901 704s number of SNP ids in sativas_GWAS.tped not present in H_R_S_sativas_GWAS.ps: 0 704s 704s Error in file(filename, "r", encoding = encoding) : 704s cannot open the connection 704s Calls: source -> file 704s In addition: Warning message: 704s In file(filename, "r", encoding = encoding) : 704s cannot open file '/usr/bin/GWAS_manhattanplots.R': No such file or directory 704s Execution halted 704s cd .. 704s cd H_Root_Length_27 704s processing phenotype H_Root_Length_27... 704s 704s nice emmax -d 10 -t ../sativas_GWAS -p H_Root_Length_27.pheno -k ../sativas_GWAS.hIBS.kinf -o H_Root_Length_27_sativas_GWAS -c ../sativas_GWAS.covar 704s nmiss = 260 , mphenoflag = 1 704s evals[0] = -0.000000, evals[1] = -0.000000, evals[n-1] = 1.929689 704s k = 112, n-q = 112 706s 706s number of SNP ids in H_Root_Length_27_sativas_GWAS.ps for 'H_Root_Length_27' phenotype: 36901 706s number of SNP ids in H_Root_Length_27_sativas_GWAS.ps not present in sativas_GWAS.tped for 'H_Root_Length_27' phenotype: 0 706s 706s number of SNP ids in sativas_GWAS.tped: 36901 706s number of SNP ids in sativas_GWAS.tped not present in H_Root_Length_27_sativas_GWAS.ps: 0 706s 706s Error in file(filename, "r", encoding = encoding) : 706s cannot open the connection 706s Calls: source -> file 706s In addition: Warning message: 706s In file(filename, "r", encoding = encoding) : 706s cannot open file '/usr/bin/GWAS_manhattanplots.R': No such file or directory 706s Execution halted 707s cd .. 707s cd H_Root_dry_weight 707s processing phenotype H_Root_dry_weight... 707s 707s nice emmax -d 10 -t ../sativas_GWAS -p H_Root_dry_weight.pheno -k ../sativas_GWAS.hIBS.kinf -o H_Root_dry_weight_sativas_GWAS -c ../sativas_GWAS.covar 707s nmiss = 260 , mphenoflag = 1 707s evals[0] = -0.000000, evals[1] = -0.000000, evals[n-1] = 1.929689 707s k = 112, n-q = 112 709s 709s number of SNP ids in H_Root_dry_weight_sativas_GWAS.ps for 'H_Root_dry_weight' phenotype: 36901 709s number of SNP ids in H_Root_dry_weight_sativas_GWAS.ps not present in sativas_GWAS.tped for 'H_Root_dry_weight' phenotype: 0 709s 709s number of SNP ids in sativas_GWAS.tped: 36901 709s number of SNP ids in sativas_GWAS.tped not present in H_Root_dry_weight_sativas_GWAS.ps: 0 709s 709s Error in file(filename, "r", encoding = encoding) : 709s cannot open the connection 709s Calls: source -> file 709s In addition: Warning message: 709s In file(filename, "r", encoding = encoding) : 709s cannot open file '/usr/bin/GWAS_manhattanplots.R': No such file or directory 709s Execution halted 709s cd .. 709s cd Q_shoot_mass 709s processing phenotype Q_shoot_mass... 709s 709s nice emmax -d 10 -t ../sativas_GWAS -p Q_shoot_mass.pheno -k ../sativas_GWAS.hIBS.kinf -o Q_shoot_mass_sativas_GWAS -c ../sativas_GWAS.covar 709s nmiss = 87 , mphenoflag = 1 709s evals[0] = -0.000000, evals[1] = -0.000000, evals[n-1] = 2.413538 709s k = 285, n-q = 285 717s 717s number of SNP ids in Q_shoot_mass_sativas_GWAS.ps for 'Q_shoot_mass' phenotype: 36901 717s number of SNP ids in Q_shoot_mass_sativas_GWAS.ps not present in sativas_GWAS.tped for 'Q_shoot_mass' phenotype: 0 717s 717s number of SNP ids in sativas_GWAS.tped: 36901 717s number of SNP ids in sativas_GWAS.tped not present in Q_shoot_mass_sativas_GWAS.ps: 0 717s 717s Error in file(filename, "r", encoding = encoding) : 717s cannot open the connection 717s Calls: source -> file 717s In addition: Warning message: 717s In file(filename, "r", encoding = encoding) : 717s cannot open file '/usr/bin/GWAS_manhattanplots.R': No such file or directory 717s Execution halted 717s cd .. 717s cd H_Shoot_dry_weight 717s processing phenotype H_Shoot_dry_weight... 717s 717s nice emmax -d 10 -t ../sativas_GWAS -p H_Shoot_dry_weight.pheno -k ../sativas_GWAS.hIBS.kinf -o H_Shoot_dry_weight_sativas_GWAS -c ../sativas_GWAS.covar 717s nmiss = 260 , mphenoflag = 1 717s evals[0] = -0.000000, evals[1] = -0.000000, evals[n-1] = 1.929689 717s k = 112, n-q = 112 719s 719s number of SNP ids in H_Shoot_dry_weight_sativas_GWAS.ps for 'H_Shoot_dry_weight' phenotype: 36901 719s number of SNP ids in H_Shoot_dry_weight_sativas_GWAS.ps not present in sativas_GWAS.tped for 'H_Shoot_dry_weight' phenotype: 0 719s 719s number of SNP ids in sativas_GWAS.tped: 36901 719s number of SNP ids in sativas_GWAS.tped not present in H_Shoot_dry_weight_sativas_GWAS.ps: 0 719s 719s Error in file(filename, "r", encoding = encoding) : 719s cannot open the connection 719s Calls: source -> file 719s In addition: Warning message: 719s In file(filename, "r", encoding = encoding) : 719s cannot open file '/usr/bin/GWAS_manhattanplots.R': No such file or directory 719s Execution halted 719s cd .. 719s cd F_grain_Cu 719s processing phenotype F_grain_Cu... 719s 719s nice emmax -d 10 -t ../sativas_GWAS -p F_grain_Cu.pheno -k ../sativas_GWAS.hIBS.kinf -o F_grain_Cu_sativas_GWAS -c ../sativas_GWAS.covar 719s nmiss = 73 , mphenoflag = 1 720s evals[0] = -0.000000, evals[1] = 0.000000, evals[n-1] = 2.476843 720s k = 299, n-q = 299 727s 727s number of SNP ids in F_grain_Cu_sativas_GWAS.ps for 'F_grain_Cu' phenotype: 36901 727s number of SNP ids in F_grain_Cu_sativas_GWAS.ps not present in sativas_GWAS.tped for 'F_grain_Cu' phenotype: 0 727s 727s number of SNP ids in sativas_GWAS.tped: 36901 727s number of SNP ids in sativas_GWAS.tped not present in F_grain_Cu_sativas_GWAS.ps: 0 727s 728s Error in file(filename, "r", encoding = encoding) : 728s cannot open the connection 728s Calls: source -> file 728s In addition: Warning message: 728s In file(filename, "r", encoding = encoding) : 728s cannot open file '/usr/bin/GWAS_manhattanplots.R': No such file or directory 728s Execution halted 728s cd .. 728s cd India_grain_As 728s processing phenotype India_grain_As... 728s 728s nice emmax -d 10 -t ../sativas_GWAS -p India_grain_As.pheno -k ../sativas_GWAS.hIBS.kinf -o India_grain_As_sativas_GWAS -c ../sativas_GWAS.covar 728s nmiss = 280 , mphenoflag = 1 728s evals[0] = -0.000000, evals[1] = -0.000000, evals[n-1] = 1.487105 728s k = 92, n-q = 92 730s 730s number of SNP ids in India_grain_As_sativas_GWAS.ps for 'India_grain_As' phenotype: 36901 730s number of SNP ids in India_grain_As_sativas_GWAS.ps not present in sativas_GWAS.tped for 'India_grain_As' phenotype: 0 730s 730s number of SNP ids in sativas_GWAS.tped: 36901 730s number of SNP ids in sativas_GWAS.tped not present in India_grain_As_sativas_GWAS.ps: 0 730s 730s Error in file(filename, "r", encoding = encoding) : 730s cannot open the connection 730s Calls: source -> file 730s In addition: Warning message: 730s In file(filename, "r", encoding = encoding) : 730s cannot open file '/usr/bin/GWAS_manhattanplots.R': No such file or directory 730s Execution halted 730s cd .. 730s cd A_Stem_thickness 730s processing phenotype A_Stem_thickness... 730s 730s nice emmax -d 10 -t ../sativas_GWAS -p A_Stem_thickness.pheno -k ../sativas_GWAS.hIBS.kinf -o A_Stem_thickness_sativas_GWAS -c ../sativas_GWAS.covar 730s nmiss = 49 , mphenoflag = 1 730s evals[0] = -0.000000, evals[1] = -0.000000, evals[n-1] = 2.474006 730s k = 323, n-q = 323 739s 739s number of SNP ids in A_Stem_thickness_sativas_GWAS.ps for 'A_Stem_thickness' phenotype: 36901 739s number of SNP ids in A_Stem_thickness_sativas_GWAS.ps not present in sativas_GWAS.tped for 'A_Stem_thickness' phenotype: 0 739s 739s number of SNP ids in sativas_GWAS.tped: 36901 739s number of SNP ids in sativas_GWAS.tped not present in A_Stem_thickness_sativas_GWAS.ps: 0 739s 739s Error in file(filename, "r", encoding = encoding) : 739s cannot open the connection 739s Calls: source -> file 739s In addition: Warning message: 739s In file(filename, "r", encoding = encoding) : 739s cannot open file '/usr/bin/GWAS_manhattanplots.R': No such file or directory 739s Execution halted 739s cd .. 739s cd F_grain_Mo 739s processing phenotype F_grain_Mo... 739s 739s nice emmax -d 10 -t ../sativas_GWAS -p F_grain_Mo.pheno -k ../sativas_GWAS.hIBS.kinf -o F_grain_Mo_sativas_GWAS -c ../sativas_GWAS.covar 739s nmiss = 73 , mphenoflag = 1 739s evals[0] = -0.000000, evals[1] = 0.000000, evals[n-1] = 2.476843 739s k = 299, n-q = 299 747s 747s number of SNP ids in F_grain_Mo_sativas_GWAS.ps for 'F_grain_Mo' phenotype: 36901 747s number of SNP ids in F_grain_Mo_sativas_GWAS.ps not present in sativas_GWAS.tped for 'F_grain_Mo' phenotype: 0 747s 747s number of SNP ids in sativas_GWAS.tped: 36901 747s number of SNP ids in sativas_GWAS.tped not present in F_grain_Mo_sativas_GWAS.ps: 0 747s 747s Error in file(filename, "r", encoding = encoding) : 747s cannot open the connection 747s Calls: source -> file 747s In addition: Warning message: 747s In file(filename, "r", encoding = encoding) : 747s cannot open file '/usr/bin/GWAS_manhattanplots.R': No such file or directory 747s Execution halted 747s cd .. 747s cd Q_grain_Cu 747s processing phenotype Q_grain_Cu... 747s 747s nice emmax -d 10 -t ../sativas_GWAS -p Q_grain_Cu.pheno -k ../sativas_GWAS.hIBS.kinf -o Q_grain_Cu_sativas_GWAS -c ../sativas_GWAS.covar 747s nmiss = 90 , mphenoflag = 1 747s evals[0] = -0.000000, evals[1] = -0.000000, evals[n-1] = 2.444551 747s k = 282, n-q = 282 754s 754s number of SNP ids in Q_grain_Cu_sativas_GWAS.ps for 'Q_grain_Cu' phenotype: 36901 754s number of SNP ids in Q_grain_Cu_sativas_GWAS.ps not present in sativas_GWAS.tped for 'Q_grain_Cu' phenotype: 0 754s 754s number of SNP ids in sativas_GWAS.tped: 36901 754s number of SNP ids in sativas_GWAS.tped not present in Q_grain_Cu_sativas_GWAS.ps: 0 754s 755s Error in file(filename, "r", encoding = encoding) : 755s cannot open the connection 755s Calls: source -> file 755s In addition: Warning message: 755s In file(filename, "r", encoding = encoding) : 755s cannot open file '/usr/bin/GWAS_manhattanplots.R': No such file or directory 755s Execution halted 755s cd .. 755s cd F_shoot_As 755s processing phenotype F_shoot_As... 755s 755s nice emmax -d 10 -t ../sativas_GWAS -p F_shoot_As.pheno -k ../sativas_GWAS.hIBS.kinf -o F_shoot_As_sativas_GWAS -c ../sativas_GWAS.covar 755s nmiss = 73 , mphenoflag = 1 755s evals[0] = -0.000000, evals[1] = -0.000000, evals[n-1] = 2.459771 755s k = 299, n-q = 299 763s 763s number of SNP ids in F_shoot_As_sativas_GWAS.ps for 'F_shoot_As' phenotype: 36901 763s number of SNP ids in F_shoot_As_sativas_GWAS.ps not present in sativas_GWAS.tped for 'F_shoot_As' phenotype: 0 763s 763s number of SNP ids in sativas_GWAS.tped: 36901 763s number of SNP ids in sativas_GWAS.tped not present in F_shoot_As_sativas_GWAS.ps: 0 763s 763s Error in file(filename, "r", encoding = encoding) : 763s cannot open the connection 763s Calls: source -> file 763s In addition: Warning message: 763s In file(filename, "r", encoding = encoding) : 763s cannot open file '/usr/bin/GWAS_manhattanplots.R': No such file or directory 763s Execution halted 763s cd .. 763s cd F_grain_yield 763s processing phenotype F_grain_yield... 763s 763s nice emmax -d 10 -t ../sativas_GWAS -p F_grain_yield.pheno -k ../sativas_GWAS.hIBS.kinf -o F_grain_yield_sativas_GWAS -c ../sativas_GWAS.covar 763s nmiss = 73 , mphenoflag = 1 763s evals[0] = -0.000000, evals[1] = 0.000000, evals[n-1] = 2.476843 763s k = 299, n-q = 299 771s 771s number of SNP ids in F_grain_yield_sativas_GWAS.ps for 'F_grain_yield' phenotype: 36901 771s number of SNP ids in F_grain_yield_sativas_GWAS.ps not present in sativas_GWAS.tped for 'F_grain_yield' phenotype: 0 771s 771s number of SNP ids in sativas_GWAS.tped: 36901 771s number of SNP ids in sativas_GWAS.tped not present in F_grain_yield_sativas_GWAS.ps: 0 771s 771s Error in file(filename, "r", encoding = encoding) : 771s cannot open the connection 771s Calls: source -> file 771s In addition: Warning message: 771s In file(filename, "r", encoding = encoding) : 771s cannot open file '/usr/bin/GWAS_manhattanplots.R': No such file or directory 771s Execution halted 771s cd .. 771s cd H_Shoot_length_27 771s processing phenotype H_Shoot_length_27... 771s 771s nice emmax -d 10 -t ../sativas_GWAS -p H_Shoot_length_27.pheno -k ../sativas_GWAS.hIBS.kinf -o H_Shoot_length_27_sativas_GWAS -c ../sativas_GWAS.covar 771s nmiss = 260 , mphenoflag = 1 771s evals[0] = -0.000000, evals[1] = -0.000000, evals[n-1] = 1.929689 771s k = 112, n-q = 112 774s 774s number of SNP ids in H_Shoot_length_27_sativas_GWAS.ps for 'H_Shoot_length_27' phenotype: 36901 774s number of SNP ids in H_Shoot_length_27_sativas_GWAS.ps not present in sativas_GWAS.tped for 'H_Shoot_length_27' phenotype: 0 774s 774s number of SNP ids in sativas_GWAS.tped: 36901 774s number of SNP ids in sativas_GWAS.tped not present in H_Shoot_length_27_sativas_GWAS.ps: 0 774s 774s Error in file(filename, "r", encoding = encoding) : 774s cannot open the connection 774s Calls: source -> file 774s In addition: Warning message: 774s In file(filename, "r", encoding = encoding) : 774s cannot open file '/usr/bin/GWAS_manhattanplots.R': No such file or directory 774s Execution halted 774s cd .. 774s cd F_FT 774s processing phenotype F_FT... 774s 774s nice emmax -d 10 -t ../sativas_GWAS -p F_FT.pheno -k ../sativas_GWAS.hIBS.kinf -o F_FT_sativas_GWAS -c ../sativas_GWAS.covar 774s nmiss = 73 , mphenoflag = 1 774s evals[0] = -0.000000, evals[1] = 0.000000, evals[n-1] = 2.476843 774s k = 299, n-q = 299 782s 782s number of SNP ids in F_FT_sativas_GWAS.ps for 'F_FT' phenotype: 36901 782s number of SNP ids in F_FT_sativas_GWAS.ps not present in sativas_GWAS.tped for 'F_FT' phenotype: 0 782s 782s number of SNP ids in sativas_GWAS.tped: 36901 782s number of SNP ids in sativas_GWAS.tped not present in F_FT_sativas_GWAS.ps: 0 782s 782s Error in file(filename, "r", encoding = encoding) : 782s cannot open the connection 782s Calls: source -> file 782s In addition: Warning message: 782s In file(filename, "r", encoding = encoding) : 782s cannot open file '/usr/bin/GWAS_manhattanplots.R': No such file or directory 782s Execution halted 782s cd .. 782s cd Q_grain_yield 782s processing phenotype Q_grain_yield... 782s 782s nice emmax -d 10 -t ../sativas_GWAS -p Q_grain_yield.pheno -k ../sativas_GWAS.hIBS.kinf -o Q_grain_yield_sativas_GWAS -c ../sativas_GWAS.covar 782s nmiss = 91 , mphenoflag = 1 782s evals[0] = -0.000000, evals[1] = -0.000000, evals[n-1] = 2.399146 782s k = 281, n-q = 281 789s 789s number of SNP ids in Q_grain_yield_sativas_GWAS.ps for 'Q_grain_yield' phenotype: 36901 789s number of SNP ids in Q_grain_yield_sativas_GWAS.ps not present in sativas_GWAS.tped for 'Q_grain_yield' phenotype: 0 789s 789s number of SNP ids in sativas_GWAS.tped: 36901 789s number of SNP ids in sativas_GWAS.tped not present in Q_grain_yield_sativas_GWAS.ps: 0 789s 789s Error in file(filename, "r", encoding = encoding) : 789s cannot open the connection 789s Calls: source -> file 789s In addition: Warning message: 789s In file(filename, "r", encoding = encoding) : 789s cannot open file '/usr/bin/GWAS_manhattanplots.R': No such file or directory 789s Execution halted 789s cd .. 789s cd Amylose_Content 789s processing phenotype Amylose_Content... 789s 789s nice emmax -d 10 -t ../sativas_GWAS -p Amylose_Content.pheno -k ../sativas_GWAS.hIBS.kinf -o Amylose_Content_sativas_GWAS -c ../sativas_GWAS.covar 789s nmiss = 50 , mphenoflag = 1 790s evals[0] = -0.000000, evals[1] = -0.000000, evals[n-1] = 2.447865 790s k = 322, n-q = 322 798s 798s number of SNP ids in Amylose_Content_sativas_GWAS.ps for 'Amylose_Content' phenotype: 36901 798s number of SNP ids in Amylose_Content_sativas_GWAS.ps not present in sativas_GWAS.tped for 'Amylose_Content' phenotype: 0 798s 798s number of SNP ids in sativas_GWAS.tped: 36901 798s number of SNP ids in sativas_GWAS.tped not present in Amylose_Content_sativas_GWAS.ps: 0 798s 799s Error in file(filename, "r", encoding = encoding) : 799s cannot open the connection 799s Calls: source -> file 799s In addition: Warning message: 799s In file(filename, "r", encoding = encoding) : 799s cannot open file '/usr/bin/GWAS_manhattanplots.R': No such file or directory 799s Execution halted 799s cd .. 799s cd A_Seed_weight 799s processing phenotype A_Seed_weight... 799s 799s nice emmax -d 10 -t ../sativas_GWAS -p A_Seed_weight.pheno -k ../sativas_GWAS.hIBS.kinf -o A_Seed_weight_sativas_GWAS -c ../sativas_GWAS.covar 799s nmiss = 21 , mphenoflag = 1 799s evals[0] = -0.000000, evals[1] = -0.000000, evals[n-1] = 2.575045 799s k = 351, n-q = 351 809s 809s number of SNP ids in A_Seed_weight_sativas_GWAS.ps for 'A_Seed_weight' phenotype: 36901 809s number of SNP ids in A_Seed_weight_sativas_GWAS.ps not present in sativas_GWAS.tped for 'A_Seed_weight' phenotype: 0 809s 809s number of SNP ids in sativas_GWAS.tped: 36901 809s number of SNP ids in sativas_GWAS.tped not present in A_Seed_weight_sativas_GWAS.ps: 0 809s 809s Error in file(filename, "r", encoding = encoding) : 809s cannot open the connection 809s Calls: source -> file 809s In addition: Warning message: 809s In file(filename, "r", encoding = encoding) : 809s cannot open file '/usr/bin/GWAS_manhattanplots.R': No such file or directory 809s Execution halted 809s cd .. 809s cd A_Seed_length 809s processing phenotype A_Seed_length... 809s 809s nice emmax -d 10 -t ../sativas_GWAS -p A_Seed_length.pheno -k ../sativas_GWAS.hIBS.kinf -o A_Seed_length_sativas_GWAS -c ../sativas_GWAS.covar 809s nmiss = 20 , mphenoflag = 1 809s evals[0] = -0.000000, evals[1] = -0.000000, evals[n-1] = 2.577637 809s k = 352, n-q = 352 820s 820s number of SNP ids in A_Seed_length_sativas_GWAS.ps for 'A_Seed_length' phenotype: 36901 820s number of SNP ids in A_Seed_length_sativas_GWAS.ps not present in sativas_GWAS.tped for 'A_Seed_length' phenotype: 0 820s 820s number of SNP ids in sativas_GWAS.tped: 36901 820s number of SNP ids in sativas_GWAS.tped not present in A_Seed_length_sativas_GWAS.ps: 0 820s 820s Error in file(filename, "r", encoding = encoding) : 820s cannot open the connection 820s Calls: source -> file 820s In addition: Warning message: 820s In file(filename, "r", encoding = encoding) : 820s cannot open file '/usr/bin/GWAS_manhattanplots.R': No such file or directory 820s Execution halted 820s cd .. 820s cd Q_FT 820s processing phenotype Q_FT... 820s 820s nice emmax -d 10 -t ../sativas_GWAS -p Q_FT.pheno -k ../sativas_GWAS.hIBS.kinf -o Q_FT_sativas_GWAS -c ../sativas_GWAS.covar 820s nmiss = 85 , mphenoflag = 1 820s evals[0] = -0.000000, evals[1] = -0.000000, evals[n-1] = 2.399886 820s k = 287, n-q = 287 827s 827s number of SNP ids in Q_FT_sativas_GWAS.ps for 'Q_FT' phenotype: 36901 827s number of SNP ids in Q_FT_sativas_GWAS.ps not present in sativas_GWAS.tped for 'Q_FT' phenotype: 0 827s 827s number of SNP ids in sativas_GWAS.tped: 36901 827s number of SNP ids in sativas_GWAS.tped not present in Q_FT_sativas_GWAS.ps: 0 827s 827s Error in file(filename, "r", encoding = encoding) : 827s cannot open the connection 827s Calls: source -> file 827s In addition: Warning message: 827s In file(filename, "r", encoding = encoding) : 827s cannot open file '/usr/bin/GWAS_manhattanplots.R': No such file or directory 827s Execution halted 827s cd .. 827s cd A_FT 827s processing phenotype A_FT... 827s 827s nice emmax -d 10 -t ../sativas_GWAS -p A_FT.pheno -k ../sativas_GWAS.hIBS.kinf -o A_FT_sativas_GWAS -c ../sativas_GWAS.covar 827s nmiss = 19 , mphenoflag = 1 828s evals[0] = -0.000000, evals[1] = -0.000000, evals[n-1] = 2.578644 828s k = 353, n-q = 353 838s 838s number of SNP ids in A_FT_sativas_GWAS.ps for 'A_FT' phenotype: 36901 838s number of SNP ids in A_FT_sativas_GWAS.ps not present in sativas_GWAS.tped for 'A_FT' phenotype: 0 838s 838s number of SNP ids in sativas_GWAS.tped: 36901 838s number of SNP ids in sativas_GWAS.tped not present in A_FT_sativas_GWAS.ps: 0 838s 840s Error in file(filename, "r", encoding = encoding) : 840s cannot open the connection 840s Calls: source -> file 840s In addition: Warning message: 840s In file(filename, "r", encoding = encoding) :cd .. 840s cd F_grain_Zn 840s processing phenotype F_grain_Zn... 840s 840s nice emmax -d 10 -t ../sativas_GWAS -p F_grain_Zn.pheno -k ../sativas_GWAS.hIBS.kinf -o F_grain_Zn_sativas_GWAS -c ../sativas_GWAS.covar 840s 840s cannot open file '/usr/bin/GWAS_manhattanplots.R': No such file or directory 840s Execution halted 840s nmiss = 73 , mphenoflag = 1 840s evals[0] = -0.000000, evals[1] = 0.000000, evals[n-1] = 2.476843 840s k = 299, n-q = 299 846s 846s number of SNP ids in F_grain_Zn_sativas_GWAS.ps for 'F_grain_Zn' phenotype: 36901 846s number of SNP ids in F_grain_Zn_sativas_GWAS.ps not present in sativas_GWAS.tped for 'F_grain_Zn' phenotype: 0 846s 846s number of SNP ids in sativas_GWAS.tped: 36901 846s number of SNP ids in sativas_GWAS.tped not present in F_grain_Zn_sativas_GWAS.ps: 0 846s 846s Error in file(filename, "r", encoding = encoding) : 846s cannot open the connection 846s Calls: source -> file 846s In addition: Warning message: 846s In file(filename, "r", encoding = encoding) : 846s cannot open file '/usr/bin/GWAS_manhattanplots.R': No such file or directory 846s Execution halted 846s cd .. 846s cd A_grain_yield 846s processing phenotype A_grain_yield... 846s 846s nice emmax -d 10 -t ../sativas_GWAS -p A_grain_yield.pheno -k ../sativas_GWAS.hIBS.kinf -o A_grain_yield_sativas_GWAS -c ../sativas_GWAS.covar 846s nmiss = 49 , mphenoflag = 1 846s evals[0] = -0.000000, evals[1] = 0.000000, evals[n-1] = 2.520537 846s k = 323, n-q = 323 855s 855s number of SNP ids in A_grain_yield_sativas_GWAS.ps for 'A_grain_yield' phenotype: 36901 855s number of SNP ids in A_grain_yield_sativas_GWAS.ps not present in sativas_GWAS.tped for 'A_grain_yield' phenotype: 0 855s 855s number of SNP ids in sativas_GWAS.tped: 36901 855s number of SNP ids in sativas_GWAS.tped not present in A_grain_yield_sativas_GWAS.ps: 0 855s 855s Error in file(filename, "r", encoding = encoding) : 855s cannot open the connection 855s Calls: source -> file 855s In addition: Warning message: 855s In file(filename, "r", encoding = encoding) : 855s cannot open file '/usr/bin/GWAS_manhattanplots.R': No such file or directory 855s Execution halted 855s cd .. 855s cd HULLED_SEED_LENGTH 855s processing phenotype HULLED_SEED_LENGTH... 855s 855s nice emmax -d 10 -t ../sativas_GWAS -p HULLED_SEED_LENGTH.pheno -k ../sativas_GWAS.hIBS.kinf -o HULLED_SEED_LENGTH_sativas_GWAS -c ../sativas_GWAS.covar 855s nmiss = 34 , mphenoflag = 1 856s evals[0] = -0.000000, evals[1] = -0.000000, evals[n-1] = 2.481982 856s k = 338, n-q = 338 865s 865s number of SNP ids in HULLED_SEED_LENGTH_sativas_GWAS.ps for 'HULLED_SEED_LENGTH' phenotype: 36901 865s number of SNP ids in HULLED_SEED_LENGTH_sativas_GWAS.ps not present in sativas_GWAS.tped for 'HULLED_SEED_LENGTH' phenotype: 0 865s 865s number of SNP ids in sativas_GWAS.tped: 36901 865s number of SNP ids in sativas_GWAS.tped not present in HULLED_SEED_LENGTH_sativas_GWAS.ps: 0 865s 865s Error in file(filename, "r", encoding = encoding) : 865s cannot open the connection 865s Calls: source -> file 865s In addition: Warning message: 865s In file(filename, "r", encoding = encoding) : 865s cannot open file '/usr/bin/GWAS_manhattanplots.R': No such file or directory 865s Execution halted 865s cd .. 865s cd F_grain_As 865s processing phenotype F_grain_As... 865s 865s nice emmax -d 10 -t ../sativas_GWAS -p F_grain_As.pheno -k ../sativas_GWAS.hIBS.kinf -o F_grain_As_sativas_GWAS -c ../sativas_GWAS.covar 865s nmiss = 73 , mphenoflag = 1 865s evals[0] = -0.000000, evals[1] = 0.000000, evals[n-1] = 2.476843 865s k = 299, n-q = 299 873s 873s number of SNP ids in F_grain_As_sativas_GWAS.ps for 'F_grain_As' phenotype: 36901 873s number of SNP ids in F_grain_As_sativas_GWAS.ps not present in sativas_GWAS.tped for 'F_grain_As' phenotype: 0 873s 873s number of SNP ids in sativas_GWAS.tped: 36901 873s number of SNP ids in sativas_GWAS.tped not present in F_grain_As_sativas_GWAS.ps: 0 873s 873s Error in file(filename, "r", encoding = encoding) : 873s cannot open the connection 873s Calls: source -> file 873s In addition: Warning message: 873s In file(filename, "r", encoding = encoding) : 873s cannot open file '/usr/bin/GWAS_manhattanplots.R': No such file or directory 873s Execution halted 873s cd .. 873s cd Q_grain_Mo 873s processing phenotype Q_grain_Mo... 873s 873s nice emmax -d 10 -t ../sativas_GWAS -p Q_grain_Mo.pheno -k ../sativas_GWAS.hIBS.kinf -o Q_grain_Mo_sativas_GWAS -c ../sativas_GWAS.covar 873s nmiss = 90 , mphenoflag = 1 874s evals[0] = -0.000000, evals[1] = -0.000000, evals[n-1] = 2.444551 874s k = 282, n-q = 282 881s 881s number of SNP ids in Q_grain_Mo_sativas_GWAS.ps for 'Q_grain_Mo' phenotype: 36901 881s number of SNP ids in Q_grain_Mo_sativas_GWAS.ps not present in sativas_GWAS.tped for 'Q_grain_Mo' phenotype: 0 881s 881s number of SNP ids in sativas_GWAS.tped: 36901 881s number of SNP ids in sativas_GWAS.tped not present in Q_grain_Mo_sativas_GWAS.ps: 0 881s 881s Error in file(filename, "r", encoding = encoding) : 881s cannot open the connection 881s Calls: source -> file 881s In addition: Warning message: 881s In file(filename, "r", encoding = encoding) : 881s cannot open file '/usr/bin/GWAS_manhattanplots.R': No such file or directory 881s Execution halted 881s cd .. 881s cd F_As_TF 881s processing phenotype F_As_TF... 881s 881s nice emmax -d 10 -t ../sativas_GWAS -p F_As_TF.pheno -k ../sativas_GWAS.hIBS.kinf -o F_As_TF_sativas_GWAS -c ../sativas_GWAS.covar 881s nmiss = 75 , mphenoflag = 1 881s evals[0] = -0.000000, evals[1] = -0.000000, evals[n-1] = 2.455247 881s k = 297, n-q = 297 889s 889s number of SNP ids in F_As_TF_sativas_GWAS.ps for 'F_As_TF' phenotype: 36901 889s number of SNP ids in F_As_TF_sativas_GWAS.ps not present in sativas_GWAS.tped for 'F_As_TF' phenotype: 0 889s 889s number of SNP ids in sativas_GWAS.tped: 36901 889s number of SNP ids in sativas_GWAS.tped not present in F_As_TF_sativas_GWAS.ps: 0 889s 889s Error in file(filename, "r", encoding = encoding) : 889s cannot open the connection 889s Calls: source -> file 889s In addition: Warning message: 889s In file(filename, "r", encoding = encoding) : 889s cannot open file '/usr/bin/GWAS_manhattanplots.R': No such file or directory 889s Execution halted 889s cd .. 889s Analysis complete 889s 889s autopkgtest [12:06:40]: test run-unit-test: -----------------------] 890s run-unit-test PASS 890s autopkgtest [12:06:41]: test run-unit-test: - - - - - - - - - - results - - - - - - - - - - 890s autopkgtest [12:06:41]: @@@@@@@@@@@@@@@@@@@@ summary 890s run-unit-test PASS 904s Creating nova instance adt-noble-ppc64el-pique-20240313-115151-juju-7f2275-prod-proposed-migration-environment-2 from image adt/ubuntu-noble-ppc64el-server-20240312.img (UUID 2068c266-b1f4-4468-a3e5-e52b1c42dc85)...