0s autopkgtest [18:46:07]: starting date: 2024-03-09 0s autopkgtest [18:46:07]: git checkout: d9c0295 adt_testbed.py: supress warnings from apt using a shell pipeline 0s autopkgtest [18:46:07]: host juju-7f2275-prod-proposed-migration-environment-2; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work.brzgwnoe/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 assemblytics --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@bos03-arm64-10.secgroup --name adt-noble-arm64-assemblytics-20240309-184607-juju-7f2275-prod-proposed-migration-environment-2 --image adt/ubuntu-noble-arm64-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://ftpmaster.internal/ubuntu/ 123s autopkgtest [18:48:10]: @@@@@@@@@@@@@@@@@@@@ test bed setup 124s Get:1 http://ftpmaster.internal/ubuntu noble-proposed InRelease [117 kB] 125s Get:2 http://ftpmaster.internal/ubuntu noble-proposed/main Sources [429 kB] 125s Get:3 http://ftpmaster.internal/ubuntu noble-proposed/restricted Sources [3976 B] 125s Get:4 http://ftpmaster.internal/ubuntu noble-proposed/universe Sources [2629 kB] 125s Get:5 http://ftpmaster.internal/ubuntu noble-proposed/multiverse Sources [37.3 kB] 125s Get:6 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 Packages [579 kB] 125s Get:7 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 c-n-f Metadata [3144 B] 125s Get:8 http://ftpmaster.internal/ubuntu noble-proposed/restricted arm64 Packages [20.3 kB] 125s Get:9 http://ftpmaster.internal/ubuntu noble-proposed/restricted arm64 c-n-f Metadata [116 B] 125s Get:10 http://ftpmaster.internal/ubuntu noble-proposed/universe arm64 Packages [2931 kB] 125s Get:11 http://ftpmaster.internal/ubuntu noble-proposed/universe arm64 c-n-f Metadata [8528 B] 125s Get:12 http://ftpmaster.internal/ubuntu noble-proposed/multiverse arm64 Packages [39.6 kB] 125s Get:13 http://ftpmaster.internal/ubuntu noble-proposed/multiverse arm64 c-n-f Metadata [116 B] 127s Fetched 6798 kB in 2s (3397 kB/s) 127s Reading package lists... 130s Reading package lists... 130s Building dependency tree... 130s Reading state information... 131s Calculating upgrade... 132s The following packages were automatically installed and are no longer required: 132s libgdbm-compat4t64 libperl5.38 lto-disabled-list make perl-modules-5.38 132s ubuntu-advantage-tools 132s Use 'sudo apt autoremove' to remove them. 132s The following packages will be REMOVED: 132s dpkg-dev libdpkg-perl libgdbm-compat4 libgdbm6 perl 132s The following NEW packages will be installed: 132s libgdbm-compat4t64 libgdbm6t64 libnuma1 libsensors-config libsensors5 132s numactl sysstat 132s The following packages have been kept back: 132s libperl5.38 132s The following packages will be upgraded: 132s efibootmgr perl-base perl-modules-5.38 python3-attr ubuntu-minimal 132s ubuntu-standard 132s 6 upgraded, 7 newly installed, 5 to remove and 1 not upgraded. 132s Need to get 5605 kB of archives. 132s After this operation, 1944 kB disk space will be freed. 132s Get:1 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 perl-base arm64 5.38.2-3.2 [1777 kB] 133s Get:2 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 libgdbm6t64 arm64 1.23-5.1 [34.3 kB] 133s Get:3 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 libgdbm-compat4t64 arm64 1.23-5.1 [6576 B] 133s Get:4 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 perl-modules-5.38 all 5.38.2-3.2 [3110 kB] 133s Get:5 http://ftpmaster.internal/ubuntu noble/main arm64 ubuntu-minimal arm64 1.535 [10.5 kB] 133s Get:6 http://ftpmaster.internal/ubuntu noble/main arm64 libnuma1 arm64 2.0.18-1 [23.5 kB] 133s Get:7 http://ftpmaster.internal/ubuntu noble/main arm64 ubuntu-standard arm64 1.535 [10.5 kB] 133s Get:8 http://ftpmaster.internal/ubuntu noble/main arm64 efibootmgr arm64 18-1build1 [31.5 kB] 133s Get:9 http://ftpmaster.internal/ubuntu noble/main arm64 libsensors-config all 1:3.6.0-9 [5458 B] 133s Get:10 http://ftpmaster.internal/ubuntu noble/main arm64 libsensors5 arm64 1:3.6.0-9 [26.9 kB] 133s Get:11 http://ftpmaster.internal/ubuntu noble/main arm64 numactl arm64 2.0.18-1 [39.5 kB] 133s Get:12 http://ftpmaster.internal/ubuntu noble/main arm64 python3-attr all 23.2.0-2 [48.6 kB] 133s Get:13 http://ftpmaster.internal/ubuntu noble/main arm64 sysstat arm64 12.6.1-1ubuntu1 [480 kB] 134s Preconfiguring packages ... 134s Fetched 5605 kB in 1s (6094 kB/s) 134s (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 ... 74662 files and directories currently installed.) 134s Removing dpkg-dev (1.22.4ubuntu5) ... 134s Removing libdpkg-perl (1.22.4ubuntu5) ... 134s Removing perl (5.38.2-3) ... 134s (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 ... 74081 files and directories currently installed.) 134s Preparing to unpack .../perl-base_5.38.2-3.2_arm64.deb ... 134s Unpacking perl-base (5.38.2-3.2) over (5.38.2-3) ... 135s Setting up perl-base (5.38.2-3.2) ... 135s dpkg: libgdbm6:arm64: dependency problems, but removing anyway as you requested: 135s python3-gdbm:arm64 depends on libgdbm6 (>= 1.16). 135s man-db depends on libgdbm6 (>= 1.16). 135s libperl5.38:arm64 depends on libgdbm6 (>= 1.21). 135s libgdbm-compat4:arm64 depends on libgdbm6 (>= 1.16). 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 ... 74081 files and directories currently installed.) 135s Removing libgdbm6:arm64 (1.23-5) ... 135s Selecting previously unselected package libgdbm6t64:arm64. 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 ... 74076 files and directories currently installed.) 135s Preparing to unpack .../libgdbm6t64_1.23-5.1_arm64.deb ... 135s Unpacking libgdbm6t64:arm64 (1.23-5.1) ... 135s dpkg: libgdbm-compat4:arm64: dependency problems, but removing anyway as you requested: 135s libperl5.38:arm64 depends on libgdbm-compat4 (>= 1.18-3). 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 ... 74082 files and directories currently installed.) 135s Removing libgdbm-compat4:arm64 (1.23-5) ... 135s Selecting previously unselected package libgdbm-compat4t64:arm64. 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 ... 74077 files and directories currently installed.) 135s Preparing to unpack .../00-libgdbm-compat4t64_1.23-5.1_arm64.deb ... 135s Unpacking libgdbm-compat4t64:arm64 (1.23-5.1) ... 135s Preparing to unpack .../01-perl-modules-5.38_5.38.2-3.2_all.deb ... 135s Unpacking perl-modules-5.38 (5.38.2-3.2) over (5.38.2-3) ... 135s Preparing to unpack .../02-ubuntu-minimal_1.535_arm64.deb ... 135s Unpacking ubuntu-minimal (1.535) over (1.534) ... 135s Selecting previously unselected package libnuma1:arm64. 135s Preparing to unpack .../03-libnuma1_2.0.18-1_arm64.deb ... 135s Unpacking libnuma1:arm64 (2.0.18-1) ... 135s Preparing to unpack .../04-ubuntu-standard_1.535_arm64.deb ... 135s Unpacking ubuntu-standard (1.535) over (1.534) ... 135s Preparing to unpack .../05-efibootmgr_18-1build1_arm64.deb ... 135s Unpacking efibootmgr (18-1build1) over (18-1) ... 135s Selecting previously unselected package libsensors-config. 135s Preparing to unpack .../06-libsensors-config_1%3a3.6.0-9_all.deb ... 135s Unpacking libsensors-config (1:3.6.0-9) ... 135s Selecting previously unselected package libsensors5:arm64. 135s Preparing to unpack .../07-libsensors5_1%3a3.6.0-9_arm64.deb ... 136s Unpacking libsensors5:arm64 (1:3.6.0-9) ... 136s Selecting previously unselected package numactl. 136s Preparing to unpack .../08-numactl_2.0.18-1_arm64.deb ... 136s Unpacking numactl (2.0.18-1) ... 136s Preparing to unpack .../09-python3-attr_23.2.0-2_all.deb ... 136s Unpacking python3-attr (23.2.0-2) over (23.2.0-1) ... 136s Selecting previously unselected package sysstat. 136s Preparing to unpack .../10-sysstat_12.6.1-1ubuntu1_arm64.deb ... 136s Unpacking sysstat (12.6.1-1ubuntu1) ... 136s Setting up python3-attr (23.2.0-2) ... 136s Setting up efibootmgr (18-1build1) ... 136s Setting up libgdbm6t64:arm64 (1.23-5.1) ... 136s Setting up ubuntu-minimal (1.535) ... 136s Setting up libgdbm-compat4t64:arm64 (1.23-5.1) ... 136s Setting up libsensors-config (1:3.6.0-9) ... 136s Setting up ubuntu-standard (1.535) ... 136s Setting up perl-modules-5.38 (5.38.2-3.2) ... 136s Setting up libsensors5:arm64 (1:3.6.0-9) ... 136s Setting up libnuma1:arm64 (2.0.18-1) ... 136s Setting up sysstat (12.6.1-1ubuntu1) ... 136s 136s Creating config file /etc/default/sysstat with new version 136s update-alternatives: using /usr/bin/sar.sysstat to provide /usr/bin/sar (sar) in auto mode 137s Created symlink /etc/systemd/system/sysstat.service.wants/sysstat-collect.timer → /usr/lib/systemd/system/sysstat-collect.timer. 137s Created symlink /etc/systemd/system/sysstat.service.wants/sysstat-summary.timer → /usr/lib/systemd/system/sysstat-summary.timer. 137s Created symlink /etc/systemd/system/multi-user.target.wants/sysstat.service → /usr/lib/systemd/system/sysstat.service. 139s Setting up numactl (2.0.18-1) ... 139s Processing triggers for man-db (2.12.0-3) ... 141s Processing triggers for libc-bin (2.39-0ubuntu2) ... 141s Reading package lists... 141s Building dependency tree... 141s Reading state information... 142s The following packages will be REMOVED: 142s libgdbm-compat4t64* libperl5.38* lto-disabled-list* make* perl-modules-5.38* 142s ubuntu-advantage-tools* 142s 0 upgraded, 0 newly installed, 6 to remove and 0 not upgraded. 142s After this operation, 52.0 MB disk space will be freed. 142s (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 ... 74176 files and directories currently installed.) 142s Removing libperl5.38:arm64 (5.38.2-3) ... 142s Removing libgdbm-compat4t64:arm64 (1.23-5.1) ... 142s Removing lto-disabled-list (47) ... 142s Removing make (4.3-4.1build1) ... 142s Removing perl-modules-5.38 (5.38.2-3.2) ... 142s Removing ubuntu-advantage-tools (31.1) ... 142s Processing triggers for man-db (2.12.0-3) ... 142s Processing triggers for libc-bin (2.39-0ubuntu2) ... 143s (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 ... 72199 files and directories currently installed.) 143s Purging configuration files for ubuntu-advantage-tools (31.1) ... 144s sh: Attempting to set up Debian/Ubuntu apt sources automatically 144s sh: Distribution appears to be Ubuntu 144s Reading package lists... 145s Building dependency tree... 145s Reading state information... 145s eatmydata is already the newest version (131-1). 145s dbus is already the newest version (1.14.10-4ubuntu1). 145s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 145s Reading package lists... 146s Building dependency tree... 146s Reading state information... 146s rng-tools-debian is already the newest version (2.4). 146s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 146s Reading package lists... 147s Building dependency tree... 147s Reading state information... 147s haveged is already the newest version (1.9.14-1ubuntu1). 147s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 147s Reading package lists... 148s Building dependency tree... 148s Reading state information... 148s The following additional packages will be installed: 148s libdb5.3t64 libdpkg-perl libgdbm-compat4t64 libperl5.38t64 lto-disabled-list 148s make perl perl-modules-5.38 148s Suggested packages: 148s debian-keyring gcc | c-compiler git bzr make-doc perl-doc 148s libterm-readline-gnu-perl | libterm-readline-perl-perl 148s libtap-harness-archive-perl 148s Recommended packages: 148s build-essential gcc | c-compiler fakeroot libalgorithm-merge-perl 148s libfile-fcntllock-perl 148s The following packages will be REMOVED: 148s libdb5.3 148s The following NEW packages will be installed: 148s dpkg-dev libdb5.3t64 libdpkg-perl libgdbm-compat4t64 libperl5.38t64 148s lto-disabled-list make perl perl-modules-5.38 148s 0 upgraded, 9 newly installed, 1 to remove and 0 not upgraded. 148s Need to get 7257 kB/10.4 MB of archives. 148s After this operation, 56.1 MB of additional disk space will be used. 148s Get:1 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 libdb5.3t64 arm64 5.3.28+dfsg2-5 [719 kB] 149s Get:2 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 libperl5.38t64 arm64 5.38.2-3.2 [4771 kB] 149s Get:3 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 perl arm64 5.38.2-3.2 [231 kB] 149s Get:4 http://ftpmaster.internal/ubuntu noble/main arm64 libdpkg-perl all 1.22.4ubuntu5 [268 kB] 149s Get:5 http://ftpmaster.internal/ubuntu noble/main arm64 make arm64 4.3-4.1build1 [177 kB] 149s Get:6 http://ftpmaster.internal/ubuntu noble/main arm64 lto-disabled-list all 47 [12.4 kB] 149s Get:7 http://ftpmaster.internal/ubuntu noble/main arm64 dpkg-dev all 1.22.4ubuntu5 [1078 kB] 149s Fetched 7257 kB in 1s (8872 kB/s) 150s dpkg: libdb5.3:arm64: dependency problems, but removing anyway as you requested: 150s libsasl2-modules-db:arm64 depends on libdb5.3. 150s libpython3.12-stdlib:arm64 depends on libdb5.3. 150s libpam-modules:arm64 depends on libdb5.3. 150s iproute2 depends on libdb5.3. 150s apt-utils depends on libdb5.3. 150s 150s (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 ... 72198 files and directories currently installed.) 150s Removing libdb5.3:arm64 (5.3.28+dfsg2-4) ... 150s Selecting previously unselected package libdb5.3t64:arm64. 150s (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 ... 72192 files and directories currently installed.) 150s Preparing to unpack .../libdb5.3t64_5.3.28+dfsg2-5_arm64.deb ... 150s Unpacking libdb5.3t64:arm64 (5.3.28+dfsg2-5) ... 150s Setting up libdb5.3t64:arm64 (5.3.28+dfsg2-5) ... 150s Selecting previously unselected package perl-modules-5.38. 150s (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 ... 72198 files and directories currently installed.) 150s Preparing to unpack .../0-perl-modules-5.38_5.38.2-3.2_all.deb ... 150s Unpacking perl-modules-5.38 (5.38.2-3.2) ... 150s Selecting previously unselected package libgdbm-compat4t64:arm64. 150s Preparing to unpack .../1-libgdbm-compat4t64_1.23-5.1_arm64.deb ... 150s Unpacking libgdbm-compat4t64:arm64 (1.23-5.1) ... 151s Selecting previously unselected package libperl5.38t64:arm64. 151s Preparing to unpack .../2-libperl5.38t64_5.38.2-3.2_arm64.deb ... 151s Unpacking libperl5.38t64:arm64 (5.38.2-3.2) ... 151s Selecting previously unselected package perl. 151s Preparing to unpack .../3-perl_5.38.2-3.2_arm64.deb ... 151s Unpacking perl (5.38.2-3.2) ... 151s Selecting previously unselected package libdpkg-perl. 151s Preparing to unpack .../4-libdpkg-perl_1.22.4ubuntu5_all.deb ... 151s Unpacking libdpkg-perl (1.22.4ubuntu5) ... 151s Selecting previously unselected package make. 151s Preparing to unpack .../5-make_4.3-4.1build1_arm64.deb ... 151s Unpacking make (4.3-4.1build1) ... 151s Selecting previously unselected package lto-disabled-list. 151s Preparing to unpack .../6-lto-disabled-list_47_all.deb ... 151s Unpacking lto-disabled-list (47) ... 151s Selecting previously unselected package dpkg-dev. 151s Preparing to unpack .../7-dpkg-dev_1.22.4ubuntu5_all.deb ... 151s Unpacking dpkg-dev (1.22.4ubuntu5) ... 151s Setting up lto-disabled-list (47) ... 151s Setting up libgdbm-compat4t64:arm64 (1.23-5.1) ... 151s Setting up make (4.3-4.1build1) ... 151s Setting up perl-modules-5.38 (5.38.2-3.2) ... 151s Setting up libperl5.38t64:arm64 (5.38.2-3.2) ... 151s Setting up perl (5.38.2-3.2) ... 152s Setting up libdpkg-perl (1.22.4ubuntu5) ... 152s Setting up dpkg-dev (1.22.4ubuntu5) ... 152s Processing triggers for man-db (2.12.0-3) ... 152s Processing triggers for libc-bin (2.39-0ubuntu2) ... 152s Reading package lists... 153s Building dependency tree... 153s Reading state information... 153s The following packages will be REMOVED: 153s cloud-init* python3-configobj* python3-debconf* 154s 0 upgraded, 0 newly installed, 3 to remove and 0 not upgraded. 154s After this operation, 3248 kB disk space will be freed. 154s (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 ... 74750 files and directories currently installed.) 154s Removing cloud-init (24.1-0ubuntu1) ... 154s Removing python3-configobj (5.0.8-3) ... 154s Removing python3-debconf (1.5.86) ... 154s Processing triggers for man-db (2.12.0-3) ... 155s (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 ... 74361 files and directories currently installed.) 155s Purging configuration files for cloud-init (24.1-0ubuntu1) ... 155s dpkg: warning: while removing cloud-init, directory '/etc/cloud/cloud.cfg.d' not empty so not removed 155s Processing triggers for rsyslog (8.2312.0-3ubuntu3) ... 156s Reading package lists... 156s Building dependency tree... 156s Reading state information... 157s linux-generic is already the newest version (6.8.0-11.11+1). 157s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 157s Hit:1 http://ftpmaster.internal/ubuntu noble InRelease 157s Hit:2 http://ftpmaster.internal/ubuntu noble-updates InRelease 157s Hit:3 http://ftpmaster.internal/ubuntu noble-security InRelease 157s Hit:4 http://ftpmaster.internal/ubuntu noble-proposed InRelease 158s Reading package lists... 158s Reading package lists... 159s Building dependency tree... 159s Reading state information... 159s Calculating upgrade... 160s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 160s Reading package lists... 160s Building dependency tree... 160s Reading state information... 160s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 161s autopkgtest [18:48:48]: rebooting testbed after setup commands that affected boot 410s autopkgtest [18:52:57]: testbed running kernel: Linux 6.8.0-11-generic #11-Ubuntu SMP PREEMPT_DYNAMIC Wed Feb 14 02:53:31 UTC 2024 410s autopkgtest [18:52:57]: testbed dpkg architecture: arm64 411s autopkgtest [18:52:58]: @@@@@@@@@@@@@@@@@@@@ apt-source assemblytics 413s Get:1 http://ftpmaster.internal/ubuntu noble/universe assemblytics 1.2.1+dfsg-2 (dsc) [2072 B] 413s Get:2 http://ftpmaster.internal/ubuntu noble/universe assemblytics 1.2.1+dfsg-2 (tar) [15.5 kB] 413s Get:3 http://ftpmaster.internal/ubuntu noble/universe assemblytics 1.2.1+dfsg-2 (diff) [4640 B] 414s gpgv: Signature made Wed Dec 6 13:41:32 2023 UTC 414s gpgv: using RSA key F1F007320A035541F0A663CA578A0494D1C646D1 414s gpgv: issuer "tillea@rki.de" 414s gpgv: Can't check signature: No public key 414s dpkg-source: warning: cannot verify inline signature for ./assemblytics_1.2.1+dfsg-2.dsc: no acceptable signature found 414s autopkgtest [18:53:01]: testing package assemblytics version 1.2.1+dfsg-2 414s autopkgtest [18:53:01]: build not needed 414s autopkgtest [18:53:01]: test run-unit-test: preparing testbed 417s Reading package lists... 417s Building dependency tree... 417s Reading state information... 417s Correcting dependencies...Starting pkgProblemResolver with broken count: 0 417s Starting 2 pkgProblemResolver with broken count: 0 417s Done 418s Done 418s Starting pkgProblemResolver with broken count: 0 418s Starting 2 pkgProblemResolver with broken count: 0 418s Done 419s The following additional packages will be installed: 419s assemblytics fontconfig fontconfig-config fonts-dejavu-core 419s fonts-dejavu-mono libblas3 libcairo2 libdatrie1 libdeflate0 libfontconfig1 419s libgfortran5 libgomp1 libgraphite2-3 libharfbuzz0b libice6 libjbig0 419s libjpeg-turbo8 libjpeg8 liblapack3 liblerc4 libpango-1.0-0 419s libpangocairo-1.0-0 libpangoft2-1.0-0 libpaper-utils libpaper1 libpixman-1-0 419s libpython3.11-minimal libpython3.11-stdlib libsharpyuv0 libsm6 libtcl8.6 419s libthai-data libthai0 libtiff6 libtk8.6 libwebp7 libxcb-render0 libxcb-shm0 419s libxft2 libxrender1 libxss1 libxt6 littler python-is-python3 python3-all 419s python3-distutils python3-lib2to3 python3-numpy python3.11 419s python3.11-minimal r-base-core r-cran-cli r-cran-colorspace r-cran-fansi 419s r-cran-farver r-cran-ggplot2 r-cran-glue r-cran-gtable r-cran-isoband 419s r-cran-labeling r-cran-lattice r-cran-lifecycle r-cran-littler 419s r-cran-magrittr r-cran-mass r-cran-matrix r-cran-mgcv r-cran-munsell 419s r-cran-nlme r-cran-pillar r-cran-pkgconfig r-cran-pkgkitten r-cran-plyr 419s r-cran-r6 r-cran-rcolorbrewer r-cran-rcpp r-cran-rlang r-cran-scales 419s r-cran-tibble r-cran-utf8 r-cran-vctrs r-cran-viridislite r-cran-withr unzip 419s x11-common xdg-utils zip 419s Suggested packages: 419s tcl8.6 tk8.6 gcc gfortran python3-dev python3-pytest python3.11-venv 419s python3.11-doc binfmt-support elpa-ess r-doc-info | r-doc-pdf r-mathlib 419s r-base-html r-cran-kernsmooth r-cran-kernlab r-cran-mvtnorm r-cran-vcd 419s r-cran-shiny r-cran-shinyjs r-cran-dplyr r-cran-png r-cran-jpeg r-cran-knitr 419s r-cran-rmarkdown r-cran-viridis r-cran-covr r-cran-magick r-cran-sf 419s r-cran-getopt r-cran-bit64 r-cran-dbi r-cran-formattable r-cran-nanotime 419s r-cran-palmerpenguins r-cran-stringi r-cran-survival r-cran-units 419s r-cran-vdiffr r-cran-testthat r-cran-inline r-cran-bench r-cran-blob 419s r-cran-brio r-cran-callr r-cran-crayon r-cran-evaluate r-cran-here 419s r-cran-hms r-cran-htmltools r-cran-pkgbuild r-cran-pkgload r-cran-purrr 419s r-cran-tidyr 419s Recommended packages: 419s mummer r-recommended r-base-dev r-doc-html r-cran-callr r-cran-covr 419s r-cran-crayon r-cran-digest r-cran-htmltools r-cran-htmlwidgets r-cran-knitr 419s r-cran-mockery r-cran-processx r-cran-ps r-cran-rmarkdown r-cran-rprojroot 419s r-cran-rstudioapi r-cran-testthat r-cran-whoami r-cran-unitizer r-cran-dplyr 419s r-cran-hexbin r-cran-hmisc r-cran-mapproj r-cran-maps r-cran-multcomp 419s r-cran-profvis r-cran-quantreg r-cran-ragg r-cran-rpart r-cran-sf 419s r-cran-svglite r-cran-vdiffr r-cran-xml2 r-cran-dbi r-cran-rsqlite 419s r-cran-waldo r-cran-lintr r-cran-tidyverse r-cran-lubridate r-cran-abind 419s r-cran-doparallel r-cran-foreach r-cran-iterators r-cran-itertools r-cran-fs 419s r-cran-usethis r-cran-bit64 r-cran-dichromat r-cran-hms r-cran-stringi 419s r-cran-data.table r-cran-mockr r-cran-formattable r-cran-generics 419s r-cran-pkgdown r-cran-zeallot libfile-mimeinfo-perl libnet-dbus-perl 419s libx11-protocol-perl x11-utils x11-xserver-utils 419s The following NEW packages will be installed: 419s assemblytics fontconfig fontconfig-config fonts-dejavu-core 419s fonts-dejavu-mono libblas3 libcairo2 libdatrie1 libdeflate0 libfontconfig1 419s libgfortran5 libgomp1 libgraphite2-3 libharfbuzz0b libice6 libjbig0 419s libjpeg-turbo8 libjpeg8 liblapack3 liblerc4 libpango-1.0-0 419s libpangocairo-1.0-0 libpangoft2-1.0-0 libpaper-utils libpaper1 libpixman-1-0 419s libpython3.11-minimal libpython3.11-stdlib libsharpyuv0 libsm6 libtcl8.6 419s libthai-data libthai0 libtiff6 libtk8.6 libwebp7 libxcb-render0 libxcb-shm0 419s libxft2 libxrender1 libxss1 libxt6 littler python-is-python3 python3-all 419s python3-distutils python3-lib2to3 python3-numpy python3.11 419s python3.11-minimal r-base-core r-cran-cli r-cran-colorspace r-cran-fansi 419s r-cran-farver r-cran-ggplot2 r-cran-glue r-cran-gtable r-cran-isoband 419s r-cran-labeling r-cran-lattice r-cran-lifecycle r-cran-littler 419s r-cran-magrittr r-cran-mass r-cran-matrix r-cran-mgcv r-cran-munsell 419s r-cran-nlme r-cran-pillar r-cran-pkgconfig r-cran-pkgkitten r-cran-plyr 419s r-cran-r6 r-cran-rcolorbrewer r-cran-rcpp r-cran-rlang r-cran-scales 419s r-cran-tibble r-cran-utf8 r-cran-vctrs r-cran-viridislite r-cran-withr unzip 419s x11-common xdg-utils zip 419s 0 upgraded, 87 newly installed, 0 to remove and 0 not upgraded. 419s 1 not fully installed or removed. 419s Need to get 78.2 MB of archives. 419s After this operation, 182 MB of additional disk space will be used. 419s Get:1 http://ftpmaster.internal/ubuntu noble/main arm64 libpython3.11-minimal arm64 3.11.8-1 [837 kB] 420s Get:2 http://ftpmaster.internal/ubuntu noble/main arm64 python3.11-minimal arm64 3.11.8-1 [2150 kB] 420s Get:3 http://ftpmaster.internal/ubuntu noble/main arm64 libpython3.11-stdlib arm64 3.11.8-1 [1913 kB] 420s Get:4 http://ftpmaster.internal/ubuntu noble/main arm64 python3.11 arm64 3.11.8-1 [589 kB] 420s Get:5 http://ftpmaster.internal/ubuntu noble/main arm64 libblas3 arm64 3.12.0-3 [143 kB] 420s Get:6 http://ftpmaster.internal/ubuntu noble/main arm64 libgfortran5 arm64 14-20240303-1ubuntu1 [444 kB] 420s Get:7 http://ftpmaster.internal/ubuntu noble/main arm64 liblapack3 arm64 3.12.0-3 [2241 kB] 420s Get:8 http://ftpmaster.internal/ubuntu noble/main arm64 python3-numpy arm64 1:1.24.2-2 [4525 kB] 420s Get:9 http://ftpmaster.internal/ubuntu noble/main arm64 zip arm64 3.0-13 [172 kB] 420s Get:10 http://ftpmaster.internal/ubuntu noble/main arm64 unzip arm64 6.0-28ubuntu3 [171 kB] 420s Get:11 http://ftpmaster.internal/ubuntu noble/main arm64 libpaper1 arm64 1.1.29 [13.1 kB] 420s Get:12 http://ftpmaster.internal/ubuntu noble/main arm64 libpaper-utils arm64 1.1.29 [8480 B] 420s Get:13 http://ftpmaster.internal/ubuntu noble/main arm64 xdg-utils all 1.1.3-4.1ubuntu3 [62.0 kB] 420s Get:14 http://ftpmaster.internal/ubuntu noble/main arm64 fonts-dejavu-mono all 2.37-8 [502 kB] 420s Get:15 http://ftpmaster.internal/ubuntu noble/main arm64 fonts-dejavu-core all 2.37-8 [835 kB] 420s Get:16 http://ftpmaster.internal/ubuntu noble/main arm64 fontconfig-config arm64 2.15.0-1ubuntu1 [37.0 kB] 420s Get:17 http://ftpmaster.internal/ubuntu noble/main arm64 libfontconfig1 arm64 2.15.0-1ubuntu1 [142 kB] 420s Get:18 http://ftpmaster.internal/ubuntu noble/main arm64 libpixman-1-0 arm64 0.42.2-1 [193 kB] 420s Get:19 http://ftpmaster.internal/ubuntu noble/main arm64 libxcb-render0 arm64 1.15-1 [16.1 kB] 420s Get:20 http://ftpmaster.internal/ubuntu noble/main arm64 libxcb-shm0 arm64 1.15-1 [5780 B] 420s Get:21 http://ftpmaster.internal/ubuntu noble/main arm64 libxrender1 arm64 1:0.9.10-1.1 [19.1 kB] 420s Get:22 http://ftpmaster.internal/ubuntu noble/main arm64 libcairo2 arm64 1.18.0-1 [550 kB] 420s Get:23 http://ftpmaster.internal/ubuntu noble/main arm64 libgomp1 arm64 14-20240303-1ubuntu1 [144 kB] 420s Get:24 http://ftpmaster.internal/ubuntu noble/main arm64 libjpeg-turbo8 arm64 2.1.5-2ubuntu1 [160 kB] 420s Get:25 http://ftpmaster.internal/ubuntu noble/main arm64 libjpeg8 arm64 8c-2ubuntu11 [2148 B] 420s Get:26 http://ftpmaster.internal/ubuntu noble/main arm64 fontconfig arm64 2.15.0-1ubuntu1 [190 kB] 420s Get:27 http://ftpmaster.internal/ubuntu noble/main arm64 libgraphite2-3 arm64 1.3.14-2 [81.5 kB] 420s Get:28 http://ftpmaster.internal/ubuntu noble/main arm64 libharfbuzz0b arm64 8.3.0-2 [463 kB] 420s Get:29 http://ftpmaster.internal/ubuntu noble/main arm64 libthai-data all 0.1.29-2 [158 kB] 420s Get:30 http://ftpmaster.internal/ubuntu noble/main arm64 libdatrie1 arm64 0.2.13-3 [21.7 kB] 420s Get:31 http://ftpmaster.internal/ubuntu noble/main arm64 libthai0 arm64 0.1.29-2 [18.1 kB] 420s Get:32 http://ftpmaster.internal/ubuntu noble/main arm64 libpango-1.0-0 arm64 1.51.0+ds-4 [226 kB] 420s Get:33 http://ftpmaster.internal/ubuntu noble/main arm64 libpangoft2-1.0-0 arm64 1.51.0+ds-4 [41.2 kB] 420s Get:34 http://ftpmaster.internal/ubuntu noble/main arm64 libpangocairo-1.0-0 arm64 1.51.0+ds-4 [27.6 kB] 420s Get:35 http://ftpmaster.internal/ubuntu noble/main arm64 libtcl8.6 arm64 8.6.13+dfsg-2 [980 kB] 420s Get:36 http://ftpmaster.internal/ubuntu noble/main arm64 libdeflate0 arm64 1.19-1 [43.4 kB] 420s Get:37 http://ftpmaster.internal/ubuntu noble/main arm64 libjbig0 arm64 2.1-6.1ubuntu1 [28.9 kB] 420s Get:38 http://ftpmaster.internal/ubuntu noble/main arm64 liblerc4 arm64 4.0.0+ds-4ubuntu1 [153 kB] 420s Get:39 http://ftpmaster.internal/ubuntu noble/main arm64 libsharpyuv0 arm64 1.3.2-0.4 [14.4 kB] 420s Get:40 http://ftpmaster.internal/ubuntu noble/main arm64 libwebp7 arm64 1.3.2-0.4 [191 kB] 420s Get:41 http://ftpmaster.internal/ubuntu noble/main arm64 libtiff6 arm64 4.5.1+git230720-3ubuntu1 [226 kB] 420s Get:42 http://ftpmaster.internal/ubuntu noble/main arm64 libxft2 arm64 2.3.6-1 [43.3 kB] 420s Get:43 http://ftpmaster.internal/ubuntu noble/main arm64 x11-common all 1:7.7+23ubuntu2 [23.4 kB] 420s Get:44 http://ftpmaster.internal/ubuntu noble/main arm64 libxss1 arm64 1:1.2.3-1build2 [8252 B] 421s Get:45 http://ftpmaster.internal/ubuntu noble/main arm64 libtk8.6 arm64 8.6.13-2 [760 kB] 421s Get:46 http://ftpmaster.internal/ubuntu noble/main arm64 libice6 arm64 2:1.0.10-1build2 [41.7 kB] 421s Get:47 http://ftpmaster.internal/ubuntu noble/main arm64 libsm6 arm64 2:1.2.3-1build2 [16.1 kB] 421s Get:48 http://ftpmaster.internal/ubuntu noble/main arm64 libxt6 arm64 1:1.2.1-1.1 [167 kB] 421s Get:49 http://ftpmaster.internal/ubuntu noble/universe arm64 r-base-core arm64 4.3.2-1build1 [26.8 MB] 421s Get:50 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-cli arm64 3.6.2-1 [1377 kB] 421s Get:51 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-glue arm64 1.7.0-1 [154 kB] 421s Get:52 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-rlang arm64 1.1.3-1 [1663 kB] 421s Get:53 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-lifecycle all 1.0.4+dfsg-1 [110 kB] 421s Get:54 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-gtable all 0.3.4+dfsg-1 [191 kB] 421s Get:55 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-isoband arm64 0.2.7-1 [1481 kB] 421s Get:56 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-mass arm64 7.3-60.0.1-1 [1119 kB] 421s Get:57 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-lattice arm64 0.22-5-1 [1342 kB] 421s Get:58 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-nlme arm64 3.1.164-1 [2259 kB] 421s Get:59 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-matrix arm64 1.6-5-1 [3776 kB] 421s Get:60 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-mgcv arm64 1.9-1-1 [3248 kB] 422s Get:61 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-farver arm64 2.1.1-1 [1336 kB] 422s Get:62 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-labeling all 0.4.3-1 [62.1 kB] 422s Get:63 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-colorspace arm64 2.1-0+dfsg-1 [1540 kB] 422s Get:64 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-munsell all 0.5.0-2build1 [208 kB] 422s Get:65 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-r6 all 2.5.1-1 [99.0 kB] 422s Get:66 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-rcolorbrewer all 1.1-3-1build1 [55.4 kB] 422s Get:67 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-viridislite all 0.4.2-2 [1088 kB] 422s Get:68 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-scales all 1.3.0-1 [603 kB] 422s Get:69 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-fansi arm64 1.0.5-1 [616 kB] 422s Get:70 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-magrittr arm64 2.0.3-1 [154 kB] 422s Get:71 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-utf8 arm64 1.2.4-1 [140 kB] 422s Get:72 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-vctrs arm64 0.6.5-1 [1327 kB] 422s Get:73 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-pillar all 1.9.0+dfsg-1 [464 kB] 422s Get:74 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-pkgconfig all 2.0.3-2build1 [19.7 kB] 422s Get:75 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-tibble arm64 3.2.1+dfsg-2 [415 kB] 422s Get:76 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-withr all 2.5.0-1 [225 kB] 422s Get:77 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-ggplot2 all 3.4.4+dfsg-1 [3411 kB] 422s Get:78 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-littler arm64 0.3.19-1 [93.4 kB] 422s Get:79 http://ftpmaster.internal/ubuntu noble/universe arm64 littler all 0.3.19-1 [2472 B] 422s Get:80 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-pkgkitten all 0.2.3-1 [25.1 kB] 422s Get:81 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-rcpp arm64 1.0.12-1 [1971 kB] 422s Get:82 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-plyr arm64 1.8.9-1 [831 kB] 422s Get:83 http://ftpmaster.internal/ubuntu noble/universe arm64 assemblytics all 1.2.1+dfsg-2 [19.1 kB] 422s Get:84 http://ftpmaster.internal/ubuntu noble/main arm64 python3-lib2to3 all 3.11.5-1 [79.0 kB] 422s Get:85 http://ftpmaster.internal/ubuntu noble/main arm64 python3-distutils all 3.11.5-1 [131 kB] 422s Get:86 http://ftpmaster.internal/ubuntu noble/main arm64 python3-all arm64 3.12.1-0ubuntu2 [906 B] 422s Get:87 http://ftpmaster.internal/ubuntu noble/main arm64 python-is-python3 all 3.11.4-1 [2684 B] 423s Preconfiguring packages ... 423s Fetched 78.2 MB in 3s (27.5 MB/s) 423s Selecting previously unselected package libpython3.11-minimal:arm64. 423s (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 ... 74306 files and directories currently installed.) 423s Preparing to unpack .../00-libpython3.11-minimal_3.11.8-1_arm64.deb ... 423s Unpacking libpython3.11-minimal:arm64 (3.11.8-1) ... 423s Selecting previously unselected package python3.11-minimal. 423s Preparing to unpack .../01-python3.11-minimal_3.11.8-1_arm64.deb ... 423s Unpacking python3.11-minimal (3.11.8-1) ... 423s Selecting previously unselected package libpython3.11-stdlib:arm64. 423s Preparing to unpack .../02-libpython3.11-stdlib_3.11.8-1_arm64.deb ... 423s Unpacking libpython3.11-stdlib:arm64 (3.11.8-1) ... 423s Selecting previously unselected package python3.11. 423s Preparing to unpack .../03-python3.11_3.11.8-1_arm64.deb ... 423s Unpacking python3.11 (3.11.8-1) ... 423s Selecting previously unselected package libblas3:arm64. 423s Preparing to unpack .../04-libblas3_3.12.0-3_arm64.deb ... 423s Unpacking libblas3:arm64 (3.12.0-3) ... 423s Selecting previously unselected package libgfortran5:arm64. 423s Preparing to unpack .../05-libgfortran5_14-20240303-1ubuntu1_arm64.deb ... 423s Unpacking libgfortran5:arm64 (14-20240303-1ubuntu1) ... 423s Selecting previously unselected package liblapack3:arm64. 423s Preparing to unpack .../06-liblapack3_3.12.0-3_arm64.deb ... 423s Unpacking liblapack3:arm64 (3.12.0-3) ... 423s Selecting previously unselected package python3-numpy. 423s Preparing to unpack .../07-python3-numpy_1%3a1.24.2-2_arm64.deb ... 423s Unpacking python3-numpy (1:1.24.2-2) ... 424s Selecting previously unselected package zip. 424s Preparing to unpack .../08-zip_3.0-13_arm64.deb ... 424s Unpacking zip (3.0-13) ... 424s Selecting previously unselected package unzip. 424s Preparing to unpack .../09-unzip_6.0-28ubuntu3_arm64.deb ... 424s Unpacking unzip (6.0-28ubuntu3) ... 424s Selecting previously unselected package libpaper1:arm64. 424s Preparing to unpack .../10-libpaper1_1.1.29_arm64.deb ... 424s Unpacking libpaper1:arm64 (1.1.29) ... 424s Selecting previously unselected package libpaper-utils. 424s Preparing to unpack .../11-libpaper-utils_1.1.29_arm64.deb ... 424s Unpacking libpaper-utils (1.1.29) ... 424s Selecting previously unselected package xdg-utils. 424s Preparing to unpack .../12-xdg-utils_1.1.3-4.1ubuntu3_all.deb ... 424s Unpacking xdg-utils (1.1.3-4.1ubuntu3) ... 424s Selecting previously unselected package fonts-dejavu-mono. 424s Preparing to unpack .../13-fonts-dejavu-mono_2.37-8_all.deb ... 424s Unpacking fonts-dejavu-mono (2.37-8) ... 424s Selecting previously unselected package fonts-dejavu-core. 424s Preparing to unpack .../14-fonts-dejavu-core_2.37-8_all.deb ... 424s Unpacking fonts-dejavu-core (2.37-8) ... 424s Selecting previously unselected package fontconfig-config. 424s Preparing to unpack .../15-fontconfig-config_2.15.0-1ubuntu1_arm64.deb ... 424s Unpacking fontconfig-config (2.15.0-1ubuntu1) ... 424s Selecting previously unselected package libfontconfig1:arm64. 424s Preparing to unpack .../16-libfontconfig1_2.15.0-1ubuntu1_arm64.deb ... 424s Unpacking libfontconfig1:arm64 (2.15.0-1ubuntu1) ... 424s Selecting previously unselected package libpixman-1-0:arm64. 424s Preparing to unpack .../17-libpixman-1-0_0.42.2-1_arm64.deb ... 424s Unpacking libpixman-1-0:arm64 (0.42.2-1) ... 424s Selecting previously unselected package libxcb-render0:arm64. 424s Preparing to unpack .../18-libxcb-render0_1.15-1_arm64.deb ... 424s Unpacking libxcb-render0:arm64 (1.15-1) ... 424s Selecting previously unselected package libxcb-shm0:arm64. 424s Preparing to unpack .../19-libxcb-shm0_1.15-1_arm64.deb ... 424s Unpacking libxcb-shm0:arm64 (1.15-1) ... 424s Selecting previously unselected package libxrender1:arm64. 424s Preparing to unpack .../20-libxrender1_1%3a0.9.10-1.1_arm64.deb ... 424s Unpacking libxrender1:arm64 (1:0.9.10-1.1) ... 424s Selecting previously unselected package libcairo2:arm64. 424s Preparing to unpack .../21-libcairo2_1.18.0-1_arm64.deb ... 424s Unpacking libcairo2:arm64 (1.18.0-1) ... 424s Selecting previously unselected package libgomp1:arm64. 424s Preparing to unpack .../22-libgomp1_14-20240303-1ubuntu1_arm64.deb ... 424s Unpacking libgomp1:arm64 (14-20240303-1ubuntu1) ... 424s Selecting previously unselected package libjpeg-turbo8:arm64. 424s Preparing to unpack .../23-libjpeg-turbo8_2.1.5-2ubuntu1_arm64.deb ... 424s Unpacking libjpeg-turbo8:arm64 (2.1.5-2ubuntu1) ... 425s Selecting previously unselected package libjpeg8:arm64. 425s Preparing to unpack .../24-libjpeg8_8c-2ubuntu11_arm64.deb ... 425s Unpacking libjpeg8:arm64 (8c-2ubuntu11) ... 425s Selecting previously unselected package fontconfig. 425s Preparing to unpack .../25-fontconfig_2.15.0-1ubuntu1_arm64.deb ... 425s Unpacking fontconfig (2.15.0-1ubuntu1) ... 425s Selecting previously unselected package libgraphite2-3:arm64. 425s Preparing to unpack .../26-libgraphite2-3_1.3.14-2_arm64.deb ... 425s Unpacking libgraphite2-3:arm64 (1.3.14-2) ... 425s Selecting previously unselected package libharfbuzz0b:arm64. 425s Preparing to unpack .../27-libharfbuzz0b_8.3.0-2_arm64.deb ... 425s Unpacking libharfbuzz0b:arm64 (8.3.0-2) ... 425s Selecting previously unselected package libthai-data. 425s Preparing to unpack .../28-libthai-data_0.1.29-2_all.deb ... 425s Unpacking libthai-data (0.1.29-2) ... 425s Selecting previously unselected package libdatrie1:arm64. 425s Preparing to unpack .../29-libdatrie1_0.2.13-3_arm64.deb ... 425s Unpacking libdatrie1:arm64 (0.2.13-3) ... 425s Selecting previously unselected package libthai0:arm64. 425s Preparing to unpack .../30-libthai0_0.1.29-2_arm64.deb ... 425s Unpacking libthai0:arm64 (0.1.29-2) ... 425s Selecting previously unselected package libpango-1.0-0:arm64. 425s Preparing to unpack .../31-libpango-1.0-0_1.51.0+ds-4_arm64.deb ... 425s Unpacking libpango-1.0-0:arm64 (1.51.0+ds-4) ... 425s Selecting previously unselected package libpangoft2-1.0-0:arm64. 425s Preparing to unpack .../32-libpangoft2-1.0-0_1.51.0+ds-4_arm64.deb ... 425s Unpacking libpangoft2-1.0-0:arm64 (1.51.0+ds-4) ... 425s Selecting previously unselected package libpangocairo-1.0-0:arm64. 425s Preparing to unpack .../33-libpangocairo-1.0-0_1.51.0+ds-4_arm64.deb ... 425s Unpacking libpangocairo-1.0-0:arm64 (1.51.0+ds-4) ... 425s Selecting previously unselected package libtcl8.6:arm64. 425s Preparing to unpack .../34-libtcl8.6_8.6.13+dfsg-2_arm64.deb ... 425s Unpacking libtcl8.6:arm64 (8.6.13+dfsg-2) ... 425s Selecting previously unselected package libdeflate0:arm64. 425s Preparing to unpack .../35-libdeflate0_1.19-1_arm64.deb ... 425s Unpacking libdeflate0:arm64 (1.19-1) ... 425s Selecting previously unselected package libjbig0:arm64. 425s Preparing to unpack .../36-libjbig0_2.1-6.1ubuntu1_arm64.deb ... 425s Unpacking libjbig0:arm64 (2.1-6.1ubuntu1) ... 425s Selecting previously unselected package liblerc4:arm64. 425s Preparing to unpack .../37-liblerc4_4.0.0+ds-4ubuntu1_arm64.deb ... 425s Unpacking liblerc4:arm64 (4.0.0+ds-4ubuntu1) ... 425s Selecting previously unselected package libsharpyuv0:arm64. 425s Preparing to unpack .../38-libsharpyuv0_1.3.2-0.4_arm64.deb ... 425s Unpacking libsharpyuv0:arm64 (1.3.2-0.4) ... 425s Selecting previously unselected package libwebp7:arm64. 425s Preparing to unpack .../39-libwebp7_1.3.2-0.4_arm64.deb ... 425s Unpacking libwebp7:arm64 (1.3.2-0.4) ... 426s Selecting previously unselected package libtiff6:arm64. 426s Preparing to unpack .../40-libtiff6_4.5.1+git230720-3ubuntu1_arm64.deb ... 426s Unpacking libtiff6:arm64 (4.5.1+git230720-3ubuntu1) ... 426s Selecting previously unselected package libxft2:arm64. 426s Preparing to unpack .../41-libxft2_2.3.6-1_arm64.deb ... 426s Unpacking libxft2:arm64 (2.3.6-1) ... 426s Selecting previously unselected package x11-common. 426s Preparing to unpack .../42-x11-common_1%3a7.7+23ubuntu2_all.deb ... 426s Unpacking x11-common (1:7.7+23ubuntu2) ... 426s Selecting previously unselected package libxss1:arm64. 426s Preparing to unpack .../43-libxss1_1%3a1.2.3-1build2_arm64.deb ... 426s Unpacking libxss1:arm64 (1:1.2.3-1build2) ... 426s Selecting previously unselected package libtk8.6:arm64. 426s Preparing to unpack .../44-libtk8.6_8.6.13-2_arm64.deb ... 426s Unpacking libtk8.6:arm64 (8.6.13-2) ... 426s Selecting previously unselected package libice6:arm64. 426s Preparing to unpack .../45-libice6_2%3a1.0.10-1build2_arm64.deb ... 426s Unpacking libice6:arm64 (2:1.0.10-1build2) ... 426s Selecting previously unselected package libsm6:arm64. 426s Preparing to unpack .../46-libsm6_2%3a1.2.3-1build2_arm64.deb ... 426s Unpacking libsm6:arm64 (2:1.2.3-1build2) ... 426s Selecting previously unselected package libxt6:arm64. 426s Preparing to unpack .../47-libxt6_1%3a1.2.1-1.1_arm64.deb ... 426s Unpacking libxt6:arm64 (1:1.2.1-1.1) ... 426s Selecting previously unselected package r-base-core. 426s Preparing to unpack .../48-r-base-core_4.3.2-1build1_arm64.deb ... 426s Unpacking r-base-core (4.3.2-1build1) ... 426s Selecting previously unselected package r-cran-cli. 426s Preparing to unpack .../49-r-cran-cli_3.6.2-1_arm64.deb ... 426s Unpacking r-cran-cli (3.6.2-1) ... 426s Selecting previously unselected package r-cran-glue. 426s Preparing to unpack .../50-r-cran-glue_1.7.0-1_arm64.deb ... 426s Unpacking r-cran-glue (1.7.0-1) ... 426s Selecting previously unselected package r-cran-rlang. 427s Preparing to unpack .../51-r-cran-rlang_1.1.3-1_arm64.deb ... 427s Unpacking r-cran-rlang (1.1.3-1) ... 427s Selecting previously unselected package r-cran-lifecycle. 427s Preparing to unpack .../52-r-cran-lifecycle_1.0.4+dfsg-1_all.deb ... 427s Unpacking r-cran-lifecycle (1.0.4+dfsg-1) ... 427s Selecting previously unselected package r-cran-gtable. 427s Preparing to unpack .../53-r-cran-gtable_0.3.4+dfsg-1_all.deb ... 427s Unpacking r-cran-gtable (0.3.4+dfsg-1) ... 427s Selecting previously unselected package r-cran-isoband. 427s Preparing to unpack .../54-r-cran-isoband_0.2.7-1_arm64.deb ... 427s Unpacking r-cran-isoband (0.2.7-1) ... 427s Selecting previously unselected package r-cran-mass. 427s Preparing to unpack .../55-r-cran-mass_7.3-60.0.1-1_arm64.deb ... 427s Unpacking r-cran-mass (7.3-60.0.1-1) ... 427s Selecting previously unselected package r-cran-lattice. 427s Preparing to unpack .../56-r-cran-lattice_0.22-5-1_arm64.deb ... 427s Unpacking r-cran-lattice (0.22-5-1) ... 427s Selecting previously unselected package r-cran-nlme. 427s Preparing to unpack .../57-r-cran-nlme_3.1.164-1_arm64.deb ... 427s Unpacking r-cran-nlme (3.1.164-1) ... 427s Selecting previously unselected package r-cran-matrix. 427s Preparing to unpack .../58-r-cran-matrix_1.6-5-1_arm64.deb ... 427s Unpacking r-cran-matrix (1.6-5-1) ... 427s Selecting previously unselected package r-cran-mgcv. 427s Preparing to unpack .../59-r-cran-mgcv_1.9-1-1_arm64.deb ... 427s Unpacking r-cran-mgcv (1.9-1-1) ... 427s Selecting previously unselected package r-cran-farver. 427s Preparing to unpack .../60-r-cran-farver_2.1.1-1_arm64.deb ... 427s Unpacking r-cran-farver (2.1.1-1) ... 427s Selecting previously unselected package r-cran-labeling. 427s Preparing to unpack .../61-r-cran-labeling_0.4.3-1_all.deb ... 427s Unpacking r-cran-labeling (0.4.3-1) ... 427s Selecting previously unselected package r-cran-colorspace. 427s Preparing to unpack .../62-r-cran-colorspace_2.1-0+dfsg-1_arm64.deb ... 427s Unpacking r-cran-colorspace (2.1-0+dfsg-1) ... 427s Selecting previously unselected package r-cran-munsell. 427s Preparing to unpack .../63-r-cran-munsell_0.5.0-2build1_all.deb ... 427s Unpacking r-cran-munsell (0.5.0-2build1) ... 427s Selecting previously unselected package r-cran-r6. 427s Preparing to unpack .../64-r-cran-r6_2.5.1-1_all.deb ... 427s Unpacking r-cran-r6 (2.5.1-1) ... 427s Selecting previously unselected package r-cran-rcolorbrewer. 427s Preparing to unpack .../65-r-cran-rcolorbrewer_1.1-3-1build1_all.deb ... 427s Unpacking r-cran-rcolorbrewer (1.1-3-1build1) ... 427s Selecting previously unselected package r-cran-viridislite. 427s Preparing to unpack .../66-r-cran-viridislite_0.4.2-2_all.deb ... 427s Unpacking r-cran-viridislite (0.4.2-2) ... 427s Selecting previously unselected package r-cran-scales. 427s Preparing to unpack .../67-r-cran-scales_1.3.0-1_all.deb ... 427s Unpacking r-cran-scales (1.3.0-1) ... 427s Selecting previously unselected package r-cran-fansi. 427s Preparing to unpack .../68-r-cran-fansi_1.0.5-1_arm64.deb ... 427s Unpacking r-cran-fansi (1.0.5-1) ... 427s Selecting previously unselected package r-cran-magrittr. 427s Preparing to unpack .../69-r-cran-magrittr_2.0.3-1_arm64.deb ... 427s Unpacking r-cran-magrittr (2.0.3-1) ... 427s Selecting previously unselected package r-cran-utf8. 428s Preparing to unpack .../70-r-cran-utf8_1.2.4-1_arm64.deb ... 428s Unpacking r-cran-utf8 (1.2.4-1) ... 428s Selecting previously unselected package r-cran-vctrs. 428s Preparing to unpack .../71-r-cran-vctrs_0.6.5-1_arm64.deb ... 428s Unpacking r-cran-vctrs (0.6.5-1) ... 428s Selecting previously unselected package r-cran-pillar. 428s Preparing to unpack .../72-r-cran-pillar_1.9.0+dfsg-1_all.deb ... 428s Unpacking r-cran-pillar (1.9.0+dfsg-1) ... 428s Selecting previously unselected package r-cran-pkgconfig. 428s Preparing to unpack .../73-r-cran-pkgconfig_2.0.3-2build1_all.deb ... 428s Unpacking r-cran-pkgconfig (2.0.3-2build1) ... 428s Selecting previously unselected package r-cran-tibble. 428s Preparing to unpack .../74-r-cran-tibble_3.2.1+dfsg-2_arm64.deb ... 428s Unpacking r-cran-tibble (3.2.1+dfsg-2) ... 428s Selecting previously unselected package r-cran-withr. 428s Preparing to unpack .../75-r-cran-withr_2.5.0-1_all.deb ... 428s Unpacking r-cran-withr (2.5.0-1) ... 428s Selecting previously unselected package r-cran-ggplot2. 428s Preparing to unpack .../76-r-cran-ggplot2_3.4.4+dfsg-1_all.deb ... 428s Unpacking r-cran-ggplot2 (3.4.4+dfsg-1) ... 428s Selecting previously unselected package r-cran-littler. 428s Preparing to unpack .../77-r-cran-littler_0.3.19-1_arm64.deb ... 428s Unpacking r-cran-littler (0.3.19-1) ... 428s Selecting previously unselected package littler. 428s Preparing to unpack .../78-littler_0.3.19-1_all.deb ... 428s Unpacking littler (0.3.19-1) ... 428s Selecting previously unselected package r-cran-pkgkitten. 428s Preparing to unpack .../79-r-cran-pkgkitten_0.2.3-1_all.deb ... 428s Unpacking r-cran-pkgkitten (0.2.3-1) ... 428s Selecting previously unselected package r-cran-rcpp. 428s Preparing to unpack .../80-r-cran-rcpp_1.0.12-1_arm64.deb ... 428s Unpacking r-cran-rcpp (1.0.12-1) ... 428s Selecting previously unselected package r-cran-plyr. 428s Preparing to unpack .../81-r-cran-plyr_1.8.9-1_arm64.deb ... 428s Unpacking r-cran-plyr (1.8.9-1) ... 428s Selecting previously unselected package assemblytics. 428s Preparing to unpack .../82-assemblytics_1.2.1+dfsg-2_all.deb ... 428s Unpacking assemblytics (1.2.1+dfsg-2) ... 428s Selecting previously unselected package python3-lib2to3. 429s Preparing to unpack .../83-python3-lib2to3_3.11.5-1_all.deb ... 429s Unpacking python3-lib2to3 (3.11.5-1) ... 429s Selecting previously unselected package python3-distutils. 429s Preparing to unpack .../84-python3-distutils_3.11.5-1_all.deb ... 429s Unpacking python3-distutils (3.11.5-1) ... 429s Selecting previously unselected package python3-all. 429s Preparing to unpack .../85-python3-all_3.12.1-0ubuntu2_arm64.deb ... 429s Unpacking python3-all (3.12.1-0ubuntu2) ... 429s Selecting previously unselected package python-is-python3. 429s Preparing to unpack .../86-python-is-python3_3.11.4-1_all.deb ... 429s Unpacking python-is-python3 (3.11.4-1) ... 429s Setting up libgraphite2-3:arm64 (1.3.14-2) ... 429s Setting up libpixman-1-0:arm64 (0.42.2-1) ... 429s Setting up libsharpyuv0:arm64 (1.3.2-0.4) ... 429s Setting up libpaper1:arm64 (1.1.29) ... 429s 429s Creating config file /etc/papersize with new version 430s Setting up liblerc4:arm64 (4.0.0+ds-4ubuntu1) ... 430s Setting up libxrender1:arm64 (1:0.9.10-1.1) ... 430s Setting up libdatrie1:arm64 (0.2.13-3) ... 430s Setting up libxcb-render0:arm64 (1.15-1) ... 430s Setting up unzip (6.0-28ubuntu3) ... 430s Setting up x11-common (1:7.7+23ubuntu2) ... 431s Setting up libdeflate0:arm64 (1.19-1) ... 431s Setting up libxcb-shm0:arm64 (1.15-1) ... 431s Setting up libpaper-utils (1.1.29) ... 431s Setting up libgomp1:arm64 (14-20240303-1ubuntu1) ... 431s Setting up libjbig0:arm64 (2.1-6.1ubuntu1) ... 431s Setting up zip (3.0-13) ... 431s Setting up libblas3:arm64 (3.12.0-3) ... 431s update-alternatives: using /usr/lib/aarch64-linux-gnu/blas/libblas.so.3 to provide /usr/lib/aarch64-linux-gnu/libblas.so.3 (libblas.so.3-aarch64-linux-gnu) in auto mode 431s Setting up fonts-dejavu-mono (2.37-8) ... 431s Setting up libtcl8.6:arm64 (8.6.13+dfsg-2) ... 431s Setting up fonts-dejavu-core (2.37-8) ... 431s Setting up libjpeg-turbo8:arm64 (2.1.5-2ubuntu1) ... 431s Setting up libgfortran5:arm64 (14-20240303-1ubuntu1) ... 431s Setting up libwebp7:arm64 (1.3.2-0.4) ... 431s Setting up libharfbuzz0b:arm64 (8.3.0-2) ... 431s Setting up libthai-data (0.1.29-2) ... 431s Setting up libpython3.11-minimal:arm64 (3.11.8-1) ... 431s Setting up libxss1:arm64 (1:1.2.3-1build2) ... 431s Setting up python3-lib2to3 (3.11.5-1) ... 431s Setting up python-is-python3 (3.11.4-1) ... 431s Setting up xdg-utils (1.1.3-4.1ubuntu3) ... 431s update-alternatives: using /usr/bin/xdg-open to provide /usr/bin/open (open) in auto mode 431s Setting up libjpeg8:arm64 (8c-2ubuntu11) ... 431s Setting up python3-distutils (3.11.5-1) ... 431s python3.12: can't get files for byte-compilation 431s Setting up python3.11-minimal (3.11.8-1) ... 432s Setting up libice6:arm64 (2:1.0.10-1build2) ... 432s Setting up liblapack3:arm64 (3.12.0-3) ... 432s update-alternatives: using /usr/lib/aarch64-linux-gnu/lapack/liblapack.so.3 to provide /usr/lib/aarch64-linux-gnu/liblapack.so.3 (liblapack.so.3-aarch64-linux-gnu) in auto mode 432s Setting up fontconfig-config (2.15.0-1ubuntu1) ... 432s Setting up libpython3.11-stdlib:arm64 (3.11.8-1) ... 432s Setting up python3-all (3.12.1-0ubuntu2) ... 432s Setting up libthai0:arm64 (0.1.29-2) ... 432s Setting up libtiff6:arm64 (4.5.1+git230720-3ubuntu1) ... 432s Setting up libfontconfig1:arm64 (2.15.0-1ubuntu1) ... 432s Setting up libsm6:arm64 (2:1.2.3-1build2) ... 432s Setting up python3.11 (3.11.8-1) ... 433s Setting up fontconfig (2.15.0-1ubuntu1) ... 436s Regenerating fonts cache... done. 436s Setting up libxft2:arm64 (2.3.6-1) ... 436s Setting up libtk8.6:arm64 (8.6.13-2) ... 436s Setting up libpango-1.0-0:arm64 (1.51.0+ds-4) ... 436s Setting up libcairo2:arm64 (1.18.0-1) ... 436s Setting up libxt6:arm64 (1:1.2.1-1.1) ... 436s Setting up python3-numpy (1:1.24.2-2) ... 438s Setting up libpangoft2-1.0-0:arm64 (1.51.0+ds-4) ... 438s Setting up libpangocairo-1.0-0:arm64 (1.51.0+ds-4) ... 438s Setting up r-base-core (4.3.2-1build1) ... 438s 438s Creating config file /etc/R/Renviron with new version 438s Setting up r-cran-labeling (0.4.3-1) ... 438s Setting up r-cran-lattice (0.22-5-1) ... 438s Setting up r-cran-nlme (3.1.164-1) ... 438s Setting up r-cran-farver (2.1.1-1) ... 438s Setting up r-cran-viridislite (0.4.2-2) ... 438s Setting up r-cran-r6 (2.5.1-1) ... 438s Setting up r-cran-pkgkitten (0.2.3-1) ... 438s Setting up r-cran-magrittr (2.0.3-1) ... 438s Setting up r-cran-littler (0.3.19-1) ... 438s Setting up r-cran-rcpp (1.0.12-1) ... 438s Setting up r-cran-rlang (1.1.3-1) ... 439s Setting up littler (0.3.19-1) ... 439s Setting up r-cran-withr (2.5.0-1) ... 439s Setting up r-cran-fansi (1.0.5-1) ... 439s Setting up r-cran-mass (7.3-60.0.1-1) ... 439s Setting up r-cran-glue (1.7.0-1) ... 439s Setting up r-cran-cli (3.6.2-1) ... 439s Setting up r-cran-lifecycle (1.0.4+dfsg-1) ... 439s Setting up r-cran-pkgconfig (2.0.3-2build1) ... 439s Setting up r-cran-utf8 (1.2.4-1) ... 439s Setting up r-cran-colorspace (2.1-0+dfsg-1) ... 439s Setting up r-cran-plyr (1.8.9-1) ... 439s Setting up r-cran-rcolorbrewer (1.1-3-1build1) ... 439s Setting up r-cran-isoband (0.2.7-1) ... 439s Setting up r-cran-gtable (0.3.4+dfsg-1) ... 439s Setting up r-cran-matrix (1.6-5-1) ... 439s Setting up r-cran-mgcv (1.9-1-1) ... 439s Setting up r-cran-vctrs (0.6.5-1) ... 439s Setting up r-cran-pillar (1.9.0+dfsg-1) ... 439s Setting up r-cran-munsell (0.5.0-2build1) ... 439s Setting up r-cran-tibble (3.2.1+dfsg-2) ... 439s Setting up r-cran-scales (1.3.0-1) ... 439s Setting up r-cran-ggplot2 (3.4.4+dfsg-1) ... 439s Setting up assemblytics (1.2.1+dfsg-2) ... 439s Setting up autopkgtest-satdep (0) ... 439s Processing triggers for systemd (255.2-3ubuntu2) ... 439s Processing triggers for man-db (2.12.0-3) ... 440s Processing triggers for install-info (7.1-3) ... 440s Processing triggers for libc-bin (2.39-0ubuntu2) ... 447s (Reading database ... 82169 files and directories currently installed.) 447s Removing autopkgtest-satdep (0) ... 448s autopkgtest [18:53:35]: test run-unit-test: [----------------------- 449s Input delta file: sample.delta 449s Output prefix: myfirstorganism 449s Unique anchor length: 10000 449s Minimum variant size to call: 10000 449s Maximum variant size to call: 50 449s Logging progress updates in myfirstorganism/progress.log 449s script path: /usr/share/assemblytics/bin 449s 1. Filter delta file 449s Keeping fully unique alignments even if they are below the unique anchor length of 10000 bp 449s Use --unique-length X to set the unique anchor length requirement. Default is 10000, such that each alignment must have at least 10000 bp from the query that are not included in any other alignments. 449s Detected uncompressed delta file. Reading... 449s 449s 449s Header (2 lines): 449s /seq/schatz/mnattest/Assemblytics/Ecoli/GCF_000005845.2_ASM584v2_genomic.fna /seq/schatz/mnattest/Assemblytics/Ecoli/GCF_000801205.1_ASM80120v1_genomic.fna 449s NUCMER 449s 449s 449s First read through the file: 0 seconds for 0 query-reference combinations 449s Filtering alignments of 1 queries 449s Progress: 100% 449s Progress: 100% 449s Deciding which alignments to keep: 0 seconds for 1 queries 449s Detected uncompressed delta file. Reading... 449s Reading file and recording all the entries we decided to keep: 0 seconds for 54 total lines in file 449s 2. Finding variants between alignments 449s Loaded 6 alignments 449s 3. Finding variants within alignments 449s Detected gzipped delta file. Reading... 449s 449s 449s Header (2 lines): 449s /seq/schatz/mnattest/Assemblytics/Ecoli/GCF_000005845.2_ASM584v2_genomic.fna /seq/schatz/mnattest/Assemblytics/Ecoli/GCF_000801205.1_ASM80120v1_genomic.fna 449s NUCMER 449s 449s 449s 4. Combine variants between and within alignments 456s Error in revalue(bed$type, c(Repeat_expansion = "Repeat expansion", Repeat_contraction = "Repeat contraction", : 456s x is not a factor or a character vector. 456s Execution halted 458s Warning messages: 458s 1: Using `size` aesthetic for lines was deprecated in ggplot2 3.4.0. 458s ℹ Please use `linewidth` instead. 458s 2: The `size` argument of `element_line()` is deprecated as of ggplot2 3.4.0. 458s ℹ Please use the `linewidth` argument instead. 458s null device 458s 1 460s Warning message: 460s Using `size` aesthetic for lines was deprecated in ggplot2 3.4.0. 460s ℹ Please use `linewidth` instead. 460s adding: myfirstorganism.Assemblytics.Dotplot_filtered.png (deflated 11%) 460s adding: myfirstorganism.Assemblytics.Nchart.pdf (deflated 11%) 460s adding: myfirstorganism.Assemblytics.Nchart.png (deflated 6%) 460s adding: myfirstorganism.Assemblytics.unique_length_filtered_l10000.delta.gz (stored 0%) 460s adding: myfirstorganism.Assemblytics_assembly_stats.txt (deflated 58%) 460s adding: myfirstorganism.Assemblytics_structural_variants.bed (deflated 26%) 460s adding: myfirstorganism.Assemblytics_structural_variants.summary (deflated 49%) 460s adding: myfirstorganism.Assemblytics_structural_variants.summary.csv (deflated 35%) 460s PASS 461s autopkgtest [18:53:48]: test run-unit-test: -----------------------] 462s run-unit-test PASSautopkgtest [18:53:49]: test run-unit-test: - - - - - - - - - - results - - - - - - - - - - 462s 462s autopkgtest [18:53:49]: @@@@@@@@@@@@@@@@@@@@ summary 462s run-unit-test PASS 474s Creating nova instance adt-noble-arm64-assemblytics-20240309-184607-juju-7f2275-prod-proposed-migration-environment-2 from image adt/ubuntu-noble-arm64-server-20240308.img (UUID ddbc0ee7-bb97-4aa3-b5e1-9386758c2ba2)...