0s autopkgtest [01:32:53]: starting date and time: 2025-03-16 01:32:53+0000 0s autopkgtest [01:32:53]: git checkout: 325255d2 Merge branch 'pin-any-arch' into 'ubuntu/production' 0s autopkgtest [01:32:53]: host juju-7f2275-prod-proposed-migration-environment-15; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work.m8ssms35/out --timeout-copy=6000 --setup-commands /home/ubuntu/autopkgtest-cloud/worker-config-production/setup-canonical.sh --apt-pocket=proposed=src:scikit-learn --apt-upgrade macs --timeout-short=300 --timeout-copy=20000 --timeout-build=20000 --env=ADT_TEST_TRIGGERS=scikit-learn/1.4.2+dfsg-8 -- ssh -s /home/ubuntu/autopkgtest/ssh-setup/nova -- --flavor autopkgtest --security-groups autopkgtest-juju-7f2275-prod-proposed-migration-environment-15@lcy02-4.secgroup --name adt-plucky-amd64-macs-20250316-013252-juju-7f2275-prod-proposed-migration-environment-15-b00db448-4e43-4baa-8b35-0d542821e157 --image adt/ubuntu-plucky-amd64-server --keyname testbed-juju-7f2275-prod-proposed-migration-environment-15 --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,keyserver.ubuntu.com,launchpadlibrarian.net,launchpadcontent.net,launchpad.net,10.24.0.0/24,keystone.ps5.canonical.com,objectstorage.prodstack5.canonical.com,radosgw.ps5.canonical.com'"'"'' --mirror=http://ftpmaster.internal/ubuntu/ 51s autopkgtest [01:33:44]: testbed dpkg architecture: amd64 51s autopkgtest [01:33:44]: testbed apt version: 2.9.31ubuntu1 51s autopkgtest [01:33:44]: @@@@@@@@@@@@@@@@@@@@ test bed setup 51s autopkgtest [01:33:44]: testbed release detected to be: None 52s autopkgtest [01:33:45]: updating testbed package index (apt update) 52s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease [126 kB] 52s Hit:2 http://ftpmaster.internal/ubuntu plucky InRelease 52s Hit:3 http://ftpmaster.internal/ubuntu plucky-updates InRelease 52s Hit:4 http://ftpmaster.internal/ubuntu plucky-security InRelease 52s Get:5 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse Sources [17.7 kB] 52s Get:6 http://ftpmaster.internal/ubuntu plucky-proposed/universe Sources [365 kB] 52s Get:7 http://ftpmaster.internal/ubuntu plucky-proposed/main Sources [41.4 kB] 52s Get:8 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 Packages [84.0 kB] 52s Get:9 http://ftpmaster.internal/ubuntu plucky-proposed/main i386 Packages [66.6 kB] 52s Get:10 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 c-n-f Metadata [1844 B] 52s Get:11 http://ftpmaster.internal/ubuntu plucky-proposed/restricted amd64 c-n-f Metadata [116 B] 52s Get:12 http://ftpmaster.internal/ubuntu plucky-proposed/universe amd64 Packages [338 kB] 52s Get:13 http://ftpmaster.internal/ubuntu plucky-proposed/universe i386 Packages [168 kB] 52s Get:14 http://ftpmaster.internal/ubuntu plucky-proposed/universe amd64 c-n-f Metadata [14.9 kB] 52s Get:15 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse amd64 Packages [18.0 kB] 52s Get:16 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse i386 Packages [9324 B] 52s Get:17 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse amd64 c-n-f Metadata [628 B] 52s Fetched 1252 kB in 0s (5288 kB/s) 53s Reading package lists... 53s + lsb_release --codename --short 53s + RELEASE=plucky 53s + cat 53s + [ plucky != trusty ] 53s + DEBIAN_FRONTEND=noninteractive eatmydata apt-get -y --allow-downgrades -o Dpkg::Options::=--force-confnew dist-upgrade 53s Reading package lists... 54s Building dependency tree... 54s Reading state information... 54s Calculating upgrade... 54s Calculating upgrade... 54s The following package was automatically installed and is no longer required: 54s libnl-genl-3-200 54s Use 'sudo apt autoremove' to remove it. 54s The following NEW packages will be installed: 54s bpftool libdebuginfod-common libdebuginfod1t64 linux-headers-6.14.0-10 54s linux-headers-6.14.0-10-generic linux-image-6.14.0-10-generic 54s linux-modules-6.14.0-10-generic linux-modules-extra-6.14.0-10-generic 54s linux-perf linux-tools-6.14.0-10 linux-tools-6.14.0-10-generic pnp.ids 54s The following packages will be upgraded: 54s apparmor apt apt-utils binutils binutils-common binutils-x86-64-linux-gnu 54s cloud-init cloud-init-base curl dosfstools fwupd gir1.2-girepository-2.0 54s gir1.2-glib-2.0 htop hwdata libapparmor1 libapt-pkg7.0 libaudit-common 54s libaudit1 libbinutils libbrotli1 libcap-ng0 libctf-nobfd0 libctf0 54s libcurl3t64-gnutls libcurl4t64 libestr0 libfwupd3 libgirepository-1.0-1 54s libglib2.0-0t64 libglib2.0-data libgprofng0 libjemalloc2 liblz4-1 liblzma5 54s libmm-glib0 libncurses6 libncursesw6 libnl-3-200 libnl-genl-3-200 54s libnl-route-3-200 libpci3 libpython3-stdlib libpython3.13 54s libpython3.13-minimal libpython3.13-stdlib libselinux1 libsframe1 54s libsqlite3-0 libtinfo6 libxml2 linux-firmware linux-generic 54s linux-headers-generic linux-headers-virtual linux-image-generic 54s linux-image-virtual linux-libc-dev linux-tools-common linux-virtual 54s media-types ncurses-base ncurses-bin ncurses-term pci.ids pciutils 54s pinentry-curses python-apt-common python3 python3-apt python3-cffi-backend 54s python3-dbus python3-gi python3-jinja2 python3-lazr.uri python3-markupsafe 54s python3-minimal python3-systemd python3-yaml python3.13 python3.13-gdbm 54s python3.13-minimal rsync rsyslog strace xz-utils 54s 86 upgraded, 12 newly installed, 0 to remove and 0 not upgraded. 54s Need to get 807 MB of archives. 54s After this operation, 326 MB of additional disk space will be used. 54s Get:1 http://ftpmaster.internal/ubuntu plucky/main amd64 ncurses-bin amd64 6.5+20250216-2 [194 kB] 55s Get:2 http://ftpmaster.internal/ubuntu plucky/main amd64 ncurses-base all 6.5+20250216-2 [25.9 kB] 55s Get:3 http://ftpmaster.internal/ubuntu plucky/main amd64 ncurses-term all 6.5+20250216-2 [276 kB] 55s Get:4 http://ftpmaster.internal/ubuntu plucky/main amd64 liblz4-1 amd64 1.10.0-4 [66.4 kB] 55s Get:5 http://ftpmaster.internal/ubuntu plucky/main amd64 liblzma5 amd64 5.6.4-1 [157 kB] 55s Get:6 http://ftpmaster.internal/ubuntu plucky/main amd64 libapt-pkg7.0 amd64 2.9.33 [1138 kB] 55s Get:7 http://ftpmaster.internal/ubuntu plucky/main amd64 apt amd64 2.9.33 [1439 kB] 55s Get:8 http://ftpmaster.internal/ubuntu plucky/main amd64 apt-utils amd64 2.9.33 [222 kB] 55s Get:9 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-minimal amd64 3.13.2-2 [27.7 kB] 55s Get:10 http://ftpmaster.internal/ubuntu plucky/main amd64 python3 amd64 3.13.2-2 [24.0 kB] 55s Get:11 http://ftpmaster.internal/ubuntu plucky/main amd64 libpython3.13 amd64 3.13.2-2 [2341 kB] 55s Get:12 http://ftpmaster.internal/ubuntu plucky/main amd64 media-types all 13.0.0 [29.9 kB] 55s Get:13 http://ftpmaster.internal/ubuntu plucky/main amd64 libncurses6 amd64 6.5+20250216-2 [126 kB] 55s Get:14 http://ftpmaster.internal/ubuntu plucky/main amd64 libncursesw6 amd64 6.5+20250216-2 [165 kB] 55s Get:15 http://ftpmaster.internal/ubuntu plucky/main amd64 libtinfo6 amd64 6.5+20250216-2 [119 kB] 55s Get:16 http://ftpmaster.internal/ubuntu plucky/main amd64 libsqlite3-0 amd64 3.46.1-2 [715 kB] 55s Get:17 http://ftpmaster.internal/ubuntu plucky/main amd64 python3.13 amd64 3.13.2-2 [735 kB] 55s Get:18 http://ftpmaster.internal/ubuntu plucky/main amd64 python3.13-minimal amd64 3.13.2-2 [2365 kB] 55s Get:19 http://ftpmaster.internal/ubuntu plucky/main amd64 libpython3.13-minimal amd64 3.13.2-2 [883 kB] 55s Get:20 http://ftpmaster.internal/ubuntu plucky/main amd64 libpython3.13-stdlib amd64 3.13.2-2 [2066 kB] 55s Get:21 http://ftpmaster.internal/ubuntu plucky/main amd64 libpython3-stdlib amd64 3.13.2-2 [10.4 kB] 55s Get:22 http://ftpmaster.internal/ubuntu plucky/main amd64 rsync amd64 3.4.1+ds1-3 [482 kB] 55s Get:23 http://ftpmaster.internal/ubuntu plucky/main amd64 libdebuginfod-common all 0.192-4 [15.4 kB] 55s Get:24 http://ftpmaster.internal/ubuntu plucky/main amd64 libaudit-common all 1:4.0.2-2ubuntu2 [6628 B] 55s Get:25 http://ftpmaster.internal/ubuntu plucky/main amd64 libcap-ng0 amd64 0.8.5-4build1 [15.6 kB] 55s Get:26 http://ftpmaster.internal/ubuntu plucky/main amd64 libaudit1 amd64 1:4.0.2-2ubuntu2 [54.0 kB] 55s Get:27 http://ftpmaster.internal/ubuntu plucky/main amd64 libselinux1 amd64 3.7-3ubuntu3 [87.3 kB] 55s Get:28 http://ftpmaster.internal/ubuntu plucky/main amd64 gir1.2-girepository-2.0 amd64 1.83.4-1 [25.3 kB] 55s Get:29 http://ftpmaster.internal/ubuntu plucky/main amd64 gir1.2-glib-2.0 amd64 2.84.0-1 [184 kB] 55s Get:30 http://ftpmaster.internal/ubuntu plucky/main amd64 libglib2.0-0t64 amd64 2.84.0-1 [1669 kB] 55s Get:31 http://ftpmaster.internal/ubuntu plucky/main amd64 libgirepository-1.0-1 amd64 1.83.4-1 [89.5 kB] 55s Get:32 http://ftpmaster.internal/ubuntu plucky/main amd64 libapparmor1 amd64 4.1.0~beta5-0ubuntu8 [55.0 kB] 55s Get:33 http://ftpmaster.internal/ubuntu plucky/main amd64 libestr0 amd64 0.1.11-2 [8340 B] 55s Get:34 http://ftpmaster.internal/ubuntu plucky/main amd64 libglib2.0-data all 2.84.0-1 [53.0 kB] 55s Get:35 http://ftpmaster.internal/ubuntu plucky/main amd64 libxml2 amd64 2.12.7+dfsg+really2.9.14-0.2ubuntu5 [772 kB] 56s Get:36 http://ftpmaster.internal/ubuntu plucky/main amd64 python-apt-common all 2.9.9build1 [21.3 kB] 56s Get:37 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-apt amd64 2.9.9build1 [172 kB] 56s Get:38 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-cffi-backend amd64 1.17.1-2build2 [96.6 kB] 56s Get:39 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-dbus amd64 1.3.2-5build5 [102 kB] 56s Get:40 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-gi amd64 3.50.0-4build1 [252 kB] 56s Get:41 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-yaml amd64 6.0.2-1build2 [144 kB] 56s Get:42 http://ftpmaster.internal/ubuntu plucky/main amd64 rsyslog amd64 8.2412.0-2ubuntu2 [555 kB] 56s Get:43 http://ftpmaster.internal/ubuntu plucky/main amd64 apparmor amd64 4.1.0~beta5-0ubuntu8 [701 kB] 56s Get:44 http://ftpmaster.internal/ubuntu plucky/main amd64 dosfstools amd64 4.2-1.2 [95.0 kB] 56s Get:45 http://ftpmaster.internal/ubuntu plucky/main amd64 libnl-genl-3-200 amd64 3.7.0-1 [12.2 kB] 56s Get:46 http://ftpmaster.internal/ubuntu plucky/main amd64 libnl-route-3-200 amd64 3.7.0-1 [191 kB] 56s Get:47 http://ftpmaster.internal/ubuntu plucky/main amd64 libnl-3-200 amd64 3.7.0-1 [64.9 kB] 56s Get:48 http://ftpmaster.internal/ubuntu plucky/main amd64 pci.ids all 0.0~2025.03.09-1 [285 kB] 56s Get:49 http://ftpmaster.internal/ubuntu plucky/main amd64 pciutils amd64 1:3.13.0-2 [110 kB] 56s Get:50 http://ftpmaster.internal/ubuntu plucky/main amd64 libpci3 amd64 1:3.13.0-2 [39.8 kB] 56s Get:51 http://ftpmaster.internal/ubuntu plucky/main amd64 strace amd64 6.13+ds-1ubuntu1 [622 kB] 56s Get:52 http://ftpmaster.internal/ubuntu plucky/main amd64 xz-utils amd64 5.6.4-1 [278 kB] 56s Get:53 http://ftpmaster.internal/ubuntu plucky/main amd64 libgprofng0 amd64 2.44-3ubuntu1 [886 kB] 56s Get:54 http://ftpmaster.internal/ubuntu plucky/main amd64 libctf0 amd64 2.44-3ubuntu1 [96.5 kB] 56s Get:55 http://ftpmaster.internal/ubuntu plucky/main amd64 libctf-nobfd0 amd64 2.44-3ubuntu1 [98.9 kB] 56s Get:56 http://ftpmaster.internal/ubuntu plucky/main amd64 binutils-x86-64-linux-gnu amd64 2.44-3ubuntu1 [1108 kB] 56s Get:57 http://ftpmaster.internal/ubuntu plucky/main amd64 libbinutils amd64 2.44-3ubuntu1 [585 kB] 56s Get:58 http://ftpmaster.internal/ubuntu plucky/main amd64 binutils amd64 2.44-3ubuntu1 [208 kB] 56s Get:59 http://ftpmaster.internal/ubuntu plucky/main amd64 binutils-common amd64 2.44-3ubuntu1 [215 kB] 56s Get:60 http://ftpmaster.internal/ubuntu plucky/main amd64 libsframe1 amd64 2.44-3ubuntu1 [14.8 kB] 56s Get:61 http://ftpmaster.internal/ubuntu plucky/main amd64 hwdata all 0.393-3 [1562 B] 56s Get:62 http://ftpmaster.internal/ubuntu plucky/main amd64 pnp.ids all 0.393-3 [29.5 kB] 56s Get:63 http://ftpmaster.internal/ubuntu plucky/main amd64 linux-tools-common all 6.14.0-10.10 [295 kB] 56s Get:64 http://ftpmaster.internal/ubuntu plucky/main amd64 bpftool amd64 7.6.0+6.14.0-10.10 [1147 kB] 56s Get:65 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-markupsafe amd64 2.1.5-1build4 [13.4 kB] 56s Get:66 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-jinja2 all 3.1.5-2ubuntu1 [109 kB] 56s Get:67 http://ftpmaster.internal/ubuntu plucky/main amd64 cloud-init-base all 25.1-0ubuntu3 [616 kB] 56s Get:68 http://ftpmaster.internal/ubuntu plucky/main amd64 libbrotli1 amd64 1.1.0-2build4 [365 kB] 56s Get:69 http://ftpmaster.internal/ubuntu plucky/main amd64 curl amd64 8.12.1-3ubuntu1 [258 kB] 56s Get:70 http://ftpmaster.internal/ubuntu plucky/main amd64 libcurl4t64 amd64 8.12.1-3ubuntu1 [437 kB] 56s Get:71 http://ftpmaster.internal/ubuntu plucky/main amd64 libcurl3t64-gnutls amd64 8.12.1-3ubuntu1 [432 kB] 56s Get:72 http://ftpmaster.internal/ubuntu plucky/main amd64 fwupd amd64 2.0.6-4 [5408 kB] 56s Get:73 http://ftpmaster.internal/ubuntu plucky/main amd64 libfwupd3 amd64 2.0.6-4 [136 kB] 56s Get:74 http://ftpmaster.internal/ubuntu plucky/main amd64 libmm-glib0 amd64 1.23.4-0ubuntu3 [251 kB] 56s Get:75 http://ftpmaster.internal/ubuntu plucky/main amd64 htop amd64 3.4.0-2 [195 kB] 56s Get:76 http://ftpmaster.internal/ubuntu plucky/main amd64 libdebuginfod1t64 amd64 0.192-4 [21.0 kB] 56s Get:77 http://ftpmaster.internal/ubuntu plucky/main amd64 libjemalloc2 amd64 5.3.0-3 [277 kB] 56s Get:78 http://ftpmaster.internal/ubuntu plucky/main amd64 linux-firmware amd64 20250310.git9e1370d3-0ubuntu1 [571 MB] 65s Get:79 http://ftpmaster.internal/ubuntu plucky/main amd64 linux-modules-6.14.0-10-generic amd64 6.14.0-10.10 [41.2 MB] 65s Get:80 http://ftpmaster.internal/ubuntu plucky/main amd64 linux-image-6.14.0-10-generic amd64 6.14.0-10.10 [15.3 MB] 66s Get:81 http://ftpmaster.internal/ubuntu plucky/main amd64 linux-modules-extra-6.14.0-10-generic amd64 6.14.0-10.10 [120 MB] 67s Get:82 http://ftpmaster.internal/ubuntu plucky/main amd64 linux-generic amd64 6.14.0-10.10 [1730 B] 67s Get:83 http://ftpmaster.internal/ubuntu plucky/main amd64 linux-image-generic amd64 6.14.0-10.10 [11.1 kB] 67s Get:84 http://ftpmaster.internal/ubuntu plucky/main amd64 linux-virtual amd64 6.14.0-10.10 [1722 B] 67s Get:85 http://ftpmaster.internal/ubuntu plucky/main amd64 linux-image-virtual amd64 6.14.0-10.10 [11.1 kB] 67s Get:86 http://ftpmaster.internal/ubuntu plucky/main amd64 linux-headers-virtual amd64 6.14.0-10.10 [1642 B] 67s Get:87 http://ftpmaster.internal/ubuntu plucky/main amd64 linux-headers-6.14.0-10 all 6.14.0-10.10 [14.2 MB] 67s Get:88 http://ftpmaster.internal/ubuntu plucky/main amd64 linux-headers-6.14.0-10-generic amd64 6.14.0-10.10 [3915 kB] 67s Get:89 http://ftpmaster.internal/ubuntu plucky/main amd64 linux-headers-generic amd64 6.14.0-10.10 [11.0 kB] 67s Get:90 http://ftpmaster.internal/ubuntu plucky/main amd64 linux-libc-dev amd64 6.14.0-10.10 [1723 kB] 67s Get:91 http://ftpmaster.internal/ubuntu plucky/main amd64 linux-perf amd64 6.14.0-10.10 [4122 kB] 67s Get:92 http://ftpmaster.internal/ubuntu plucky/main amd64 linux-tools-6.14.0-10 amd64 6.14.0-10.10 [1394 kB] 67s Get:93 http://ftpmaster.internal/ubuntu plucky/main amd64 linux-tools-6.14.0-10-generic amd64 6.14.0-10.10 [830 B] 67s Get:94 http://ftpmaster.internal/ubuntu plucky/main amd64 pinentry-curses amd64 1.3.1-2ubuntu3 [42.3 kB] 67s Get:95 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-lazr.uri all 1.0.6-6 [13.7 kB] 67s Get:96 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-systemd amd64 235-1build6 [43.9 kB] 67s Get:97 http://ftpmaster.internal/ubuntu plucky/main amd64 python3.13-gdbm amd64 3.13.2-2 [31.9 kB] 67s Get:98 http://ftpmaster.internal/ubuntu plucky/main amd64 cloud-init all 25.1-0ubuntu3 [2100 B] 68s Preconfiguring packages ... 68s Fetched 807 MB in 13s (63.8 MB/s) 68s (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 ... 109138 files and directories currently installed.) 68s Preparing to unpack .../ncurses-bin_6.5+20250216-2_amd64.deb ... 68s Unpacking ncurses-bin (6.5+20250216-2) over (6.5+20250216-1) ... 68s Setting up ncurses-bin (6.5+20250216-2) ... 68s (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 ... 109138 files and directories currently installed.) 68s Preparing to unpack .../ncurses-base_6.5+20250216-2_all.deb ... 68s Unpacking ncurses-base (6.5+20250216-2) over (6.5+20250216-1) ... 68s Setting up ncurses-base (6.5+20250216-2) ... 68s (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 ... 109138 files and directories currently installed.) 68s Preparing to unpack .../ncurses-term_6.5+20250216-2_all.deb ... 68s Unpacking ncurses-term (6.5+20250216-2) over (6.5+20250216-1) ... 69s Preparing to unpack .../liblz4-1_1.10.0-4_amd64.deb ... 69s Unpacking liblz4-1:amd64 (1.10.0-4) over (1.10.0-3) ... 69s Setting up liblz4-1:amd64 (1.10.0-4) ... 69s (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 ... 109138 files and directories currently installed.) 69s Preparing to unpack .../liblzma5_5.6.4-1_amd64.deb ... 69s Unpacking liblzma5:amd64 (5.6.4-1) over (5.6.3-1) ... 69s Setting up liblzma5:amd64 (5.6.4-1) ... 69s (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 ... 109138 files and directories currently installed.) 69s Preparing to unpack .../libapt-pkg7.0_2.9.33_amd64.deb ... 69s Unpacking libapt-pkg7.0:amd64 (2.9.33) over (2.9.31ubuntu1) ... 69s Setting up libapt-pkg7.0:amd64 (2.9.33) ... 69s (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 ... 109138 files and directories currently installed.) 69s Preparing to unpack .../archives/apt_2.9.33_amd64.deb ... 69s Unpacking apt (2.9.33) over (2.9.31ubuntu1) ... 69s Setting up apt (2.9.33) ... 70s (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 ... 109138 files and directories currently installed.) 70s Preparing to unpack .../apt-utils_2.9.33_amd64.deb ... 70s Unpacking apt-utils (2.9.33) over (2.9.31ubuntu1) ... 70s Preparing to unpack .../python3-minimal_3.13.2-2_amd64.deb ... 70s Unpacking python3-minimal (3.13.2-2) over (3.13.2-1) ... 70s Setting up python3-minimal (3.13.2-2) ... 70s (Reading database ... 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Preparing to unpack .../68-python3-systemd_235-1build6_amd64.deb ... 85s Unpacking python3-systemd (235-1build6) over (235-1build5) ... 85s Preparing to unpack .../69-python3.13-gdbm_3.13.2-2_amd64.deb ... 85s Unpacking python3.13-gdbm (3.13.2-2) over (3.13.2-1) ... 85s Preparing to unpack .../70-cloud-init_25.1-0ubuntu3_all.deb ... 85s Unpacking cloud-init (25.1-0ubuntu3) over (25.1-0ubuntu2) ... 85s Setting up linux-headers-6.14.0-10 (6.14.0-10.10) ... 85s Setting up media-types (13.0.0) ... 85s Installing new version of config file /etc/mime.types ... 85s Setting up linux-headers-6.14.0-10-generic (6.14.0-10.10) ... 85s Setting up libapparmor1:amd64 (4.1.0~beta5-0ubuntu8) ... 85s Setting up pci.ids (0.0~2025.03.09-1) ... 85s Setting up apt-utils (2.9.33) ... 85s Setting up libdebuginfod-common (0.192-4) ... 85s Setting up linux-firmware (20250310.git9e1370d3-0ubuntu1) ... 85s Setting up bpftool (7.6.0+6.14.0-10.10) ... 85s Setting up libestr0:amd64 (0.1.11-2) ... 85s Setting up libbrotli1:amd64 (1.1.0-2build4) ... 85s Setting up libsqlite3-0:amd64 (3.46.1-2) ... 85s Setting up dosfstools (4.2-1.2) ... 85s Setting up rsyslog (8.2412.0-2ubuntu2) ... 86s info: The user `syslog' is already a member of `adm'. 87s Setting up binutils-common:amd64 (2.44-3ubuntu1) ... 87s Setting up libcurl3t64-gnutls:amd64 (8.12.1-3ubuntu1) ... 87s Setting up linux-libc-dev:amd64 (6.14.0-10.10) ... 87s Setting up libctf-nobfd0:amd64 (2.44-3ubuntu1) ... 87s Setting up linux-headers-generic (6.14.0-10.10) ... 87s Setting up libjemalloc2:amd64 (5.3.0-3) ... 87s Setting up libsframe1:amd64 (2.44-3ubuntu1) ... 87s Setting up libpython3.13-minimal:amd64 (3.13.2-2) ... 87s Setting up apparmor (4.1.0~beta5-0ubuntu8) ... 87s Installing new version of config file /etc/apparmor.d/openvpn ... 88s Reloading AppArmor profiles 89s Setting up libglib2.0-0t64:amd64 (2.84.0-1) ... 89s No schema files found: doing nothing. 89s Setting up libglib2.0-data (2.84.0-1) ... 89s Setting up libncurses6:amd64 (6.5+20250216-2) ... 89s Setting up strace (6.13+ds-1ubuntu1) ... 89s Setting up xz-utils (5.6.4-1) ... 89s Setting up gir1.2-glib-2.0:amd64 (2.84.0-1) ... 89s Setting up linux-modules-6.14.0-10-generic (6.14.0-10.10) ... 91s Setting up libncursesw6:amd64 (6.5+20250216-2) ... 91s Setting up libpci3:amd64 (1:3.13.0-2) ... 91s Setting up python-apt-common (2.9.9build1) ... 91s Setting up libmm-glib0:amd64 (1.23.4-0ubuntu3) ... 91s Setting up pnp.ids (0.393-3) ... 91s Setting up libnl-3-200:amd64 (3.7.0-1) ... 91s Setting up python3.13-minimal (3.13.2-2) ... 92s Setting up libgirepository-1.0-1:amd64 (1.83.4-1) ... 92s Setting up libbinutils:amd64 (2.44-3ubuntu1) ... 92s Setting up libpython3.13-stdlib:amd64 (3.13.2-2) ... 92s Setting up libxml2:amd64 (2.12.7+dfsg+really2.9.14-0.2ubuntu5) ... 92s Setting up rsync (3.4.1+ds1-3) ... 93s rsync.service is a disabled or a static unit not running, not starting it. 93s Setting up python3.13-gdbm (3.13.2-2) ... 93s Setting up libpython3-stdlib:amd64 (3.13.2-2) ... 93s Setting up ncurses-term (6.5+20250216-2) ... 93s Setting up libctf0:amd64 (2.44-3ubuntu1) ... 93s Setting up libpython3.13:amd64 (3.13.2-2) ... 93s Setting up pinentry-curses (1.3.1-2ubuntu3) ... 93s Setting up libdebuginfod1t64:amd64 (0.192-4) ... 93s Setting up linux-headers-virtual (6.14.0-10.10) ... 93s Setting up libcurl4t64:amd64 (8.12.1-3ubuntu1) ... 93s Setting up python3.13 (3.13.2-2) ... 93s Setting up htop (3.4.0-2) ... 93s Setting up linux-image-6.14.0-10-generic (6.14.0-10.10) ... 95s I: /boot/vmlinuz.old is now a symlink to vmlinuz-6.12.0-16-generic 95s I: /boot/initrd.img.old is now a symlink to initrd.img-6.12.0-16-generic 95s I: /boot/vmlinuz is now a symlink to vmlinuz-6.14.0-10-generic 95s I: /boot/initrd.img is now a symlink to initrd.img-6.14.0-10-generic 95s Setting up libfwupd3:amd64 (2.0.6-4) ... 95s Setting up python3 (3.13.2-2) ... 96s Setting up python3-markupsafe (2.1.5-1build4) ... 96s Setting up linux-modules-extra-6.14.0-10-generic (6.14.0-10.10) ... 98s Setting up libnl-route-3-200:amd64 (3.7.0-1) ... 98s Setting up hwdata (0.393-3) ... 98s Setting up python3-jinja2 (3.1.5-2ubuntu1) ... 98s Setting up libgprofng0:amd64 (2.44-3ubuntu1) ... 98s Setting up linux-perf (6.14.0-10.10) ... 98s Setting up gir1.2-girepository-2.0:amd64 (1.83.4-1) ... 98s Setting up python3-gi (3.50.0-4build1) ... 98s Setting up pciutils (1:3.13.0-2) ... 98s Setting up libnl-genl-3-200:amd64 (3.7.0-1) ... 98s Setting up curl (8.12.1-3ubuntu1) ... 98s Setting up linux-image-virtual (6.14.0-10.10) ... 98s Setting up linux-tools-common (6.14.0-10.10) ... 98s Setting up fwupd (2.0.6-4) ... 99s fwupd-refresh.service is a disabled or a static unit not running, not starting it. 99s fwupd.service is a disabled or a static unit not running, not starting it. 99s Setting up python3-systemd (235-1build6) ... 99s Setting up python3-cffi-backend:amd64 (1.17.1-2build2) ... 99s Setting up binutils-x86-64-linux-gnu (2.44-3ubuntu1) ... 99s Setting up linux-image-generic (6.14.0-10.10) ... 99s Setting up python3-dbus (1.3.2-5build5) ... 99s Setting up linux-tools-6.14.0-10 (6.14.0-10.10) ... 99s Setting up linux-generic (6.14.0-10.10) ... 99s Setting up python3-apt (2.9.9build1) ... 99s Setting up python3-yaml (6.0.2-1build2) ... 99s Setting up python3-lazr.uri (1.0.6-6) ... 100s Setting up binutils (2.44-3ubuntu1) ... 100s Setting up cloud-init-base (25.1-0ubuntu3) ... 101s Setting up linux-virtual (6.14.0-10.10) ... 101s Setting up linux-tools-6.14.0-10-generic (6.14.0-10.10) ... 101s Setting up cloud-init (25.1-0ubuntu3) ... 101s Processing triggers for systemd (257.3-1ubuntu3) ... 101s Processing triggers for man-db (2.13.0-1) ... 103s Processing triggers for dbus (1.16.2-1ubuntu1) ... 103s Processing triggers for libc-bin (2.41-1ubuntu1) ... 103s Processing triggers for initramfs-tools (0.146ubuntu1) ... 103s update-initramfs: Generating /boot/initrd.img-6.12.0-16-generic 103s W: No lz4 in /usr/bin:/sbin:/bin, using gzip 113s Processing triggers for linux-image-6.14.0-10-generic (6.14.0-10.10) ... 113s /etc/kernel/postinst.d/initramfs-tools: 113s update-initramfs: Generating /boot/initrd.img-6.14.0-10-generic 113s W: No lz4 in /usr/bin:/sbin:/bin, using gzip 123s /etc/kernel/postinst.d/zz-update-grub: 123s Sourcing file `/etc/default/grub' 123s Sourcing file `/etc/default/grub.d/50-cloudimg-settings.cfg' 123s Sourcing file `/etc/default/grub.d/90-autopkgtest.cfg' 123s Generating grub configuration file ... 123s Found linux image: /boot/vmlinuz-6.14.0-10-generic 123s Found initrd image: /boot/initrd.img-6.14.0-10-generic 123s Found linux image: /boot/vmlinuz-6.12.0-16-generic 123s Found initrd image: /boot/initrd.img-6.12.0-16-generic 123s Found linux image: /boot/vmlinuz-6.11.0-8-generic 123s Found initrd image: /boot/initrd.img-6.11.0-8-generic 123s Warning: os-prober will not be executed to detect other bootable partitions. 123s Systems on them will not be added to the GRUB boot configuration. 123s Check GRUB_DISABLE_OS_PROBER documentation entry. 123s Adding boot menu entry for UEFI Firmware Settings ... 123s done 124s + rm /etc/apt/preferences.d/force-downgrade-to-release.pref 124s + /usr/lib/apt/apt-helper analyze-pattern ?true 124s + uname -r 124s + sed s/\./\\./g 124s + running_kernel_pattern=^linux-.*6\.12\.0-16-generic.* 124s + apt list ?obsolete 124s + tail -n+2 124s + cut -d/ -f1 124s + grep -v ^linux-.*6\.12\.0-16-generic.* 125s + obsolete_pkgs=linux-headers-6.11.0-8-generic 125s linux-headers-6.11.0-8 125s linux-headers-6.12.0-16 125s linux-image-6.11.0-8-generic 125s linux-modules-6.11.0-8-generic 125s linux-tools-6.11.0-8-generic 125s linux-tools-6.11.0-8 125s linux-tools-6.12.0-16 125s + DEBIAN_FRONTEND=noninteractive eatmydata apt-get -y purge --autoremove linux-headers-6.11.0-8-generic linux-headers-6.11.0-8 linux-headers-6.12.0-16 linux-image-6.11.0-8-generic linux-modules-6.11.0-8-generic linux-tools-6.11.0-8-generic linux-tools-6.11.0-8 linux-tools-6.12.0-16 125s Reading package lists... 125s Building dependency tree... 125s Reading state information... 125s Solving dependencies... 125s The following packages will be REMOVED: 125s libnl-genl-3-200* libnsl2* libpython3.12-minimal* libpython3.12-stdlib* 125s libpython3.12t64* linux-headers-6.11.0-8* linux-headers-6.11.0-8-generic* 125s linux-headers-6.12.0-16* linux-headers-6.12.0-16-generic* 125s linux-image-6.11.0-8-generic* linux-modules-6.11.0-8-generic* 125s linux-tools-6.11.0-8* linux-tools-6.11.0-8-generic* linux-tools-6.12.0-16* 125s linux-tools-6.12.0-16-generic* 126s 0 upgraded, 0 newly installed, 15 to remove and 0 not upgraded. 126s After this operation, 371 MB disk space will be freed. 126s (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 ... 148643 files and directories currently installed.) 126s Removing libnl-genl-3-200:amd64 (3.7.0-1) ... 126s Removing linux-tools-6.11.0-8-generic (6.11.0-8.8) ... 126s Removing linux-tools-6.11.0-8 (6.11.0-8.8) ... 126s Removing libpython3.12t64:amd64 (3.12.9-1) ... 126s Removing libpython3.12-stdlib:amd64 (3.12.9-1) ... 126s Removing libnsl2:amd64 (1.3.0-3build3) ... 126s Removing libpython3.12-minimal:amd64 (3.12.9-1) ... 126s Removing linux-headers-6.11.0-8-generic (6.11.0-8.8) ... 127s Removing linux-headers-6.11.0-8 (6.11.0-8.8) ... 129s Removing linux-headers-6.12.0-16-generic (6.12.0-16.16) ... 129s Removing linux-headers-6.12.0-16 (6.12.0-16.16) ... 131s Removing linux-image-6.11.0-8-generic (6.11.0-8.8) ... 131s /etc/kernel/postrm.d/initramfs-tools: 131s update-initramfs: Deleting /boot/initrd.img-6.11.0-8-generic 132s /etc/kernel/postrm.d/zz-update-grub: 132s Sourcing file `/etc/default/grub' 132s Sourcing file `/etc/default/grub.d/50-cloudimg-settings.cfg' 132s Sourcing file `/etc/default/grub.d/90-autopkgtest.cfg' 132s Generating grub configuration file ... 132s Found linux image: /boot/vmlinuz-6.14.0-10-generic 132s Found initrd image: /boot/initrd.img-6.14.0-10-generic 132s Found linux image: /boot/vmlinuz-6.12.0-16-generic 132s Found initrd image: /boot/initrd.img-6.12.0-16-generic 132s Warning: os-prober will not be executed to detect other bootable partitions. 132s Systems on them will not be added to the GRUB boot configuration. 132s Check GRUB_DISABLE_OS_PROBER documentation entry. 132s Adding boot menu entry for UEFI Firmware Settings ... 132s done 132s Removing linux-modules-6.11.0-8-generic (6.11.0-8.8) ... 132s Removing linux-tools-6.12.0-16-generic (6.12.0-16.16) ... 132s Removing linux-tools-6.12.0-16 (6.12.0-16.16) ... 132s Processing triggers for libc-bin (2.41-1ubuntu1) ... 132s (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 ... 84830 files and directories currently installed.) 132s Purging configuration files for linux-image-6.11.0-8-generic (6.11.0-8.8) ... 132s Purging configuration files for libpython3.12-minimal:amd64 (3.12.9-1) ... 132s Purging configuration files for linux-modules-6.11.0-8-generic (6.11.0-8.8) ... 133s + grep -q trusty /etc/lsb-release 133s + [ ! -d /usr/share/doc/unattended-upgrades ] 133s + [ ! -d /usr/share/doc/lxd ] 133s + [ ! -d /usr/share/doc/lxd-client ] 133s + [ ! -d /usr/share/doc/snapd ] 133s + type iptables 133s + cat 133s + chmod 755 /etc/rc.local 133s + . /etc/rc.local 133s + iptables -w -t mangle -A FORWARD -p tcp --tcp-flags SYN,RST SYN -j TCPMSS --clamp-mss-to-pmtu 133s + iptables -A OUTPUT -d 10.255.255.1/32 -p tcp -j DROP 133s + iptables -A OUTPUT -d 10.255.255.2/32 -p tcp -j DROP 133s + uname -m 133s + [ x86_64 = ppc64le ] 133s + [ -d /run/systemd/system ] 133s + systemd-detect-virt --quiet --vm 133s + mkdir -p /etc/systemd/system/systemd-random-seed.service.d/ 133s + cat 133s + grep -q lz4 /etc/initramfs-tools/initramfs.conf 133s + echo COMPRESS=lz4 133s autopkgtest [01:35:06]: upgrading testbed (apt dist-upgrade and autopurge) 133s Reading package lists... 133s Building dependency tree... 133s Reading state information... 133s Calculating upgrade...Starting pkgProblemResolver with broken count: 0 133s Starting 2 pkgProblemResolver with broken count: 0 133s Done 134s Entering ResolveByKeep 134s 134s Calculating upgrade... 134s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 134s Reading package lists... 135s Building dependency tree... 135s Reading state information... 135s Starting pkgProblemResolver with broken count: 0 135s Starting 2 pkgProblemResolver with broken count: 0 135s Done 135s Solving dependencies... 135s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 136s autopkgtest [01:35:09]: rebooting testbed after setup commands that affected boot 156s autopkgtest [01:35:29]: testbed running kernel: Linux 6.14.0-10-generic #10-Ubuntu SMP PREEMPT_DYNAMIC Wed Mar 12 16:07:00 UTC 2025 157s autopkgtest [01:35:30]: @@@@@@@@@@@@@@@@@@@@ apt-source macs 166s Get:1 http://ftpmaster.internal/ubuntu plucky/universe macs 3.0.2-1build3 (dsc) [2176 B] 166s Get:2 http://ftpmaster.internal/ubuntu plucky/universe macs 3.0.2-1build3 (tar) [197 MB] 166s Get:3 http://ftpmaster.internal/ubuntu plucky/universe macs 3.0.2-1build3 (diff) [1268 kB] 166s gpgv: Signature made Tue Mar 4 15:51:08 2025 UTC 166s gpgv: using RSA key 25E3FF2D7F469DBE7D0D4E50AFCFEC8E669CE1C2 166s gpgv: Can't check signature: No public key 166s dpkg-source: warning: cannot verify inline signature for ./macs_3.0.2-1build3.dsc: no acceptable signature found 170s autopkgtest [01:35:43]: testing package macs version 3.0.2-1build3 170s autopkgtest [01:35:43]: build not needed 178s autopkgtest [01:35:51]: test run-unit-test: preparing testbed 178s Reading package lists... 178s Building dependency tree... 178s Reading state information... 178s Starting pkgProblemResolver with broken count: 0 178s Starting 2 pkgProblemResolver with broken count: 0 178s Done 179s The following NEW packages will be installed: 179s libblas3 libgfortran5 libgomp1 liblapack3 liblbfgsb0 macs python3-cykhash 179s python3-decorator python3-hmmlearn python3-joblib python3-numpy 179s python3-numpy-dev python3-scipy python3-sklearn python3-sklearn-lib 179s python3-threadpoolctl 179s 0 upgraded, 16 newly installed, 0 to remove and 0 not upgraded. 179s Need to get 40.0 MB of archives. 179s After this operation, 169 MB of additional disk space will be used. 179s Get:1 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-numpy-dev amd64 1:2.2.3+ds-5 [148 kB] 179s Get:2 http://ftpmaster.internal/ubuntu plucky/main amd64 libblas3 amd64 3.12.1-2 [359 kB] 179s Get:3 http://ftpmaster.internal/ubuntu plucky/main amd64 libgfortran5 amd64 15-20250222-0ubuntu1 [919 kB] 179s Get:4 http://ftpmaster.internal/ubuntu plucky/main amd64 liblapack3 amd64 3.12.1-2 [3179 kB] 179s Get:5 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-numpy amd64 1:2.2.3+ds-5 [5702 kB] 179s Get:6 http://ftpmaster.internal/ubuntu plucky/main amd64 libgomp1 amd64 15-20250222-0ubuntu1 [148 kB] 179s Get:7 http://ftpmaster.internal/ubuntu plucky/universe amd64 liblbfgsb0 amd64 3.0+dfsg.4-1build1 [29.9 kB] 179s Get:8 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-cykhash amd64 2.0.0-3build3 [554 kB] 179s Get:9 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-decorator all 5.1.1-5 [10.1 kB] 179s Get:10 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-scipy amd64 1.14.1-4ubuntu2 [18.7 MB] 180s Get:11 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-joblib all 1.4.2-3 [205 kB] 180s Get:12 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-threadpoolctl all 3.1.0-1 [21.3 kB] 180s Get:13 http://ftpmaster.internal/ubuntu plucky-proposed/universe amd64 python3-sklearn-lib amd64 1.4.2+dfsg-8 [4359 kB] 180s Get:14 http://ftpmaster.internal/ubuntu plucky-proposed/universe amd64 python3-sklearn all 1.4.2+dfsg-8 [2258 kB] 180s Get:15 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-hmmlearn amd64 0.3.2-2build2 [128 kB] 180s Get:16 http://ftpmaster.internal/ubuntu plucky/universe amd64 macs amd64 3.0.2-1build3 [3266 kB] 181s Fetched 40.0 MB in 1s (27.0 MB/s) 181s Selecting previously unselected package python3-numpy-dev:amd64. 181s (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 ... 84827 files and directories currently installed.) 181s Preparing to unpack .../00-python3-numpy-dev_1%3a2.2.3+ds-5_amd64.deb ... 181s Unpacking python3-numpy-dev:amd64 (1:2.2.3+ds-5) ... 181s Selecting previously unselected package libblas3:amd64. 181s Preparing to unpack .../01-libblas3_3.12.1-2_amd64.deb ... 181s Unpacking libblas3:amd64 (3.12.1-2) ... 181s Selecting previously unselected package libgfortran5:amd64. 181s Preparing to unpack .../02-libgfortran5_15-20250222-0ubuntu1_amd64.deb ... 181s Unpacking libgfortran5:amd64 (15-20250222-0ubuntu1) ... 181s Selecting previously unselected package liblapack3:amd64. 181s Preparing to unpack .../03-liblapack3_3.12.1-2_amd64.deb ... 181s Unpacking liblapack3:amd64 (3.12.1-2) ... 181s Selecting previously unselected package python3-numpy. 181s Preparing to unpack .../04-python3-numpy_1%3a2.2.3+ds-5_amd64.deb ... 181s Unpacking python3-numpy (1:2.2.3+ds-5) ... 181s Selecting previously unselected package libgomp1:amd64. 181s Preparing to unpack .../05-libgomp1_15-20250222-0ubuntu1_amd64.deb ... 181s Unpacking libgomp1:amd64 (15-20250222-0ubuntu1) ... 181s Selecting previously unselected package liblbfgsb0:amd64. 181s Preparing to unpack .../06-liblbfgsb0_3.0+dfsg.4-1build1_amd64.deb ... 181s Unpacking liblbfgsb0:amd64 (3.0+dfsg.4-1build1) ... 181s Selecting previously unselected package python3-cykhash. 181s Preparing to unpack .../07-python3-cykhash_2.0.0-3build3_amd64.deb ... 181s Unpacking python3-cykhash (2.0.0-3build3) ... 181s Selecting previously unselected package python3-decorator. 181s Preparing to unpack .../08-python3-decorator_5.1.1-5_all.deb ... 181s Unpacking python3-decorator (5.1.1-5) ... 181s Selecting previously unselected package python3-scipy. 181s Preparing to unpack .../09-python3-scipy_1.14.1-4ubuntu2_amd64.deb ... 181s Unpacking python3-scipy (1.14.1-4ubuntu2) ... 182s Selecting previously unselected package python3-joblib. 182s Preparing to unpack .../10-python3-joblib_1.4.2-3_all.deb ... 182s Unpacking python3-joblib (1.4.2-3) ... 182s Selecting previously unselected package python3-threadpoolctl. 182s Preparing to unpack .../11-python3-threadpoolctl_3.1.0-1_all.deb ... 182s Unpacking python3-threadpoolctl (3.1.0-1) ... 182s Selecting previously unselected package python3-sklearn-lib:amd64. 182s Preparing to unpack .../12-python3-sklearn-lib_1.4.2+dfsg-8_amd64.deb ... 182s Unpacking python3-sklearn-lib:amd64 (1.4.2+dfsg-8) ... 182s Selecting previously unselected package python3-sklearn. 182s Preparing to unpack .../13-python3-sklearn_1.4.2+dfsg-8_all.deb ... 182s Unpacking python3-sklearn (1.4.2+dfsg-8) ... 182s Selecting previously unselected package python3-hmmlearn. 182s Preparing to unpack .../14-python3-hmmlearn_0.3.2-2build2_amd64.deb ... 182s Unpacking python3-hmmlearn (0.3.2-2build2) ... 182s Selecting previously unselected package macs. 182s Preparing to unpack .../15-macs_3.0.2-1build3_amd64.deb ... 182s Unpacking macs (3.0.2-1build3) ... 182s Setting up python3-joblib (1.4.2-3) ... 183s Setting up python3-threadpoolctl (3.1.0-1) ... 183s Setting up libgomp1:amd64 (15-20250222-0ubuntu1) ... 183s Setting up python3-cykhash (2.0.0-3build3) ... 183s Setting up python3-decorator (5.1.1-5) ... 183s Setting up libblas3:amd64 (3.12.1-2) ... 183s update-alternatives: using /usr/lib/x86_64-linux-gnu/blas/libblas.so.3 to provide /usr/lib/x86_64-linux-gnu/libblas.so.3 (libblas.so.3-x86_64-linux-gnu) in auto mode 183s Setting up python3-numpy-dev:amd64 (1:2.2.3+ds-5) ... 183s Setting up libgfortran5:amd64 (15-20250222-0ubuntu1) ... 183s Setting up liblapack3:amd64 (3.12.1-2) ... 183s update-alternatives: using /usr/lib/x86_64-linux-gnu/lapack/liblapack.so.3 to provide /usr/lib/x86_64-linux-gnu/liblapack.so.3 (liblapack.so.3-x86_64-linux-gnu) in auto mode 183s Setting up python3-numpy (1:2.2.3+ds-5) ... 185s Setting up liblbfgsb0:amd64 (3.0+dfsg.4-1build1) ... 185s Setting up python3-scipy (1.14.1-4ubuntu2) ... 188s Setting up python3-sklearn-lib:amd64 (1.4.2+dfsg-8) ... 188s Setting up python3-sklearn (1.4.2+dfsg-8) ... 190s Setting up python3-hmmlearn (0.3.2-2build2) ... 190s Setting up macs (3.0.2-1build3) ... 190s Processing triggers for man-db (2.13.0-1) ... 190s Processing triggers for libc-bin (2.41-1ubuntu1) ... 191s autopkgtest [01:36:04]: test run-unit-test: [----------------------- 191s + pkg=macs 191s + '[' /tmp/autopkgtest.a0lMMV/autopkgtest_tmp = '' ']' 191s + cp -a /usr/share/doc/macs/examples/aluY.chr1.bed.gz /usr/share/doc/macs/examples/gerp.chr1.bed.gz /tmp/autopkgtest.a0lMMV/autopkgtest_tmp 191s + cd /tmp/autopkgtest.a0lMMV/autopkgtest_tmp 191s + gunzip aluY.chr1.bed.gz gerp.chr1.bed.gz 191s + macs3 callpeak -t aluY.chr1.bed --nomodel -g hs -n test -B -q 0.01 191s INFO @ 16 Mar 2025 01:36:04: [33 MB] 191s # Command line: callpeak -t aluY.chr1.bed --nomodel -g hs -n test -B -q 0.01 191s # ARGUMENTS LIST: 191s # name = test 191s # format = AUTO 191s # ChIP-seq file = ['aluY.chr1.bed'] 191s # control file = None 191s # effective genome size = 2.91e+09 191s # band width = 300 191s # model fold = [5, 50] 191s # qvalue cutoff = 1.00e-02 191s # The maximum gap between significant sites is assigned as the read length/tag size. 191s # The minimum length of peaks is assigned as the predicted fragment length "d". 191s # Larger dataset will be scaled towards smaller dataset. 191s # Range for calculating regional lambda is: 10000 bps 191s # Broad region calling is off 191s # Paired-End mode is off 191s 191s INFO @ 16 Mar 2025 01:36:04: [33 MB] #1 read tag files... 191s INFO @ 16 Mar 2025 01:36:04: [33 MB] #1 read treatment tags... 191s INFO @ 16 Mar 2025 01:36:04: [33 MB] Detected format is: BED 191s INFO @ 16 Mar 2025 01:36:04: [35 MB] #1 tag size is determined as 294 bps 191s INFO @ 16 Mar 2025 01:36:04: [35 MB] #1 tag size = 294.0 191s INFO @ 16 Mar 2025 01:36:04: [35 MB] #1 total tags in treatment: 11628 191s INFO @ 16 Mar 2025 01:36:04: [35 MB] #1 user defined the maximum tags... 191s INFO @ 16 Mar 2025 01:36:04: [35 MB] #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) 191s INFO @ 16 Mar 2025 01:36:04: [35 MB] #1 tags after filtering in treatment: 11628 191s INFO @ 16 Mar 2025 01:36:04: [35 MB] #1 Redundant rate of treatment: 0.00 191s INFO @ 16 Mar 2025 01:36:04: [35 MB] #1 finished! 191s INFO @ 16 Mar 2025 01:36:04: [35 MB] #2 Build Peak Model... 191s INFO @ 16 Mar 2025 01:36:04: [35 MB] #2 Skipped... 191s INFO @ 16 Mar 2025 01:36:04: [35 MB] #2 Use 200 as fragment length 191s INFO @ 16 Mar 2025 01:36:04: [35 MB] #3 Call peaks... 191s INFO @ 16 Mar 2025 01:36:04: [35 MB] #3 Pre-compute pvalue-qvalue table... 191s INFO @ 16 Mar 2025 01:36:04: [38 MB] #3 In the peak calling step, the following will be performed simultaneously: 191s INFO @ 16 Mar 2025 01:36:04: [38 MB] #3 Write bedGraph files for treatment pileup (after scaling if necessary)... test_treat_pileup.bdg 191s INFO @ 16 Mar 2025 01:36:04: [38 MB] #3 Write bedGraph files for control lambda (after scaling if necessary)... test_control_lambda.bdg 191s INFO @ 16 Mar 2025 01:36:04: [38 MB] #3 Pileup will be based on sequencing depth in treatment. 191s INFO @ 16 Mar 2025 01:36:04: [38 MB] #3 Call peaks for each chromosome... 191s INFO @ 16 Mar 2025 01:36:04: [38 MB] #4 Write output xls file... test_peaks.xls 191s INFO @ 16 Mar 2025 01:36:04: [38 MB] #4 Write peak in narrowPeak format file... test_peaks.narrowPeak 191s INFO @ 16 Mar 2025 01:36:04: [38 MB] #4 Write summits bed file... test_summits.bed 191s INFO @ 16 Mar 2025 01:36:04: [38 MB] Done! 191s + macs3 callpeak -t gerp.chr1.bed --nomodel --broad -g hs --broad-cutoff 0.1 191s INFO @ 16 Mar 2025 01:36:04: [33 MB] 191s # Command line: callpeak -t gerp.chr1.bed --nomodel --broad -g hs --broad-cutoff 0.1 191s # ARGUMENTS LIST: 191s # name = NA 191s # format = AUTO 191s # ChIP-seq file = ['gerp.chr1.bed'] 191s # control file = None 191s # effective genome size = 2.91e+09 191s # band width = 300 191s # model fold = [5, 50] 191s # qvalue cutoff for narrow/strong regions = 5.00e-02 191s # qvalue cutoff for broad/weak regions = 1.00e-01 191s # The maximum gap between significant sites is assigned as the read length/tag size. 191s # The minimum length of peaks is assigned as the predicted fragment length "d". 191s # Larger dataset will be scaled towards smaller dataset. 191s # Range for calculating regional lambda is: 10000 bps 191s # Broad region calling is on 191s # Paired-End mode is off 191s 191s INFO @ 16 Mar 2025 01:36:04: [33 MB] #1 read tag files... 191s INFO @ 16 Mar 2025 01:36:04: [33 MB] #1 read treatment tags... 191s INFO @ 16 Mar 2025 01:36:04: [33 MB] Detected format is: BED 192s INFO @ 16 Mar 2025 01:36:05: [44 MB] #1 tag size is determined as 181 bps 192s INFO @ 16 Mar 2025 01:36:05: [44 MB] #1 tag size = 181.0 192s INFO @ 16 Mar 2025 01:36:05: [44 MB] #1 total tags in treatment: 88292 192s INFO @ 16 Mar 2025 01:36:05: [44 MB] #1 user defined the maximum tags... 192s INFO @ 16 Mar 2025 01:36:05: [44 MB] #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) 192s INFO @ 16 Mar 2025 01:36:05: [44 MB] #1 tags after filtering in treatment: 88292 192s INFO @ 16 Mar 2025 01:36:05: [44 MB] #1 Redundant rate of treatment: 0.00 192s INFO @ 16 Mar 2025 01:36:05: [44 MB] #1 finished! 192s INFO @ 16 Mar 2025 01:36:05: [44 MB] #2 Build Peak Model... 192s INFO @ 16 Mar 2025 01:36:05: [44 MB] #2 Skipped... 192s INFO @ 16 Mar 2025 01:36:05: [44 MB] #2 Use 200 as fragment length 192s INFO @ 16 Mar 2025 01:36:05: [44 MB] #3 Call peaks... 192s INFO @ 16 Mar 2025 01:36:05: [44 MB] #3 Call broad peaks with given level1 -log10qvalue cutoff and level2: 1.301030, 1.000000... 192s INFO @ 16 Mar 2025 01:36:05: [44 MB] #3 Pre-compute pvalue-qvalue table... 192s INFO @ 16 Mar 2025 01:36:05: [61 MB] #3 Call peaks for each chromosome... 192s INFO @ 16 Mar 2025 01:36:05: [63 MB] #4 Write output xls file... NA_peaks.xls 192s INFO @ 16 Mar 2025 01:36:05: [63 MB] #4 Write broad peak in broadPeak format file... NA_peaks.broadPeak 192s INFO @ 16 Mar 2025 01:36:05: [63 MB] #4 Write broad peak in bed12/gappedPeak format file... NA_peaks.gappedPeak 192s INFO @ 16 Mar 2025 01:36:05: [63 MB] Done! 192s autopkgtest [01:36:05]: test run-unit-test: -----------------------] 192s run-unit-test PASS 192s autopkgtest [01:36:05]: test run-unit-test: - - - - - - - - - - results - - - - - - - - - - 193s autopkgtest [01:36:06]: @@@@@@@@@@@@@@@@@@@@ summary 193s run-unit-test PASS 214s nova [W] Skipping flock for amd64 214s Creating nova instance adt-plucky-amd64-macs-20250316-013252-juju-7f2275-prod-proposed-migration-environment-15-b00db448-4e43-4baa-8b35-0d542821e157 from image adt/ubuntu-plucky-amd64-server-20250306.img (UUID 60d877d7-b74c-4f24-920d-f4570db0a338)... 214s nova [W] Timed out waiting for e57841e8-e392-48a9-b58f-faa0904478ce to get deleted.