0s autopkgtest [18:52:11]: starting date and time: 2025-03-15 18:52:11+0000 0s autopkgtest [18:52:11]: git checkout: 325255d2 Merge branch 'pin-any-arch' into 'ubuntu/production' 0s autopkgtest [18:52:11]: host juju-7f2275-prod-proposed-migration-environment-2; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work.6god1gam/out --timeout-copy=6000 --setup-commands /home/ubuntu/autopkgtest-cloud/worker-config-production/setup-canonical.sh --apt-pocket=proposed=src:glibc --apt-upgrade python-pybedtools --timeout-short=300 --timeout-copy=20000 --timeout-build=20000 --env=ADT_TEST_TRIGGERS=glibc/2.41-1ubuntu2 -- ssh -s /home/ubuntu/autopkgtest/ssh-setup/nova -- --flavor autopkgtest --security-groups autopkgtest-juju-7f2275-prod-proposed-migration-environment-2@lcy02-3.secgroup --name adt-plucky-amd64-python-pybedtools-20250315-185211-juju-7f2275-prod-proposed-migration-environment-2-73334aa5-ee43-462c-b801-9300f4539dbc --image adt/ubuntu-plucky-amd64-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,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/ 47s autopkgtest [18:52:58]: testbed dpkg architecture: amd64 47s autopkgtest [18:52:58]: testbed apt version: 2.9.31ubuntu1 48s autopkgtest [18:52:59]: @@@@@@@@@@@@@@@@@@@@ test bed setup 48s autopkgtest [18:52:59]: testbed release detected to be: None 48s autopkgtest [18:52:59]: updating testbed package index (apt update) 48s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease [126 kB] 48s Hit:2 http://ftpmaster.internal/ubuntu plucky InRelease 48s Hit:3 http://ftpmaster.internal/ubuntu plucky-updates InRelease 48s Hit:4 http://ftpmaster.internal/ubuntu plucky-security InRelease 48s Get:5 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse Sources [15.8 kB] 48s Get:6 http://ftpmaster.internal/ubuntu plucky-proposed/universe Sources [379 kB] 48s Get:7 http://ftpmaster.internal/ubuntu plucky-proposed/main Sources [99.7 kB] 48s Get:8 http://ftpmaster.internal/ubuntu plucky-proposed/main i386 Packages [97.6 kB] 48s Get:9 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 Packages [123 kB] 48s Get:10 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 c-n-f Metadata [1884 B] 48s Get:11 http://ftpmaster.internal/ubuntu plucky-proposed/restricted amd64 c-n-f Metadata [116 B] 48s Get:12 http://ftpmaster.internal/ubuntu plucky-proposed/universe amd64 Packages [335 kB] 48s Get:13 http://ftpmaster.internal/ubuntu plucky-proposed/universe i386 Packages [167 kB] 48s Get:14 http://ftpmaster.internal/ubuntu plucky-proposed/universe amd64 c-n-f Metadata [16.0 kB] 48s Get:15 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse amd64 Packages [17.0 kB] 48s Get:16 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse i386 Packages [8452 B] 48s Get:17 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse amd64 c-n-f Metadata [628 B] 49s Fetched 1387 kB in 0s (3625 kB/s) 50s Reading package lists... 50s Reading package lists... 50s Building dependency tree... 50s Reading state information... 50s Calculating upgrade... 51s Calculating upgrade... 51s The following package was automatically installed and is no longer required: 51s libnl-genl-3-200 51s Use 'sudo apt autoremove' to remove it. 51s The following NEW packages will be installed: 51s bpftool libdebuginfod-common libdebuginfod1t64 linux-headers-6.14.0-10 51s linux-headers-6.14.0-10-generic linux-image-6.14.0-10-generic 51s linux-modules-6.14.0-10-generic linux-modules-extra-6.14.0-10-generic 51s linux-perf linux-tools-6.14.0-10 linux-tools-6.14.0-10-generic pnp.ids 51s The following packages will be upgraded: 51s apparmor apt apt-utils binutils binutils-common binutils-x86-64-linux-gnu 51s cloud-init cloud-init-base curl dosfstools fwupd gir1.2-girepository-2.0 51s gir1.2-glib-2.0 htop hwdata libapparmor1 libapt-pkg7.0 libaudit-common 51s libaudit1 libbinutils libbrotli1 libcap-ng0 libctf-nobfd0 libctf0 51s libcurl3t64-gnutls libcurl4t64 libestr0 libfwupd3 libgirepository-1.0-1 51s libglib2.0-0t64 libglib2.0-data libgprofng0 libjemalloc2 liblz4-1 liblzma5 51s libmm-glib0 libncurses6 libncursesw6 libnl-3-200 libnl-genl-3-200 51s libnl-route-3-200 libpci3 libpython3-stdlib libpython3.13 51s libpython3.13-minimal libpython3.13-stdlib libselinux1 libsframe1 51s libsqlite3-0 libtinfo6 libxml2 linux-firmware linux-generic 51s linux-headers-generic linux-headers-virtual linux-image-generic 51s linux-image-virtual linux-libc-dev linux-tools-common linux-virtual 51s media-types ncurses-base ncurses-bin ncurses-term pci.ids pciutils 51s pinentry-curses python-apt-common python3 python3-apt python3-cffi-backend 51s python3-dbus python3-gi python3-jinja2 python3-lazr.uri python3-markupsafe 51s python3-minimal python3-systemd python3-yaml python3.13 python3.13-gdbm 51s python3.13-minimal rsync rsyslog strace xz-utils 51s 86 upgraded, 12 newly installed, 0 to remove and 0 not upgraded. 51s Need to get 807 MB of archives. 51s After this operation, 326 MB of additional disk space will be used. 51s Get:1 http://ftpmaster.internal/ubuntu plucky/main amd64 ncurses-bin amd64 6.5+20250216-2 [194 kB] 51s Get:2 http://ftpmaster.internal/ubuntu plucky/main amd64 ncurses-base all 6.5+20250216-2 [25.9 kB] 51s Get:3 http://ftpmaster.internal/ubuntu plucky/main amd64 ncurses-term all 6.5+20250216-2 [276 kB] 51s Get:4 http://ftpmaster.internal/ubuntu plucky/main amd64 liblz4-1 amd64 1.10.0-4 [66.4 kB] 51s Get:5 http://ftpmaster.internal/ubuntu plucky/main amd64 liblzma5 amd64 5.6.4-1 [157 kB] 51s Get:6 http://ftpmaster.internal/ubuntu plucky/main amd64 libapt-pkg7.0 amd64 2.9.33 [1138 kB] 51s Get:7 http://ftpmaster.internal/ubuntu plucky/main amd64 apt amd64 2.9.33 [1439 kB] 51s Get:8 http://ftpmaster.internal/ubuntu plucky/main amd64 apt-utils amd64 2.9.33 [222 kB] 51s Get:9 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-minimal amd64 3.13.2-2 [27.7 kB] 51s Get:10 http://ftpmaster.internal/ubuntu plucky/main amd64 python3 amd64 3.13.2-2 [24.0 kB] 51s Get:11 http://ftpmaster.internal/ubuntu plucky/main amd64 libpython3.13 amd64 3.13.2-2 [2341 kB] 52s Get:12 http://ftpmaster.internal/ubuntu plucky/main amd64 media-types all 13.0.0 [29.9 kB] 52s Get:13 http://ftpmaster.internal/ubuntu plucky/main amd64 libncurses6 amd64 6.5+20250216-2 [126 kB] 52s Get:14 http://ftpmaster.internal/ubuntu plucky/main amd64 libncursesw6 amd64 6.5+20250216-2 [165 kB] 52s Get:15 http://ftpmaster.internal/ubuntu plucky/main amd64 libtinfo6 amd64 6.5+20250216-2 [119 kB] 52s Get:16 http://ftpmaster.internal/ubuntu plucky/main amd64 libsqlite3-0 amd64 3.46.1-2 [715 kB] 52s Get:17 http://ftpmaster.internal/ubuntu plucky/main amd64 python3.13 amd64 3.13.2-2 [735 kB] 52s Get:18 http://ftpmaster.internal/ubuntu plucky/main amd64 python3.13-minimal amd64 3.13.2-2 [2365 kB] 52s Get:19 http://ftpmaster.internal/ubuntu plucky/main amd64 libpython3.13-minimal amd64 3.13.2-2 [883 kB] 52s Get:20 http://ftpmaster.internal/ubuntu plucky/main amd64 libpython3.13-stdlib amd64 3.13.2-2 [2066 kB] 52s Get:21 http://ftpmaster.internal/ubuntu plucky/main amd64 libpython3-stdlib amd64 3.13.2-2 [10.4 kB] 52s Get:22 http://ftpmaster.internal/ubuntu plucky/main amd64 rsync amd64 3.4.1+ds1-3 [482 kB] 52s Get:23 http://ftpmaster.internal/ubuntu plucky/main amd64 libdebuginfod-common all 0.192-4 [15.4 kB] 52s Get:24 http://ftpmaster.internal/ubuntu plucky/main amd64 libaudit-common all 1:4.0.2-2ubuntu2 [6628 B] 52s Get:25 http://ftpmaster.internal/ubuntu plucky/main amd64 libcap-ng0 amd64 0.8.5-4build1 [15.6 kB] 52s Get:26 http://ftpmaster.internal/ubuntu plucky/main amd64 libaudit1 amd64 1:4.0.2-2ubuntu2 [54.0 kB] 52s Get:27 http://ftpmaster.internal/ubuntu plucky/main amd64 libselinux1 amd64 3.7-3ubuntu3 [87.3 kB] 52s Get:28 http://ftpmaster.internal/ubuntu plucky/main amd64 gir1.2-girepository-2.0 amd64 1.83.4-1 [25.3 kB] 52s Get:29 http://ftpmaster.internal/ubuntu plucky/main amd64 gir1.2-glib-2.0 amd64 2.84.0-1 [184 kB] 52s Get:30 http://ftpmaster.internal/ubuntu plucky/main amd64 libglib2.0-0t64 amd64 2.84.0-1 [1669 kB] 52s Get:31 http://ftpmaster.internal/ubuntu plucky/main amd64 libgirepository-1.0-1 amd64 1.83.4-1 [89.5 kB] 52s Get:32 http://ftpmaster.internal/ubuntu plucky/main amd64 libapparmor1 amd64 4.1.0~beta5-0ubuntu8 [55.0 kB] 52s Get:33 http://ftpmaster.internal/ubuntu plucky/main amd64 libestr0 amd64 0.1.11-2 [8340 B] 52s Get:34 http://ftpmaster.internal/ubuntu plucky/main amd64 libglib2.0-data all 2.84.0-1 [53.0 kB] 52s Get:35 http://ftpmaster.internal/ubuntu plucky/main amd64 libxml2 amd64 2.12.7+dfsg+really2.9.14-0.2ubuntu5 [772 kB] 52s Get:36 http://ftpmaster.internal/ubuntu plucky/main amd64 python-apt-common all 2.9.9build1 [21.3 kB] 52s Get:37 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-apt amd64 2.9.9build1 [172 kB] 52s Get:38 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-cffi-backend amd64 1.17.1-2build2 [96.6 kB] 52s Get:39 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-dbus amd64 1.3.2-5build5 [102 kB] 52s Get:40 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-gi amd64 3.50.0-4build1 [252 kB] 52s Get:41 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-yaml amd64 6.0.2-1build2 [144 kB] 52s Get:42 http://ftpmaster.internal/ubuntu plucky/main amd64 rsyslog amd64 8.2412.0-2ubuntu2 [555 kB] 52s Get:43 http://ftpmaster.internal/ubuntu plucky/main amd64 apparmor amd64 4.1.0~beta5-0ubuntu8 [701 kB] 52s Get:44 http://ftpmaster.internal/ubuntu plucky/main amd64 dosfstools amd64 4.2-1.2 [95.0 kB] 52s Get:45 http://ftpmaster.internal/ubuntu plucky/main amd64 libnl-genl-3-200 amd64 3.7.0-1 [12.2 kB] 52s Get:46 http://ftpmaster.internal/ubuntu plucky/main amd64 libnl-route-3-200 amd64 3.7.0-1 [191 kB] 52s Get:47 http://ftpmaster.internal/ubuntu plucky/main amd64 libnl-3-200 amd64 3.7.0-1 [64.9 kB] 52s Get:48 http://ftpmaster.internal/ubuntu plucky/main amd64 pci.ids all 0.0~2025.03.09-1 [285 kB] 52s Get:49 http://ftpmaster.internal/ubuntu plucky/main amd64 pciutils amd64 1:3.13.0-2 [110 kB] 53s Get:50 http://ftpmaster.internal/ubuntu plucky/main amd64 libpci3 amd64 1:3.13.0-2 [39.8 kB] 53s Get:51 http://ftpmaster.internal/ubuntu plucky/main amd64 strace amd64 6.13+ds-1ubuntu1 [622 kB] 53s Get:52 http://ftpmaster.internal/ubuntu plucky/main amd64 xz-utils amd64 5.6.4-1 [278 kB] 53s Get:53 http://ftpmaster.internal/ubuntu plucky/main amd64 libgprofng0 amd64 2.44-3ubuntu1 [886 kB] 53s Get:54 http://ftpmaster.internal/ubuntu plucky/main amd64 libctf0 amd64 2.44-3ubuntu1 [96.5 kB] 53s Get:55 http://ftpmaster.internal/ubuntu plucky/main amd64 libctf-nobfd0 amd64 2.44-3ubuntu1 [98.9 kB] 53s Get:56 http://ftpmaster.internal/ubuntu plucky/main amd64 binutils-x86-64-linux-gnu amd64 2.44-3ubuntu1 [1108 kB] 53s Get:57 http://ftpmaster.internal/ubuntu plucky/main amd64 libbinutils amd64 2.44-3ubuntu1 [585 kB] 53s Get:58 http://ftpmaster.internal/ubuntu plucky/main amd64 binutils amd64 2.44-3ubuntu1 [208 kB] 53s Get:59 http://ftpmaster.internal/ubuntu plucky/main amd64 binutils-common amd64 2.44-3ubuntu1 [215 kB] 53s Get:60 http://ftpmaster.internal/ubuntu plucky/main amd64 libsframe1 amd64 2.44-3ubuntu1 [14.8 kB] 53s Get:61 http://ftpmaster.internal/ubuntu plucky/main amd64 hwdata all 0.393-3 [1562 B] 53s Get:62 http://ftpmaster.internal/ubuntu plucky/main amd64 pnp.ids all 0.393-3 [29.5 kB] 53s Get:63 http://ftpmaster.internal/ubuntu plucky/main amd64 linux-tools-common all 6.14.0-10.10 [295 kB] 53s Get:64 http://ftpmaster.internal/ubuntu plucky/main amd64 bpftool amd64 7.6.0+6.14.0-10.10 [1147 kB] 53s Get:65 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-markupsafe amd64 2.1.5-1build4 [13.4 kB] 53s Get:66 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-jinja2 all 3.1.5-2ubuntu1 [109 kB] 53s Get:67 http://ftpmaster.internal/ubuntu plucky/main amd64 cloud-init-base all 25.1-0ubuntu3 [616 kB] 53s Get:68 http://ftpmaster.internal/ubuntu plucky/main amd64 libbrotli1 amd64 1.1.0-2build4 [365 kB] 53s Get:69 http://ftpmaster.internal/ubuntu plucky/main amd64 curl amd64 8.12.1-3ubuntu1 [258 kB] 53s Get:70 http://ftpmaster.internal/ubuntu plucky/main amd64 libcurl4t64 amd64 8.12.1-3ubuntu1 [437 kB] 53s Get:71 http://ftpmaster.internal/ubuntu plucky/main amd64 libcurl3t64-gnutls amd64 8.12.1-3ubuntu1 [432 kB] 53s Get:72 http://ftpmaster.internal/ubuntu plucky/main amd64 fwupd amd64 2.0.6-4 [5408 kB] 53s Get:73 http://ftpmaster.internal/ubuntu plucky/main amd64 libfwupd3 amd64 2.0.6-4 [136 kB] 53s Get:74 http://ftpmaster.internal/ubuntu plucky/main amd64 libmm-glib0 amd64 1.23.4-0ubuntu3 [251 kB] 53s Get:75 http://ftpmaster.internal/ubuntu plucky/main amd64 htop amd64 3.4.0-2 [195 kB] 53s Get:76 http://ftpmaster.internal/ubuntu plucky/main amd64 libdebuginfod1t64 amd64 0.192-4 [21.0 kB] 53s Get:77 http://ftpmaster.internal/ubuntu plucky/main amd64 libjemalloc2 amd64 5.3.0-3 [277 kB] 53s Get:78 http://ftpmaster.internal/ubuntu plucky/main amd64 linux-firmware amd64 20250310.git9e1370d3-0ubuntu1 [571 MB] 72s 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] 73s 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] 73s 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] 75s Get:82 http://ftpmaster.internal/ubuntu plucky/main amd64 linux-generic amd64 6.14.0-10.10 [1730 B] 75s Get:83 http://ftpmaster.internal/ubuntu plucky/main amd64 linux-image-generic amd64 6.14.0-10.10 [11.1 kB] 75s Get:84 http://ftpmaster.internal/ubuntu plucky/main amd64 linux-virtual amd64 6.14.0-10.10 [1722 B] 75s Get:85 http://ftpmaster.internal/ubuntu plucky/main amd64 linux-image-virtual amd64 6.14.0-10.10 [11.1 kB] 75s Get:86 http://ftpmaster.internal/ubuntu plucky/main amd64 linux-headers-virtual amd64 6.14.0-10.10 [1642 B] 75s Get:87 http://ftpmaster.internal/ubuntu plucky/main amd64 linux-headers-6.14.0-10 all 6.14.0-10.10 [14.2 MB] 75s Get:88 http://ftpmaster.internal/ubuntu plucky/main amd64 linux-headers-6.14.0-10-generic amd64 6.14.0-10.10 [3915 kB] 75s Get:89 http://ftpmaster.internal/ubuntu plucky/main amd64 linux-headers-generic amd64 6.14.0-10.10 [11.0 kB] 75s Get:90 http://ftpmaster.internal/ubuntu plucky/main amd64 linux-libc-dev amd64 6.14.0-10.10 [1723 kB] 75s Get:91 http://ftpmaster.internal/ubuntu plucky/main amd64 linux-perf amd64 6.14.0-10.10 [4122 kB] 75s Get:92 http://ftpmaster.internal/ubuntu plucky/main amd64 linux-tools-6.14.0-10 amd64 6.14.0-10.10 [1394 kB] 75s Get:93 http://ftpmaster.internal/ubuntu plucky/main amd64 linux-tools-6.14.0-10-generic amd64 6.14.0-10.10 [830 B] 75s Get:94 http://ftpmaster.internal/ubuntu plucky/main amd64 pinentry-curses amd64 1.3.1-2ubuntu3 [42.3 kB] 75s Get:95 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-lazr.uri all 1.0.6-6 [13.7 kB] 75s Get:96 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-systemd amd64 235-1build6 [43.9 kB] 75s Get:97 http://ftpmaster.internal/ubuntu plucky/main amd64 python3.13-gdbm amd64 3.13.2-2 [31.9 kB] 75s Get:98 http://ftpmaster.internal/ubuntu plucky/main amd64 cloud-init all 25.1-0ubuntu3 [2100 B] 75s Preconfiguring packages ... 75s Fetched 807 MB in 24s (33.6 MB/s) 76s (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.) 76s Preparing to unpack .../ncurses-bin_6.5+20250216-2_amd64.deb ... 76s Unpacking ncurses-bin (6.5+20250216-2) over (6.5+20250216-1) ... 76s Setting up ncurses-bin (6.5+20250216-2) ... 76s (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.) 76s Preparing to unpack .../ncurses-base_6.5+20250216-2_all.deb ... 76s Unpacking ncurses-base (6.5+20250216-2) over (6.5+20250216-1) ... 76s Setting up ncurses-base (6.5+20250216-2) ... 76s (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.) 76s Preparing to unpack .../ncurses-term_6.5+20250216-2_all.deb ... 76s Unpacking ncurses-term (6.5+20250216-2) over (6.5+20250216-1) ... 77s Preparing to unpack .../liblz4-1_1.10.0-4_amd64.deb ... 77s Unpacking liblz4-1:amd64 (1.10.0-4) over (1.10.0-3) ... 77s Setting up liblz4-1:amd64 (1.10.0-4) ... 77s (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.) 77s Preparing to unpack .../liblzma5_5.6.4-1_amd64.deb ... 77s Unpacking liblzma5:amd64 (5.6.4-1) over (5.6.3-1) ... 77s Setting up liblzma5:amd64 (5.6.4-1) ... 77s (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.) 77s Preparing to unpack .../libapt-pkg7.0_2.9.33_amd64.deb ... 77s Unpacking libapt-pkg7.0:amd64 (2.9.33) over (2.9.31ubuntu1) ... 77s Setting up libapt-pkg7.0:amd64 (2.9.33) ... 77s (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.) 77s Preparing to unpack .../archives/apt_2.9.33_amd64.deb ... 77s Unpacking apt (2.9.33) over (2.9.31ubuntu1) ... 77s Setting up apt (2.9.33) ... 78s (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.) 78s Preparing to unpack .../apt-utils_2.9.33_amd64.deb ... 78s Unpacking apt-utils (2.9.33) over (2.9.31ubuntu1) ... 78s Preparing to unpack .../python3-minimal_3.13.2-2_amd64.deb ... 78s Unpacking python3-minimal (3.13.2-2) over (3.13.2-1) ... 78s Setting up python3-minimal (3.13.2-2) ... 78s (Reading database ... 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Preparing to unpack .../68-python3-systemd_235-1build6_amd64.deb ... 94s Unpacking python3-systemd (235-1build6) over (235-1build5) ... 94s Preparing to unpack .../69-python3.13-gdbm_3.13.2-2_amd64.deb ... 94s Unpacking python3.13-gdbm (3.13.2-2) over (3.13.2-1) ... 94s Preparing to unpack .../70-cloud-init_25.1-0ubuntu3_all.deb ... 94s Unpacking cloud-init (25.1-0ubuntu3) over (25.1-0ubuntu2) ... 94s Setting up linux-headers-6.14.0-10 (6.14.0-10.10) ... 94s Setting up media-types (13.0.0) ... 94s Installing new version of config file /etc/mime.types ... 94s Setting up linux-headers-6.14.0-10-generic (6.14.0-10.10) ... 94s Setting up libapparmor1:amd64 (4.1.0~beta5-0ubuntu8) ... 94s Setting up pci.ids (0.0~2025.03.09-1) ... 94s Setting up apt-utils (2.9.33) ... 94s Setting up libdebuginfod-common (0.192-4) ... 94s Setting up linux-firmware (20250310.git9e1370d3-0ubuntu1) ... 94s Setting up bpftool (7.6.0+6.14.0-10.10) ... 94s Setting up libestr0:amd64 (0.1.11-2) ... 94s Setting up libbrotli1:amd64 (1.1.0-2build4) ... 94s Setting up libsqlite3-0:amd64 (3.46.1-2) ... 94s Setting up dosfstools (4.2-1.2) ... 94s Setting up rsyslog (8.2412.0-2ubuntu2) ... 94s info: The user `syslog' is already a member of `adm'. 96s Setting up binutils-common:amd64 (2.44-3ubuntu1) ... 96s Setting up libcurl3t64-gnutls:amd64 (8.12.1-3ubuntu1) ... 96s Setting up linux-libc-dev:amd64 (6.14.0-10.10) ... 96s Setting up libctf-nobfd0:amd64 (2.44-3ubuntu1) ... 96s Setting up linux-headers-generic (6.14.0-10.10) ... 96s Setting up libjemalloc2:amd64 (5.3.0-3) ... 96s Setting up libsframe1:amd64 (2.44-3ubuntu1) ... 96s Setting up libpython3.13-minimal:amd64 (3.13.2-2) ... 96s Setting up apparmor (4.1.0~beta5-0ubuntu8) ... 96s Installing new version of config file /etc/apparmor.d/openvpn ... 97s Reloading AppArmor profiles 98s Setting up libglib2.0-0t64:amd64 (2.84.0-1) ... 98s No schema files found: doing nothing. 98s Setting up libglib2.0-data (2.84.0-1) ... 98s Setting up libncurses6:amd64 (6.5+20250216-2) ... 98s Setting up strace (6.13+ds-1ubuntu1) ... 98s Setting up xz-utils (5.6.4-1) ... 98s Setting up gir1.2-glib-2.0:amd64 (2.84.0-1) ... 98s Setting up linux-modules-6.14.0-10-generic (6.14.0-10.10) ... 100s Setting up libncursesw6:amd64 (6.5+20250216-2) ... 100s Setting up libpci3:amd64 (1:3.13.0-2) ... 100s Setting up python-apt-common (2.9.9build1) ... 100s Setting up libmm-glib0:amd64 (1.23.4-0ubuntu3) ... 100s Setting up pnp.ids (0.393-3) ... 100s Setting up libnl-3-200:amd64 (3.7.0-1) ... 100s Setting up python3.13-minimal (3.13.2-2) ... 101s Setting up libgirepository-1.0-1:amd64 (1.83.4-1) ... 101s Setting up libbinutils:amd64 (2.44-3ubuntu1) ... 101s Setting up libpython3.13-stdlib:amd64 (3.13.2-2) ... 101s Setting up libxml2:amd64 (2.12.7+dfsg+really2.9.14-0.2ubuntu5) ... 101s Setting up rsync (3.4.1+ds1-3) ... 102s rsync.service is a disabled or a static unit not running, not starting it. 102s Setting up python3.13-gdbm (3.13.2-2) ... 102s Setting up libpython3-stdlib:amd64 (3.13.2-2) ... 102s Setting up ncurses-term (6.5+20250216-2) ... 102s Setting up libctf0:amd64 (2.44-3ubuntu1) ... 102s Setting up libpython3.13:amd64 (3.13.2-2) ... 102s Setting up pinentry-curses (1.3.1-2ubuntu3) ... 102s Setting up libdebuginfod1t64:amd64 (0.192-4) ... 102s Setting up linux-headers-virtual (6.14.0-10.10) ... 102s Setting up libcurl4t64:amd64 (8.12.1-3ubuntu1) ... 102s Setting up python3.13 (3.13.2-2) ... 103s Setting up htop (3.4.0-2) ... 103s Setting up linux-image-6.14.0-10-generic (6.14.0-10.10) ... 105s I: /boot/vmlinuz.old is now a symlink to vmlinuz-6.12.0-16-generic 105s I: /boot/initrd.img.old is now a symlink to initrd.img-6.12.0-16-generic 105s I: /boot/vmlinuz is now a symlink to vmlinuz-6.14.0-10-generic 105s I: /boot/initrd.img is now a symlink to initrd.img-6.14.0-10-generic 105s Setting up libfwupd3:amd64 (2.0.6-4) ... 105s Setting up python3 (3.13.2-2) ... 105s Setting up python3-markupsafe (2.1.5-1build4) ... 105s Setting up linux-modules-extra-6.14.0-10-generic (6.14.0-10.10) ... 107s Setting up libnl-route-3-200:amd64 (3.7.0-1) ... 107s Setting up hwdata (0.393-3) ... 107s Setting up python3-jinja2 (3.1.5-2ubuntu1) ... 107s Setting up libgprofng0:amd64 (2.44-3ubuntu1) ... 107s Setting up linux-perf (6.14.0-10.10) ... 107s Setting up gir1.2-girepository-2.0:amd64 (1.83.4-1) ... 107s Setting up python3-gi (3.50.0-4build1) ... 108s Setting up pciutils (1:3.13.0-2) ... 108s Setting up libnl-genl-3-200:amd64 (3.7.0-1) ... 108s Setting up curl (8.12.1-3ubuntu1) ... 108s Setting up linux-image-virtual (6.14.0-10.10) ... 108s Setting up linux-tools-common (6.14.0-10.10) ... 108s Setting up fwupd (2.0.6-4) ... 108s fwupd-refresh.service is a disabled or a static unit not running, not starting it. 108s fwupd.service is a disabled or a static unit not running, not starting it. 108s Setting up python3-systemd (235-1build6) ... 108s Setting up python3-cffi-backend:amd64 (1.17.1-2build2) ... 108s Setting up binutils-x86-64-linux-gnu (2.44-3ubuntu1) ... 108s Setting up linux-image-generic (6.14.0-10.10) ... 108s Setting up python3-dbus (1.3.2-5build5) ... 109s Setting up linux-tools-6.14.0-10 (6.14.0-10.10) ... 109s Setting up linux-generic (6.14.0-10.10) ... 109s Setting up python3-apt (2.9.9build1) ... 109s Setting up python3-yaml (6.0.2-1build2) ... 109s Setting up python3-lazr.uri (1.0.6-6) ... 109s Setting up binutils (2.44-3ubuntu1) ... 109s Setting up cloud-init-base (25.1-0ubuntu3) ... 110s Setting up linux-virtual (6.14.0-10.10) ... 110s Setting up linux-tools-6.14.0-10-generic (6.14.0-10.10) ... 110s Setting up cloud-init (25.1-0ubuntu3) ... 110s Processing triggers for systemd (257.3-1ubuntu3) ... 111s Processing triggers for man-db (2.13.0-1) ... 112s Processing triggers for dbus (1.16.2-1ubuntu1) ... 112s Processing triggers for libc-bin (2.41-1ubuntu1) ... 112s Processing triggers for initramfs-tools (0.146ubuntu1) ... 112s update-initramfs: Generating /boot/initrd.img-6.12.0-16-generic 112s W: No lz4 in /usr/bin:/sbin:/bin, using gzip 123s Processing triggers for linux-image-6.14.0-10-generic (6.14.0-10.10) ... 123s /etc/kernel/postinst.d/initramfs-tools: 123s update-initramfs: Generating /boot/initrd.img-6.14.0-10-generic 123s W: No lz4 in /usr/bin:/sbin:/bin, using gzip 134s /etc/kernel/postinst.d/zz-update-grub: 134s Sourcing file `/etc/default/grub' 134s Sourcing file `/etc/default/grub.d/50-cloudimg-settings.cfg' 134s Sourcing file `/etc/default/grub.d/90-autopkgtest.cfg' 134s Generating grub configuration file ... 134s Found linux image: /boot/vmlinuz-6.14.0-10-generic 134s Found initrd image: /boot/initrd.img-6.14.0-10-generic 135s Found linux image: /boot/vmlinuz-6.12.0-16-generic 135s Found initrd image: /boot/initrd.img-6.12.0-16-generic 135s Found linux image: /boot/vmlinuz-6.11.0-8-generic 135s Found initrd image: /boot/initrd.img-6.11.0-8-generic 135s Warning: os-prober will not be executed to detect other bootable partitions. 135s Systems on them will not be added to the GRUB boot configuration. 135s Check GRUB_DISABLE_OS_PROBER documentation entry. 135s Adding boot menu entry for UEFI Firmware Settings ... 135s done 136s Reading package lists... 137s Building dependency tree... 137s Reading state information... 137s Solving dependencies... 137s The following packages will be REMOVED: 137s libnl-genl-3-200* libnsl2* libpython3.12-minimal* libpython3.12-stdlib* 137s libpython3.12t64* linux-headers-6.11.0-8* linux-headers-6.11.0-8-generic* 137s linux-headers-6.12.0-16* linux-headers-6.12.0-16-generic* 137s linux-image-6.11.0-8-generic* linux-image-6.12.0-16-generic* 137s linux-modules-6.11.0-8-generic* linux-modules-6.12.0-16-generic* 137s linux-modules-extra-6.12.0-16-generic* linux-tools-6.11.0-8* 137s linux-tools-6.11.0-8-generic* linux-tools-6.12.0-16* 137s linux-tools-6.12.0-16-generic* 138s 0 upgraded, 0 newly installed, 18 to remove and 5 not upgraded. 138s After this operation, 545 MB disk space will be freed. 138s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 148643 files and directories currently installed.) 138s Removing libnl-genl-3-200:amd64 (3.7.0-1) ... 138s Removing linux-tools-6.11.0-8-generic (6.11.0-8.8) ... 138s Removing linux-tools-6.11.0-8 (6.11.0-8.8) ... 138s Removing libpython3.12t64:amd64 (3.12.9-1) ... 138s Removing libpython3.12-stdlib:amd64 (3.12.9-1) ... 138s Removing libnsl2:amd64 (1.3.0-3build3) ... 138s Removing libpython3.12-minimal:amd64 (3.12.9-1) ... 138s Removing linux-headers-6.11.0-8-generic (6.11.0-8.8) ... 138s Removing linux-headers-6.11.0-8 (6.11.0-8.8) ... 141s Removing linux-headers-6.12.0-16-generic (6.12.0-16.16) ... 141s Removing linux-headers-6.12.0-16 (6.12.0-16.16) ... 143s Removing linux-image-6.11.0-8-generic (6.11.0-8.8) ... 143s /etc/kernel/postrm.d/initramfs-tools: 143s update-initramfs: Deleting /boot/initrd.img-6.11.0-8-generic 144s /etc/kernel/postrm.d/zz-update-grub: 144s Sourcing file `/etc/default/grub' 144s Sourcing file `/etc/default/grub.d/50-cloudimg-settings.cfg' 144s Sourcing file `/etc/default/grub.d/90-autopkgtest.cfg' 144s Generating grub configuration file ... 144s Found linux image: /boot/vmlinuz-6.14.0-10-generic 144s Found initrd image: /boot/initrd.img-6.14.0-10-generic 144s Found linux image: /boot/vmlinuz-6.12.0-16-generic 144s Found initrd image: /boot/initrd.img-6.12.0-16-generic 144s Warning: os-prober will not be executed to detect other bootable partitions. 144s Systems on them will not be added to the GRUB boot configuration. 144s Check GRUB_DISABLE_OS_PROBER documentation entry. 144s Adding boot menu entry for UEFI Firmware Settings ... 144s done 144s Removing linux-image-6.12.0-16-generic (6.12.0-16.16) ... 144s W: Removing the running kernel 144s I: /boot/vmlinuz.old is now a symlink to vmlinuz-6.14.0-10-generic 144s I: /boot/initrd.img.old is now a symlink to initrd.img-6.14.0-10-generic 144s /etc/kernel/postrm.d/initramfs-tools: 144s update-initramfs: Deleting /boot/initrd.img-6.12.0-16-generic 144s /etc/kernel/postrm.d/zz-update-grub: 144s Sourcing file `/etc/default/grub' 144s Sourcing file `/etc/default/grub.d/50-cloudimg-settings.cfg' 144s Sourcing file `/etc/default/grub.d/90-autopkgtest.cfg' 144s Generating grub configuration file ... 145s Found linux image: /boot/vmlinuz-6.14.0-10-generic 145s Found initrd image: /boot/initrd.img-6.14.0-10-generic 145s Warning: os-prober will not be executed to detect other bootable partitions. 145s Systems on them will not be added to the GRUB boot configuration. 145s Check GRUB_DISABLE_OS_PROBER documentation entry. 145s Adding boot menu entry for UEFI Firmware Settings ... 145s done 145s Removing linux-modules-6.11.0-8-generic (6.11.0-8.8) ... 145s Removing linux-modules-extra-6.12.0-16-generic (6.12.0-16.16) ... 147s Removing linux-modules-6.12.0-16-generic (6.12.0-16.16) ... 147s Removing linux-tools-6.12.0-16-generic (6.12.0-16.16) ... 147s Removing linux-tools-6.12.0-16 (6.12.0-16.16) ... 147s Processing triggers for libc-bin (2.41-1ubuntu1) ... 147s (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 ... 76972 files and directories currently installed.) 147s Purging configuration files for linux-image-6.11.0-8-generic (6.11.0-8.8) ... 147s Purging configuration files for libpython3.12-minimal:amd64 (3.12.9-1) ... 147s Purging configuration files for linux-modules-extra-6.12.0-16-generic (6.12.0-16.16) ... 147s Purging configuration files for linux-modules-6.12.0-16-generic (6.12.0-16.16) ... 147s dpkg: warning: while removing linux-modules-6.12.0-16-generic, directory '/lib/modules/6.12.0-16-generic' not empty so not removed 147s Purging configuration files for linux-modules-6.11.0-8-generic (6.11.0-8.8) ... 147s Purging configuration files for linux-image-6.12.0-16-generic (6.12.0-16.16) ... 147s rmdir: failed to remove '/lib/modules/6.12.0-16-generic': Directory not empty 147s autopkgtest [18:54:38]: upgrading testbed (apt dist-upgrade and autopurge) 147s Reading package lists... 148s Building dependency tree... 148s Reading state information... 148s Calculating upgrade...Starting pkgProblemResolver with broken count: 0 148s Starting 2 pkgProblemResolver with broken count: 0 148s Done 149s Entering ResolveByKeep 149s 149s Calculating upgrade... 150s The following packages will be upgraded: 150s libc-bin libc-dev-bin libc6 libc6-dev locales 150s 5 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 150s Need to get 10.5 MB of archives. 150s After this operation, 1024 B of additional disk space will be used. 150s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 libc6-dev amd64 2.41-1ubuntu2 [2183 kB] 150s Get:2 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 libc-dev-bin amd64 2.41-1ubuntu2 [24.7 kB] 150s Get:3 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 libc6 amd64 2.41-1ubuntu2 [3327 kB] 150s Get:4 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 libc-bin amd64 2.41-1ubuntu2 [700 kB] 150s Get:5 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 locales all 2.41-1ubuntu2 [4246 kB] 151s Preconfiguring packages ... 151s Fetched 10.5 MB in 1s (13.0 MB/s) 151s (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 ... 76968 files and directories currently installed.) 151s Preparing to unpack .../libc6-dev_2.41-1ubuntu2_amd64.deb ... 151s Unpacking libc6-dev:amd64 (2.41-1ubuntu2) over (2.41-1ubuntu1) ... 151s Preparing to unpack .../libc-dev-bin_2.41-1ubuntu2_amd64.deb ... 151s Unpacking libc-dev-bin (2.41-1ubuntu2) over (2.41-1ubuntu1) ... 151s Preparing to unpack .../libc6_2.41-1ubuntu2_amd64.deb ... 151s Unpacking libc6:amd64 (2.41-1ubuntu2) over (2.41-1ubuntu1) ... 151s Setting up libc6:amd64 (2.41-1ubuntu2) ... 152s (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 ... 76968 files and directories currently installed.) 152s Preparing to unpack .../libc-bin_2.41-1ubuntu2_amd64.deb ... 152s Unpacking libc-bin (2.41-1ubuntu2) over (2.41-1ubuntu1) ... 152s Setting up libc-bin (2.41-1ubuntu2) ... 152s (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 ... 76968 files and directories currently installed.) 152s Preparing to unpack .../locales_2.41-1ubuntu2_all.deb ... 152s Unpacking locales (2.41-1ubuntu2) over (2.41-1ubuntu1) ... 152s Setting up locales (2.41-1ubuntu2) ... 153s Generating locales (this might take a while)... 154s en_US.UTF-8... done 154s Generation complete. 154s Setting up libc-dev-bin (2.41-1ubuntu2) ... 154s Setting up libc6-dev:amd64 (2.41-1ubuntu2) ... 154s Processing triggers for man-db (2.13.0-1) ... 155s Processing triggers for systemd (257.3-1ubuntu3) ... 156s Reading package lists... 156s Building dependency tree... 156s Reading state information... 156s Starting pkgProblemResolver with broken count: 0 156s Starting 2 pkgProblemResolver with broken count: 0 156s Done 157s Solving dependencies... 157s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 157s autopkgtest [18:54:48]: rebooting testbed after setup commands that affected boot 161s autopkgtest-virt-ssh: WARNING: ssh connection failed. Retrying in 3 seconds... 173s autopkgtest [18:55:04]: testbed running kernel: Linux 6.14.0-10-generic #10-Ubuntu SMP PREEMPT_DYNAMIC Wed Mar 12 16:07:00 UTC 2025 175s autopkgtest [18:55:06]: @@@@@@@@@@@@@@@@@@@@ apt-source python-pybedtools 178s Get:1 http://ftpmaster.internal/ubuntu plucky/universe python-pybedtools 0.10.0-4build1 (dsc) [2623 B] 178s Get:2 http://ftpmaster.internal/ubuntu plucky/universe python-pybedtools 0.10.0-4build1 (tar) [12.0 MB] 178s Get:3 http://ftpmaster.internal/ubuntu plucky/universe python-pybedtools 0.10.0-4build1 (diff) [33.5 kB] 178s gpgv: Signature made Tue Mar 4 16:16:18 2025 UTC 178s gpgv: using RSA key 25E3FF2D7F469DBE7D0D4E50AFCFEC8E669CE1C2 178s gpgv: Can't check signature: No public key 178s dpkg-source: warning: cannot verify inline signature for ./python-pybedtools_0.10.0-4build1.dsc: no acceptable signature found 179s autopkgtest [18:55:10]: testing package python-pybedtools version 0.10.0-4build1 179s autopkgtest [18:55:10]: build not needed 181s autopkgtest [18:55:12]: test pybuild-autopkgtest: preparing testbed 181s Reading package lists... 181s Building dependency tree... 181s Reading state information... 182s Starting pkgProblemResolver with broken count: 0 182s Starting 2 pkgProblemResolver with broken count: 0 182s Done 182s The following NEW packages will be installed: 182s autoconf automake autopoint autotools-dev bedtools blt build-essential cpp 182s cpp-14 cpp-14-x86-64-linux-gnu cpp-x86-64-linux-gnu cython3 debhelper 182s debugedit dh-autoreconf dh-python dh-strip-nondeterminism docutils-common 182s dwz fontconfig fontconfig-config fonts-dejavu-core fonts-dejavu-mono 182s fonts-lyx g++ g++-14 g++-14-x86-64-linux-gnu g++-x86-64-linux-gnu gcc gcc-14 182s gcc-14-x86-64-linux-gnu gcc-x86-64-linux-gnu gettext intltool-debian 182s libarchive-zip-perl libasan8 libblas3 libcairo2 libcc1-0 libdatrie1 182s libdebhelper-perl libdeflate0 libexpat1-dev libfile-stripnondeterminism-perl 182s libfontconfig1 libgcc-14-dev libgfortran5 libgomp1 libgraphite2-3 182s libharfbuzz0b libhts3t64 libhtscodecs2 libhwasan0 libice6 libimagequant0 182s libisl23 libitm1 libjbig0 libjpeg-turbo8 libjpeg8 libjs-jquery 182s libjs-jquery-ui libjs-sphinxdoc libjs-underscore libjson-perl liblapack3 182s liblbfgsb0 liblcms2-2 liblerc4 liblsan0 libmpc3 libopenjp2-7 libpango-1.0-0 182s libpangocairo-1.0-0 libpangoft2-1.0-0 libpaper-utils libpaper2 libpixman-1-0 182s libpython3-all-dev libpython3-dev libpython3.13-dev libqhull-r8.0 182s libquadmath0 libraqm0 libsharpyuv0 libsm6 libstdc++-14-dev libtcl8.6 182s libthai-data libthai0 libtiff6 libtk8.6 libtool libtsan2 libubsan1 libwebp7 182s libwebpdemux2 libwebpmux3 libxcb-render0 libxcb-shm0 libxft2 libxrender1 182s libxslt1.1 libxss1 libxt6t64 m4 po-debconf pybedtools-bin 182s pybuild-plugin-autopkgtest pybuild-plugin-pyproject python-matplotlib-data 182s python-pybedtools-doc python3-alabaster python3-all python3-all-dev 182s python3-brotli python3-build python3-contourpy python3-cycler 182s python3-dateutil python3-decorator python3-defusedxml python3-dev 182s python3-docutils python3-fonttools python3-fs python3-imagesize 182s python3-iniconfig python3-installer python3-kiwisolver python3-lxml 182s python3-lz4 python3-matplotlib python3-mpmath python3-numpy 182s python3-numpy-dev python3-numpydoc python3-packaging python3-pandas 182s python3-pandas-lib python3-pil python3-pil.imagetk python3-platformdirs 182s python3-pluggy python3-psutil python3-pybedtools python3-pyproject-hooks 182s python3-pysam python3-pytest python3-pytz python3-roman python3-scipy 182s python3-snowballstemmer python3-sphinx python3-sympy python3-tabulate 182s python3-tk python3-toml python3-tz python3-ufolib2 python3-wheel 182s python3.12-tk python3.13-dev python3.13-tk r-base-core sgml-base 182s sphinx-common tk8.6-blt2.5 unicode-data unzip x11-common xdg-utils xml-core 182s zip zlib1g-dev 182s 0 upgraded, 175 newly installed, 0 to remove and 0 not upgraded. 182s Need to get 216 MB of archives. 182s After this operation, 752 MB of additional disk space will be used. 182s Get:1 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-numpy-dev amd64 1:2.2.3+ds-5 [148 kB] 182s Get:2 http://ftpmaster.internal/ubuntu plucky/main amd64 libblas3 amd64 3.12.1-2 [359 kB] 183s Get:3 http://ftpmaster.internal/ubuntu plucky/main amd64 libgfortran5 amd64 15-20250222-0ubuntu1 [919 kB] 183s Get:4 http://ftpmaster.internal/ubuntu plucky/main amd64 liblapack3 amd64 3.12.1-2 [3179 kB] 183s Get:5 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-numpy amd64 1:2.2.3+ds-5 [5702 kB] 184s Get:6 http://ftpmaster.internal/ubuntu plucky/main amd64 sgml-base all 1.31 [11.4 kB] 184s Get:7 http://ftpmaster.internal/ubuntu plucky/main amd64 m4 amd64 1.4.19-7 [263 kB] 184s Get:8 http://ftpmaster.internal/ubuntu plucky/main amd64 autoconf all 2.72-3ubuntu1 [383 kB] 184s Get:9 http://ftpmaster.internal/ubuntu plucky/main amd64 autotools-dev all 20220109.1 [44.9 kB] 184s Get:10 http://ftpmaster.internal/ubuntu plucky/main amd64 automake all 1:1.17-3ubuntu1 [572 kB] 184s Get:11 http://ftpmaster.internal/ubuntu plucky/main amd64 autopoint all 0.23.1-1 [619 kB] 184s Get:12 http://ftpmaster.internal/ubuntu plucky/universe amd64 bedtools amd64 2.31.1+dfsg-2 [674 kB] 184s Get:13 http://ftpmaster.internal/ubuntu plucky/main amd64 libtcl8.6 amd64 8.6.16+dfsg-1 [1086 kB] 184s Get:14 http://ftpmaster.internal/ubuntu plucky/main amd64 fonts-dejavu-mono all 2.37-8 [502 kB] 184s Get:15 http://ftpmaster.internal/ubuntu plucky/main amd64 fonts-dejavu-core all 2.37-8 [835 kB] 184s Get:16 http://ftpmaster.internal/ubuntu plucky/main amd64 fontconfig-config amd64 2.15.0-2ubuntu1 [37.4 kB] 184s Get:17 http://ftpmaster.internal/ubuntu plucky/main amd64 libfontconfig1 amd64 2.15.0-2ubuntu1 [164 kB] 184s Get:18 http://ftpmaster.internal/ubuntu plucky/main amd64 libxrender1 amd64 1:0.9.10-1.1build1 [19.0 kB] 184s Get:19 http://ftpmaster.internal/ubuntu plucky/main amd64 libxft2 amd64 2.3.6-1build1 [45.3 kB] 184s Get:20 http://ftpmaster.internal/ubuntu plucky/main amd64 x11-common all 1:7.7+23ubuntu3 [21.7 kB] 184s Get:21 http://ftpmaster.internal/ubuntu plucky/main amd64 libxss1 amd64 1:1.2.3-1build3 [7204 B] 184s Get:22 http://ftpmaster.internal/ubuntu plucky/main amd64 libtk8.6 amd64 8.6.16-1 [868 kB] 184s Get:23 http://ftpmaster.internal/ubuntu plucky/main amd64 tk8.6-blt2.5 amd64 2.5.3+dfsg-8 [694 kB] 184s Get:24 http://ftpmaster.internal/ubuntu plucky/main amd64 blt amd64 2.5.3+dfsg-8 [4824 B] 184s Get:25 http://ftpmaster.internal/ubuntu plucky/main amd64 libisl23 amd64 0.27-1 [685 kB] 184s Get:26 http://ftpmaster.internal/ubuntu plucky/main amd64 libmpc3 amd64 1.3.1-1build2 [55.3 kB] 184s Get:27 http://ftpmaster.internal/ubuntu plucky/main amd64 cpp-14-x86-64-linux-gnu amd64 14.2.0-17ubuntu3 [11.9 MB] 185s Get:28 http://ftpmaster.internal/ubuntu plucky/main amd64 cpp-14 amd64 14.2.0-17ubuntu3 [1030 B] 185s Get:29 http://ftpmaster.internal/ubuntu plucky/main amd64 cpp-x86-64-linux-gnu amd64 4:14.2.0-1ubuntu1 [5586 B] 185s Get:30 http://ftpmaster.internal/ubuntu plucky/main amd64 cpp amd64 4:14.2.0-1ubuntu1 [22.4 kB] 185s Get:31 http://ftpmaster.internal/ubuntu plucky/main amd64 libcc1-0 amd64 15-20250222-0ubuntu1 [47.0 kB] 185s Get:32 http://ftpmaster.internal/ubuntu plucky/main amd64 libgomp1 amd64 15-20250222-0ubuntu1 [148 kB] 185s Get:33 http://ftpmaster.internal/ubuntu plucky/main amd64 libitm1 amd64 15-20250222-0ubuntu1 [28.6 kB] 185s Get:34 http://ftpmaster.internal/ubuntu plucky/main amd64 libasan8 amd64 15-20250222-0ubuntu1 [3055 kB] 186s Get:35 http://ftpmaster.internal/ubuntu plucky/main amd64 liblsan0 amd64 15-20250222-0ubuntu1 [1355 kB] 186s Get:36 http://ftpmaster.internal/ubuntu plucky/main amd64 libtsan2 amd64 15-20250222-0ubuntu1 [2756 kB] 186s Get:37 http://ftpmaster.internal/ubuntu plucky/main amd64 libubsan1 amd64 15-20250222-0ubuntu1 [1205 kB] 186s Get:38 http://ftpmaster.internal/ubuntu plucky/main amd64 libhwasan0 amd64 15-20250222-0ubuntu1 [1677 kB] 186s Get:39 http://ftpmaster.internal/ubuntu plucky/main amd64 libquadmath0 amd64 15-20250222-0ubuntu1 [152 kB] 186s Get:40 http://ftpmaster.internal/ubuntu plucky/main amd64 libgcc-14-dev amd64 14.2.0-17ubuntu3 [2816 kB] 186s Get:41 http://ftpmaster.internal/ubuntu plucky/main amd64 gcc-14-x86-64-linux-gnu amd64 14.2.0-17ubuntu3 [23.3 MB] 187s Get:42 http://ftpmaster.internal/ubuntu plucky/main amd64 gcc-14 amd64 14.2.0-17ubuntu3 [536 kB] 187s Get:43 http://ftpmaster.internal/ubuntu plucky/main amd64 gcc-x86-64-linux-gnu amd64 4:14.2.0-1ubuntu1 [1208 B] 187s Get:44 http://ftpmaster.internal/ubuntu plucky/main amd64 gcc amd64 4:14.2.0-1ubuntu1 [5004 B] 187s Get:45 http://ftpmaster.internal/ubuntu plucky/main amd64 libstdc++-14-dev amd64 14.2.0-17ubuntu3 [2486 kB] 187s Get:46 http://ftpmaster.internal/ubuntu plucky/main amd64 g++-14-x86-64-linux-gnu amd64 14.2.0-17ubuntu3 [13.4 MB] 188s Get:47 http://ftpmaster.internal/ubuntu plucky/main amd64 g++-14 amd64 14.2.0-17ubuntu3 [21.8 kB] 188s Get:48 http://ftpmaster.internal/ubuntu plucky/main amd64 g++-x86-64-linux-gnu amd64 4:14.2.0-1ubuntu1 [968 B] 188s Get:49 http://ftpmaster.internal/ubuntu plucky/main amd64 g++ amd64 4:14.2.0-1ubuntu1 [1100 B] 188s Get:50 http://ftpmaster.internal/ubuntu plucky/main amd64 build-essential amd64 12.10ubuntu1 [4928 B] 188s Get:51 http://ftpmaster.internal/ubuntu plucky/universe amd64 cython3 amd64 3.0.11+dfsg-2ubuntu2 [2676 kB] 188s Get:52 http://ftpmaster.internal/ubuntu plucky/main amd64 libdebhelper-perl all 13.24.1ubuntu2 [95.4 kB] 188s Get:53 http://ftpmaster.internal/ubuntu plucky/main amd64 libtool all 2.5.4-4 [168 kB] 188s Get:54 http://ftpmaster.internal/ubuntu plucky/main amd64 dh-autoreconf all 20 [16.1 kB] 188s Get:55 http://ftpmaster.internal/ubuntu plucky/main amd64 libarchive-zip-perl all 1.68-1 [90.2 kB] 188s Get:56 http://ftpmaster.internal/ubuntu plucky/main amd64 libfile-stripnondeterminism-perl all 1.14.1-2 [20.3 kB] 188s Get:57 http://ftpmaster.internal/ubuntu plucky/main amd64 dh-strip-nondeterminism all 1.14.1-2 [5064 B] 188s Get:58 http://ftpmaster.internal/ubuntu plucky/main amd64 debugedit amd64 1:5.1-2 [47.0 kB] 188s Get:59 http://ftpmaster.internal/ubuntu plucky/main amd64 dwz amd64 0.15-1build6 [115 kB] 188s Get:60 http://ftpmaster.internal/ubuntu plucky/main amd64 gettext amd64 0.23.1-1 [1086 kB] 188s Get:61 http://ftpmaster.internal/ubuntu plucky/main amd64 intltool-debian all 0.35.0+20060710.6 [23.2 kB] 188s Get:62 http://ftpmaster.internal/ubuntu plucky/main amd64 po-debconf all 1.0.21+nmu1 [233 kB] 188s Get:63 http://ftpmaster.internal/ubuntu plucky/main amd64 debhelper all 13.24.1ubuntu2 [895 kB] 188s Get:64 http://ftpmaster.internal/ubuntu plucky/universe amd64 dh-python all 6.20250308 [118 kB] 188s Get:65 http://ftpmaster.internal/ubuntu plucky/main amd64 xml-core all 0.19 [20.3 kB] 188s Get:66 http://ftpmaster.internal/ubuntu plucky/main amd64 docutils-common all 0.21.2+dfsg-2 [131 kB] 188s Get:67 http://ftpmaster.internal/ubuntu plucky/main amd64 fontconfig amd64 2.15.0-2ubuntu1 [180 kB] 188s Get:68 http://ftpmaster.internal/ubuntu plucky/universe amd64 fonts-lyx all 2.4.3-1 [171 kB] 188s Get:69 http://ftpmaster.internal/ubuntu plucky/main amd64 libpixman-1-0 amd64 0.44.0-3 [427 kB] 188s Get:70 http://ftpmaster.internal/ubuntu plucky/main amd64 libxcb-render0 amd64 1.17.0-2 [16.2 kB] 188s Get:71 http://ftpmaster.internal/ubuntu plucky/main amd64 libxcb-shm0 amd64 1.17.0-2 [5758 B] 188s Get:72 http://ftpmaster.internal/ubuntu plucky/main amd64 libcairo2 amd64 1.18.2-2 [569 kB] 188s Get:73 http://ftpmaster.internal/ubuntu plucky/main amd64 libdatrie1 amd64 0.2.13-3build1 [19.0 kB] 188s Get:74 http://ftpmaster.internal/ubuntu plucky/main amd64 libdeflate0 amd64 1.23-1 [64.1 kB] 188s Get:75 http://ftpmaster.internal/ubuntu plucky/main amd64 libexpat1-dev amd64 2.6.4-1 [148 kB] 188s Get:76 http://ftpmaster.internal/ubuntu plucky/main amd64 libgraphite2-3 amd64 1.3.14-2ubuntu1 [73.1 kB] 188s Get:77 http://ftpmaster.internal/ubuntu plucky/main amd64 libharfbuzz0b amd64 10.2.0-1 [543 kB] 188s Get:78 http://ftpmaster.internal/ubuntu plucky/universe amd64 libhtscodecs2 amd64 1.6.1-2 [132 kB] 188s Get:79 http://ftpmaster.internal/ubuntu plucky/universe amd64 libhts3t64 amd64 1.21+ds-1 [514 kB] 188s Get:80 http://ftpmaster.internal/ubuntu plucky/main amd64 libice6 amd64 2:1.1.1-1 [44.1 kB] 188s Get:81 http://ftpmaster.internal/ubuntu plucky/main amd64 libimagequant0 amd64 2.18.0-1build1 [36.3 kB] 188s Get:82 http://ftpmaster.internal/ubuntu plucky/main amd64 libjpeg-turbo8 amd64 2.1.5-3ubuntu2 [179 kB] 188s Get:83 http://ftpmaster.internal/ubuntu plucky/main amd64 libjpeg8 amd64 8c-2ubuntu11 [2148 B] 188s Get:84 http://ftpmaster.internal/ubuntu plucky/main amd64 libjs-jquery all 3.6.1+dfsg+~3.5.14-1 [328 kB] 188s Get:85 http://ftpmaster.internal/ubuntu plucky/universe amd64 libjs-jquery-ui all 1.13.2+dfsg-1 [252 kB] 188s Get:86 http://ftpmaster.internal/ubuntu plucky/main amd64 libjs-underscore all 1.13.4~dfsg+~1.11.4-3 [118 kB] 188s Get:87 http://ftpmaster.internal/ubuntu plucky/main amd64 libjs-sphinxdoc all 8.1.3-4 [30.9 kB] 188s Get:88 http://ftpmaster.internal/ubuntu plucky/main amd64 libjson-perl all 4.10000-1 [81.9 kB] 188s Get:89 http://ftpmaster.internal/ubuntu plucky/universe amd64 liblbfgsb0 amd64 3.0+dfsg.4-1build1 [29.9 kB] 188s Get:90 http://ftpmaster.internal/ubuntu plucky/main amd64 liblcms2-2 amd64 2.16-2 [212 kB] 188s Get:91 http://ftpmaster.internal/ubuntu plucky/main amd64 liblerc4 amd64 4.0.0+ds-5ubuntu1 [271 kB] 188s Get:92 http://ftpmaster.internal/ubuntu plucky/main amd64 libthai-data all 0.1.29-2build1 [158 kB] 188s Get:93 http://ftpmaster.internal/ubuntu plucky/main amd64 libthai0 amd64 0.1.29-2build1 [18.9 kB] 188s Get:94 http://ftpmaster.internal/ubuntu plucky/main amd64 libpango-1.0-0 amd64 1.56.2-1 [255 kB] 188s Get:95 http://ftpmaster.internal/ubuntu plucky/main amd64 libpangoft2-1.0-0 amd64 1.56.2-1 [52.6 kB] 188s Get:96 http://ftpmaster.internal/ubuntu plucky/main amd64 libpangocairo-1.0-0 amd64 1.56.2-1 [29.1 kB] 188s Get:97 http://ftpmaster.internal/ubuntu plucky/main amd64 libpaper2 amd64 2.2.5-0.3 [17.4 kB] 188s Get:98 http://ftpmaster.internal/ubuntu plucky/main amd64 libpaper-utils amd64 2.2.5-0.3 [15.5 kB] 188s Get:99 http://ftpmaster.internal/ubuntu plucky/main amd64 zlib1g-dev amd64 1:1.3.dfsg+really1.3.1-1ubuntu1 [895 kB] 188s Get:100 http://ftpmaster.internal/ubuntu plucky/main amd64 libpython3.13-dev amd64 3.13.2-2 [5503 kB] 189s Get:101 http://ftpmaster.internal/ubuntu plucky/main amd64 libpython3-dev amd64 3.13.2-2 [10.7 kB] 189s Get:102 http://ftpmaster.internal/ubuntu plucky/main amd64 libpython3-all-dev amd64 3.13.2-2 [910 B] 189s Get:103 http://ftpmaster.internal/ubuntu plucky/universe amd64 libqhull-r8.0 amd64 2020.2-6build1 [193 kB] 189s Get:104 http://ftpmaster.internal/ubuntu plucky/main amd64 libraqm0 amd64 0.10.2-1 [17.2 kB] 189s Get:105 http://ftpmaster.internal/ubuntu plucky/main amd64 libsharpyuv0 amd64 1.5.0-0.1 [25.9 kB] 189s Get:106 http://ftpmaster.internal/ubuntu plucky/main amd64 libsm6 amd64 2:1.2.4-1 [17.4 kB] 189s Get:107 http://ftpmaster.internal/ubuntu plucky/main amd64 libjbig0 amd64 2.1-6.1ubuntu2 [29.7 kB] 189s Get:108 http://ftpmaster.internal/ubuntu plucky/main amd64 libwebp7 amd64 1.5.0-0.1 [378 kB] 189s Get:109 http://ftpmaster.internal/ubuntu plucky/main amd64 libtiff6 amd64 4.5.1+git230720-4ubuntu4 [200 kB] 189s Get:110 http://ftpmaster.internal/ubuntu plucky/main amd64 libwebpdemux2 amd64 1.5.0-0.1 [13.0 kB] 189s Get:111 http://ftpmaster.internal/ubuntu plucky/main amd64 libwebpmux3 amd64 1.5.0-0.1 [27.6 kB] 189s Get:112 http://ftpmaster.internal/ubuntu plucky/main amd64 libxslt1.1 amd64 1.1.39-0exp1ubuntu2 [175 kB] 189s Get:113 http://ftpmaster.internal/ubuntu plucky/main amd64 libxt6t64 amd64 1:1.2.1-1.2build1 [171 kB] 189s Get:114 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-pysam amd64 0.23.0+ds-1build1 [3966 kB] 189s Get:115 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-pybedtools amd64 0.10.0-4build1 [12.2 MB] 190s Get:116 http://ftpmaster.internal/ubuntu plucky/universe amd64 pybedtools-bin all 0.10.0-4build1 [3226 B] 190s Get:117 http://ftpmaster.internal/ubuntu plucky/universe amd64 pybuild-plugin-autopkgtest all 6.20250308 [1744 B] 190s Get:118 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-packaging all 24.2-1 [51.5 kB] 190s Get:119 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-pyproject-hooks all 1.2.0-1 [10.2 kB] 190s Get:120 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-toml all 0.10.2-1 [16.5 kB] 190s Get:121 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-wheel all 0.45.1-1 [57.7 kB] 190s Get:122 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-build all 1.2.2-1 [31.0 kB] 190s Get:123 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-installer all 0.7.0+dfsg1-3 [17.4 kB] 190s Get:124 http://ftpmaster.internal/ubuntu plucky/universe amd64 pybuild-plugin-pyproject all 6.20250308 [1726 B] 190s Get:125 http://ftpmaster.internal/ubuntu plucky/universe amd64 python-matplotlib-data all 3.8.3-7build1 [2934 kB] 190s Get:126 http://ftpmaster.internal/ubuntu plucky/universe amd64 python-pybedtools-doc all 0.10.0-4build1 [269 kB] 190s Get:127 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-all amd64 3.13.2-2 [884 B] 190s Get:128 http://ftpmaster.internal/ubuntu plucky/main amd64 python3.13-dev amd64 3.13.2-2 [509 kB] 190s Get:129 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-dev amd64 3.13.2-2 [26.7 kB] 190s Get:130 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-all-dev amd64 3.13.2-2 [908 B] 190s Get:131 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-brotli amd64 1.1.0-2build4 [367 kB] 190s Get:132 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-contourpy amd64 1.3.1-1build1 [218 kB] 190s Get:133 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-cycler all 0.12.1-1 [9716 B] 190s Get:134 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-dateutil all 2.9.0-3 [80.2 kB] 190s Get:135 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-decorator all 5.1.1-5 [10.1 kB] 190s Get:136 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-defusedxml all 0.7.1-3 [42.2 kB] 190s Get:137 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-roman all 5.0-1 [10.3 kB] 190s Get:138 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-docutils all 0.21.2+dfsg-2 [409 kB] 190s Get:139 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-platformdirs all 4.3.6-1 [16.8 kB] 190s Get:140 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-fs all 2.4.16-7 [90.8 kB] 190s Get:141 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-lxml amd64 5.3.1-1build1 [1408 kB] 190s Get:142 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-lz4 amd64 4.4.0+dfsg-1build1 [27.0 kB] 190s Get:143 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-scipy amd64 1.14.1-4ubuntu2 [18.7 MB] 192s Get:144 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-mpmath all 1.3.0-1 [425 kB] 192s Get:145 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-sympy all 1.13.3-5 [4229 kB] 192s Get:146 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-ufolib2 all 0.17.0+dfsg1-1 [33.5 kB] 192s Get:147 http://ftpmaster.internal/ubuntu plucky/universe amd64 unicode-data all 15.1.0-1 [8878 kB] 193s Get:148 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-fonttools amd64 4.55.3-2build1 [1536 kB] 193s Get:149 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-imagesize all 1.4.1-1 [6844 B] 193s Get:150 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-iniconfig all 1.1.1-2 [6024 B] 193s Get:151 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-kiwisolver amd64 1.4.7-3build1 [55.6 kB] 193s Get:152 http://ftpmaster.internal/ubuntu plucky/main amd64 libopenjp2-7 amd64 2.5.3-2 [218 kB] 193s Get:153 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-pil amd64 11.1.0-5build1 [583 kB] 193s Get:154 http://ftpmaster.internal/ubuntu plucky/main amd64 python3.12-tk amd64 3.12.9-1 [116 kB] 193s Get:155 http://ftpmaster.internal/ubuntu plucky/main amd64 python3.13-tk amd64 3.13.2-2 [107 kB] 193s Get:156 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-tk amd64 3.13.1-1 [9770 B] 193s Get:157 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-pil.imagetk amd64 11.1.0-5build1 [9828 B] 193s Get:158 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-matplotlib amd64 3.8.3-7build1 [17.4 MB] 194s Get:159 http://ftpmaster.internal/ubuntu plucky/main amd64 sphinx-common all 8.1.3-4 [663 kB] 194s Get:160 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-alabaster all 0.7.16-0.1 [18.5 kB] 194s Get:161 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-snowballstemmer all 2.2.0-4build1 [59.8 kB] 194s Get:162 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-sphinx all 8.1.3-4 [474 kB] 194s Get:163 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-tabulate all 0.9.0-1 [45.3 kB] 194s Get:164 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-numpydoc all 1.8.0-1 [52.4 kB] 194s Get:165 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-pytz all 2025.1-3 [162 kB] 194s Get:166 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-tz all 2025.1-3 [1866 B] 194s Get:167 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-pandas-lib amd64 2.2.3+dfsg-8build1 [5332 kB] 195s Get:168 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-pandas all 2.2.3+dfsg-8build1 [3112 kB] 195s Get:169 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-pluggy all 1.5.0-1 [21.0 kB] 195s Get:170 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-psutil amd64 5.9.8-2build3 [196 kB] 195s Get:171 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-pytest all 8.3.5-1 [252 kB] 195s Get:172 http://ftpmaster.internal/ubuntu plucky/main amd64 zip amd64 3.0-14ubuntu2 [185 kB] 195s Get:173 http://ftpmaster.internal/ubuntu plucky/main amd64 unzip amd64 6.0-28ubuntu6 [181 kB] 195s Get:174 http://ftpmaster.internal/ubuntu plucky/main amd64 xdg-utils all 1.2.1-2ubuntu1 [66.0 kB] 195s Get:175 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-base-core amd64 4.4.3-1 [28.9 MB] 197s Preconfiguring packages ... 197s Fetched 216 MB in 14s (15.5 MB/s) 197s Selecting previously unselected package python3-numpy-dev:amd64. 197s (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 ... 76968 files and directories currently installed.) 197s Preparing to unpack .../000-python3-numpy-dev_1%3a2.2.3+ds-5_amd64.deb ... 197s Unpacking python3-numpy-dev:amd64 (1:2.2.3+ds-5) ... 197s Selecting previously unselected package libblas3:amd64. 197s Preparing to unpack .../001-libblas3_3.12.1-2_amd64.deb ... 197s Unpacking libblas3:amd64 (3.12.1-2) ... 197s Selecting previously unselected package libgfortran5:amd64. 197s Preparing to unpack .../002-libgfortran5_15-20250222-0ubuntu1_amd64.deb ... 197s Unpacking libgfortran5:amd64 (15-20250222-0ubuntu1) ... 197s Selecting previously unselected package liblapack3:amd64. 197s Preparing to unpack .../003-liblapack3_3.12.1-2_amd64.deb ... 197s Unpacking liblapack3:amd64 (3.12.1-2) ... 197s Selecting previously unselected package python3-numpy. 197s Preparing to unpack .../004-python3-numpy_1%3a2.2.3+ds-5_amd64.deb ... 197s Unpacking python3-numpy (1:2.2.3+ds-5) ... 198s Selecting previously unselected package sgml-base. 198s Preparing to unpack .../005-sgml-base_1.31_all.deb ... 198s Unpacking sgml-base (1.31) ... 198s Selecting previously unselected package m4. 198s Preparing to unpack .../006-m4_1.4.19-7_amd64.deb ... 198s Unpacking m4 (1.4.19-7) ... 198s Selecting previously unselected package autoconf. 198s Preparing to unpack .../007-autoconf_2.72-3ubuntu1_all.deb ... 198s Unpacking autoconf (2.72-3ubuntu1) ... 198s Selecting previously unselected package autotools-dev. 198s Preparing to unpack .../008-autotools-dev_20220109.1_all.deb ... 198s Unpacking autotools-dev (20220109.1) ... 198s Selecting previously unselected package automake. 198s Preparing to unpack .../009-automake_1%3a1.17-3ubuntu1_all.deb ... 198s Unpacking automake (1:1.17-3ubuntu1) ... 198s Selecting previously unselected package autopoint. 198s Preparing to unpack .../010-autopoint_0.23.1-1_all.deb ... 198s Unpacking autopoint (0.23.1-1) ... 198s Selecting previously unselected package bedtools. 198s Preparing to unpack .../011-bedtools_2.31.1+dfsg-2_amd64.deb ... 198s Unpacking bedtools (2.31.1+dfsg-2) ... 198s Selecting previously unselected package libtcl8.6:amd64. 198s Preparing to unpack .../012-libtcl8.6_8.6.16+dfsg-1_amd64.deb ... 198s Unpacking libtcl8.6:amd64 (8.6.16+dfsg-1) ... 198s Selecting previously unselected package fonts-dejavu-mono. 198s Preparing to unpack .../013-fonts-dejavu-mono_2.37-8_all.deb ... 198s Unpacking fonts-dejavu-mono (2.37-8) ... 198s Selecting previously unselected package fonts-dejavu-core. 198s Preparing to unpack .../014-fonts-dejavu-core_2.37-8_all.deb ... 198s Unpacking fonts-dejavu-core (2.37-8) ... 198s Selecting previously unselected package fontconfig-config. 198s Preparing to unpack .../015-fontconfig-config_2.15.0-2ubuntu1_amd64.deb ... 198s Unpacking fontconfig-config (2.15.0-2ubuntu1) ... 198s Selecting previously unselected package libfontconfig1:amd64. 198s Preparing to unpack .../016-libfontconfig1_2.15.0-2ubuntu1_amd64.deb ... 198s Unpacking libfontconfig1:amd64 (2.15.0-2ubuntu1) ... 198s Selecting previously unselected package libxrender1:amd64. 198s Preparing to unpack .../017-libxrender1_1%3a0.9.10-1.1build1_amd64.deb ... 198s Unpacking libxrender1:amd64 (1:0.9.10-1.1build1) ... 198s Selecting previously unselected package libxft2:amd64. 198s Preparing to unpack .../018-libxft2_2.3.6-1build1_amd64.deb ... 198s Unpacking libxft2:amd64 (2.3.6-1build1) ... 198s Selecting previously unselected package x11-common. 198s Preparing to unpack .../019-x11-common_1%3a7.7+23ubuntu3_all.deb ... 198s Unpacking x11-common (1:7.7+23ubuntu3) ... 198s Selecting previously unselected package libxss1:amd64. 198s Preparing to unpack .../020-libxss1_1%3a1.2.3-1build3_amd64.deb ... 198s Unpacking libxss1:amd64 (1:1.2.3-1build3) ... 198s Selecting previously unselected package libtk8.6:amd64. 198s Preparing to unpack .../021-libtk8.6_8.6.16-1_amd64.deb ... 198s Unpacking libtk8.6:amd64 (8.6.16-1) ... 198s Selecting previously unselected package tk8.6-blt2.5. 198s Preparing to unpack .../022-tk8.6-blt2.5_2.5.3+dfsg-8_amd64.deb ... 198s Unpacking tk8.6-blt2.5 (2.5.3+dfsg-8) ... 198s Selecting previously unselected package blt. 198s Preparing to unpack .../023-blt_2.5.3+dfsg-8_amd64.deb ... 198s Unpacking blt (2.5.3+dfsg-8) ... 198s Selecting previously unselected package libisl23:amd64. 198s Preparing to unpack .../024-libisl23_0.27-1_amd64.deb ... 198s Unpacking libisl23:amd64 (0.27-1) ... 199s Selecting previously unselected package libmpc3:amd64. 199s Preparing to unpack .../025-libmpc3_1.3.1-1build2_amd64.deb ... 199s Unpacking libmpc3:amd64 (1.3.1-1build2) ... 199s Selecting previously unselected package cpp-14-x86-64-linux-gnu. 199s Preparing to unpack .../026-cpp-14-x86-64-linux-gnu_14.2.0-17ubuntu3_amd64.deb ... 199s Unpacking cpp-14-x86-64-linux-gnu (14.2.0-17ubuntu3) ... 199s Selecting previously unselected package cpp-14. 199s Preparing to unpack .../027-cpp-14_14.2.0-17ubuntu3_amd64.deb ... 199s Unpacking cpp-14 (14.2.0-17ubuntu3) ... 199s Selecting previously unselected package cpp-x86-64-linux-gnu. 199s Preparing to unpack .../028-cpp-x86-64-linux-gnu_4%3a14.2.0-1ubuntu1_amd64.deb ... 199s Unpacking cpp-x86-64-linux-gnu (4:14.2.0-1ubuntu1) ... 199s Selecting previously unselected package cpp. 199s Preparing to unpack .../029-cpp_4%3a14.2.0-1ubuntu1_amd64.deb ... 199s Unpacking cpp (4:14.2.0-1ubuntu1) ... 199s Selecting previously unselected package libcc1-0:amd64. 199s Preparing to unpack .../030-libcc1-0_15-20250222-0ubuntu1_amd64.deb ... 199s Unpacking libcc1-0:amd64 (15-20250222-0ubuntu1) ... 199s Selecting previously unselected package libgomp1:amd64. 199s Preparing to unpack .../031-libgomp1_15-20250222-0ubuntu1_amd64.deb ... 199s Unpacking libgomp1:amd64 (15-20250222-0ubuntu1) ... 199s Selecting previously unselected package libitm1:amd64. 199s Preparing to unpack .../032-libitm1_15-20250222-0ubuntu1_amd64.deb ... 199s Unpacking libitm1:amd64 (15-20250222-0ubuntu1) ... 199s Selecting previously unselected package libasan8:amd64. 199s Preparing to unpack .../033-libasan8_15-20250222-0ubuntu1_amd64.deb ... 199s Unpacking libasan8:amd64 (15-20250222-0ubuntu1) ... 199s Selecting previously unselected package liblsan0:amd64. 199s Preparing to unpack .../034-liblsan0_15-20250222-0ubuntu1_amd64.deb ... 199s Unpacking liblsan0:amd64 (15-20250222-0ubuntu1) ... 199s Selecting previously unselected package libtsan2:amd64. 199s Preparing to unpack .../035-libtsan2_15-20250222-0ubuntu1_amd64.deb ... 199s Unpacking libtsan2:amd64 (15-20250222-0ubuntu1) ... 199s Selecting previously unselected package libubsan1:amd64. 199s Preparing to unpack .../036-libubsan1_15-20250222-0ubuntu1_amd64.deb ... 199s Unpacking libubsan1:amd64 (15-20250222-0ubuntu1) ... 199s Selecting previously unselected package libhwasan0:amd64. 199s Preparing to unpack .../037-libhwasan0_15-20250222-0ubuntu1_amd64.deb ... 199s Unpacking libhwasan0:amd64 (15-20250222-0ubuntu1) ... 199s Selecting previously unselected package libquadmath0:amd64. 199s Preparing to unpack .../038-libquadmath0_15-20250222-0ubuntu1_amd64.deb ... 199s Unpacking libquadmath0:amd64 (15-20250222-0ubuntu1) ... 199s Selecting previously unselected package libgcc-14-dev:amd64. 199s Preparing to unpack .../039-libgcc-14-dev_14.2.0-17ubuntu3_amd64.deb ... 199s Unpacking libgcc-14-dev:amd64 (14.2.0-17ubuntu3) ... 199s Selecting previously unselected package gcc-14-x86-64-linux-gnu. 199s Preparing to unpack .../040-gcc-14-x86-64-linux-gnu_14.2.0-17ubuntu3_amd64.deb ... 199s Unpacking gcc-14-x86-64-linux-gnu (14.2.0-17ubuntu3) ... 200s Selecting previously unselected package gcc-14. 200s Preparing to unpack .../041-gcc-14_14.2.0-17ubuntu3_amd64.deb ... 200s Unpacking gcc-14 (14.2.0-17ubuntu3) ... 200s Selecting previously unselected package gcc-x86-64-linux-gnu. 200s Preparing to unpack .../042-gcc-x86-64-linux-gnu_4%3a14.2.0-1ubuntu1_amd64.deb ... 200s Unpacking gcc-x86-64-linux-gnu (4:14.2.0-1ubuntu1) ... 200s Selecting previously unselected package gcc. 200s Preparing to unpack .../043-gcc_4%3a14.2.0-1ubuntu1_amd64.deb ... 200s Unpacking gcc (4:14.2.0-1ubuntu1) ... 200s Selecting previously unselected package libstdc++-14-dev:amd64. 200s Preparing to unpack .../044-libstdc++-14-dev_14.2.0-17ubuntu3_amd64.deb ... 200s Unpacking libstdc++-14-dev:amd64 (14.2.0-17ubuntu3) ... 200s Selecting previously unselected package g++-14-x86-64-linux-gnu. 200s Preparing to unpack .../045-g++-14-x86-64-linux-gnu_14.2.0-17ubuntu3_amd64.deb ... 200s Unpacking g++-14-x86-64-linux-gnu (14.2.0-17ubuntu3) ... 200s Selecting previously unselected package g++-14. 200s Preparing to unpack .../046-g++-14_14.2.0-17ubuntu3_amd64.deb ... 200s Unpacking g++-14 (14.2.0-17ubuntu3) ... 200s Selecting previously unselected package g++-x86-64-linux-gnu. 200s Preparing to unpack .../047-g++-x86-64-linux-gnu_4%3a14.2.0-1ubuntu1_amd64.deb ... 200s Unpacking g++-x86-64-linux-gnu (4:14.2.0-1ubuntu1) ... 200s Selecting previously unselected package g++. 200s Preparing to unpack .../048-g++_4%3a14.2.0-1ubuntu1_amd64.deb ... 200s Unpacking g++ (4:14.2.0-1ubuntu1) ... 200s Selecting previously unselected package build-essential. 200s Preparing to unpack .../049-build-essential_12.10ubuntu1_amd64.deb ... 200s Unpacking build-essential (12.10ubuntu1) ... 200s Selecting previously unselected package cython3. 200s Preparing to unpack .../050-cython3_3.0.11+dfsg-2ubuntu2_amd64.deb ... 200s Unpacking cython3 (3.0.11+dfsg-2ubuntu2) ... 201s Selecting previously unselected package libdebhelper-perl. 201s Preparing to unpack .../051-libdebhelper-perl_13.24.1ubuntu2_all.deb ... 201s Unpacking libdebhelper-perl (13.24.1ubuntu2) ... 201s Selecting previously unselected package libtool. 201s Preparing to unpack .../052-libtool_2.5.4-4_all.deb ... 201s Unpacking libtool (2.5.4-4) ... 201s Selecting previously unselected package dh-autoreconf. 201s Preparing to unpack .../053-dh-autoreconf_20_all.deb ... 201s Unpacking dh-autoreconf (20) ... 201s Selecting previously unselected package libarchive-zip-perl. 201s Preparing to unpack .../054-libarchive-zip-perl_1.68-1_all.deb ... 201s Unpacking libarchive-zip-perl (1.68-1) ... 201s Selecting previously unselected package libfile-stripnondeterminism-perl. 201s Preparing to unpack .../055-libfile-stripnondeterminism-perl_1.14.1-2_all.deb ... 201s Unpacking libfile-stripnondeterminism-perl (1.14.1-2) ... 201s Selecting previously unselected package dh-strip-nondeterminism. 201s Preparing to unpack .../056-dh-strip-nondeterminism_1.14.1-2_all.deb ... 201s Unpacking dh-strip-nondeterminism (1.14.1-2) ... 201s Selecting previously unselected package debugedit. 201s Preparing to unpack .../057-debugedit_1%3a5.1-2_amd64.deb ... 201s Unpacking debugedit (1:5.1-2) ... 201s Selecting previously unselected package dwz. 201s Preparing to unpack .../058-dwz_0.15-1build6_amd64.deb ... 201s Unpacking dwz (0.15-1build6) ... 201s Selecting previously unselected package gettext. 201s Preparing to unpack .../059-gettext_0.23.1-1_amd64.deb ... 201s Unpacking gettext (0.23.1-1) ... 201s Selecting previously unselected package intltool-debian. 201s Preparing to unpack .../060-intltool-debian_0.35.0+20060710.6_all.deb ... 201s Unpacking intltool-debian (0.35.0+20060710.6) ... 201s Selecting previously unselected package po-debconf. 201s Preparing to unpack .../061-po-debconf_1.0.21+nmu1_all.deb ... 201s Unpacking po-debconf (1.0.21+nmu1) ... 201s Selecting previously unselected package debhelper. 201s Preparing to unpack .../062-debhelper_13.24.1ubuntu2_all.deb ... 201s Unpacking debhelper (13.24.1ubuntu2) ... 201s Selecting previously unselected package dh-python. 201s Preparing to unpack .../063-dh-python_6.20250308_all.deb ... 201s Unpacking dh-python (6.20250308) ... 201s Selecting previously unselected package xml-core. 201s Preparing to unpack .../064-xml-core_0.19_all.deb ... 201s Unpacking xml-core (0.19) ... 201s Selecting previously unselected package docutils-common. 201s Preparing to unpack .../065-docutils-common_0.21.2+dfsg-2_all.deb ... 201s Unpacking docutils-common (0.21.2+dfsg-2) ... 201s Selecting previously unselected package fontconfig. 201s Preparing to unpack .../066-fontconfig_2.15.0-2ubuntu1_amd64.deb ... 201s Unpacking fontconfig (2.15.0-2ubuntu1) ... 201s Selecting previously unselected package fonts-lyx. 201s Preparing to unpack .../067-fonts-lyx_2.4.3-1_all.deb ... 201s Unpacking fonts-lyx (2.4.3-1) ... 201s Selecting previously unselected package libpixman-1-0:amd64. 201s Preparing to unpack .../068-libpixman-1-0_0.44.0-3_amd64.deb ... 201s Unpacking libpixman-1-0:amd64 (0.44.0-3) ... 201s Selecting previously unselected package libxcb-render0:amd64. 201s Preparing to unpack .../069-libxcb-render0_1.17.0-2_amd64.deb ... 201s Unpacking libxcb-render0:amd64 (1.17.0-2) ... 201s Selecting previously unselected package libxcb-shm0:amd64. 201s Preparing to unpack .../070-libxcb-shm0_1.17.0-2_amd64.deb ... 201s Unpacking libxcb-shm0:amd64 (1.17.0-2) ... 201s Selecting previously unselected package libcairo2:amd64. 201s Preparing to unpack .../071-libcairo2_1.18.2-2_amd64.deb ... 201s Unpacking libcairo2:amd64 (1.18.2-2) ... 201s Selecting previously unselected package libdatrie1:amd64. 201s Preparing to unpack .../072-libdatrie1_0.2.13-3build1_amd64.deb ... 201s Unpacking libdatrie1:amd64 (0.2.13-3build1) ... 201s Selecting previously unselected package libdeflate0:amd64. 201s Preparing to unpack .../073-libdeflate0_1.23-1_amd64.deb ... 201s Unpacking libdeflate0:amd64 (1.23-1) ... 201s Selecting previously unselected package libexpat1-dev:amd64. 201s Preparing to unpack .../074-libexpat1-dev_2.6.4-1_amd64.deb ... 201s Unpacking libexpat1-dev:amd64 (2.6.4-1) ... 201s Selecting previously unselected package libgraphite2-3:amd64. 201s Preparing to unpack .../075-libgraphite2-3_1.3.14-2ubuntu1_amd64.deb ... 201s Unpacking libgraphite2-3:amd64 (1.3.14-2ubuntu1) ... 201s Selecting previously unselected package libharfbuzz0b:amd64. 201s Preparing to unpack .../076-libharfbuzz0b_10.2.0-1_amd64.deb ... 201s Unpacking libharfbuzz0b:amd64 (10.2.0-1) ... 201s Selecting previously unselected package libhtscodecs2:amd64. 201s Preparing to unpack .../077-libhtscodecs2_1.6.1-2_amd64.deb ... 201s Unpacking libhtscodecs2:amd64 (1.6.1-2) ... 201s Selecting previously unselected package libhts3t64:amd64. 201s Preparing to unpack .../078-libhts3t64_1.21+ds-1_amd64.deb ... 201s Unpacking libhts3t64:amd64 (1.21+ds-1) ... 201s Selecting previously unselected package libice6:amd64. 201s Preparing to unpack .../079-libice6_2%3a1.1.1-1_amd64.deb ... 201s Unpacking libice6:amd64 (2:1.1.1-1) ... 201s Selecting previously unselected package libimagequant0:amd64. 202s Preparing to unpack .../080-libimagequant0_2.18.0-1build1_amd64.deb ... 202s Unpacking libimagequant0:amd64 (2.18.0-1build1) ... 202s Selecting previously unselected package libjpeg-turbo8:amd64. 202s Preparing to unpack .../081-libjpeg-turbo8_2.1.5-3ubuntu2_amd64.deb ... 202s Unpacking libjpeg-turbo8:amd64 (2.1.5-3ubuntu2) ... 202s Selecting previously unselected package libjpeg8:amd64. 202s Preparing to unpack .../082-libjpeg8_8c-2ubuntu11_amd64.deb ... 202s Unpacking libjpeg8:amd64 (8c-2ubuntu11) ... 202s Selecting previously unselected package libjs-jquery. 202s Preparing to unpack .../083-libjs-jquery_3.6.1+dfsg+~3.5.14-1_all.deb ... 202s Unpacking libjs-jquery (3.6.1+dfsg+~3.5.14-1) ... 202s Selecting previously unselected package libjs-jquery-ui. 202s Preparing to unpack .../084-libjs-jquery-ui_1.13.2+dfsg-1_all.deb ... 202s Unpacking libjs-jquery-ui (1.13.2+dfsg-1) ... 202s Selecting previously unselected package libjs-underscore. 202s Preparing to unpack .../085-libjs-underscore_1.13.4~dfsg+~1.11.4-3_all.deb ... 202s Unpacking libjs-underscore (1.13.4~dfsg+~1.11.4-3) ... 202s Selecting previously unselected package libjs-sphinxdoc. 202s Preparing to unpack .../086-libjs-sphinxdoc_8.1.3-4_all.deb ... 202s Unpacking libjs-sphinxdoc (8.1.3-4) ... 202s Selecting previously unselected package libjson-perl. 202s Preparing to unpack .../087-libjson-perl_4.10000-1_all.deb ... 202s Unpacking libjson-perl (4.10000-1) ... 202s Selecting previously unselected package liblbfgsb0:amd64. 202s Preparing to unpack .../088-liblbfgsb0_3.0+dfsg.4-1build1_amd64.deb ... 202s Unpacking liblbfgsb0:amd64 (3.0+dfsg.4-1build1) ... 202s Selecting previously unselected package liblcms2-2:amd64. 202s Preparing to unpack .../089-liblcms2-2_2.16-2_amd64.deb ... 202s Unpacking liblcms2-2:amd64 (2.16-2) ... 202s Selecting previously unselected package liblerc4:amd64. 202s Preparing to unpack .../090-liblerc4_4.0.0+ds-5ubuntu1_amd64.deb ... 202s Unpacking liblerc4:amd64 (4.0.0+ds-5ubuntu1) ... 202s Selecting previously unselected package libthai-data. 202s Preparing to unpack .../091-libthai-data_0.1.29-2build1_all.deb ... 202s Unpacking libthai-data (0.1.29-2build1) ... 202s Selecting previously unselected package libthai0:amd64. 202s Preparing to unpack .../092-libthai0_0.1.29-2build1_amd64.deb ... 202s Unpacking libthai0:amd64 (0.1.29-2build1) ... 202s Selecting previously unselected package libpango-1.0-0:amd64. 202s Preparing to unpack .../093-libpango-1.0-0_1.56.2-1_amd64.deb ... 202s Unpacking libpango-1.0-0:amd64 (1.56.2-1) ... 202s Selecting previously unselected package libpangoft2-1.0-0:amd64. 202s Preparing to unpack .../094-libpangoft2-1.0-0_1.56.2-1_amd64.deb ... 202s Unpacking libpangoft2-1.0-0:amd64 (1.56.2-1) ... 202s Selecting previously unselected package libpangocairo-1.0-0:amd64. 202s Preparing to unpack .../095-libpangocairo-1.0-0_1.56.2-1_amd64.deb ... 202s Unpacking libpangocairo-1.0-0:amd64 (1.56.2-1) ... 202s Selecting previously unselected package libpaper2:amd64. 202s Preparing to unpack .../096-libpaper2_2.2.5-0.3_amd64.deb ... 202s Unpacking libpaper2:amd64 (2.2.5-0.3) ... 202s Selecting previously unselected package libpaper-utils. 202s Preparing to unpack .../097-libpaper-utils_2.2.5-0.3_amd64.deb ... 202s Unpacking libpaper-utils (2.2.5-0.3) ... 202s Selecting previously unselected package zlib1g-dev:amd64. 202s Preparing to unpack .../098-zlib1g-dev_1%3a1.3.dfsg+really1.3.1-1ubuntu1_amd64.deb ... 202s Unpacking zlib1g-dev:amd64 (1:1.3.dfsg+really1.3.1-1ubuntu1) ... 202s Selecting previously unselected package libpython3.13-dev:amd64. 202s Preparing to unpack .../099-libpython3.13-dev_3.13.2-2_amd64.deb ... 202s Unpacking libpython3.13-dev:amd64 (3.13.2-2) ... 202s Selecting previously unselected package libpython3-dev:amd64. 202s Preparing to unpack .../100-libpython3-dev_3.13.2-2_amd64.deb ... 202s Unpacking libpython3-dev:amd64 (3.13.2-2) ... 202s Selecting previously unselected package libpython3-all-dev:amd64. 202s Preparing to unpack .../101-libpython3-all-dev_3.13.2-2_amd64.deb ... 202s Unpacking libpython3-all-dev:amd64 (3.13.2-2) ... 202s Selecting previously unselected package libqhull-r8.0:amd64. 202s Preparing to unpack .../102-libqhull-r8.0_2020.2-6build1_amd64.deb ... 202s Unpacking libqhull-r8.0:amd64 (2020.2-6build1) ... 202s Selecting previously unselected package libraqm0:amd64. 202s Preparing to unpack .../103-libraqm0_0.10.2-1_amd64.deb ... 202s Unpacking libraqm0:amd64 (0.10.2-1) ... 202s Selecting previously unselected package libsharpyuv0:amd64. 202s Preparing to unpack .../104-libsharpyuv0_1.5.0-0.1_amd64.deb ... 202s Unpacking libsharpyuv0:amd64 (1.5.0-0.1) ... 203s Selecting previously unselected package libsm6:amd64. 203s Preparing to unpack .../105-libsm6_2%3a1.2.4-1_amd64.deb ... 203s Unpacking libsm6:amd64 (2:1.2.4-1) ... 203s Selecting previously unselected package libjbig0:amd64. 203s Preparing to unpack .../106-libjbig0_2.1-6.1ubuntu2_amd64.deb ... 203s Unpacking libjbig0:amd64 (2.1-6.1ubuntu2) ... 203s Selecting previously unselected package libwebp7:amd64. 203s Preparing to unpack .../107-libwebp7_1.5.0-0.1_amd64.deb ... 203s Unpacking libwebp7:amd64 (1.5.0-0.1) ... 203s Selecting previously unselected package libtiff6:amd64. 203s Preparing to unpack .../108-libtiff6_4.5.1+git230720-4ubuntu4_amd64.deb ... 203s Unpacking libtiff6:amd64 (4.5.1+git230720-4ubuntu4) ... 203s Selecting previously unselected package libwebpdemux2:amd64. 203s Preparing to unpack .../109-libwebpdemux2_1.5.0-0.1_amd64.deb ... 203s Unpacking libwebpdemux2:amd64 (1.5.0-0.1) ... 203s Selecting previously unselected package libwebpmux3:amd64. 203s Preparing to unpack .../110-libwebpmux3_1.5.0-0.1_amd64.deb ... 203s Unpacking libwebpmux3:amd64 (1.5.0-0.1) ... 203s Selecting previously unselected package libxslt1.1:amd64. 203s Preparing to unpack .../111-libxslt1.1_1.1.39-0exp1ubuntu2_amd64.deb ... 203s Unpacking libxslt1.1:amd64 (1.1.39-0exp1ubuntu2) ... 203s Selecting previously unselected package libxt6t64:amd64. 203s Preparing to unpack .../112-libxt6t64_1%3a1.2.1-1.2build1_amd64.deb ... 203s Unpacking libxt6t64:amd64 (1:1.2.1-1.2build1) ... 203s Selecting previously unselected package python3-pysam. 203s Preparing to unpack .../113-python3-pysam_0.23.0+ds-1build1_amd64.deb ... 203s Unpacking python3-pysam (0.23.0+ds-1build1) ... 203s Selecting previously unselected package python3-pybedtools. 203s Preparing to unpack .../114-python3-pybedtools_0.10.0-4build1_amd64.deb ... 203s Unpacking python3-pybedtools (0.10.0-4build1) 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python3-wheel. 203s Preparing to unpack .../120-python3-wheel_0.45.1-1_all.deb ... 203s Unpacking python3-wheel (0.45.1-1) ... 203s Selecting previously unselected package python3-build. 203s Preparing to unpack .../121-python3-build_1.2.2-1_all.deb ... 203s Unpacking python3-build (1.2.2-1) ... 203s Selecting previously unselected package python3-installer. 203s Preparing to unpack .../122-python3-installer_0.7.0+dfsg1-3_all.deb ... 203s Unpacking python3-installer (0.7.0+dfsg1-3) ... 203s Selecting previously unselected package pybuild-plugin-pyproject. 203s Preparing to unpack .../123-pybuild-plugin-pyproject_6.20250308_all.deb ... 203s Unpacking pybuild-plugin-pyproject (6.20250308) ... 203s Selecting previously unselected package python-matplotlib-data. 203s Preparing to unpack .../124-python-matplotlib-data_3.8.3-7build1_all.deb ... 203s Unpacking python-matplotlib-data (3.8.3-7build1) ... 204s Selecting previously unselected package python-pybedtools-doc. 204s Preparing to unpack .../125-python-pybedtools-doc_0.10.0-4build1_all.deb ... 204s Unpacking python-pybedtools-doc (0.10.0-4build1) ... 204s Selecting previously unselected package python3-all. 204s Preparing to unpack .../126-python3-all_3.13.2-2_amd64.deb ... 204s Unpacking python3-all (3.13.2-2) ... 204s Selecting previously unselected package python3.13-dev. 204s Preparing to unpack .../127-python3.13-dev_3.13.2-2_amd64.deb ... 204s Unpacking python3.13-dev (3.13.2-2) ... 204s Selecting previously unselected package python3-dev. 204s Preparing to unpack .../128-python3-dev_3.13.2-2_amd64.deb ... 204s Unpacking python3-dev (3.13.2-2) ... 204s Selecting previously unselected package python3-all-dev. 204s Preparing to unpack .../129-python3-all-dev_3.13.2-2_amd64.deb ... 204s Unpacking python3-all-dev (3.13.2-2) ... 204s Selecting previously unselected package python3-brotli. 204s Preparing to unpack .../130-python3-brotli_1.1.0-2build4_amd64.deb ... 204s Unpacking python3-brotli (1.1.0-2build4) 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unpack .../147-python3-fonttools_4.55.3-2build1_amd64.deb ... 205s Unpacking python3-fonttools (4.55.3-2build1) ... 205s Selecting previously unselected package python3-imagesize. 205s Preparing to unpack .../148-python3-imagesize_1.4.1-1_all.deb ... 205s Unpacking python3-imagesize (1.4.1-1) ... 205s Selecting previously unselected package python3-iniconfig. 205s Preparing to unpack .../149-python3-iniconfig_1.1.1-2_all.deb ... 205s Unpacking python3-iniconfig (1.1.1-2) ... 205s Selecting previously unselected package python3-kiwisolver. 205s Preparing to unpack .../150-python3-kiwisolver_1.4.7-3build1_amd64.deb ... 205s Unpacking python3-kiwisolver (1.4.7-3build1) ... 205s Selecting previously unselected package libopenjp2-7:amd64. 205s Preparing to unpack .../151-libopenjp2-7_2.5.3-2_amd64.deb ... 205s Unpacking libopenjp2-7:amd64 (2.5.3-2) ... 205s Selecting previously unselected package python3-pil:amd64. 206s Preparing to unpack .../152-python3-pil_11.1.0-5build1_amd64.deb ... 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207s Unpacking r-base-core (4.4.3-1) ... 208s Setting up libhtscodecs2:amd64 (1.6.1-2) ... 208s Setting up dh-python (6.20250308) ... 208s Setting up libgraphite2-3:amd64 (1.3.14-2ubuntu1) ... 208s Setting up liblcms2-2:amd64 (2.16-2) ... 208s Setting up python3-iniconfig (1.1.1-2) ... 208s Setting up libpixman-1-0:amd64 (0.44.0-3) ... 208s Setting up libsharpyuv0:amd64 (1.5.0-0.1) ... 208s Setting up liblerc4:amd64 (4.0.0+ds-5ubuntu1) ... 208s Setting up libxrender1:amd64 (1:0.9.10-1.1build1) ... 208s Setting up libdatrie1:amd64 (0.2.13-3build1) ... 208s Setting up python3-lz4 (4.4.0+dfsg-1build1) ... 208s Setting up libxcb-render0:amd64 (1.17.0-2) ... 208s Setting up python3-defusedxml (0.7.1-3) ... 208s Setting up libarchive-zip-perl (1.68-1) ... 208s Setting up python3-alabaster (0.7.16-0.1) ... 208s Setting up fonts-lyx (2.4.3-1) ... 208s Setting up unzip (6.0-28ubuntu6) ... 208s Setting up libdebhelper-perl (13.24.1ubuntu2) ... 208s Setting up x11-common (1:7.7+23ubuntu3) ... 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libjpeg-turbo8:amd64 (2.1.5-3ubuntu2) ... 211s Setting up python3-toml (0.10.2-1) ... 212s Setting up python3-installer (0.7.0+dfsg1-3) ... 212s Setting up libgfortran5:amd64 (15-20250222-0ubuntu1) ... 212s Setting up autoconf (2.72-3ubuntu1) ... 212s Setting up python3-pluggy (1.5.0-1) ... 212s Setting up libwebp7:amd64 (1.5.0-0.1) ... 212s Setting up libubsan1:amd64 (15-20250222-0ubuntu1) ... 212s Setting up zlib1g-dev:amd64 (1:1.3.dfsg+really1.3.1-1ubuntu1) ... 212s Setting up dwz (0.15-1build6) ... 212s Setting up libhwasan0:amd64 (15-20250222-0ubuntu1) ... 212s Setting up libasan8:amd64 (15-20250222-0ubuntu1) ... 212s Setting up libjson-perl (4.10000-1) ... 212s Setting up libxslt1.1:amd64 (1.1.39-0exp1ubuntu2) ... 212s Setting up debugedit (1:5.1-2) ... 212s Setting up libhts3t64:amd64 (1.21+ds-1) ... 212s Setting up libopenjp2-7:amd64 (2.5.3-2) ... 212s Setting up libharfbuzz0b:amd64 (10.2.0-1) ... 212s Setting up libthai-data (0.1.29-2build1) ... 212s Setting up 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libtool (2.5.4-4) ... 231s Setting up gcc (4:14.2.0-1ubuntu1) ... 231s Setting up dh-autoreconf (20) ... 231s Setting up g++ (4:14.2.0-1ubuntu1) ... 231s update-alternatives: using /usr/bin/g++ to provide /usr/bin/c++ (c++) in auto mode 231s Setting up build-essential (12.10ubuntu1) ... 231s Setting up debhelper (13.24.1ubuntu2) ... 231s Setting up pybuild-plugin-autopkgtest (6.20250308) ... 231s Setting up python3-ufolib2 (0.17.0+dfsg1-1) ... 231s Setting up python3-fonttools (4.55.3-2build1) ... 232s Setting up python3-matplotlib (3.8.3-7build1) ... 233s Processing triggers for libc-bin (2.41-1ubuntu2) ... 233s Processing triggers for man-db (2.13.0-1) ... 235s Processing triggers for install-info (7.1.1-1) ... 235s Processing triggers for sgml-base (1.31) ... 235s Setting up docutils-common (0.21.2+dfsg-2) ... 235s Processing triggers for sgml-base (1.31) ... 235s Setting up python3-docutils (0.21.2+dfsg-2) ... 236s Setting up python3-sphinx (8.1.3-4) ... 236s Setting up python3-numpydoc (1.8.0-1) ... 237s autopkgtest [18:56:08]: test pybuild-autopkgtest: pybuild-autopkgtest 237s autopkgtest [18:56:08]: test pybuild-autopkgtest: [----------------------- 237s pybuild-autopkgtest 238s I: pybuild base:311: cd /tmp/autopkgtest.5KHKRd/autopkgtest_tmp/build; python3.13 -m pytest -k "not test_chromsizes" --pyargs pybedtools 238s ============================= test session starts ============================== 238s platform linux -- Python 3.13.2, pytest-8.3.5, pluggy-1.5.0 238s rootdir: /tmp/autopkgtest.5KHKRd/autopkgtest_tmp/build 238s configfile: pyproject.toml 238s plugins: typeguard-4.4.2 238s collected 511 items / 2 deselected / 509 selected 238s 243s test/test_1.py ......................................................... [ 11%] 244s ............x..x.x...... [ 15%] 244s test/test_cbedtools.py ....................................... [ 23%] 244s test/test_contrib.py .. [ 23%] 244s test/test_gzip_support.py ........ [ 25%] 245s test/test_helpers.py ...... [ 26%] 247s test/test_issues.py ........................................... [ 35%] 247s test/test_iter.py ...................................................... [ 45%] 247s ........................................................................ [ 59%] 253s ........................................................................ [ 74%] 253s ........................................................................ [ 88%] 253s ......................................................... [ 99%] 253s test/test_pathlib.py ... [100%] 253s 253s ================ 506 passed, 2 deselected, 3 xfailed in 15.40s ================= 253s I: pybuild pybuild:334: cd /tmp/autopkgtest.5KHKRd/build.lpP/src/docs ; PYTHONPATH=/tmp/autopkgtest.5KHKRd/autopkgtest_tmp/build python3.13 -m sphinx -b doctest -d build/doctrees source build/doctest 254s Running Sphinx v8.1.3 254s loading translations [en]... done 254s making output directory... done 254s Converting `source_suffix = '.rst'` to `source_suffix = {'.rst': 'restructuredtext'}`. 254s [autosummary] generating autosummary for: 3-brief-examples.rst, FAQs.rst, autodoc_source.rst, autodocs/pybedtools.contrib.plotting.Track.rst, changes.rst, create-a-bedtool-tutorial.rst, default-arguments.rst, each.rst, filtering.rst, flow-of-commands.rst, ..., topical-create-a-bedtool.rst, topical-design-principles.rst, topical-documentation-contents.rst, topical-genome.rst, topical-iterators.rst, topical-low-level-ops.rst, topical-random.rst, topical-saving.rst, topical-wrapping.rst, tutorial-contents.rst 256s [autosummary] generating autosummary for: /tmp/autopkgtest.5KHKRd/build.lpP/src/docs/source/autodocs/pybedtools.bedtool.BedTool.absolute_distance.rst, /tmp/autopkgtest.5KHKRd/build.lpP/src/docs/source/autodocs/pybedtools.bedtool.BedTool.all_hits.rst, /tmp/autopkgtest.5KHKRd/build.lpP/src/docs/source/autodocs/pybedtools.bedtool.BedTool.annotate.rst, /tmp/autopkgtest.5KHKRd/build.lpP/src/docs/source/autodocs/pybedtools.bedtool.BedTool.any_hits.rst, /tmp/autopkgtest.5KHKRd/build.lpP/src/docs/source/autodocs/pybedtools.bedtool.BedTool.as_intervalfile.rst, /tmp/autopkgtest.5KHKRd/build.lpP/src/docs/source/autodocs/pybedtools.bedtool.BedTool.at.rst, /tmp/autopkgtest.5KHKRd/build.lpP/src/docs/source/autodocs/pybedtools.bedtool.BedTool.bam_to_bed.rst, /tmp/autopkgtest.5KHKRd/build.lpP/src/docs/source/autodocs/pybedtools.bedtool.BedTool.bam_to_fastq.rst, /tmp/autopkgtest.5KHKRd/build.lpP/src/docs/source/autodocs/pybedtools.bedtool.BedTool.bed6.rst, /tmp/autopkgtest.5KHKRd/build.lpP/src/docs/source/autodocs/pybedtools.bedtool.BedTool.bedpe_to_bam.rst, ..., /tmp/autopkgtest.5KHKRd/build.lpP/src/docs/source/autodocs/pybedtools.helpers.set_tempdir.rst, /tmp/autopkgtest.5KHKRd/build.lpP/src/docs/source/autodocs/pybedtools.parallel.parallel_apply.rst, /tmp/autopkgtest.5KHKRd/build.lpP/src/docs/source/pybedtools.featurefuncs.add_color.rst, /tmp/autopkgtest.5KHKRd/build.lpP/src/docs/source/pybedtools.featurefuncs.bedgraph_scale.rst, /tmp/autopkgtest.5KHKRd/build.lpP/src/docs/source/pybedtools.featurefuncs.extend_fields.rst, /tmp/autopkgtest.5KHKRd/build.lpP/src/docs/source/pybedtools.featurefuncs.five_prime.rst, /tmp/autopkgtest.5KHKRd/build.lpP/src/docs/source/pybedtools.featurefuncs.greater_than.rst, /tmp/autopkgtest.5KHKRd/build.lpP/src/docs/source/pybedtools.featurefuncs.less_than.rst, /tmp/autopkgtest.5KHKRd/build.lpP/src/docs/source/pybedtools.featurefuncs.normalized_to_length.rst, /tmp/autopkgtest.5KHKRd/build.lpP/src/docs/source/pybedtools.featurefuncs.three_prime.rst 256s building [mo]: targets for 0 po files that are out of date 256s writing output... 256s building [doctest]: targets for 49 source files that are out of date 256s updating environment: [new config] 157 added, 0 changed, 0 removed 256s reading sources... [ 1%] 3-brief-examples 256s reading sources... [ 1%] FAQs 256s reading sources... [ 2%] autodoc_source 256s /usr/lib/python3/dist-packages/numpydoc/docscrape.py:421: UserWarning: Unknown section Example in the docstring of decorated in /usr/lib/python3/dist-packages/pybedtools/bedtool.py. 256s self[section] = content 257s /usr/lib/python3/dist-packages/numpydoc/docscrape.py:421: UserWarning: Unknown section Example in the docstring of tag_bedpe in /usr/lib/python3/dist-packages/pybedtools/contrib/long_range_interaction.py. 257s self[section] = content 257s reading sources... [ 3%] autodocs/pybedtools.bedtool.BedTool 258s /usr/lib/python3/dist-packages/numpydoc/docscrape.py:421: UserWarning: Unknown section Example in the docstring of decorated in /usr/lib/python3/dist-packages/pybedtools/bedtool.py. 258s self[section] = content 259s reading sources... [ 3%] autodocs/pybedtools.bedtool.BedTool.absolute_distance 259s reading sources... 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[autosummary.import_cycle] 263s /tmp/autopkgtest.5KHKRd/build.lpP/src/docs/source/topical-genome.rst:55: ERROR: Unknown target name: "genomepy". [docutils] 263s looking for now-outdated files... none found 263s pickling environment... done 263s checking consistency... /tmp/autopkgtest.5KHKRd/build.lpP/src/docs/source/pybedtools.featurefuncs.normalized_to_length.rst: document is referenced in multiple toctrees: ['autodoc_source', 'autodoc_source'], selecting: autodoc_source <- pybedtools.featurefuncs.normalized_to_length 263s /tmp/autopkgtest.5KHKRd/build.lpP/src/docs/source/pybedtools.featurefuncs.rename.rst: document is referenced in multiple toctrees: ['autodoc_source', 'autodoc_source'], selecting: autodoc_source <- pybedtools.featurefuncs.rename 263s done 263s preparing documents... done 263s copying assets... 263s copying assets: done 263s running tests... 263s 263s Document: autodocs/pybedtools.bedtool.BedTool.annotate 263s ------------------------------------------------------ 263s 1 item passed all tests: 263s 3 tests in default 263s 3 tests in 1 item. 263s 3 passed. 263s Test passed. 263s 263s Document: 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------------------------------------------------- 263s 1 item passed all tests: 263s 2 tests in default 263s 2 tests in 1 item. 263s 2 passed. 263s Test passed. 263s 263s Document: autodocs/pybedtools.bedtool.BedTool.each 263s -------------------------------------------------- 263s 1 item passed all tests: 263s 4 tests in default 263s 4 tests in 1 item. 263s 4 passed. 263s Test passed. 263s 263s Document: autodocs/pybedtools.bedtool.BedTool.field_count 263s --------------------------------------------------------- 264s 1 item passed all tests: 264s 2 tests in default 264s 2 tests in 1 item. 264s 2 passed. 264s Test passed. 264s 264s Document: autodocs/pybedtools.bedtool.BedTool.file_type 264s ------------------------------------------------------- 264s 1 item passed all tests: 264s 2 tests in default 264s 2 tests in 1 item. 264s 2 passed. 264s Test passed. 264s 264s Document: autodocs/pybedtools.bedtool.BedTool.filter 264s ---------------------------------------------------- 264s 1 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tests in 1 item. 266s 2 passed. 266s Test passed. 266s 266s Document: autodocs/pybedtools.bedtool.BedTool.mask_fasta 266s -------------------------------------------------------- 266s 1 item passed all tests: 266s 8 tests in default 266s 8 tests in 1 item. 266s 8 passed. 266s Test passed. 266s 266s Document: autodocs/pybedtools.bedtool.BedTool.merge 266s --------------------------------------------------- 266s 1 item passed all tests: 266s 3 tests in default 266s 3 tests in 1 item. 266s 3 passed. 266s Test passed. 266s 266s Document: autodocs/pybedtools.bedtool.BedTool.moveto 266s ---------------------------------------------------- 266s 1 item passed all tests: 266s 5 tests in default 266s 5 tests in 1 item. 266s 5 passed. 266s Test passed. 266s 266s Document: autodocs/pybedtools.bedtool.BedTool.overlap 266s ----------------------------------------------------- 266s 1 item passed all tests: 266s 4 tests in default 266s 4 tests in 1 item. 266s 4 passed. 266s Test passed. 266s 266s 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267s ----------------------------------------------------- 267s 1 item passed all tests: 267s 4 tests in default 267s 4 tests in 1 item. 267s 4 passed. 267s Test passed. 267s 267s Document: autodocs/pybedtools.bedtool.BedTool.sort 267s -------------------------------------------------- 267s 1 item passed all tests: 267s 2 tests in default 267s 2 tests in 1 item. 267s 2 passed. 267s Test passed. 267s 267s Document: autodocs/pybedtools.bedtool.BedTool.subtract 267s ------------------------------------------------------ 267s 1 item passed all tests: 267s 4 tests in default 267s 4 tests in 1 item. 267s 4 passed. 267s Test passed. 267s 267s Document: autodocs/pybedtools.bedtool.BedTool.total_coverage 267s ------------------------------------------------------------ 267s 1 item passed all tests: 267s 3 tests in default 267s 3 tests in 1 item. 267s 3 passed. 267s Test passed. 267s 267s Document: autodocs/pybedtools.bedtool.BedTool.with_attrs 267s -------------------------------------------------------- 267s 1 item passed all tests: 267s 3 tests in default 267s 3 tests in 1 item. 267s 3 passed. 267s Test passed. 267s 267s Document: autodocs/pybedtools.cbedtools.Interval 267s ------------------------------------------------ 267s 1 item passed all tests: 267s 3 tests in default 267s 3 tests in 1 item. 267s 3 passed. 267s Test passed. 267s 267s Document: autodocs/pybedtools.cbedtools.create_interval_from_list 267s ----------------------------------------------------------------- 267s 1 item passed all tests: 267s 1 test in default 267s 1 test in 1 item. 267s 1 passed. 267s Test passed. 267s 267s Document: autodocs/pybedtools.contrib.long_range_interaction.cis_trans_interactions 267s ----------------------------------------------------------------------------------- 267s 1 item passed all tests: 267s 18 tests in default 267s 18 tests in 1 item. 267s 18 passed. 267s Test passed. 267s 267s Document: autodocs/pybedtools.contrib.plotting.Track 267s ---------------------------------------------------- 267s 1 item passed all tests: 267s 7 tests in default 267s 7 tests in 1 item. 267s 7 passed. 267s Test passed. 267s 267s Document: autodocs/pybedtools.filenames.list_example_files 267s ---------------------------------------------------------- 267s 1 item passed all tests: 267s 5 tests in default 267s 5 tests in 1 item. 267s 5 passed. 267s Test passed. 267s 267s Document: autodocs/pybedtools.helpers.chromsizes 267s ------------------------------------------------ 267s 1 item passed all tests: 267s 2 tests in default 267s 2 tests in 1 item. 267s 2 passed. 267s Test passed. 267s 267s Document: autodocs/pybedtools.parallel.parallel_apply 267s ----------------------------------------------------- 267s 1 item passed all tests: 267s 13 tests in default 267s 13 tests in 1 item. 267s 13 passed. 267s Test passed. 267s 267s Document: default-arguments 267s --------------------------- 267s 1 item passed all tests: 267s 13 tests in default 267s 13 tests in 1 item. 267s 13 passed. 267s Test passed. 267s 267s Document: each 267s -------------- 267s 1 item passed all tests: 267s 6 tests in default 267s 6 tests in 1 item. 267s 6 passed. 267s Test passed. 267s 267s Document: filtering 267s ------------------- 267s 1 item passed all tests: 267s 8 tests in default 267s 8 tests in 1 item. 267s 8 passed. 267s Test passed. 267s 267s Document: history 267s ----------------- 267s 1 item passed all tests: 267s 10 tests in default 267s 10 tests in 1 item. 267s 10 passed. 267s Test passed. 267s 267s Document: intersections 267s ----------------------- 267s 1 item passed all tests: 267s 8 tests in default 267s 8 tests in 1 item. 267s 8 passed. 267s Test passed. 267s 267s Document: intervals 267s ------------------- 267s 1 item passed all tests: 267s 50 tests in default 267s 50 tests in 1 item. 267s 50 passed. 267s Test passed. 267s 267s Document: piping 267s ---------------- 267s 1 item passed all tests: 267s 17 tests in default 267s 17 tests in 1 item. 267s 17 passed. 267s Test passed. 267s 267s Document: save-results 267s ---------------------- 267s 1 item passed all tests: 267s 8 tests in default 267s 8 tests in 1 item. 267s 8 passed. 267s Test passed. 267s 267s Document: topical-bam 267s --------------------- 269s 1 item passed all tests: 269s 15 tests in default 269s 15 tests in 1 item. 269s 15 passed. 269s Test passed. 269s 269s Document: topical-create-a-bedtool 269s ---------------------------------- 269s 1 item passed all tests: 269s 10 tests in default 269s 10 tests in 1 item. 269s 10 passed. 269s Test passed. 269s 269s Document: topical-design-principles 269s ----------------------------------- 269s 1 item passed all tests: 269s 15 tests in default 269s 15 tests in 1 item. 269s 15 passed. 269s Test passed. 269s 269s Document: topical-genome 269s ------------------------ 269s 1 item passed all tests: 269s 13 tests in default 269s 13 tests in 1 item. 269s 13 passed. 269s Test passed. 269s 269s Document: topical-iterators 269s --------------------------- 269s 1 item passed all tests: 269s 20 tests in default 269s 20 tests in 1 item. 269s 20 passed. 269s Test passed. 269s 269s Document: topical-low-level-ops 269s ------------------------------- 269s 1 item passed all tests: 269s 6 tests in default 269s 6 tests in 1 item. 269s 6 passed. 269s Test passed. 269s 269s Document: topical-random 269s ------------------------ 270s 1 item passed all tests: 270s 10 tests in default 270s 10 tests in 1 item. 270s 10 passed. 270s Test passed. 270s 270s Document: topical-saving 270s ------------------------ 270s 1 item passed all tests: 270s 14 tests in default 270s 14 tests in 1 item. 270s 14 passed. 270s Test passed. 270s 270s Doctest summary 270s =============== 270s 387 tests 270s 0 failures in tests 270s 0 failures in setup code 270s 0 failures in cleanup code 270s build succeeded, 126 warnings. 270s 270s Testing of doctests in the sources finished, look at the results in build/doctest/output.txt. 271s autopkgtest [18:56:42]: test pybuild-autopkgtest: -----------------------] 272s autopkgtest [18:56:43]: test pybuild-autopkgtest: - - - - - - - - - - results - - - - - - - - - - 272s pybuild-autopkgtest PASS 272s autopkgtest [18:56:43]: @@@@@@@@@@@@@@@@@@@@ summary 272s pybuild-autopkgtest PASS 288s nova [W] Skipping flock for amd64 288s Creating nova instance adt-plucky-amd64-python-pybedtools-20250315-185211-juju-7f2275-prod-proposed-migration-environment-2-73334aa5-ee43-462c-b801-9300f4539dbc from image adt/ubuntu-plucky-amd64-server-20250306.img (UUID 60d877d7-b74c-4f24-920d-f4570db0a338)... 288s nova [W] Timed out waiting for f2753ed7-7a09-4d27-8c69-0633a91b621b to get deleted.