0s autopkgtest [21:51:00]: starting date and time: 2025-03-15 21:51:00+0000 0s autopkgtest [21:51:00]: git checkout: 325255d2 Merge branch 'pin-any-arch' into 'ubuntu/production' 0s autopkgtest [21:51:00]: host juju-7f2275-prod-proposed-migration-environment-15; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work.k65spjnm/out --timeout-copy=6000 --setup-commands /home/ubuntu/autopkgtest-cloud/worker-config-production/setup-canonical.sh --apt-pocket=proposed=src:glibc --apt-upgrade python-pysam --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 builder-cpu2-ram4-disk20 --security-groups autopkgtest-juju-7f2275-prod-proposed-migration-environment-15@bos03-12.secgroup --name adt-plucky-amd64-python-pysam-20250315-215100-juju-7f2275-prod-proposed-migration-environment-15-03019d48-dfdc-4d40-afad-ffcfbfd000a5 --image adt/ubuntu-plucky-amd64-server --keyname testbed-juju-7f2275-prod-proposed-migration-environment-15 --net-id=net_prod-proposed-migration-amd64 -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/ 53s autopkgtest [21:51:53]: testbed dpkg architecture: amd64 53s autopkgtest [21:51:53]: testbed apt version: 2.9.31ubuntu1 53s autopkgtest [21:51:53]: @@@@@@@@@@@@@@@@@@@@ test bed setup 53s autopkgtest [21:51:53]: testbed release detected to be: None 54s autopkgtest [21:51:54]: updating testbed package index (apt update) 55s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease [126 kB] 55s Hit:2 http://ftpmaster.internal/ubuntu plucky InRelease 55s Hit:3 http://ftpmaster.internal/ubuntu plucky-updates InRelease 55s Hit:4 http://ftpmaster.internal/ubuntu plucky-security InRelease 55s Get:5 http://ftpmaster.internal/ubuntu plucky-proposed/main Sources [44.1 kB] 55s Get:6 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse Sources [14.5 kB] 55s Get:7 http://ftpmaster.internal/ubuntu plucky-proposed/universe Sources [369 kB] 55s Get:8 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 Packages [85.7 kB] 55s Get:9 http://ftpmaster.internal/ubuntu plucky-proposed/main i386 Packages [67.4 kB] 55s Get:10 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 c-n-f Metadata [1852 B] 55s Get:11 http://ftpmaster.internal/ubuntu plucky-proposed/restricted amd64 c-n-f Metadata [116 B] 55s Get:12 http://ftpmaster.internal/ubuntu plucky-proposed/universe i386 Packages [174 kB] 55s Get:13 http://ftpmaster.internal/ubuntu plucky-proposed/universe amd64 Packages [342 kB] 55s Get:14 http://ftpmaster.internal/ubuntu plucky-proposed/universe amd64 c-n-f Metadata [15.3 kB] 55s Get:15 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse amd64 Packages [16.1 kB] 55s Get:16 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse i386 Packages [8544 B] 55s Get:17 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse amd64 c-n-f Metadata [628 B] 56s Fetched 1265 kB in 1s (1374 kB/s) 57s Reading package lists... 58s + lsb_release --codename --short 58s + RELEASE=plucky 58s + cat 58s + [ plucky != trusty ] 58s + DEBIAN_FRONTEND=noninteractive eatmydata apt-get -y --allow-downgrades -o Dpkg::Options::=--force-confnew dist-upgrade 58s Reading package lists... 58s Building dependency tree... 58s Reading state information... 58s Calculating upgrade... 58s Calculating upgrade... 59s The following package was automatically installed and is no longer required: 59s libnl-genl-3-200 59s Use 'sudo apt autoremove' to remove it. 59s The following NEW packages will be installed: 59s bpftool libdebuginfod-common libdebuginfod1t64 linux-headers-6.14.0-10 59s linux-headers-6.14.0-10-generic linux-image-6.14.0-10-generic 59s linux-modules-6.14.0-10-generic linux-modules-extra-6.14.0-10-generic 59s linux-perf linux-tools-6.14.0-10 linux-tools-6.14.0-10-generic pnp.ids 59s The following packages will be upgraded: 59s apparmor apt apt-utils binutils binutils-common binutils-x86-64-linux-gnu 59s cloud-init cloud-init-base curl dosfstools exfatprogs fwupd gcc-15-base 59s gir1.2-girepository-2.0 gir1.2-glib-2.0 htop hwdata initramfs-tools 59s initramfs-tools-bin initramfs-tools-core libapparmor1 libapt-pkg7.0 59s libassuan9 libatomic1 libaudit-common libaudit1 libbinutils libbrotli1 59s libc-bin libc-dev-bin libc6 libc6-dev libcap-ng0 libctf-nobfd0 libctf0 59s libcurl3t64-gnutls libcurl4t64 libestr0 libftdi1-2 libfwupd3 libgcc-s1 59s libgirepository-1.0-1 libglib2.0-0t64 libglib2.0-data libgpgme11t64 59s libgprofng0 libjemalloc2 liblz4-1 liblzma5 libmm-glib0 libncurses6 59s libncursesw6 libnewt0.52 libnl-3-200 libnl-genl-3-200 libnl-route-3-200 59s libnss-systemd libpam-systemd libparted2t64 libpci3 libpython3-stdlib 59s libpython3.13 libpython3.13-minimal libpython3.13-stdlib libseccomp2 59s libselinux1 libsemanage-common libsemanage2 libsframe1 libsqlite3-0 59s libstdc++6 libsystemd-shared libsystemd0 libtinfo6 libudev1 libxml2 59s linux-firmware linux-generic linux-headers-generic linux-headers-virtual 59s linux-image-generic linux-image-virtual linux-libc-dev linux-tools-common 59s linux-virtual locales media-types ncurses-base ncurses-bin ncurses-term 59s parted pci.ids pciutils pinentry-curses python-apt-common python3 59s python3-apt python3-bcrypt python3-cffi-backend python3-dbus python3-gi 59s python3-jinja2 python3-lazr.uri python3-markupsafe python3-minimal 59s python3-newt python3-rpds-py python3-systemd python3-yaml python3.13 59s python3.13-gdbm python3.13-minimal rsync rsyslog strace systemd 59s systemd-cryptsetup systemd-resolved systemd-sysv systemd-timesyncd 59s ubuntu-kernel-accessories ubuntu-minimal ubuntu-standard udev whiptail 59s xz-utils 59s 126 upgraded, 12 newly installed, 0 to remove and 0 not upgraded. 59s Need to get 829 MB of archives. 59s After this operation, 325 MB of additional disk space will be used. 59s Get:1 http://ftpmaster.internal/ubuntu plucky/main amd64 ncurses-bin amd64 6.5+20250216-2 [194 kB] 59s Get:2 http://ftpmaster.internal/ubuntu plucky/main amd64 libc-dev-bin amd64 2.41-1ubuntu1 [24.7 kB] 59s Get:3 http://ftpmaster.internal/ubuntu plucky/main amd64 libc6-dev amd64 2.41-1ubuntu1 [2182 kB] 59s Get:4 http://ftpmaster.internal/ubuntu plucky/main amd64 locales all 2.41-1ubuntu1 [4246 kB] 60s Get:5 http://ftpmaster.internal/ubuntu plucky/main amd64 libc6 amd64 2.41-1ubuntu1 [3327 kB] 60s Get:6 http://ftpmaster.internal/ubuntu plucky/main amd64 libc-bin amd64 2.41-1ubuntu1 [701 kB] 60s Get:7 http://ftpmaster.internal/ubuntu plucky/main amd64 linux-libc-dev amd64 6.14.0-10.10 [1723 kB] 60s Get:8 http://ftpmaster.internal/ubuntu plucky/main amd64 libatomic1 amd64 15-20250222-0ubuntu1 [10.4 kB] 60s Get:9 http://ftpmaster.internal/ubuntu plucky/main amd64 gcc-15-base amd64 15-20250222-0ubuntu1 [53.4 kB] 60s Get:10 http://ftpmaster.internal/ubuntu plucky/main amd64 libgcc-s1 amd64 15-20250222-0ubuntu1 [77.8 kB] 60s Get:11 http://ftpmaster.internal/ubuntu plucky/main amd64 libstdc++6 amd64 15-20250222-0ubuntu1 [798 kB] 60s Get:12 http://ftpmaster.internal/ubuntu plucky/main amd64 ncurses-base all 6.5+20250216-2 [25.9 kB] 60s Get:13 http://ftpmaster.internal/ubuntu plucky/main amd64 ncurses-term all 6.5+20250216-2 [276 kB] 60s Get:14 http://ftpmaster.internal/ubuntu plucky/main amd64 liblz4-1 amd64 1.10.0-4 [66.4 kB] 60s Get:15 http://ftpmaster.internal/ubuntu plucky/main amd64 liblzma5 amd64 5.6.4-1 [157 kB] 60s Get:16 http://ftpmaster.internal/ubuntu plucky/main amd64 libsystemd0 amd64 257.3-1ubuntu3 [595 kB] 60s Get:17 http://ftpmaster.internal/ubuntu plucky/main amd64 libnss-systemd amd64 257.3-1ubuntu3 [199 kB] 60s Get:18 http://ftpmaster.internal/ubuntu plucky/main amd64 systemd-sysv amd64 257.3-1ubuntu3 [11.9 kB] 60s Get:19 http://ftpmaster.internal/ubuntu plucky/main amd64 systemd-resolved amd64 257.3-1ubuntu3 [345 kB] 60s Get:20 http://ftpmaster.internal/ubuntu plucky/main amd64 libpam-systemd amd64 257.3-1ubuntu3 [302 kB] 60s Get:21 http://ftpmaster.internal/ubuntu plucky/main amd64 libsystemd-shared amd64 257.3-1ubuntu3 [2371 kB] 60s Get:22 http://ftpmaster.internal/ubuntu plucky/main amd64 systemd amd64 257.3-1ubuntu3 [3052 kB] 60s Get:23 http://ftpmaster.internal/ubuntu plucky/main amd64 systemd-timesyncd amd64 257.3-1ubuntu3 [42.1 kB] 60s Get:24 http://ftpmaster.internal/ubuntu plucky/main amd64 systemd-cryptsetup amd64 257.3-1ubuntu3 [124 kB] 60s Get:25 http://ftpmaster.internal/ubuntu plucky/main amd64 udev amd64 257.3-1ubuntu3 [1404 kB] 61s Get:26 http://ftpmaster.internal/ubuntu plucky/main amd64 libudev1 amd64 257.3-1ubuntu3 [215 kB] 61s Get:27 http://ftpmaster.internal/ubuntu plucky/main amd64 libaudit-common all 1:4.0.2-2ubuntu2 [6628 B] 61s Get:28 http://ftpmaster.internal/ubuntu plucky/main amd64 libcap-ng0 amd64 0.8.5-4build1 [15.6 kB] 61s Get:29 http://ftpmaster.internal/ubuntu plucky/main amd64 libaudit1 amd64 1:4.0.2-2ubuntu2 [54.0 kB] 61s Get:30 http://ftpmaster.internal/ubuntu plucky/main amd64 libseccomp2 amd64 2.5.5-1ubuntu6 [53.5 kB] 61s Get:31 http://ftpmaster.internal/ubuntu plucky/main amd64 libselinux1 amd64 3.7-3ubuntu3 [87.3 kB] 61s Get:32 http://ftpmaster.internal/ubuntu plucky/main amd64 libapparmor1 amd64 4.1.0~beta5-0ubuntu8 [55.0 kB] 61s Get:33 http://ftpmaster.internal/ubuntu plucky/main amd64 libapt-pkg7.0 amd64 2.9.33 [1138 kB] 61s Get:34 http://ftpmaster.internal/ubuntu plucky/main amd64 apt amd64 2.9.33 [1439 kB] 61s Get:35 http://ftpmaster.internal/ubuntu plucky/main amd64 apt-utils amd64 2.9.33 [222 kB] 61s Get:36 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-minimal amd64 3.13.2-2 [27.7 kB] 61s Get:37 http://ftpmaster.internal/ubuntu plucky/main amd64 python3 amd64 3.13.2-2 [24.0 kB] 61s Get:38 http://ftpmaster.internal/ubuntu plucky/main amd64 libpython3.13 amd64 3.13.2-2 [2341 kB] 61s Get:39 http://ftpmaster.internal/ubuntu plucky/main amd64 media-types all 13.0.0 [29.9 kB] 61s Get:40 http://ftpmaster.internal/ubuntu plucky/main amd64 libncurses6 amd64 6.5+20250216-2 [126 kB] 61s Get:41 http://ftpmaster.internal/ubuntu plucky/main amd64 libncursesw6 amd64 6.5+20250216-2 [165 kB] 61s Get:42 http://ftpmaster.internal/ubuntu plucky/main amd64 libtinfo6 amd64 6.5+20250216-2 [119 kB] 61s Get:43 http://ftpmaster.internal/ubuntu plucky/main amd64 libsqlite3-0 amd64 3.46.1-2 [715 kB] 61s Get:44 http://ftpmaster.internal/ubuntu plucky/main amd64 python3.13 amd64 3.13.2-2 [735 kB] 61s Get:45 http://ftpmaster.internal/ubuntu plucky/main amd64 python3.13-minimal amd64 3.13.2-2 [2365 kB] 61s Get:46 http://ftpmaster.internal/ubuntu plucky/main amd64 libpython3.13-minimal amd64 3.13.2-2 [883 kB] 61s Get:47 http://ftpmaster.internal/ubuntu plucky/main amd64 libpython3.13-stdlib amd64 3.13.2-2 [2066 kB] 61s Get:48 http://ftpmaster.internal/ubuntu plucky/main amd64 libpython3-stdlib amd64 3.13.2-2 [10.4 kB] 61s Get:49 http://ftpmaster.internal/ubuntu plucky/main amd64 rsync amd64 3.4.1+ds1-3 [482 kB] 61s Get:50 http://ftpmaster.internal/ubuntu plucky/main amd64 libdebuginfod-common all 0.192-4 [15.4 kB] 61s Get:51 http://ftpmaster.internal/ubuntu plucky/main amd64 libsemanage-common all 3.7-2.1build1 [7268 B] 61s Get:52 http://ftpmaster.internal/ubuntu plucky/main amd64 libsemanage2 amd64 3.7-2.1build1 [106 kB] 61s Get:53 http://ftpmaster.internal/ubuntu plucky/main amd64 libassuan9 amd64 3.0.2-2 [43.1 kB] 61s Get:54 http://ftpmaster.internal/ubuntu plucky/main amd64 gir1.2-girepository-2.0 amd64 1.83.4-1 [25.3 kB] 61s Get:55 http://ftpmaster.internal/ubuntu plucky/main amd64 gir1.2-glib-2.0 amd64 2.84.0-1 [184 kB] 61s Get:56 http://ftpmaster.internal/ubuntu plucky/main amd64 libglib2.0-0t64 amd64 2.84.0-1 [1669 kB] 61s Get:57 http://ftpmaster.internal/ubuntu plucky/main amd64 libgirepository-1.0-1 amd64 1.83.4-1 [89.5 kB] 61s Get:58 http://ftpmaster.internal/ubuntu plucky/main amd64 libestr0 amd64 0.1.11-2 [8340 B] 61s Get:59 http://ftpmaster.internal/ubuntu plucky/main amd64 libglib2.0-data all 2.84.0-1 [53.0 kB] 61s Get:60 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-newt amd64 0.52.24-4ubuntu2 [21.1 kB] 61s Get:61 http://ftpmaster.internal/ubuntu plucky/main amd64 libnewt0.52 amd64 0.52.24-4ubuntu2 [55.7 kB] 61s Get:62 http://ftpmaster.internal/ubuntu plucky/main amd64 libxml2 amd64 2.12.7+dfsg+really2.9.14-0.2ubuntu5 [772 kB] 61s Get:63 http://ftpmaster.internal/ubuntu plucky/main amd64 python-apt-common all 2.9.9build1 [21.3 kB] 61s Get:64 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-apt amd64 2.9.9build1 [172 kB] 61s Get:65 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-cffi-backend amd64 1.17.1-2build2 [96.6 kB] 62s Get:66 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-dbus amd64 1.3.2-5build5 [102 kB] 62s Get:67 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-gi amd64 3.50.0-4build1 [252 kB] 62s Get:68 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-yaml amd64 6.0.2-1build2 [144 kB] 62s Get:69 http://ftpmaster.internal/ubuntu plucky/main amd64 rsyslog amd64 8.2412.0-2ubuntu2 [555 kB] 62s Get:70 http://ftpmaster.internal/ubuntu plucky/main amd64 whiptail amd64 0.52.24-4ubuntu2 [19.1 kB] 62s Get:71 http://ftpmaster.internal/ubuntu plucky/main amd64 ubuntu-minimal amd64 1.549 [11.5 kB] 62s Get:72 http://ftpmaster.internal/ubuntu plucky/main amd64 apparmor amd64 4.1.0~beta5-0ubuntu8 [701 kB] 62s Get:73 http://ftpmaster.internal/ubuntu plucky/main amd64 dosfstools amd64 4.2-1.2 [95.0 kB] 62s Get:74 http://ftpmaster.internal/ubuntu plucky/main amd64 libnl-genl-3-200 amd64 3.7.0-1 [12.2 kB] 62s Get:75 http://ftpmaster.internal/ubuntu plucky/main amd64 libnl-route-3-200 amd64 3.7.0-1 [191 kB] 62s Get:76 http://ftpmaster.internal/ubuntu plucky/main amd64 libnl-3-200 amd64 3.7.0-1 [64.9 kB] 62s Get:77 http://ftpmaster.internal/ubuntu plucky/main amd64 parted amd64 3.6-5 [53.9 kB] 62s Get:78 http://ftpmaster.internal/ubuntu plucky/main amd64 libparted2t64 amd64 3.6-5 [158 kB] 62s Get:79 http://ftpmaster.internal/ubuntu plucky/main amd64 pci.ids all 0.0~2025.03.09-1 [285 kB] 62s Get:80 http://ftpmaster.internal/ubuntu plucky/main amd64 pciutils amd64 1:3.13.0-2 [110 kB] 62s Get:81 http://ftpmaster.internal/ubuntu plucky/main amd64 libpci3 amd64 1:3.13.0-2 [39.8 kB] 62s Get:82 http://ftpmaster.internal/ubuntu plucky/main amd64 strace amd64 6.13+ds-1ubuntu1 [622 kB] 62s Get:83 http://ftpmaster.internal/ubuntu plucky/main amd64 xz-utils amd64 5.6.4-1 [278 kB] 62s Get:84 http://ftpmaster.internal/ubuntu plucky/main amd64 ubuntu-standard amd64 1.549 [11.5 kB] 62s Get:85 http://ftpmaster.internal/ubuntu plucky/main amd64 libgprofng0 amd64 2.44-3ubuntu1 [886 kB] 62s Get:86 http://ftpmaster.internal/ubuntu plucky/main amd64 libctf0 amd64 2.44-3ubuntu1 [96.5 kB] 62s Get:87 http://ftpmaster.internal/ubuntu plucky/main amd64 libctf-nobfd0 amd64 2.44-3ubuntu1 [98.9 kB] 62s Get:88 http://ftpmaster.internal/ubuntu plucky/main amd64 binutils-x86-64-linux-gnu amd64 2.44-3ubuntu1 [1108 kB] 62s Get:89 http://ftpmaster.internal/ubuntu plucky/main amd64 libbinutils amd64 2.44-3ubuntu1 [585 kB] 62s Get:90 http://ftpmaster.internal/ubuntu plucky/main amd64 binutils amd64 2.44-3ubuntu1 [208 kB] 62s Get:91 http://ftpmaster.internal/ubuntu plucky/main amd64 binutils-common amd64 2.44-3ubuntu1 [215 kB] 62s Get:92 http://ftpmaster.internal/ubuntu plucky/main amd64 libsframe1 amd64 2.44-3ubuntu1 [14.8 kB] 62s Get:93 http://ftpmaster.internal/ubuntu plucky/main amd64 hwdata all 0.393-3 [1562 B] 62s Get:94 http://ftpmaster.internal/ubuntu plucky/main amd64 pnp.ids all 0.393-3 [29.5 kB] 62s Get:95 http://ftpmaster.internal/ubuntu plucky/main amd64 linux-tools-common all 6.14.0-10.10 [295 kB] 62s Get:96 http://ftpmaster.internal/ubuntu plucky/main amd64 bpftool amd64 7.6.0+6.14.0-10.10 [1147 kB] 62s Get:97 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-markupsafe amd64 2.1.5-1build4 [13.4 kB] 62s Get:98 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-jinja2 all 3.1.5-2ubuntu1 [109 kB] 62s Get:99 http://ftpmaster.internal/ubuntu plucky/main amd64 cloud-init-base all 25.1-0ubuntu3 [616 kB] 62s Get:100 http://ftpmaster.internal/ubuntu plucky/main amd64 libbrotli1 amd64 1.1.0-2build4 [365 kB] 62s Get:101 http://ftpmaster.internal/ubuntu plucky/main amd64 curl amd64 8.12.1-3ubuntu1 [258 kB] 62s Get:102 http://ftpmaster.internal/ubuntu plucky/main amd64 libcurl4t64 amd64 8.12.1-3ubuntu1 [437 kB] 63s Get:103 http://ftpmaster.internal/ubuntu plucky/main amd64 exfatprogs amd64 1.2.8-1 [76.3 kB] 63s Get:104 http://ftpmaster.internal/ubuntu plucky/main amd64 libcurl3t64-gnutls amd64 8.12.1-3ubuntu1 [432 kB] 63s Get:105 http://ftpmaster.internal/ubuntu plucky/main amd64 fwupd amd64 2.0.6-4 [5408 kB] 63s Get:106 http://ftpmaster.internal/ubuntu plucky/main amd64 libfwupd3 amd64 2.0.6-4 [136 kB] 63s Get:107 http://ftpmaster.internal/ubuntu plucky/main amd64 libmm-glib0 amd64 1.23.4-0ubuntu3 [251 kB] 63s Get:108 http://ftpmaster.internal/ubuntu plucky/main amd64 htop amd64 3.4.0-2 [195 kB] 63s Get:109 http://ftpmaster.internal/ubuntu plucky/main amd64 linux-firmware amd64 20250310.git9e1370d3-0ubuntu1 [571 MB] 92s Get:110 http://ftpmaster.internal/ubuntu plucky/main amd64 initramfs-tools all 0.146ubuntu1 [7920 B] 92s Get:111 http://ftpmaster.internal/ubuntu plucky/main amd64 initramfs-tools-core all 0.146ubuntu1 [51.9 kB] 92s Get:112 http://ftpmaster.internal/ubuntu plucky/main amd64 initramfs-tools-bin amd64 0.146ubuntu1 [26.2 kB] 92s Get:113 http://ftpmaster.internal/ubuntu plucky/main amd64 libdebuginfod1t64 amd64 0.192-4 [21.0 kB] 92s Get:114 http://ftpmaster.internal/ubuntu plucky/main amd64 libftdi1-2 amd64 1.5-8build1 [30.2 kB] 92s Get:115 http://ftpmaster.internal/ubuntu plucky/main amd64 libgpgme11t64 amd64 1.24.2-1ubuntu2 [155 kB] 92s Get:116 http://ftpmaster.internal/ubuntu plucky/main amd64 libjemalloc2 amd64 5.3.0-3 [277 kB] 92s Get:117 http://ftpmaster.internal/ubuntu plucky/main amd64 linux-modules-6.14.0-10-generic amd64 6.14.0-10.10 [41.2 MB] 94s Get:118 http://ftpmaster.internal/ubuntu plucky/main amd64 linux-image-6.14.0-10-generic amd64 6.14.0-10.10 [15.3 MB] 94s Get:119 http://ftpmaster.internal/ubuntu plucky/main amd64 linux-modules-extra-6.14.0-10-generic amd64 6.14.0-10.10 [120 MB] 100s Get:120 http://ftpmaster.internal/ubuntu plucky/main amd64 linux-generic amd64 6.14.0-10.10 [1730 B] 100s Get:121 http://ftpmaster.internal/ubuntu plucky/main amd64 linux-image-generic amd64 6.14.0-10.10 [11.1 kB] 100s Get:122 http://ftpmaster.internal/ubuntu plucky/main amd64 linux-virtual amd64 6.14.0-10.10 [1722 B] 100s Get:123 http://ftpmaster.internal/ubuntu plucky/main amd64 linux-image-virtual amd64 6.14.0-10.10 [11.1 kB] 100s Get:124 http://ftpmaster.internal/ubuntu plucky/main amd64 linux-headers-virtual amd64 6.14.0-10.10 [1642 B] 100s Get:125 http://ftpmaster.internal/ubuntu plucky/main amd64 linux-headers-6.14.0-10 all 6.14.0-10.10 [14.2 MB] 101s Get:126 http://ftpmaster.internal/ubuntu plucky/main amd64 linux-headers-6.14.0-10-generic amd64 6.14.0-10.10 [3915 kB] 101s Get:127 http://ftpmaster.internal/ubuntu plucky/main amd64 linux-headers-generic amd64 6.14.0-10.10 [11.0 kB] 101s Get:128 http://ftpmaster.internal/ubuntu plucky/main amd64 linux-perf amd64 6.14.0-10.10 [4122 kB] 101s Get:129 http://ftpmaster.internal/ubuntu plucky/main amd64 linux-tools-6.14.0-10 amd64 6.14.0-10.10 [1394 kB] 101s Get:130 http://ftpmaster.internal/ubuntu plucky/main amd64 linux-tools-6.14.0-10-generic amd64 6.14.0-10.10 [830 B] 101s Get:131 http://ftpmaster.internal/ubuntu plucky/main amd64 pinentry-curses amd64 1.3.1-2ubuntu3 [42.3 kB] 101s Get:132 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-lazr.uri all 1.0.6-6 [13.7 kB] 101s Get:133 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-rpds-py amd64 0.21.0-2ubuntu2 [278 kB] 101s Get:134 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-systemd amd64 235-1build6 [43.9 kB] 101s Get:135 http://ftpmaster.internal/ubuntu plucky/main amd64 python3.13-gdbm amd64 3.13.2-2 [31.9 kB] 101s Get:136 http://ftpmaster.internal/ubuntu plucky/main amd64 ubuntu-kernel-accessories amd64 1.549 [11.2 kB] 101s Get:137 http://ftpmaster.internal/ubuntu plucky/main amd64 cloud-init all 25.1-0ubuntu3 [2100 B] 101s Get:138 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-bcrypt amd64 4.2.0-2.1build1 [221 kB] 102s Preconfiguring packages ... 102s Fetched 829 MB in 43s (19.4 MB/s) 103s (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 ... 109140 files and directories currently installed.) 103s Preparing to unpack .../ncurses-bin_6.5+20250216-2_amd64.deb ... 103s Unpacking ncurses-bin (6.5+20250216-2) over (6.5+20250216-1) ... 103s Setting up ncurses-bin (6.5+20250216-2) ... 103s (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 ... 109140 files and directories currently installed.) 103s Preparing to unpack .../libc-dev-bin_2.41-1ubuntu1_amd64.deb ... 103s Unpacking libc-dev-bin (2.41-1ubuntu1) over (2.40-4ubuntu1) ... 103s Preparing to unpack .../libc6-dev_2.41-1ubuntu1_amd64.deb ... 103s Unpacking libc6-dev:amd64 (2.41-1ubuntu1) over (2.40-4ubuntu1) ... 103s Preparing to unpack .../locales_2.41-1ubuntu1_all.deb ... 103s Unpacking locales (2.41-1ubuntu1) over (2.40-4ubuntu1) ... 103s Preparing to unpack .../libc6_2.41-1ubuntu1_amd64.deb ... 103s Checking for services that may need to be restarted... 103s Checking init scripts... 103s Checking for services that may need to be restarted... 103s Checking init scripts... 104s Stopping some services possibly affected by the upgrade (will be restarted later): 104s cron: stopping...done. 104s 104s Unpacking libc6:amd64 (2.41-1ubuntu1) over (2.40-4ubuntu1) ... 104s Setting up libc6:amd64 (2.41-1ubuntu1) ... 104s Checking for services that may need to be restarted... 104s Checking init scripts... 104s Restarting services possibly affected by the upgrade: 104s cron: restarting...done. 104s 104s Services restarted successfully. 104s (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 ... 109141 files and directories currently installed.) 104s Preparing to unpack .../libc-bin_2.41-1ubuntu1_amd64.deb ... 104s Unpacking libc-bin (2.41-1ubuntu1) over (2.40-4ubuntu1) ... 104s Setting up libc-bin (2.41-1ubuntu1) ... 105s (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 ... 109141 files and directories currently installed.) 105s Preparing to unpack .../linux-libc-dev_6.14.0-10.10_amd64.deb ... 105s Unpacking linux-libc-dev:amd64 (6.14.0-10.10) over (6.12.0-16.16) ... 105s Preparing to unpack .../libatomic1_15-20250222-0ubuntu1_amd64.deb ... 105s Unpacking libatomic1:amd64 (15-20250222-0ubuntu1) over (15-20250213-1ubuntu1) ... 105s Preparing to unpack .../gcc-15-base_15-20250222-0ubuntu1_amd64.deb ... 105s Unpacking gcc-15-base:amd64 (15-20250222-0ubuntu1) over (15-20250213-1ubuntu1) ... 105s Setting up gcc-15-base:amd64 (15-20250222-0ubuntu1) ... 105s (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 ... 109146 files and directories currently installed.) 105s Preparing to unpack .../libgcc-s1_15-20250222-0ubuntu1_amd64.deb ... 105s Unpacking libgcc-s1:amd64 (15-20250222-0ubuntu1) over (15-20250213-1ubuntu1) ... 105s Setting up libgcc-s1:amd64 (15-20250222-0ubuntu1) ... 105s (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 ... 109146 files and directories currently installed.) 105s Preparing to unpack .../libstdc++6_15-20250222-0ubuntu1_amd64.deb ... 105s Unpacking libstdc++6:amd64 (15-20250222-0ubuntu1) over (15-20250213-1ubuntu1) ... 105s Setting up libstdc++6:amd64 (15-20250222-0ubuntu1) ... 105s (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 ... 109146 files and directories currently installed.) 105s Preparing to unpack .../ncurses-base_6.5+20250216-2_all.deb ... 105s Unpacking ncurses-base (6.5+20250216-2) over (6.5+20250216-1) ... 105s Setting up ncurses-base (6.5+20250216-2) ... 106s (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 ... 109146 files and directories currently installed.) 106s Preparing to unpack .../ncurses-term_6.5+20250216-2_all.deb ... 106s Unpacking ncurses-term (6.5+20250216-2) over (6.5+20250216-1) ... 106s Preparing to unpack .../liblz4-1_1.10.0-4_amd64.deb ... 106s Unpacking liblz4-1:amd64 (1.10.0-4) over (1.10.0-3) ... 106s Setting up liblz4-1:amd64 (1.10.0-4) ... 106s (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 ... 109146 files and directories currently installed.) 106s Preparing to unpack .../liblzma5_5.6.4-1_amd64.deb ... 106s Unpacking liblzma5:amd64 (5.6.4-1) over (5.6.3-1) ... 106s Setting up liblzma5:amd64 (5.6.4-1) ... 106s (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 ... 109146 files and directories currently installed.) 106s Preparing to unpack .../libsystemd0_257.3-1ubuntu3_amd64.deb ... 106s Unpacking libsystemd0:amd64 (257.3-1ubuntu3) over (257.2-3ubuntu1) ... 107s Setting up libsystemd0:amd64 (257.3-1ubuntu3) ... 107s (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 ... 109146 files and directories currently installed.) 107s Preparing to unpack .../libnss-systemd_257.3-1ubuntu3_amd64.deb ... 107s Unpacking libnss-systemd:amd64 (257.3-1ubuntu3) over (257.2-3ubuntu1) ... 107s Preparing to unpack .../systemd-sysv_257.3-1ubuntu3_amd64.deb ... 107s Unpacking systemd-sysv (257.3-1ubuntu3) over (257.2-3ubuntu1) ... 107s Preparing to unpack .../systemd-resolved_257.3-1ubuntu3_amd64.deb ... 107s Unpacking systemd-resolved (257.3-1ubuntu3) over (257.2-3ubuntu1) ... 107s Preparing to unpack .../libpam-systemd_257.3-1ubuntu3_amd64.deb ... 107s Unpacking libpam-systemd:amd64 (257.3-1ubuntu3) over (257.2-3ubuntu1) ... 107s Preparing to unpack .../libsystemd-shared_257.3-1ubuntu3_amd64.deb ... 107s Unpacking libsystemd-shared:amd64 (257.3-1ubuntu3) over (257.2-3ubuntu1) ... 107s Setting up libsystemd-shared:amd64 (257.3-1ubuntu3) ... 107s (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 ... 109146 files and directories currently installed.) 107s Preparing to unpack .../systemd_257.3-1ubuntu3_amd64.deb ... 107s Unpacking systemd (257.3-1ubuntu3) over (257.2-3ubuntu1) ... 107s Preparing to unpack .../systemd-timesyncd_257.3-1ubuntu3_amd64.deb ... 107s Unpacking systemd-timesyncd (257.3-1ubuntu3) over (257.2-3ubuntu1) ... 107s Preparing to unpack .../systemd-cryptsetup_257.3-1ubuntu3_amd64.deb ... 107s Unpacking systemd-cryptsetup (257.3-1ubuntu3) over (257.2-3ubuntu1) ... 107s Preparing to unpack .../udev_257.3-1ubuntu3_amd64.deb ... 107s Unpacking udev (257.3-1ubuntu3) over (257.2-3ubuntu1) ... 108s Preparing to unpack .../libudev1_257.3-1ubuntu3_amd64.deb ... 108s Unpacking libudev1:amd64 (257.3-1ubuntu3) over (257.2-3ubuntu1) ... 108s Setting up libudev1:amd64 (257.3-1ubuntu3) ... 108s (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 ... 109146 files and directories currently installed.) 108s Preparing to unpack .../libaudit-common_1%3a4.0.2-2ubuntu2_all.deb ... 108s Unpacking libaudit-common (1:4.0.2-2ubuntu2) over (1:4.0.2-2ubuntu1) ... 108s Setting up libaudit-common (1:4.0.2-2ubuntu2) ... 108s (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 ... 109146 files and directories currently installed.) 108s Preparing to unpack .../libcap-ng0_0.8.5-4build1_amd64.deb ... 108s Unpacking libcap-ng0:amd64 (0.8.5-4build1) over (0.8.5-4) ... 108s Setting up libcap-ng0:amd64 (0.8.5-4build1) ... 108s (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 ... 109146 files and directories currently installed.) 108s Preparing to unpack .../libaudit1_1%3a4.0.2-2ubuntu2_amd64.deb ... 108s Unpacking libaudit1:amd64 (1:4.0.2-2ubuntu2) over (1:4.0.2-2ubuntu1) ... 108s Setting up libaudit1:amd64 (1:4.0.2-2ubuntu2) ... 108s (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 ... 109146 files and directories currently installed.) 108s Preparing to unpack .../libseccomp2_2.5.5-1ubuntu6_amd64.deb ... 108s Unpacking libseccomp2:amd64 (2.5.5-1ubuntu6) over (2.5.5-1ubuntu5) ... 108s Setting up libseccomp2:amd64 (2.5.5-1ubuntu6) ... 108s (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 ... 109146 files and directories currently installed.) 108s Preparing to unpack .../libselinux1_3.7-3ubuntu3_amd64.deb ... 108s Unpacking libselinux1:amd64 (3.7-3ubuntu3) over (3.7-3ubuntu2) ... 108s Setting up libselinux1:amd64 (3.7-3ubuntu3) ... 108s (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 ... 109146 files and directories currently installed.) 108s Preparing to unpack .../libapparmor1_4.1.0~beta5-0ubuntu8_amd64.deb ... 108s Unpacking libapparmor1:amd64 (4.1.0~beta5-0ubuntu8) over (4.1.0~beta5-0ubuntu5) ... 108s Preparing to unpack .../libapt-pkg7.0_2.9.33_amd64.deb ... 108s Unpacking libapt-pkg7.0:amd64 (2.9.33) over (2.9.31ubuntu1) ... 109s Setting up libapt-pkg7.0:amd64 (2.9.33) ... 109s (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 ... 109146 files and directories currently installed.) 109s Preparing to unpack .../archives/apt_2.9.33_amd64.deb ... 109s Unpacking apt (2.9.33) over (2.9.31ubuntu1) ... 109s Setting up apt (2.9.33) ... 110s (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 ... 109146 files and directories currently installed.) 110s Preparing to unpack .../apt-utils_2.9.33_amd64.deb ... 110s Unpacking apt-utils (2.9.33) over (2.9.31ubuntu1) ... 110s Preparing to unpack .../python3-minimal_3.13.2-2_amd64.deb ... 110s Unpacking python3-minimal (3.13.2-2) over (3.13.2-1) ... 110s Setting up python3-minimal (3.13.2-2) ... 110s (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 ... 109146 files and directories currently installed.) 110s Preparing to unpack .../0-python3_3.13.2-2_amd64.deb ... 110s Unpacking python3 (3.13.2-2) over (3.13.2-1) ... 110s Preparing to unpack .../1-libpython3.13_3.13.2-2_amd64.deb ... 110s Unpacking libpython3.13:amd64 (3.13.2-2) over (3.13.2-1) ... 110s Preparing to unpack .../2-media-types_13.0.0_all.deb ... 110s Unpacking media-types (13.0.0) over (12.0.0) ... 110s Preparing to unpack .../3-libncurses6_6.5+20250216-2_amd64.deb ... 110s Unpacking libncurses6:amd64 (6.5+20250216-2) over (6.5+20250216-1) ... 110s Preparing to unpack .../4-libncursesw6_6.5+20250216-2_amd64.deb ... 110s Unpacking libncursesw6:amd64 (6.5+20250216-2) over (6.5+20250216-1) ... 110s Preparing to unpack .../5-libtinfo6_6.5+20250216-2_amd64.deb ... 110s Unpacking libtinfo6:amd64 (6.5+20250216-2) over (6.5+20250216-1) ... 110s Setting up libtinfo6:amd64 (6.5+20250216-2) ... 110s (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 ... 109146 files and directories currently installed.) 110s Preparing to unpack .../0-libsqlite3-0_3.46.1-2_amd64.deb ... 110s Unpacking libsqlite3-0:amd64 (3.46.1-2) over (3.46.1-1) ... 111s Preparing to unpack .../1-python3.13_3.13.2-2_amd64.deb ... 111s Unpacking python3.13 (3.13.2-2) over (3.13.2-1) ... 111s Preparing to unpack .../2-python3.13-minimal_3.13.2-2_amd64.deb ... 111s Unpacking python3.13-minimal (3.13.2-2) over (3.13.2-1) ... 111s Preparing to unpack .../3-libpython3.13-minimal_3.13.2-2_amd64.deb ... 111s Unpacking libpython3.13-minimal:amd64 (3.13.2-2) over (3.13.2-1) ... 111s Preparing to unpack .../4-libpython3.13-stdlib_3.13.2-2_amd64.deb ... 111s Unpacking libpython3.13-stdlib:amd64 (3.13.2-2) over (3.13.2-1) ... 111s Preparing to unpack .../5-libpython3-stdlib_3.13.2-2_amd64.deb ... 111s Unpacking libpython3-stdlib:amd64 (3.13.2-2) over (3.13.2-1) ... 111s Preparing to unpack .../6-rsync_3.4.1+ds1-3_amd64.deb ... 111s Unpacking rsync (3.4.1+ds1-3) over (3.4.1-0syncable1) ... 111s Selecting previously unselected package libdebuginfod-common. 111s Preparing to unpack .../7-libdebuginfod-common_0.192-4_all.deb ... 111s Unpacking libdebuginfod-common (0.192-4) ... 111s Preparing to unpack .../8-libsemanage-common_3.7-2.1build1_all.deb ... 111s Unpacking libsemanage-common (3.7-2.1build1) over (3.7-2.1) ... 111s Setting up libsemanage-common (3.7-2.1build1) ... 111s (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 ... 109155 files and directories currently installed.) 111s Preparing to unpack .../libsemanage2_3.7-2.1build1_amd64.deb ... 111s Unpacking libsemanage2:amd64 (3.7-2.1build1) over (3.7-2.1) ... 112s Setting up libsemanage2:amd64 (3.7-2.1build1) ... 112s (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 ... 109155 files and directories currently installed.) 112s Preparing to unpack .../libassuan9_3.0.2-2_amd64.deb ... 112s Unpacking libassuan9:amd64 (3.0.2-2) over (3.0.1-2) ... 112s Setting up libassuan9:amd64 (3.0.2-2) ... 112s (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 ... 109155 files and directories currently installed.) 112s Preparing to unpack .../00-gir1.2-girepository-2.0_1.83.4-1_amd64.deb ... 112s Unpacking gir1.2-girepository-2.0:amd64 (1.83.4-1) over (1.82.0-4) ... 112s Preparing to unpack .../01-gir1.2-glib-2.0_2.84.0-1_amd64.deb ... 112s Unpacking gir1.2-glib-2.0:amd64 (2.84.0-1) over (2.83.5-1) ... 112s Preparing to unpack .../02-libglib2.0-0t64_2.84.0-1_amd64.deb ... 112s Unpacking libglib2.0-0t64:amd64 (2.84.0-1) over (2.83.5-1) ... 112s Preparing to unpack .../03-libgirepository-1.0-1_1.83.4-1_amd64.deb ... 112s Unpacking libgirepository-1.0-1:amd64 (1.83.4-1) over (1.82.0-4) ... 112s Preparing to unpack .../04-libestr0_0.1.11-2_amd64.deb ... 112s Unpacking libestr0:amd64 (0.1.11-2) over (0.1.11-1build1) ... 112s Preparing to unpack .../05-libglib2.0-data_2.84.0-1_all.deb ... 112s Unpacking libglib2.0-data (2.84.0-1) over (2.83.5-1) ... 112s Preparing to unpack .../06-python3-newt_0.52.24-4ubuntu2_amd64.deb ... 112s Unpacking python3-newt:amd64 (0.52.24-4ubuntu2) over (0.52.24-4ubuntu1) ... 112s Preparing to unpack .../07-libnewt0.52_0.52.24-4ubuntu2_amd64.deb ... 112s Unpacking libnewt0.52:amd64 (0.52.24-4ubuntu2) over (0.52.24-4ubuntu1) ... 112s Preparing to unpack .../08-libxml2_2.12.7+dfsg+really2.9.14-0.2ubuntu5_amd64.deb ... 112s Unpacking libxml2:amd64 (2.12.7+dfsg+really2.9.14-0.2ubuntu5) over (2.12.7+dfsg+really2.9.14-0.2ubuntu4) ... 112s Preparing to unpack .../09-python-apt-common_2.9.9build1_all.deb ... 112s Unpacking python-apt-common (2.9.9build1) over (2.9.9) ... 112s Preparing to unpack .../10-python3-apt_2.9.9build1_amd64.deb ... 112s Unpacking python3-apt (2.9.9build1) over (2.9.9) ... 112s Preparing to unpack .../11-python3-cffi-backend_1.17.1-2build2_amd64.deb ... 112s Unpacking python3-cffi-backend:amd64 (1.17.1-2build2) over (1.17.1-2build1) ... 113s Preparing to unpack .../12-python3-dbus_1.3.2-5build5_amd64.deb ... 113s Unpacking python3-dbus (1.3.2-5build5) over (1.3.2-5build4) ... 113s Preparing to unpack .../13-python3-gi_3.50.0-4build1_amd64.deb ... 113s Unpacking python3-gi (3.50.0-4build1) over (3.50.0-4) ... 113s Preparing to unpack .../14-python3-yaml_6.0.2-1build2_amd64.deb ... 113s Unpacking python3-yaml (6.0.2-1build2) over (6.0.2-1build1) ... 113s Preparing to unpack .../15-rsyslog_8.2412.0-2ubuntu2_amd64.deb ... 113s Unpacking rsyslog (8.2412.0-2ubuntu2) over (8.2412.0-2ubuntu1) ... 113s Preparing to unpack .../16-whiptail_0.52.24-4ubuntu2_amd64.deb ... 113s Unpacking whiptail (0.52.24-4ubuntu2) over (0.52.24-4ubuntu1) ... 113s Preparing to unpack .../17-ubuntu-minimal_1.549_amd64.deb ... 113s Unpacking ubuntu-minimal (1.549) over (1.548) ... 113s Preparing to unpack .../18-apparmor_4.1.0~beta5-0ubuntu8_amd64.deb ... 114s Unpacking apparmor (4.1.0~beta5-0ubuntu8) over (4.1.0~beta5-0ubuntu5) ... 115s Preparing to unpack .../19-dosfstools_4.2-1.2_amd64.deb ... 115s Unpacking dosfstools (4.2-1.2) over (4.2-1.1build1) ... 115s Preparing to unpack .../20-libnl-genl-3-200_3.7.0-1_amd64.deb ... 115s Unpacking libnl-genl-3-200:amd64 (3.7.0-1) over (3.7.0-0.3build2) ... 115s Preparing to unpack .../21-libnl-route-3-200_3.7.0-1_amd64.deb ... 115s Unpacking libnl-route-3-200:amd64 (3.7.0-1) over (3.7.0-0.3build2) ... 115s Preparing to unpack .../22-libnl-3-200_3.7.0-1_amd64.deb ... 115s Unpacking libnl-3-200:amd64 (3.7.0-1) over (3.7.0-0.3build2) ... 115s Preparing to unpack .../23-parted_3.6-5_amd64.deb ... 115s Unpacking parted (3.6-5) over (3.6-4build1) ... 115s Preparing to unpack .../24-libparted2t64_3.6-5_amd64.deb ... 115s Adding 'diversion of /lib/x86_64-linux-gnu/libparted.so.2 to /lib/x86_64-linux-gnu/libparted.so.2.usr-is-merged by libparted2t64' 115s Adding 'diversion of /lib/x86_64-linux-gnu/libparted.so.2.0.5 to /lib/x86_64-linux-gnu/libparted.so.2.0.5.usr-is-merged by libparted2t64' 115s Unpacking libparted2t64:amd64 (3.6-5) over (3.6-4build1) ... 115s Preparing to unpack .../25-pci.ids_0.0~2025.03.09-1_all.deb ... 115s Unpacking pci.ids (0.0~2025.03.09-1) over (0.0~2025.02.12-1) ... 115s Preparing to unpack .../26-pciutils_1%3a3.13.0-2_amd64.deb ... 115s Unpacking pciutils (1:3.13.0-2) over (1:3.13.0-1) ... 115s Preparing to unpack .../27-libpci3_1%3a3.13.0-2_amd64.deb ... 115s Unpacking libpci3:amd64 (1:3.13.0-2) over (1:3.13.0-1) ... 115s Preparing to unpack .../28-strace_6.13+ds-1ubuntu1_amd64.deb ... 115s Unpacking strace (6.13+ds-1ubuntu1) over (6.11-0ubuntu1) ... 115s Preparing to unpack .../29-xz-utils_5.6.4-1_amd64.deb ... 115s Unpacking xz-utils (5.6.4-1) over (5.6.3-1) ... 115s Preparing to unpack .../30-ubuntu-standard_1.549_amd64.deb ... 115s Unpacking ubuntu-standard (1.549) over (1.548) ... 115s Preparing to unpack .../31-libgprofng0_2.44-3ubuntu1_amd64.deb ... 115s Unpacking libgprofng0:amd64 (2.44-3ubuntu1) over (2.44-2ubuntu1) ... 115s Preparing to unpack .../32-libctf0_2.44-3ubuntu1_amd64.deb ... 115s Unpacking libctf0:amd64 (2.44-3ubuntu1) over (2.44-2ubuntu1) ... 115s Preparing to unpack .../33-libctf-nobfd0_2.44-3ubuntu1_amd64.deb ... 115s Unpacking libctf-nobfd0:amd64 (2.44-3ubuntu1) over (2.44-2ubuntu1) ... 115s Preparing to unpack .../34-binutils-x86-64-linux-gnu_2.44-3ubuntu1_amd64.deb ... 115s Unpacking binutils-x86-64-linux-gnu (2.44-3ubuntu1) over (2.44-2ubuntu1) ... 115s Preparing to unpack .../35-libbinutils_2.44-3ubuntu1_amd64.deb ... 115s Unpacking libbinutils:amd64 (2.44-3ubuntu1) over (2.44-2ubuntu1) ... 115s Preparing to unpack .../36-binutils_2.44-3ubuntu1_amd64.deb ... 115s Unpacking binutils (2.44-3ubuntu1) over (2.44-2ubuntu1) ... 116s Preparing to unpack .../37-binutils-common_2.44-3ubuntu1_amd64.deb ... 116s Unpacking binutils-common:amd64 (2.44-3ubuntu1) over (2.44-2ubuntu1) ... 116s Preparing to unpack .../38-libsframe1_2.44-3ubuntu1_amd64.deb ... 116s Unpacking libsframe1:amd64 (2.44-3ubuntu1) over (2.44-2ubuntu1) ... 116s Preparing to unpack .../39-hwdata_0.393-3_all.deb ... 116s Unpacking hwdata (0.393-3) over (0.392-1) ... 116s Selecting previously unselected package pnp.ids. 116s Preparing to unpack .../40-pnp.ids_0.393-3_all.deb ... 116s Unpacking pnp.ids (0.393-3) ... 116s Preparing to unpack .../41-linux-tools-common_6.14.0-10.10_all.deb ... 116s Unpacking linux-tools-common (6.14.0-10.10) over (6.12.0-16.16) ... 116s Selecting previously unselected package bpftool. 116s Preparing to unpack .../42-bpftool_7.6.0+6.14.0-10.10_amd64.deb ... 116s Unpacking bpftool (7.6.0+6.14.0-10.10) ... 116s Preparing to unpack .../43-python3-markupsafe_2.1.5-1build4_amd64.deb ... 116s Unpacking python3-markupsafe (2.1.5-1build4) over (2.1.5-1build3) ... 116s Preparing to unpack .../44-python3-jinja2_3.1.5-2ubuntu1_all.deb ... 116s Unpacking python3-jinja2 (3.1.5-2ubuntu1) over (3.1.5-2) ... 116s Preparing to unpack .../45-cloud-init-base_25.1-0ubuntu3_all.deb ... 116s Unpacking cloud-init-base (25.1-0ubuntu3) over (25.1-0ubuntu2) ... 117s Preparing to unpack .../46-libbrotli1_1.1.0-2build4_amd64.deb ... 117s Unpacking libbrotli1:amd64 (1.1.0-2build4) over (1.1.0-2build3) ... 117s Preparing to unpack .../47-curl_8.12.1-3ubuntu1_amd64.deb ... 117s Unpacking curl (8.12.1-3ubuntu1) over (8.12.1-2ubuntu1) ... 117s Preparing to unpack .../48-libcurl4t64_8.12.1-3ubuntu1_amd64.deb ... 117s Unpacking libcurl4t64:amd64 (8.12.1-3ubuntu1) over (8.12.1-2ubuntu1) ... 117s Preparing to unpack .../49-exfatprogs_1.2.8-1_amd64.deb ... 117s Unpacking exfatprogs (1.2.8-1) over (1.2.7-3) ... 117s Preparing to unpack .../50-libcurl3t64-gnutls_8.12.1-3ubuntu1_amd64.deb ... 117s Unpacking libcurl3t64-gnutls:amd64 (8.12.1-3ubuntu1) over (8.12.1-2ubuntu1) ... 117s Preparing to unpack .../51-fwupd_2.0.6-4_amd64.deb ... 117s Unpacking fwupd (2.0.6-4) over (2.0.6-3) ... 117s Preparing to unpack .../52-libfwupd3_2.0.6-4_amd64.deb ... 117s Unpacking libfwupd3:amd64 (2.0.6-4) over (2.0.6-3) ... 117s Preparing to unpack .../53-libmm-glib0_1.23.4-0ubuntu3_amd64.deb ... 117s Unpacking libmm-glib0:amd64 (1.23.4-0ubuntu3) over (1.23.4-0ubuntu2) ... 117s Preparing to unpack .../54-htop_3.4.0-2_amd64.deb ... 117s Unpacking htop (3.4.0-2) over (3.3.0-5) ... 117s Preparing to unpack .../55-linux-firmware_20250310.git9e1370d3-0ubuntu1_amd64.deb ... 117s Unpacking linux-firmware (20250310.git9e1370d3-0ubuntu1) over (20250204.git0fd450ee-0ubuntu1) ... 121s Preparing to unpack .../56-initramfs-tools_0.146ubuntu1_all.deb ... 121s Unpacking initramfs-tools (0.146ubuntu1) over (0.145ubuntu3) ... 121s Preparing to unpack .../57-initramfs-tools-core_0.146ubuntu1_all.deb ... 121s Unpacking initramfs-tools-core (0.146ubuntu1) over (0.145ubuntu3) ... 121s Preparing to unpack .../58-initramfs-tools-bin_0.146ubuntu1_amd64.deb ... 121s Unpacking initramfs-tools-bin (0.146ubuntu1) over (0.145ubuntu3) ... 121s Selecting previously unselected package libdebuginfod1t64:amd64. 121s Preparing to unpack .../59-libdebuginfod1t64_0.192-4_amd64.deb ... 121s Unpacking libdebuginfod1t64:amd64 (0.192-4) ... 121s Preparing to unpack .../60-libftdi1-2_1.5-8build1_amd64.deb ... 121s Unpacking libftdi1-2:amd64 (1.5-8build1) over (1.5-8) ... 121s Preparing to unpack .../61-libgpgme11t64_1.24.2-1ubuntu2_amd64.deb ... 121s Unpacking libgpgme11t64:amd64 (1.24.2-1ubuntu2) over (1.24.2-1ubuntu1) ... 121s Preparing to unpack .../62-libjemalloc2_5.3.0-3_amd64.deb ... 121s Unpacking libjemalloc2:amd64 (5.3.0-3) over (5.3.0-2build1) ... 121s Selecting previously unselected package linux-modules-6.14.0-10-generic. 121s Preparing to unpack .../63-linux-modules-6.14.0-10-generic_6.14.0-10.10_amd64.deb ... 121s Unpacking linux-modules-6.14.0-10-generic (6.14.0-10.10) ... 122s Selecting previously unselected package linux-image-6.14.0-10-generic. 122s Preparing to unpack .../64-linux-image-6.14.0-10-generic_6.14.0-10.10_amd64.deb ... 122s Unpacking linux-image-6.14.0-10-generic (6.14.0-10.10) ... 122s Selecting previously unselected package linux-modules-extra-6.14.0-10-generic. 122s Preparing to unpack .../65-linux-modules-extra-6.14.0-10-generic_6.14.0-10.10_amd64.deb ... 122s Unpacking linux-modules-extra-6.14.0-10-generic (6.14.0-10.10) ... 123s Preparing to unpack .../66-linux-generic_6.14.0-10.10_amd64.deb ... 123s Unpacking linux-generic (6.14.0-10.10) over (6.12.0-16.16+2) ... 123s Preparing to unpack .../67-linux-image-generic_6.14.0-10.10_amd64.deb ... 123s Unpacking linux-image-generic (6.14.0-10.10) over (6.12.0-16.16+2) ... 123s Preparing to unpack .../68-linux-virtual_6.14.0-10.10_amd64.deb ... 123s Unpacking linux-virtual (6.14.0-10.10) over (6.12.0-16.16+2) ... 123s Preparing to unpack .../69-linux-image-virtual_6.14.0-10.10_amd64.deb ... 123s Unpacking linux-image-virtual (6.14.0-10.10) over (6.12.0-16.16+2) ... 123s Preparing to unpack .../70-linux-headers-virtual_6.14.0-10.10_amd64.deb ... 123s Unpacking linux-headers-virtual (6.14.0-10.10) over (6.12.0-16.16+2) ... 123s Selecting previously unselected package linux-headers-6.14.0-10. 123s Preparing to unpack .../71-linux-headers-6.14.0-10_6.14.0-10.10_all.deb ... 123s Unpacking linux-headers-6.14.0-10 (6.14.0-10.10) ... 127s Selecting previously unselected package linux-headers-6.14.0-10-generic. 127s Preparing to unpack .../72-linux-headers-6.14.0-10-generic_6.14.0-10.10_amd64.deb ... 127s Unpacking linux-headers-6.14.0-10-generic (6.14.0-10.10) ... 128s Preparing to unpack .../73-linux-headers-generic_6.14.0-10.10_amd64.deb ... 128s Unpacking linux-headers-generic (6.14.0-10.10) over (6.12.0-16.16+2) ... 128s Selecting previously unselected package linux-perf. 128s Preparing to unpack .../74-linux-perf_6.14.0-10.10_amd64.deb ... 128s Unpacking linux-perf (6.14.0-10.10) ... 128s Selecting previously unselected package linux-tools-6.14.0-10. 129s Preparing to unpack .../75-linux-tools-6.14.0-10_6.14.0-10.10_amd64.deb ... 129s Unpacking linux-tools-6.14.0-10 (6.14.0-10.10) ... 129s Selecting previously unselected package linux-tools-6.14.0-10-generic. 129s Preparing to unpack .../76-linux-tools-6.14.0-10-generic_6.14.0-10.10_amd64.deb ... 129s Unpacking linux-tools-6.14.0-10-generic (6.14.0-10.10) ... 129s Preparing to unpack .../77-pinentry-curses_1.3.1-2ubuntu3_amd64.deb ... 129s Unpacking pinentry-curses (1.3.1-2ubuntu3) over (1.3.1-2ubuntu2) ... 129s Preparing to unpack .../78-python3-lazr.uri_1.0.6-6_all.deb ... 129s Unpacking python3-lazr.uri (1.0.6-6) over (1.0.6-5) ... 129s Preparing to unpack .../79-python3-rpds-py_0.21.0-2ubuntu2_amd64.deb ... 129s Unpacking python3-rpds-py (0.21.0-2ubuntu2) over (0.21.0-2ubuntu1) ... 129s Preparing to unpack .../80-python3-systemd_235-1build6_amd64.deb ... 129s Unpacking python3-systemd (235-1build6) over (235-1build5) ... 129s Preparing to unpack .../81-python3.13-gdbm_3.13.2-2_amd64.deb ... 129s Unpacking python3.13-gdbm (3.13.2-2) over (3.13.2-1) ... 129s Preparing to unpack .../82-ubuntu-kernel-accessories_1.549_amd64.deb ... 129s Unpacking ubuntu-kernel-accessories (1.549) over (1.548) ... 129s Preparing to unpack .../83-cloud-init_25.1-0ubuntu3_all.deb ... 129s Unpacking cloud-init (25.1-0ubuntu3) over (25.1-0ubuntu2) ... 129s Preparing to unpack .../84-python3-bcrypt_4.2.0-2.1build1_amd64.deb ... 129s Unpacking python3-bcrypt (4.2.0-2.1build1) over (4.2.0-2.1) ... 129s Setting up linux-headers-6.14.0-10 (6.14.0-10.10) ... 129s Setting up media-types (13.0.0) ... 129s Installing new version of config file /etc/mime.types ... 129s Setting up linux-headers-6.14.0-10-generic (6.14.0-10.10) ... 129s Setting up ubuntu-kernel-accessories (1.549) ... 129s Setting up libapparmor1:amd64 (4.1.0~beta5-0ubuntu8) ... 129s Setting up pci.ids (0.0~2025.03.09-1) ... 129s Setting up libnewt0.52:amd64 (0.52.24-4ubuntu2) ... 129s Setting up apt-utils (2.9.33) ... 129s Setting up libdebuginfod-common (0.192-4) ... 130s Setting up exfatprogs (1.2.8-1) ... 130s Setting up linux-firmware (20250310.git9e1370d3-0ubuntu1) ... 130s Setting up bpftool (7.6.0+6.14.0-10.10) ... 130s Setting up libestr0:amd64 (0.1.11-2) ... 130s Setting up libbrotli1:amd64 (1.1.0-2build4) ... 130s Setting up libsqlite3-0:amd64 (3.46.1-2) ... 130s Setting up dosfstools (4.2-1.2) ... 130s Setting up rsyslog (8.2412.0-2ubuntu2) ... 130s info: The user `syslog' is already a member of `adm'. 131s Setting up binutils-common:amd64 (2.44-3ubuntu1) ... 131s Setting up libcurl3t64-gnutls:amd64 (8.12.1-3ubuntu1) ... 131s Setting up linux-libc-dev:amd64 (6.14.0-10.10) ... 131s Setting up libctf-nobfd0:amd64 (2.44-3ubuntu1) ... 131s Setting up systemd (257.3-1ubuntu3) ... 131s /usr/lib/tmpfiles.d/legacy.conf:14: Duplicate line for path "/run/lock", ignoring. 131s Created symlink '/run/systemd/system/tmp.mount' → '/dev/null'. 131s /usr/lib/tmpfiles.d/legacy.conf:14: Duplicate line for path "/run/lock", ignoring. 132s Setting up libparted2t64:amd64 (3.6-5) ... 132s Removing 'diversion of /lib/x86_64-linux-gnu/libparted.so.2 to /lib/x86_64-linux-gnu/libparted.so.2.usr-is-merged by libparted2t64' 132s Removing 'diversion of /lib/x86_64-linux-gnu/libparted.so.2.0.5 to /lib/x86_64-linux-gnu/libparted.so.2.0.5.usr-is-merged by libparted2t64' 132s Setting up linux-headers-generic (6.14.0-10.10) ... 132s Setting up libjemalloc2:amd64 (5.3.0-3) ... 132s Setting up locales (2.41-1ubuntu1) ... 132s Installing new version of config file /etc/locale.alias ... 133s Generating locales (this might take a while)... 135s en_US.UTF-8... done 135s Generation complete. 135s Setting up libsframe1:amd64 (2.44-3ubuntu1) ... 135s Setting up libpython3.13-minimal:amd64 (3.13.2-2) ... 135s Setting up apparmor (4.1.0~beta5-0ubuntu8) ... 135s Installing new version of config file /etc/apparmor.d/fusermount3 ... 135s Installing new version of config file /etc/apparmor.d/lsusb ... 135s Installing new version of config file /etc/apparmor.d/openvpn ... 136s Reloading AppArmor profiles 138s Setting up libftdi1-2:amd64 (1.5-8build1) ... 138s Setting up libglib2.0-data (2.84.0-1) ... 138s Setting up systemd-cryptsetup (257.3-1ubuntu3) ... 138s Setting up libncurses6:amd64 (6.5+20250216-2) ... 138s Setting up strace (6.13+ds-1ubuntu1) ... 138s Setting up xz-utils (5.6.4-1) ... 138s Setting up systemd-timesyncd (257.3-1ubuntu3) ... 138s systemd-time-wait-sync.service is a disabled or a static unit not running, not starting it. 139s Setting up libatomic1:amd64 (15-20250222-0ubuntu1) ... 139s Setting up udev (257.3-1ubuntu3) ... 140s Setting up linux-modules-6.14.0-10-generic (6.14.0-10.10) ... 142s Setting up libncursesw6:amd64 (6.5+20250216-2) ... 142s Setting up libpci3:amd64 (1:3.13.0-2) ... 142s Setting up whiptail (0.52.24-4ubuntu2) ... 142s Setting up python-apt-common (2.9.9build1) ... 142s Setting up pnp.ids (0.393-3) ... 142s Setting up libnl-3-200:amd64 (3.7.0-1) ... 142s Setting up python3.13-minimal (3.13.2-2) ... 143s Setting up libgpgme11t64:amd64 (1.24.2-1ubuntu2) ... 143s Setting up libbinutils:amd64 (2.44-3ubuntu1) ... 143s Setting up libc-dev-bin (2.41-1ubuntu1) ... 143s Setting up libpython3.13-stdlib:amd64 (3.13.2-2) ... 143s Setting up libxml2:amd64 (2.12.7+dfsg+really2.9.14-0.2ubuntu5) ... 143s Setting up rsync (3.4.1+ds1-3) ... 144s rsync.service is a disabled or a static unit not running, not starting it. 144s Setting up python3.13-gdbm (3.13.2-2) ... 144s Setting up libpython3-stdlib:amd64 (3.13.2-2) ... 144s Setting up systemd-resolved (257.3-1ubuntu3) ... 144s Setting up initramfs-tools-bin (0.146ubuntu1) ... 144s Setting up ncurses-term (6.5+20250216-2) ... 144s Setting up libctf0:amd64 (2.44-3ubuntu1) ... 144s Setting up libpython3.13:amd64 (3.13.2-2) ... 144s Setting up pinentry-curses (1.3.1-2ubuntu3) ... 144s Setting up libdebuginfod1t64:amd64 (0.192-4) ... 144s Setting up systemd-sysv (257.3-1ubuntu3) ... 144s Setting up linux-headers-virtual (6.14.0-10.10) ... 144s Setting up libcurl4t64:amd64 (8.12.1-3ubuntu1) ... 144s Setting up python3.13 (3.13.2-2) ... 145s Setting up htop (3.4.0-2) ... 145s Setting up linux-image-6.14.0-10-generic (6.14.0-10.10) ... 148s I: /boot/vmlinuz.old is now a symlink to vmlinuz-6.12.0-16-generic 148s I: /boot/initrd.img.old is now a symlink to initrd.img-6.12.0-16-generic 148s I: /boot/vmlinuz is now a symlink to vmlinuz-6.14.0-10-generic 148s I: /boot/initrd.img is now a symlink to initrd.img-6.14.0-10-generic 148s Setting up parted (3.6-5) ... 148s Setting up libnss-systemd:amd64 (257.3-1ubuntu3) ... 148s Setting up python3 (3.13.2-2) ... 148s Setting up python3-newt:amd64 (0.52.24-4ubuntu2) ... 148s Setting up python3-markupsafe (2.1.5-1build4) ... 148s Setting up linux-modules-extra-6.14.0-10-generic (6.14.0-10.10) ... 151s Setting up libnl-route-3-200:amd64 (3.7.0-1) ... 151s Setting up hwdata (0.393-3) ... 151s Setting up python3-jinja2 (3.1.5-2ubuntu1) ... 151s Setting up libglib2.0-0t64:amd64 (2.84.0-1) ... 151s No schema files found: doing nothing. 151s Setting up libgprofng0:amd64 (2.44-3ubuntu1) ... 151s Setting up linux-perf (6.14.0-10.10) ... 151s Setting up gir1.2-glib-2.0:amd64 (2.84.0-1) ... 151s Setting up pciutils (1:3.13.0-2) ... 151s Setting up python3-rpds-py (0.21.0-2ubuntu2) ... 151s Setting up libmm-glib0:amd64 (1.23.4-0ubuntu3) ... 151s Setting up libnl-genl-3-200:amd64 (3.7.0-1) ... 151s Setting up libpam-systemd:amd64 (257.3-1ubuntu3) ... 151s Setting up libc6-dev:amd64 (2.41-1ubuntu1) ... 151s Setting up libgirepository-1.0-1:amd64 (1.83.4-1) ... 151s Setting up curl (8.12.1-3ubuntu1) ... 151s Setting up linux-image-virtual (6.14.0-10.10) ... 151s Setting up initramfs-tools-core (0.146ubuntu1) ... 151s Setting up linux-tools-common (6.14.0-10.10) ... 151s Setting up python3-systemd (235-1build6) ... 151s Setting up python3-cffi-backend:amd64 (1.17.1-2build2) ... 151s Setting up binutils-x86-64-linux-gnu (2.44-3ubuntu1) ... 151s Setting up linux-image-generic (6.14.0-10.10) ... 151s Setting up python3-dbus (1.3.2-5build5) ... 152s Setting up linux-tools-6.14.0-10 (6.14.0-10.10) ... 152s Setting up initramfs-tools (0.146ubuntu1) ... 152s Installing new version of config file /etc/kernel/postinst.d/initramfs-tools ... 152s Installing new version of config file /etc/kernel/postrm.d/initramfs-tools ... 152s update-initramfs: deferring update (trigger activated) 152s Setting up linux-generic (6.14.0-10.10) ... 152s Setting up ubuntu-minimal (1.549) ... 152s Setting up python3-apt (2.9.9build1) ... 152s Setting up python3-bcrypt (4.2.0-2.1build1) ... 152s Setting up python3-yaml (6.0.2-1build2) ... 152s Setting up libfwupd3:amd64 (2.0.6-4) ... 152s Setting up python3-lazr.uri (1.0.6-6) ... 152s Setting up binutils (2.44-3ubuntu1) ... 152s Setting up ubuntu-standard (1.549) ... 152s Setting up cloud-init-base (25.1-0ubuntu3) ... 154s Setting up linux-virtual (6.14.0-10.10) ... 154s Setting up gir1.2-girepository-2.0:amd64 (1.83.4-1) ... 154s Setting up python3-gi (3.50.0-4build1) ... 154s Setting up linux-tools-6.14.0-10-generic (6.14.0-10.10) ... 154s Setting up fwupd (2.0.6-4) ... 155s fwupd-refresh.service is a disabled or a static unit not running, not starting it. 155s Setting up cloud-init (25.1-0ubuntu3) ... 155s Processing triggers for man-db (2.13.0-1) ... 157s Processing triggers for dbus (1.16.2-1ubuntu1) ... 157s Processing triggers for shared-mime-info (2.4-5) ... 157s Warning: program compiled against libxml 212 using older 209 158s Processing triggers for libc-bin (2.41-1ubuntu1) ... 158s Processing triggers for linux-image-6.14.0-10-generic (6.14.0-10.10) ... 158s /etc/kernel/postinst.d/initramfs-tools: 158s update-initramfs: Generating /boot/initrd.img-6.14.0-10-generic 158s W: No lz4 in /usr/bin:/sbin:/bin, using gzip 170s /etc/kernel/postinst.d/zz-update-grub: 170s Sourcing file `/etc/default/grub' 170s Sourcing file `/etc/default/grub.d/50-cloudimg-settings.cfg' 170s Sourcing file `/etc/default/grub.d/90-autopkgtest.cfg' 170s Generating grub configuration file ... 170s Found linux image: /boot/vmlinuz-6.14.0-10-generic 170s Found initrd image: /boot/initrd.img-6.14.0-10-generic 170s Found linux image: /boot/vmlinuz-6.12.0-16-generic 170s Found initrd image: /boot/initrd.img-6.12.0-16-generic 171s Found linux image: /boot/vmlinuz-6.11.0-8-generic 171s Found initrd image: /boot/initrd.img-6.11.0-8-generic 171s Warning: os-prober will not be executed to detect other bootable partitions. 171s Systems on them will not be added to the GRUB boot configuration. 171s Check GRUB_DISABLE_OS_PROBER documentation entry. 171s Adding boot menu entry for UEFI Firmware Settings ... 171s done 171s Processing triggers for initramfs-tools (0.146ubuntu1) ... 171s update-initramfs: Generating /boot/initrd.img-6.14.0-10-generic 171s W: No lz4 in /usr/bin:/sbin:/bin, using gzip 184s + rm /etc/apt/preferences.d/force-downgrade-to-release.pref 184s + /usr/lib/apt/apt-helper analyze-pattern ?true 184s + uname -r 184s + sed s/\./\\./g 184s + running_kernel_pattern=^linux-.*6\.12\.0-16-generic.* 184s + apt list ?obsolete 184s + tail -n+2 184s + cut -d/ -f1 184s + grep -v ^linux-.*6\.12\.0-16-generic.* 185s + obsolete_pkgs=linux-headers-6.11.0-8-generic 185s linux-headers-6.11.0-8 185s linux-headers-6.12.0-16 185s linux-image-6.11.0-8-generic 185s linux-modules-6.11.0-8-generic 185s linux-tools-6.11.0-8-generic 185s linux-tools-6.11.0-8 185s linux-tools-6.12.0-16 185s + DEBIAN_FRONTEND=noninteractive eatmydata apt-get -y purge --autoremove linux-headers-6.11.0-8-generic linux-headers-6.11.0-8 linux-headers-6.12.0-16 linux-image-6.11.0-8-generic linux-modules-6.11.0-8-generic linux-tools-6.11.0-8-generic linux-tools-6.11.0-8 linux-tools-6.12.0-16 186s Reading package lists... 186s Building dependency tree... 186s Reading state information... 186s Solving dependencies... 186s The following packages will be REMOVED: 186s libnl-genl-3-200* libnsl2* libpython3.12-minimal* libpython3.12-stdlib* 186s libpython3.12t64* linux-headers-6.11.0-8* linux-headers-6.11.0-8-generic* 186s linux-headers-6.12.0-16* linux-headers-6.12.0-16-generic* 186s linux-image-6.11.0-8-generic* linux-modules-6.11.0-8-generic* 186s linux-tools-6.11.0-8* linux-tools-6.11.0-8-generic* linux-tools-6.12.0-16* 186s linux-tools-6.12.0-16-generic* 187s 0 upgraded, 0 newly installed, 15 to remove and 5 not upgraded. 187s After this operation, 371 MB disk space will be freed. 187s (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.) 187s Removing libnl-genl-3-200:amd64 (3.7.0-1) ... 187s Removing linux-tools-6.11.0-8-generic (6.11.0-8.8) ... 187s Removing linux-tools-6.11.0-8 (6.11.0-8.8) ... 187s Removing libpython3.12t64:amd64 (3.12.9-1) ... 187s Removing libpython3.12-stdlib:amd64 (3.12.9-1) ... 187s Removing libnsl2:amd64 (1.3.0-3build3) ... 187s Removing libpython3.12-minimal:amd64 (3.12.9-1) ... 187s Removing linux-headers-6.11.0-8-generic (6.11.0-8.8) ... 188s Removing linux-headers-6.11.0-8 (6.11.0-8.8) ... 192s Removing linux-headers-6.12.0-16-generic (6.12.0-16.16) ... 192s Removing linux-headers-6.12.0-16 (6.12.0-16.16) ... 194s Removing linux-image-6.11.0-8-generic (6.11.0-8.8) ... 195s /etc/kernel/postrm.d/initramfs-tools: 195s update-initramfs: Deleting /boot/initrd.img-6.11.0-8-generic 195s /etc/kernel/postrm.d/zz-update-grub: 195s Sourcing file `/etc/default/grub' 195s Sourcing file `/etc/default/grub.d/50-cloudimg-settings.cfg' 195s Sourcing file `/etc/default/grub.d/90-autopkgtest.cfg' 195s Generating grub configuration file ... 195s Found linux image: /boot/vmlinuz-6.14.0-10-generic 195s Found initrd image: /boot/initrd.img-6.14.0-10-generic 195s Found linux image: /boot/vmlinuz-6.12.0-16-generic 195s Found initrd image: /boot/initrd.img-6.12.0-16-generic 196s Warning: os-prober will not be executed to detect other bootable partitions. 196s Systems on them will not be added to the GRUB boot configuration. 196s Check GRUB_DISABLE_OS_PROBER documentation entry. 196s Adding boot menu entry for UEFI Firmware Settings ... 196s done 196s Removing linux-modules-6.11.0-8-generic (6.11.0-8.8) ... 196s Removing linux-tools-6.12.0-16-generic (6.12.0-16.16) ... 196s Removing linux-tools-6.12.0-16 (6.12.0-16.16) ... 196s Processing triggers for libc-bin (2.41-1ubuntu1) ... 196s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 84830 files and directories currently installed.) 196s Purging configuration files for linux-image-6.11.0-8-generic (6.11.0-8.8) ... 196s Purging configuration files for libpython3.12-minimal:amd64 (3.12.9-1) ... 196s Purging configuration files for linux-modules-6.11.0-8-generic (6.11.0-8.8) ... 196s + grep -q trusty /etc/lsb-release 196s + [ ! -d /usr/share/doc/unattended-upgrades ] 196s + [ ! -d /usr/share/doc/lxd ] 196s + [ ! -d /usr/share/doc/lxd-client ] 196s + [ ! -d /usr/share/doc/snapd ] 196s + type iptables 196s + cat 196s + chmod 755 /etc/rc.local 196s + . /etc/rc.local 196s + iptables -w -t mangle -A FORWARD -p tcp --tcp-flags SYN,RST SYN -j TCPMSS --clamp-mss-to-pmtu 196s + iptables -A OUTPUT -d 10.255.255.1/32 -p tcp -j DROP 196s + iptables -A OUTPUT -d 10.255.255.2/32 -p tcp -j DROP 196s + uname -m 196s + [ x86_64 = ppc64le ] 196s + [ -d /run/systemd/system ] 196s + systemd-detect-virt --quiet --vm 196s + mkdir -p /etc/systemd/system/systemd-random-seed.service.d/ 196s + cat 196s + grep -q lz4 /etc/initramfs-tools/initramfs.conf 196s + echo COMPRESS=lz4 196s autopkgtest [21:54:16]: upgrading testbed (apt dist-upgrade and autopurge) 197s Reading package lists... 197s Building dependency tree... 197s Reading state information... 197s Calculating upgrade...Starting pkgProblemResolver with broken count: 0 197s Starting 2 pkgProblemResolver with broken count: 0 197s Done 198s Entering ResolveByKeep 199s 199s Calculating upgrade... 199s The following packages will be upgraded: 199s libc-bin libc-dev-bin libc6 libc6-dev locales 199s 5 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 199s Need to get 10.5 MB of archives. 199s After this operation, 1024 B of additional disk space will be used. 199s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 libc6-dev amd64 2.41-1ubuntu2 [2183 kB] 200s Get:2 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 libc-dev-bin amd64 2.41-1ubuntu2 [24.7 kB] 200s Get:3 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 libc6 amd64 2.41-1ubuntu2 [3327 kB] 200s Get:4 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 libc-bin amd64 2.41-1ubuntu2 [700 kB] 200s Get:5 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 locales all 2.41-1ubuntu2 [4246 kB] 200s Preconfiguring packages ... 201s Fetched 10.5 MB in 1s (8981 kB/s) 201s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 84827 files and directories currently installed.) 201s Preparing to unpack .../libc6-dev_2.41-1ubuntu2_amd64.deb ... 201s Unpacking libc6-dev:amd64 (2.41-1ubuntu2) over (2.41-1ubuntu1) ... 201s Preparing to unpack .../libc-dev-bin_2.41-1ubuntu2_amd64.deb ... 201s Unpacking libc-dev-bin (2.41-1ubuntu2) over (2.41-1ubuntu1) ... 201s Preparing to unpack .../libc6_2.41-1ubuntu2_amd64.deb ... 201s Unpacking libc6:amd64 (2.41-1ubuntu2) over (2.41-1ubuntu1) ... 201s Setting up libc6:amd64 (2.41-1ubuntu2) ... 202s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 84827 files and directories currently installed.) 202s Preparing to unpack .../libc-bin_2.41-1ubuntu2_amd64.deb ... 202s Unpacking libc-bin (2.41-1ubuntu2) over (2.41-1ubuntu1) ... 202s Setting up libc-bin (2.41-1ubuntu2) ... 202s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 84827 files and directories currently installed.) 202s Preparing to unpack .../locales_2.41-1ubuntu2_all.deb ... 202s Unpacking locales (2.41-1ubuntu2) over (2.41-1ubuntu1) ... 202s Setting up locales (2.41-1ubuntu2) ... 203s Generating locales (this might take a while)... 205s en_US.UTF-8... done 205s Generation complete. 205s Setting up libc-dev-bin (2.41-1ubuntu2) ... 205s Setting up libc6-dev:amd64 (2.41-1ubuntu2) ... 205s Processing triggers for man-db (2.13.0-1) ... 205s Processing triggers for systemd (257.3-1ubuntu3) ... 207s Reading package lists... 207s Building dependency tree... 207s Reading state information... 207s Starting pkgProblemResolver with broken count: 0 207s Starting 2 pkgProblemResolver with broken count: 0 207s Done 208s Solving dependencies... 208s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 208s autopkgtest [21:54:28]: rebooting testbed after setup commands that affected boot 231s autopkgtest-virt-ssh: WARNING: ssh connection failed. Retrying in 3 seconds... 238s autopkgtest [21:54:58]: testbed running kernel: Linux 6.14.0-10-generic #10-Ubuntu SMP PREEMPT_DYNAMIC Wed Mar 12 16:07:00 UTC 2025 241s autopkgtest [21:55:01]: @@@@@@@@@@@@@@@@@@@@ apt-source python-pysam 244s Get:1 http://ftpmaster.internal/ubuntu plucky/universe python-pysam 0.23.0+ds-1build1 (dsc) [2436 B] 244s Get:2 http://ftpmaster.internal/ubuntu plucky/universe python-pysam 0.23.0+ds-1build1 (tar) [1519 kB] 244s Get:3 http://ftpmaster.internal/ubuntu plucky/universe python-pysam 0.23.0+ds-1build1 (diff) [10.7 kB] 245s gpgv: Signature made Tue Mar 4 19:20:47 2025 UTC 245s gpgv: using RSA key 25E3FF2D7F469DBE7D0D4E50AFCFEC8E669CE1C2 245s gpgv: Can't check signature: No public key 245s dpkg-source: warning: cannot verify inline signature for ./python-pysam_0.23.0+ds-1build1.dsc: no acceptable signature found 245s autopkgtest [21:55:05]: testing package python-pysam version 0.23.0+ds-1build1 245s autopkgtest [21:55:05]: build not needed 247s autopkgtest [21:55:07]: test command1: preparing testbed 247s Reading package lists... 247s Building dependency tree... 247s Reading state information... 248s Starting pkgProblemResolver with broken count: 0 248s Starting 2 pkgProblemResolver with broken count: 0 248s Done 248s The following NEW packages will be installed: 248s autoconf automake autopoint autotools-dev bcftools build-essential 248s comerr-dev cpp cpp-14 cpp-14-x86-64-linux-gnu cpp-x86-64-linux-gnu cython3 248s debhelper debugedit dh-autoreconf dh-python dh-strip-nondeterminism dwz g++ 248s g++-14 g++-14-x86-64-linux-gnu g++-x86-64-linux-gnu gcc gcc-14 248s gcc-14-x86-64-linux-gnu gcc-x86-64-linux-gnu gettext intltool-debian 248s krb5-multidev libarchive-zip-perl libasan8 libbrotli-dev libbz2-dev libcc1-0 248s libcurl4-gnutls-dev libdebhelper-perl libdeflate-dev libdeflate0 248s libevent-2.1-7t64 libexpat1-dev libfile-stripnondeterminism-perl 248s libgcc-14-dev libgmp-dev libgmpxx4ldbl libgnutls-dane0t64 248s libgnutls-openssl27t64 libgnutls28-dev libgomp1 libgssrpc4t64 libhts-dev 248s libhts3t64 libhtscodecs2 libhwasan0 libidn2-dev libisl23 libitm1 248s libjs-jquery libjs-sphinxdoc libjs-underscore libkadm5clnt-mit12 248s libkadm5srv-mit12 libkdb5-10t64 libkrb5-dev libldap-dev liblsan0 liblzma-dev 248s libmpc3 libnghttp2-dev libp11-kit-dev libpkgconf3 libpsl-dev 248s libpython3-all-dev libpython3-dev libpython3.13-dev libquadmath0 librtmp-dev 248s libssh2-1-dev libssl-dev libstdc++-14-dev libtasn1-6-dev libtool libtsan2 248s libubsan1 libunbound8 libzstd-dev m4 nettle-dev pkgconf pkgconf-bin 248s po-debconf python3-all python3-all-dev python3-dev python3-iniconfig 248s python3-packaging python3-pluggy python3-pysam python3-pytest python3.13-dev 248s samtools tabix zlib1g-dev 248s 0 upgraded, 102 newly installed, 0 to remove and 0 not upgraded. 248s Need to get 104 MB of archives. 248s After this operation, 381 MB of additional disk space will be used. 248s Get:1 http://ftpmaster.internal/ubuntu plucky/main amd64 m4 amd64 1.4.19-7 [263 kB] 249s Get:2 http://ftpmaster.internal/ubuntu plucky/main amd64 autoconf all 2.72-3ubuntu1 [383 kB] 249s Get:3 http://ftpmaster.internal/ubuntu plucky/main amd64 autotools-dev all 20220109.1 [44.9 kB] 249s Get:4 http://ftpmaster.internal/ubuntu plucky/main amd64 automake all 1:1.17-3ubuntu1 [572 kB] 249s Get:5 http://ftpmaster.internal/ubuntu plucky/main amd64 autopoint all 0.23.1-1 [619 kB] 249s Get:6 http://ftpmaster.internal/ubuntu plucky/main amd64 libdeflate0 amd64 1.23-1 [64.1 kB] 249s Get:7 http://ftpmaster.internal/ubuntu plucky/universe amd64 libhtscodecs2 amd64 1.6.1-2 [132 kB] 249s Get:8 http://ftpmaster.internal/ubuntu plucky/universe amd64 libhts3t64 amd64 1.21+ds-1 [514 kB] 249s Get:9 http://ftpmaster.internal/ubuntu plucky/universe amd64 bcftools amd64 1.21-1 [962 kB] 249s Get:10 http://ftpmaster.internal/ubuntu plucky/main amd64 libisl23 amd64 0.27-1 [685 kB] 249s Get:11 http://ftpmaster.internal/ubuntu plucky/main amd64 libmpc3 amd64 1.3.1-1build2 [55.3 kB] 249s Get:12 http://ftpmaster.internal/ubuntu plucky/main amd64 cpp-14-x86-64-linux-gnu amd64 14.2.0-17ubuntu3 [11.9 MB] 250s Get:13 http://ftpmaster.internal/ubuntu plucky/main amd64 cpp-14 amd64 14.2.0-17ubuntu3 [1030 B] 250s Get:14 http://ftpmaster.internal/ubuntu plucky/main amd64 cpp-x86-64-linux-gnu amd64 4:14.2.0-1ubuntu1 [5586 B] 250s Get:15 http://ftpmaster.internal/ubuntu plucky/main amd64 cpp amd64 4:14.2.0-1ubuntu1 [22.4 kB] 250s Get:16 http://ftpmaster.internal/ubuntu plucky/main amd64 libcc1-0 amd64 15-20250222-0ubuntu1 [47.0 kB] 250s Get:17 http://ftpmaster.internal/ubuntu plucky/main amd64 libgomp1 amd64 15-20250222-0ubuntu1 [148 kB] 250s Get:18 http://ftpmaster.internal/ubuntu plucky/main amd64 libitm1 amd64 15-20250222-0ubuntu1 [28.6 kB] 250s Get:19 http://ftpmaster.internal/ubuntu plucky/main amd64 libasan8 amd64 15-20250222-0ubuntu1 [3055 kB] 250s Get:20 http://ftpmaster.internal/ubuntu plucky/main amd64 liblsan0 amd64 15-20250222-0ubuntu1 [1355 kB] 250s Get:21 http://ftpmaster.internal/ubuntu plucky/main amd64 libtsan2 amd64 15-20250222-0ubuntu1 [2756 kB] 250s Get:22 http://ftpmaster.internal/ubuntu plucky/main amd64 libubsan1 amd64 15-20250222-0ubuntu1 [1205 kB] 250s Get:23 http://ftpmaster.internal/ubuntu plucky/main amd64 libhwasan0 amd64 15-20250222-0ubuntu1 [1677 kB] 250s Get:24 http://ftpmaster.internal/ubuntu plucky/main amd64 libquadmath0 amd64 15-20250222-0ubuntu1 [152 kB] 250s Get:25 http://ftpmaster.internal/ubuntu plucky/main amd64 libgcc-14-dev amd64 14.2.0-17ubuntu3 [2816 kB] 250s Get:26 http://ftpmaster.internal/ubuntu plucky/main amd64 gcc-14-x86-64-linux-gnu amd64 14.2.0-17ubuntu3 [23.3 MB] 251s Get:27 http://ftpmaster.internal/ubuntu plucky/main amd64 gcc-14 amd64 14.2.0-17ubuntu3 [536 kB] 251s Get:28 http://ftpmaster.internal/ubuntu plucky/main amd64 gcc-x86-64-linux-gnu amd64 4:14.2.0-1ubuntu1 [1208 B] 251s Get:29 http://ftpmaster.internal/ubuntu plucky/main amd64 gcc amd64 4:14.2.0-1ubuntu1 [5004 B] 251s Get:30 http://ftpmaster.internal/ubuntu plucky/main amd64 libstdc++-14-dev amd64 14.2.0-17ubuntu3 [2486 kB] 251s Get:31 http://ftpmaster.internal/ubuntu plucky/main amd64 g++-14-x86-64-linux-gnu amd64 14.2.0-17ubuntu3 [13.4 MB] 251s Get:32 http://ftpmaster.internal/ubuntu plucky/main amd64 g++-14 amd64 14.2.0-17ubuntu3 [21.8 kB] 251s Get:33 http://ftpmaster.internal/ubuntu plucky/main amd64 g++-x86-64-linux-gnu amd64 4:14.2.0-1ubuntu1 [968 B] 251s Get:34 http://ftpmaster.internal/ubuntu plucky/main amd64 g++ amd64 4:14.2.0-1ubuntu1 [1100 B] 251s Get:35 http://ftpmaster.internal/ubuntu plucky/main amd64 build-essential amd64 12.10ubuntu1 [4928 B] 251s Get:36 http://ftpmaster.internal/ubuntu plucky/universe amd64 cython3 amd64 3.0.11+dfsg-2ubuntu2 [2676 kB] 251s Get:37 http://ftpmaster.internal/ubuntu plucky/main amd64 libdebhelper-perl all 13.24.1ubuntu2 [95.4 kB] 251s Get:38 http://ftpmaster.internal/ubuntu plucky/main amd64 libtool all 2.5.4-4 [168 kB] 251s Get:39 http://ftpmaster.internal/ubuntu plucky/main amd64 dh-autoreconf all 20 [16.1 kB] 251s Get:40 http://ftpmaster.internal/ubuntu plucky/main amd64 libarchive-zip-perl all 1.68-1 [90.2 kB] 251s Get:41 http://ftpmaster.internal/ubuntu plucky/main amd64 libfile-stripnondeterminism-perl all 1.14.1-2 [20.3 kB] 251s Get:42 http://ftpmaster.internal/ubuntu plucky/main amd64 dh-strip-nondeterminism all 1.14.1-2 [5064 B] 251s Get:43 http://ftpmaster.internal/ubuntu plucky/main amd64 debugedit amd64 1:5.1-2 [47.0 kB] 251s Get:44 http://ftpmaster.internal/ubuntu plucky/main amd64 dwz amd64 0.15-1build6 [115 kB] 251s Get:45 http://ftpmaster.internal/ubuntu plucky/main amd64 gettext amd64 0.23.1-1 [1086 kB] 251s Get:46 http://ftpmaster.internal/ubuntu plucky/main amd64 intltool-debian all 0.35.0+20060710.6 [23.2 kB] 251s Get:47 http://ftpmaster.internal/ubuntu plucky/main amd64 po-debconf all 1.0.21+nmu1 [233 kB] 251s Get:48 http://ftpmaster.internal/ubuntu plucky/main amd64 debhelper all 13.24.1ubuntu2 [895 kB] 251s Get:49 http://ftpmaster.internal/ubuntu plucky/universe amd64 dh-python all 6.20250308 [118 kB] 251s Get:50 http://ftpmaster.internal/ubuntu plucky/main amd64 comerr-dev amd64 2.1-1.47.2-1ubuntu1 [44.9 kB] 251s Get:51 http://ftpmaster.internal/ubuntu plucky/main amd64 libgssrpc4t64 amd64 1.21.3-4ubuntu2 [58.1 kB] 251s Get:52 http://ftpmaster.internal/ubuntu plucky/main amd64 libkadm5clnt-mit12 amd64 1.21.3-4ubuntu2 [41.3 kB] 251s Get:53 http://ftpmaster.internal/ubuntu plucky/main amd64 libkdb5-10t64 amd64 1.21.3-4ubuntu2 [42.0 kB] 251s Get:54 http://ftpmaster.internal/ubuntu plucky/main amd64 libkadm5srv-mit12 amd64 1.21.3-4ubuntu2 [55.5 kB] 251s Get:55 http://ftpmaster.internal/ubuntu plucky/main amd64 krb5-multidev amd64 1.21.3-4ubuntu2 [125 kB] 251s Get:56 http://ftpmaster.internal/ubuntu plucky/main amd64 libbrotli-dev amd64 1.1.0-2build4 [381 kB] 251s Get:57 http://ftpmaster.internal/ubuntu plucky/main amd64 libbz2-dev amd64 1.0.8-6 [33.8 kB] 251s Get:58 http://ftpmaster.internal/ubuntu plucky/main amd64 libevent-2.1-7t64 amd64 2.1.12-stable-10 [144 kB] 251s Get:59 http://ftpmaster.internal/ubuntu plucky/main amd64 libunbound8 amd64 1.22.0-1ubuntu1 [519 kB] 251s Get:60 http://ftpmaster.internal/ubuntu plucky/main amd64 libgnutls-dane0t64 amd64 3.8.9-2ubuntu2 [24.4 kB] 251s Get:61 http://ftpmaster.internal/ubuntu plucky/main amd64 libgnutls-openssl27t64 amd64 3.8.9-2ubuntu2 [24.6 kB] 251s Get:62 http://ftpmaster.internal/ubuntu plucky/main amd64 libidn2-dev amd64 2.3.7-2build2 [120 kB] 251s Get:63 http://ftpmaster.internal/ubuntu plucky/main amd64 libp11-kit-dev amd64 0.25.5-2ubuntu3 [23.5 kB] 251s Get:64 http://ftpmaster.internal/ubuntu plucky/main amd64 libtasn1-6-dev amd64 4.20.0-2 [98.1 kB] 251s Get:65 http://ftpmaster.internal/ubuntu plucky/main amd64 libgmpxx4ldbl amd64 2:6.3.0+dfsg-3ubuntu1 [10.0 kB] 251s Get:66 http://ftpmaster.internal/ubuntu plucky/main amd64 libgmp-dev amd64 2:6.3.0+dfsg-3ubuntu1 [341 kB] 251s Get:67 http://ftpmaster.internal/ubuntu plucky/main amd64 nettle-dev amd64 3.10.1-1 [1187 kB] 252s Get:68 http://ftpmaster.internal/ubuntu plucky/main amd64 libgnutls28-dev amd64 3.8.9-2ubuntu2 [1118 kB] 252s Get:69 http://ftpmaster.internal/ubuntu plucky/main amd64 libkrb5-dev amd64 1.21.3-4ubuntu2 [11.9 kB] 252s Get:70 http://ftpmaster.internal/ubuntu plucky/main amd64 libldap-dev amd64 2.6.9+dfsg-1~exp2ubuntu1 [335 kB] 252s Get:71 http://ftpmaster.internal/ubuntu plucky/main amd64 libpkgconf3 amd64 1.8.1-4 [32.3 kB] 252s Get:72 http://ftpmaster.internal/ubuntu plucky/main amd64 pkgconf-bin amd64 1.8.1-4 [21.6 kB] 252s Get:73 http://ftpmaster.internal/ubuntu plucky/main amd64 pkgconf amd64 1.8.1-4 [16.8 kB] 252s Get:74 http://ftpmaster.internal/ubuntu plucky/main amd64 libnghttp2-dev amd64 1.64.0-1 [123 kB] 252s Get:75 http://ftpmaster.internal/ubuntu plucky/main amd64 libpsl-dev amd64 0.21.2-1.1build1 [76.4 kB] 252s Get:76 http://ftpmaster.internal/ubuntu plucky/main amd64 zlib1g-dev amd64 1:1.3.dfsg+really1.3.1-1ubuntu1 [895 kB] 252s Get:77 http://ftpmaster.internal/ubuntu plucky/main amd64 librtmp-dev amd64 2.4+20151223.gitfa8646d.1-2build7 [66.7 kB] 252s Get:78 http://ftpmaster.internal/ubuntu plucky/main amd64 libssl-dev amd64 3.4.1-1ubuntu1 [2873 kB] 252s Get:79 http://ftpmaster.internal/ubuntu plucky/main amd64 libssh2-1-dev amd64 1.11.1-1 [292 kB] 252s Get:80 http://ftpmaster.internal/ubuntu plucky/main amd64 libzstd-dev amd64 1.5.6+dfsg-2 [444 kB] 252s Get:81 http://ftpmaster.internal/ubuntu plucky/main amd64 libcurl4-gnutls-dev amd64 8.12.1-3ubuntu1 [518 kB] 252s Get:82 http://ftpmaster.internal/ubuntu plucky/main amd64 libdeflate-dev amd64 1.23-1 [71.7 kB] 252s Get:83 http://ftpmaster.internal/ubuntu plucky/main amd64 libexpat1-dev amd64 2.6.4-1 [148 kB] 252s Get:84 http://ftpmaster.internal/ubuntu plucky/main amd64 liblzma-dev amd64 5.6.4-1 [189 kB] 252s Get:85 http://ftpmaster.internal/ubuntu plucky/universe amd64 libhts-dev amd64 1.21+ds-1 [6392 kB] 252s Get:86 http://ftpmaster.internal/ubuntu plucky/main amd64 libjs-jquery all 3.6.1+dfsg+~3.5.14-1 [328 kB] 252s Get:87 http://ftpmaster.internal/ubuntu plucky/main amd64 libjs-underscore all 1.13.4~dfsg+~1.11.4-3 [118 kB] 252s Get:88 http://ftpmaster.internal/ubuntu plucky/main amd64 libjs-sphinxdoc all 8.1.3-4 [30.9 kB] 252s Get:89 http://ftpmaster.internal/ubuntu plucky/main amd64 libpython3.13-dev amd64 3.13.2-2 [5503 kB] 252s Get:90 http://ftpmaster.internal/ubuntu plucky/main amd64 libpython3-dev amd64 3.13.2-2 [10.7 kB] 252s Get:91 http://ftpmaster.internal/ubuntu plucky/main amd64 libpython3-all-dev amd64 3.13.2-2 [910 B] 252s Get:92 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-all amd64 3.13.2-2 [884 B] 252s Get:93 http://ftpmaster.internal/ubuntu plucky/main amd64 python3.13-dev amd64 3.13.2-2 [509 kB] 252s Get:94 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-dev amd64 3.13.2-2 [26.7 kB] 252s Get:95 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-all-dev amd64 3.13.2-2 [908 B] 252s Get:96 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-iniconfig all 1.1.1-2 [6024 B] 252s Get:97 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-packaging all 24.2-1 [51.5 kB] 252s Get:98 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-pluggy all 1.5.0-1 [21.0 kB] 252s Get:99 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-pysam amd64 0.23.0+ds-1build1 [3966 kB] 252s Get:100 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-pytest all 8.3.5-1 [252 kB] 252s Get:101 http://ftpmaster.internal/ubuntu plucky/universe amd64 samtools amd64 1.21-1 [655 kB] 252s Get:102 http://ftpmaster.internal/ubuntu plucky/universe amd64 tabix amd64 1.21+ds-1 [642 kB] 253s Fetched 104 MB in 5s (22.9 MB/s) 253s Selecting previously unselected package m4. 254s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 84827 files and directories currently installed.) 254s Preparing to unpack .../000-m4_1.4.19-7_amd64.deb ... 254s Unpacking m4 (1.4.19-7) ... 254s Selecting previously unselected package autoconf. 254s Preparing to unpack .../001-autoconf_2.72-3ubuntu1_all.deb ... 254s Unpacking autoconf (2.72-3ubuntu1) ... 254s Selecting previously unselected package autotools-dev. 254s Preparing to unpack .../002-autotools-dev_20220109.1_all.deb ... 254s Unpacking autotools-dev (20220109.1) ... 254s Selecting previously unselected package automake. 254s Preparing to unpack .../003-automake_1%3a1.17-3ubuntu1_all.deb ... 254s Unpacking automake (1:1.17-3ubuntu1) ... 254s Selecting previously unselected package autopoint. 254s Preparing to unpack .../004-autopoint_0.23.1-1_all.deb ... 254s Unpacking autopoint (0.23.1-1) ... 254s Selecting previously unselected package libdeflate0:amd64. 254s Preparing to unpack .../005-libdeflate0_1.23-1_amd64.deb ... 254s Unpacking libdeflate0:amd64 (1.23-1) ... 254s Selecting previously unselected package libhtscodecs2:amd64. 254s Preparing to unpack .../006-libhtscodecs2_1.6.1-2_amd64.deb ... 254s Unpacking libhtscodecs2:amd64 (1.6.1-2) ... 254s Selecting previously unselected package libhts3t64:amd64. 254s Preparing to unpack .../007-libhts3t64_1.21+ds-1_amd64.deb ... 254s Unpacking libhts3t64:amd64 (1.21+ds-1) ... 254s Selecting previously unselected package bcftools. 254s Preparing to unpack .../008-bcftools_1.21-1_amd64.deb ... 254s Unpacking bcftools (1.21-1) ... 254s Selecting previously unselected package libisl23:amd64. 254s Preparing to unpack .../009-libisl23_0.27-1_amd64.deb ... 254s Unpacking libisl23:amd64 (0.27-1) ... 254s Selecting previously unselected package libmpc3:amd64. 254s Preparing to unpack .../010-libmpc3_1.3.1-1build2_amd64.deb ... 254s Unpacking libmpc3:amd64 (1.3.1-1build2) ... 254s Selecting previously unselected package cpp-14-x86-64-linux-gnu. 254s Preparing to unpack .../011-cpp-14-x86-64-linux-gnu_14.2.0-17ubuntu3_amd64.deb ... 254s Unpacking cpp-14-x86-64-linux-gnu (14.2.0-17ubuntu3) ... 254s Selecting previously unselected package cpp-14. 254s Preparing to unpack .../012-cpp-14_14.2.0-17ubuntu3_amd64.deb ... 254s Unpacking cpp-14 (14.2.0-17ubuntu3) ... 254s Selecting previously unselected package cpp-x86-64-linux-gnu. 254s Preparing to unpack .../013-cpp-x86-64-linux-gnu_4%3a14.2.0-1ubuntu1_amd64.deb ... 254s Unpacking cpp-x86-64-linux-gnu (4:14.2.0-1ubuntu1) ... 254s Selecting previously unselected package cpp. 254s Preparing to unpack .../014-cpp_4%3a14.2.0-1ubuntu1_amd64.deb ... 254s Unpacking cpp (4:14.2.0-1ubuntu1) ... 254s Selecting previously unselected package libcc1-0:amd64. 255s Preparing to unpack .../015-libcc1-0_15-20250222-0ubuntu1_amd64.deb ... 255s Unpacking libcc1-0:amd64 (15-20250222-0ubuntu1) ... 255s Selecting previously unselected package libgomp1:amd64. 255s Preparing to unpack .../016-libgomp1_15-20250222-0ubuntu1_amd64.deb ... 255s Unpacking libgomp1:amd64 (15-20250222-0ubuntu1) ... 255s Selecting previously unselected package libitm1:amd64. 255s Preparing to unpack .../017-libitm1_15-20250222-0ubuntu1_amd64.deb ... 255s Unpacking libitm1:amd64 (15-20250222-0ubuntu1) ... 255s Selecting previously unselected package libasan8:amd64. 255s Preparing to unpack .../018-libasan8_15-20250222-0ubuntu1_amd64.deb ... 255s Unpacking libasan8:amd64 (15-20250222-0ubuntu1) ... 255s Selecting previously unselected package liblsan0:amd64. 255s Preparing to unpack .../019-liblsan0_15-20250222-0ubuntu1_amd64.deb ... 255s Unpacking liblsan0:amd64 (15-20250222-0ubuntu1) ... 255s Selecting previously unselected package libtsan2:amd64. 255s Preparing to unpack .../020-libtsan2_15-20250222-0ubuntu1_amd64.deb ... 255s Unpacking libtsan2:amd64 (15-20250222-0ubuntu1) ... 255s Selecting previously unselected package libubsan1:amd64. 255s Preparing to unpack .../021-libubsan1_15-20250222-0ubuntu1_amd64.deb ... 255s Unpacking libubsan1:amd64 (15-20250222-0ubuntu1) ... 255s Selecting previously unselected package libhwasan0:amd64. 255s Preparing to unpack .../022-libhwasan0_15-20250222-0ubuntu1_amd64.deb ... 255s Unpacking libhwasan0:amd64 (15-20250222-0ubuntu1) ... 255s Selecting previously unselected package libquadmath0:amd64. 255s Preparing to unpack .../023-libquadmath0_15-20250222-0ubuntu1_amd64.deb ... 255s Unpacking libquadmath0:amd64 (15-20250222-0ubuntu1) ... 255s Selecting previously unselected package libgcc-14-dev:amd64. 255s Preparing to unpack .../024-libgcc-14-dev_14.2.0-17ubuntu3_amd64.deb ... 255s Unpacking libgcc-14-dev:amd64 (14.2.0-17ubuntu3) ... 255s Selecting previously unselected package gcc-14-x86-64-linux-gnu. 255s Preparing to unpack .../025-gcc-14-x86-64-linux-gnu_14.2.0-17ubuntu3_amd64.deb ... 255s Unpacking gcc-14-x86-64-linux-gnu (14.2.0-17ubuntu3) ... 256s Selecting previously unselected package gcc-14. 256s Preparing to unpack .../026-gcc-14_14.2.0-17ubuntu3_amd64.deb ... 256s Unpacking gcc-14 (14.2.0-17ubuntu3) ... 256s Selecting previously unselected package gcc-x86-64-linux-gnu. 256s Preparing to unpack .../027-gcc-x86-64-linux-gnu_4%3a14.2.0-1ubuntu1_amd64.deb ... 256s Unpacking gcc-x86-64-linux-gnu (4:14.2.0-1ubuntu1) ... 256s Selecting previously unselected package gcc. 256s Preparing to unpack .../028-gcc_4%3a14.2.0-1ubuntu1_amd64.deb ... 256s Unpacking gcc (4:14.2.0-1ubuntu1) ... 256s Selecting previously unselected package libstdc++-14-dev:amd64. 256s Preparing to unpack .../029-libstdc++-14-dev_14.2.0-17ubuntu3_amd64.deb ... 256s Unpacking libstdc++-14-dev:amd64 (14.2.0-17ubuntu3) ... 256s Selecting previously unselected package g++-14-x86-64-linux-gnu. 256s Preparing to unpack .../030-g++-14-x86-64-linux-gnu_14.2.0-17ubuntu3_amd64.deb ... 256s Unpacking g++-14-x86-64-linux-gnu (14.2.0-17ubuntu3) ... 256s Selecting previously unselected package g++-14. 256s Preparing to unpack .../031-g++-14_14.2.0-17ubuntu3_amd64.deb ... 256s Unpacking g++-14 (14.2.0-17ubuntu3) ... 256s Selecting previously unselected package g++-x86-64-linux-gnu. 256s Preparing to unpack .../032-g++-x86-64-linux-gnu_4%3a14.2.0-1ubuntu1_amd64.deb ... 256s Unpacking g++-x86-64-linux-gnu (4:14.2.0-1ubuntu1) ... 256s Selecting previously unselected package g++. 256s Preparing to unpack .../033-g++_4%3a14.2.0-1ubuntu1_amd64.deb ... 256s Unpacking g++ (4:14.2.0-1ubuntu1) ... 256s Selecting previously unselected package build-essential. 256s Preparing to unpack .../034-build-essential_12.10ubuntu1_amd64.deb ... 256s Unpacking build-essential (12.10ubuntu1) ... 256s Selecting previously unselected package cython3. 256s Preparing to unpack .../035-cython3_3.0.11+dfsg-2ubuntu2_amd64.deb ... 256s Unpacking cython3 (3.0.11+dfsg-2ubuntu2) ... 256s Selecting previously unselected package libdebhelper-perl. 256s Preparing to unpack .../036-libdebhelper-perl_13.24.1ubuntu2_all.deb ... 256s Unpacking libdebhelper-perl (13.24.1ubuntu2) ... 256s Selecting previously unselected package libtool. 256s Preparing to unpack .../037-libtool_2.5.4-4_all.deb ... 256s Unpacking libtool (2.5.4-4) ... 257s Selecting previously unselected package dh-autoreconf. 257s Preparing to unpack .../038-dh-autoreconf_20_all.deb ... 257s Unpacking dh-autoreconf (20) ... 257s Selecting previously unselected package libarchive-zip-perl. 257s Preparing to unpack .../039-libarchive-zip-perl_1.68-1_all.deb ... 257s Unpacking libarchive-zip-perl (1.68-1) ... 257s Selecting previously unselected package libfile-stripnondeterminism-perl. 257s Preparing to unpack .../040-libfile-stripnondeterminism-perl_1.14.1-2_all.deb ... 257s Unpacking libfile-stripnondeterminism-perl (1.14.1-2) ... 257s Selecting previously unselected package dh-strip-nondeterminism. 257s Preparing to unpack .../041-dh-strip-nondeterminism_1.14.1-2_all.deb ... 257s Unpacking dh-strip-nondeterminism (1.14.1-2) ... 257s Selecting previously unselected package debugedit. 257s Preparing to unpack .../042-debugedit_1%3a5.1-2_amd64.deb ... 257s Unpacking debugedit (1:5.1-2) ... 257s Selecting previously unselected package dwz. 257s Preparing to unpack .../043-dwz_0.15-1build6_amd64.deb ... 257s Unpacking dwz (0.15-1build6) ... 257s Selecting previously unselected package gettext. 257s Preparing to unpack .../044-gettext_0.23.1-1_amd64.deb ... 257s Unpacking gettext (0.23.1-1) ... 257s Selecting previously unselected package intltool-debian. 257s Preparing to unpack .../045-intltool-debian_0.35.0+20060710.6_all.deb ... 257s Unpacking intltool-debian (0.35.0+20060710.6) ... 257s Selecting previously unselected package po-debconf. 257s Preparing to unpack .../046-po-debconf_1.0.21+nmu1_all.deb ... 257s Unpacking po-debconf (1.0.21+nmu1) ... 257s Selecting previously unselected package debhelper. 257s Preparing to unpack .../047-debhelper_13.24.1ubuntu2_all.deb ... 257s Unpacking debhelper (13.24.1ubuntu2) ... 257s Selecting previously unselected package dh-python. 257s Preparing to unpack .../048-dh-python_6.20250308_all.deb ... 257s Unpacking dh-python (6.20250308) ... 257s Selecting previously unselected package comerr-dev:amd64. 257s Preparing to unpack .../049-comerr-dev_2.1-1.47.2-1ubuntu1_amd64.deb ... 257s Unpacking comerr-dev:amd64 (2.1-1.47.2-1ubuntu1) ... 257s Selecting previously unselected package libgssrpc4t64:amd64. 257s Preparing to unpack .../050-libgssrpc4t64_1.21.3-4ubuntu2_amd64.deb ... 257s Unpacking libgssrpc4t64:amd64 (1.21.3-4ubuntu2) ... 257s Selecting previously unselected package libkadm5clnt-mit12:amd64. 257s Preparing to unpack .../051-libkadm5clnt-mit12_1.21.3-4ubuntu2_amd64.deb ... 257s Unpacking libkadm5clnt-mit12:amd64 (1.21.3-4ubuntu2) ... 257s Selecting previously unselected package libkdb5-10t64:amd64. 257s Preparing to unpack .../052-libkdb5-10t64_1.21.3-4ubuntu2_amd64.deb ... 257s Unpacking libkdb5-10t64:amd64 (1.21.3-4ubuntu2) ... 257s Selecting previously unselected package libkadm5srv-mit12:amd64. 257s Preparing to unpack .../053-libkadm5srv-mit12_1.21.3-4ubuntu2_amd64.deb ... 257s Unpacking libkadm5srv-mit12:amd64 (1.21.3-4ubuntu2) ... 257s Selecting previously unselected package krb5-multidev:amd64. 257s Preparing to unpack .../054-krb5-multidev_1.21.3-4ubuntu2_amd64.deb ... 257s Unpacking krb5-multidev:amd64 (1.21.3-4ubuntu2) ... 257s Selecting previously unselected package libbrotli-dev:amd64. 257s Preparing to unpack .../055-libbrotli-dev_1.1.0-2build4_amd64.deb ... 257s Unpacking libbrotli-dev:amd64 (1.1.0-2build4) ... 257s Selecting previously unselected package libbz2-dev:amd64. 257s Preparing to unpack .../056-libbz2-dev_1.0.8-6_amd64.deb ... 257s Unpacking libbz2-dev:amd64 (1.0.8-6) ... 257s Selecting previously unselected package libevent-2.1-7t64:amd64. 257s Preparing to unpack .../057-libevent-2.1-7t64_2.1.12-stable-10_amd64.deb ... 257s Unpacking libevent-2.1-7t64:amd64 (2.1.12-stable-10) ... 257s Selecting previously unselected package libunbound8:amd64. 257s Preparing to unpack .../058-libunbound8_1.22.0-1ubuntu1_amd64.deb ... 257s Unpacking libunbound8:amd64 (1.22.0-1ubuntu1) ... 257s Selecting previously unselected package libgnutls-dane0t64:amd64. 257s Preparing to unpack .../059-libgnutls-dane0t64_3.8.9-2ubuntu2_amd64.deb ... 257s Unpacking libgnutls-dane0t64:amd64 (3.8.9-2ubuntu2) ... 257s Selecting previously unselected package libgnutls-openssl27t64:amd64. 257s Preparing to unpack .../060-libgnutls-openssl27t64_3.8.9-2ubuntu2_amd64.deb ... 257s Unpacking libgnutls-openssl27t64:amd64 (3.8.9-2ubuntu2) ... 258s Selecting previously unselected package libidn2-dev:amd64. 258s Preparing to unpack .../061-libidn2-dev_2.3.7-2build2_amd64.deb ... 258s Unpacking libidn2-dev:amd64 (2.3.7-2build2) ... 258s Selecting previously unselected package libp11-kit-dev:amd64. 258s Preparing to unpack .../062-libp11-kit-dev_0.25.5-2ubuntu3_amd64.deb ... 258s Unpacking libp11-kit-dev:amd64 (0.25.5-2ubuntu3) ... 258s Selecting previously unselected package libtasn1-6-dev:amd64. 258s Preparing to unpack .../063-libtasn1-6-dev_4.20.0-2_amd64.deb ... 258s Unpacking libtasn1-6-dev:amd64 (4.20.0-2) ... 258s Selecting previously unselected package libgmpxx4ldbl:amd64. 258s Preparing to unpack .../064-libgmpxx4ldbl_2%3a6.3.0+dfsg-3ubuntu1_amd64.deb ... 258s Unpacking libgmpxx4ldbl:amd64 (2:6.3.0+dfsg-3ubuntu1) ... 258s Selecting previously unselected package libgmp-dev:amd64. 258s Preparing to unpack .../065-libgmp-dev_2%3a6.3.0+dfsg-3ubuntu1_amd64.deb ... 258s Unpacking libgmp-dev:amd64 (2:6.3.0+dfsg-3ubuntu1) ... 258s Selecting previously unselected package nettle-dev:amd64. 258s Preparing to unpack .../066-nettle-dev_3.10.1-1_amd64.deb ... 258s Unpacking nettle-dev:amd64 (3.10.1-1) ... 258s Selecting previously unselected package libgnutls28-dev:amd64. 258s Preparing to unpack .../067-libgnutls28-dev_3.8.9-2ubuntu2_amd64.deb ... 258s Unpacking libgnutls28-dev:amd64 (3.8.9-2ubuntu2) ... 258s Selecting previously unselected package libkrb5-dev:amd64. 258s Preparing to unpack .../068-libkrb5-dev_1.21.3-4ubuntu2_amd64.deb ... 258s Unpacking libkrb5-dev:amd64 (1.21.3-4ubuntu2) ... 258s Selecting previously unselected package libldap-dev:amd64. 258s Preparing to unpack .../069-libldap-dev_2.6.9+dfsg-1~exp2ubuntu1_amd64.deb ... 258s Unpacking libldap-dev:amd64 (2.6.9+dfsg-1~exp2ubuntu1) ... 258s Selecting previously unselected package libpkgconf3:amd64. 258s Preparing to unpack .../070-libpkgconf3_1.8.1-4_amd64.deb ... 258s Unpacking libpkgconf3:amd64 (1.8.1-4) ... 258s Selecting previously unselected package pkgconf-bin. 258s Preparing to unpack .../071-pkgconf-bin_1.8.1-4_amd64.deb ... 258s Unpacking pkgconf-bin (1.8.1-4) ... 258s Selecting previously unselected package pkgconf:amd64. 258s Preparing to unpack .../072-pkgconf_1.8.1-4_amd64.deb ... 258s Unpacking pkgconf:amd64 (1.8.1-4) ... 258s Selecting previously unselected package libnghttp2-dev:amd64. 258s Preparing to unpack .../073-libnghttp2-dev_1.64.0-1_amd64.deb ... 258s Unpacking libnghttp2-dev:amd64 (1.64.0-1) ... 258s Selecting previously unselected package libpsl-dev:amd64. 258s Preparing to unpack .../074-libpsl-dev_0.21.2-1.1build1_amd64.deb ... 258s Unpacking libpsl-dev:amd64 (0.21.2-1.1build1) ... 258s Selecting previously unselected package zlib1g-dev:amd64. 258s Preparing to unpack .../075-zlib1g-dev_1%3a1.3.dfsg+really1.3.1-1ubuntu1_amd64.deb ... 258s Unpacking zlib1g-dev:amd64 (1:1.3.dfsg+really1.3.1-1ubuntu1) ... 258s Selecting previously unselected package librtmp-dev:amd64. 258s Preparing to unpack .../076-librtmp-dev_2.4+20151223.gitfa8646d.1-2build7_amd64.deb ... 258s Unpacking librtmp-dev:amd64 (2.4+20151223.gitfa8646d.1-2build7) ... 258s Selecting previously unselected package libssl-dev:amd64. 258s Preparing to unpack .../077-libssl-dev_3.4.1-1ubuntu1_amd64.deb ... 258s Unpacking libssl-dev:amd64 (3.4.1-1ubuntu1) ... 258s Selecting previously unselected package libssh2-1-dev:amd64. 258s Preparing to unpack .../078-libssh2-1-dev_1.11.1-1_amd64.deb ... 258s Unpacking libssh2-1-dev:amd64 (1.11.1-1) ... 258s Selecting previously unselected package libzstd-dev:amd64. 258s Preparing to unpack .../079-libzstd-dev_1.5.6+dfsg-2_amd64.deb ... 258s Unpacking libzstd-dev:amd64 (1.5.6+dfsg-2) ... 258s Selecting previously unselected package libcurl4-gnutls-dev:amd64. 258s Preparing to unpack .../080-libcurl4-gnutls-dev_8.12.1-3ubuntu1_amd64.deb ... 258s Unpacking libcurl4-gnutls-dev:amd64 (8.12.1-3ubuntu1) ... 258s Selecting previously unselected package libdeflate-dev:amd64. 258s Preparing to unpack .../081-libdeflate-dev_1.23-1_amd64.deb ... 258s Unpacking libdeflate-dev:amd64 (1.23-1) ... 259s Selecting previously unselected package libexpat1-dev:amd64. 259s Preparing to unpack .../082-libexpat1-dev_2.6.4-1_amd64.deb ... 259s Unpacking libexpat1-dev:amd64 (2.6.4-1) ... 259s Selecting previously unselected package liblzma-dev:amd64. 259s Preparing to unpack .../083-liblzma-dev_5.6.4-1_amd64.deb ... 259s Unpacking liblzma-dev:amd64 (5.6.4-1) ... 259s Selecting previously unselected package libhts-dev:amd64. 259s Preparing to unpack .../084-libhts-dev_1.21+ds-1_amd64.deb ... 259s Unpacking libhts-dev:amd64 (1.21+ds-1) ... 259s Selecting previously unselected package libjs-jquery. 259s Preparing to unpack .../085-libjs-jquery_3.6.1+dfsg+~3.5.14-1_all.deb ... 259s Unpacking libjs-jquery (3.6.1+dfsg+~3.5.14-1) ... 259s Selecting previously unselected package libjs-underscore. 259s Preparing to unpack .../086-libjs-underscore_1.13.4~dfsg+~1.11.4-3_all.deb ... 259s Unpacking libjs-underscore (1.13.4~dfsg+~1.11.4-3) ... 259s Selecting previously unselected package libjs-sphinxdoc. 259s Preparing to unpack .../087-libjs-sphinxdoc_8.1.3-4_all.deb ... 259s Unpacking libjs-sphinxdoc (8.1.3-4) ... 259s Selecting previously unselected package libpython3.13-dev:amd64. 259s Preparing to unpack .../088-libpython3.13-dev_3.13.2-2_amd64.deb ... 259s Unpacking libpython3.13-dev:amd64 (3.13.2-2) ... 259s Selecting previously unselected package libpython3-dev:amd64. 259s Preparing to unpack .../089-libpython3-dev_3.13.2-2_amd64.deb ... 259s Unpacking libpython3-dev:amd64 (3.13.2-2) ... 259s Selecting previously unselected package libpython3-all-dev:amd64. 259s Preparing to unpack .../090-libpython3-all-dev_3.13.2-2_amd64.deb ... 259s Unpacking libpython3-all-dev:amd64 (3.13.2-2) ... 259s Selecting previously unselected package python3-all. 259s Preparing to unpack .../091-python3-all_3.13.2-2_amd64.deb ... 259s Unpacking python3-all (3.13.2-2) ... 259s Selecting previously unselected package python3.13-dev. 259s Preparing to unpack .../092-python3.13-dev_3.13.2-2_amd64.deb ... 259s Unpacking python3.13-dev (3.13.2-2) ... 259s Selecting previously unselected package python3-dev. 259s Preparing to unpack .../093-python3-dev_3.13.2-2_amd64.deb ... 259s Unpacking python3-dev (3.13.2-2) ... 259s Selecting previously unselected package python3-all-dev. 259s Preparing to unpack .../094-python3-all-dev_3.13.2-2_amd64.deb ... 259s Unpacking python3-all-dev (3.13.2-2) ... 259s Selecting previously unselected package python3-iniconfig. 259s Preparing to unpack .../095-python3-iniconfig_1.1.1-2_all.deb ... 259s Unpacking python3-iniconfig (1.1.1-2) ... 259s Selecting previously unselected package python3-packaging. 259s Preparing to unpack .../096-python3-packaging_24.2-1_all.deb ... 259s Unpacking python3-packaging (24.2-1) ... 259s Selecting previously unselected package python3-pluggy. 259s Preparing to unpack .../097-python3-pluggy_1.5.0-1_all.deb ... 259s Unpacking python3-pluggy (1.5.0-1) ... 259s Selecting previously unselected package python3-pysam. 259s Preparing to unpack .../098-python3-pysam_0.23.0+ds-1build1_amd64.deb ... 259s Unpacking python3-pysam (0.23.0+ds-1build1) ... 260s Selecting previously unselected package python3-pytest. 260s Preparing to unpack .../099-python3-pytest_8.3.5-1_all.deb ... 260s Unpacking python3-pytest (8.3.5-1) ... 260s Selecting previously unselected package samtools. 260s Preparing to unpack .../100-samtools_1.21-1_amd64.deb ... 260s Unpacking samtools (1.21-1) ... 260s Selecting previously unselected package tabix. 260s Preparing to unpack .../101-tabix_1.21+ds-1_amd64.deb ... 260s Unpacking tabix (1.21+ds-1) ... 260s Setting up libhtscodecs2:amd64 (1.6.1-2) ... 260s Setting up dh-python (6.20250308) ... 260s Setting up libgnutls-openssl27t64:amd64 (3.8.9-2ubuntu2) ... 260s Setting up python3-iniconfig (1.1.1-2) ... 260s Setting up libzstd-dev:amd64 (1.5.6+dfsg-2) ... 260s Setting up libarchive-zip-perl (1.68-1) ... 260s Setting up libdebhelper-perl (13.24.1ubuntu2) ... 260s Setting up libdeflate0:amd64 (1.23-1) ... 260s Setting up m4 (1.4.19-7) ... 260s Setting up libevent-2.1-7t64:amd64 (2.1.12-stable-10) ... 260s Setting up python3-all (3.13.2-2) ... 260s Setting up libgomp1:amd64 (15-20250222-0ubuntu1) ... 260s Setting up libpsl-dev:amd64 (0.21.2-1.1build1) ... 260s Setting up autotools-dev (20220109.1) ... 260s Setting up python3-packaging (24.2-1) ... 260s Setting up libunbound8:amd64 (1.22.0-1ubuntu1) ... 260s Setting up libpkgconf3:amd64 (1.8.1-4) ... 260s Setting up libgmpxx4ldbl:amd64 (2:6.3.0+dfsg-3ubuntu1) ... 260s Setting up libexpat1-dev:amd64 (2.6.4-1) ... 260s Setting up libgnutls-dane0t64:amd64 (3.8.9-2ubuntu2) ... 260s Setting up libgssrpc4t64:amd64 (1.21.3-4ubuntu2) ... 260s Setting up libldap-dev:amd64 (2.6.9+dfsg-1~exp2ubuntu1) ... 260s Setting up libquadmath0:amd64 (15-20250222-0ubuntu1) ... 260s Setting up comerr-dev:amd64 (2.1-1.47.2-1ubuntu1) ... 260s Setting up libssl-dev:amd64 (3.4.1-1ubuntu1) ... 260s Setting up libmpc3:amd64 (1.3.1-1build2) ... 260s Setting up cython3 (3.0.11+dfsg-2ubuntu2) ... 262s Setting up autopoint (0.23.1-1) ... 262s Setting up pkgconf-bin (1.8.1-4) ... 262s Setting up libidn2-dev:amd64 (2.3.7-2build2) ... 262s Setting up autoconf (2.72-3ubuntu1) ... 262s Setting up python3-pluggy (1.5.0-1) ... 262s Setting up liblzma-dev:amd64 (5.6.4-1) ... 262s Setting up libubsan1:amd64 (15-20250222-0ubuntu1) ... 262s Setting up zlib1g-dev:amd64 (1:1.3.dfsg+really1.3.1-1ubuntu1) ... 262s Setting up dwz (0.15-1build6) ... 262s Setting up libhwasan0:amd64 (15-20250222-0ubuntu1) ... 262s Setting up libasan8:amd64 (15-20250222-0ubuntu1) ... 262s Setting up debugedit (1:5.1-2) ... 262s Setting up libhts3t64:amd64 (1.21+ds-1) ... 262s Setting up libtsan2:amd64 (15-20250222-0ubuntu1) ... 262s Setting up libjs-jquery (3.6.1+dfsg+~3.5.14-1) ... 262s Setting up libisl23:amd64 (0.27-1) ... 262s Setting up libtasn1-6-dev:amd64 (4.20.0-2) ... 262s Setting up libdeflate-dev:amd64 (1.23-1) ... 262s Setting up tabix (1.21+ds-1) ... 262s Setting up libcc1-0:amd64 (15-20250222-0ubuntu1) ... 262s Setting up libbrotli-dev:amd64 (1.1.0-2build4) ... 262s Setting up liblsan0:amd64 (15-20250222-0ubuntu1) ... 262s Setting up libp11-kit-dev:amd64 (0.25.5-2ubuntu3) ... 262s Setting up libitm1:amd64 (15-20250222-0ubuntu1) ... 262s Setting up libjs-underscore (1.13.4~dfsg+~1.11.4-3) ... 262s Setting up libkadm5clnt-mit12:amd64 (1.21.3-4ubuntu2) ... 262s Setting up libbz2-dev:amd64 (1.0.8-6) ... 262s Setting up automake (1:1.17-3ubuntu1) ... 262s update-alternatives: using /usr/bin/automake-1.17 to provide /usr/bin/automake (automake) in auto mode 262s Setting up libfile-stripnondeterminism-perl (1.14.1-2) ... 262s Setting up gettext (0.23.1-1) ... 262s Setting up python3-pysam (0.23.0+ds-1build1) ... 262s Setting up libgmp-dev:amd64 (2:6.3.0+dfsg-3ubuntu1) ... 262s Setting up nettle-dev:amd64 (3.10.1-1) ... 262s Setting up libkdb5-10t64:amd64 (1.21.3-4ubuntu2) ... 262s Setting up python3-pytest (8.3.5-1) ... 262s Setting up bcftools (1.21-1) ... 262s Setting up pkgconf:amd64 (1.8.1-4) ... 262s Setting up samtools (1.21-1) ... 262s Setting up intltool-debian (0.35.0+20060710.6) ... 262s Setting up libpython3.13-dev:amd64 (3.13.2-2) ... 262s Setting up cpp-14-x86-64-linux-gnu (14.2.0-17ubuntu3) ... 262s Setting up libssh2-1-dev:amd64 (1.11.1-1) ... 262s Setting up libjs-sphinxdoc (8.1.3-4) ... 262s Setting up cpp-14 (14.2.0-17ubuntu3) ... 262s Setting up dh-strip-nondeterminism (1.14.1-2) ... 262s Setting up libkadm5srv-mit12:amd64 (1.21.3-4ubuntu2) ... 262s Setting up libgcc-14-dev:amd64 (14.2.0-17ubuntu3) ... 262s Setting up libstdc++-14-dev:amd64 (14.2.0-17ubuntu3) ... 262s Setting up krb5-multidev:amd64 (1.21.3-4ubuntu2) ... 262s Setting up cpp-x86-64-linux-gnu (4:14.2.0-1ubuntu1) ... 262s Setting up libgnutls28-dev:amd64 (3.8.9-2ubuntu2) ... 262s Setting up libnghttp2-dev:amd64 (1.64.0-1) ... 262s Setting up libpython3-dev:amd64 (3.13.2-2) ... 262s Setting up python3.13-dev (3.13.2-2) ... 262s Setting up po-debconf (1.0.21+nmu1) ... 262s Setting up libkrb5-dev:amd64 (1.21.3-4ubuntu2) ... 262s Setting up libpython3-all-dev:amd64 (3.13.2-2) ... 262s Setting up python3-dev (3.13.2-2) ... 262s Setting up librtmp-dev:amd64 (2.4+20151223.gitfa8646d.1-2build7) ... 262s Setting up cpp (4:14.2.0-1ubuntu1) ... 262s Setting up gcc-14-x86-64-linux-gnu (14.2.0-17ubuntu3) ... 262s Setting up python3-all-dev (3.13.2-2) ... 262s Setting up gcc-x86-64-linux-gnu (4:14.2.0-1ubuntu1) ... 262s Setting up libcurl4-gnutls-dev:amd64 (8.12.1-3ubuntu1) ... 262s Setting up gcc-14 (14.2.0-17ubuntu3) ... 262s Setting up g++-14-x86-64-linux-gnu (14.2.0-17ubuntu3) ... 262s Setting up g++-x86-64-linux-gnu (4:14.2.0-1ubuntu1) ... 262s Setting up g++-14 (14.2.0-17ubuntu3) ... 262s Setting up libtool (2.5.4-4) ... 262s Setting up libhts-dev:amd64 (1.21+ds-1) ... 262s Setting up gcc (4:14.2.0-1ubuntu1) ... 262s Setting up dh-autoreconf (20) ... 262s Setting up g++ (4:14.2.0-1ubuntu1) ... 262s update-alternatives: using /usr/bin/g++ to provide /usr/bin/c++ (c++) in auto mode 262s Setting up build-essential (12.10ubuntu1) ... 262s Setting up debhelper (13.24.1ubuntu2) ... 262s Processing triggers for install-info (7.1.1-1) ... 262s Processing triggers for libc-bin (2.41-1ubuntu2) ... 262s Processing triggers for man-db (2.13.0-1) ... 265s autopkgtest [21:55:25]: test command1: export HOME=$PWD && make -C tests/pysam_data && make -C tests/cbcf_data && pytest-3 265s autopkgtest [21:55:25]: test command1: [----------------------- 266s make: Entering directory '/tmp/autopkgtest.aieV1T/build.anP/src/tests/pysam_data' 266s samtools faidx ex1.fa 266s samtools view --no-PG -bo ex1.bam -t ex1.fa.fai ex1.sam.gz 266s samtools mpileup -f ex1.fa ex1.bam | gzip > ex1.pileup.gz 266s [mpileup] 1 samples in 1 input files 266s gunzip < ex1.sam.gz > ex1.sam 266s samtools index ex1.bam 266s samtools view --no-PG -h ex1.bam | gzip > ex2.sam.gz 266s gunzip < ex2.sam.gz > ex2.sam 266s samtools view --no-PG -bo ex2.bam ex2.sam 266s samtools index ex2.bam 266s samtools calmd --no-PG --output-fmt BAM ex2.bam ex1.fa > with_md.sam.gz 266s [bam_fillmd1] different NM for read 'EAS139_11:7:46:695:738': 3 -> 8 266s [bam_fillmd1] different NM for read 'EAS218_4:1:48:9:409': 0 -> 5 266s [bam_fillmd1] different NM for read 'B7_591:7:200:192:373': 0 -> 5 266s [bam_fillmd1] different NM for read 'EAS56_65:1:163:846:223': 0 -> 5 266s [bam_fillmd1] different NM for read 'EAS114_30:7:283:799:560': 0 -> 5 266s [bam_fillmd1] different NM for read 'B7_595:4:84:802:737': 0 -> 4 266s [bam_fillmd1] different NM for read 'EAS51_66:5:308:400:602': 0 -> 3 266s [bam_fillmd1] different NM for read 'EAS54_81:2:285:367:932': 0 -> 3 266s [bam_fillmd1] different NM for read 'EAS114_39:1:70:147:84': 0 -> 3 266s [bam_fillmd1] different NM for read 'EAS56_53:1:124:243:35': 2 -> 5 266s [bam_fillmd1] different NM for read 'EAS1_103:2:226:302:758': 2 -> 3 266s [bam_fillmd1] different NM for read 'EAS114_28:6:175:705:982': 1 -> 0 266s [bam_fillmd1] different NM for read 'EAS51_64:4:179:389:585': 7 -> 8 266s [bam_fillmd1] different NM for read 'B7_589:1:122:337:968': 3 -> 2 266s [bam_fillmd1] different NM for read 'B7_610:4:15:805:420': 4 -> 5 266s [bam_fillmd1] different NM for read 'B7_591:2:279:124:41': 2 -> 4 266s [bam_fillmd1] different NM for read 'EAS112_32:8:89:254:332': 0 -> 1 266s [bam_fillmd1] different NM for read 'B7_597:7:103:731:697': 0 -> 2 266s [bam_fillmd1] different NM for read 'EAS139_11:2:71:83:58': 0 -> 2 266s [bam_fillmd1] different NM for read 'EAS192_3:4:63:5:870': 0 -> 2 266s [bam_fillmd1] different NM for read 'EAS139_19:2:29:1822:1881': 0 -> 2 266s [bam_fillmd1] different NM for read 'EAS188_7:3:15:568:42': 2 -> 1 266s [bam_fillmd1] different NM for read 'EAS1_95:4:176:971:874': 0 -> 1 266s [bam_fillmd1] different NM for read 'EAS1_99:1:34:649:318': 3 -> 4 266s [bam_fillmd1] different NM for read 'EAS54_65:4:61:346:384': 3 -> 4 266s [bam_fillmd1] different NM for read 'B7_597:6:20:592:496': 0 -> 1 266s [bam_fillmd1] different NM for read 'B7_597:4:38:999:463': 2 -> 1 266s [bam_fillmd1] different NM for read 'EAS114_28:5:23:944:377': 0 -> 3 266s [bam_fillmd1] different NM for read 'EAS219_1:3:90:219:528': 0 -> 3 266s [bam_fillmd1] different NM for read 'EAS1_108:5:89:942:84': 0 -> 4 266s [bam_fillmd1] different NM for read 'EAS1_108:6:159:493:275': 0 -> 5 266s [bam_fillmd1] different NM for read 'EAS139_11:1:81:1019:558': 0 -> 5 266s [bam_fillmd1] different NM for read 'EAS51_62:7:162:195:761': 0 -> 4 266s [bam_fillmd1] different NM for read 'B7_597:3:115:646:430': 0 -> 4 266s [bam_fillmd1] different NM for read 'EAS114_30:6:243:209:110': 0 -> 4 266s [bam_fillmd1] different NM for read 'EAS1_108:2:266:994:429': 0 -> 4 266s [bam_fillmd1] different NM for read 'EAS114_30:5:32:461:154': 0 -> 4 266s [bam_fillmd1] different NM for read 'EAS114_39:6:7:492:1088': 0 -> 4 266s [bam_fillmd1] different NM for read 'EAS1_95:6:174:650:125': 0 -> 4 266s [bam_fillmd1] different NM for read 'EAS56_59:6:89:457:591': 1 -> 5 266s [bam_fillmd1] different NM for read 'EAS114_39:2:38:670:564': 0 -> 4 266s [bam_fillmd1] different NM for read 'EAS188_7:4:92:693:228': 1 -> 6 266s [bam_fillmd1] different NM for read 'EAS218_1:4:61:1369:440': 0 -> 4 266s [bam_fillmd1] different NM for read 'EAS114_26:4:123:1001:580': 0 -> 4 266s [bam_fillmd1] different NM for read 'EAS114_39:4:10:1312:1558': 0 -> 4 266s [bam_fillmd1] different NM for read 'EAS220_1:8:45:178:1321': 0 -> 4 266s [bam_fillmd1] different NM for read 'EAS56_59:5:125:137:58': 0 -> 4 266s [bam_fillmd1] different NM for read 'EAS192_3:3:285:349:797': 1 -> 5 266s [bam_fillmd1] different NM for read 'EAS114_45:5:56:1757:1319': 0 -> 4 266s [bam_fillmd1] different NM for read 'B7_591:3:291:404:199': 0 -> 4 266s [bam_fillmd1] different NM for read 'EAS54_65:7:159:253:353': 0 -> 4 266s [bam_fillmd1] different NM for read 'EAS56_57:1:122:38:103': 0 -> 4 266s [bam_fillmd1] different NM for read 'EAS188_4:5:103:870:105': 0 -> 4 266s [bam_fillmd1] different NM for read 'EAS1_105:8:24:718:322': 3 -> 7 266s [bam_fillmd1] different NM for read 'EAS51_64:6:118:41:489': 0 -> 4 266s [bam_fillmd1] different NM for read 'EAS56_61:3:165:665:220': 0 -> 4 266s [bam_fillmd1] different NM for read 'EAS114_30:6:238:803:383': 0 -> 4 266s [bam_fillmd1] different NM for read 'EAS1_105:3:232:364:583': 0 -> 3 266s [bam_fillmd1] different NM for read 'B7_595:2:29:729:70': 3 -> 4 266s [bam_fillmd1] different NM for read 'EAS114_30:6:220:809:850': 4 -> 6 266s [bam_fillmd1] different NM for read 'EAS54_65:2:264:157:150': 3 -> 5 266s [bam_fillmd1] different NM for read 'B7_595:8:26:242:35': 2 -> 1 266s [bam_fillmd1] different NM for read 'B7_610:7:34:144:868': 4 -> 5 266s [bam_fillmd1] different NM for read 'B7_597:8:147:360:141': 1 -> 2 266s [bam_fillmd1] different NM for read 'EAS139_19:2:82:154:1333': 0 -> 4 266s [bam_fillmd1] different NM for read 'EAS56_63:3:41:468:459': 0 -> 3 266s [bam_fillmd1] different NM for read 'EAS1_97:4:274:287:423': 0 -> 1 266s [bam_fillmd1] different NM for read 'EAS114_30:2:303:428:326': 0 -> 1 266s [bam_fillmd1] different NM for read 'EAS54_71:8:105:854:975': 0 -> 3 266s gunzip < with_md.sam.gz > with_md.sam 266s samtools view --no-PG -bo with_md.bam with_md.sam 266s [W::bam_hdr_read] EOF marker is absent. The input is probably truncated 266s samtools index with_md.bam 266s samtools view --no-PG -bu -o uncompressed.bam ex2.sam 266s samtools view --no-PG -bo MM-chebi.bam MM-chebi.sam 266s samtools view --no-PG -bo MM-double.bam MM-double.sam 266s samtools view --no-PG -bo MM-explicit.bam MM-explicit.sam 266s samtools view --no-PG -bo MM-multi.bam MM-multi.sam 266s samtools view --no-PG -bo MM-orient.bam MM-orient.sam 266s samtools view --no-PG -bo ex10.bam ex10.sam 266s samtools view --no-PG -bo ex3.bam ex3.sam 266s samtools view --no-PG -bo ex4.bam ex4.sam 266s samtools view --no-PG -bo ex5.bam ex5.sam 266s samtools view --no-PG -bo ex6.bam ex6.sam 266s samtools view --no-PG -bo ex8.bam ex8.sam 266s samtools view --no-PG -bo ex9_fail.bam ex9_fail.sam 266s samtools view --no-PG -bo ex9_nofail.bam ex9_nofail.sam 266s samtools view --no-PG -bo ex_spliced.bam ex_spliced.sam 266s samtools view --no-PG -bo example_aligned_pairs.bam example_aligned_pairs.sam 266s samtools view --no-PG -bo example_btag.bam example_btag.sam 266s samtools view --no-PG -bo example_dash_in_chr.bam example_dash_in_chr.sam 266s samtools view --no-PG -bo example_empty_header.bam example_empty_header.sam 266s samtools view --no-PG -bo example_empty_with_header.bam example_empty_with_header.sam 266s samtools view --no-PG -bo example_reverse_complement.bam example_reverse_complement.sam 266s touch tmp.list 266s samtools view --no-PG -bo example_unmapped_reads_no_sq.bam -t tmp.list example_unmapped_reads_no_sq.sam 266s rm -f tmp.list 266s samtools view --no-PG -bo issue100.bam issue100.sam 266s samtools view --no-PG -bo rg_with_tab.bam rg_with_tab.sam 266s samtools view --no-PG -bo softclip.bam softclip.sam 266s samtools view --no-PG -bo tag_bug.bam tag_bug.sam 266s samtools view --no-PG -bo test_mapped_unmapped.bam test_mapped_unmapped.sam 266s samtools view --no-PG -bo test_query_position.bam test_query_position.sam 266s samtools view --no-PG -bo test_unaligned.bam test_unaligned.sam 266s samtools index MM-chebi.bam 266s samtools index MM-double.bam 266s samtools index MM-explicit.bam 266s samtools index MM-multi.bam 266s samtools index MM-orient.bam 266s samtools index ex10.bam 266s samtools index ex3.bam 266s samtools index ex4.bam 266s samtools index ex5.bam 266s samtools index ex6.bam 266s samtools index ex8.bam 266s samtools index ex9_fail.bam 266s samtools index ex9_nofail.bam 266s samtools index ex_spliced.bam 266s samtools index example_aligned_pairs.bam 266s samtools index example_btag.bam 266s samtools index example_dash_in_chr.bam 266s samtools index example_empty_header.bam 266s samtools index example_empty_with_header.bam 266s samtools index example_reverse_complement.bam 266s samtools index example_unmapped_reads_no_sq.bam 266s samtools index issue100.bam 266s samtools index rg_with_tab.bam 266s samtools index softclip.bam 266s samtools index tag_bug.bam 266s samtools index test_mapped_unmapped.bam 266s samtools index test_query_position.bam 266s samtools index test_unaligned.bam 266s samtools view --no-PG -Co ex1.cram -T ex1.fa ex1.sam 266s samtools view --no-PG -Co ex2.cram -T ex1.fa ex2.sam 266s samtools view --no-PG -Co ex3.cram -T ex1.fa ex3.sam 266s samtools index ex1.cram 266s samtools index ex2.cram 266s samtools index ex3.cram 266s cp ex1.bam example_bai.bam 266s samtools index example_bai.bam 266s mv example_bai.bam.bai example_bai.bai 266s dd if=ex2.bam of=ex2_truncated.bam bs=$((`wc -c < ex2.bam`-512)) count=1 266s 1+0 records in 266s 1+0 records out 266s 122288 bytes (122 kB, 119 KiB) copied, 0.000271272 s, 451 MB/s 266s (bgzip -d < ex2.bam; printf '\37\0\0\0\1\0\0\0') | bgzip > ex2_corrupt.bam 266s grep "^@" ex2.sam | samtools view --no-PG -bo empty.bam - 266s samtools index empty.bam 266s cp ex1.bam explicit_index.bam 266s cp ex1.cram explicit_index.cram 266s gzip < faidx_empty_seq.fq > faidx_empty_seq.fq.gz 266s bgzip < ex1.fa > ex1.fa.gz 266s samtools faidx ex1.fa.gz 266s cp ex1.bam ex1_csi.bam 266s samtools index -c ex1_csi.bam 266s touch all.stamp 266s rm with_md.sam 266s make: Leaving directory '/tmp/autopkgtest.aieV1T/build.anP/src/tests/pysam_data' 266s make: Entering directory '/tmp/autopkgtest.aieV1T/build.anP/src/tests/cbcf_data' 266s bgzip < example_vcf40.vcf > example_vcf40.vcf.gz 266s tabix -f -p vcf example_vcf40.vcf.gz # create tbi index 266s bcftools index -f example_vcf40.vcf.gz # create csi index 266s bgzip < example_vcf42.vcf > example_vcf42.vcf.gz 266s tabix -f -p vcf example_vcf42.vcf.gz # create tbi index 266s bcftools index -f example_vcf42.vcf.gz # create csi index 266s bgzip < example_vcf42_only_header.vcf > example_vcf42_only_header.vcf.gz 266s tabix -f -p vcf example_vcf42_only_header.vcf.gz # create tbi index 266s bcftools index -f example_vcf42_only_header.vcf.gz # create csi index 266s bgzip < example_vcf42_withcontigs.vcf > example_vcf42_withcontigs.vcf.gz 266s tabix -f -p vcf example_vcf42_withcontigs.vcf.gz # create tbi index 266s bcftools index -f example_vcf42_withcontigs.vcf.gz # create csi index 266s bgzip < example_vcf43.vcf > example_vcf43.vcf.gz 266s tabix -f -p vcf example_vcf43.vcf.gz # create tbi index 266s bcftools index -f example_vcf43.vcf.gz # create csi index 266s bgzip < example_vcf43_with_utf8.vcf > example_vcf43_with_utf8.vcf.gz 266s tabix -f -p vcf example_vcf43_with_utf8.vcf.gz # create tbi index 266s bcftools index -f example_vcf43_with_utf8.vcf.gz # create csi index 266s bgzip < gnomad.vcf > gnomad.vcf.gz 266s tabix -f -p vcf gnomad.vcf.gz # create tbi index 266s bcftools index -f gnomad.vcf.gz # create csi index 266s bgzip < gnomad_fixed.vcf > gnomad_fixed.vcf.gz 266s tabix -f -p vcf gnomad_fixed.vcf.gz # create tbi index 266s bcftools index -f gnomad_fixed.vcf.gz # create csi index 266s bgzip < missing_genotypes.vcf > missing_genotypes.vcf.gz 266s tabix -f -p vcf missing_genotypes.vcf.gz # create tbi index 266s bcftools index -f missing_genotypes.vcf.gz # create csi index 266s bcftools view -O b example_vcf40.vcf.gz -o example_vcf40.bcf 266s bcftools index -f example_vcf40.bcf 266s bcftools view -O b example_vcf42.vcf.gz -o example_vcf42.bcf 266s bcftools index -f example_vcf42.bcf 266s bcftools view -O b example_vcf42_only_header.vcf.gz -o example_vcf42_only_header.bcf 266s bcftools index -f example_vcf42_only_header.bcf 266s bcftools view -O b example_vcf42_withcontigs.vcf.gz -o example_vcf42_withcontigs.bcf 266s bcftools index -f example_vcf42_withcontigs.bcf 266s bcftools view -O b example_vcf43.vcf.gz -o example_vcf43.bcf 266s bcftools index -f example_vcf43.bcf 266s bcftools view -O b example_vcf43_with_utf8.vcf.gz -o example_vcf43_with_utf8.bcf 266s bcftools index -f example_vcf43_with_utf8.bcf 266s bcftools view -O b gnomad.vcf.gz -o gnomad.bcf 266s bcftools index -f gnomad.bcf 266s bcftools view -O b gnomad_fixed.vcf.gz -o gnomad_fixed.bcf 266s [W::bcf_hdr_check_sanity] PL should be declared as Number=G 266s bcftools index -f gnomad_fixed.bcf 266s [W::bcf_hdr_check_sanity] PL should be declared as Number=G 266s bcftools view -O b missing_genotypes.vcf.gz -o missing_genotypes.bcf 266s bcftools index -f missing_genotypes.bcf 266s touch all.stamp 266s make: Leaving directory '/tmp/autopkgtest.aieV1T/build.anP/src/tests/cbcf_data' 267s ============================= test session starts ============================== 267s platform linux -- Python 3.13.2, pytest-8.3.5, pluggy-1.5.0 -- /usr/bin/python3 267s cachedir: .pytest_cache 267s rootdir: /tmp/autopkgtest.aieV1T/build.anP/src 267s configfile: setup.cfg 267s testpaths: pysam, tests 267s plugins: typeguard-4.4.2 267s collecting ... collected 960 items / 1 skipped 267s 267s tests/AlignedSegment_test.py::TestAlignedSegment::testBlocks PASSED 267s tests/AlignedSegment_test.py::TestAlignedSegment::testCompare PASSED 267s tests/AlignedSegment_test.py::TestAlignedSegment::testEmpty PASSED 267s tests/AlignedSegment_test.py::TestAlignedSegment::testFullReferencePositions PASSED 267s tests/AlignedSegment_test.py::TestAlignedSegment::testHashing PASSED 267s tests/AlignedSegment_test.py::TestAlignedSegment::testLargeRead PASSED 267s tests/AlignedSegment_test.py::TestAlignedSegment::testNoSequence PASSED 267s tests/AlignedSegment_test.py::TestAlignedSegment::testPositions PASSED 267s tests/AlignedSegment_test.py::TestAlignedSegment::testSettingTagInEmptyRead PASSED 267s tests/AlignedSegment_test.py::TestAlignedSegment::testStrOfEmptyRead PASSED 267s tests/AlignedSegment_test.py::TestAlignedSegment::testUpdate PASSED 267s tests/AlignedSegment_test.py::TestAlignedSegment::testUpdate2 PASSED 267s tests/AlignedSegment_test.py::TestAlignedSegment::testUpdateQual PASSED 267s tests/AlignedSegment_test.py::TestAlignedSegment::testUpdateTlen PASSED 267s tests/AlignedSegment_test.py::TestAlignedSegment::test_bin_values_for_mapped_reads_are_updated PASSED 267s tests/AlignedSegment_test.py::TestAlignedSegment::test_bin_values_for_unmapped_reads_ignore_length PASSED 267s tests/AlignedSegment_test.py::TestAlignedSegment::test_equivalence_matches_only_and_with_seq PASSED 267s tests/AlignedSegment_test.py::TestAlignedSegment::test_get_aligned_pairs PASSED 267s tests/AlignedSegment_test.py::TestAlignedSegment::test_get_aligned_pairs_1character_md PASSED 267s tests/AlignedSegment_test.py::TestAlignedSegment::test_get_aligned_pairs_bad_type_md PASSED 267s tests/AlignedSegment_test.py::TestAlignedSegment::test_get_aligned_pairs_hard_clipping PASSED 267s tests/AlignedSegment_test.py::TestAlignedSegment::test_get_aligned_pairs_lowercase_md PASSED 267s tests/AlignedSegment_test.py::TestAlignedSegment::test_get_aligned_pairs_match_mismatch PASSED 267s tests/AlignedSegment_test.py::TestAlignedSegment::test_get_aligned_pairs_padding PASSED 267s tests/AlignedSegment_test.py::TestAlignedSegment::test_get_aligned_pairs_padding_via_cigarstring PASSED 267s tests/AlignedSegment_test.py::TestAlignedSegment::test_get_aligned_pairs_padding_with_seq PASSED 267s tests/AlignedSegment_test.py::TestAlignedSegment::test_get_aligned_pairs_skip PASSED 267s tests/AlignedSegment_test.py::TestAlignedSegment::test_get_aligned_pairs_skip_reference PASSED 267s tests/AlignedSegment_test.py::TestAlignedSegment::test_get_aligned_pairs_soft_clipping PASSED 267s tests/AlignedSegment_test.py::TestAlignedSegment::test_get_aligned_pairs_uppercase_md PASSED 267s tests/AlignedSegment_test.py::TestAlignedSegment::test_get_aligned_pairs_with_malformed_MD_tag PASSED 267s tests/AlignedSegment_test.py::TestAlignedSegment::test_header_accessible PASSED 267s tests/AlignedSegment_test.py::TestAlignedSegment::test_infer_query_length PASSED 267s tests/AlignedSegment_test.py::TestAlignedSegment::test_infer_read_length PASSED 267s tests/AlignedSegment_test.py::TestAlignedSegment::test_query_length_is_limited PASSED 267s tests/AlignedSegment_test.py::TestTidMapping::test_reference_name_can_be_set_to_asterisk PASSED 267s tests/AlignedSegment_test.py::TestTidMapping::test_reference_name_can_be_set_to_chromosome PASSED 267s tests/AlignedSegment_test.py::TestTidMapping::test_reference_name_can_be_set_to_none PASSED 267s tests/AlignedSegment_test.py::TestTidMapping::test_reference_name_can_not_be_set_to_unknown_chromosome PASSED 267s tests/AlignedSegment_test.py::TestTidMapping::test_tid_can_be_set_to_chromosome PASSED 267s tests/AlignedSegment_test.py::TestTidMapping::test_tid_can_be_set_to_missing PASSED 267s tests/AlignedSegment_test.py::TestTidMapping::test_tid_can_be_set_to_missing_without_header PASSED 267s tests/AlignedSegment_test.py::TestTidMapping::test_tid_can_be_set_without_header PASSED 267s tests/AlignedSegment_test.py::TestTidMapping::test_tid_can_not_be_set_to_unknown_chromosome PASSED 267s tests/AlignedSegment_test.py::TestTidMapping::test_unmapped_tid_is_asterisk_in_output PASSED 267s tests/AlignedSegment_test.py::TestNextTidMapping::test_next_reference_name_can_be_set_to_asterisk PASSED 267s tests/AlignedSegment_test.py::TestNextTidMapping::test_next_reference_name_can_be_set_to_chromosome PASSED 267s tests/AlignedSegment_test.py::TestNextTidMapping::test_next_reference_name_can_be_set_to_none PASSED 267s tests/AlignedSegment_test.py::TestNextTidMapping::test_next_reference_name_can_not_be_set_to_unknown_chromosome PASSED 267s tests/AlignedSegment_test.py::TestNextTidMapping::test_next_tid_can_be_set_to_chromosome PASSED 267s tests/AlignedSegment_test.py::TestNextTidMapping::test_next_tid_can_be_set_to_equal PASSED 267s tests/AlignedSegment_test.py::TestNextTidMapping::test_next_tid_can_be_set_to_missing PASSED 267s tests/AlignedSegment_test.py::TestNextTidMapping::test_next_tid_can_be_set_to_missing_without_header PASSED 267s tests/AlignedSegment_test.py::TestNextTidMapping::test_next_tid_can_be_set_without_header PASSED 267s tests/AlignedSegment_test.py::TestNextTidMapping::test_next_tid_can_not_be_set_to_unknown_chromosome PASSED 267s tests/AlignedSegment_test.py::TestNextTidMapping::test_next_unmapped_tid_is_asterisk_in_output PASSED 267s tests/AlignedSegment_test.py::TestCigar::testCigar PASSED 267s tests/AlignedSegment_test.py::TestCigar::testCigarString PASSED 267s tests/AlignedSegment_test.py::TestCigarStats::testStats PASSED 268s tests/AlignedSegment_test.py::TestAlignedPairs::testReferenceBases PASSED 268s tests/AlignedSegment_test.py::TestBaseModifications::testChebi PASSED 268s tests/AlignedSegment_test.py::TestBaseModifications::testDouble PASSED 268s tests/AlignedSegment_test.py::TestBaseModifications::testExplicit PASSED 268s tests/AlignedSegment_test.py::TestBaseModifications::testMulti PASSED 268s tests/AlignedSegment_test.py::TestBaseModifications::testOrient PASSED 268s tests/AlignedSegment_test.py::TestTags::testAddTags PASSED 268s tests/AlignedSegment_test.py::TestTags::testAddTagsType PASSED 268s tests/AlignedSegment_test.py::TestTags::testArrayTags PASSED 268s tests/AlignedSegment_test.py::TestTags::testEmptyTag PASSED 268s tests/AlignedSegment_test.py::TestTags::testLongTags PASSED 268s tests/AlignedSegment_test.py::TestTags::testMDTagComplex PASSED 268s tests/AlignedSegment_test.py::TestTags::testMDTagDeletions PASSED 268s tests/AlignedSegment_test.py::TestTags::testMDTagInsertions PASSED 268s tests/AlignedSegment_test.py::TestTags::testMDTagMatchOnly PASSED 268s tests/AlignedSegment_test.py::TestTags::testMDTagRefSkipping PASSED 268s tests/AlignedSegment_test.py::TestTags::testMDTagSoftClipping PASSED 268s tests/AlignedSegment_test.py::TestTags::testMissingTag PASSED 268s tests/AlignedSegment_test.py::TestTags::testNegativeIntegers PASSED 268s tests/AlignedSegment_test.py::TestTags::testNegativeIntegersWrittenToFile PASSED 268s tests/AlignedSegment_test.py::TestTags::testSetTag PASSED 268s tests/AlignedSegment_test.py::TestTags::testTagParsing PASSED 268s tests/AlignedSegment_test.py::TestTags::testTagsUpdatingFloat PASSED 268s tests/AlignedSegment_test.py::TestCopy::testCopy PASSED 268s tests/AlignedSegment_test.py::TestCopy::testDeepCopy PASSED 268s tests/AlignedSegment_test.py::TestSetTagGetTag::test_set_array_tag_invalid_typecode PASSED 268s tests/AlignedSegment_test.py::TestSetTagGetTag::test_set_array_tag_invalid_value_type PASSED 268s tests/AlignedSegment_test.py::TestSetTagGetTag::test_set_tag_invalid_value_type PASSED 268s tests/AlignedSegment_test.py::TestSetTagGetTag::test_set_tag_with_A PASSED 268s tests/AlignedSegment_test.py::TestSetTagGetTag::test_set_tag_with_C PASSED 268s tests/AlignedSegment_test.py::TestSetTagGetTag::test_set_tag_with_H PASSED 268s tests/AlignedSegment_test.py::TestSetTagGetTag::test_set_tag_with_I PASSED 268s tests/AlignedSegment_test.py::TestSetTagGetTag::test_set_tag_with_S PASSED 268s tests/AlignedSegment_test.py::TestSetTagGetTag::test_set_tag_with_a PASSED 268s tests/AlignedSegment_test.py::TestSetTagGetTag::test_set_tag_with_automated_type_detection PASSED 268s tests/AlignedSegment_test.py::TestSetTagGetTag::test_set_tag_with_c PASSED 268s tests/AlignedSegment_test.py::TestSetTagGetTag::test_set_tag_with_d PASSED 268s tests/AlignedSegment_test.py::TestSetTagGetTag::test_set_tag_with_f PASSED 268s tests/AlignedSegment_test.py::TestSetTagGetTag::test_set_tag_with_i PASSED 268s tests/AlignedSegment_test.py::TestSetTagGetTag::test_set_tag_with_s PASSED 268s tests/AlignedSegment_test.py::TestSetTagsGetTag::test_set_array_tag_invalid_typecode PASSED 268s tests/AlignedSegment_test.py::TestSetTagsGetTag::test_set_array_tag_invalid_value_type PASSED 268s tests/AlignedSegment_test.py::TestSetTagsGetTag::test_set_tag_invalid_value_type PASSED 268s tests/AlignedSegment_test.py::TestSetTagsGetTag::test_set_tag_with_A PASSED 268s tests/AlignedSegment_test.py::TestSetTagsGetTag::test_set_tag_with_C PASSED 268s tests/AlignedSegment_test.py::TestSetTagsGetTag::test_set_tag_with_H PASSED 268s tests/AlignedSegment_test.py::TestSetTagsGetTag::test_set_tag_with_I PASSED 268s tests/AlignedSegment_test.py::TestSetTagsGetTag::test_set_tag_with_S PASSED 268s tests/AlignedSegment_test.py::TestSetTagsGetTag::test_set_tag_with_a PASSED 268s tests/AlignedSegment_test.py::TestSetTagsGetTag::test_set_tag_with_automated_type_detection PASSED 268s tests/AlignedSegment_test.py::TestSetTagsGetTag::test_set_tag_with_c PASSED 268s tests/AlignedSegment_test.py::TestSetTagsGetTag::test_set_tag_with_d PASSED 268s tests/AlignedSegment_test.py::TestSetTagsGetTag::test_set_tag_with_f PASSED 268s tests/AlignedSegment_test.py::TestSetTagsGetTag::test_set_tag_with_i PASSED 268s tests/AlignedSegment_test.py::TestSetTagsGetTag::test_set_tag_with_s PASSED 268s tests/AlignedSegment_test.py::TestEnums::test_cigar_enums_are_defined PASSED 268s tests/AlignedSegment_test.py::TestEnums::test_sam_flags_are_defined PASSED 268s tests/AlignedSegment_test.py::TestBuildingReadsWithoutHeader::test_read_can_be_constructed_without_header PASSED 268s tests/AlignedSegment_test.py::TestBuildingReadsWithoutHeader::test_read_can_be_written_to_file PASSED 268s tests/AlignedSegment_test.py::TestBuildingReadsWithoutHeader::test_reference_id_can_be_set PASSED 268s tests/AlignedSegment_test.py::TestBuildingReadsWithoutHeader::test_reference_name_is_not_available PASSED 268s tests/AlignedSegment_test.py::TestForwardStrandValues::test_qualities_are_complemented PASSED 268s tests/AlignedSegment_test.py::TestForwardStrandValues::test_sequence_is_complemented PASSED 268s tests/AlignedSegment_test.py::TestExportImport::test_dict_export PASSED 268s tests/AlignedSegment_test.py::TestExportImport::test_string_export PASSED 268s tests/AlignedSegment_test.py::TestExportImport::test_string_export_import_with_tags PASSED 268s tests/AlignedSegment_test.py::TestExportImport::test_string_export_import_without_tags PASSED 268s tests/AlignedSegment_test.py::TestExportImport::test_to_string_without_alignment_file PASSED 268s tests/AlignmentFileHeader_test.py::TestHeaderConstruction::test_header_constructed_from_dict PASSED 268s tests/AlignmentFileHeader_test.py::TestHeaderConstruction::test_header_constructed_from_header PASSED 268s tests/AlignmentFileHeader_test.py::TestHeaderConstruction::test_header_constructed_from_references PASSED 268s tests/AlignmentFileHeader_test.py::TestHeaderConstruction::test_header_constructed_from_references_without_text PASSED 268s tests/AlignmentFileHeader_test.py::TestHeaderConstruction::test_header_constructed_from_text PASSED 268s tests/AlignmentFileHeader_test.py::TestHeaderSAM::test_dictionary_access_works PASSED 268s tests/AlignmentFileHeader_test.py::TestHeaderSAM::test_dictionary_contains_works PASSED 268s tests/AlignmentFileHeader_test.py::TestHeaderSAM::test_dictionary_get_works PASSED 268s tests/AlignmentFileHeader_test.py::TestHeaderSAM::test_dictionary_keys_works PASSED 268s tests/AlignmentFileHeader_test.py::TestHeaderSAM::test_dictionary_len_works PASSED 268s tests/AlignmentFileHeader_test.py::TestHeaderSAM::test_dictionary_setting_raises_error PASSED 268s tests/AlignmentFileHeader_test.py::TestHeaderSAM::test_dictionary_values_works PASSED 268s tests/AlignmentFileHeader_test.py::TestHeaderSAM::test_header_content_is_as_expected PASSED 268s tests/AlignmentFileHeader_test.py::TestHeaderSAM::test_name_mapping PASSED 268s tests/AlignmentFileHeader_test.py::TestHeaderSAM::test_text_access_works PASSED 268s tests/AlignmentFileHeader_test.py::TestHeaderBAM::test_dictionary_access_works PASSED 268s tests/AlignmentFileHeader_test.py::TestHeaderBAM::test_dictionary_contains_works PASSED 268s tests/AlignmentFileHeader_test.py::TestHeaderBAM::test_dictionary_get_works PASSED 268s tests/AlignmentFileHeader_test.py::TestHeaderBAM::test_dictionary_keys_works PASSED 268s tests/AlignmentFileHeader_test.py::TestHeaderBAM::test_dictionary_len_works PASSED 268s tests/AlignmentFileHeader_test.py::TestHeaderBAM::test_dictionary_setting_raises_error PASSED 268s tests/AlignmentFileHeader_test.py::TestHeaderBAM::test_dictionary_values_works PASSED 268s tests/AlignmentFileHeader_test.py::TestHeaderBAM::test_header_content_is_as_expected PASSED 268s tests/AlignmentFileHeader_test.py::TestHeaderBAM::test_name_mapping PASSED 268s tests/AlignmentFileHeader_test.py::TestHeaderBAM::test_text_access_works PASSED 268s tests/AlignmentFileHeader_test.py::TestHeaderCRAM::test_dictionary_access_works PASSED 268s tests/AlignmentFileHeader_test.py::TestHeaderCRAM::test_dictionary_contains_works PASSED 268s tests/AlignmentFileHeader_test.py::TestHeaderCRAM::test_dictionary_get_works PASSED 268s tests/AlignmentFileHeader_test.py::TestHeaderCRAM::test_dictionary_keys_works PASSED 268s tests/AlignmentFileHeader_test.py::TestHeaderCRAM::test_dictionary_len_works PASSED 268s tests/AlignmentFileHeader_test.py::TestHeaderCRAM::test_dictionary_setting_raises_error PASSED 268s tests/AlignmentFileHeader_test.py::TestHeaderCRAM::test_dictionary_values_works PASSED 268s tests/AlignmentFileHeader_test.py::TestHeaderCRAM::test_header_content_is_as_expected PASSED 268s tests/AlignmentFileHeader_test.py::TestHeaderCRAM::test_name_mapping PASSED 268s tests/AlignmentFileHeader_test.py::TestHeaderCRAM::test_text_access_works PASSED 268s tests/AlignmentFileHeader_test.py::TestHeaderWriteRead::test_BAM PASSED 268s tests/AlignmentFileHeader_test.py::TestHeaderWriteRead::test_CRAM PASSED 268s tests/AlignmentFileHeader_test.py::TestHeaderWriteRead::test_SAM PASSED 268s tests/AlignmentFileHeader_test.py::TestHeaderLargeContigs::test_BAM PASSED 268s tests/AlignmentFileHeader_test.py::TestHeaderLargeContigs::test_CRAM [E::cram_index_load] Could not retrieve index file for '/tmp/autopkgtest.aieV1T/build.anP/src/tests/tmp/pysamtests_tmp_check_read_write_eghu45tn' 268s [W::sanitise_SQ_lines] Header @SQ length mismatch for ref chr1, 2147483647 vs 1575 268s [E::cram_index_load] Could not retrieve index file for '/tmp/autopkgtest.aieV1T/build.anP/src/tests/tmp/pysamtests_tmp_check_read_write_ngyxixs2' 268s PASSED 268s tests/AlignmentFileHeader_test.py::TestHeaderLargeContigs::test_SAM PASSED 268s tests/AlignmentFilePileup_test.py::TestPileupReadSelection::test_all_stepper PASSED 268s tests/AlignmentFilePileup_test.py::TestPileupReadSelection::test_ignore_overlaps PASSED 268s tests/AlignmentFilePileup_test.py::TestPileupReadSelection::test_samtools_stepper PASSED 268s tests/AlignmentFilePileup_test.py::TestPileupReadSelection::test_samtools_stepper_base_quality_threshold PASSED 268s tests/AlignmentFilePileup_test.py::TestPileupReadSelection::test_samtools_stepper_ignore_orphans PASSED 268s tests/AlignmentFilePileup_test.py::TestPileupReadSelection::test_samtools_stepper_mapping_quality_threshold PASSED 268s tests/AlignmentFilePileup_test.py::TestPileupReadSelection::test_samtools_stepper_redo_baq PASSED 268s tests/AlignmentFilePileup_test.py::TestPileupReadSelectionFastafile::test_all_stepper PASSED 268s tests/AlignmentFilePileup_test.py::TestPileupReadSelectionFastafile::test_ignore_overlaps PASSED 269s tests/AlignmentFilePileup_test.py::TestPileupReadSelectionFastafile::test_samtools_stepper PASSED 269s tests/AlignmentFilePileup_test.py::TestPileupReadSelectionFastafile::test_samtools_stepper_base_quality_threshold PASSED 269s tests/AlignmentFilePileup_test.py::TestPileupReadSelectionFastafile::test_samtools_stepper_ignore_orphans PASSED 269s tests/AlignmentFilePileup_test.py::TestPileupReadSelectionFastafile::test_samtools_stepper_mapping_quality_threshold PASSED 269s tests/AlignmentFilePileup_test.py::TestPileupReadSelectionFastafile::test_samtools_stepper_redo_baq PASSED 269s tests/AlignmentFilePileup_test.py::TestPileupQueryPosition::testPileup PASSED 269s tests/AlignmentFilePileup_test.py::TestPileupObjects::testIteratorOutOfScope SKIPPED 269s tests/AlignmentFilePileup_test.py::TestPileupObjects::testPileupColumn PASSED 269s tests/AlignmentFilePileup_test.py::TestIteratorColumnBAM::testInverse PASSED 269s tests/AlignmentFilePileup_test.py::TestIteratorColumnBAM::testIterateAll PASSED 269s tests/AlignmentFilePileup_test.py::TestIteratorColumnBAM::testIteratePerContig PASSED 269s tests/AlignmentFilePileup_test.py::TestIteratorColumnBAM::testIterateRanges PASSED 269s tests/AlignmentFilePileup_test.py::TestIteratorColumnBAM::testIterateTruncate PASSED 269s tests/AlignmentFilePileup_test.py::TestIteratorColumn2::testAccessOnClosedIterator PASSED 269s tests/AlignmentFilePileup_test.py::TestIteratorColumn2::testStart PASSED 269s tests/AlignmentFilePileup_test.py::TestIteratorColumn2::testStr PASSED 269s tests/AlignmentFilePileup_test.py::TestIteratorColumn2::testTruncate PASSED 269s tests/AlignmentFilePileup_test.py::PileUpColumnTests::test_pileup_depths_are_equal PASSED 269s tests/AlignmentFilePileup_test.py::PileUpColumnTests::test_pileup_mapping_qualities_are_equal PASSED 269s tests/AlignmentFilePileup_test.py::PileUpColumnTests::test_pileup_query_bases_with_reference_are_equal PASSED 269s tests/AlignmentFilePileup_test.py::PileUpColumnTests::test_pileup_query_bases_without_reference_are_equal PASSED 269s tests/AlignmentFilePileup_test.py::PileUpColumnTests::test_pileup_query_qualities_are_equal PASSED 269s tests/AlignmentFilePileup_test.py::PileUpColumnTests::test_pileup_query_qualities_from_pileups_are_equal PASSED 269s tests/AlignmentFile_test.py::BasicTestBAMFromFetch::testARQueryLength PASSED 269s tests/AlignmentFile_test.py::BasicTestBAMFromFetch::testARcigar PASSED 269s tests/AlignmentFile_test.py::BasicTestBAMFromFetch::testARcigarstring PASSED 269s tests/AlignmentFile_test.py::BasicTestBAMFromFetch::testARflag PASSED 269s tests/AlignmentFile_test.py::BasicTestBAMFromFetch::testARmapq PASSED 269s tests/AlignmentFile_test.py::BasicTestBAMFromFetch::testARmpos PASSED 269s tests/AlignmentFile_test.py::BasicTestBAMFromFetch::testARmrnm PASSED 269s tests/AlignmentFile_test.py::BasicTestBAMFromFetch::testARpos PASSED 269s tests/AlignmentFile_test.py::BasicTestBAMFromFetch::testARqname PASSED 269s tests/AlignmentFile_test.py::BasicTestBAMFromFetch::testARqqual PASSED 269s tests/AlignmentFile_test.py::BasicTestBAMFromFetch::testARqual PASSED 269s tests/AlignmentFile_test.py::BasicTestBAMFromFetch::testARquery PASSED 269s tests/AlignmentFile_test.py::BasicTestBAMFromFetch::testARrname PASSED 269s tests/AlignmentFile_test.py::BasicTestBAMFromFetch::testARseq PASSED 269s tests/AlignmentFile_test.py::BasicTestBAMFromFetch::testOpt PASSED 269s tests/AlignmentFile_test.py::BasicTestBAMFromFetch::testPairedBools PASSED 269s tests/AlignmentFile_test.py::BasicTestBAMFromFetch::testPresentOptionalFields PASSED 269s tests/AlignmentFile_test.py::BasicTestBAMFromFetch::testTags PASSED 269s tests/AlignmentFile_test.py::BasicTestSAMFromFetch::testARQueryLength PASSED 269s tests/AlignmentFile_test.py::BasicTestSAMFromFetch::testARcigar PASSED 269s tests/AlignmentFile_test.py::BasicTestSAMFromFetch::testARcigarstring PASSED 269s tests/AlignmentFile_test.py::BasicTestSAMFromFetch::testARflag PASSED 269s tests/AlignmentFile_test.py::BasicTestSAMFromFetch::testARmapq PASSED 269s tests/AlignmentFile_test.py::BasicTestSAMFromFetch::testARmpos PASSED 269s tests/AlignmentFile_test.py::BasicTestSAMFromFetch::testARmrnm PASSED 269s tests/AlignmentFile_test.py::BasicTestSAMFromFetch::testARpos PASSED 269s tests/AlignmentFile_test.py::BasicTestSAMFromFetch::testARqname PASSED 269s tests/AlignmentFile_test.py::BasicTestSAMFromFetch::testARqqual PASSED 269s tests/AlignmentFile_test.py::BasicTestSAMFromFetch::testARqual PASSED 269s tests/AlignmentFile_test.py::BasicTestSAMFromFetch::testARquery PASSED 269s tests/AlignmentFile_test.py::BasicTestSAMFromFetch::testARrname PASSED 269s tests/AlignmentFile_test.py::BasicTestSAMFromFetch::testARseq PASSED 269s tests/AlignmentFile_test.py::BasicTestSAMFromFetch::testOpt PASSED 269s tests/AlignmentFile_test.py::BasicTestSAMFromFetch::testPairedBools PASSED 269s tests/AlignmentFile_test.py::BasicTestSAMFromFetch::testPresentOptionalFields PASSED 269s tests/AlignmentFile_test.py::BasicTestSAMFromFetch::testTags PASSED 270s tests/AlignmentFile_test.py::BasicTestCRAMFromFetch::testARQueryLength PASSED 270s tests/AlignmentFile_test.py::BasicTestCRAMFromFetch::testARcigar PASSED 270s tests/AlignmentFile_test.py::BasicTestCRAMFromFetch::testARcigarstring PASSED 271s tests/AlignmentFile_test.py::BasicTestCRAMFromFetch::testARflag PASSED 271s tests/AlignmentFile_test.py::BasicTestCRAMFromFetch::testARmapq PASSED 271s tests/AlignmentFile_test.py::BasicTestCRAMFromFetch::testARmpos PASSED 272s tests/AlignmentFile_test.py::BasicTestCRAMFromFetch::testARmrnm PASSED 272s tests/AlignmentFile_test.py::BasicTestCRAMFromFetch::testARpos PASSED 272s tests/AlignmentFile_test.py::BasicTestCRAMFromFetch::testARqname PASSED 273s tests/AlignmentFile_test.py::BasicTestCRAMFromFetch::testARqqual PASSED 273s tests/AlignmentFile_test.py::BasicTestCRAMFromFetch::testARqual PASSED 273s tests/AlignmentFile_test.py::BasicTestCRAMFromFetch::testARquery PASSED 274s tests/AlignmentFile_test.py::BasicTestCRAMFromFetch::testARrname PASSED 274s tests/AlignmentFile_test.py::BasicTestCRAMFromFetch::testARseq PASSED 274s tests/AlignmentFile_test.py::BasicTestCRAMFromFetch::testOpt PASSED 275s tests/AlignmentFile_test.py::BasicTestCRAMFromFetch::testPairedBools PASSED 275s tests/AlignmentFile_test.py::BasicTestCRAMFromFetch::testPresentOptionalFields PASSED 275s tests/AlignmentFile_test.py::BasicTestCRAMFromFetch::testTags PASSED 275s tests/AlignmentFile_test.py::BasicTestSAMFromFilename::testARQueryLength PASSED 275s tests/AlignmentFile_test.py::BasicTestSAMFromFilename::testARcigar PASSED 275s tests/AlignmentFile_test.py::BasicTestSAMFromFilename::testARcigarstring PASSED 275s tests/AlignmentFile_test.py::BasicTestSAMFromFilename::testARflag PASSED 275s tests/AlignmentFile_test.py::BasicTestSAMFromFilename::testARmapq PASSED 275s tests/AlignmentFile_test.py::BasicTestSAMFromFilename::testARmpos PASSED 275s tests/AlignmentFile_test.py::BasicTestSAMFromFilename::testARmrnm PASSED 275s tests/AlignmentFile_test.py::BasicTestSAMFromFilename::testARpos PASSED 275s tests/AlignmentFile_test.py::BasicTestSAMFromFilename::testARqname PASSED 275s tests/AlignmentFile_test.py::BasicTestSAMFromFilename::testARqqual PASSED 275s tests/AlignmentFile_test.py::BasicTestSAMFromFilename::testARqual PASSED 275s tests/AlignmentFile_test.py::BasicTestSAMFromFilename::testARquery PASSED 275s tests/AlignmentFile_test.py::BasicTestSAMFromFilename::testARrname PASSED 275s tests/AlignmentFile_test.py::BasicTestSAMFromFilename::testARseq PASSED 275s tests/AlignmentFile_test.py::BasicTestSAMFromFilename::testOpt PASSED 275s tests/AlignmentFile_test.py::BasicTestSAMFromFilename::testPairedBools PASSED 275s tests/AlignmentFile_test.py::BasicTestSAMFromFilename::testPresentOptionalFields PASSED 275s tests/AlignmentFile_test.py::BasicTestSAMFromFilename::testTags PASSED 275s tests/AlignmentFile_test.py::BasicTestCRAMFromFilename::testARQueryLength PASSED 276s tests/AlignmentFile_test.py::BasicTestCRAMFromFilename::testARcigar PASSED 276s tests/AlignmentFile_test.py::BasicTestCRAMFromFilename::testARcigarstring PASSED 276s tests/AlignmentFile_test.py::BasicTestCRAMFromFilename::testARflag PASSED 277s tests/AlignmentFile_test.py::BasicTestCRAMFromFilename::testARmapq PASSED 277s tests/AlignmentFile_test.py::BasicTestCRAMFromFilename::testARmpos PASSED 278s tests/AlignmentFile_test.py::BasicTestCRAMFromFilename::testARmrnm PASSED 278s tests/AlignmentFile_test.py::BasicTestCRAMFromFilename::testARpos PASSED 278s tests/AlignmentFile_test.py::BasicTestCRAMFromFilename::testARqname PASSED 278s tests/AlignmentFile_test.py::BasicTestCRAMFromFilename::testARqqual PASSED 279s tests/AlignmentFile_test.py::BasicTestCRAMFromFilename::testARqual PASSED 279s tests/AlignmentFile_test.py::BasicTestCRAMFromFilename::testARquery PASSED 279s tests/AlignmentFile_test.py::BasicTestCRAMFromFilename::testARrname PASSED 280s tests/AlignmentFile_test.py::BasicTestCRAMFromFilename::testARseq PASSED 280s tests/AlignmentFile_test.py::BasicTestCRAMFromFilename::testOpt PASSED 280s tests/AlignmentFile_test.py::BasicTestCRAMFromFilename::testPairedBools PASSED 281s tests/AlignmentFile_test.py::BasicTestCRAMFromFilename::testPresentOptionalFields PASSED 281s tests/AlignmentFile_test.py::BasicTestCRAMFromFilename::testTags PASSED 281s tests/AlignmentFile_test.py::BasicTestBAMFromFilename::testARQueryLength PASSED 281s tests/AlignmentFile_test.py::BasicTestBAMFromFilename::testARcigar PASSED 281s tests/AlignmentFile_test.py::BasicTestBAMFromFilename::testARcigarstring PASSED 281s tests/AlignmentFile_test.py::BasicTestBAMFromFilename::testARflag PASSED 281s tests/AlignmentFile_test.py::BasicTestBAMFromFilename::testARmapq PASSED 281s tests/AlignmentFile_test.py::BasicTestBAMFromFilename::testARmpos PASSED 281s tests/AlignmentFile_test.py::BasicTestBAMFromFilename::testARmrnm PASSED 281s tests/AlignmentFile_test.py::BasicTestBAMFromFilename::testARpos PASSED 281s tests/AlignmentFile_test.py::BasicTestBAMFromFilename::testARqname PASSED 281s tests/AlignmentFile_test.py::BasicTestBAMFromFilename::testARqqual PASSED 281s tests/AlignmentFile_test.py::BasicTestBAMFromFilename::testARqual PASSED 281s tests/AlignmentFile_test.py::BasicTestBAMFromFilename::testARquery PASSED 281s tests/AlignmentFile_test.py::BasicTestBAMFromFilename::testARrname PASSED 281s tests/AlignmentFile_test.py::BasicTestBAMFromFilename::testARseq PASSED 281s tests/AlignmentFile_test.py::BasicTestBAMFromFilename::testOpt PASSED 281s tests/AlignmentFile_test.py::BasicTestBAMFromFilename::testPairedBools PASSED 281s tests/AlignmentFile_test.py::BasicTestBAMFromFilename::testPresentOptionalFields PASSED 281s tests/AlignmentFile_test.py::BasicTestBAMFromFilename::testTags PASSED 281s tests/AlignmentFile_test.py::BasicTestBAMFromFile::testARQueryLength PASSED 281s tests/AlignmentFile_test.py::BasicTestBAMFromFile::testARcigar PASSED 281s tests/AlignmentFile_test.py::BasicTestBAMFromFile::testARcigarstring PASSED 281s tests/AlignmentFile_test.py::BasicTestBAMFromFile::testARflag PASSED 281s tests/AlignmentFile_test.py::BasicTestBAMFromFile::testARmapq PASSED 281s tests/AlignmentFile_test.py::BasicTestBAMFromFile::testARmpos PASSED 281s tests/AlignmentFile_test.py::BasicTestBAMFromFile::testARmrnm PASSED 281s tests/AlignmentFile_test.py::BasicTestBAMFromFile::testARpos PASSED 281s tests/AlignmentFile_test.py::BasicTestBAMFromFile::testARqname PASSED 281s tests/AlignmentFile_test.py::BasicTestBAMFromFile::testARqqual PASSED 281s tests/AlignmentFile_test.py::BasicTestBAMFromFile::testARqual PASSED 281s tests/AlignmentFile_test.py::BasicTestBAMFromFile::testARquery PASSED 281s tests/AlignmentFile_test.py::BasicTestBAMFromFile::testARrname PASSED 281s tests/AlignmentFile_test.py::BasicTestBAMFromFile::testARseq PASSED 281s tests/AlignmentFile_test.py::BasicTestBAMFromFile::testOpt PASSED 281s tests/AlignmentFile_test.py::BasicTestBAMFromFile::testPairedBools PASSED 281s tests/AlignmentFile_test.py::BasicTestBAMFromFile::testPresentOptionalFields PASSED 281s tests/AlignmentFile_test.py::BasicTestBAMFromFile::testTags PASSED 281s tests/AlignmentFile_test.py::BasicTestBAMFromFileNo::testARQueryLength PASSED 281s tests/AlignmentFile_test.py::BasicTestBAMFromFileNo::testARcigar PASSED 281s tests/AlignmentFile_test.py::BasicTestBAMFromFileNo::testARcigarstring PASSED 281s tests/AlignmentFile_test.py::BasicTestBAMFromFileNo::testARflag PASSED 281s tests/AlignmentFile_test.py::BasicTestBAMFromFileNo::testARmapq PASSED 281s tests/AlignmentFile_test.py::BasicTestBAMFromFileNo::testARmpos PASSED 281s tests/AlignmentFile_test.py::BasicTestBAMFromFileNo::testARmrnm PASSED 281s tests/AlignmentFile_test.py::BasicTestBAMFromFileNo::testARpos PASSED 281s tests/AlignmentFile_test.py::BasicTestBAMFromFileNo::testARqname PASSED 281s tests/AlignmentFile_test.py::BasicTestBAMFromFileNo::testARqqual PASSED 281s tests/AlignmentFile_test.py::BasicTestBAMFromFileNo::testARqual PASSED 281s tests/AlignmentFile_test.py::BasicTestBAMFromFileNo::testARquery PASSED 281s tests/AlignmentFile_test.py::BasicTestBAMFromFileNo::testARrname PASSED 281s tests/AlignmentFile_test.py::BasicTestBAMFromFileNo::testARseq PASSED 281s tests/AlignmentFile_test.py::BasicTestBAMFromFileNo::testOpt PASSED 281s tests/AlignmentFile_test.py::BasicTestBAMFromFileNo::testPairedBools PASSED 281s tests/AlignmentFile_test.py::BasicTestBAMFromFileNo::testPresentOptionalFields PASSED 281s tests/AlignmentFile_test.py::BasicTestBAMFromFileNo::testTags PASSED 281s tests/AlignmentFile_test.py::BasicTestSAMFromFile::testARQueryLength PASSED 281s tests/AlignmentFile_test.py::BasicTestSAMFromFile::testARcigar PASSED 281s tests/AlignmentFile_test.py::BasicTestSAMFromFile::testARcigarstring PASSED 281s tests/AlignmentFile_test.py::BasicTestSAMFromFile::testARflag PASSED 281s tests/AlignmentFile_test.py::BasicTestSAMFromFile::testARmapq PASSED 281s tests/AlignmentFile_test.py::BasicTestSAMFromFile::testARmpos PASSED 281s tests/AlignmentFile_test.py::BasicTestSAMFromFile::testARmrnm PASSED 281s tests/AlignmentFile_test.py::BasicTestSAMFromFile::testARpos PASSED 281s tests/AlignmentFile_test.py::BasicTestSAMFromFile::testARqname PASSED 281s tests/AlignmentFile_test.py::BasicTestSAMFromFile::testARqqual PASSED 281s tests/AlignmentFile_test.py::BasicTestSAMFromFile::testARqual PASSED 281s tests/AlignmentFile_test.py::BasicTestSAMFromFile::testARquery PASSED 281s tests/AlignmentFile_test.py::BasicTestSAMFromFile::testARrname PASSED 281s tests/AlignmentFile_test.py::BasicTestSAMFromFile::testARseq PASSED 281s tests/AlignmentFile_test.py::BasicTestSAMFromFile::testOpt PASSED 281s tests/AlignmentFile_test.py::BasicTestSAMFromFile::testPairedBools PASSED 281s tests/AlignmentFile_test.py::BasicTestSAMFromFile::testPresentOptionalFields PASSED 281s tests/AlignmentFile_test.py::BasicTestSAMFromFile::testTags PASSED 281s tests/AlignmentFile_test.py::BasicTestSAMFromFileNo::testARQueryLength PASSED 281s tests/AlignmentFile_test.py::BasicTestSAMFromFileNo::testARcigar PASSED 281s tests/AlignmentFile_test.py::BasicTestSAMFromFileNo::testARcigarstring PASSED 281s tests/AlignmentFile_test.py::BasicTestSAMFromFileNo::testARflag PASSED 281s tests/AlignmentFile_test.py::BasicTestSAMFromFileNo::testARmapq PASSED 281s tests/AlignmentFile_test.py::BasicTestSAMFromFileNo::testARmpos PASSED 281s tests/AlignmentFile_test.py::BasicTestSAMFromFileNo::testARmrnm PASSED 281s tests/AlignmentFile_test.py::BasicTestSAMFromFileNo::testARpos PASSED 281s tests/AlignmentFile_test.py::BasicTestSAMFromFileNo::testARqname PASSED 281s tests/AlignmentFile_test.py::BasicTestSAMFromFileNo::testARqqual PASSED 281s tests/AlignmentFile_test.py::BasicTestSAMFromFileNo::testARqual PASSED 281s tests/AlignmentFile_test.py::BasicTestSAMFromFileNo::testARquery PASSED 281s tests/AlignmentFile_test.py::BasicTestSAMFromFileNo::testARrname PASSED 281s tests/AlignmentFile_test.py::BasicTestSAMFromFileNo::testARseq PASSED 281s tests/AlignmentFile_test.py::BasicTestSAMFromFileNo::testOpt PASSED 281s tests/AlignmentFile_test.py::BasicTestSAMFromFileNo::testPairedBools PASSED 281s tests/AlignmentFile_test.py::BasicTestSAMFromFileNo::testPresentOptionalFields PASSED 281s tests/AlignmentFile_test.py::BasicTestSAMFromFileNo::testTags PASSED 281s tests/AlignmentFile_test.py::BasicTestCRAMFromFile::testARQueryLength PASSED 282s tests/AlignmentFile_test.py::BasicTestCRAMFromFile::testARcigar PASSED 282s tests/AlignmentFile_test.py::BasicTestCRAMFromFile::testARcigarstring PASSED 282s tests/AlignmentFile_test.py::BasicTestCRAMFromFile::testARflag PASSED 282s tests/AlignmentFile_test.py::BasicTestCRAMFromFile::testARmapq PASSED 283s tests/AlignmentFile_test.py::BasicTestCRAMFromFile::testARmpos PASSED 283s tests/AlignmentFile_test.py::BasicTestCRAMFromFile::testARmrnm PASSED 283s tests/AlignmentFile_test.py::BasicTestCRAMFromFile::testARpos PASSED 284s tests/AlignmentFile_test.py::BasicTestCRAMFromFile::testARqname PASSED 284s tests/AlignmentFile_test.py::BasicTestCRAMFromFile::testARqqual PASSED 284s tests/AlignmentFile_test.py::BasicTestCRAMFromFile::testARqual PASSED 285s tests/AlignmentFile_test.py::BasicTestCRAMFromFile::testARquery PASSED 285s tests/AlignmentFile_test.py::BasicTestCRAMFromFile::testARrname PASSED 285s tests/AlignmentFile_test.py::BasicTestCRAMFromFile::testARseq PASSED 285s tests/AlignmentFile_test.py::BasicTestCRAMFromFile::testOpt PASSED 286s tests/AlignmentFile_test.py::BasicTestCRAMFromFile::testPairedBools PASSED 286s tests/AlignmentFile_test.py::BasicTestCRAMFromFile::testPresentOptionalFields PASSED 287s tests/AlignmentFile_test.py::BasicTestCRAMFromFile::testTags PASSED 287s tests/AlignmentFile_test.py::BasicTestCRAMFromFileNo::testARQueryLength PASSED 287s tests/AlignmentFile_test.py::BasicTestCRAMFromFileNo::testARcigar PASSED 288s tests/AlignmentFile_test.py::BasicTestCRAMFromFileNo::testARcigarstring PASSED 288s tests/AlignmentFile_test.py::BasicTestCRAMFromFileNo::testARflag PASSED 288s tests/AlignmentFile_test.py::BasicTestCRAMFromFileNo::testARmapq PASSED 288s tests/AlignmentFile_test.py::BasicTestCRAMFromFileNo::testARmpos PASSED 289s tests/AlignmentFile_test.py::BasicTestCRAMFromFileNo::testARmrnm PASSED 289s tests/AlignmentFile_test.py::BasicTestCRAMFromFileNo::testARpos PASSED 289s tests/AlignmentFile_test.py::BasicTestCRAMFromFileNo::testARqname PASSED 290s tests/AlignmentFile_test.py::BasicTestCRAMFromFileNo::testARqqual PASSED 290s tests/AlignmentFile_test.py::BasicTestCRAMFromFileNo::testARqual PASSED 290s tests/AlignmentFile_test.py::BasicTestCRAMFromFileNo::testARquery PASSED 291s tests/AlignmentFile_test.py::BasicTestCRAMFromFileNo::testARrname PASSED 291s tests/AlignmentFile_test.py::BasicTestCRAMFromFileNo::testARseq PASSED 291s tests/AlignmentFile_test.py::BasicTestCRAMFromFileNo::testOpt PASSED 291s tests/AlignmentFile_test.py::BasicTestCRAMFromFileNo::testPairedBools PASSED 292s tests/AlignmentFile_test.py::BasicTestCRAMFromFileNo::testPresentOptionalFields PASSED 292s tests/AlignmentFile_test.py::BasicTestCRAMFromFileNo::testTags PASSED 292s tests/AlignmentFile_test.py::BasicTestSAMFromStringIO::testARQueryLength PASSED 292s tests/AlignmentFile_test.py::BasicTestSAMFromStringIO::testARcigar PASSED 292s tests/AlignmentFile_test.py::BasicTestSAMFromStringIO::testARcigarstring PASSED 292s tests/AlignmentFile_test.py::BasicTestSAMFromStringIO::testARflag PASSED 292s tests/AlignmentFile_test.py::BasicTestSAMFromStringIO::testARmapq PASSED 292s tests/AlignmentFile_test.py::BasicTestSAMFromStringIO::testARmpos PASSED 292s tests/AlignmentFile_test.py::BasicTestSAMFromStringIO::testARmrnm PASSED 292s tests/AlignmentFile_test.py::BasicTestSAMFromStringIO::testARpos PASSED 292s tests/AlignmentFile_test.py::BasicTestSAMFromStringIO::testARqname PASSED 292s tests/AlignmentFile_test.py::BasicTestSAMFromStringIO::testARqqual PASSED 292s tests/AlignmentFile_test.py::BasicTestSAMFromStringIO::testARqual PASSED 292s tests/AlignmentFile_test.py::BasicTestSAMFromStringIO::testARquery PASSED 292s tests/AlignmentFile_test.py::BasicTestSAMFromStringIO::testARrname PASSED 292s tests/AlignmentFile_test.py::BasicTestSAMFromStringIO::testARseq PASSED 292s tests/AlignmentFile_test.py::BasicTestSAMFromStringIO::testOpt PASSED 292s tests/AlignmentFile_test.py::BasicTestSAMFromStringIO::testPairedBools PASSED 292s tests/AlignmentFile_test.py::BasicTestSAMFromStringIO::testPresentOptionalFields PASSED 292s tests/AlignmentFile_test.py::BasicTestSAMFromStringIO::testRaises PASSED 292s tests/AlignmentFile_test.py::BasicTestSAMFromStringIO::testTags PASSED 292s tests/AlignmentFile_test.py::TestIO::testBAM2BAM PASSED 292s tests/AlignmentFile_test.py::TestIO::testBAM2SAM PASSED 292s tests/AlignmentFile_test.py::TestIO::testBAMWithCSIIndex PASSED 292s tests/AlignmentFile_test.py::TestIO::testBAMWithShortBAI PASSED 292s tests/AlignmentFile_test.py::TestIO::testBAMWithoutAlignedSegments PASSED 293s tests/AlignmentFile_test.py::TestIO::testCRAM2BAM PASSED 294s tests/AlignmentFile_test.py::TestIO::testCRAM2CRAM PASSED 294s tests/AlignmentFile_test.py::TestIO::testCRAM2SAM PASSED 294s tests/AlignmentFile_test.py::TestIO::testEmptyBAM PASSED 294s tests/AlignmentFile_test.py::TestIO::testEmptyWithHeaderBAM PASSED 294s tests/AlignmentFile_test.py::TestIO::testFetchFromClosedFile PASSED 294s tests/AlignmentFile_test.py::TestIO::testFetchFromClosedFileObject PASSED 294s tests/AlignmentFile_test.py::TestIO::testHead PASSED 294s tests/AlignmentFile_test.py::TestIO::testOpenFromFilename PASSED 294s tests/AlignmentFile_test.py::TestIO::testReadBamWithoutTargetNames PASSED 294s tests/AlignmentFile_test.py::TestIO::testReadSamWithoutTargetNames PASSED 294s tests/AlignmentFile_test.py::TestIO::testReadingFromFileWithoutIndex PASSED 294s tests/AlignmentFile_test.py::TestIO::testSAM2BAM PASSED 295s tests/AlignmentFile_test.py::TestIO::testSAM2CRAM PASSED 295s tests/AlignmentFile_test.py::TestIO::testSAM2SAM PASSED 295s tests/AlignmentFile_test.py::TestIO::testSAM2SAMWithoutHeader PASSED 295s tests/AlignmentFile_test.py::TestIO::testWriteUncompressedBAMFile PASSED 295s tests/AlignmentFile_test.py::TestIO::test_accessing_attributes_in_closed_file_raises_errors PASSED 295s tests/AlignmentFile_test.py::TestIO::test_fail_read_sam_without_header PASSED 295s tests/AlignmentFile_test.py::TestIO::test_fail_when_reading_unformatted_files PASSED 295s tests/AlignmentFile_test.py::TestIO::test_fetch_by_tid PASSED 295s tests/AlignmentFile_test.py::TestIO::test_header_available_after_closing_file PASSED 295s tests/AlignmentFile_test.py::TestIO::test_pass_read_sam_with_header_without_header_check PASSED 295s tests/AlignmentFile_test.py::TestIO::test_pass_read_sam_without_header_with_refs PASSED 295s tests/AlignmentFile_test.py::TestIO::test_reference_name_available_after_closing_file PASSED 295s tests/AlignmentFile_test.py::TestIO::test_write_bam_to_unknown_path_fails PASSED 295s tests/AlignmentFile_test.py::TestAutoDetect::testBAM PASSED 295s tests/AlignmentFile_test.py::TestAutoDetect::testCRAM [E::hts_open_format] Failed to open file "missing_directory/new_file.bam" : No such file or directory 296s PASSED 296s tests/AlignmentFile_test.py::TestAutoDetect::testSAM PASSED 296s tests/AlignmentFile_test.py::TestIteratorRowBAM::testIteratePerContig PASSED 296s tests/AlignmentFile_test.py::TestIteratorRowBAM::testIterateRanges PASSED 296s tests/AlignmentFile_test.py::TestIteratorRowAllBAM::testIterate PASSED 297s tests/AlignmentFile_test.py::TestIteratorRowCRAM::testIteratePerContig PASSED 309s tests/AlignmentFile_test.py::TestIteratorRowCRAM::testIterateRanges PASSED 310s tests/AlignmentFile_test.py::TestIteratorRowCRAMWithReferenceFilename::testIteratePerContig PASSED 321s tests/AlignmentFile_test.py::TestIteratorRowCRAMWithReferenceFilename::testIterateRanges PASSED 321s tests/AlignmentFile_test.py::TestFloatTagBug::testFloatTagBug PASSED 321s tests/AlignmentFile_test.py::TestLargeFieldBug::testLargeFileBug PASSED 321s tests/AlignmentFile_test.py::TestClipping::testClipping PASSED 321s tests/AlignmentFile_test.py::TestUnmappedReadsRetrieval::test_fetch_from_bam_with_until_eof_reads_unmapped_reads PASSED 321s tests/AlignmentFile_test.py::TestUnmappedReadsRetrieval::test_fetch_from_sam_with_until_eof_reads_unmapped_reads [E::hts_open_format] Failed to open file "exdoesntexist.bam" : No such file or directory 321s [E::hts_open_format] Failed to open file "exdoesntexist.sam" : No such file or directory 321s [E::hts_open_format] Failed to open file "exdoesntexist.bam" : No such file or directory 321s [E::hts_open_format] Failed to open file "exdoesntexist.sam" : No such file or directory 321s PASSED 321s tests/AlignmentFile_test.py::TestUnmappedReadsRetrieval::test_fetch_with_asterisk_only_returns_unmapped_reads PASSED 321s tests/AlignmentFile_test.py::TestUnmappedReadsRetrieval::test_fetch_with_asterisk_only_returns_unmapped_reads_by_contig PASSED 321s tests/AlignmentFile_test.py::TestContextManager::testManager PASSED 321s tests/AlignmentFile_test.py::TestMultiThread::testSingleThreadEqualsMultithread PASSED 321s tests/AlignmentFile_test.py::TestExceptions::testBackwardsOrderNewFormat PASSED 321s tests/AlignmentFile_test.py::TestExceptions::testBackwardsOrderOldFormat PASSED 321s tests/AlignmentFile_test.py::TestExceptions::testBadContig PASSED 321s tests/AlignmentFile_test.py::TestExceptions::testMeaninglessCrap PASSED 321s tests/AlignmentFile_test.py::TestExceptions::testMissingFile PASSED 321s tests/AlignmentFile_test.py::TestExceptions::testOutOfRangNewFormat PASSED 321s tests/AlignmentFile_test.py::TestExceptions::testOutOfRangeLargeNewFormat PASSED 321s tests/AlignmentFile_test.py::TestExceptions::testOutOfRangeLargeOldFormat PASSED 321s tests/AlignmentFile_test.py::TestExceptions::testOutOfRangeNegativeNewFormat PASSED 321s tests/AlignmentFile_test.py::TestExceptions::testOutOfRangeNegativeOldFormat PASSED 321s tests/AlignmentFile_test.py::TestExceptions::testZeroToZero PASSED 321s tests/AlignmentFile_test.py::TestWrongFormat::testOpenBamAsSam PASSED 321s tests/AlignmentFile_test.py::TestWrongFormat::testOpenFastaAsBam PASSED 321s tests/AlignmentFile_test.py::TestWrongFormat::testOpenFastaAsSam PASSED 321s tests/AlignmentFile_test.py::TestWrongFormat::testOpenSamAsBam PASSED 321s tests/AlignmentFile_test.py::TestRegionParsing::test_dash_in_chr PASSED 321s tests/AlignmentFile_test.py::TestDeNovoConstruction::testBAMWholeFile PASSED 321s tests/AlignmentFile_test.py::TestDeNovoConstruction::test_pass_if_reads_binary_equal PASSED 321s tests/AlignmentFile_test.py::TestEmptyHeader::testEmptyHeader PASSED 321s tests/AlignmentFile_test.py::TestEmptyHeader::test_bam_without_seq_in_header PASSED 321s tests/AlignmentFile_test.py::TestEmptyHeader::test_bam_without_seq_with_null_bytes_in_header PASSED 321s tests/AlignmentFile_test.py::TestMismatchingHeader::testMismatchingHeader PASSED 321s tests/AlignmentFile_test.py::TestHeaderWithProgramOptions::testHeader PASSED 321s tests/AlignmentFile_test.py::TestTruncatedBAM::testTruncatedBam2 PASSED 321s tests/AlignmentFile_test.py::TestTruncatedBAM::testTruncatedBamIterator [W::bam_hdr_read] EOF marker is absent. The input is probably truncated 321s [E::bgzf_read_block] Failed to read BGZF block data at offset 105176 expected 17578 bytes; hread returned 17094 321s [E::bgzf_read] Read block operation failed with error 4 after 0 of 4 bytes 321s PASSED 321s tests/AlignmentFile_test.py::TestCorruptBAM::testCorruptBamIterator PASSED 321s tests/AlignmentFile_test.py::TestBTagSam::testReadTags PASSED 321s tests/AlignmentFile_test.py::TestBTagSam::testReadWriteTags PASSED 321s tests/AlignmentFile_test.py::TestBTagBam::testReadTags PASSED 321s tests/AlignmentFile_test.py::TestBTagBam::testReadWriteTags PASSED 321s tests/AlignmentFile_test.py::TestDoubleFetchBAM::testDoubleFetch PASSED 321s tests/AlignmentFile_test.py::TestDoubleFetchBAM::testDoubleFetchUntilEOF PASSED 321s tests/AlignmentFile_test.py::TestDoubleFetchBAM::testDoubleFetchWithRegionFalseTrue PASSED 321s tests/AlignmentFile_test.py::TestDoubleFetchBAM::testDoubleFetchWithRegionTrueFalse PASSED 321s tests/AlignmentFile_test.py::TestDoubleFetchBAM::testDoubleFetchWithRegionTrueTrue PASSED 322s tests/AlignmentFile_test.py::TestDoubleFetchCRAM::testDoubleFetch PASSED 322s tests/AlignmentFile_test.py::TestDoubleFetchCRAM::testDoubleFetchUntilEOF PASSED 323s tests/AlignmentFile_test.py::TestDoubleFetchCRAM::testDoubleFetchWithRegionFalseTrue PASSED 324s tests/AlignmentFile_test.py::TestDoubleFetchCRAM::testDoubleFetchWithRegionTrueFalse PASSED 325s tests/AlignmentFile_test.py::TestDoubleFetchCRAM::testDoubleFetchWithRegionTrueTrue PASSED 325s tests/AlignmentFile_test.py::TestDoubleFetchCRAMWithReference::testDoubleFetch PASSED 326s tests/AlignmentFile_test.py::TestDoubleFetchCRAMWithReference::testDoubleFetchUntilEOF PASSED 327s tests/AlignmentFile_test.py::TestDoubleFetchCRAMWithReference::testDoubleFetchWithRegionFalseTrue PASSED 327s tests/AlignmentFile_test.py::TestDoubleFetchCRAMWithReference::testDoubleFetchWithRegionTrueFalse PASSED 328s tests/AlignmentFile_test.py::TestDoubleFetchCRAMWithReference::testDoubleFetchWithRegionTrueTrue PASSED 328s tests/AlignmentFile_test.py::TestRemoteFileHTTP::testFetch PASSED 329s tests/AlignmentFile_test.py::TestRemoteFileHTTP::testFetchAll PASSED 329s tests/AlignmentFile_test.py::TestRemoteFileHTTP::testView PASSED 329s tests/AlignmentFile_test.py::TestLargeOptValues::testBAM PASSED 329s tests/AlignmentFile_test.py::TestLargeOptValues::testSAM PASSED 329s tests/AlignmentFile_test.py::TestCountCoverage::test_count_coverage_counts_as_expected PASSED 329s tests/AlignmentFile_test.py::TestCountCoverage::test_count_coverage_nofilter PASSED 329s tests/AlignmentFile_test.py::TestCountCoverage::test_count_coverage_quality_filter PASSED 329s tests/AlignmentFile_test.py::TestCountCoverage::test_count_coverage_read_all PASSED 329s tests/AlignmentFile_test.py::TestCountCoverage::test_count_coverage_read_callback PASSED 329s tests/AlignmentFile_test.py::TestCountCoverage::test_count_coverage_with_coordinates_works PASSED 329s tests/AlignmentFile_test.py::TestCountCoverage::test_count_coverage_without_coordinates_fails PASSED 329s tests/AlignmentFile_test.py::TestCountCoverage::test_count_coverage_wrong_coordinates_fails PASSED 329s tests/AlignmentFile_test.py::TestCountCoverage::test_counting_the_same_region_works PASSED 329s tests/AlignmentFile_test.py::TestFindIntrons::test_all PASSED 329s tests/AlignmentFile_test.py::TestFindIntrons::test_first PASSED 329s tests/AlignmentFile_test.py::TestFindIntrons::test_total PASSED 329s tests/AlignmentFile_test.py::TestLogging::testFail1 PASSED 329s tests/AlignmentFile_test.py::TestLogging::testNoFail1 PASSED 329s tests/AlignmentFile_test.py::TestLogging::testNoFail2 PASSED 330s tests/AlignmentFile_test.py::TestAlignmentFileUtilityFunctions::testCount PASSED 330s tests/AlignmentFile_test.py::TestAlignmentFileUtilityFunctions::testIndexStats PASSED 331s tests/AlignmentFile_test.py::TestAlignmentFileUtilityFunctions::testMate PASSED 331s tests/AlignmentFile_test.py::TestMappedUnmapped::test_counts_of_mapped_and_unmapped_are_correct [E::hts_open_format] Failed to open file "missing_file" : No such file or directory 331s PASSED 331s tests/AlignmentFile_test.py::TestMappedUnmapped::test_counts_of_mapped_and_unmapped_are_correct_per_chromosome PASSED 331s tests/AlignmentFile_test.py::TestSamtoolsProxy::testIndex PASSED 331s tests/AlignmentFile_test.py::TestSamtoolsProxy::testSort PASSED[E::hts_open_format] Failed to open file "missing_file" : No such file or directory 331s 331s tests/AlignmentFile_test.py::TestSamtoolsProxy::testView PASSED 331s tests/AlignmentFile_test.py::TestAlignmentFileIndex::testIndex PASSED 331s tests/AlignmentFile_test.py::TestExplicitIndex::testExplicitIndexBAM PASSED 331s tests/AlignmentFile_test.py::TestExplicitIndex::testExplicitIndexCRAM PASSED 331s tests/AlignmentFile_test.py::TestExplicitIndex::testRemoteExplicitIndexBAM PASSED 331s tests/AlignmentFile_test.py::TestVerbosity::testVerbosity PASSED 331s tests/AlignmentFile_test.py::TestSanityCheckingBAM::test_empty_read_gives_value_error PASSED 331s tests/AlignmentFile_test.py::TestLargeCigar::test_reading_writing_bam PASSED 331s tests/AlignmentFile_test.py::TestLargeCigar::test_reading_writing_cram SKIPPED 332s tests/AlignmentFile_test.py::TestLargeCigar::test_reading_writing_sam PASSED 332s tests/StreamFiledescriptors_test.py::StreamTest::test_samtools_processing SKIPPED 332s tests/StreamFiledescriptors_test.py::StreamTest::test_text_processing PASSED 332s tests/VariantFile_test.py::TestMissingGenotypes::testVCF PASSED 332s tests/VariantFile_test.py::TestMissingGenotypes::testVCFGZ PASSED 332s tests/VariantFile_test.py::TestMissingSamples::testVCF PASSED 332s tests/VariantFile_test.py::TestMissingSamples::testVCFGZ PASSED[W::bcf_hdr_check_sanity] PL should be declared as Number=G 332s 332s tests/VariantFile_test.py::TestMissingSamplesFixed::testVCF PASSED 332s tests/VariantFile_test.py::TestMissingSamplesFixed::testVCFGZ PASSED 332s tests/VariantFile_test.py::TestOpening::testDetectBCF PASSED[W::vcf_parse] Contig 'M' is not defined in the header. (Quick workaround: index the file with tabix.) 332s [W::vcf_parse] Contig '17' is not defined in the header. (Quick workaround: index the file with tabix.) 332s [W::vcf_parse] Contig '20' is not defined in the header. (Quick workaround: index the file with tabix.) 332s [E::hts_open_format] Failed to open file "missing_file.vcf" : No such file or directory 332s [E::hts_open_format] Failed to open file "missing_file.vcf.gz" : No such file or directory 332s 332s tests/VariantFile_test.py::TestOpening::testDetectVCF PASSED 332s tests/VariantFile_test.py::TestOpening::testDetectVCFGZ PASSED 332s tests/VariantFile_test.py::TestOpening::testEmptyFileVCF PASSED 332s tests/VariantFile_test.py::TestOpening::testEmptyFileVCFFromPath PASSED 332s tests/VariantFile_test.py::TestOpening::testEmptyFileVCFGZOnlyHeader PASSED 332s tests/VariantFile_test.py::TestOpening::testEmptyFileVCFGZWithIndex PASSED 332s tests/VariantFile_test.py::TestOpening::testEmptyFileVCFGZWithoutIndex PASSED 332s tests/VariantFile_test.py::TestOpening::testEmptyFileVCFOnlyHeader PASSED 332s tests/VariantFile_test.py::TestOpening::testMissingFile PASSED 332s tests/VariantFile_test.py::TestOpening::testMissingFileVCFGZ PASSED 332s tests/VariantFile_test.py::TestIndexFormatsVCF::test_bcf_with_csi_index PASSED 332s tests/VariantFile_test.py::TestIndexFormatsVCF::test_bcf_with_prebuilt_csi PASSED 332s tests/VariantFile_test.py::TestIndexFormatsVCF::test_bcf_with_tbi_index_will_produce_csi PASSED 332s tests/VariantFile_test.py::TestIndexFormatsVCF::test_vcf_with_csi_index PASSED 332s tests/VariantFile_test.py::TestIndexFormatsVCF::test_vcf_with_tbi_index PASSED 332s tests/VariantFile_test.py::TestHeader::testIterator PASSED 332s tests/VariantFile_test.py::TestHeader::testStr PASSED 332s tests/VariantFile_test.py::TestParsing::testAlleles PASSED 332s tests/VariantFile_test.py::TestParsing::testAllelesVariantTypes PASSED 332s tests/VariantFile_test.py::TestParsing::testAlt PASSED 332s tests/VariantFile_test.py::TestParsing::testChrom PASSED 332s tests/VariantFile_test.py::TestParsing::testChromFromPath PASSED 332s tests/VariantFile_test.py::TestParsing::testFilter PASSED 332s tests/VariantFile_test.py::TestParsing::testFormat PASSED 332s tests/VariantFile_test.py::TestParsing::testId PASSED 332s tests/VariantFile_test.py::TestParsing::testInfo PASSED 332s tests/VariantFile_test.py::TestParsing::testPos PASSED 332s tests/VariantFile_test.py::TestParsing::testQual PASSED 332s tests/VariantFile_test.py::TestParsing::testRef PASSED 332s tests/VariantFile_test.py::TestParsing::testSampleAlleleIndices PASSED 332s tests/VariantFile_test.py::TestParsing::testSampleAlleles PASSED 332s tests/VariantFile_test.py::TestParsing::testSampleFormats PASSED 332s tests/VariantFile_test.py::TestParsing::testStart PASSED 332s tests/VariantFile_test.py::TestParsing::testStop PASSED 332s tests/VariantFile_test.py::TestIndexFilename::testOpen PASSED 332s tests/VariantFile_test.py::TestConstructionVCFWithContigs::testBase PASSED 332s tests/VariantFile_test.py::TestConstructionVCFWithContigs::testConstructionFromCopy PASSED 332s tests/VariantFile_test.py::TestConstructionVCFWithContigs::testConstructionWithLines PASSED 332s tests/VariantFile_test.py::TestConstructionVCFWithContigs::testConstructionWithRecords PASSED 332s tests/VariantFile_test.py::TestConstructionVCFGZWithContigs::testBase PASSED 332s tests/VariantFile_test.py::TestConstructionVCFGZWithContigs::testConstructionFromCopy PASSED 332s tests/VariantFile_test.py::TestConstructionVCFGZWithContigs::testConstructionWithLines PASSED 332s tests/VariantFile_test.py::TestConstructionVCFGZWithContigs::testConstructionWithRecords PASSED 332s tests/VariantFile_test.py::TestConstructionVCFGZWithoutContigs::testBase PASSED 332s tests/VariantFile_test.py::TestConstructionVCFGZWithoutContigs::testConstructionFromCopy PASSED 332s tests/VariantFile_test.py::TestConstructionVCFGZWithoutContigs::testConstructionWithLines PASSED 332s tests/VariantFile_test.py::TestConstructionVCFGZWithoutContigs::testConstructionWithRecords PASSED 332s tests/VariantFile_test.py::TestSettingRecordValues::testBase PASSED 332s tests/VariantFile_test.py::TestSettingRecordValues::testGenotype (0, 0) 332s PASSED 332s tests/VariantFile_test.py::TestSettingRecordValues::testSetQual [W::vcf_parse] Contig 'M' is not defined in the header. (Quick workaround: index the file with tabix.) 332s [W::vcf_parse] Contig 'M' is not defined in the header. (Quick workaround: index the file with tabix.) 332s PASSED 332s tests/VariantFile_test.py::TestMultiThreading::testNoMultiThreadingWithIgnoreTruncation PASSED 332s tests/VariantFile_test.py::TestMultiThreading::testSingleThreadEqualsMultithreadResult [E::idx_find_and_load] Could not retrieve index file for '/tmp/autopkgtest.aieV1T/build.anP/src/tests/tmp/pysamtests_tmp_testSingleThreadEqualsMultithreadResult_aw1tpv7o.bcf' 332s PASSED 332s tests/VariantFile_test.py::TestSubsetting::testSubsetting PASSED 332s tests/VariantFile_test.py::TestVCFVersions::test_all_records_can_be_fetched [W::vcf_parse] Contig 'M' is not defined in the header. (Quick workaround: index the file with tabix.) 332s [W::vcf_parse] Contig '17' is not defined in the header. (Quick workaround: index the file with tabix.) 332s [W::vcf_parse] Contig '20' is not defined in the header. (Quick workaround: index the file with tabix.) 332s [W::vcf_parse] Contig 'M' is not defined in the header. (Quick workaround: index the file with tabix.) 332s [W::vcf_parse] Contig '17' is not defined in the header. (Quick workaround: index the file with tabix.) 332s [W::vcf_parse] Contig '20' is not defined in the header. (Quick workaround: index the file with tabix.) 332s PASSED 332s tests/VariantFile_test.py::TestUnicode::test_record_with_unicode PASSED 332s tests/VariantRecord_test.py::test_ascii_annotation_can_be_added PASSED 332s tests/VariantRecord_test.py::test_ascii_annotation_with_variable_length_can_be_added PASSED 332s tests/VariantRecord_test.py::test_unicode_annotation_can_be_added PASSED 332s tests/VariantRecord_test.py::test_set_sample_alleles PASSED 332s tests/VariantRecord_test.py::test_repeated_new_record PASSED 332s tests/compile_test.py::test_bam SKIPPED (no pyximport) 332s tests/compile_test.py::test_gtf SKIPPED (no pyximport) 332s tests/faidx_test.py::TestFastaFile::testFetch PASSED 332s tests/faidx_test.py::TestFastaFile::testFetchErrors PASSED 332s tests/faidx_test.py::TestFastaFile::testLength PASSED 332s tests/faidx_test.py::TestFastaFile::testOutOfRangeAccess PASSED 332s tests/faidx_test.py::TestFastaFile::testSequenceLengths PASSED 332s tests/faidx_test.py::TestFastaFile::test_fetch_with_region_and_contig_raises_exception PASSED 332s tests/faidx_test.py::TestFastaFile::test_fetch_with_region_is_equivalent PASSED 332s tests/faidx_test.py::TestFastaFilePathIndex::test_open_file_with_explicit_abritrarily_named_index_succeeds PASSED 332s tests/faidx_test.py::TestFastaFilePathIndex::test_open_file_with_explicit_index_succeeds PASSED 332s tests/faidx_test.py::TestFastaFilePathIndex::test_open_file_without_index_succeeds PASSED 332s tests/faidx_test.py::TestFastaFilePathIndex::test_raise_exception_if_index_is_missing PASSED 332s tests/faidx_test.py::TestFastaFilePathIndexCompressed::test_open_file_with_explicit_abritrarily_named_index_succeeds PASSED 332s tests/faidx_test.py::TestFastaFilePathIndexCompressed::test_open_file_with_explicit_index_succeeds PASSED 332s tests/faidx_test.py::TestFastaFilePathIndexCompressed::test_open_file_without_index_succeeds PASSED 332s tests/faidx_test.py::TestFastaFilePathIndexCompressed::test_raise_exception_if_index_is_missing PASSED 332s tests/faidx_test.py::TestFastxFileFastq::testCounts PASSED 332s tests/faidx_test.py::TestFastxFileFastq::testManager PASSED 332s tests/faidx_test.py::TestFastxFileFastq::testMissingFile PASSED 332s tests/faidx_test.py::TestFastxFileFastq::testSequence PASSED 332s tests/faidx_test.py::TestFastqFileFastq::testCounts PASSED 332s tests/faidx_test.py::TestFastqFileFastq::testManager PASSED 332s tests/faidx_test.py::TestFastqFileFastq::testMissingFile PASSED 332s tests/faidx_test.py::TestFastqFileFastq::testSequence PASSED 332s tests/faidx_test.py::TestFastxFileFasta::testCounts PASSED 332s tests/faidx_test.py::TestFastxFileFasta::testManager PASSED 332s tests/faidx_test.py::TestFastxFileFasta::testMissingFile PASSED 332s tests/faidx_test.py::TestFastxFileFasta::testSequence PASSED 332s tests/faidx_test.py::TestFastxFileFastqStream::testCounts PASSED 332s tests/faidx_test.py::TestFastxFileFastqStream::testManager PASSED 332s tests/faidx_test.py::TestFastxFileFastqStream::testMissingFile PASSED 332s tests/faidx_test.py::TestFastxFileFastqStream::testSequence PASSED 332s tests/faidx_test.py::TestFastxFileWithEmptySequence::testIteration PASSED 334s tests/faidx_test.py::TestRemoteFileFTP::testFTPView PASSED 334s tests/faidx_test.py::TestRemoteFileFTP::test_sequence_lengths_are_available PASSED 334s tests/faidx_test.py::TestFastqRecord::test_fastx_record_can_be_created_from_scratch PASSED 334s tests/faidx_test.py::TestFastqRecord::test_fastx_record_comment_can_be_None PASSED 334s tests/faidx_test.py::TestFastqRecord::test_fastx_record_comment_can_be_modified PASSED 334s tests/faidx_test.py::TestFastqRecord::test_fastx_record_fail_if_name_is_None PASSED 334s tests/faidx_test.py::TestFastqRecord::test_fastx_record_fail_if_quality_is_wrong_length PASSED 334s tests/faidx_test.py::TestFastqRecord::test_fastx_record_name_can_be_modified PASSED 334s tests/faidx_test.py::TestFastqRecord::test_fastx_record_quality_can_be_modified PASSED 334s tests/faidx_test.py::TestFastqRecord::test_fastx_record_sequence_can_be_modified PASSED 334s tests/faidx_test.py::TestFastqProxy::test_fastq_proxy_instantiation_raises_error PASSED 334s tests/linking_test.py::TestLinking::test_package_can_be_installed SKIPPED 334s tests/linking_test.py::TestLinkWithRpath::test_package_can_be_installed SKIPPED 334s tests/linking_test.py::TestLinkWithRpath::test_package_tests_pass SKIPPED 334s tests/linking_test.py::TestLinkWithoutRpath::test_package_can_be_installed SKIPPED 334s tests/linking_test.py::TestLinkWithoutRpath::test_package_tests_fail_on_import SKIPPED 334s tests/linking_test.py::TestLinkWithoutRpath::test_package_tests_pass_if_ld_library_path_set SKIPPED 335s tests/samtools_test.py::SamtoolsTest::testStatements PASSED 335s tests/samtools_test.py::SamtoolsTest::testUsage SKIPPED (skipping us...) 335s tests/samtools_test.py::EmptyIndexTest::testEmptyIndex PASSED 335s tests/samtools_test.py::EmptyIndexTest::testEmptyIndexWithExtraArg PASSED 335s tests/samtools_test.py::EmptyIndexTest::testEmptyIndexWithExtraFlag PASSED 335s tests/samtools_test.py::TestReturnType::testReturnValueData PASSED 335s tests/samtools_test.py::TestReturnType::testReturnValueString PASSED 335s tests/samtools_test.py::StdoutTest::testDoubleCalling PASSED 335s tests/samtools_test.py::StdoutTest::testSaveStdout PASSED 335s tests/samtools_test.py::StdoutTest::testWithRedirectedStdout PASSED 335s tests/samtools_test.py::StdoutTest::testWithoutRedirectedStdout PASSED 336s tests/samtools_test.py::PysamTest::testStatements PASSED 336s tests/samtools_test.py::PysamTest::testUsage SKIPPED (skipping usage...) 336s tests/tabix_test.py::TestIndexing::test_indexing_to_custom_location_works PASSED 336s tests/tabix_test.py::TestIndexing::test_indexing_with_explict_columns_works PASSED 336s tests/tabix_test.py::TestIndexing::test_indexing_with_lineskipping_works PASSED 336s tests/tabix_test.py::TestIndexing::test_indexing_with_preset_works PASSED 336s tests/tabix_test.py::TestCompression::testCompression PASSED 337s tests/tabix_test.py::TestCompression::testIndexPresetCompressed PASSED 337s tests/tabix_test.py::TestCompression::testIndexPresetUncompressed PASSED 337s tests/tabix_test.py::TestCompressionSam::testCompression PASSED 337s tests/tabix_test.py::TestCompressionSam::testIndexPresetCompressed PASSED 337s tests/tabix_test.py::TestCompressionSam::testIndexPresetUncompressed PASSED 337s tests/tabix_test.py::TestCompressionBed::testCompression PASSED 337s tests/tabix_test.py::TestCompressionBed::testIndexPresetCompressed PASSED 337s tests/tabix_test.py::TestCompressionBed::testIndexPresetUncompressed PASSED 337s tests/tabix_test.py::TestCompressionVCF::testCompression PASSED 337s tests/tabix_test.py::TestCompressionVCF::testIndexPresetCompressed PASSED 337s tests/tabix_test.py::TestCompressionVCF::testIndexPresetUncompressed PASSED 337s tests/tabix_test.py::TestGZFile::testAll PASSED 337s tests/tabix_test.py::TestIterationWithoutComments::testAll PASSED 337s tests/tabix_test.py::TestIterationWithoutComments::testGetContigs PASSED 337s tests/tabix_test.py::TestIterationWithoutComments::testHeader PASSED 337s tests/tabix_test.py::TestIterationWithoutComments::testInvalidIntervals PASSED 337s tests/tabix_test.py::TestIterationWithoutComments::testPerContig PASSED 337s tests/tabix_test.py::TestIterationWithoutComments::testPerContig2 PASSED 337s tests/tabix_test.py::TestIterationWithoutComments::testPerContigFromStart PASSED 337s tests/tabix_test.py::TestIterationWithoutComments::testPerContigToEnd PASSED 337s tests/tabix_test.py::TestIterationWithoutComments::testPerInterval PASSED 337s tests/tabix_test.py::TestIterationWithoutComments::testRegionStrings PASSED 337s tests/tabix_test.py::TestIterationWithoutComments::testReopening PASSED 337s tests/tabix_test.py::TestIterationWithComments::testAll PASSED 337s tests/tabix_test.py::TestIterationWithComments::testGetContigs PASSED 337s tests/tabix_test.py::TestIterationWithComments::testHeader PASSED 337s tests/tabix_test.py::TestIterationWithComments::testInvalidIntervals PASSED 337s tests/tabix_test.py::TestIterationWithComments::testPerContig PASSED 337s tests/tabix_test.py::TestIterationWithComments::testPerContig2 PASSED 337s tests/tabix_test.py::TestIterationWithComments::testPerContigFromStart PASSED 337s tests/tabix_test.py::TestIterationWithComments::testPerContigToEnd PASSED 337s tests/tabix_test.py::TestIterationWithComments::testPerInterval PASSED 337s tests/tabix_test.py::TestIterationWithComments::testRegionStrings PASSED 337s tests/tabix_test.py::TestIterationWithComments::testReopening PASSED 337s tests/tabix_test.py::TestIterators::testClosedFile PASSED 337s tests/tabix_test.py::TestIterators::testClosedFileIteration PASSED 337s tests/tabix_test.py::TestIterators::testIteration PASSED 337s tests/tabix_test.py::TestIteratorsGenericCompressed::testClosedFile PASSED 337s tests/tabix_test.py::TestIteratorsGenericCompressed::testClosedFileIteration PASSED 337s tests/tabix_test.py::TestIteratorsGenericCompressed::testIteration PASSED 337s tests/tabix_test.py::TestIteratorsFileCompressed::testClosedFile PASSED 337s tests/tabix_test.py::TestIteratorsFileCompressed::testClosedFileIteration PASSED 337s tests/tabix_test.py::TestIteratorsFileCompressed::testIteration PASSED 337s tests/tabix_test.py::TestIteratorsFileUncompressed::testClosedFile PASSED 337s tests/tabix_test.py::TestIteratorsFileUncompressed::testClosedFileIteration PASSED 338s tests/tabix_test.py::TestIteratorsFileUncompressed::testIteration PASSED 338s tests/tabix_test.py::TestIterationMalformattedGTFFiles::testGTFTooFewFields PASSED 338s tests/tabix_test.py::TestIterationMalformattedGTFFiles::testGTFTooManyFields PASSED 338s tests/tabix_test.py::TestBed::testRead PASSED 338s tests/tabix_test.py::TestBed::testWrite PASSED 338s tests/tabix_test.py::TestUnicode::testFromTabix PASSED 338s tests/tabix_test.py::TestUnicode::testFromVCF PASSED 338s tests/tabix_test.py::TestVCFFromTabix::testRead PASSED 338s tests/tabix_test.py::TestVCFFromTabix::testWrite PASSED 338s tests/tabix_test.py::TestVCFFromVCF::testConnecting PASSED 338s tests/tabix_test.py::TestVCFFromVCF::testParsing PASSED 338s tests/tabix_test.py::VCFFromTabixTest_18::testRead PASSED 338s tests/tabix_test.py::VCFFromTabixTest_18::testWrite PASSED 338s tests/tabix_test.py::VCFFromVCFTest_18::testConnecting PASSED 338s tests/tabix_test.py::VCFFromVCFTest_18::testParsing PASSED 338s tests/tabix_test.py::VCFFromTabixTest_15::testRead PASSED 338s tests/tabix_test.py::VCFFromTabixTest_15::testWrite PASSED 338s tests/tabix_test.py::VCFFromVCFTest_15::testConnecting PASSED 339s tests/tabix_test.py::VCFFromVCFTest_15::testParsing PASSED 339s tests/tabix_test.py::VCFFromTabixTest_22::testRead PASSED 339s tests/tabix_test.py::VCFFromTabixTest_22::testWrite PASSED 339s tests/tabix_test.py::VCFFromVCFTest_22::testConnecting PASSED 340s tests/tabix_test.py::VCFFromVCFTest_22::testParsing PASSED 340s tests/tabix_test.py::VCFFromTabixTest_23::testRead PASSED 340s tests/tabix_test.py::VCFFromTabixTest_23::testWrite PASSED 340s tests/tabix_test.py::VCFFromVCFTest_23::testConnecting PASSED 340s tests/tabix_test.py::VCFFromVCFTest_23::testParsing PASSED 340s tests/tabix_test.py::VCFFromTabixTest_21::testRead PASSED 340s tests/tabix_test.py::VCFFromTabixTest_21::testWrite PASSED 340s tests/tabix_test.py::VCFFromVCFTest_21::testConnecting PASSED 340s tests/tabix_test.py::VCFFromVCFTest_21::testParsing PASSED 340s tests/tabix_test.py::VCFFromTabixTest_issue85::testRead PASSED 340s tests/tabix_test.py::VCFFromTabixTest_issue85::testWrite PASSED 340s tests/tabix_test.py::VCFFromVCFTest_issue85::testConnecting PASSED 340s tests/tabix_test.py::VCFFromVCFTest_issue85::testParsing PASSED 340s tests/tabix_test.py::VCFFromTabixTest_vcf_v42::testRead PASSED 340s tests/tabix_test.py::VCFFromTabixTest_vcf_v42::testWrite PASSED 340s tests/tabix_test.py::VCFFromVCFTest_vcf_v42::testConnecting PASSED 340s tests/tabix_test.py::VCFFromVCFTest_vcf_v42::testParsing PASSED 340s tests/tabix_test.py::VCFFromTabixTest_16::testRead PASSED 340s tests/tabix_test.py::VCFFromTabixTest_16::testWrite PASSED 340s tests/tabix_test.py::VCFFromVCFTest_16::testConnecting PASSED 340s tests/tabix_test.py::VCFFromVCFTest_16::testParsing PASSED 340s tests/tabix_test.py::VCFFromTabixTest_20::testRead PASSED 340s tests/tabix_test.py::VCFFromTabixTest_20::testWrite PASSED 340s tests/tabix_test.py::VCFFromVCFTest_20::testConnecting PASSED 340s tests/tabix_test.py::VCFFromVCFTest_20::testParsing PASSED 341s tests/tabix_test.py::VCFFromTabixTest_4::testRead PASSED 341s tests/tabix_test.py::VCFFromTabixTest_4::testWrite PASSED 341s tests/tabix_test.py::VCFFromVCFTest_4::testConnecting PASSED 341s tests/tabix_test.py::VCFFromVCFTest_4::testParsing PASSED 341s tests/tabix_test.py::VCFFromTabixTest_5::testRead PASSED 341s tests/tabix_test.py::VCFFromTabixTest_5::testWrite PASSED 341s tests/tabix_test.py::VCFFromVCFTest_5::testConnecting PASSED 341s tests/tabix_test.py::VCFFromVCFTest_5::testParsing PASSED 341s tests/tabix_test.py::VCFFromTabixTest_3::testRead PASSED 341s tests/tabix_test.py::VCFFromTabixTest_3::testWrite PASSED 341s tests/tabix_test.py::VCFFromVCFTest_3::testConnecting PASSED 341s tests/tabix_test.py::VCFFromVCFTest_3::testParsing PASSED 342s tests/tabix_test.py::VCFFromTabixTest_10::testRead PASSED 342s tests/tabix_test.py::VCFFromTabixTest_10::testWrite PASSED 342s tests/tabix_test.py::VCFFromVCFTest_10::testConnecting PASSED 342s tests/tabix_test.py::VCFFromVCFTest_10::testParsing PASSED 342s tests/tabix_test.py::VCFFromTabixTest_24::testRead PASSED 342s tests/tabix_test.py::VCFFromTabixTest_24::testWrite PASSED 342s tests/tabix_test.py::VCFFromVCFTest_24::testConnecting PASSED 342s tests/tabix_test.py::VCFFromVCFTest_24::testParsing PASSED 342s tests/tabix_test.py::VCFFromTabixTest_12::testRead PASSED 342s tests/tabix_test.py::VCFFromTabixTest_12::testWrite PASSED 342s tests/tabix_test.py::VCFFromVCFTest_12::testConnecting PASSED 342s tests/tabix_test.py::VCFFromVCFTest_12::testParsing PASSED 342s tests/tabix_test.py::VCFFromTabixTest_8::testRead PASSED 342s tests/tabix_test.py::VCFFromTabixTest_8::testWrite PASSED 342s tests/tabix_test.py::VCFFromVCFTest_8::testConnecting PASSED 342s tests/tabix_test.py::VCFFromVCFTest_8::testParsing PASSED 342s tests/tabix_test.py::VCFFromTabixTest_13::testRead PASSED 342s tests/tabix_test.py::VCFFromTabixTest_13::testWrite PASSED 342s tests/tabix_test.py::VCFFromVCFTest_13::testConnecting PASSED 342s tests/tabix_test.py::VCFFromVCFTest_13::testParsing PASSED 343s tests/tabix_test.py::VCFFromTabixTest_6::testRead PASSED 343s tests/tabix_test.py::VCFFromTabixTest_6::testWrite PASSED 343s tests/tabix_test.py::VCFFromVCFTest_6::testConnecting PASSED 343s tests/tabix_test.py::VCFFromVCFTest_6::testParsing PASSED 343s tests/tabix_test.py::VCFFromTabixTest_2::testRead PASSED 343s tests/tabix_test.py::VCFFromTabixTest_2::testWrite PASSED 343s tests/tabix_test.py::VCFFromVCFTest_2::testConnecting PASSED 343s tests/tabix_test.py::VCFFromVCFTest_2::testParsing PASSED 344s tests/tabix_test.py::VCFFromTabixTest_9::testRead PASSED 344s tests/tabix_test.py::VCFFromTabixTest_9::testWrite PASSED 344s tests/tabix_test.py::VCFFromVCFTest_9::testConnecting PASSED 344s tests/tabix_test.py::VCFFromVCFTest_9::testParsing PASSED 344s tests/tabix_test.py::VCFFromTabixTest_7::testRead PASSED 344s tests/tabix_test.py::VCFFromTabixTest_7::testWrite PASSED 344s tests/tabix_test.py::VCFFromVCFTest_7::testConnecting PASSED 344s tests/tabix_test.py::VCFFromVCFTest_7::testParsing PASSED 345s tests/tabix_test.py::VCFFromTabixTest_11::testRead PASSED 345s tests/tabix_test.py::VCFFromTabixTest_11::testWrite PASSED 345s tests/tabix_test.py::VCFFromVCFTest_11::testConnecting PASSED 345s tests/tabix_test.py::VCFFromVCFTest_11::testParsing PASSED 345s tests/tabix_test.py::TestVCFFromVariantFile::testConnecting PASSED 345s tests/tabix_test.py::TestVCFFromVariantFile::testParsing [W::vcf_parse] Contig 'M' is not defined in the header. (Quick workaround: index the file with tabix.) 345s [W::vcf_parse] Contig '17' is not defined in the header. (Quick workaround: index the file with tabix.) 345s [W::vcf_parse] Contig '20' is not defined in the header. (Quick workaround: index the file with tabix.) 345s PASSED 345s tests/tabix_test.py::TestVCFFromVariantFile_18::testConnecting PASSED 345s tests/tabix_test.py::TestVCFFromVariantFile_18::testParsing [W::vcf_parse] Contig 'chr1' is not defined in the header. (Quick workaround: index the file with tabix.) 345s [W::vcf_parse_info] INFO 'DP' is not defined in the header, assuming Type=String 345s [W::vcf_parse_info] INFO 'AF1' is not defined in the header, assuming Type=String 345s [W::vcf_parse_info] INFO 'CI95' is not defined in the header, assuming Type=String 345s [W::vcf_parse_info] INFO 'DP4' is not defined in the header, assuming Type=String 345s [W::vcf_parse_info] INFO 'MQ' is not defined in the header, assuming Type=String 345s [W::vcf_parse_info] INFO 'PV4' is not defined in the header, assuming Type=String 345s [W::vcf_parse_format_dict2] FORMAT 'PL' at chr1:1281168 is not defined in the header, assuming Type=String 345s [W::vcf_parse_format_dict2] FORMAT 'GT' at chr1:1281168 is not defined in the header, assuming Type=String 345s [W::vcf_parse_format_dict2] FORMAT 'GQ' at chr1:1281168 is not defined in the header, assuming Type=String 345s [W::vcf_parse] Contig 'chr2a' is not defined in the header. (Quick workaround: index the file with tabix.) 345s [W::vcf_parse] Contig 'chr2b' is not defined in the header. (Quick workaround: index the file with tabix.) 345s [W::vcf_parse] Contig 'chr3' is not defined in the header. (Quick workaround: index the file with tabix.) 345s [W::vcf_parse] Contig 'chr4' is not defined in the header. (Quick workaround: index the file with tabix.) 345s [W::vcf_parse] Contig 'chr5' is not defined in the header. (Quick workaround: index the file with tabix.) 345s [W::vcf_parse] Contig 'chr6_cox_hap1' is not defined in the header. (Quick workaround: index the file with tabix.) 345s [W::vcf_parse] Contig 'chr6_qbl_hap2' is not defined in the header. (Quick workaround: index the file with tabix.) 345s [W::vcf_parse] Contig 'chr6' is not defined in the header. (Quick workaround: index the file with tabix.) 345s [W::vcf_parse] Contig 'chr7' is not defined in the header. (Quick workaround: index the file with tabix.) 345s [W::vcf_parse] Contig 'chr8' is not defined in the header. (Quick workaround: index the file with tabix.) 345s [W::vcf_parse] Contig 'chr9' is not defined in the header. (Quick workaround: index the file with tabix.) 345s [W::vcf_parse] Contig 'chr10' is not defined in the header. (Quick workaround: index the file with tabix.) 345s [W::vcf_parse] Contig 'chr11' is not defined in the header. (Quick workaround: index the file with tabix.) 345s [W::vcf_parse] Contig 'chr12' is not defined in the header. (Quick workaround: index the file with tabix.) 345s [W::vcf_parse] Contig 'chr13' is not defined in the header. (Quick workaround: index the file with tabix.) 345s [W::vcf_parse] Contig 'chr14' is not defined in the header. (Quick workaround: index the file with tabix.) 345s [W::vcf_parse] Contig 'chr15' is not defined in the header. (Quick workaround: index the file with tabix.) 345s [W::vcf_parse] Contig 'chr16' is not defined in the header. (Quick workaround: index the file with tabix.) 345s [W::vcf_parse] Contig 'chr17' is not defined in the header. (Quick workaround: index the file with tabix.) 345s PASSED 345s tests/tabix_test.py::TestVCFFromVariantFile_15::testConnecting PASSED 345s tests/tabix_test.py::TestVCFFromVariantFile_15::testParsing [W::vcf_parse] Contig '20' is not defined in the header. (Quick workaround: index the file with tabix.) 345s [W::vcf_parse_format_dict2] FORMAT 'GT' at 20:439104 is not defined in the header, assuming Type=String 346s PASSED 346s tests/tabix_test.py::TestVCFFromVariantFile_22::testConnecting PASSED 346s tests/tabix_test.py::TestVCFFromVariantFile_22::testParsing [W::vcf_parse] Contig 'chr1' is not defined in the header. (Quick workaround: index the file with tabix.) 346s [W::vcf_parse_info] INFO 'refseq.name' is not defined in the header, assuming Type=String 346s [W::vcf_parse_info] INFO 'refseq.positionType' is not defined in the header, assuming Type=String 347s [W::vcf_parse] Contig 'chr2' is not defined in the header. (Quick workaround: index the file with tabix.) 347s PASSED 347s tests/tabix_test.py::TestVCFFromVariantFile_23::testConnecting [W::bcf_hdr_check_sanity] GL should be declared as Number=G 347s PASSED 347s tests/tabix_test.py::TestVCFFromVariantFile_23::testParsing [W::vcf_parse_info] INFO 'sumGLbyD' is not defined in the header, assuming Type=String 347s PASSED 347s tests/tabix_test.py::TestVCFFromVariantFile_21::testConnecting [W::bcf_hdr_register_hrec] The definition of Flag "INFO/NotCalledInValidationSamples" is invalid, forcing Number=0 347s PASSED 347s tests/tabix_test.py::TestVCFFromVariantFile_21::testParsing [W::bcf_hdr_register_hrec] The definition of Flag "INFO/NotCalledInValidationSamples" is invalid, forcing Number=0 347s [W::vcf_parse] Contig '20' is not defined in the header. (Quick workaround: index the file with tabix.) 347s PASSED 347s tests/tabix_test.py::TestVCFFromVariantFile_issue85::testConnecting [E::bcf_hdr_parse] Could not parse the header, sample line not found 347s PASSED 347s tests/tabix_test.py::TestVCFFromVariantFile_issue85::testParsing PASSED 347s tests/tabix_test.py::TestVCFFromVariantFile_vcf_v42::testConnecting PASSED 347s tests/tabix_test.py::TestVCFFromVariantFile_vcf_v42::testParsing PASSED 347s tests/tabix_test.py::TestVCFFromVariantFile_16::testConnecting PASSED 347s tests/tabix_test.py::TestVCFFromVariantFile_16::testParsing [W::vcf_parse] Contig '20' is not defined in the header. (Quick workaround: index the file with tabix.) 347s [W::vcf_parse_info] INFO 'sumGLbyD' is not defined in the header, assuming Type=String 347s PASSED 347s tests/tabix_test.py::TestVCFFromVariantFile_20::testConnecting [W::bcf_hdr_register_hrec] The definition of Flag "INFO/NotCalledInValidationSamples" is invalid, forcing Number=0 347s PASSED 347s tests/tabix_test.py::TestVCFFromVariantFile_20::testParsing [W::bcf_hdr_register_hrec] The definition of Flag "INFO/NotCalledInValidationSamples" is invalid, forcing Number=0 347s [W::vcf_parse] Contig '20' is not defined in the header. (Quick workaround: index the file with tabix.) 347s PASSED 347s tests/tabix_test.py::TestVCFFromVariantFile_4::testConnecting PASSED 347s tests/tabix_test.py::TestVCFFromVariantFile_4::testParsing [W::vcf_parse] Contig '20' is not defined in the header. (Quick workaround: index the file with tabix.) 347s [W::vcf_parse_format_dict2] FORMAT 'GT' at 20:249843 is not defined in the header, assuming Type=String 347s PASSED 347s tests/tabix_test.py::TestVCFFromVariantFile_5::testConnecting PASSED 347s tests/tabix_test.py::TestVCFFromVariantFile_5::testParsing [W::vcf_parse] Contig '20' is not defined in the header. (Quick workaround: index the file with tabix.) 347s PASSED 347s tests/tabix_test.py::TestVCFFromVariantFile_3::testConnecting PASSED 348s tests/tabix_test.py::TestVCFFromVariantFile_3::testParsing [W::vcf_parse] Contig '1' is not defined in the header. (Quick workaround: index the file with tabix.) 348s PASSED 348s tests/tabix_test.py::TestVCFFromVariantFile_10::testConnecting PASSED 348s tests/tabix_test.py::TestVCFFromVariantFile_10::testParsing [W::vcf_parse] Contig '20' is not defined in the header. (Quick workaround: index the file with tabix.) 348s [W::vcf_parse_format_dict2] FORMAT 'GT' at 20:676148 is not defined in the header, assuming Type=String 348s PASSED 348s tests/tabix_test.py::TestVCFFromVariantFile_24::testConnecting PASSED[E::bcf_hdr_parse_sample_line] Could not parse the "#CHROM.." line, either the fields are incorrect or spaces are present instead of tabs: 348s #CHROM POS ID REF ALT QUAL FILTER INFO 348s 348s 348s tests/tabix_test.py::TestVCFFromVariantFile_24::testParsing PASSED 348s tests/tabix_test.py::TestVCFFromVariantFile_12::testConnecting PASSED 348s tests/tabix_test.py::TestVCFFromVariantFile_12::testParsing [W::vcf_parse] Contig 'chr1' is not defined in the header. (Quick workaround: index the file with tabix.) 348s [W::vcf_parse_info] INFO 'DP' is not defined in the header, assuming Type=String 348s [W::vcf_parse_info] INFO 'AF1' is not defined in the header, assuming Type=String 348s [W::vcf_parse_info] INFO 'CI95' is not defined in the header, assuming Type=String 348s [W::vcf_parse_info] INFO 'DP4' is not defined in the header, assuming Type=String 348s [W::vcf_parse_info] INFO 'MQ' is not defined in the header, assuming Type=String 348s [W::vcf_parse_info] INFO 'PV4' is not defined in the header, assuming Type=String 348s [W::vcf_parse_format_dict2] FORMAT 'PL' at chr1:1281168 is not defined in the header, assuming Type=String 348s [W::vcf_parse_format_dict2] FORMAT 'GT' at chr1:1281168 is not defined in the header, assuming Type=String 348s [W::vcf_parse_format_dict2] FORMAT 'GQ' at chr1:1281168 is not defined in the header, assuming Type=String 348s [W::vcf_parse] Contig 'chr2a' is not defined in the header. (Quick workaround: index the file with tabix.) 348s [W::vcf_parse] Contig 'chr2b' is not defined in the header. (Quick workaround: index the file with tabix.) 348s [W::vcf_parse] Contig 'chr3' is not defined in the header. (Quick workaround: index the file with tabix.) 348s [W::vcf_parse] Contig 'chr4' is not defined in the header. (Quick workaround: index the file with tabix.) 348s [W::vcf_parse] Contig 'chr5' is not defined in the header. (Quick workaround: index the file with tabix.) 348s [W::vcf_parse] PASSED 348s tests/tabix_test.py::TestVCFFromVariantFile_8::testConnecting Contig 'chr6_cox_hap1' is not defined in the header. (Quick workaround: index the file with tabix.) 348s [W::vcf_parse] Contig 'chr6_qbl_hap2' is not defined in the header. (Quick workaround: index the file with tabix.) 348s [W::vcf_parse] Contig 'chr6' is not defined in the header. (Quick workaround: index the file with tabix.) 348s [W::vcf_parse] Contig 'chr7' is not defined in the header. (Quick workaround: index the file with tabix.) 348s [W::vcf_parse] Contig 'chr8' is not defined in the header. (Quick workaround: index the file with tabix.) 348s [W::vcf_parse] Contig 'chr9' is not defined in the header. (Quick workaround: index the file with tabix.) 348s [W::vcf_parse] Contig 'chr10' is not defined in the header. (Quick workaround: index the file with tabix.) 348s [W::vcf_parse] Contig 'chr11' is not defined in the header. (Quick workaround: index the file with tabix.) 348s [W::vcf_parse] Contig 'chr12' is not defined in the header. (Quick workaround: index the file with tabix.) 348s [W::vcf_parse] Contig 'chr13' is not defined in the header. (Quick workaround: index the file with tabix.) 348s [W::vcf_parse] Contig 'chr14' is not defined in the header. (Quick workaround: index the file with tabix.) 348s [W::vcf_parse] Contig 'chr15' is not defined in the header. (Quick workaround: index the file with tabix.) 348s [W::vcf_parse] Contig 'chr16' is not defined in the header. (Quick workaround: index the file with tabix.) 348s [W::vcf_parse] Contig 'chr17' is not defined in the header. (Quick workaround: index the file with tabix.) 348s PASSED 348s tests/tabix_test.py::TestVCFFromVariantFile_8::testParsing [W::vcf_parse] Contig '20' is not defined in the header. (Quick workaround: index the file with tabix.) 348s [W::vcf_parse_format_dict2] FORMAT 'GT' at 20:676148 is not defined in the header, assuming Type=String 348s PASSED 348s tests/tabix_test.py::TestVCFFromVariantFile_13::testConnecting [W::bcf_hrec_check] Invalid tag name: "1000g" 348s [W::bcf_hrec_check] Invalid tag name: "GT:GL:GQ:NR" 348s PASSED 348s tests/tabix_test.py::TestVCFFromVariantFile_13::testParsing [W::bcf_hrec_check] Invalid tag name: "1000g" 348s [W::bcf_hrec_check] Invalid tag name: "GT:GL:GQ:NR" 348s [W::vcf_parse] Contig 'chr1' is not defined in the header. (Quick workaround: index the file with tabix.) 348s [W::vcf_parse_info] INFO 'MMLQ' is not defined in the header, assuming Type=String 348s [W::vcf_parse] Contig 'chr10' is not defined in the header. (Quick workaround: index the file with tabix.) 348s [W::vcf_parse] Contig 'chr11' is not defined in the header. (Quick workaround: index the file with tabix.) 348s [W::vcf_parse] Contig 'chr12' is not defined in the header. (Quick workaround: index the file with tabix.) 348s [W::vcf_parse] Contig 'chr13' is not defined in the header. (Quick workaround: index the file with tabix.) 348s [W::vcf_parse] Contig 'chr14' is not defined in the header. (Quick workaround: index the file with tabix.) 348s [W::vcf_parse] Contig 'chr15' is not defined in the header. (Quick workaround: index the file with tabix.) 348s [W::vcf_parse] Contig 'chr16' is not defined in the header. (Quick workaround: index the file with tabix.) 348s [W::vcf_parse] Contig 'chr17' is not defined in the header. (Quick workaround: index the file with tabix.) 348s [W::vcf_parse] Contig 'chr17_gl000205_random' is not defined in the header. (Quick workaround: index the file with tabix.) 348s [W::vcf_parse] Contig 'chr18' is not defined in the header. (Quick workaround: index the file with tabix.) 348s [W::vcf_parse] Contig 'chr19' is not defined in the header. (Quick workaround: index the file with tabix.) 348s [W::vcf_parse] Contig 'chr2' is not defined in the header. (Quick workaround: index the file with tabix.) 348s [W::vcf_parse] Contig 'chr20' is not defined in the header. (Quick workaround: index the file with tabix.) 348s [W::vcf_parse] Contig 'chr21' is not defined in the header. (Quick workaround: index the file with tabix.) 348s [W::vcf_parse] Contig 'chr22' is not defined in the header. (Quick workaround: index the file with tabix.) 348s [W::vcf_parse] Contig 'chr3' is not defined in the header. (Quick workaround: index the file with tabix.) 348s [W::vcf_parse] Contig 'chr4' is not defined in the header. (Quick workaround: index the file with tabix.) 348s [W::vcf_parse] Contig 'chr5' is not defined in the header. (Quick workaround: index the file with tabix.) 348s [W::vcf_parse] Contig 'chr6' is not defined in the header. (Quick workaround: index the file with tabix.) 348s [W::vcf_parse] Contig 'chr7' is not defined in the header. (Quick workaround: index the file with tabix.) 348s [W::vcf_parse] Contig 'chr8' is not defined in the header. (Quick workaround: index the file with tabix.) 348s [W::vcf_parse] Contig 'chr9' is not defined in the header. (Quick workaround: index the file with tabix.) 348s [W::vcf_parse] Contig 'chrUn_gl000214' is not defined in the header. (Quick workaround: index the file with tabix.) 348s [W::vcf_parse] Contig 'chrUn_gl000220' is not defined in the header. (Quick workaround: index the file with tabix.) 348s [W::vcf_parse] Contig 'chrUn_gl000225' is not defined in the header. (Quick workaround: index the file with tabix.) 348s [W::vcf_parse] Contig 'chrX' is not defined in the header. (Quick workaround: index the file with tabix.) 348s PASSED 348s tests/tabix_test.py::TestVCFFromVariantFile_6::testConnecting PASSED 348s tests/tabix_test.py::TestVCFFromVariantFile_6::testParsing [W::vcf_parse] Contig '20' is not defined in the header. (Quick workaround: index the file with tabix.) 348s [W::vcf_parse_info] INFO 'CallSetAC' is not defined in the header, assuming Type=String 348s [W::vcf_parse_info] INFO 'CallSetAC2' is not defined in the header, assuming Type=String 348s [W::vcf_parse_format_dict2] FORMAT 'GT' at 20:669442 is not defined in the header, assuming Type=String 349s PASSED 349s tests/tabix_test.py::TestVCFFromVariantFile_2::testConnecting PASSED 349s tests/tabix_test.py::TestVCFFromVariantFile_2::testParsing [W::vcf_parse] Contig '20' is not defined in the header. (Quick workaround: index the file with tabix.) 349s [W::vcf_parse_info] INFO 'sumGLbyD' is not defined in the header, assuming Type=String 349s PASSED 349s tests/tabix_test.py::TestVCFFromVariantFile_9::testConnecting PASSED 349s tests/tabix_test.py::TestVCFFromVariantFile_9::testParsing [W::vcf_parse] Contig 'chr1' is not defined in the header. (Quick workaround: index the file with tabix.) 349s [W::vcf_parse_info] INFO 'DP' is not defined in the header, assuming Type=String 349s [W::vcf_parse_info] INFO 'AF1' is not defined in the header, assuming Type=String 349s [W::vcf_parse_info] INFO 'CI95' is not defined in the header, assuming Type=String 349s [W::vcf_parse_info] INFO 'DP4' is not defined in the header, assuming Type=String 349s [W::vcf_parse_info] INFO 'MQ' is not defined in the header, assuming Type=String 349s [W::vcf_parse_info] INFO 'PV4' is not defined in the header, assuming Type=String 349s [W::vcf_parse_format_dict2] FORMAT 'PL' at chr1:1281168 is not defined in the header, assuming Type=String 349s [W::vcf_parse_format_dict2] FORMAT 'GT' at chr1:1281168 is not defined in the header, assuming Type=String 349s [W::vcf_parse_format_dict2] FORMAT 'GQ' at chr1:1281168 is not defined in the header, assuming Type=String 349s [W::vcf_parse] Contig 'chr2a' is not defined in the header. (Quick workaround: index the file with tabix.) 349s [W::vcf_parse] Contig 'chr2b' is not defined in the header. (Quick workaround: index the file with tabix.) 349s [W::vcf_parse] Contig 'chr3' is not defined in the header. (Quick workaround: index the file with tabix.) 349s [W::vcf_parse] Contig 'chr4' is not defined in the header. (Quick workaround: index the file with tabix.) 349s [W::vcf_parse] Contig 'chr5' is not defined in the header. (Quick workaround: index the file with tabix.) 349s [W::vcf_parse] Contig 'chr6_cox_hap1' is not defined in the header. (Quick workaround: index the file with tabix.) 349s [W::vcf_parse] Contig 'chr6_qbl_hap2' is not defined in the header. (Quick workaround: index the file with tabix.) 349s [W::vcf_parse] Contig 'chr6' is not defined in the header. (Quick workaround: index the file with tabix.) 349s [W::vcf_parse] Contig 'chr7' is not defined in the header. (Quick workaround: index the file with tabix.) 349s [W::vcf_parse] Contig 'chr8' is not defined in the header. (Quick workaround: index the file with tabix.) 349s [W::vcf_parse] Contig 'chr9' is not defined in the header. (Quick workaround: index the file with tabix.) 349s [W::vcf_parse] Contig 'chr10' is not defined in the header. (Quick workaround: index the file with tabix.) 349s [W::vcf_parse] Contig 'chr11' is not defined in the header. (Quick workaround: index the file with tabix.) 349s [W::vcf_parse] Contig 'chr12' is not defined in the header. (Quick workaround: index the file with tabix.)PASSED 349s tests/tabix_test.py::TestVCFFromVariantFile_7::testConnecting 349s [W::vcf_parse] Contig 'chr13' is not defined in the header. (Quick workaround: index the file with tabix.) 349s [W::vcf_parse] Contig 'chr14' is not defined in the header. (Quick workaround: index the file with tabix.) 349s [W::vcf_parse] Contig 'chr15' is not defined in the header. (Quick workaround: index the file with tabix.) 349s [W::vcf_parse] Contig 'chr16' is not defined in the header. (Quick workaround: index the file with tabix.) 349s [W::vcf_parse] Contig 'chr17' is not defined in the header. (Quick workaround: index the file with tabix.) 349s PASSED 349s tests/tabix_test.py::TestVCFFromVariantFile_7::testParsing [W::vcf_parse] Contig '20' is not defined in the header. (Quick workaround: index the file with tabix.) 349s [W::vcf_parse_format_dict2] FORMAT 'GT' at 20:249843 is not defined in the header, assuming Type=String 349s PASSED 349s tests/tabix_test.py::TestVCFFromVariantFile_11::testConnecting PASSED 349s tests/tabix_test.py::TestVCFFromVariantFile_11::testParsing [W::vcf_parse] Contig '20' is not defined in the header. (Quick workaround: index the file with tabix.) 349s [W::vcf_parse_format_dict2] FORMAT 'GT' at 20:669442 is not defined in the header, assuming Type=String 349s PASSED 349s tests/tabix_test.py::TestIndexArgument::testFetchAll PASSED 349s tests/tabix_test.py::TestIndexArgument::testLoadIndexWithoutTbiExtension PASSED 349s tests/tabix_test.py::TestBackwardsCompatibility::testBED PASSED 349s tests/tabix_test.py::TestBackwardsCompatibility::testBED0v23 PASSED 349s tests/tabix_test.py::TestBackwardsCompatibility::testBED0v26 PASSED 349s tests/tabix_test.py::TestBackwardsCompatibility::testEmpty PASSED 349s tests/tabix_test.py::TestBackwardsCompatibility::testVCF PASSED 349s tests/tabix_test.py::TestBackwardsCompatibility::testVCF0v23 PASSED 349s tests/tabix_test.py::TestBackwardsCompatibility::testVCF0v26 PASSED 349s tests/tabix_test.py::TestMultipleIterators::testDisjointIterators PASSED 349s tests/tabix_test.py::TestMultipleIterators::testDoubleFetch PASSED 349s tests/tabix_test.py::TestMultipleIterators::testJoinedIterators PASSED 349s tests/tabix_test.py::TestMultipleIterators::testScope PASSED 349s tests/tabix_test.py::TestContextManager::testManager PASSED 349s tests/tabix_test.py::TestMultithreadTabixFile::testMultithreadEqualsSinglethread PASSED 349s tests/tabixproxies_test.py::TestBED::testAssignmentToTargetList PASSED 349s tests/tabixproxies_test.py::TestParser::testAssignmentToTargetList PASSED 349s tests/tabixproxies_test.py::TestParser::testCopy PASSED 349s tests/tabixproxies_test.py::TestParser::testIteratorCompressed PASSED 349s tests/tabixproxies_test.py::TestParser::testIteratorUncompressed PASSED 349s tests/tabixproxies_test.py::TestParser::testRead PASSED 350s tests/tabixproxies_test.py::TestParser::testUnset PASSED 350s tests/tabixproxies_test.py::TestParser::testWrite PASSED 350s tests/tabixproxies_test.py::TestGTF::testAssignmentToTargetList PASSED 350s tests/tabixproxies_test.py::TestGTF::testCopy PASSED 350s tests/tabixproxies_test.py::TestGTF::testIteratorCompressed PASSED 350s tests/tabixproxies_test.py::TestGTF::testIteratorUncompressed PASSED 350s tests/tabixproxies_test.py::TestGTF::testRead PASSED 350s tests/tabixproxies_test.py::TestGTF::testUnset PASSED 350s tests/tabixproxies_test.py::TestGTF::testWrite PASSED 350s tests/tabixproxies_test.py::TestGTF::test_added_attribute_is_output PASSED 350s tests/tabixproxies_test.py::TestGTF::test_asdict_can_be_modified PASSED 350s tests/tabixproxies_test.py::TestGTF::test_asdict_contains_attributes PASSED 350s tests/tabixproxies_test.py::TestGTF::test_setAttribute_makes_changes PASSED 350s tests/tabixproxies_test.py::TestGTF::test_setting_end_is_one_based PASSED 350s tests/tabixproxies_test.py::TestGTF::test_setting_feature_to_none_produces_dot PASSED 350s tests/tabixproxies_test.py::TestGTF::test_setting_fields PASSED 350s tests/tabixproxies_test.py::TestGTF::test_setting_frame_to_none_produces_dot PASSED 350s tests/tabixproxies_test.py::TestGTF::test_setting_score_to_none_produces_dot PASSED 350s tests/tabixproxies_test.py::TestGTF::test_setting_source_to_none_produces_dot PASSED 350s tests/tabixproxies_test.py::TestGTF::test_setting_start_is_one_based PASSED 350s tests/tabixproxies_test.py::TestGTF::test_setting_strand_to_none_produces_dot PASSED 350s tests/tabixproxies_test.py::TestGFF3::testAssignmentToTargetList PASSED 350s tests/tabixproxies_test.py::TestGFF3::testCopy PASSED 350s tests/tabixproxies_test.py::TestGFF3::testIteratorCompressed PASSED 350s tests/tabixproxies_test.py::TestGFF3::testIteratorUncompressed PASSED 350s tests/tabixproxies_test.py::TestGFF3::testRead PASSED 350s tests/tabixproxies_test.py::TestGFF3::testUnset PASSED 350s tests/tabixproxies_test.py::TestGFF3::testWrite PASSED 350s tests/tabixproxies_test.py::TestGFF3::test_added_attribute_is_output PASSED 350s tests/tabixproxies_test.py::TestGFF3::test_asdict_can_be_modified PASSED 350s tests/tabixproxies_test.py::TestGFF3::test_asdict_contains_attributes PASSED 350s tests/tabixproxies_test.py::TestGFF3::test_setAttribute_makes_changes PASSED 350s tests/tabixproxies_test.py::TestGFF3::test_setting_end_is_one_based PASSED 350s tests/tabixproxies_test.py::TestGFF3::test_setting_feature_to_none_produces_dot PASSED 350s tests/tabixproxies_test.py::TestGFF3::test_setting_fields PASSED 350s tests/tabixproxies_test.py::TestGFF3::test_setting_frame_to_none_produces_dot PASSED 350s tests/tabixproxies_test.py::TestGFF3::test_setting_score_to_none_produces_dot PASSED 350s tests/tabixproxies_test.py::TestGFF3::test_setting_source_to_none_produces_dot PASSED 350s tests/tabixproxies_test.py::TestGFF3::test_setting_start_is_one_based PASSED 350s tests/tabixproxies_test.py::TestGFF3::test_setting_strand_to_none_produces_dot PASSED 350s tests/test_samtools_python.py::test_idxstats_parse_split_lines PASSED 350s tests/test_samtools_python.py::test_bedcov_split_lines PASSED 350s tests/test_samtools_python.py::test_idxstats_parse PASSED 350s tests/test_samtools_python.py::test_bedcov PASSED 350s 350s ================== 947 passed, 14 skipped in 82.87s (0:01:22) ================== 350s autopkgtest [21:56:50]: test command1: -----------------------] 351s autopkgtest [21:56:51]: test command1: - - - - - - - - - - results - - - - - - - - - - 351s command1 PASS 351s autopkgtest [21:56:51]: test autodep8-python3: preparing testbed 408s autopkgtest [21:57:48]: testbed dpkg architecture: amd64 409s autopkgtest [21:57:49]: testbed apt version: 2.9.31ubuntu1 409s autopkgtest [21:57:49]: @@@@@@@@@@@@@@@@@@@@ test bed setup 409s autopkgtest [21:57:49]: testbed release detected to be: plucky 410s autopkgtest [21:57:50]: updating testbed package index (apt update) 410s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease [126 kB] 411s Hit:2 http://ftpmaster.internal/ubuntu plucky InRelease 411s Hit:3 http://ftpmaster.internal/ubuntu plucky-updates InRelease 411s Hit:4 http://ftpmaster.internal/ubuntu plucky-security InRelease 411s Get:5 http://ftpmaster.internal/ubuntu plucky-proposed/universe Sources [369 kB] 411s Get:6 http://ftpmaster.internal/ubuntu plucky-proposed/main Sources [44.1 kB] 411s Get:7 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse Sources [14.5 kB] 411s Get:8 http://ftpmaster.internal/ubuntu plucky-proposed/main i386 Packages [67.4 kB] 411s Get:9 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 Packages [85.7 kB] 411s Get:10 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 c-n-f Metadata [1852 B] 411s Get:11 http://ftpmaster.internal/ubuntu plucky-proposed/restricted amd64 c-n-f Metadata [116 B] 411s Get:12 http://ftpmaster.internal/ubuntu plucky-proposed/universe i386 Packages [174 kB] 411s Get:13 http://ftpmaster.internal/ubuntu plucky-proposed/universe amd64 Packages [342 kB] 411s Get:14 http://ftpmaster.internal/ubuntu plucky-proposed/universe amd64 c-n-f Metadata [15.3 kB] 411s Get:15 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse i386 Packages [8544 B] 411s Get:16 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse amd64 Packages [16.1 kB] 411s Get:17 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse amd64 c-n-f Metadata [628 B] 411s Fetched 1265 kB in 1s (1440 kB/s) 413s Reading package lists... 413s + lsb_release --codename --short 413s + RELEASE=plucky 413s + cat 413s + [ plucky != trusty ] 413s + DEBIAN_FRONTEND=noninteractive eatmydata apt-get -y --allow-downgrades -o Dpkg::Options::=--force-confnew dist-upgrade 413s Reading package lists... 414s Building dependency tree... 414s Reading state information... 414s Calculating upgrade... 415s Calculating upgrade... 415s The following package was automatically installed and is no longer required: 415s libnl-genl-3-200 415s Use 'sudo apt autoremove' to remove it. 415s The following NEW packages will be installed: 415s bpftool libdebuginfod-common libdebuginfod1t64 linux-headers-6.14.0-10 415s linux-headers-6.14.0-10-generic linux-image-6.14.0-10-generic 415s linux-modules-6.14.0-10-generic linux-modules-extra-6.14.0-10-generic 415s linux-perf linux-tools-6.14.0-10 linux-tools-6.14.0-10-generic pnp.ids 415s The following packages will be upgraded: 415s apparmor apt apt-utils binutils binutils-common binutils-x86-64-linux-gnu 415s cloud-init cloud-init-base curl dosfstools exfatprogs fwupd gcc-15-base 415s gir1.2-girepository-2.0 gir1.2-glib-2.0 htop hwdata initramfs-tools 415s initramfs-tools-bin initramfs-tools-core libapparmor1 libapt-pkg7.0 415s libassuan9 libatomic1 libaudit-common libaudit1 libbinutils libbrotli1 415s libc-bin libc-dev-bin libc6 libc6-dev libcap-ng0 libctf-nobfd0 libctf0 415s libcurl3t64-gnutls libcurl4t64 libestr0 libftdi1-2 libfwupd3 libgcc-s1 415s libgirepository-1.0-1 libglib2.0-0t64 libglib2.0-data libgpgme11t64 415s libgprofng0 libjemalloc2 liblz4-1 liblzma5 libmm-glib0 libncurses6 415s libncursesw6 libnewt0.52 libnl-3-200 libnl-genl-3-200 libnl-route-3-200 415s libnss-systemd libpam-systemd libparted2t64 libpci3 libpython3-stdlib 415s libpython3.13 libpython3.13-minimal libpython3.13-stdlib libseccomp2 415s libselinux1 libsemanage-common libsemanage2 libsframe1 libsqlite3-0 415s libstdc++6 libsystemd-shared libsystemd0 libtinfo6 libudev1 libxml2 415s linux-firmware linux-generic linux-headers-generic linux-headers-virtual 415s linux-image-generic linux-image-virtual linux-libc-dev linux-tools-common 415s linux-virtual locales media-types ncurses-base ncurses-bin ncurses-term 415s parted pci.ids pciutils pinentry-curses python-apt-common python3 415s python3-apt python3-bcrypt python3-cffi-backend python3-dbus python3-gi 415s python3-jinja2 python3-lazr.uri python3-markupsafe python3-minimal 415s python3-newt python3-rpds-py python3-systemd python3-yaml python3.13 415s python3.13-gdbm python3.13-minimal rsync rsyslog strace systemd 415s systemd-cryptsetup systemd-resolved systemd-sysv systemd-timesyncd 415s ubuntu-kernel-accessories ubuntu-minimal ubuntu-standard udev whiptail 415s xz-utils 415s 126 upgraded, 12 newly installed, 0 to remove and 0 not upgraded. 415s Need to get 829 MB of archives. 415s After this operation, 325 MB of additional disk space will be used. 415s Get:1 http://ftpmaster.internal/ubuntu plucky/main amd64 ncurses-bin amd64 6.5+20250216-2 [194 kB] 415s Get:2 http://ftpmaster.internal/ubuntu plucky/main amd64 libc-dev-bin amd64 2.41-1ubuntu1 [24.7 kB] 415s Get:3 http://ftpmaster.internal/ubuntu plucky/main amd64 libc6-dev amd64 2.41-1ubuntu1 [2182 kB] 416s Get:4 http://ftpmaster.internal/ubuntu plucky/main amd64 locales all 2.41-1ubuntu1 [4246 kB] 416s Get:5 http://ftpmaster.internal/ubuntu plucky/main amd64 libc6 amd64 2.41-1ubuntu1 [3327 kB] 416s Get:6 http://ftpmaster.internal/ubuntu plucky/main amd64 libc-bin amd64 2.41-1ubuntu1 [701 kB] 416s Get:7 http://ftpmaster.internal/ubuntu plucky/main amd64 linux-libc-dev amd64 6.14.0-10.10 [1723 kB] 416s Get:8 http://ftpmaster.internal/ubuntu plucky/main amd64 libatomic1 amd64 15-20250222-0ubuntu1 [10.4 kB] 416s Get:9 http://ftpmaster.internal/ubuntu plucky/main amd64 gcc-15-base amd64 15-20250222-0ubuntu1 [53.4 kB] 416s Get:10 http://ftpmaster.internal/ubuntu plucky/main amd64 libgcc-s1 amd64 15-20250222-0ubuntu1 [77.8 kB] 416s Get:11 http://ftpmaster.internal/ubuntu plucky/main amd64 libstdc++6 amd64 15-20250222-0ubuntu1 [798 kB] 416s Get:12 http://ftpmaster.internal/ubuntu plucky/main amd64 ncurses-base all 6.5+20250216-2 [25.9 kB] 416s Get:13 http://ftpmaster.internal/ubuntu plucky/main amd64 ncurses-term all 6.5+20250216-2 [276 kB] 416s Get:14 http://ftpmaster.internal/ubuntu plucky/main amd64 liblz4-1 amd64 1.10.0-4 [66.4 kB] 416s Get:15 http://ftpmaster.internal/ubuntu plucky/main amd64 liblzma5 amd64 5.6.4-1 [157 kB] 416s Get:16 http://ftpmaster.internal/ubuntu plucky/main amd64 libsystemd0 amd64 257.3-1ubuntu3 [595 kB] 416s Get:17 http://ftpmaster.internal/ubuntu plucky/main amd64 libnss-systemd amd64 257.3-1ubuntu3 [199 kB] 416s Get:18 http://ftpmaster.internal/ubuntu plucky/main amd64 systemd-sysv amd64 257.3-1ubuntu3 [11.9 kB] 416s Get:19 http://ftpmaster.internal/ubuntu plucky/main amd64 systemd-resolved amd64 257.3-1ubuntu3 [345 kB] 416s Get:20 http://ftpmaster.internal/ubuntu plucky/main amd64 libpam-systemd amd64 257.3-1ubuntu3 [302 kB] 416s Get:21 http://ftpmaster.internal/ubuntu plucky/main amd64 libsystemd-shared amd64 257.3-1ubuntu3 [2371 kB] 416s Get:22 http://ftpmaster.internal/ubuntu plucky/main amd64 systemd amd64 257.3-1ubuntu3 [3052 kB] 417s Get:23 http://ftpmaster.internal/ubuntu plucky/main amd64 systemd-timesyncd amd64 257.3-1ubuntu3 [42.1 kB] 417s Get:24 http://ftpmaster.internal/ubuntu plucky/main amd64 systemd-cryptsetup amd64 257.3-1ubuntu3 [124 kB] 417s Get:25 http://ftpmaster.internal/ubuntu plucky/main amd64 udev amd64 257.3-1ubuntu3 [1404 kB] 417s Get:26 http://ftpmaster.internal/ubuntu plucky/main amd64 libudev1 amd64 257.3-1ubuntu3 [215 kB] 417s Get:27 http://ftpmaster.internal/ubuntu plucky/main amd64 libaudit-common all 1:4.0.2-2ubuntu2 [6628 B] 417s Get:28 http://ftpmaster.internal/ubuntu plucky/main amd64 libcap-ng0 amd64 0.8.5-4build1 [15.6 kB] 417s Get:29 http://ftpmaster.internal/ubuntu plucky/main amd64 libaudit1 amd64 1:4.0.2-2ubuntu2 [54.0 kB] 417s Get:30 http://ftpmaster.internal/ubuntu plucky/main amd64 libseccomp2 amd64 2.5.5-1ubuntu6 [53.5 kB] 417s Get:31 http://ftpmaster.internal/ubuntu plucky/main amd64 libselinux1 amd64 3.7-3ubuntu3 [87.3 kB] 417s Get:32 http://ftpmaster.internal/ubuntu plucky/main amd64 libapparmor1 amd64 4.1.0~beta5-0ubuntu8 [55.0 kB] 417s Get:33 http://ftpmaster.internal/ubuntu plucky/main amd64 libapt-pkg7.0 amd64 2.9.33 [1138 kB] 417s Get:34 http://ftpmaster.internal/ubuntu plucky/main amd64 apt amd64 2.9.33 [1439 kB] 417s Get:35 http://ftpmaster.internal/ubuntu plucky/main amd64 apt-utils amd64 2.9.33 [222 kB] 417s Get:36 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-minimal amd64 3.13.2-2 [27.7 kB] 417s Get:37 http://ftpmaster.internal/ubuntu plucky/main amd64 python3 amd64 3.13.2-2 [24.0 kB] 417s Get:38 http://ftpmaster.internal/ubuntu plucky/main amd64 libpython3.13 amd64 3.13.2-2 [2341 kB] 417s Get:39 http://ftpmaster.internal/ubuntu plucky/main amd64 media-types all 13.0.0 [29.9 kB] 417s Get:40 http://ftpmaster.internal/ubuntu plucky/main amd64 libncurses6 amd64 6.5+20250216-2 [126 kB] 417s Get:41 http://ftpmaster.internal/ubuntu plucky/main amd64 libncursesw6 amd64 6.5+20250216-2 [165 kB] 417s Get:42 http://ftpmaster.internal/ubuntu plucky/main amd64 libtinfo6 amd64 6.5+20250216-2 [119 kB] 417s Get:43 http://ftpmaster.internal/ubuntu plucky/main amd64 libsqlite3-0 amd64 3.46.1-2 [715 kB] 417s Get:44 http://ftpmaster.internal/ubuntu plucky/main amd64 python3.13 amd64 3.13.2-2 [735 kB] 417s Get:45 http://ftpmaster.internal/ubuntu plucky/main amd64 python3.13-minimal amd64 3.13.2-2 [2365 kB] 417s Get:46 http://ftpmaster.internal/ubuntu plucky/main amd64 libpython3.13-minimal amd64 3.13.2-2 [883 kB] 417s Get:47 http://ftpmaster.internal/ubuntu plucky/main amd64 libpython3.13-stdlib amd64 3.13.2-2 [2066 kB] 417s Get:48 http://ftpmaster.internal/ubuntu plucky/main amd64 libpython3-stdlib amd64 3.13.2-2 [10.4 kB] 417s Get:49 http://ftpmaster.internal/ubuntu plucky/main amd64 rsync amd64 3.4.1+ds1-3 [482 kB] 417s Get:50 http://ftpmaster.internal/ubuntu plucky/main amd64 libdebuginfod-common all 0.192-4 [15.4 kB] 417s Get:51 http://ftpmaster.internal/ubuntu plucky/main amd64 libsemanage-common all 3.7-2.1build1 [7268 B] 417s Get:52 http://ftpmaster.internal/ubuntu plucky/main amd64 libsemanage2 amd64 3.7-2.1build1 [106 kB] 417s Get:53 http://ftpmaster.internal/ubuntu plucky/main amd64 libassuan9 amd64 3.0.2-2 [43.1 kB] 417s Get:54 http://ftpmaster.internal/ubuntu plucky/main amd64 gir1.2-girepository-2.0 amd64 1.83.4-1 [25.3 kB] 417s Get:55 http://ftpmaster.internal/ubuntu plucky/main amd64 gir1.2-glib-2.0 amd64 2.84.0-1 [184 kB] 417s Get:56 http://ftpmaster.internal/ubuntu plucky/main amd64 libglib2.0-0t64 amd64 2.84.0-1 [1669 kB] 418s Get:57 http://ftpmaster.internal/ubuntu plucky/main amd64 libgirepository-1.0-1 amd64 1.83.4-1 [89.5 kB] 418s Get:58 http://ftpmaster.internal/ubuntu plucky/main amd64 libestr0 amd64 0.1.11-2 [8340 B] 418s Get:59 http://ftpmaster.internal/ubuntu plucky/main amd64 libglib2.0-data all 2.84.0-1 [53.0 kB] 418s Get:60 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-newt amd64 0.52.24-4ubuntu2 [21.1 kB] 418s Get:61 http://ftpmaster.internal/ubuntu plucky/main amd64 libnewt0.52 amd64 0.52.24-4ubuntu2 [55.7 kB] 418s Get:62 http://ftpmaster.internal/ubuntu plucky/main amd64 libxml2 amd64 2.12.7+dfsg+really2.9.14-0.2ubuntu5 [772 kB] 418s Get:63 http://ftpmaster.internal/ubuntu plucky/main amd64 python-apt-common all 2.9.9build1 [21.3 kB] 418s Get:64 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-apt amd64 2.9.9build1 [172 kB] 418s Get:65 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-cffi-backend amd64 1.17.1-2build2 [96.6 kB] 418s Get:66 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-dbus amd64 1.3.2-5build5 [102 kB] 418s Get:67 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-gi amd64 3.50.0-4build1 [252 kB] 418s Get:68 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-yaml amd64 6.0.2-1build2 [144 kB] 418s Get:69 http://ftpmaster.internal/ubuntu plucky/main amd64 rsyslog amd64 8.2412.0-2ubuntu2 [555 kB] 418s Get:70 http://ftpmaster.internal/ubuntu plucky/main amd64 whiptail amd64 0.52.24-4ubuntu2 [19.1 kB] 418s Get:71 http://ftpmaster.internal/ubuntu plucky/main amd64 ubuntu-minimal amd64 1.549 [11.5 kB] 418s Get:72 http://ftpmaster.internal/ubuntu plucky/main amd64 apparmor amd64 4.1.0~beta5-0ubuntu8 [701 kB] 418s Get:73 http://ftpmaster.internal/ubuntu plucky/main amd64 dosfstools amd64 4.2-1.2 [95.0 kB] 418s Get:74 http://ftpmaster.internal/ubuntu plucky/main amd64 libnl-genl-3-200 amd64 3.7.0-1 [12.2 kB] 418s Get:75 http://ftpmaster.internal/ubuntu plucky/main amd64 libnl-route-3-200 amd64 3.7.0-1 [191 kB] 418s Get:76 http://ftpmaster.internal/ubuntu plucky/main amd64 libnl-3-200 amd64 3.7.0-1 [64.9 kB] 418s Get:77 http://ftpmaster.internal/ubuntu plucky/main amd64 parted amd64 3.6-5 [53.9 kB] 418s Get:78 http://ftpmaster.internal/ubuntu plucky/main amd64 libparted2t64 amd64 3.6-5 [158 kB] 418s Get:79 http://ftpmaster.internal/ubuntu plucky/main amd64 pci.ids all 0.0~2025.03.09-1 [285 kB] 418s Get:80 http://ftpmaster.internal/ubuntu plucky/main amd64 pciutils amd64 1:3.13.0-2 [110 kB] 418s Get:81 http://ftpmaster.internal/ubuntu plucky/main amd64 libpci3 amd64 1:3.13.0-2 [39.8 kB] 418s Get:82 http://ftpmaster.internal/ubuntu plucky/main amd64 strace amd64 6.13+ds-1ubuntu1 [622 kB] 418s Get:83 http://ftpmaster.internal/ubuntu plucky/main amd64 xz-utils amd64 5.6.4-1 [278 kB] 418s Get:84 http://ftpmaster.internal/ubuntu plucky/main amd64 ubuntu-standard amd64 1.549 [11.5 kB] 418s Get:85 http://ftpmaster.internal/ubuntu plucky/main amd64 libgprofng0 amd64 2.44-3ubuntu1 [886 kB] 418s Get:86 http://ftpmaster.internal/ubuntu plucky/main amd64 libctf0 amd64 2.44-3ubuntu1 [96.5 kB] 418s Get:87 http://ftpmaster.internal/ubuntu plucky/main amd64 libctf-nobfd0 amd64 2.44-3ubuntu1 [98.9 kB] 418s Get:88 http://ftpmaster.internal/ubuntu plucky/main amd64 binutils-x86-64-linux-gnu amd64 2.44-3ubuntu1 [1108 kB] 418s Get:89 http://ftpmaster.internal/ubuntu plucky/main amd64 libbinutils amd64 2.44-3ubuntu1 [585 kB] 418s Get:90 http://ftpmaster.internal/ubuntu plucky/main amd64 binutils amd64 2.44-3ubuntu1 [208 kB] 418s Get:91 http://ftpmaster.internal/ubuntu plucky/main amd64 binutils-common amd64 2.44-3ubuntu1 [215 kB] 418s Get:92 http://ftpmaster.internal/ubuntu plucky/main amd64 libsframe1 amd64 2.44-3ubuntu1 [14.8 kB] 418s Get:93 http://ftpmaster.internal/ubuntu plucky/main amd64 hwdata all 0.393-3 [1562 B] 418s Get:94 http://ftpmaster.internal/ubuntu plucky/main amd64 pnp.ids all 0.393-3 [29.5 kB] 418s Get:95 http://ftpmaster.internal/ubuntu plucky/main amd64 linux-tools-common all 6.14.0-10.10 [295 kB] 418s Get:96 http://ftpmaster.internal/ubuntu plucky/main amd64 bpftool amd64 7.6.0+6.14.0-10.10 [1147 kB] 418s Get:97 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-markupsafe amd64 2.1.5-1build4 [13.4 kB] 418s Get:98 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-jinja2 all 3.1.5-2ubuntu1 [109 kB] 418s Get:99 http://ftpmaster.internal/ubuntu plucky/main amd64 cloud-init-base all 25.1-0ubuntu3 [616 kB] 418s Get:100 http://ftpmaster.internal/ubuntu plucky/main amd64 libbrotli1 amd64 1.1.0-2build4 [365 kB] 418s Get:101 http://ftpmaster.internal/ubuntu plucky/main amd64 curl amd64 8.12.1-3ubuntu1 [258 kB] 418s Get:102 http://ftpmaster.internal/ubuntu plucky/main amd64 libcurl4t64 amd64 8.12.1-3ubuntu1 [437 kB] 419s Get:103 http://ftpmaster.internal/ubuntu plucky/main amd64 exfatprogs amd64 1.2.8-1 [76.3 kB] 419s Get:104 http://ftpmaster.internal/ubuntu plucky/main amd64 libcurl3t64-gnutls amd64 8.12.1-3ubuntu1 [432 kB] 419s Get:105 http://ftpmaster.internal/ubuntu plucky/main amd64 fwupd amd64 2.0.6-4 [5408 kB] 419s Get:106 http://ftpmaster.internal/ubuntu plucky/main amd64 libfwupd3 amd64 2.0.6-4 [136 kB] 419s Get:107 http://ftpmaster.internal/ubuntu plucky/main amd64 libmm-glib0 amd64 1.23.4-0ubuntu3 [251 kB] 419s Get:108 http://ftpmaster.internal/ubuntu plucky/main amd64 htop amd64 3.4.0-2 [195 kB] 419s Get:109 http://ftpmaster.internal/ubuntu plucky/main amd64 linux-firmware amd64 20250310.git9e1370d3-0ubuntu1 [571 MB] 443s Get:110 http://ftpmaster.internal/ubuntu plucky/main amd64 initramfs-tools all 0.146ubuntu1 [7920 B] 443s Get:111 http://ftpmaster.internal/ubuntu plucky/main amd64 initramfs-tools-core all 0.146ubuntu1 [51.9 kB] 443s Get:112 http://ftpmaster.internal/ubuntu plucky/main amd64 initramfs-tools-bin amd64 0.146ubuntu1 [26.2 kB] 443s Get:113 http://ftpmaster.internal/ubuntu plucky/main amd64 libdebuginfod1t64 amd64 0.192-4 [21.0 kB] 443s Get:114 http://ftpmaster.internal/ubuntu plucky/main amd64 libftdi1-2 amd64 1.5-8build1 [30.2 kB] 443s Get:115 http://ftpmaster.internal/ubuntu plucky/main amd64 libgpgme11t64 amd64 1.24.2-1ubuntu2 [155 kB] 443s Get:116 http://ftpmaster.internal/ubuntu plucky/main amd64 libjemalloc2 amd64 5.3.0-3 [277 kB] 443s Get:117 http://ftpmaster.internal/ubuntu plucky/main amd64 linux-modules-6.14.0-10-generic amd64 6.14.0-10.10 [41.2 MB] 449s Get:118 http://ftpmaster.internal/ubuntu plucky/main amd64 linux-image-6.14.0-10-generic amd64 6.14.0-10.10 [15.3 MB] 450s Get:119 http://ftpmaster.internal/ubuntu plucky/main amd64 linux-modules-extra-6.14.0-10-generic amd64 6.14.0-10.10 [120 MB] 458s Get:120 http://ftpmaster.internal/ubuntu plucky/main amd64 linux-generic amd64 6.14.0-10.10 [1730 B] 458s Get:121 http://ftpmaster.internal/ubuntu plucky/main amd64 linux-image-generic amd64 6.14.0-10.10 [11.1 kB] 458s Get:122 http://ftpmaster.internal/ubuntu plucky/main amd64 linux-virtual amd64 6.14.0-10.10 [1722 B] 458s Get:123 http://ftpmaster.internal/ubuntu plucky/main amd64 linux-image-virtual amd64 6.14.0-10.10 [11.1 kB] 458s Get:124 http://ftpmaster.internal/ubuntu plucky/main amd64 linux-headers-virtual amd64 6.14.0-10.10 [1642 B] 458s Get:125 http://ftpmaster.internal/ubuntu plucky/main amd64 linux-headers-6.14.0-10 all 6.14.0-10.10 [14.2 MB] 458s Get:126 http://ftpmaster.internal/ubuntu plucky/main amd64 linux-headers-6.14.0-10-generic amd64 6.14.0-10.10 [3915 kB] 459s Get:127 http://ftpmaster.internal/ubuntu plucky/main amd64 linux-headers-generic amd64 6.14.0-10.10 [11.0 kB] 459s Get:128 http://ftpmaster.internal/ubuntu plucky/main amd64 linux-perf amd64 6.14.0-10.10 [4122 kB] 459s Get:129 http://ftpmaster.internal/ubuntu plucky/main amd64 linux-tools-6.14.0-10 amd64 6.14.0-10.10 [1394 kB] 459s Get:130 http://ftpmaster.internal/ubuntu plucky/main amd64 linux-tools-6.14.0-10-generic amd64 6.14.0-10.10 [830 B] 459s Get:131 http://ftpmaster.internal/ubuntu plucky/main amd64 pinentry-curses amd64 1.3.1-2ubuntu3 [42.3 kB] 459s Get:132 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-lazr.uri all 1.0.6-6 [13.7 kB] 459s Get:133 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-rpds-py amd64 0.21.0-2ubuntu2 [278 kB] 459s Get:134 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-systemd amd64 235-1build6 [43.9 kB] 459s Get:135 http://ftpmaster.internal/ubuntu plucky/main amd64 python3.13-gdbm amd64 3.13.2-2 [31.9 kB] 459s Get:136 http://ftpmaster.internal/ubuntu plucky/main amd64 ubuntu-kernel-accessories amd64 1.549 [11.2 kB] 459s Get:137 http://ftpmaster.internal/ubuntu plucky/main amd64 cloud-init all 25.1-0ubuntu3 [2100 B] 459s Get:138 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-bcrypt amd64 4.2.0-2.1build1 [221 kB] 460s Preconfiguring packages ... 460s Fetched 829 MB in 44s (18.8 MB/s) 460s (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 ... 109140 files and directories currently installed.) 460s Preparing to unpack .../ncurses-bin_6.5+20250216-2_amd64.deb ... 460s Unpacking ncurses-bin (6.5+20250216-2) over (6.5+20250216-1) ... 460s Setting up ncurses-bin (6.5+20250216-2) ... 460s (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 ... 109140 files and directories currently installed.) 460s Preparing to unpack .../libc-dev-bin_2.41-1ubuntu1_amd64.deb ... 460s Unpacking libc-dev-bin (2.41-1ubuntu1) over (2.40-4ubuntu1) ... 460s Preparing to unpack .../libc6-dev_2.41-1ubuntu1_amd64.deb ... 460s Unpacking libc6-dev:amd64 (2.41-1ubuntu1) over (2.40-4ubuntu1) ... 461s Preparing to unpack .../locales_2.41-1ubuntu1_all.deb ... 461s Unpacking locales (2.41-1ubuntu1) over (2.40-4ubuntu1) ... 461s Preparing to unpack .../libc6_2.41-1ubuntu1_amd64.deb ... 461s Checking for services that may need to be restarted... 461s Checking init scripts... 461s Checking for services that may need to be restarted... 461s Checking init scripts... 461s Stopping some services possibly affected by the upgrade (will be restarted later): 461s cron: stopping...done. 461s 461s Unpacking libc6:amd64 (2.41-1ubuntu1) over (2.40-4ubuntu1) ... 462s Setting up libc6:amd64 (2.41-1ubuntu1) ... 462s Checking for services that may need to be restarted... 462s Checking init scripts... 462s Restarting services possibly affected by the upgrade: 462s cron: restarting...done. 462s 462s Services restarted successfully. 462s (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 ... 109141 files and directories currently installed.) 462s Preparing to unpack .../libc-bin_2.41-1ubuntu1_amd64.deb ... 462s Unpacking libc-bin (2.41-1ubuntu1) over (2.40-4ubuntu1) ... 462s Setting up libc-bin (2.41-1ubuntu1) ... 462s (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 ... 109141 files and directories currently installed.) 462s Preparing to unpack .../linux-libc-dev_6.14.0-10.10_amd64.deb ... 462s Unpacking linux-libc-dev:amd64 (6.14.0-10.10) over (6.12.0-16.16) ... 463s Preparing to unpack .../libatomic1_15-20250222-0ubuntu1_amd64.deb ... 463s Unpacking libatomic1:amd64 (15-20250222-0ubuntu1) over (15-20250213-1ubuntu1) ... 463s Preparing to unpack .../gcc-15-base_15-20250222-0ubuntu1_amd64.deb ... 463s Unpacking gcc-15-base:amd64 (15-20250222-0ubuntu1) over (15-20250213-1ubuntu1) ... 463s Setting up gcc-15-base:amd64 (15-20250222-0ubuntu1) ... 463s (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 ... 109146 files and directories currently installed.) 463s Preparing to unpack .../libgcc-s1_15-20250222-0ubuntu1_amd64.deb ... 463s Unpacking libgcc-s1:amd64 (15-20250222-0ubuntu1) over (15-20250213-1ubuntu1) ... 463s Setting up libgcc-s1:amd64 (15-20250222-0ubuntu1) ... 463s (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 ... 109146 files and directories currently installed.) 463s Preparing to unpack .../libstdc++6_15-20250222-0ubuntu1_amd64.deb ... 463s Unpacking libstdc++6:amd64 (15-20250222-0ubuntu1) over (15-20250213-1ubuntu1) ... 463s Setting up libstdc++6:amd64 (15-20250222-0ubuntu1) ... 463s (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 ... 109146 files and directories currently installed.) 463s Preparing to unpack .../ncurses-base_6.5+20250216-2_all.deb ... 463s Unpacking ncurses-base (6.5+20250216-2) over (6.5+20250216-1) ... 463s Setting up ncurses-base (6.5+20250216-2) ... 464s (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 ... 109146 files and directories currently installed.) 464s Preparing to unpack .../ncurses-term_6.5+20250216-2_all.deb ... 464s Unpacking ncurses-term (6.5+20250216-2) over (6.5+20250216-1) ... 464s Preparing to unpack .../liblz4-1_1.10.0-4_amd64.deb ... 464s Unpacking liblz4-1:amd64 (1.10.0-4) over (1.10.0-3) ... 464s Setting up liblz4-1:amd64 (1.10.0-4) ... 464s (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 ... 109146 files and directories currently installed.) 464s Preparing to unpack .../liblzma5_5.6.4-1_amd64.deb ... 464s Unpacking liblzma5:amd64 (5.6.4-1) over (5.6.3-1) ... 464s Setting up liblzma5:amd64 (5.6.4-1) ... 465s (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 ... 109146 files and directories currently installed.) 465s Preparing to unpack .../libsystemd0_257.3-1ubuntu3_amd64.deb ... 465s Unpacking libsystemd0:amd64 (257.3-1ubuntu3) over (257.2-3ubuntu1) ... 465s Setting up libsystemd0:amd64 (257.3-1ubuntu3) ... 465s (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 ... 109146 files and directories currently installed.) 465s Preparing to unpack .../libnss-systemd_257.3-1ubuntu3_amd64.deb ... 465s Unpacking libnss-systemd:amd64 (257.3-1ubuntu3) over (257.2-3ubuntu1) ... 465s Preparing to unpack .../systemd-sysv_257.3-1ubuntu3_amd64.deb ... 465s Unpacking systemd-sysv (257.3-1ubuntu3) over (257.2-3ubuntu1) ... 465s Preparing to unpack .../systemd-resolved_257.3-1ubuntu3_amd64.deb ... 465s Unpacking systemd-resolved (257.3-1ubuntu3) over (257.2-3ubuntu1) ... 465s Preparing to unpack .../libpam-systemd_257.3-1ubuntu3_amd64.deb ... 465s Unpacking libpam-systemd:amd64 (257.3-1ubuntu3) over (257.2-3ubuntu1) ... 465s Preparing to unpack .../libsystemd-shared_257.3-1ubuntu3_amd64.deb ... 465s Unpacking libsystemd-shared:amd64 (257.3-1ubuntu3) over (257.2-3ubuntu1) ... 465s Setting up libsystemd-shared:amd64 (257.3-1ubuntu3) ... 465s (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 ... 109146 files and directories currently installed.) 465s Preparing to unpack .../systemd_257.3-1ubuntu3_amd64.deb ... 465s Unpacking systemd (257.3-1ubuntu3) over (257.2-3ubuntu1) ... 465s Preparing to unpack .../systemd-timesyncd_257.3-1ubuntu3_amd64.deb ... 466s Unpacking systemd-timesyncd (257.3-1ubuntu3) over (257.2-3ubuntu1) ... 466s Preparing to unpack .../systemd-cryptsetup_257.3-1ubuntu3_amd64.deb ... 466s Unpacking systemd-cryptsetup (257.3-1ubuntu3) over (257.2-3ubuntu1) ... 466s Preparing to unpack .../udev_257.3-1ubuntu3_amd64.deb ... 466s Unpacking udev (257.3-1ubuntu3) over (257.2-3ubuntu1) ... 466s Preparing to unpack .../libudev1_257.3-1ubuntu3_amd64.deb ... 466s Unpacking libudev1:amd64 (257.3-1ubuntu3) over (257.2-3ubuntu1) ... 466s Setting up libudev1:amd64 (257.3-1ubuntu3) ... 466s (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 ... 109146 files and directories currently installed.) 466s Preparing to unpack .../libaudit-common_1%3a4.0.2-2ubuntu2_all.deb ... 466s Unpacking libaudit-common (1:4.0.2-2ubuntu2) over (1:4.0.2-2ubuntu1) ... 466s Setting up libaudit-common (1:4.0.2-2ubuntu2) ... 466s (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 ... 109146 files and directories currently installed.) 466s Preparing to unpack .../libcap-ng0_0.8.5-4build1_amd64.deb ... 466s Unpacking libcap-ng0:amd64 (0.8.5-4build1) over (0.8.5-4) ... 466s Setting up libcap-ng0:amd64 (0.8.5-4build1) ... 466s (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 ... 109146 files and directories currently installed.) 466s Preparing to unpack .../libaudit1_1%3a4.0.2-2ubuntu2_amd64.deb ... 466s Unpacking libaudit1:amd64 (1:4.0.2-2ubuntu2) over (1:4.0.2-2ubuntu1) ... 466s Setting up libaudit1:amd64 (1:4.0.2-2ubuntu2) ... 466s (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 ... 109146 files and directories currently installed.) 466s Preparing to unpack .../libseccomp2_2.5.5-1ubuntu6_amd64.deb ... 466s Unpacking libseccomp2:amd64 (2.5.5-1ubuntu6) over (2.5.5-1ubuntu5) ... 466s Setting up libseccomp2:amd64 (2.5.5-1ubuntu6) ... 466s (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 ... 109146 files and directories currently installed.) 466s Preparing to unpack .../libselinux1_3.7-3ubuntu3_amd64.deb ... 466s Unpacking libselinux1:amd64 (3.7-3ubuntu3) over (3.7-3ubuntu2) ... 467s Setting up libselinux1:amd64 (3.7-3ubuntu3) ... 467s (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 ... 109146 files and directories currently installed.) 467s Preparing to unpack .../libapparmor1_4.1.0~beta5-0ubuntu8_amd64.deb ... 467s Unpacking libapparmor1:amd64 (4.1.0~beta5-0ubuntu8) over (4.1.0~beta5-0ubuntu5) ... 467s Preparing to unpack .../libapt-pkg7.0_2.9.33_amd64.deb ... 467s Unpacking libapt-pkg7.0:amd64 (2.9.33) over (2.9.31ubuntu1) ... 467s Setting up libapt-pkg7.0:amd64 (2.9.33) ... 467s (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 ... 109146 files and directories currently installed.) 467s Preparing to unpack .../archives/apt_2.9.33_amd64.deb ... 467s Unpacking apt (2.9.33) over (2.9.31ubuntu1) ... 467s Setting up apt (2.9.33) ... 468s (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 ... 109146 files and directories currently installed.) 468s Preparing to unpack .../apt-utils_2.9.33_amd64.deb ... 468s Unpacking apt-utils (2.9.33) over (2.9.31ubuntu1) ... 468s Preparing to unpack .../python3-minimal_3.13.2-2_amd64.deb ... 468s Unpacking python3-minimal (3.13.2-2) over (3.13.2-1) ... 468s Setting up python3-minimal (3.13.2-2) ... 468s (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 ... 109146 files and directories currently installed.) 468s Preparing to unpack .../0-python3_3.13.2-2_amd64.deb ... 468s Unpacking python3 (3.13.2-2) over (3.13.2-1) ... 468s Preparing to unpack .../1-libpython3.13_3.13.2-2_amd64.deb ... 468s Unpacking libpython3.13:amd64 (3.13.2-2) over (3.13.2-1) ... 469s Preparing to unpack .../2-media-types_13.0.0_all.deb ... 469s Unpacking media-types (13.0.0) over (12.0.0) ... 469s Preparing to unpack .../3-libncurses6_6.5+20250216-2_amd64.deb ... 469s Unpacking libncurses6:amd64 (6.5+20250216-2) over (6.5+20250216-1) ... 469s Preparing to unpack .../4-libncursesw6_6.5+20250216-2_amd64.deb ... 469s Unpacking libncursesw6:amd64 (6.5+20250216-2) over (6.5+20250216-1) ... 469s Preparing to unpack .../5-libtinfo6_6.5+20250216-2_amd64.deb ... 469s Unpacking libtinfo6:amd64 (6.5+20250216-2) over (6.5+20250216-1) ... 469s Setting up libtinfo6:amd64 (6.5+20250216-2) ... 469s (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 ... 109146 files and directories currently installed.) 469s Preparing to unpack .../0-libsqlite3-0_3.46.1-2_amd64.deb ... 469s Unpacking libsqlite3-0:amd64 (3.46.1-2) over (3.46.1-1) ... 469s Preparing to unpack .../1-python3.13_3.13.2-2_amd64.deb ... 469s Unpacking python3.13 (3.13.2-2) over (3.13.2-1) ... 469s Preparing to unpack .../2-python3.13-minimal_3.13.2-2_amd64.deb ... 469s Unpacking python3.13-minimal (3.13.2-2) over (3.13.2-1) ... 469s Preparing to unpack .../3-libpython3.13-minimal_3.13.2-2_amd64.deb ... 469s Unpacking libpython3.13-minimal:amd64 (3.13.2-2) over (3.13.2-1) ... 469s Preparing to unpack .../4-libpython3.13-stdlib_3.13.2-2_amd64.deb ... 469s Unpacking libpython3.13-stdlib:amd64 (3.13.2-2) over (3.13.2-1) ... 470s Preparing to unpack .../5-libpython3-stdlib_3.13.2-2_amd64.deb ... 470s Unpacking libpython3-stdlib:amd64 (3.13.2-2) over (3.13.2-1) ... 470s Preparing to unpack .../6-rsync_3.4.1+ds1-3_amd64.deb ... 470s Unpacking rsync (3.4.1+ds1-3) over (3.4.1-0syncable1) ... 470s Selecting previously unselected package libdebuginfod-common. 470s Preparing to unpack .../7-libdebuginfod-common_0.192-4_all.deb ... 470s Unpacking libdebuginfod-common (0.192-4) ... 470s Preparing to unpack .../8-libsemanage-common_3.7-2.1build1_all.deb ... 470s Unpacking libsemanage-common (3.7-2.1build1) over (3.7-2.1) ... 470s Setting up libsemanage-common (3.7-2.1build1) ... 470s (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 ... 109155 files and directories currently installed.) 470s Preparing to unpack .../libsemanage2_3.7-2.1build1_amd64.deb ... 470s Unpacking libsemanage2:amd64 (3.7-2.1build1) over (3.7-2.1) ... 470s Setting up libsemanage2:amd64 (3.7-2.1build1) ... 470s (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 ... 109155 files and directories currently installed.) 470s Preparing to unpack .../libassuan9_3.0.2-2_amd64.deb ... 470s Unpacking libassuan9:amd64 (3.0.2-2) over (3.0.1-2) ... 470s Setting up libassuan9:amd64 (3.0.2-2) ... 470s (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 ... 109155 files and directories currently installed.) 470s Preparing to unpack .../00-gir1.2-girepository-2.0_1.83.4-1_amd64.deb ... 470s Unpacking gir1.2-girepository-2.0:amd64 (1.83.4-1) over (1.82.0-4) ... 470s Preparing to unpack .../01-gir1.2-glib-2.0_2.84.0-1_amd64.deb ... 470s Unpacking gir1.2-glib-2.0:amd64 (2.84.0-1) over (2.83.5-1) ... 470s Preparing to unpack .../02-libglib2.0-0t64_2.84.0-1_amd64.deb ... 470s Unpacking libglib2.0-0t64:amd64 (2.84.0-1) over (2.83.5-1) ... 470s Preparing to unpack .../03-libgirepository-1.0-1_1.83.4-1_amd64.deb ... 470s Unpacking libgirepository-1.0-1:amd64 (1.83.4-1) over (1.82.0-4) ... 470s Preparing to unpack .../04-libestr0_0.1.11-2_amd64.deb ... 470s Unpacking libestr0:amd64 (0.1.11-2) over (0.1.11-1build1) ... 470s Preparing to unpack .../05-libglib2.0-data_2.84.0-1_all.deb ... 470s Unpacking libglib2.0-data (2.84.0-1) over (2.83.5-1) ... 470s Preparing to unpack .../06-python3-newt_0.52.24-4ubuntu2_amd64.deb ... 471s Unpacking python3-newt:amd64 (0.52.24-4ubuntu2) over (0.52.24-4ubuntu1) ... 471s Preparing to unpack .../07-libnewt0.52_0.52.24-4ubuntu2_amd64.deb ... 471s Unpacking libnewt0.52:amd64 (0.52.24-4ubuntu2) over (0.52.24-4ubuntu1) ... 471s Preparing to unpack .../08-libxml2_2.12.7+dfsg+really2.9.14-0.2ubuntu5_amd64.deb ... 471s Unpacking libxml2:amd64 (2.12.7+dfsg+really2.9.14-0.2ubuntu5) over (2.12.7+dfsg+really2.9.14-0.2ubuntu4) ... 471s Preparing to unpack .../09-python-apt-common_2.9.9build1_all.deb ... 471s Unpacking python-apt-common (2.9.9build1) over (2.9.9) ... 471s Preparing to unpack .../10-python3-apt_2.9.9build1_amd64.deb ... 471s Unpacking python3-apt (2.9.9build1) over (2.9.9) ... 471s Preparing to unpack .../11-python3-cffi-backend_1.17.1-2build2_amd64.deb ... 471s Unpacking python3-cffi-backend:amd64 (1.17.1-2build2) over (1.17.1-2build1) ... 471s Preparing to unpack .../12-python3-dbus_1.3.2-5build5_amd64.deb ... 471s Unpacking python3-dbus (1.3.2-5build5) over (1.3.2-5build4) ... 471s Preparing to unpack .../13-python3-gi_3.50.0-4build1_amd64.deb ... 471s Unpacking python3-gi (3.50.0-4build1) over (3.50.0-4) ... 471s Preparing to unpack .../14-python3-yaml_6.0.2-1build2_amd64.deb ... 471s Unpacking python3-yaml (6.0.2-1build2) over (6.0.2-1build1) ... 472s Preparing to unpack .../15-rsyslog_8.2412.0-2ubuntu2_amd64.deb ... 472s Unpacking rsyslog (8.2412.0-2ubuntu2) over (8.2412.0-2ubuntu1) ... 472s Preparing to unpack .../16-whiptail_0.52.24-4ubuntu2_amd64.deb ... 472s Unpacking whiptail (0.52.24-4ubuntu2) over (0.52.24-4ubuntu1) ... 472s Preparing to unpack .../17-ubuntu-minimal_1.549_amd64.deb ... 472s Unpacking ubuntu-minimal (1.549) over (1.548) ... 472s Preparing to unpack .../18-apparmor_4.1.0~beta5-0ubuntu8_amd64.deb ... 473s Unpacking apparmor (4.1.0~beta5-0ubuntu8) over (4.1.0~beta5-0ubuntu5) ... 473s Preparing to unpack .../19-dosfstools_4.2-1.2_amd64.deb ... 473s Unpacking dosfstools (4.2-1.2) over (4.2-1.1build1) ... 473s Preparing to unpack .../20-libnl-genl-3-200_3.7.0-1_amd64.deb ... 473s Unpacking libnl-genl-3-200:amd64 (3.7.0-1) over (3.7.0-0.3build2) ... 473s Preparing to unpack .../21-libnl-route-3-200_3.7.0-1_amd64.deb ... 473s Unpacking libnl-route-3-200:amd64 (3.7.0-1) over (3.7.0-0.3build2) ... 473s Preparing to unpack .../22-libnl-3-200_3.7.0-1_amd64.deb ... 473s Unpacking libnl-3-200:amd64 (3.7.0-1) over (3.7.0-0.3build2) ... 473s Preparing to unpack .../23-parted_3.6-5_amd64.deb ... 473s Unpacking parted (3.6-5) over (3.6-4build1) ... 473s Preparing to unpack .../24-libparted2t64_3.6-5_amd64.deb ... 473s Adding 'diversion of /lib/x86_64-linux-gnu/libparted.so.2 to /lib/x86_64-linux-gnu/libparted.so.2.usr-is-merged by libparted2t64' 474s Adding 'diversion of /lib/x86_64-linux-gnu/libparted.so.2.0.5 to /lib/x86_64-linux-gnu/libparted.so.2.0.5.usr-is-merged by libparted2t64' 474s Unpacking libparted2t64:amd64 (3.6-5) over (3.6-4build1) ... 474s Preparing to unpack .../25-pci.ids_0.0~2025.03.09-1_all.deb ... 474s Unpacking pci.ids (0.0~2025.03.09-1) over (0.0~2025.02.12-1) ... 474s Preparing to unpack .../26-pciutils_1%3a3.13.0-2_amd64.deb ... 474s Unpacking pciutils (1:3.13.0-2) over (1:3.13.0-1) ... 474s Preparing to unpack .../27-libpci3_1%3a3.13.0-2_amd64.deb ... 474s Unpacking libpci3:amd64 (1:3.13.0-2) over (1:3.13.0-1) ... 474s Preparing to unpack .../28-strace_6.13+ds-1ubuntu1_amd64.deb ... 474s Unpacking strace (6.13+ds-1ubuntu1) over (6.11-0ubuntu1) ... 474s Preparing to unpack .../29-xz-utils_5.6.4-1_amd64.deb ... 474s Unpacking xz-utils (5.6.4-1) over (5.6.3-1) ... 474s Preparing to unpack .../30-ubuntu-standard_1.549_amd64.deb ... 474s Unpacking ubuntu-standard (1.549) over (1.548) ... 474s Preparing to unpack .../31-libgprofng0_2.44-3ubuntu1_amd64.deb ... 474s Unpacking libgprofng0:amd64 (2.44-3ubuntu1) over (2.44-2ubuntu1) ... 474s Preparing to unpack .../32-libctf0_2.44-3ubuntu1_amd64.deb ... 474s Unpacking libctf0:amd64 (2.44-3ubuntu1) over (2.44-2ubuntu1) ... 474s Preparing to unpack .../33-libctf-nobfd0_2.44-3ubuntu1_amd64.deb ... 474s Unpacking libctf-nobfd0:amd64 (2.44-3ubuntu1) over (2.44-2ubuntu1) ... 474s Preparing to unpack .../34-binutils-x86-64-linux-gnu_2.44-3ubuntu1_amd64.deb ... 474s Unpacking binutils-x86-64-linux-gnu (2.44-3ubuntu1) over (2.44-2ubuntu1) ... 474s Preparing to unpack .../35-libbinutils_2.44-3ubuntu1_amd64.deb ... 474s Unpacking libbinutils:amd64 (2.44-3ubuntu1) over (2.44-2ubuntu1) ... 474s Preparing to unpack .../36-binutils_2.44-3ubuntu1_amd64.deb ... 474s Unpacking binutils (2.44-3ubuntu1) over (2.44-2ubuntu1) ... 474s Preparing to unpack .../37-binutils-common_2.44-3ubuntu1_amd64.deb ... 474s Unpacking binutils-common:amd64 (2.44-3ubuntu1) over (2.44-2ubuntu1) ... 474s Preparing to unpack .../38-libsframe1_2.44-3ubuntu1_amd64.deb ... 474s Unpacking libsframe1:amd64 (2.44-3ubuntu1) over (2.44-2ubuntu1) ... 474s Preparing to unpack .../39-hwdata_0.393-3_all.deb ... 474s Unpacking hwdata (0.393-3) over (0.392-1) ... 474s Selecting previously unselected package pnp.ids. 474s Preparing to unpack .../40-pnp.ids_0.393-3_all.deb ... 474s Unpacking pnp.ids (0.393-3) ... 475s Preparing to unpack .../41-linux-tools-common_6.14.0-10.10_all.deb ... 475s Unpacking linux-tools-common (6.14.0-10.10) over (6.12.0-16.16) ... 475s Selecting previously unselected package bpftool. 475s Preparing to unpack .../42-bpftool_7.6.0+6.14.0-10.10_amd64.deb ... 475s Unpacking bpftool (7.6.0+6.14.0-10.10) ... 475s Preparing to unpack .../43-python3-markupsafe_2.1.5-1build4_amd64.deb ... 475s Unpacking python3-markupsafe (2.1.5-1build4) over (2.1.5-1build3) ... 475s Preparing to unpack .../44-python3-jinja2_3.1.5-2ubuntu1_all.deb ... 475s Unpacking python3-jinja2 (3.1.5-2ubuntu1) over (3.1.5-2) ... 475s Preparing to unpack .../45-cloud-init-base_25.1-0ubuntu3_all.deb ... 475s Unpacking cloud-init-base (25.1-0ubuntu3) over (25.1-0ubuntu2) ... 475s Preparing to unpack .../46-libbrotli1_1.1.0-2build4_amd64.deb ... 475s Unpacking libbrotli1:amd64 (1.1.0-2build4) over (1.1.0-2build3) ... 475s Preparing to unpack .../47-curl_8.12.1-3ubuntu1_amd64.deb ... 475s Unpacking curl (8.12.1-3ubuntu1) over (8.12.1-2ubuntu1) ... 475s Preparing to unpack .../48-libcurl4t64_8.12.1-3ubuntu1_amd64.deb ... 476s Unpacking libcurl4t64:amd64 (8.12.1-3ubuntu1) over (8.12.1-2ubuntu1) ... 476s Preparing to unpack .../49-exfatprogs_1.2.8-1_amd64.deb ... 476s Unpacking exfatprogs (1.2.8-1) over (1.2.7-3) ... 476s Preparing to unpack .../50-libcurl3t64-gnutls_8.12.1-3ubuntu1_amd64.deb ... 476s Unpacking libcurl3t64-gnutls:amd64 (8.12.1-3ubuntu1) over (8.12.1-2ubuntu1) ... 476s Preparing to unpack .../51-fwupd_2.0.6-4_amd64.deb ... 476s Unpacking fwupd (2.0.6-4) over (2.0.6-3) ... 476s Preparing to unpack .../52-libfwupd3_2.0.6-4_amd64.deb ... 476s Unpacking libfwupd3:amd64 (2.0.6-4) over (2.0.6-3) ... 476s Preparing to unpack .../53-libmm-glib0_1.23.4-0ubuntu3_amd64.deb ... 476s Unpacking libmm-glib0:amd64 (1.23.4-0ubuntu3) over (1.23.4-0ubuntu2) ... 476s Preparing to unpack .../54-htop_3.4.0-2_amd64.deb ... 476s Unpacking htop (3.4.0-2) over (3.3.0-5) ... 476s Preparing to unpack .../55-linux-firmware_20250310.git9e1370d3-0ubuntu1_amd64.deb ... 476s Unpacking linux-firmware (20250310.git9e1370d3-0ubuntu1) over (20250204.git0fd450ee-0ubuntu1) ... 480s Preparing to unpack .../56-initramfs-tools_0.146ubuntu1_all.deb ... 480s Unpacking initramfs-tools (0.146ubuntu1) over (0.145ubuntu3) ... 480s Preparing to unpack .../57-initramfs-tools-core_0.146ubuntu1_all.deb ... 480s Unpacking initramfs-tools-core (0.146ubuntu1) over (0.145ubuntu3) ... 480s Preparing to unpack .../58-initramfs-tools-bin_0.146ubuntu1_amd64.deb ... 480s Unpacking initramfs-tools-bin (0.146ubuntu1) over (0.145ubuntu3) ... 480s Selecting previously unselected package libdebuginfod1t64:amd64. 480s Preparing to unpack .../59-libdebuginfod1t64_0.192-4_amd64.deb ... 480s Unpacking libdebuginfod1t64:amd64 (0.192-4) ... 480s Preparing to unpack .../60-libftdi1-2_1.5-8build1_amd64.deb ... 480s Unpacking libftdi1-2:amd64 (1.5-8build1) over (1.5-8) ... 480s Preparing to unpack .../61-libgpgme11t64_1.24.2-1ubuntu2_amd64.deb ... 480s Unpacking libgpgme11t64:amd64 (1.24.2-1ubuntu2) over (1.24.2-1ubuntu1) ... 480s Preparing to unpack .../62-libjemalloc2_5.3.0-3_amd64.deb ... 480s Unpacking libjemalloc2:amd64 (5.3.0-3) over (5.3.0-2build1) ... 480s Selecting previously unselected package linux-modules-6.14.0-10-generic. 480s Preparing to unpack .../63-linux-modules-6.14.0-10-generic_6.14.0-10.10_amd64.deb ... 480s Unpacking linux-modules-6.14.0-10-generic (6.14.0-10.10) ... 481s Selecting previously unselected package linux-image-6.14.0-10-generic. 481s Preparing to unpack .../64-linux-image-6.14.0-10-generic_6.14.0-10.10_amd64.deb ... 481s Unpacking linux-image-6.14.0-10-generic (6.14.0-10.10) ... 481s Selecting previously unselected package linux-modules-extra-6.14.0-10-generic. 481s Preparing to unpack .../65-linux-modules-extra-6.14.0-10-generic_6.14.0-10.10_amd64.deb ... 481s Unpacking linux-modules-extra-6.14.0-10-generic (6.14.0-10.10) ... 482s Preparing to unpack .../66-linux-generic_6.14.0-10.10_amd64.deb ... 482s Unpacking linux-generic (6.14.0-10.10) over (6.12.0-16.16+2) ... 482s Preparing to unpack .../67-linux-image-generic_6.14.0-10.10_amd64.deb ... 482s Unpacking linux-image-generic (6.14.0-10.10) over (6.12.0-16.16+2) ... 483s Preparing to unpack .../68-linux-virtual_6.14.0-10.10_amd64.deb ... 483s Unpacking linux-virtual (6.14.0-10.10) over (6.12.0-16.16+2) ... 483s Preparing to unpack .../69-linux-image-virtual_6.14.0-10.10_amd64.deb ... 483s Unpacking linux-image-virtual (6.14.0-10.10) over (6.12.0-16.16+2) ... 483s Preparing to unpack .../70-linux-headers-virtual_6.14.0-10.10_amd64.deb ... 483s Unpacking linux-headers-virtual (6.14.0-10.10) over (6.12.0-16.16+2) ... 483s Selecting previously unselected package linux-headers-6.14.0-10. 483s Preparing to unpack .../71-linux-headers-6.14.0-10_6.14.0-10.10_all.deb ... 483s Unpacking linux-headers-6.14.0-10 (6.14.0-10.10) ... 486s Selecting previously unselected package linux-headers-6.14.0-10-generic. 486s Preparing to unpack .../72-linux-headers-6.14.0-10-generic_6.14.0-10.10_amd64.deb ... 486s Unpacking linux-headers-6.14.0-10-generic (6.14.0-10.10) ... 488s Preparing to unpack .../73-linux-headers-generic_6.14.0-10.10_amd64.deb ... 488s Unpacking linux-headers-generic (6.14.0-10.10) over (6.12.0-16.16+2) ... 488s Selecting previously unselected package linux-perf. 488s Preparing to unpack .../74-linux-perf_6.14.0-10.10_amd64.deb ... 488s Unpacking linux-perf (6.14.0-10.10) ... 488s Selecting previously unselected package linux-tools-6.14.0-10. 488s Preparing to unpack .../75-linux-tools-6.14.0-10_6.14.0-10.10_amd64.deb ... 488s Unpacking linux-tools-6.14.0-10 (6.14.0-10.10) ... 488s Selecting previously unselected package linux-tools-6.14.0-10-generic. 488s Preparing to unpack .../76-linux-tools-6.14.0-10-generic_6.14.0-10.10_amd64.deb ... 488s Unpacking linux-tools-6.14.0-10-generic (6.14.0-10.10) ... 488s Preparing to unpack .../77-pinentry-curses_1.3.1-2ubuntu3_amd64.deb ... 488s Unpacking pinentry-curses (1.3.1-2ubuntu3) over (1.3.1-2ubuntu2) ... 488s Preparing to unpack .../78-python3-lazr.uri_1.0.6-6_all.deb ... 488s Unpacking python3-lazr.uri (1.0.6-6) over (1.0.6-5) ... 488s Preparing to unpack .../79-python3-rpds-py_0.21.0-2ubuntu2_amd64.deb ... 488s Unpacking python3-rpds-py (0.21.0-2ubuntu2) over (0.21.0-2ubuntu1) ... 488s Preparing to unpack .../80-python3-systemd_235-1build6_amd64.deb ... 489s Unpacking python3-systemd (235-1build6) over (235-1build5) ... 489s Preparing to unpack .../81-python3.13-gdbm_3.13.2-2_amd64.deb ... 489s Unpacking python3.13-gdbm (3.13.2-2) over (3.13.2-1) ... 489s Preparing to unpack .../82-ubuntu-kernel-accessories_1.549_amd64.deb ... 489s Unpacking ubuntu-kernel-accessories (1.549) over (1.548) ... 489s Preparing to unpack .../83-cloud-init_25.1-0ubuntu3_all.deb ... 489s Unpacking cloud-init (25.1-0ubuntu3) over (25.1-0ubuntu2) ... 489s Preparing to unpack .../84-python3-bcrypt_4.2.0-2.1build1_amd64.deb ... 489s Unpacking python3-bcrypt (4.2.0-2.1build1) over (4.2.0-2.1) ... 489s Setting up linux-headers-6.14.0-10 (6.14.0-10.10) ... 489s Setting up media-types (13.0.0) ... 489s Installing new version of config file /etc/mime.types ... 489s Setting up linux-headers-6.14.0-10-generic (6.14.0-10.10) ... 489s Setting up ubuntu-kernel-accessories (1.549) ... 489s Setting up libapparmor1:amd64 (4.1.0~beta5-0ubuntu8) ... 489s Setting up pci.ids (0.0~2025.03.09-1) ... 489s Setting up libnewt0.52:amd64 (0.52.24-4ubuntu2) ... 489s Setting up apt-utils (2.9.33) ... 489s Setting up libdebuginfod-common (0.192-4) ... 489s Setting up exfatprogs (1.2.8-1) ... 489s Setting up linux-firmware (20250310.git9e1370d3-0ubuntu1) ... 489s Setting up bpftool (7.6.0+6.14.0-10.10) ... 489s Setting up libestr0:amd64 (0.1.11-2) ... 489s Setting up libbrotli1:amd64 (1.1.0-2build4) ... 489s Setting up libsqlite3-0:amd64 (3.46.1-2) ... 489s Setting up dosfstools (4.2-1.2) ... 489s Setting up rsyslog (8.2412.0-2ubuntu2) ... 489s info: The user `syslog' is already a member of `adm'. 491s Setting up binutils-common:amd64 (2.44-3ubuntu1) ... 491s Setting up libcurl3t64-gnutls:amd64 (8.12.1-3ubuntu1) ... 491s Setting up linux-libc-dev:amd64 (6.14.0-10.10) ... 491s Setting up libctf-nobfd0:amd64 (2.44-3ubuntu1) ... 491s Setting up systemd (257.3-1ubuntu3) ... 491s /usr/lib/tmpfiles.d/legacy.conf:14: Duplicate line for path "/run/lock", ignoring. 491s Created symlink '/run/systemd/system/tmp.mount' → '/dev/null'. 491s /usr/lib/tmpfiles.d/legacy.conf:14: Duplicate line for path "/run/lock", ignoring. 492s Setting up libparted2t64:amd64 (3.6-5) ... 492s Removing 'diversion of /lib/x86_64-linux-gnu/libparted.so.2 to /lib/x86_64-linux-gnu/libparted.so.2.usr-is-merged by libparted2t64' 492s Removing 'diversion of /lib/x86_64-linux-gnu/libparted.so.2.0.5 to /lib/x86_64-linux-gnu/libparted.so.2.0.5.usr-is-merged by libparted2t64' 492s Setting up linux-headers-generic (6.14.0-10.10) ... 492s Setting up libjemalloc2:amd64 (5.3.0-3) ... 492s Setting up locales (2.41-1ubuntu1) ... 492s Installing new version of config file /etc/locale.alias ... 493s Generating locales (this might take a while)... 495s en_US.UTF-8... done 495s Generation complete. 495s Setting up libsframe1:amd64 (2.44-3ubuntu1) ... 495s Setting up libpython3.13-minimal:amd64 (3.13.2-2) ... 495s Setting up apparmor (4.1.0~beta5-0ubuntu8) ... 495s Installing new version of config file /etc/apparmor.d/fusermount3 ... 495s Installing new version of config file /etc/apparmor.d/lsusb ... 495s Installing new version of config file /etc/apparmor.d/openvpn ... 496s Reloading AppArmor profiles 498s Setting up libftdi1-2:amd64 (1.5-8build1) ... 498s Setting up libglib2.0-data (2.84.0-1) ... 498s Setting up systemd-cryptsetup (257.3-1ubuntu3) ... 498s Setting up libncurses6:amd64 (6.5+20250216-2) ... 498s Setting up strace (6.13+ds-1ubuntu1) ... 498s Setting up xz-utils (5.6.4-1) ... 498s Setting up systemd-timesyncd (257.3-1ubuntu3) ... 498s systemd-time-wait-sync.service is a disabled or a static unit not running, not starting it. 499s Setting up libatomic1:amd64 (15-20250222-0ubuntu1) ... 499s Setting up udev (257.3-1ubuntu3) ... 499s Setting up linux-modules-6.14.0-10-generic (6.14.0-10.10) ... 502s Setting up libncursesw6:amd64 (6.5+20250216-2) ... 502s Setting up libpci3:amd64 (1:3.13.0-2) ... 502s Setting up whiptail (0.52.24-4ubuntu2) ... 502s Setting up python-apt-common (2.9.9build1) ... 502s Setting up pnp.ids (0.393-3) ... 502s Setting up libnl-3-200:amd64 (3.7.0-1) ... 502s Setting up python3.13-minimal (3.13.2-2) ... 503s Setting up libgpgme11t64:amd64 (1.24.2-1ubuntu2) ... 503s Setting up libbinutils:amd64 (2.44-3ubuntu1) ... 503s Setting up libc-dev-bin (2.41-1ubuntu1) ... 503s Setting up libpython3.13-stdlib:amd64 (3.13.2-2) ... 503s Setting up libxml2:amd64 (2.12.7+dfsg+really2.9.14-0.2ubuntu5) ... 503s Setting up rsync (3.4.1+ds1-3) ... 504s rsync.service is a disabled or a static unit not running, not starting it. 504s Setting up python3.13-gdbm (3.13.2-2) ... 504s Setting up libpython3-stdlib:amd64 (3.13.2-2) ... 504s Setting up systemd-resolved (257.3-1ubuntu3) ... 504s Setting up initramfs-tools-bin (0.146ubuntu1) ... 504s Setting up ncurses-term (6.5+20250216-2) ... 504s Setting up libctf0:amd64 (2.44-3ubuntu1) ... 504s Setting up libpython3.13:amd64 (3.13.2-2) ... 504s Setting up pinentry-curses (1.3.1-2ubuntu3) ... 504s Setting up libdebuginfod1t64:amd64 (0.192-4) ... 504s Setting up systemd-sysv (257.3-1ubuntu3) ... 504s Setting up linux-headers-virtual (6.14.0-10.10) ... 504s Setting up libcurl4t64:amd64 (8.12.1-3ubuntu1) ... 504s Setting up python3.13 (3.13.2-2) ... 505s Setting up htop (3.4.0-2) ... 505s Setting up linux-image-6.14.0-10-generic (6.14.0-10.10) ... 508s I: /boot/vmlinuz.old is now a symlink to vmlinuz-6.12.0-16-generic 508s I: /boot/initrd.img.old is now a symlink to initrd.img-6.12.0-16-generic 508s I: /boot/vmlinuz is now a symlink to vmlinuz-6.14.0-10-generic 508s I: /boot/initrd.img is now a symlink to initrd.img-6.14.0-10-generic 508s Setting up parted (3.6-5) ... 508s Setting up libnss-systemd:amd64 (257.3-1ubuntu3) ... 508s Setting up python3 (3.13.2-2) ... 509s Setting up python3-newt:amd64 (0.52.24-4ubuntu2) ... 509s Setting up python3-markupsafe (2.1.5-1build4) ... 509s Setting up linux-modules-extra-6.14.0-10-generic (6.14.0-10.10) ... 511s Setting up libnl-route-3-200:amd64 (3.7.0-1) ... 511s Setting up hwdata (0.393-3) ... 511s Setting up python3-jinja2 (3.1.5-2ubuntu1) ... 512s Setting up libglib2.0-0t64:amd64 (2.84.0-1) ... 512s No schema files found: doing nothing. 512s Setting up libgprofng0:amd64 (2.44-3ubuntu1) ... 512s Setting up linux-perf (6.14.0-10.10) ... 512s Setting up gir1.2-glib-2.0:amd64 (2.84.0-1) ... 512s Setting up pciutils (1:3.13.0-2) ... 512s Setting up python3-rpds-py (0.21.0-2ubuntu2) ... 512s Setting up libmm-glib0:amd64 (1.23.4-0ubuntu3) ... 512s Setting up libnl-genl-3-200:amd64 (3.7.0-1) ... 512s Setting up libpam-systemd:amd64 (257.3-1ubuntu3) ... 512s Setting up libc6-dev:amd64 (2.41-1ubuntu1) ... 512s Setting up libgirepository-1.0-1:amd64 (1.83.4-1) ... 512s Setting up curl (8.12.1-3ubuntu1) ... 512s Setting up linux-image-virtual (6.14.0-10.10) ... 512s Setting up initramfs-tools-core (0.146ubuntu1) ... 512s Setting up linux-tools-common (6.14.0-10.10) ... 512s Setting up python3-systemd (235-1build6) ... 512s Setting up python3-cffi-backend:amd64 (1.17.1-2build2) ... 512s Setting up binutils-x86-64-linux-gnu (2.44-3ubuntu1) ... 512s Setting up linux-image-generic (6.14.0-10.10) ... 512s Setting up python3-dbus (1.3.2-5build5) ... 512s Setting up linux-tools-6.14.0-10 (6.14.0-10.10) ... 512s Setting up initramfs-tools (0.146ubuntu1) ... 512s Installing new version of config file /etc/kernel/postinst.d/initramfs-tools ... 512s Installing new version of config file /etc/kernel/postrm.d/initramfs-tools ... 512s update-initramfs: deferring update (trigger activated) 512s Setting up linux-generic (6.14.0-10.10) ... 512s Setting up ubuntu-minimal (1.549) ... 512s Setting up python3-apt (2.9.9build1) ... 513s Setting up python3-bcrypt (4.2.0-2.1build1) ... 513s Setting up python3-yaml (6.0.2-1build2) ... 513s Setting up libfwupd3:amd64 (2.0.6-4) ... 513s Setting up python3-lazr.uri (1.0.6-6) ... 513s Setting up binutils (2.44-3ubuntu1) ... 513s Setting up ubuntu-standard (1.549) ... 513s Setting up cloud-init-base (25.1-0ubuntu3) ... 515s Setting up linux-virtual (6.14.0-10.10) ... 515s Setting up gir1.2-girepository-2.0:amd64 (1.83.4-1) ... 515s Setting up python3-gi (3.50.0-4build1) ... 515s Setting up linux-tools-6.14.0-10-generic (6.14.0-10.10) ... 515s Setting up fwupd (2.0.6-4) ... 516s fwupd-refresh.service is a disabled or a static unit not running, not starting it. 516s Setting up cloud-init (25.1-0ubuntu3) ... 516s Processing triggers for man-db (2.13.0-1) ... 518s Processing triggers for dbus (1.16.2-1ubuntu1) ... 518s Processing triggers for shared-mime-info (2.4-5) ... 518s Warning: program compiled against libxml 212 using older 209 519s Processing triggers for libc-bin (2.41-1ubuntu1) ... 519s Processing triggers for linux-image-6.14.0-10-generic (6.14.0-10.10) ... 519s /etc/kernel/postinst.d/initramfs-tools: 519s update-initramfs: Generating /boot/initrd.img-6.14.0-10-generic 519s W: No lz4 in /usr/bin:/sbin:/bin, using gzip 532s /etc/kernel/postinst.d/zz-update-grub: 532s Sourcing file `/etc/default/grub' 532s Sourcing file `/etc/default/grub.d/50-cloudimg-settings.cfg' 532s Sourcing file `/etc/default/grub.d/90-autopkgtest.cfg' 532s Generating grub configuration file ... 532s Found linux image: /boot/vmlinuz-6.14.0-10-generic 532s Found initrd image: /boot/initrd.img-6.14.0-10-generic 532s Found linux image: /boot/vmlinuz-6.12.0-16-generic 532s Found initrd image: /boot/initrd.img-6.12.0-16-generic 532s Found linux image: /boot/vmlinuz-6.11.0-8-generic 532s Found initrd image: /boot/initrd.img-6.11.0-8-generic 533s Warning: os-prober will not be executed to detect other bootable partitions. 533s Systems on them will not be added to the GRUB boot configuration. 533s Check GRUB_DISABLE_OS_PROBER documentation entry. 533s Adding boot menu entry for UEFI Firmware Settings ... 533s done 533s Processing triggers for initramfs-tools (0.146ubuntu1) ... 533s update-initramfs: Generating /boot/initrd.img-6.14.0-10-generic 533s W: No lz4 in /usr/bin:/sbin:/bin, using gzip 546s + rm /etc/apt/preferences.d/force-downgrade-to-release.pref 546s + /usr/lib/apt/apt-helper analyze-pattern ?true 546s + + sed s/\./\\./g 546s uname -r 546s + running_kernel_pattern=^linux-.*6\.12\.0-16-generic.* 546s + apt list ?obsolete 546s + tail -n+2 546s + cut -d/ -f1 546s + grep -v ^linux-.*6\.12\.0-16-generic.* 547s + obsolete_pkgs=linux-headers-6.11.0-8-generic 547s linux-headers-6.11.0-8 547s linux-headers-6.12.0-16 547s linux-image-6.11.0-8-generic 547s linux-modules-6.11.0-8-generic 547s linux-tools-6.11.0-8-generic 547s linux-tools-6.11.0-8 547s linux-tools-6.12.0-16 547s + DEBIAN_FRONTEND=noninteractive eatmydata apt-get -y purge --autoremove linux-headers-6.11.0-8-generic linux-headers-6.11.0-8 linux-headers-6.12.0-16 linux-image-6.11.0-8-generic linux-modules-6.11.0-8-generic linux-tools-6.11.0-8-generic linux-tools-6.11.0-8 linux-tools-6.12.0-16 547s Reading package lists... 548s Building dependency tree... 548s Reading state information... 548s Solving dependencies... 548s The following packages will be REMOVED: 548s libnl-genl-3-200* libnsl2* libpython3.12-minimal* libpython3.12-stdlib* 548s libpython3.12t64* linux-headers-6.11.0-8* linux-headers-6.11.0-8-generic* 548s linux-headers-6.12.0-16* linux-headers-6.12.0-16-generic* 548s linux-image-6.11.0-8-generic* linux-modules-6.11.0-8-generic* 548s linux-tools-6.11.0-8* linux-tools-6.11.0-8-generic* linux-tools-6.12.0-16* 548s linux-tools-6.12.0-16-generic* 549s 0 upgraded, 0 newly installed, 15 to remove and 5 not upgraded. 549s After this operation, 371 MB disk space will be freed. 549s (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.) 549s Removing libnl-genl-3-200:amd64 (3.7.0-1) ... 549s Removing linux-tools-6.11.0-8-generic (6.11.0-8.8) ... 549s Removing linux-tools-6.11.0-8 (6.11.0-8.8) ... 549s Removing libpython3.12t64:amd64 (3.12.9-1) ... 549s Removing libpython3.12-stdlib:amd64 (3.12.9-1) ... 549s Removing libnsl2:amd64 (1.3.0-3build3) ... 549s Removing libpython3.12-minimal:amd64 (3.12.9-1) ... 549s Removing linux-headers-6.11.0-8-generic (6.11.0-8.8) ... 550s Removing linux-headers-6.11.0-8 (6.11.0-8.8) ... 553s Removing linux-headers-6.12.0-16-generic (6.12.0-16.16) ... 553s Removing linux-headers-6.12.0-16 (6.12.0-16.16) ... 556s Removing linux-image-6.11.0-8-generic (6.11.0-8.8) ... 556s /etc/kernel/postrm.d/initramfs-tools: 556s update-initramfs: Deleting /boot/initrd.img-6.11.0-8-generic 557s /etc/kernel/postrm.d/zz-update-grub: 557s Sourcing file `/etc/default/grub' 557s Sourcing file `/etc/default/grub.d/50-cloudimg-settings.cfg' 557s Sourcing file `/etc/default/grub.d/90-autopkgtest.cfg' 557s Generating grub configuration file ... 557s Found linux image: /boot/vmlinuz-6.14.0-10-generic 557s Found initrd image: /boot/initrd.img-6.14.0-10-generic 557s Found linux image: /boot/vmlinuz-6.12.0-16-generic 557s Found initrd image: /boot/initrd.img-6.12.0-16-generic 557s Warning: os-prober will not be executed to detect other bootable partitions. 557s Systems on them will not be added to the GRUB boot configuration. 557s Check GRUB_DISABLE_OS_PROBER documentation entry. 557s Adding boot menu entry for UEFI Firmware Settings ... 557s done 557s Removing linux-modules-6.11.0-8-generic (6.11.0-8.8) ... 558s Removing linux-tools-6.12.0-16-generic (6.12.0-16.16) ... 558s Removing linux-tools-6.12.0-16 (6.12.0-16.16) ... 558s Processing triggers for libc-bin (2.41-1ubuntu1) ... 558s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 84830 files and directories currently installed.) 558s Purging configuration files for linux-image-6.11.0-8-generic (6.11.0-8.8) ... 558s Purging configuration files for libpython3.12-minimal:amd64 (3.12.9-1) ... 558s Purging configuration files for linux-modules-6.11.0-8-generic (6.11.0-8.8) ... 558s + grep -q trusty /etc/lsb-release 558s + [ ! -d /usr/share/doc/unattended-upgrades ] 558s + [ ! -d /usr/share/doc/lxd ] 558s + [ ! -d /usr/share/doc/lxd-client ] 558s + [ ! -d /usr/share/doc/snapd ] 558s + type iptables 558s + cat 558s + chmod 755 /etc/rc.local 558s + . /etc/rc.local 558s + iptables -w -t mangle -A FORWARD -p tcp --tcp-flags SYN,RST SYN -j TCPMSS --clamp-mss-to-pmtu 558s + iptables -A OUTPUT -d 10.255.255.1/32 -p tcp -j DROP 558s + iptables -A OUTPUT -d 10.255.255.2/32 -p tcp -j DROP 558s + uname -m 558s + [ x86_64 = ppc64le ] 558s + [ -d /run/systemd/system ] 558s + systemd-detect-virt --quiet --vm 558s + mkdir -p /etc/systemd/system/systemd-random-seed.service.d/ 558s + cat 558s + grep -q lz4 /etc/initramfs-tools/initramfs.conf 558s + echo COMPRESS=lz4 558s autopkgtest [22:00:18]: upgrading testbed (apt dist-upgrade and autopurge) 558s Reading package lists... 559s Building dependency tree... 559s Reading state information... 559s Calculating upgrade...Starting pkgProblemResolver with broken count: 0 559s Starting 2 pkgProblemResolver with broken count: 0 559s Done 560s Entering ResolveByKeep 561s 561s Calculating upgrade... 561s The following packages will be upgraded: 561s libc-bin libc-dev-bin libc6 libc6-dev locales 561s 5 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 561s Need to get 10.5 MB of archives. 561s After this operation, 1024 B of additional disk space will be used. 561s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 libc6-dev amd64 2.41-1ubuntu2 [2183 kB] 562s Get:2 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 libc-dev-bin amd64 2.41-1ubuntu2 [24.7 kB] 562s Get:3 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 libc6 amd64 2.41-1ubuntu2 [3327 kB] 562s Get:4 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 libc-bin amd64 2.41-1ubuntu2 [700 kB] 562s Get:5 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 locales all 2.41-1ubuntu2 [4246 kB] 563s Preconfiguring packages ... 563s Fetched 10.5 MB in 2s (6794 kB/s) 563s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 84827 files and directories currently installed.) 563s Preparing to unpack .../libc6-dev_2.41-1ubuntu2_amd64.deb ... 563s Unpacking libc6-dev:amd64 (2.41-1ubuntu2) over (2.41-1ubuntu1) ... 564s Preparing to unpack .../libc-dev-bin_2.41-1ubuntu2_amd64.deb ... 564s Unpacking libc-dev-bin (2.41-1ubuntu2) over (2.41-1ubuntu1) ... 564s Preparing to unpack .../libc6_2.41-1ubuntu2_amd64.deb ... 564s Unpacking libc6:amd64 (2.41-1ubuntu2) over (2.41-1ubuntu1) ... 564s Setting up libc6:amd64 (2.41-1ubuntu2) ... 564s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 84827 files and directories currently installed.) 564s Preparing to unpack .../libc-bin_2.41-1ubuntu2_amd64.deb ... 564s Unpacking libc-bin (2.41-1ubuntu2) over (2.41-1ubuntu1) ... 564s Setting up libc-bin (2.41-1ubuntu2) ... 565s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 84827 files and directories currently installed.) 565s Preparing to unpack .../locales_2.41-1ubuntu2_all.deb ... 565s Unpacking locales (2.41-1ubuntu2) over (2.41-1ubuntu1) ... 565s Setting up locales (2.41-1ubuntu2) ... 566s Generating locales (this might take a while)... 567s en_US.UTF-8... done 567s Generation complete. 568s Setting up libc-dev-bin (2.41-1ubuntu2) ... 568s Setting up libc6-dev:amd64 (2.41-1ubuntu2) ... 568s Processing triggers for man-db (2.13.0-1) ... 568s Processing triggers for systemd (257.3-1ubuntu3) ... 570s Reading package lists... 570s Building dependency tree... 570s Reading state information... 570s Starting pkgProblemResolver with broken count: 0 570s Starting 2 pkgProblemResolver with broken count: 0 570s Done 571s Solving dependencies... 571s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 571s autopkgtest [22:00:31]: rebooting testbed after setup commands that affected boot 599s Reading package lists... 599s Building dependency tree... 599s Reading state information... 599s Starting pkgProblemResolver with broken count: 0 599s Starting 2 pkgProblemResolver with broken count: 0 599s Done 600s The following NEW packages will be installed: 600s libdeflate0 libhts3t64 libhtscodecs2 python3-all python3-pysam 600s 0 upgraded, 5 newly installed, 0 to remove and 0 not upgraded. 600s Need to get 4677 kB of archives. 600s After this operation, 38.5 MB of additional disk space will be used. 600s Get:1 http://ftpmaster.internal/ubuntu plucky/main amd64 libdeflate0 amd64 1.23-1 [64.1 kB] 600s Get:2 http://ftpmaster.internal/ubuntu plucky/universe amd64 libhtscodecs2 amd64 1.6.1-2 [132 kB] 601s Get:3 http://ftpmaster.internal/ubuntu plucky/universe amd64 libhts3t64 amd64 1.21+ds-1 [514 kB] 601s Get:4 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-all amd64 3.13.2-2 [884 B] 601s Get:5 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-pysam amd64 0.23.0+ds-1build1 [3966 kB] 601s Fetched 4677 kB in 1s (4845 kB/s) 602s Selecting previously unselected package libdeflate0:amd64. 602s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 84827 files and directories currently installed.) 602s Preparing to unpack .../libdeflate0_1.23-1_amd64.deb ... 602s Unpacking libdeflate0:amd64 (1.23-1) ... 602s Selecting previously unselected package libhtscodecs2:amd64. 602s Preparing to unpack .../libhtscodecs2_1.6.1-2_amd64.deb ... 602s Unpacking libhtscodecs2:amd64 (1.6.1-2) ... 602s Selecting previously unselected package libhts3t64:amd64. 602s Preparing to unpack .../libhts3t64_1.21+ds-1_amd64.deb ... 602s Unpacking libhts3t64:amd64 (1.21+ds-1) ... 602s Selecting previously unselected package python3-all. 602s Preparing to unpack .../python3-all_3.13.2-2_amd64.deb ... 602s Unpacking python3-all (3.13.2-2) ... 602s Selecting previously unselected package python3-pysam. 602s Preparing to unpack .../python3-pysam_0.23.0+ds-1build1_amd64.deb ... 602s Unpacking python3-pysam (0.23.0+ds-1build1) ... 602s Setting up libhtscodecs2:amd64 (1.6.1-2) ... 602s Setting up libdeflate0:amd64 (1.23-1) ... 602s Setting up python3-all (3.13.2-2) ... 602s Setting up libhts3t64:amd64 (1.21+ds-1) ... 602s Setting up python3-pysam (0.23.0+ds-1build1) ... 602s Processing triggers for man-db (2.13.0-1) ... 603s Processing triggers for libc-bin (2.41-1ubuntu2) ... 607s autopkgtest [22:01:07]: test autodep8-python3: set -e ; for py in $(py3versions -r 2>/dev/null) ; do cd "$AUTOPKGTEST_TMP" ; echo "Testing with $py:" ; $py -c "import pysam; print(pysam)" ; done 607s autopkgtest [22:01:07]: test autodep8-python3: [----------------------- 607s Testing with python3.13: 607s 608s autopkgtest [22:01:08]: test autodep8-python3: -----------------------] 608s autodep8-python3 PASS (superficial) 608s autopkgtest [22:01:08]: test autodep8-python3: - - - - - - - - - - results - - - - - - - - - - 608s autopkgtest [22:01:08]: @@@@@@@@@@@@@@@@@@@@ summary 608s command1 PASS 608s autodep8-python3 PASS (superficial) 626s nova [W] Skipping flock for amd64 626s Creating nova instance adt-plucky-amd64-python-pysam-20250315-215100-juju-7f2275-prod-proposed-migration-environment-15-03019d48-dfdc-4d40-afad-ffcfbfd000a5 from image adt/ubuntu-plucky-amd64-server-20250304.img (UUID 9c7d4da5-d95f-4c85-ac1f-51eb37e75c4c)... 626s nova [W] Timed out waiting for 3bc6a4e7-ad8c-4a95-a9c0-3b9244e8b1e4 to get deleted. 626s nova [W] Skipping flock for amd64 626s Creating nova instance adt-plucky-amd64-python-pysam-20250315-215100-juju-7f2275-prod-proposed-migration-environment-15-03019d48-dfdc-4d40-afad-ffcfbfd000a5 from image adt/ubuntu-plucky-amd64-server-20250304.img (UUID 9c7d4da5-d95f-4c85-ac1f-51eb37e75c4c)... 626s nova [W] Timed out waiting for fa5248cf-cf6e-4217-bd65-7d2486b4beef to get deleted.