0s autopkgtest [21:52:06]: starting date and time: 2025-03-15 21:52:06+0000 0s autopkgtest [21:52:06]: git checkout: 325255d2 Merge branch 'pin-any-arch' into 'ubuntu/production' 0s autopkgtest [21:52:06]: host juju-7f2275-prod-proposed-migration-environment-2; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work.h316mgps/out --timeout-copy=6000 --setup-commands /home/ubuntu/autopkgtest-cloud/worker-config-production/setup-canonical.sh --apt-pocket=proposed=src:glibc --apt-upgrade python-skbio --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-2@bos03-20.secgroup --name adt-plucky-amd64-python-skbio-20250315-215206-juju-7f2275-prod-proposed-migration-environment-2-b1a9b415-fed5-4485-8751-d7f35d344e6a --image adt/ubuntu-plucky-amd64-server --keyname testbed-juju-7f2275-prod-proposed-migration-environment-2 --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 [21:52:59]: testbed dpkg architecture: amd64 53s autopkgtest [21:52:59]: testbed apt version: 2.9.31ubuntu1 54s autopkgtest [21:53:00]: @@@@@@@@@@@@@@@@@@@@ test bed setup 54s autopkgtest [21:53:00]: testbed release detected to be: None 55s autopkgtest [21:53:01]: updating testbed package index (apt update) 55s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease [126 kB] 56s Hit:2 http://ftpmaster.internal/ubuntu plucky InRelease 56s Hit:3 http://ftpmaster.internal/ubuntu plucky-updates InRelease 56s Hit:4 http://ftpmaster.internal/ubuntu plucky-security InRelease 56s Get:5 http://ftpmaster.internal/ubuntu plucky-proposed/main Sources [44.1 kB] 56s Get:6 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse Sources [14.5 kB] 56s Get:7 http://ftpmaster.internal/ubuntu plucky-proposed/universe Sources [369 kB] 56s Get:8 http://ftpmaster.internal/ubuntu plucky-proposed/main i386 Packages [67.4 kB] 56s Get:9 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 Packages [85.7 kB] 56s Get:10 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 c-n-f Metadata [1852 B] 56s Get:11 http://ftpmaster.internal/ubuntu plucky-proposed/restricted amd64 c-n-f Metadata [116 B] 56s Get:12 http://ftpmaster.internal/ubuntu plucky-proposed/universe amd64 Packages [342 kB] 56s Get:13 http://ftpmaster.internal/ubuntu plucky-proposed/universe i386 Packages [174 kB] 56s Get:14 http://ftpmaster.internal/ubuntu plucky-proposed/universe amd64 c-n-f Metadata [15.3 kB] 56s Get:15 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse i386 Packages [8544 B] 56s Get:16 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse amd64 Packages [16.1 kB] 56s Get:17 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse amd64 c-n-f Metadata [628 B] 56s Fetched 1265 kB in 1s (1310 kB/s) 57s Reading package lists... 58s Reading package lists... 58s Building dependency tree... 58s Reading state information... 59s Calculating upgrade... 59s 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 60s 126 upgraded, 12 newly installed, 0 to remove and 0 not upgraded. 60s Need to get 829 MB of archives. 60s After this operation, 325 MB of additional disk space will be used. 60s Get:1 http://ftpmaster.internal/ubuntu plucky/main amd64 ncurses-bin amd64 6.5+20250216-2 [194 kB] 60s Get:2 http://ftpmaster.internal/ubuntu plucky/main amd64 libc-dev-bin amd64 2.41-1ubuntu1 [24.7 kB] 60s Get:3 http://ftpmaster.internal/ubuntu plucky/main amd64 libc6-dev amd64 2.41-1ubuntu1 [2182 kB] 60s 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] 61s Get:17 http://ftpmaster.internal/ubuntu plucky/main amd64 libnss-systemd amd64 257.3-1ubuntu3 [199 kB] 61s Get:18 http://ftpmaster.internal/ubuntu plucky/main amd64 systemd-sysv amd64 257.3-1ubuntu3 [11.9 kB] 61s Get:19 http://ftpmaster.internal/ubuntu plucky/main amd64 systemd-resolved amd64 257.3-1ubuntu3 [345 kB] 61s Get:20 http://ftpmaster.internal/ubuntu plucky/main amd64 libpam-systemd amd64 257.3-1ubuntu3 [302 kB] 61s Get:21 http://ftpmaster.internal/ubuntu plucky/main amd64 libsystemd-shared amd64 257.3-1ubuntu3 [2371 kB] 61s Get:22 http://ftpmaster.internal/ubuntu plucky/main amd64 systemd amd64 257.3-1ubuntu3 [3052 kB] 61s Get:23 http://ftpmaster.internal/ubuntu plucky/main amd64 systemd-timesyncd amd64 257.3-1ubuntu3 [42.1 kB] 61s Get:24 http://ftpmaster.internal/ubuntu plucky/main amd64 systemd-cryptsetup amd64 257.3-1ubuntu3 [124 kB] 61s 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] 61s Get:66 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-dbus amd64 1.3.2-5build5 [102 kB] 61s Get:67 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-gi amd64 3.50.0-4build1 [252 kB] 61s Get:68 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-yaml amd64 6.0.2-1build2 [144 kB] 61s Get:69 http://ftpmaster.internal/ubuntu plucky/main amd64 rsyslog amd64 8.2412.0-2ubuntu2 [555 kB] 61s Get:70 http://ftpmaster.internal/ubuntu plucky/main amd64 whiptail amd64 0.52.24-4ubuntu2 [19.1 kB] 61s Get:71 http://ftpmaster.internal/ubuntu plucky/main amd64 ubuntu-minimal amd64 1.549 [11.5 kB] 61s Get:72 http://ftpmaster.internal/ubuntu plucky/main amd64 apparmor amd64 4.1.0~beta5-0ubuntu8 [701 kB] 61s 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] 62s Get:103 http://ftpmaster.internal/ubuntu plucky/main amd64 exfatprogs amd64 1.2.8-1 [76.3 kB] 62s 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] 84s Get:110 http://ftpmaster.internal/ubuntu plucky/main amd64 initramfs-tools all 0.146ubuntu1 [7920 B] 84s Get:111 http://ftpmaster.internal/ubuntu plucky/main amd64 initramfs-tools-core all 0.146ubuntu1 [51.9 kB] 84s Get:112 http://ftpmaster.internal/ubuntu plucky/main amd64 initramfs-tools-bin amd64 0.146ubuntu1 [26.2 kB] 84s Get:113 http://ftpmaster.internal/ubuntu plucky/main amd64 libdebuginfod1t64 amd64 0.192-4 [21.0 kB] 84s Get:114 http://ftpmaster.internal/ubuntu plucky/main amd64 libftdi1-2 amd64 1.5-8build1 [30.2 kB] 84s Get:115 http://ftpmaster.internal/ubuntu plucky/main amd64 libgpgme11t64 amd64 1.24.2-1ubuntu2 [155 kB] 84s Get:116 http://ftpmaster.internal/ubuntu plucky/main amd64 libjemalloc2 amd64 5.3.0-3 [277 kB] 84s 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] 86s 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] 86s 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] 91s Get:120 http://ftpmaster.internal/ubuntu plucky/main amd64 linux-generic amd64 6.14.0-10.10 [1730 B] 91s Get:121 http://ftpmaster.internal/ubuntu plucky/main amd64 linux-image-generic amd64 6.14.0-10.10 [11.1 kB] 91s Get:122 http://ftpmaster.internal/ubuntu plucky/main amd64 linux-virtual amd64 6.14.0-10.10 [1722 B] 91s Get:123 http://ftpmaster.internal/ubuntu plucky/main amd64 linux-image-virtual amd64 6.14.0-10.10 [11.1 kB] 91s Get:124 http://ftpmaster.internal/ubuntu plucky/main amd64 linux-headers-virtual amd64 6.14.0-10.10 [1642 B] 91s Get:125 http://ftpmaster.internal/ubuntu plucky/main amd64 linux-headers-6.14.0-10 all 6.14.0-10.10 [14.2 MB] 91s Get:126 http://ftpmaster.internal/ubuntu plucky/main amd64 linux-headers-6.14.0-10-generic amd64 6.14.0-10.10 [3915 kB] 91s Get:127 http://ftpmaster.internal/ubuntu plucky/main amd64 linux-headers-generic amd64 6.14.0-10.10 [11.0 kB] 91s Get:128 http://ftpmaster.internal/ubuntu plucky/main amd64 linux-perf amd64 6.14.0-10.10 [4122 kB] 92s Get:129 http://ftpmaster.internal/ubuntu plucky/main amd64 linux-tools-6.14.0-10 amd64 6.14.0-10.10 [1394 kB] 92s Get:130 http://ftpmaster.internal/ubuntu plucky/main amd64 linux-tools-6.14.0-10-generic amd64 6.14.0-10.10 [830 B] 92s Get:131 http://ftpmaster.internal/ubuntu plucky/main amd64 pinentry-curses amd64 1.3.1-2ubuntu3 [42.3 kB] 92s Get:132 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-lazr.uri all 1.0.6-6 [13.7 kB] 92s Get:133 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-rpds-py amd64 0.21.0-2ubuntu2 [278 kB] 92s Get:134 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-systemd amd64 235-1build6 [43.9 kB] 92s Get:135 http://ftpmaster.internal/ubuntu plucky/main amd64 python3.13-gdbm amd64 3.13.2-2 [31.9 kB] 92s Get:136 http://ftpmaster.internal/ubuntu plucky/main amd64 ubuntu-kernel-accessories amd64 1.549 [11.2 kB] 92s Get:137 http://ftpmaster.internal/ubuntu plucky/main amd64 cloud-init all 25.1-0ubuntu3 [2100 B] 92s Get:138 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-bcrypt amd64 4.2.0-2.1build1 [221 kB] 92s Preconfiguring packages ... 92s Fetched 829 MB in 32s (25.6 MB/s) 93s (Reading database ... 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(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.) 99s Preparing to unpack .../0-libsqlite3-0_3.46.1-2_amd64.deb ... 99s Unpacking libsqlite3-0:amd64 (3.46.1-2) over (3.46.1-1) ... 99s Preparing to unpack .../1-python3.13_3.13.2-2_amd64.deb ... 99s Unpacking python3.13 (3.13.2-2) over (3.13.2-1) ... 99s Preparing to unpack .../2-python3.13-minimal_3.13.2-2_amd64.deb ... 99s Unpacking python3.13-minimal (3.13.2-2) over (3.13.2-1) ... 99s Preparing to unpack .../3-libpython3.13-minimal_3.13.2-2_amd64.deb ... 99s Unpacking libpython3.13-minimal:amd64 (3.13.2-2) over (3.13.2-1) ... 100s Preparing to unpack .../4-libpython3.13-stdlib_3.13.2-2_amd64.deb ... 100s Unpacking libpython3.13-stdlib:amd64 (3.13.2-2) over (3.13.2-1) ... 100s Preparing to unpack .../5-libpython3-stdlib_3.13.2-2_amd64.deb ... 100s Unpacking libpython3-stdlib:amd64 (3.13.2-2) over (3.13.2-1) ... 100s Preparing to unpack .../6-rsync_3.4.1+ds1-3_amd64.deb ... 100s Unpacking rsync (3.4.1+ds1-3) over (3.4.1-0syncable1) ... 100s Selecting previously unselected package libdebuginfod-common. 100s Preparing to unpack .../7-libdebuginfod-common_0.192-4_all.deb ... 100s Unpacking libdebuginfod-common (0.192-4) ... 100s Preparing to unpack .../8-libsemanage-common_3.7-2.1build1_all.deb ... 100s Unpacking libsemanage-common (3.7-2.1build1) over (3.7-2.1) ... 100s Setting up libsemanage-common (3.7-2.1build1) ... 100s (Reading database ... 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.../23-parted_3.6-5_amd64.deb ... 103s Unpacking parted (3.6-5) over (3.6-4build1) ... 103s Preparing to unpack .../24-libparted2t64_3.6-5_amd64.deb ... 103s 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' 103s 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' 103s Unpacking libparted2t64:amd64 (3.6-5) over (3.6-4build1) ... 103s Preparing to unpack .../25-pci.ids_0.0~2025.03.09-1_all.deb ... 103s Unpacking pci.ids (0.0~2025.03.09-1) over (0.0~2025.02.12-1) ... 103s Preparing to unpack .../26-pciutils_1%3a3.13.0-2_amd64.deb ... 103s Unpacking pciutils (1:3.13.0-2) over (1:3.13.0-1) ... 103s Preparing to unpack .../27-libpci3_1%3a3.13.0-2_amd64.deb ... 103s Unpacking libpci3:amd64 (1:3.13.0-2) over (1:3.13.0-1) ... 103s Preparing to unpack .../28-strace_6.13+ds-1ubuntu1_amd64.deb ... 103s Unpacking strace 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.../56-initramfs-tools_0.146ubuntu1_all.deb ... 108s Unpacking initramfs-tools (0.146ubuntu1) over (0.145ubuntu3) ... 108s Preparing to unpack .../57-initramfs-tools-core_0.146ubuntu1_all.deb ... 108s Unpacking initramfs-tools-core (0.146ubuntu1) over (0.145ubuntu3) ... 108s Preparing to unpack .../58-initramfs-tools-bin_0.146ubuntu1_amd64.deb ... 108s Unpacking initramfs-tools-bin (0.146ubuntu1) over (0.145ubuntu3) ... 108s Selecting previously unselected package libdebuginfod1t64:amd64. 108s Preparing to unpack .../59-libdebuginfod1t64_0.192-4_amd64.deb ... 108s Unpacking libdebuginfod1t64:amd64 (0.192-4) ... 108s Preparing to unpack .../60-libftdi1-2_1.5-8build1_amd64.deb ... 108s Unpacking libftdi1-2:amd64 (1.5-8build1) over (1.5-8) ... 108s Preparing to unpack .../61-libgpgme11t64_1.24.2-1ubuntu2_amd64.deb ... 108s Unpacking libgpgme11t64:amd64 (1.24.2-1ubuntu2) over (1.24.2-1ubuntu1) ... 108s Preparing to unpack .../62-libjemalloc2_5.3.0-3_amd64.deb ... 108s Unpacking 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(1.0.6-6) over (1.0.6-5) ... 115s Preparing to unpack .../79-python3-rpds-py_0.21.0-2ubuntu2_amd64.deb ... 115s Unpacking python3-rpds-py (0.21.0-2ubuntu2) over (0.21.0-2ubuntu1) ... 115s Preparing to unpack .../80-python3-systemd_235-1build6_amd64.deb ... 115s Unpacking python3-systemd (235-1build6) over (235-1build5) ... 115s Preparing to unpack .../81-python3.13-gdbm_3.13.2-2_amd64.deb ... 115s Unpacking python3.13-gdbm (3.13.2-2) over (3.13.2-1) ... 115s Preparing to unpack .../82-ubuntu-kernel-accessories_1.549_amd64.deb ... 115s Unpacking ubuntu-kernel-accessories (1.549) over (1.548) ... 115s Preparing to unpack .../83-cloud-init_25.1-0ubuntu3_all.deb ... 115s Unpacking cloud-init (25.1-0ubuntu3) over (25.1-0ubuntu2) ... 115s Preparing to unpack .../84-python3-bcrypt_4.2.0-2.1build1_amd64.deb ... 115s Unpacking python3-bcrypt (4.2.0-2.1build1) over (4.2.0-2.1) ... 115s Setting up linux-headers-6.14.0-10 (6.14.0-10.10) ... 115s Setting up media-types (13.0.0) ... 115s Installing new version of config file /etc/mime.types ... 115s Setting up linux-headers-6.14.0-10-generic (6.14.0-10.10) ... 115s Setting up ubuntu-kernel-accessories (1.549) ... 115s Setting up libapparmor1:amd64 (4.1.0~beta5-0ubuntu8) ... 115s Setting up pci.ids (0.0~2025.03.09-1) ... 115s Setting up libnewt0.52:amd64 (0.52.24-4ubuntu2) ... 115s Setting up apt-utils (2.9.33) ... 115s Setting up libdebuginfod-common (0.192-4) ... 115s Setting up exfatprogs (1.2.8-1) ... 115s Setting up linux-firmware (20250310.git9e1370d3-0ubuntu1) ... 115s Setting up bpftool (7.6.0+6.14.0-10.10) ... 115s Setting up libestr0:amd64 (0.1.11-2) ... 115s Setting up libbrotli1:amd64 (1.1.0-2build4) ... 115s Setting up libsqlite3-0:amd64 (3.46.1-2) ... 115s Setting up dosfstools (4.2-1.2) ... 115s Setting up rsyslog (8.2412.0-2ubuntu2) ... 116s info: The user `syslog' is already a member of `adm'. 118s Setting up binutils-common:amd64 (2.44-3ubuntu1) ... 118s Setting up libcurl3t64-gnutls:amd64 (8.12.1-3ubuntu1) ... 118s Setting up linux-libc-dev:amd64 (6.14.0-10.10) ... 118s Setting up libctf-nobfd0:amd64 (2.44-3ubuntu1) ... 118s Setting up systemd (257.3-1ubuntu3) ... 118s /usr/lib/tmpfiles.d/legacy.conf:14: Duplicate line for path "/run/lock", ignoring. 118s Created symlink '/run/systemd/system/tmp.mount' → '/dev/null'. 118s /usr/lib/tmpfiles.d/legacy.conf:14: Duplicate line for path "/run/lock", ignoring. 119s Setting up libparted2t64:amd64 (3.6-5) ... 119s 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' 119s 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' 119s Setting up linux-headers-generic (6.14.0-10.10) ... 119s Setting up libjemalloc2:amd64 (5.3.0-3) ... 119s Setting up locales (2.41-1ubuntu1) ... 119s Installing new version of config file /etc/locale.alias ... 120s Generating locales (this might take a while)... 121s en_US.UTF-8... done 121s Generation complete. 121s Setting up libsframe1:amd64 (2.44-3ubuntu1) ... 121s Setting up libpython3.13-minimal:amd64 (3.13.2-2) ... 121s Setting up apparmor (4.1.0~beta5-0ubuntu8) ... 121s Installing new version of config file /etc/apparmor.d/fusermount3 ... 121s Installing new version of config file /etc/apparmor.d/lsusb ... 121s Installing new version of config file /etc/apparmor.d/openvpn ... 122s Reloading AppArmor profiles 124s Setting up libftdi1-2:amd64 (1.5-8build1) ... 124s Setting up libglib2.0-data (2.84.0-1) ... 124s Setting up systemd-cryptsetup (257.3-1ubuntu3) ... 124s Setting up libncurses6:amd64 (6.5+20250216-2) ... 124s Setting up strace (6.13+ds-1ubuntu1) ... 124s Setting up xz-utils (5.6.4-1) ... 124s Setting up systemd-timesyncd (257.3-1ubuntu3) ... 124s systemd-time-wait-sync.service is a disabled or a static unit not running, not starting it. 124s Setting up libatomic1:amd64 (15-20250222-0ubuntu1) ... 124s Setting up udev (257.3-1ubuntu3) ... 125s Setting up linux-modules-6.14.0-10-generic (6.14.0-10.10) ... 127s Setting up libncursesw6:amd64 (6.5+20250216-2) ... 127s Setting up libpci3:amd64 (1:3.13.0-2) ... 127s Setting up whiptail (0.52.24-4ubuntu2) ... 127s Setting up python-apt-common (2.9.9build1) ... 127s Setting up pnp.ids (0.393-3) ... 127s Setting up libnl-3-200:amd64 (3.7.0-1) ... 127s Setting up python3.13-minimal (3.13.2-2) ... 128s Setting up libgpgme11t64:amd64 (1.24.2-1ubuntu2) ... 128s Setting up libbinutils:amd64 (2.44-3ubuntu1) ... 128s Setting up libc-dev-bin (2.41-1ubuntu1) ... 128s Setting up libpython3.13-stdlib:amd64 (3.13.2-2) ... 128s Setting up libxml2:amd64 (2.12.7+dfsg+really2.9.14-0.2ubuntu5) ... 128s Setting up rsync (3.4.1+ds1-3) ... 129s rsync.service is a disabled or a static unit not running, not starting it. 129s Setting up python3.13-gdbm (3.13.2-2) ... 129s Setting up libpython3-stdlib:amd64 (3.13.2-2) ... 129s Setting up systemd-resolved (257.3-1ubuntu3) ... 129s Setting up initramfs-tools-bin (0.146ubuntu1) ... 129s Setting up ncurses-term (6.5+20250216-2) ... 129s Setting up libctf0:amd64 (2.44-3ubuntu1) ... 129s Setting up libpython3.13:amd64 (3.13.2-2) ... 129s Setting up pinentry-curses (1.3.1-2ubuntu3) ... 129s Setting up libdebuginfod1t64:amd64 (0.192-4) ... 129s Setting up systemd-sysv (257.3-1ubuntu3) ... 129s Setting up linux-headers-virtual (6.14.0-10.10) ... 129s Setting up libcurl4t64:amd64 (8.12.1-3ubuntu1) ... 129s Setting up python3.13 (3.13.2-2) ... 130s Setting up htop (3.4.0-2) ... 130s Setting up linux-image-6.14.0-10-generic (6.14.0-10.10) ... 133s I: /boot/vmlinuz.old is now a symlink to vmlinuz-6.12.0-16-generic 133s I: /boot/initrd.img.old is now a symlink to initrd.img-6.12.0-16-generic 133s I: /boot/vmlinuz is now a symlink to vmlinuz-6.14.0-10-generic 133s I: /boot/initrd.img is now a symlink to initrd.img-6.14.0-10-generic 133s Setting up parted (3.6-5) ... 133s Setting up libnss-systemd:amd64 (257.3-1ubuntu3) ... 133s Setting up python3 (3.13.2-2) ... 133s Setting up python3-newt:amd64 (0.52.24-4ubuntu2) ... 133s Setting up python3-markupsafe (2.1.5-1build4) ... 133s Setting up linux-modules-extra-6.14.0-10-generic (6.14.0-10.10) ... 136s Setting up libnl-route-3-200:amd64 (3.7.0-1) ... 136s Setting up hwdata (0.393-3) ... 136s Setting up python3-jinja2 (3.1.5-2ubuntu1) ... 136s Setting up libglib2.0-0t64:amd64 (2.84.0-1) ... 136s No schema files found: doing nothing. 136s Setting up libgprofng0:amd64 (2.44-3ubuntu1) ... 136s Setting up linux-perf (6.14.0-10.10) ... 136s Setting up gir1.2-glib-2.0:amd64 (2.84.0-1) ... 136s Setting up pciutils (1:3.13.0-2) ... 136s Setting up python3-rpds-py (0.21.0-2ubuntu2) ... 136s Setting up libmm-glib0:amd64 (1.23.4-0ubuntu3) ... 136s Setting up libnl-genl-3-200:amd64 (3.7.0-1) ... 136s Setting up libpam-systemd:amd64 (257.3-1ubuntu3) ... 136s Setting up libc6-dev:amd64 (2.41-1ubuntu1) ... 136s Setting up libgirepository-1.0-1:amd64 (1.83.4-1) ... 136s Setting up curl (8.12.1-3ubuntu1) ... 136s Setting up linux-image-virtual (6.14.0-10.10) ... 136s Setting up initramfs-tools-core (0.146ubuntu1) ... 136s Setting up linux-tools-common (6.14.0-10.10) ... 136s Setting up python3-systemd (235-1build6) ... 136s Setting up python3-cffi-backend:amd64 (1.17.1-2build2) ... 136s Setting up binutils-x86-64-linux-gnu (2.44-3ubuntu1) ... 136s Setting up linux-image-generic (6.14.0-10.10) ... 136s Setting up python3-dbus (1.3.2-5build5) ... 136s Setting up linux-tools-6.14.0-10 (6.14.0-10.10) ... 136s Setting up initramfs-tools (0.146ubuntu1) ... 136s Installing new version of config file /etc/kernel/postinst.d/initramfs-tools ... 136s Installing new version of config file /etc/kernel/postrm.d/initramfs-tools ... 136s update-initramfs: deferring update (trigger activated) 136s Setting up linux-generic (6.14.0-10.10) ... 136s Setting up ubuntu-minimal (1.549) ... 136s Setting up python3-apt (2.9.9build1) ... 136s Setting up python3-bcrypt (4.2.0-2.1build1) ... 137s Setting up python3-yaml (6.0.2-1build2) ... 137s Setting up libfwupd3:amd64 (2.0.6-4) ... 137s Setting up python3-lazr.uri (1.0.6-6) ... 137s Setting up binutils (2.44-3ubuntu1) ... 137s Setting up ubuntu-standard (1.549) ... 137s Setting up cloud-init-base (25.1-0ubuntu3) ... 138s Setting up linux-virtual (6.14.0-10.10) ... 138s Setting up gir1.2-girepository-2.0:amd64 (1.83.4-1) ... 138s Setting up python3-gi (3.50.0-4build1) ... 138s Setting up linux-tools-6.14.0-10-generic (6.14.0-10.10) ... 138s Setting up fwupd (2.0.6-4) ... 139s fwupd-refresh.service is a disabled or a static unit not running, not starting it. 139s fwupd.service is a disabled or a static unit not running, not starting it. 139s Setting up cloud-init (25.1-0ubuntu3) ... 139s Processing triggers for man-db (2.13.0-1) ... 141s Processing triggers for dbus (1.16.2-1ubuntu1) ... 141s Processing triggers for shared-mime-info (2.4-5) ... 141s Warning: program compiled against libxml 212 using older 209 141s Processing triggers for libc-bin (2.41-1ubuntu1) ... 141s Processing triggers for linux-image-6.14.0-10-generic (6.14.0-10.10) ... 141s /etc/kernel/postinst.d/initramfs-tools: 141s update-initramfs: Generating /boot/initrd.img-6.14.0-10-generic 141s W: No lz4 in /usr/bin:/sbin:/bin, using gzip 152s /etc/kernel/postinst.d/zz-update-grub: 152s Sourcing file `/etc/default/grub' 152s Sourcing file `/etc/default/grub.d/50-cloudimg-settings.cfg' 152s Sourcing file `/etc/default/grub.d/90-autopkgtest.cfg' 152s Generating grub configuration file ... 152s Found linux image: /boot/vmlinuz-6.14.0-10-generic 152s Found initrd image: /boot/initrd.img-6.14.0-10-generic 152s Found linux image: /boot/vmlinuz-6.12.0-16-generic 152s Found initrd image: /boot/initrd.img-6.12.0-16-generic 152s Found linux image: /boot/vmlinuz-6.11.0-8-generic 152s Found initrd image: /boot/initrd.img-6.11.0-8-generic 153s Warning: os-prober will not be executed to detect other bootable partitions. 153s Systems on them will not be added to the GRUB boot configuration. 153s Check GRUB_DISABLE_OS_PROBER documentation entry. 153s Adding boot menu entry for UEFI Firmware Settings ... 153s done 153s Processing triggers for initramfs-tools (0.146ubuntu1) ... 153s update-initramfs: Generating /boot/initrd.img-6.14.0-10-generic 153s W: No lz4 in /usr/bin:/sbin:/bin, using gzip 164s Reading package lists... 164s Building dependency tree... 164s Reading state information... 165s Solving dependencies... 165s The following packages will be REMOVED: 165s libnl-genl-3-200* libnsl2* libpython3.12-minimal* libpython3.12-stdlib* 165s libpython3.12t64* linux-headers-6.11.0-8* linux-headers-6.11.0-8-generic* 165s linux-headers-6.12.0-16* linux-headers-6.12.0-16-generic* 165s linux-image-6.11.0-8-generic* linux-image-6.12.0-16-generic* 165s linux-modules-6.11.0-8-generic* linux-modules-6.12.0-16-generic* 165s linux-modules-extra-6.12.0-16-generic* linux-tools-6.11.0-8* 165s linux-tools-6.11.0-8-generic* linux-tools-6.12.0-16* 165s linux-tools-6.12.0-16-generic* 165s 0 upgraded, 0 newly installed, 18 to remove and 5 not upgraded. 165s After this operation, 545 MB disk space will be freed. 165s (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.) 165s Removing libnl-genl-3-200:amd64 (3.7.0-1) ... 165s Removing linux-tools-6.11.0-8-generic (6.11.0-8.8) ... 165s Removing linux-tools-6.11.0-8 (6.11.0-8.8) ... 165s Removing libpython3.12t64:amd64 (3.12.9-1) ... 165s Removing libpython3.12-stdlib:amd64 (3.12.9-1) ... 165s Removing libnsl2:amd64 (1.3.0-3build3) ... 165s Removing libpython3.12-minimal:amd64 (3.12.9-1) ... 165s Removing linux-headers-6.11.0-8-generic (6.11.0-8.8) ... 166s Removing linux-headers-6.11.0-8 (6.11.0-8.8) ... 168s Removing linux-headers-6.12.0-16-generic (6.12.0-16.16) ... 169s Removing linux-headers-6.12.0-16 (6.12.0-16.16) ... 171s Removing linux-image-6.11.0-8-generic (6.11.0-8.8) ... 171s /etc/kernel/postrm.d/initramfs-tools: 171s update-initramfs: Deleting /boot/initrd.img-6.11.0-8-generic 172s /etc/kernel/postrm.d/zz-update-grub: 172s Sourcing file `/etc/default/grub' 172s Sourcing file `/etc/default/grub.d/50-cloudimg-settings.cfg' 172s Sourcing file `/etc/default/grub.d/90-autopkgtest.cfg' 172s Generating grub configuration file ... 172s Found linux image: /boot/vmlinuz-6.14.0-10-generic 172s Found initrd image: /boot/initrd.img-6.14.0-10-generic 172s Found linux image: /boot/vmlinuz-6.12.0-16-generic 172s Found initrd image: /boot/initrd.img-6.12.0-16-generic 172s Warning: os-prober will not be executed to detect other bootable partitions. 172s Systems on them will not be added to the GRUB boot configuration. 172s Check GRUB_DISABLE_OS_PROBER documentation entry. 172s Adding boot menu entry for UEFI Firmware Settings ... 172s done 172s Removing linux-image-6.12.0-16-generic (6.12.0-16.16) ... 172s W: Removing the running kernel 172s I: /boot/vmlinuz.old is now a symlink to vmlinuz-6.14.0-10-generic 172s I: /boot/initrd.img.old is now a symlink to initrd.img-6.14.0-10-generic 172s /etc/kernel/postrm.d/initramfs-tools: 172s update-initramfs: Deleting /boot/initrd.img-6.12.0-16-generic 172s /etc/kernel/postrm.d/zz-update-grub: 172s Sourcing file `/etc/default/grub' 172s Sourcing file `/etc/default/grub.d/50-cloudimg-settings.cfg' 172s Sourcing file `/etc/default/grub.d/90-autopkgtest.cfg' 172s Generating grub configuration file ... 173s Found linux image: /boot/vmlinuz-6.14.0-10-generic 173s Found initrd image: /boot/initrd.img-6.14.0-10-generic 173s Warning: os-prober will not be executed to detect other bootable partitions. 173s Systems on them will not be added to the GRUB boot configuration. 173s Check GRUB_DISABLE_OS_PROBER documentation entry. 173s Adding boot menu entry for UEFI Firmware Settings ... 173s done 173s Removing linux-modules-6.11.0-8-generic (6.11.0-8.8) ... 173s Removing linux-modules-extra-6.12.0-16-generic (6.12.0-16.16) ... 175s Removing linux-modules-6.12.0-16-generic (6.12.0-16.16) ... 175s Removing linux-tools-6.12.0-16-generic (6.12.0-16.16) ... 175s Removing linux-tools-6.12.0-16 (6.12.0-16.16) ... 175s Processing triggers for libc-bin (2.41-1ubuntu1) ... 175s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 76972 files and directories currently installed.) 175s Purging configuration files for linux-image-6.11.0-8-generic (6.11.0-8.8) ... 175s Purging configuration files for libpython3.12-minimal:amd64 (3.12.9-1) ... 175s Purging configuration files for linux-modules-extra-6.12.0-16-generic (6.12.0-16.16) ... 175s Purging configuration files for linux-modules-6.12.0-16-generic (6.12.0-16.16) ... 175s dpkg: warning: while removing linux-modules-6.12.0-16-generic, directory '/lib/modules/6.12.0-16-generic' not empty so not removed 175s Purging configuration files for linux-modules-6.11.0-8-generic (6.11.0-8.8) ... 175s Purging configuration files for linux-image-6.12.0-16-generic (6.12.0-16.16) ... 175s rmdir: failed to remove '/lib/modules/6.12.0-16-generic': Directory not empty 176s autopkgtest [21:55:02]: upgrading testbed (apt dist-upgrade and autopurge) 176s Reading package lists... 176s Building dependency tree... 176s Reading state information... 177s Calculating upgrade...Starting pkgProblemResolver with broken count: 0 177s Starting 2 pkgProblemResolver with broken count: 0 177s Done 177s Entering ResolveByKeep 177s 177s Calculating upgrade... 177s The following packages will be upgraded: 177s libc-bin libc-dev-bin libc6 libc6-dev locales 178s 5 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 178s Need to get 10.5 MB of archives. 178s After this operation, 1024 B of additional disk space will be used. 178s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 libc6-dev amd64 2.41-1ubuntu2 [2183 kB] 179s Get:2 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 libc-dev-bin amd64 2.41-1ubuntu2 [24.7 kB] 179s Get:3 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 libc6 amd64 2.41-1ubuntu2 [3327 kB] 180s Get:4 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 libc-bin amd64 2.41-1ubuntu2 [700 kB] 180s Get:5 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 locales all 2.41-1ubuntu2 [4246 kB] 181s Preconfiguring packages ... 181s Fetched 10.5 MB in 3s (3024 kB/s) 181s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 76968 files and directories currently installed.) 181s Preparing to unpack .../libc6-dev_2.41-1ubuntu2_amd64.deb ... 181s Unpacking libc6-dev:amd64 (2.41-1ubuntu2) over (2.41-1ubuntu1) ... 182s Preparing to unpack .../libc-dev-bin_2.41-1ubuntu2_amd64.deb ... 182s Unpacking libc-dev-bin (2.41-1ubuntu2) over (2.41-1ubuntu1) ... 182s Preparing to unpack .../libc6_2.41-1ubuntu2_amd64.deb ... 182s Unpacking libc6:amd64 (2.41-1ubuntu2) over (2.41-1ubuntu1) ... 182s Setting up libc6:amd64 (2.41-1ubuntu2) ... 182s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 76968 files and directories currently installed.) 182s Preparing to unpack .../libc-bin_2.41-1ubuntu2_amd64.deb ... 182s Unpacking libc-bin (2.41-1ubuntu2) over (2.41-1ubuntu1) ... 182s Setting up libc-bin (2.41-1ubuntu2) ... 182s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 76968 files and directories currently installed.) 182s Preparing to unpack .../locales_2.41-1ubuntu2_all.deb ... 182s Unpacking locales (2.41-1ubuntu2) over (2.41-1ubuntu1) ... 182s Setting up locales (2.41-1ubuntu2) ... 183s Generating locales (this might take a while)... 185s en_US.UTF-8... done 185s Generation complete. 185s Setting up libc-dev-bin (2.41-1ubuntu2) ... 185s Setting up libc6-dev:amd64 (2.41-1ubuntu2) ... 185s Processing triggers for man-db (2.13.0-1) ... 186s Processing triggers for systemd (257.3-1ubuntu3) ... 187s Reading package lists... 187s Building dependency tree... 187s Reading state information... 187s Starting pkgProblemResolver with broken count: 0 187s Starting 2 pkgProblemResolver with broken count: 0 187s Done 188s Solving dependencies... 188s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 188s autopkgtest [21:55:14]: rebooting testbed after setup commands that affected boot 211s autopkgtest [21:55:37]: testbed running kernel: Linux 6.14.0-10-generic #10-Ubuntu SMP PREEMPT_DYNAMIC Wed Mar 12 16:07:00 UTC 2025 214s autopkgtest [21:55:40]: @@@@@@@@@@@@@@@@@@@@ apt-source python-skbio 218s Get:1 http://ftpmaster.internal/ubuntu plucky/universe python-skbio 0.6.2-4build2 (dsc) [2921 B] 218s Get:2 http://ftpmaster.internal/ubuntu plucky/universe python-skbio 0.6.2-4build2 (tar) [2204 kB] 218s Get:3 http://ftpmaster.internal/ubuntu plucky/universe python-skbio 0.6.2-4build2 (diff) [12.0 kB] 218s gpgv: Signature made Tue Mar 4 14:51:35 2025 UTC 218s gpgv: using RSA key 25E3FF2D7F469DBE7D0D4E50AFCFEC8E669CE1C2 218s gpgv: Can't check signature: No public key 218s dpkg-source: warning: cannot verify inline signature for ./python-skbio_0.6.2-4build2.dsc: no acceptable signature found 219s autopkgtest [21:55:45]: testing package python-skbio version 0.6.2-4build2 219s autopkgtest [21:55:45]: build not needed 220s autopkgtest [21:55:46]: test pybuild-autopkgtest: preparing testbed 220s Reading package lists... 221s Building dependency tree... 221s Reading state information... 221s Starting pkgProblemResolver with broken count: 0 221s Starting 2 pkgProblemResolver with broken count: 0 221s Done 222s The following NEW packages will be installed: 222s architecture-properties autoconf automake autopoint autotools-dev blt 222s build-essential cpp cpp-14 cpp-14-x86-64-linux-gnu cpp-x86-64-linux-gnu 222s cython3 debhelper debugedit dh-autoreconf dh-python dh-strip-nondeterminism 222s docutils-common dwz fontconfig-config fonts-dejavu-core fonts-dejavu-mono 222s fonts-lyx fonts-mathjax fonts-open-sans g++ g++-14 g++-14-x86-64-linux-gnu 222s g++-x86-64-linux-gnu gcc gcc-14 gcc-14-x86-64-linux-gnu gcc-x86-64-linux-gnu 222s gettext intltool-debian libaec0 libarchive-zip-perl libasan8 libblas3 222s libcc1-0 libdebhelper-perl libdeflate0 libexpat1-dev 222s libfile-stripnondeterminism-perl libfontconfig1 libgcc-14-dev libgfortran5 222s libgomp1 libgraphite2-3 libharfbuzz0b libhdf5-310 libhdf5-hl-310 libhwasan0 222s libimagequant0 libisl23 libitm1 libjbig0 libjpeg-turbo8 libjpeg8 222s libjs-jquery libjs-jquery-ui libjs-mathjax libjs-sphinxdoc libjs-underscore 222s libjson-perl liblapack3 liblbfgsb0 liblcms2-2 liblerc4 liblsan0 liblzf1 222s libmpc3 libopenjp2-7 libpython3-all-dev libpython3-dev libpython3.13-dev 222s libqhull-r8.0 libquadmath0 libraqm0 libsharpyuv0 libsimde-dev libssw-dev 222s libssw0 libstdc++-14-dev libsz2 libtcl8.6 libtiff6 libtk8.6 libtool libtsan2 222s libubsan1 libwebp7 libwebpdemux2 libwebpmux3 libxft2 libxrender1 libxslt1.1 222s libxss1 m4 node-fortawesome-fontawesome-free po-debconf 222s pybuild-plugin-autopkgtest python-biom-format-doc python-matplotlib-data 222s python-numpy-doc python-pandas-doc python-scipy-doc python-skbio-doc 222s python3-accessible-pygments python3-alabaster python3-all python3-all-dev 222s python3-asttokens python3-biom-format python3-brotli python3-bs4 222s python3-cachecontrol python3-click python3-contourpy python3-cycler 222s python3-dateutil python3-decorator python3-defusedxml python3-dev 222s python3-doc python3-docutils python3-executing python3-fonttools python3-fs 222s python3-h5py python3-h5py-serial python3-hdmedians python3-imagesize 222s python3-iniconfig python3-ipython python3-jedi python3-joblib 222s python3-kiwisolver python3-lxml python3-lz4 python3-matplotlib 222s python3-matplotlib-inline python3-mpmath python3-msgpack python3-natsort 222s python3-numpy python3-numpy-dev python3-numpydoc python3-packaging 222s python3-pandas python3-pandas-lib python3-parso python3-patsy 222s python3-pexpect python3-pil python3-pil.imagetk python3-platformdirs 222s python3-pluggy python3-prompt-toolkit python3-ptyprocess python3-pure-eval 222s python3-pydata-sphinx-theme python3-pytest python3-pytz python3-roman 222s python3-scipy python3-skbio python3-sklearn python3-sklearn-lib 222s python3-snowballstemmer python3-soupsieve python3-sphinx 222s python3-sphinx-copybutton python3-sphinx-design python3-stack-data 222s python3-statsmodels python3-statsmodels-lib python3-sympy python3-tabulate 222s python3-threadpoolctl python3-tk python3-traitlets python3-typeshed 222s python3-tz python3-ufolib2 python3-wcwidth python3.12-tk python3.13-dev 222s python3.13-doc python3.13-tk sgml-base sphinx-common tk8.6-blt2.5 222s unicode-data x11-common xml-core zlib1g-dev 222s 0 upgraded, 197 newly installed, 0 to remove and 0 not upgraded. 222s Need to get 235 MB of archives. 222s After this operation, 1293 MB of additional disk space will be used. 222s Get:1 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-numpy-dev amd64 1:2.2.3+ds-5 [148 kB] 222s Get:2 http://ftpmaster.internal/ubuntu plucky/main amd64 libblas3 amd64 3.12.1-2 [359 kB] 222s Get:3 http://ftpmaster.internal/ubuntu plucky/main amd64 libgfortran5 amd64 15-20250222-0ubuntu1 [919 kB] 223s Get:4 http://ftpmaster.internal/ubuntu plucky/main amd64 liblapack3 amd64 3.12.1-2 [3179 kB] 224s Get:5 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-numpy amd64 1:2.2.3+ds-5 [5702 kB] 226s Get:6 http://ftpmaster.internal/ubuntu plucky/main amd64 sgml-base all 1.31 [11.4 kB] 226s Get:7 http://ftpmaster.internal/ubuntu plucky/universe amd64 architecture-properties amd64 0.2.6 [2210 B] 226s Get:8 http://ftpmaster.internal/ubuntu plucky/main amd64 m4 amd64 1.4.19-7 [263 kB] 226s Get:9 http://ftpmaster.internal/ubuntu plucky/main amd64 autoconf all 2.72-3ubuntu1 [383 kB] 226s Get:10 http://ftpmaster.internal/ubuntu plucky/main amd64 autotools-dev all 20220109.1 [44.9 kB] 226s Get:11 http://ftpmaster.internal/ubuntu plucky/main amd64 automake all 1:1.17-3ubuntu1 [572 kB] 226s Get:12 http://ftpmaster.internal/ubuntu plucky/main amd64 autopoint all 0.23.1-1 [619 kB] 226s Get:13 http://ftpmaster.internal/ubuntu plucky/main amd64 libtcl8.6 amd64 8.6.16+dfsg-1 [1086 kB] 227s Get:14 http://ftpmaster.internal/ubuntu plucky/main amd64 fonts-dejavu-mono all 2.37-8 [502 kB] 227s Get:15 http://ftpmaster.internal/ubuntu plucky/main amd64 fonts-dejavu-core all 2.37-8 [835 kB] 227s Get:16 http://ftpmaster.internal/ubuntu plucky/main amd64 fontconfig-config amd64 2.15.0-2ubuntu1 [37.4 kB] 227s Get:17 http://ftpmaster.internal/ubuntu plucky/main amd64 libfontconfig1 amd64 2.15.0-2ubuntu1 [164 kB] 227s Get:18 http://ftpmaster.internal/ubuntu plucky/main amd64 libxrender1 amd64 1:0.9.10-1.1build1 [19.0 kB] 227s Get:19 http://ftpmaster.internal/ubuntu plucky/main amd64 libxft2 amd64 2.3.6-1build1 [45.3 kB] 227s Get:20 http://ftpmaster.internal/ubuntu plucky/main amd64 x11-common all 1:7.7+23ubuntu3 [21.7 kB] 227s Get:21 http://ftpmaster.internal/ubuntu plucky/main amd64 libxss1 amd64 1:1.2.3-1build3 [7204 B] 227s Get:22 http://ftpmaster.internal/ubuntu plucky/main amd64 libtk8.6 amd64 8.6.16-1 [868 kB] 227s Get:23 http://ftpmaster.internal/ubuntu plucky/main amd64 tk8.6-blt2.5 amd64 2.5.3+dfsg-8 [694 kB] 228s Get:24 http://ftpmaster.internal/ubuntu plucky/main amd64 blt amd64 2.5.3+dfsg-8 [4824 B] 228s Get:25 http://ftpmaster.internal/ubuntu plucky/main amd64 libisl23 amd64 0.27-1 [685 kB] 228s Get:26 http://ftpmaster.internal/ubuntu plucky/main amd64 libmpc3 amd64 1.3.1-1build2 [55.3 kB] 228s Get:27 http://ftpmaster.internal/ubuntu plucky/main amd64 cpp-14-x86-64-linux-gnu amd64 14.2.0-17ubuntu3 [11.9 MB] 231s Get:28 http://ftpmaster.internal/ubuntu plucky/main amd64 cpp-14 amd64 14.2.0-17ubuntu3 [1030 B] 231s Get:29 http://ftpmaster.internal/ubuntu plucky/main amd64 cpp-x86-64-linux-gnu amd64 4:14.2.0-1ubuntu1 [5586 B] 231s Get:30 http://ftpmaster.internal/ubuntu plucky/main amd64 cpp amd64 4:14.2.0-1ubuntu1 [22.4 kB] 231s Get:31 http://ftpmaster.internal/ubuntu plucky/main amd64 libcc1-0 amd64 15-20250222-0ubuntu1 [47.0 kB] 231s Get:32 http://ftpmaster.internal/ubuntu plucky/main amd64 libgomp1 amd64 15-20250222-0ubuntu1 [148 kB] 231s Get:33 http://ftpmaster.internal/ubuntu plucky/main amd64 libitm1 amd64 15-20250222-0ubuntu1 [28.6 kB] 231s Get:34 http://ftpmaster.internal/ubuntu plucky/main amd64 libasan8 amd64 15-20250222-0ubuntu1 [3055 kB] 232s Get:35 http://ftpmaster.internal/ubuntu plucky/main amd64 liblsan0 amd64 15-20250222-0ubuntu1 [1355 kB] 232s Get:36 http://ftpmaster.internal/ubuntu plucky/main amd64 libtsan2 amd64 15-20250222-0ubuntu1 [2756 kB] 233s Get:37 http://ftpmaster.internal/ubuntu plucky/main amd64 libubsan1 amd64 15-20250222-0ubuntu1 [1205 kB] 233s Get:38 http://ftpmaster.internal/ubuntu plucky/main amd64 libhwasan0 amd64 15-20250222-0ubuntu1 [1677 kB] 233s Get:39 http://ftpmaster.internal/ubuntu plucky/main amd64 libquadmath0 amd64 15-20250222-0ubuntu1 [152 kB] 233s Get:40 http://ftpmaster.internal/ubuntu plucky/main amd64 libgcc-14-dev amd64 14.2.0-17ubuntu3 [2816 kB] 234s Get:41 http://ftpmaster.internal/ubuntu plucky/main amd64 gcc-14-x86-64-linux-gnu amd64 14.2.0-17ubuntu3 [23.3 MB] 238s Get:42 http://ftpmaster.internal/ubuntu plucky/main amd64 gcc-14 amd64 14.2.0-17ubuntu3 [536 kB] 238s Get:43 http://ftpmaster.internal/ubuntu plucky/main amd64 gcc-x86-64-linux-gnu amd64 4:14.2.0-1ubuntu1 [1208 B] 238s Get:44 http://ftpmaster.internal/ubuntu plucky/main amd64 gcc amd64 4:14.2.0-1ubuntu1 [5004 B] 238s Get:45 http://ftpmaster.internal/ubuntu plucky/main amd64 libstdc++-14-dev amd64 14.2.0-17ubuntu3 [2486 kB] 238s Get:46 http://ftpmaster.internal/ubuntu plucky/main amd64 g++-14-x86-64-linux-gnu amd64 14.2.0-17ubuntu3 [13.4 MB] 239s Get:47 http://ftpmaster.internal/ubuntu plucky/main amd64 g++-14 amd64 14.2.0-17ubuntu3 [21.8 kB] 239s Get:48 http://ftpmaster.internal/ubuntu plucky/main amd64 g++-x86-64-linux-gnu amd64 4:14.2.0-1ubuntu1 [968 B] 239s Get:49 http://ftpmaster.internal/ubuntu plucky/main amd64 g++ amd64 4:14.2.0-1ubuntu1 [1100 B] 239s Get:50 http://ftpmaster.internal/ubuntu plucky/main amd64 build-essential amd64 12.10ubuntu1 [4928 B] 239s Get:51 http://ftpmaster.internal/ubuntu plucky/universe amd64 cython3 amd64 3.0.11+dfsg-2ubuntu2 [2676 kB] 240s Get:52 http://ftpmaster.internal/ubuntu plucky/main amd64 libdebhelper-perl all 13.24.1ubuntu2 [95.4 kB] 240s Get:53 http://ftpmaster.internal/ubuntu plucky/main amd64 libtool all 2.5.4-4 [168 kB] 240s Get:54 http://ftpmaster.internal/ubuntu plucky/main amd64 dh-autoreconf all 20 [16.1 kB] 240s Get:55 http://ftpmaster.internal/ubuntu plucky/main amd64 libarchive-zip-perl all 1.68-1 [90.2 kB] 240s Get:56 http://ftpmaster.internal/ubuntu plucky/main amd64 libfile-stripnondeterminism-perl all 1.14.1-2 [20.3 kB] 240s Get:57 http://ftpmaster.internal/ubuntu plucky/main amd64 dh-strip-nondeterminism all 1.14.1-2 [5064 B] 240s Get:58 http://ftpmaster.internal/ubuntu plucky/main amd64 debugedit amd64 1:5.1-2 [47.0 kB] 240s Get:59 http://ftpmaster.internal/ubuntu plucky/main amd64 dwz amd64 0.15-1build6 [115 kB] 240s Get:60 http://ftpmaster.internal/ubuntu plucky/main amd64 gettext amd64 0.23.1-1 [1086 kB] 240s Get:61 http://ftpmaster.internal/ubuntu plucky/main amd64 intltool-debian all 0.35.0+20060710.6 [23.2 kB] 240s Get:62 http://ftpmaster.internal/ubuntu plucky/main amd64 po-debconf all 1.0.21+nmu1 [233 kB] 240s Get:63 http://ftpmaster.internal/ubuntu plucky/main amd64 debhelper all 13.24.1ubuntu2 [895 kB] 240s Get:64 http://ftpmaster.internal/ubuntu plucky/universe amd64 dh-python all 6.20250308 [118 kB] 240s Get:65 http://ftpmaster.internal/ubuntu plucky/main amd64 xml-core all 0.19 [20.3 kB] 240s Get:66 http://ftpmaster.internal/ubuntu plucky/main amd64 docutils-common all 0.21.2+dfsg-2 [131 kB] 240s Get:67 http://ftpmaster.internal/ubuntu plucky/universe amd64 fonts-lyx all 2.4.3-1 [171 kB] 240s Get:68 http://ftpmaster.internal/ubuntu plucky/main amd64 fonts-mathjax all 2.7.9+dfsg-1 [2208 kB] 240s Get:69 http://ftpmaster.internal/ubuntu plucky/universe amd64 fonts-open-sans all 1.11-2 [635 kB] 240s Get:70 http://ftpmaster.internal/ubuntu plucky/universe amd64 libaec0 amd64 1.1.3-1 [22.7 kB] 240s Get:71 http://ftpmaster.internal/ubuntu plucky/main amd64 libdeflate0 amd64 1.23-1 [64.1 kB] 240s Get:72 http://ftpmaster.internal/ubuntu plucky/main amd64 libexpat1-dev amd64 2.6.4-1 [148 kB] 240s Get:73 http://ftpmaster.internal/ubuntu plucky/main amd64 libgraphite2-3 amd64 1.3.14-2ubuntu1 [73.1 kB] 240s Get:74 http://ftpmaster.internal/ubuntu plucky/main amd64 libharfbuzz0b amd64 10.2.0-1 [543 kB] 240s Get:75 http://ftpmaster.internal/ubuntu plucky/universe amd64 libsz2 amd64 1.1.3-1 [5456 B] 240s Get:76 http://ftpmaster.internal/ubuntu plucky/universe amd64 libhdf5-310 amd64 1.14.5+repack-3 [1519 kB] 240s Get:77 http://ftpmaster.internal/ubuntu plucky/universe amd64 libhdf5-hl-310 amd64 1.14.5+repack-3 [62.6 kB] 240s Get:78 http://ftpmaster.internal/ubuntu plucky/main amd64 libimagequant0 amd64 2.18.0-1build1 [36.3 kB] 240s Get:79 http://ftpmaster.internal/ubuntu plucky/main amd64 libjpeg-turbo8 amd64 2.1.5-3ubuntu2 [179 kB] 240s Get:80 http://ftpmaster.internal/ubuntu plucky/main amd64 libjpeg8 amd64 8c-2ubuntu11 [2148 B] 240s Get:81 http://ftpmaster.internal/ubuntu plucky/main amd64 libjs-jquery all 3.6.1+dfsg+~3.5.14-1 [328 kB] 240s Get:82 http://ftpmaster.internal/ubuntu plucky/universe amd64 libjs-jquery-ui all 1.13.2+dfsg-1 [252 kB] 240s Get:83 http://ftpmaster.internal/ubuntu plucky/main amd64 libjs-underscore all 1.13.4~dfsg+~1.11.4-3 [118 kB] 240s Get:84 http://ftpmaster.internal/ubuntu plucky/main amd64 libjs-sphinxdoc all 8.1.3-4 [30.9 kB] 240s Get:85 http://ftpmaster.internal/ubuntu plucky/main amd64 libjson-perl all 4.10000-1 [81.9 kB] 240s Get:86 http://ftpmaster.internal/ubuntu plucky/universe amd64 liblbfgsb0 amd64 3.0+dfsg.4-1build1 [29.9 kB] 240s Get:87 http://ftpmaster.internal/ubuntu plucky/main amd64 liblcms2-2 amd64 2.16-2 [212 kB] 240s Get:88 http://ftpmaster.internal/ubuntu plucky/main amd64 liblerc4 amd64 4.0.0+ds-5ubuntu1 [271 kB] 240s Get:89 http://ftpmaster.internal/ubuntu plucky/universe amd64 liblzf1 amd64 3.6-4 [7624 B] 240s Get:90 http://ftpmaster.internal/ubuntu plucky/main amd64 zlib1g-dev amd64 1:1.3.dfsg+really1.3.1-1ubuntu1 [895 kB] 241s Get:91 http://ftpmaster.internal/ubuntu plucky/main amd64 libpython3.13-dev amd64 3.13.2-2 [5503 kB] 241s Get:92 http://ftpmaster.internal/ubuntu plucky/main amd64 libpython3-dev amd64 3.13.2-2 [10.7 kB] 241s Get:93 http://ftpmaster.internal/ubuntu plucky/main amd64 libpython3-all-dev amd64 3.13.2-2 [910 B] 241s Get:94 http://ftpmaster.internal/ubuntu plucky/universe amd64 libqhull-r8.0 amd64 2020.2-6build1 [193 kB] 241s Get:95 http://ftpmaster.internal/ubuntu plucky/main amd64 libraqm0 amd64 0.10.2-1 [17.2 kB] 241s Get:96 http://ftpmaster.internal/ubuntu plucky/main amd64 libsharpyuv0 amd64 1.5.0-0.1 [25.9 kB] 241s Get:97 http://ftpmaster.internal/ubuntu plucky/universe amd64 libsimde-dev all 0.8.2-1 [466 kB] 241s Get:98 http://ftpmaster.internal/ubuntu plucky/universe amd64 libssw0 amd64 1.1-15 [22.5 kB] 241s Get:99 http://ftpmaster.internal/ubuntu plucky/universe amd64 libssw-dev amd64 1.1-15 [23.8 kB] 241s Get:100 http://ftpmaster.internal/ubuntu plucky/main amd64 libjbig0 amd64 2.1-6.1ubuntu2 [29.7 kB] 241s Get:101 http://ftpmaster.internal/ubuntu plucky/main amd64 libwebp7 amd64 1.5.0-0.1 [378 kB] 241s Get:102 http://ftpmaster.internal/ubuntu plucky/main amd64 libtiff6 amd64 4.5.1+git230720-4ubuntu4 [200 kB] 241s Get:103 http://ftpmaster.internal/ubuntu plucky/main amd64 libwebpdemux2 amd64 1.5.0-0.1 [13.0 kB] 241s Get:104 http://ftpmaster.internal/ubuntu plucky/main amd64 libwebpmux3 amd64 1.5.0-0.1 [27.6 kB] 241s Get:105 http://ftpmaster.internal/ubuntu plucky/main amd64 libxslt1.1 amd64 1.1.39-0exp1ubuntu2 [175 kB] 241s Get:106 http://ftpmaster.internal/ubuntu plucky/universe amd64 node-fortawesome-fontawesome-free all 6.7.2+ds1-1 [1653 kB] 242s Get:107 http://ftpmaster.internal/ubuntu plucky/universe amd64 pybuild-plugin-autopkgtest all 6.20250308 [1744 B] 242s Get:108 http://ftpmaster.internal/ubuntu plucky/universe amd64 python-biom-format-doc all 2.1.16-1build3 [57.5 kB] 242s Get:109 http://ftpmaster.internal/ubuntu plucky/universe amd64 python-matplotlib-data all 3.8.3-7build1 [2934 kB] 242s Get:110 http://ftpmaster.internal/ubuntu plucky/main amd64 python-numpy-doc all 1:2.2.3+ds-5 [5756 kB] 242s Get:111 http://ftpmaster.internal/ubuntu plucky/main amd64 libjs-mathjax all 2.7.9+dfsg-1 [5665 kB] 243s Get:112 http://ftpmaster.internal/ubuntu plucky/universe amd64 python-pandas-doc all 2.2.3+dfsg-8build1 [10.7 MB] 243s Get:113 http://ftpmaster.internal/ubuntu plucky/universe amd64 python-skbio-doc all 0.6.2-4build2 [2342 kB] 243s Get:114 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-accessible-pygments all 0.0.5-2 [790 kB] 243s Get:115 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-all amd64 3.13.2-2 [884 B] 243s Get:116 http://ftpmaster.internal/ubuntu plucky/main amd64 python3.13-dev amd64 3.13.2-2 [509 kB] 243s Get:117 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-dev amd64 3.13.2-2 [26.7 kB] 243s Get:118 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-all-dev amd64 3.13.2-2 [908 B] 243s Get:119 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-asttokens all 3.0.0-1 [20.4 kB] 243s Get:120 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-h5py-serial amd64 3.13.0-1 [1230 kB] 243s Get:121 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-h5py all 3.13.0-1 [7978 B] 243s Get:122 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-click all 8.2.0+0.really.8.1.8-1 [80.0 kB] 243s Get:123 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-dateutil all 2.9.0-3 [80.2 kB] 243s Get:124 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-pytz all 2025.1-3 [162 kB] 243s Get:125 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-tz all 2025.1-3 [1866 B] 243s Get:126 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-pandas-lib amd64 2.2.3+dfsg-8build1 [5332 kB] 244s Get:127 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-pandas all 2.2.3+dfsg-8build1 [3112 kB] 244s Get:128 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-decorator all 5.1.1-5 [10.1 kB] 244s Get:129 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-scipy amd64 1.14.1-4ubuntu2 [18.7 MB] 244s Get:130 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-biom-format amd64 2.1.16-1build3 [152 kB] 244s Get:131 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-brotli amd64 1.1.0-2build4 [367 kB] 244s Get:132 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-soupsieve all 2.6-1 [33.0 kB] 244s Get:133 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-bs4 all 4.13.3-2 [136 kB] 244s Get:134 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-msgpack amd64 1.0.3-3build4 [87.7 kB] 244s Get:135 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-cachecontrol all 0.14.2-1 [18.7 kB] 244s Get:136 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-contourpy amd64 1.3.1-1build1 [218 kB] 244s Get:137 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-cycler all 0.12.1-1 [9716 B] 244s Get:138 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-defusedxml all 0.7.1-3 [42.2 kB] 244s Get:139 http://ftpmaster.internal/ubuntu plucky/main amd64 python3.13-doc all 3.13.2-2 [14.2 MB] 245s Get:140 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-doc all 3.13.2-2 [10.6 kB] 245s Get:141 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-roman all 5.0-1 [10.3 kB] 245s Get:142 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-docutils all 0.21.2+dfsg-2 [409 kB] 245s Get:143 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-executing all 2.2.0-0.1 [25.0 kB] 245s Get:144 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-platformdirs all 4.3.6-1 [16.8 kB] 245s Get:145 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-fs all 2.4.16-7 [90.8 kB] 245s Get:146 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-lxml amd64 5.3.1-1build1 [1408 kB] 245s Get:147 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-lz4 amd64 4.4.0+dfsg-1build1 [27.0 kB] 245s Get:148 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-mpmath all 1.3.0-1 [425 kB] 245s Get:149 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-sympy all 1.13.3-5 [4229 kB] 245s Get:150 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-ufolib2 all 0.17.0+dfsg1-1 [33.5 kB] 245s Get:151 http://ftpmaster.internal/ubuntu plucky/universe amd64 unicode-data all 15.1.0-1 [8878 kB] 246s Get:152 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-fonttools amd64 4.55.3-2build1 [1536 kB] 246s Get:153 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-hdmedians amd64 0.14.2-6build1 [150 kB] 246s Get:154 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-imagesize all 1.4.1-1 [6844 B] 246s Get:155 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-iniconfig all 1.1.1-2 [6024 B] 246s Get:156 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-parso all 0.8.4-1 [67.6 kB] 246s Get:157 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-typeshed all 0.0~git20241223.ea91db2-1 [1548 kB] 246s Get:158 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-jedi all 0.19.1+ds1-1 [693 kB] 246s Get:159 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-traitlets all 5.14.3+really5.14.3-1 [71.5 kB] 246s Get:160 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-matplotlib-inline all 0.1.6-2 [8784 B] 246s Get:161 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-wcwidth all 0.2.13+dfsg1-1 [26.3 kB] 246s Get:162 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-prompt-toolkit all 3.0.50-1 [257 kB] 246s Get:163 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-pure-eval all 0.2.3-1 [11.4 kB] 246s Get:164 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-stack-data all 0.6.3-1 [22.0 kB] 246s Get:165 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-ptyprocess all 0.7.0-6 [14.8 kB] 246s Get:166 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-pexpect all 4.9-3 [48.1 kB] 246s Get:167 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-ipython all 8.30.0-2 [569 kB] 246s Get:168 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-joblib all 1.4.2-3 [205 kB] 246s Get:169 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-kiwisolver amd64 1.4.7-3build1 [55.6 kB] 246s Get:170 http://ftpmaster.internal/ubuntu plucky/main amd64 libopenjp2-7 amd64 2.5.3-2 [218 kB] 246s Get:171 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-pil amd64 11.1.0-5build1 [583 kB] 246s Get:172 http://ftpmaster.internal/ubuntu plucky/main amd64 python3.12-tk amd64 3.12.9-1 [116 kB] 246s Get:173 http://ftpmaster.internal/ubuntu plucky/main amd64 python3.13-tk amd64 3.13.2-2 [107 kB] 246s Get:174 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-tk amd64 3.13.1-1 [9770 B] 246s Get:175 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-pil.imagetk amd64 11.1.0-5build1 [9828 B] 246s Get:176 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-packaging all 24.2-1 [51.5 kB] 246s Get:177 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-matplotlib amd64 3.8.3-7build1 [17.4 MB] 247s Get:178 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-natsort all 8.0.2-2 [33.8 kB] 247s Get:179 http://ftpmaster.internal/ubuntu plucky/main amd64 sphinx-common all 8.1.3-4 [663 kB] 247s Get:180 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-alabaster all 0.7.16-0.1 [18.5 kB] 247s Get:181 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-snowballstemmer all 2.2.0-4build1 [59.8 kB] 247s Get:182 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-sphinx all 8.1.3-4 [474 kB] 247s Get:183 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-tabulate all 0.9.0-1 [45.3 kB] 247s Get:184 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-numpydoc all 1.8.0-1 [52.4 kB] 247s Get:185 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-patsy all 1.0.1-1 [180 kB] 247s Get:186 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-pluggy all 1.5.0-1 [21.0 kB] 247s Get:187 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-pydata-sphinx-theme all 0.16.1+dfsg-3 [959 kB] 247s Get:188 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-pytest all 8.3.5-1 [252 kB] 247s Get:189 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-statsmodels-lib amd64 0.14.4+dfsg-1build3 [1914 kB] 247s Get:190 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-statsmodels all 0.14.4+dfsg-1build3 [5011 kB] 248s Get:191 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-skbio amd64 0.6.2-4build2 [1459 kB] 248s Get:192 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-threadpoolctl all 3.1.0-1 [21.3 kB] 248s Get:193 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-sklearn-lib amd64 1.4.2+dfsg-7build2 [4353 kB] 248s Get:194 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-sklearn all 1.4.2+dfsg-7build2 [2258 kB] 248s Get:195 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-sphinx-copybutton all 0.5.2-2 [16.6 kB] 248s Get:196 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-sphinx-design all 0.6.1-1 [894 kB] 248s Get:197 http://ftpmaster.internal/ubuntu plucky/universe amd64 python-scipy-doc all 1.14.1-4ubuntu2 [32.6 kB] 249s Fetched 235 MB in 26s (8969 kB/s) 249s Selecting previously unselected package python3-numpy-dev:amd64. 249s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 76968 files and directories currently installed.) 249s Preparing to unpack .../000-python3-numpy-dev_1%3a2.2.3+ds-5_amd64.deb ... 249s Unpacking python3-numpy-dev:amd64 (1:2.2.3+ds-5) ... 249s Selecting previously unselected package libblas3:amd64. 249s Preparing to unpack .../001-libblas3_3.12.1-2_amd64.deb ... 249s Unpacking libblas3:amd64 (3.12.1-2) ... 249s Selecting previously unselected package libgfortran5:amd64. 249s Preparing to unpack .../002-libgfortran5_15-20250222-0ubuntu1_amd64.deb ... 249s Unpacking libgfortran5:amd64 (15-20250222-0ubuntu1) ... 249s Selecting previously unselected package liblapack3:amd64. 249s Preparing to unpack .../003-liblapack3_3.12.1-2_amd64.deb ... 249s Unpacking liblapack3:amd64 (3.12.1-2) ... 249s Selecting previously unselected package python3-numpy. 249s Preparing to unpack .../004-python3-numpy_1%3a2.2.3+ds-5_amd64.deb ... 249s Unpacking python3-numpy (1:2.2.3+ds-5) ... 249s Selecting previously unselected package sgml-base. 249s Preparing to unpack .../005-sgml-base_1.31_all.deb ... 249s Unpacking sgml-base (1.31) ... 249s Selecting previously unselected package architecture-properties:amd64. 249s Preparing to unpack .../006-architecture-properties_0.2.6_amd64.deb ... 249s Unpacking architecture-properties:amd64 (0.2.6) ... 249s Selecting previously unselected package m4. 249s Preparing to unpack .../007-m4_1.4.19-7_amd64.deb ... 249s Unpacking m4 (1.4.19-7) ... 249s Selecting previously unselected package autoconf. 249s Preparing to unpack .../008-autoconf_2.72-3ubuntu1_all.deb ... 249s Unpacking autoconf (2.72-3ubuntu1) ... 250s Selecting previously unselected package autotools-dev. 250s Preparing to unpack .../009-autotools-dev_20220109.1_all.deb ... 250s Unpacking autotools-dev (20220109.1) ... 250s Selecting previously unselected package automake. 250s Preparing to unpack .../010-automake_1%3a1.17-3ubuntu1_all.deb ... 250s Unpacking automake (1:1.17-3ubuntu1) ... 250s Selecting previously unselected package autopoint. 250s Preparing to unpack .../011-autopoint_0.23.1-1_all.deb ... 250s Unpacking autopoint (0.23.1-1) ... 250s Selecting previously unselected package libtcl8.6:amd64. 250s Preparing to unpack .../012-libtcl8.6_8.6.16+dfsg-1_amd64.deb ... 250s Unpacking libtcl8.6:amd64 (8.6.16+dfsg-1) ... 250s Selecting previously unselected package fonts-dejavu-mono. 250s Preparing to unpack .../013-fonts-dejavu-mono_2.37-8_all.deb ... 250s Unpacking fonts-dejavu-mono (2.37-8) ... 250s Selecting previously unselected package fonts-dejavu-core. 250s Preparing to unpack .../014-fonts-dejavu-core_2.37-8_all.deb ... 250s Unpacking fonts-dejavu-core (2.37-8) ... 250s Selecting previously unselected package fontconfig-config. 250s Preparing to unpack .../015-fontconfig-config_2.15.0-2ubuntu1_amd64.deb ... 250s Unpacking fontconfig-config (2.15.0-2ubuntu1) ... 250s Selecting previously unselected package libfontconfig1:amd64. 250s Preparing to unpack .../016-libfontconfig1_2.15.0-2ubuntu1_amd64.deb ... 250s Unpacking libfontconfig1:amd64 (2.15.0-2ubuntu1) ... 250s Selecting previously unselected package libxrender1:amd64. 250s Preparing to unpack .../017-libxrender1_1%3a0.9.10-1.1build1_amd64.deb ... 250s Unpacking libxrender1:amd64 (1:0.9.10-1.1build1) ... 250s Selecting previously unselected package libxft2:amd64. 250s Preparing to unpack .../018-libxft2_2.3.6-1build1_amd64.deb ... 250s Unpacking libxft2:amd64 (2.3.6-1build1) ... 250s Selecting previously unselected package x11-common. 250s Preparing to unpack .../019-x11-common_1%3a7.7+23ubuntu3_all.deb ... 250s Unpacking x11-common (1:7.7+23ubuntu3) ... 250s Selecting previously unselected package libxss1:amd64. 250s Preparing to unpack .../020-libxss1_1%3a1.2.3-1build3_amd64.deb ... 250s Unpacking libxss1:amd64 (1:1.2.3-1build3) ... 250s Selecting previously unselected package libtk8.6:amd64. 250s Preparing to unpack .../021-libtk8.6_8.6.16-1_amd64.deb ... 250s Unpacking libtk8.6:amd64 (8.6.16-1) ... 250s Selecting previously unselected package tk8.6-blt2.5. 250s Preparing to unpack .../022-tk8.6-blt2.5_2.5.3+dfsg-8_amd64.deb ... 250s Unpacking tk8.6-blt2.5 (2.5.3+dfsg-8) ... 250s Selecting previously unselected package blt. 250s Preparing to unpack .../023-blt_2.5.3+dfsg-8_amd64.deb ... 250s Unpacking blt (2.5.3+dfsg-8) ... 250s Selecting previously unselected package libisl23:amd64. 250s Preparing to unpack .../024-libisl23_0.27-1_amd64.deb ... 250s Unpacking libisl23:amd64 (0.27-1) ... 250s Selecting previously unselected package libmpc3:amd64. 250s Preparing to unpack .../025-libmpc3_1.3.1-1build2_amd64.deb ... 250s Unpacking libmpc3:amd64 (1.3.1-1build2) ... 250s Selecting previously unselected package cpp-14-x86-64-linux-gnu. 250s Preparing to unpack .../026-cpp-14-x86-64-linux-gnu_14.2.0-17ubuntu3_amd64.deb ... 250s Unpacking cpp-14-x86-64-linux-gnu (14.2.0-17ubuntu3) ... 251s Selecting previously unselected package cpp-14. 251s Preparing to unpack .../027-cpp-14_14.2.0-17ubuntu3_amd64.deb ... 251s Unpacking cpp-14 (14.2.0-17ubuntu3) ... 251s Selecting previously unselected package cpp-x86-64-linux-gnu. 251s Preparing to unpack .../028-cpp-x86-64-linux-gnu_4%3a14.2.0-1ubuntu1_amd64.deb ... 251s Unpacking cpp-x86-64-linux-gnu (4:14.2.0-1ubuntu1) ... 251s Selecting previously unselected package cpp. 251s Preparing to unpack .../029-cpp_4%3a14.2.0-1ubuntu1_amd64.deb ... 251s Unpacking cpp (4:14.2.0-1ubuntu1) ... 251s Selecting previously unselected package libcc1-0:amd64. 251s Preparing to unpack .../030-libcc1-0_15-20250222-0ubuntu1_amd64.deb ... 251s Unpacking libcc1-0:amd64 (15-20250222-0ubuntu1) ... 251s Selecting previously unselected package libgomp1:amd64. 251s Preparing to unpack .../031-libgomp1_15-20250222-0ubuntu1_amd64.deb ... 251s Unpacking libgomp1:amd64 (15-20250222-0ubuntu1) ... 251s Selecting previously unselected package libitm1:amd64. 251s Preparing to unpack .../032-libitm1_15-20250222-0ubuntu1_amd64.deb ... 251s Unpacking libitm1:amd64 (15-20250222-0ubuntu1) ... 251s Selecting previously unselected package libasan8:amd64. 251s Preparing to unpack .../033-libasan8_15-20250222-0ubuntu1_amd64.deb ... 251s Unpacking libasan8:amd64 (15-20250222-0ubuntu1) ... 251s Selecting previously unselected package liblsan0:amd64. 251s Preparing to unpack .../034-liblsan0_15-20250222-0ubuntu1_amd64.deb ... 251s Unpacking liblsan0:amd64 (15-20250222-0ubuntu1) ... 251s Selecting previously unselected package libtsan2:amd64. 251s Preparing to unpack .../035-libtsan2_15-20250222-0ubuntu1_amd64.deb ... 251s Unpacking libtsan2:amd64 (15-20250222-0ubuntu1) ... 251s Selecting previously unselected package libubsan1:amd64. 251s Preparing to unpack .../036-libubsan1_15-20250222-0ubuntu1_amd64.deb ... 251s Unpacking libubsan1:amd64 (15-20250222-0ubuntu1) ... 251s Selecting previously unselected package libhwasan0:amd64. 251s Preparing to unpack .../037-libhwasan0_15-20250222-0ubuntu1_amd64.deb ... 251s Unpacking libhwasan0:amd64 (15-20250222-0ubuntu1) ... 251s Selecting previously unselected package libquadmath0:amd64. 251s Preparing to unpack .../038-libquadmath0_15-20250222-0ubuntu1_amd64.deb ... 251s Unpacking libquadmath0:amd64 (15-20250222-0ubuntu1) ... 251s Selecting previously unselected package libgcc-14-dev:amd64. 251s Preparing to unpack .../039-libgcc-14-dev_14.2.0-17ubuntu3_amd64.deb ... 251s Unpacking libgcc-14-dev:amd64 (14.2.0-17ubuntu3) ... 251s Selecting previously unselected package gcc-14-x86-64-linux-gnu. 251s Preparing to unpack .../040-gcc-14-x86-64-linux-gnu_14.2.0-17ubuntu3_amd64.deb ... 251s Unpacking gcc-14-x86-64-linux-gnu (14.2.0-17ubuntu3) ... 252s Selecting previously unselected package gcc-14. 252s Preparing to unpack .../041-gcc-14_14.2.0-17ubuntu3_amd64.deb ... 252s Unpacking gcc-14 (14.2.0-17ubuntu3) ... 252s Selecting previously unselected package gcc-x86-64-linux-gnu. 252s Preparing to unpack .../042-gcc-x86-64-linux-gnu_4%3a14.2.0-1ubuntu1_amd64.deb ... 252s Unpacking gcc-x86-64-linux-gnu (4:14.2.0-1ubuntu1) ... 252s Selecting previously unselected package gcc. 252s Preparing to unpack .../043-gcc_4%3a14.2.0-1ubuntu1_amd64.deb ... 252s Unpacking gcc (4:14.2.0-1ubuntu1) ... 252s Selecting previously unselected package libstdc++-14-dev:amd64. 252s Preparing to unpack .../044-libstdc++-14-dev_14.2.0-17ubuntu3_amd64.deb ... 252s Unpacking libstdc++-14-dev:amd64 (14.2.0-17ubuntu3) ... 252s Selecting previously unselected package g++-14-x86-64-linux-gnu. 252s Preparing to unpack .../045-g++-14-x86-64-linux-gnu_14.2.0-17ubuntu3_amd64.deb ... 252s Unpacking g++-14-x86-64-linux-gnu (14.2.0-17ubuntu3) ... 252s Selecting previously unselected package g++-14. 252s Preparing to unpack .../046-g++-14_14.2.0-17ubuntu3_amd64.deb ... 252s Unpacking g++-14 (14.2.0-17ubuntu3) ... 252s Selecting previously unselected package g++-x86-64-linux-gnu. 252s Preparing to unpack .../047-g++-x86-64-linux-gnu_4%3a14.2.0-1ubuntu1_amd64.deb ... 252s Unpacking g++-x86-64-linux-gnu (4:14.2.0-1ubuntu1) ... 252s Selecting previously unselected package g++. 252s Preparing to unpack .../048-g++_4%3a14.2.0-1ubuntu1_amd64.deb ... 252s Unpacking g++ (4:14.2.0-1ubuntu1) ... 252s Selecting previously unselected package build-essential. 252s Preparing to unpack .../049-build-essential_12.10ubuntu1_amd64.deb ... 252s Unpacking build-essential (12.10ubuntu1) ... 252s Selecting previously unselected package cython3. 252s Preparing to unpack .../050-cython3_3.0.11+dfsg-2ubuntu2_amd64.deb ... 252s Unpacking cython3 (3.0.11+dfsg-2ubuntu2) ... 252s Selecting previously unselected package libdebhelper-perl. 252s Preparing to unpack .../051-libdebhelper-perl_13.24.1ubuntu2_all.deb ... 252s Unpacking libdebhelper-perl (13.24.1ubuntu2) ... 252s Selecting previously unselected package libtool. 252s Preparing to unpack .../052-libtool_2.5.4-4_all.deb ... 252s Unpacking libtool (2.5.4-4) ... 252s Selecting previously unselected package dh-autoreconf. 252s Preparing to unpack .../053-dh-autoreconf_20_all.deb ... 252s Unpacking dh-autoreconf (20) ... 253s Selecting previously unselected package libarchive-zip-perl. 253s Preparing to unpack .../054-libarchive-zip-perl_1.68-1_all.deb ... 253s Unpacking libarchive-zip-perl (1.68-1) ... 253s Selecting previously unselected package libfile-stripnondeterminism-perl. 253s Preparing to unpack .../055-libfile-stripnondeterminism-perl_1.14.1-2_all.deb ... 253s Unpacking libfile-stripnondeterminism-perl (1.14.1-2) ... 253s Selecting previously unselected package dh-strip-nondeterminism. 253s Preparing to unpack .../056-dh-strip-nondeterminism_1.14.1-2_all.deb ... 253s Unpacking dh-strip-nondeterminism (1.14.1-2) ... 253s Selecting previously unselected package debugedit. 253s Preparing to unpack .../057-debugedit_1%3a5.1-2_amd64.deb ... 253s Unpacking debugedit (1:5.1-2) ... 253s Selecting previously unselected package dwz. 253s Preparing to unpack .../058-dwz_0.15-1build6_amd64.deb ... 253s Unpacking dwz (0.15-1build6) ... 253s Selecting previously unselected package gettext. 253s Preparing to unpack .../059-gettext_0.23.1-1_amd64.deb ... 253s Unpacking gettext (0.23.1-1) ... 253s Selecting previously unselected package intltool-debian. 253s Preparing to unpack .../060-intltool-debian_0.35.0+20060710.6_all.deb ... 253s Unpacking intltool-debian (0.35.0+20060710.6) ... 253s Selecting previously unselected package po-debconf. 253s Preparing to unpack .../061-po-debconf_1.0.21+nmu1_all.deb ... 253s Unpacking po-debconf (1.0.21+nmu1) ... 253s Selecting previously unselected package debhelper. 253s Preparing to unpack .../062-debhelper_13.24.1ubuntu2_all.deb ... 253s Unpacking debhelper (13.24.1ubuntu2) ... 253s Selecting previously unselected package dh-python. 253s Preparing to unpack .../063-dh-python_6.20250308_all.deb ... 253s Unpacking dh-python (6.20250308) ... 253s Selecting previously unselected package xml-core. 253s Preparing to unpack .../064-xml-core_0.19_all.deb ... 253s Unpacking xml-core (0.19) ... 253s Selecting previously unselected package docutils-common. 253s Preparing to unpack .../065-docutils-common_0.21.2+dfsg-2_all.deb ... 253s Unpacking docutils-common (0.21.2+dfsg-2) ... 253s Selecting previously unselected package fonts-lyx. 253s Preparing to unpack .../066-fonts-lyx_2.4.3-1_all.deb ... 253s Unpacking fonts-lyx (2.4.3-1) ... 253s Selecting previously unselected package fonts-mathjax. 253s Preparing to unpack .../067-fonts-mathjax_2.7.9+dfsg-1_all.deb ... 253s Unpacking fonts-mathjax (2.7.9+dfsg-1) ... 253s Selecting previously unselected package fonts-open-sans. 253s Preparing to unpack .../068-fonts-open-sans_1.11-2_all.deb ... 253s Unpacking fonts-open-sans (1.11-2) ... 253s Selecting previously unselected package libaec0:amd64. 253s Preparing to unpack .../069-libaec0_1.1.3-1_amd64.deb ... 253s Unpacking libaec0:amd64 (1.1.3-1) ... 253s Selecting previously unselected package libdeflate0:amd64. 253s Preparing to unpack .../070-libdeflate0_1.23-1_amd64.deb ... 253s Unpacking libdeflate0:amd64 (1.23-1) ... 253s Selecting previously unselected package libexpat1-dev:amd64. 253s Preparing to unpack .../071-libexpat1-dev_2.6.4-1_amd64.deb ... 253s Unpacking libexpat1-dev:amd64 (2.6.4-1) ... 253s Selecting previously unselected package libgraphite2-3:amd64. 253s Preparing to unpack .../072-libgraphite2-3_1.3.14-2ubuntu1_amd64.deb ... 253s Unpacking libgraphite2-3:amd64 (1.3.14-2ubuntu1) 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libxslt1.1:amd64 (1.1.39-0exp1ubuntu2) ... 255s Selecting previously unselected package node-fortawesome-fontawesome-free. 255s Preparing to unpack .../105-node-fortawesome-fontawesome-free_6.7.2+ds1-1_all.deb ... 255s Unpacking node-fortawesome-fontawesome-free (6.7.2+ds1-1) ... 255s Selecting previously unselected package pybuild-plugin-autopkgtest. 255s Preparing to unpack .../106-pybuild-plugin-autopkgtest_6.20250308_all.deb ... 255s Unpacking pybuild-plugin-autopkgtest (6.20250308) ... 255s Selecting previously unselected package python-biom-format-doc. 255s Preparing to unpack .../107-python-biom-format-doc_2.1.16-1build3_all.deb ... 255s Unpacking python-biom-format-doc (2.1.16-1build3) ... 255s Selecting previously unselected package python-matplotlib-data. 255s Preparing to unpack .../108-python-matplotlib-data_3.8.3-7build1_all.deb ... 255s Unpacking python-matplotlib-data (3.8.3-7build1) ... 255s Selecting previously unselected package python-numpy-doc. 255s Preparing to unpack .../109-python-numpy-doc_1%3a2.2.3+ds-5_all.deb ... 255s Unpacking python-numpy-doc (1:2.2.3+ds-5) ... 256s Selecting previously unselected package libjs-mathjax. 256s Preparing to unpack .../110-libjs-mathjax_2.7.9+dfsg-1_all.deb ... 256s Unpacking libjs-mathjax (2.7.9+dfsg-1) ... 257s Selecting previously unselected package python-pandas-doc. 257s Preparing to unpack .../111-python-pandas-doc_2.2.3+dfsg-8build1_all.deb ... 257s Unpacking python-pandas-doc (2.2.3+dfsg-8build1) ... 258s Selecting previously unselected package python-skbio-doc. 258s Preparing to unpack .../112-python-skbio-doc_0.6.2-4build2_all.deb ... 258s Unpacking python-skbio-doc (0.6.2-4build2) ... 259s Selecting previously unselected package python3-accessible-pygments. 259s Preparing to unpack .../113-python3-accessible-pygments_0.0.5-2_all.deb ... 259s Unpacking python3-accessible-pygments (0.0.5-2) ... 259s Selecting previously unselected package python3-all. 259s Preparing to unpack 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previously unselected package python3-h5py. 259s Preparing to unpack .../120-python3-h5py_3.13.0-1_all.deb ... 259s Unpacking python3-h5py (3.13.0-1) ... 259s Selecting previously unselected package python3-click. 259s Preparing to unpack .../121-python3-click_8.2.0+0.really.8.1.8-1_all.deb ... 259s Unpacking python3-click (8.2.0+0.really.8.1.8-1) ... 259s Selecting previously unselected package python3-dateutil. 259s Preparing to unpack .../122-python3-dateutil_2.9.0-3_all.deb ... 259s Unpacking python3-dateutil (2.9.0-3) ... 259s Selecting previously unselected package python3-pytz. 259s Preparing to unpack .../123-python3-pytz_2025.1-3_all.deb ... 259s Unpacking python3-pytz (2025.1-3) ... 259s Selecting previously unselected package python3-tz. 260s Preparing to unpack .../124-python3-tz_2025.1-3_all.deb ... 260s Unpacking python3-tz (2025.1-3) ... 260s Selecting previously unselected package python3-pandas-lib:amd64. 260s Preparing to unpack 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python3-contourpy (1.3.1-1build1) ... 261s Selecting previously unselected package python3-cycler. 261s Preparing to unpack .../136-python3-cycler_0.12.1-1_all.deb ... 261s Unpacking python3-cycler (0.12.1-1) ... 261s Selecting previously unselected package python3-defusedxml. 261s Preparing to unpack .../137-python3-defusedxml_0.7.1-3_all.deb ... 261s Unpacking python3-defusedxml (0.7.1-3) ... 261s Selecting previously unselected package python3.13-doc. 261s Preparing to unpack .../138-python3.13-doc_3.13.2-2_all.deb ... 261s Unpacking python3.13-doc (3.13.2-2) ... 262s Selecting previously unselected package python3-doc. 262s Preparing to unpack .../139-python3-doc_3.13.2-2_all.deb ... 262s Unpacking python3-doc (3.13.2-2) ... 262s Selecting previously unselected package python3-roman. 262s Preparing to unpack .../140-python3-roman_5.0-1_all.deb ... 262s Unpacking python3-roman (5.0-1) ... 262s Selecting previously unselected package python3-docutils. 262s Preparing to unpack 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(4.4.0+dfsg-1build1) ... 262s Selecting previously unselected package python3-mpmath. 262s Preparing to unpack .../147-python3-mpmath_1.3.0-1_all.deb ... 262s Unpacking python3-mpmath (1.3.0-1) ... 262s Selecting previously unselected package python3-sympy. 262s Preparing to unpack .../148-python3-sympy_1.13.3-5_all.deb ... 262s Unpacking python3-sympy (1.13.3-5) ... 262s Selecting previously unselected package python3-ufolib2. 262s Preparing to unpack .../149-python3-ufolib2_0.17.0+dfsg1-1_all.deb ... 262s Unpacking python3-ufolib2 (0.17.0+dfsg1-1) ... 262s Selecting previously unselected package unicode-data. 262s Preparing to unpack .../150-unicode-data_15.1.0-1_all.deb ... 262s Unpacking unicode-data (15.1.0-1) ... 263s Selecting previously unselected package python3-fonttools. 263s Preparing to unpack .../151-python3-fonttools_4.55.3-2build1_amd64.deb ... 263s Unpacking python3-fonttools (4.55.3-2build1) ... 263s Selecting previously unselected package python3-hdmedians. 263s 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previously unselected package python3-kiwisolver. 264s Preparing to unpack .../168-python3-kiwisolver_1.4.7-3build1_amd64.deb ... 264s Unpacking python3-kiwisolver (1.4.7-3build1) ... 264s Selecting previously unselected package libopenjp2-7:amd64. 264s Preparing to unpack .../169-libopenjp2-7_2.5.3-2_amd64.deb ... 264s Unpacking libopenjp2-7:amd64 (2.5.3-2) ... 264s Selecting previously unselected package python3-pil:amd64. 264s Preparing to unpack .../170-python3-pil_11.1.0-5build1_amd64.deb ... 264s Unpacking python3-pil:amd64 (11.1.0-5build1) ... 264s Selecting previously unselected package python3.12-tk. 264s Preparing to unpack .../171-python3.12-tk_3.12.9-1_amd64.deb ... 264s Unpacking python3.12-tk (3.12.9-1) ... 265s Selecting previously unselected package python3.13-tk. 265s Preparing to unpack .../172-python3.13-tk_3.13.2-2_amd64.deb ... 265s Unpacking python3.13-tk (3.13.2-2) ... 265s Selecting previously unselected package python3-tk:amd64. 265s Preparing to unpack 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Unpacking sphinx-common (8.1.3-4) ... 265s Selecting previously unselected package python3-alabaster. 265s Preparing to unpack .../179-python3-alabaster_0.7.16-0.1_all.deb ... 265s Unpacking python3-alabaster (0.7.16-0.1) ... 265s Selecting previously unselected package python3-snowballstemmer. 265s Preparing to unpack .../180-python3-snowballstemmer_2.2.0-4build1_all.deb ... 265s Unpacking python3-snowballstemmer (2.2.0-4build1) ... 265s Selecting previously unselected package python3-sphinx. 265s Preparing to unpack .../181-python3-sphinx_8.1.3-4_all.deb ... 265s Unpacking python3-sphinx (8.1.3-4) ... 266s Selecting previously unselected package python3-tabulate. 266s Preparing to unpack .../182-python3-tabulate_0.9.0-1_all.deb ... 266s Unpacking python3-tabulate (0.9.0-1) ... 266s Selecting previously unselected package python3-numpydoc. 266s Preparing to unpack .../183-python3-numpydoc_1.8.0-1_all.deb ... 266s Unpacking python3-numpydoc (1.8.0-1) ... 266s Selecting previously 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python3-biom-format (2.1.16-1build3) ... 296s Setting up python3-pil.imagetk:amd64 (11.1.0-5build1) ... 296s Setting up python3-skbio (0.6.2-4build2) ... 297s Setting up g++-14-x86-64-linux-gnu (14.2.0-17ubuntu3) ... 297s Setting up g++-x86-64-linux-gnu (4:14.2.0-1ubuntu1) ... 297s Setting up g++-14 (14.2.0-17ubuntu3) ... 297s Setting up libtool (2.5.4-4) ... 297s Setting up gcc (4:14.2.0-1ubuntu1) ... 297s Setting up dh-autoreconf (20) ... 297s Setting up g++ (4:14.2.0-1ubuntu1) ... 297s update-alternatives: using /usr/bin/g++ to provide /usr/bin/c++ (c++) in auto mode 297s Setting up build-essential (12.10ubuntu1) ... 297s Setting up debhelper (13.24.1ubuntu2) ... 297s Setting up pybuild-plugin-autopkgtest (6.20250308) ... 297s Setting up python3-ufolib2 (0.17.0+dfsg1-1) ... 297s Setting up python3-fonttools (4.55.3-2build1) ... 298s Setting up python3-matplotlib (3.8.3-7build1) ... 299s Processing triggers for libc-bin (2.41-1ubuntu2) ... 299s Processing triggers for man-db (2.13.0-1) ... 301s Processing triggers for install-info (7.1.1-1) ... 302s Processing triggers for sgml-base (1.31) ... 302s Setting up docutils-common (0.21.2+dfsg-2) ... 302s Processing triggers for sgml-base (1.31) ... 302s Setting up python3-docutils (0.21.2+dfsg-2) ... 302s Setting up python3-sphinx (8.1.3-4) ... 303s Setting up python3-sphinx-copybutton (0.5.2-2) ... 303s Setting up python3-sphinx-design (0.6.1-1) ... 303s Setting up python3-numpydoc (1.8.0-1) ... 303s Setting up python3-pydata-sphinx-theme (0.16.1+dfsg-3) ... 305s autopkgtest [21:57:11]: test pybuild-autopkgtest: pybuild-autopkgtest 305s autopkgtest [21:57:11]: test pybuild-autopkgtest: [----------------------- 305s pybuild-autopkgtest 305s I: pybuild base:311: cd /tmp/autopkgtest.VN0aE0/autopkgtest_tmp/build; python3.13 -m pytest --pyargs skbio 309s ============================= test session starts ============================== 309s platform linux -- Python 3.13.2, pytest-8.3.5, pluggy-1.5.0 309s rootdir: /tmp/autopkgtest.VN0aE0/autopkgtest_tmp/build 309s configfile: pyproject.toml 309s plugins: typeguard-4.4.2 309s collected 2793 items 309s 309s alignment/tests/test_pairwise.py ......................... [ 0%] 309s alignment/tests/test_path.py ................. [ 1%] 309s alignment/tests/test_ssw.py ........................... [ 2%] 309s alignment/tests/test_tabular_msa.py .................................... [ 3%] 309s ........................................................................ [ 6%] 311s ........................................................................ [ 8%] 312s ........................................................................ [ 11%] 312s ........................................................................ [ 14%] 312s ........................................................................ [ 16%] 312s ..... [ 16%] 312s diversity/alpha/tests/test_ace.py .. [ 16%] 314s diversity/alpha/tests/test_base.py ............................... [ 18%] 314s diversity/alpha/tests/test_chao1.py ... [ 18%] 314s diversity/alpha/tests/test_gini.py .... [ 18%] 318s diversity/alpha/tests/test_lladser.py ............ [ 18%] 318s diversity/alpha/tests/test_pd.py ................ [ 19%] 318s diversity/beta/tests/test_unifrac.py ............................ [ 20%] 318s diversity/tests/test_block.py ........... [ 20%] 318s diversity/tests/test_driver.py ..................................... [ 21%] 319s diversity/tests/test_util.py ................ [ 22%] 319s embedding/tests/test_embedding.py ................... [ 23%] 319s embedding/tests/test_protein.py .............. [ 23%] 319s io/format/tests/test_base.py ................................ [ 24%] 319s io/format/tests/test_binary_dm.py ......... [ 25%] 319s io/format/tests/test_biom.py ... [ 25%] 319s io/format/tests/test_blast6.py ........... [ 25%] 319s io/format/tests/test_blast7.py .............. [ 26%] 319s io/format/tests/test_clustal.py ............. [ 26%] 320s io/format/tests/test_embed.py ........ [ 26%] 321s io/format/tests/test_embl.py ............................... [ 28%] 321s io/format/tests/test_emptyfile.py .. [ 28%] 326s io/format/tests/test_fasta.py ................ [ 28%] 330s io/format/tests/test_fastq.py ............... [ 29%] 330s io/format/tests/test_genbank.py ..................... [ 30%] 331s io/format/tests/test_gff3.py ........................ [ 30%] 331s io/format/tests/test_lsmat.py ....... [ 31%] 331s io/format/tests/test_newick.py ....... [ 31%] 331s io/format/tests/test_ordination.py ..... [ 31%] 332s io/format/tests/test_phylip.py ....... [ 31%] 333s io/format/tests/test_qseq.py ...... [ 32%] 333s io/format/tests/test_sample_metadata.py .... [ 32%] 333s io/format/tests/test_sequence_feature_vocabulary.py .... [ 32%] 333s io/format/tests/test_stockholm.py ...................................... [ 33%] 334s ..................................... [ 34%] 334s io/format/tests/test_taxdump.py ...... [ 35%] 334s io/tests/test_iosources.py .......... [ 35%] 334s io/tests/test_registry.py .............................................. [ 37%] 334s ................................................ [ 38%] 336s io/tests/test_util.py .........................................sssssssss [ 40%] 339s sssssssssssssssssssss................................................... [ 43%] 343s ........................................................................ [ 45%] 345s .......................... [ 46%] 345s metadata/tests/test_enan.py ... [ 46%] 346s metadata/tests/test_intersection.py ............... [ 47%] 346s metadata/tests/test_interval.py ........................................ [ 48%] 346s ............................... [ 49%] 346s metadata/tests/test_io.py .............................................. [ 51%] 347s ............................................................ [ 53%] 347s metadata/tests/test_metadata.py ........................................ [ 55%] 347s .................... [ 55%] 347s metadata/tests/test_metadata_column.py ................................. [ 57%] 348s ........................................ [ 58%] 348s metadata/tests/test_missing.py ................ [ 59%] 348s metadata/tests/test_mixin.py ........................................... [ 60%] 348s ....................................................... [ 62%] 348s sequence/tests/test_alphabet.py ..... [ 62%] 348s sequence/tests/test_distance.py .......................... [ 63%] 348s sequence/tests/test_dna.py ... [ 63%] 348s sequence/tests/test_genetic_code.py .......................... [ 64%] 348s sequence/tests/test_grammared_sequence.py .............................. [ 65%] 348s ................... [ 66%] 348s sequence/tests/test_nucleotide_sequences.py ............................ [ 67%] 348s . [ 67%] 348s sequence/tests/test_protein.py ........... [ 67%] 348s sequence/tests/test_rna.py ... [ 68%] 348s sequence/tests/test_sequence.py ........................................ [ 69%] 348s ........................................................................ [ 72%] 348s ........................................................................ [ 74%] 348s ........................................................................ [ 77%] 348s ....... [ 77%] 348s sequence/tests/test_substitution.py ........ [ 77%] 348s stats/distance/tests/test_anosim.py .... [ 77%] 348s stats/distance/tests/test_base.py ...................................... [ 79%] 349s .......................................................... [ 81%] 362s stats/distance/tests/test_bioenv.py ................. [ 81%] 365s stats/distance/tests/test_mantel.py .................................... [ 83%] 365s ........ [ 83%] 365s stats/distance/tests/test_permanova.py ..... [ 83%] 376s stats/distance/tests/test_permdisp.py .............. [ 84%] 376s stats/evolve/tests/test_hommola.py ............ [ 84%] 377s stats/ordination/tests/test_canonical_correspondence_analysis.py ...... [ 84%] 377s stats/ordination/tests/test_correspondence_analysis.py ........ [ 85%] 377s stats/ordination/tests/test_ordination_results.py ............. [ 85%] 377s stats/ordination/tests/test_principal_coordinate_analysis.py ........... [ 86%] 377s . [ 86%] 377s stats/ordination/tests/test_redundancy_analysis.py .... [ 86%] 377s stats/ordination/tests/test_util.py .......... [ 86%] 378s stats/tests/test_composition.py ........................................ [ 87%] 394s .......................................... [ 89%] 394s stats/tests/test_gradient.py .......................... [ 90%] 394s stats/tests/test_misc.py ... [ 90%] 396s stats/tests/test_power.py ........................................... [ 92%] 397s stats/tests/test_subsample.py ............ [ 92%] 397s table/tests/test_base.py . [ 92%] 397s tests/test_base.py ..... [ 92%] 397s tests/test_workflow.py ................. [ 93%] 397s tree/tests/test_majority_rule.py ...... [ 93%] 398s tree/tests/test_nj.py ............................ [ 94%] 398s tree/tests/test_tree.py ................................................ [ 96%] 398s ........................................................ [ 98%] 398s util/tests/test_decorator.py ........ [ 98%] 398s util/tests/test_misc.py .................... [ 99%] 399s util/tests/test_plotting.py ...... [ 99%] 399s util/tests/test_testing.py ............... [100%] 399s 399s =============================== warnings summary =============================== 399s alignment/tests/test_pairwise.py::PairwiseAlignmentTests::test_compute_score_and_traceback_matrices 399s /usr/lib/python3/dist-packages/skbio/util/_warning.py:56: DeprecationWarning: make_identity_substitution_matrix is deprecated as of 0.4.0. It has been replaced by the SubstitutionMatrix class. Additional details at https://github.com/scikit-bio/scikit-bio/pull/1913. 399s warn( 399s 399s alignment/tests/test_ssw.py::TestAlignStripedSmithWaterman::test_invalid_type 399s /usr/lib/python3/dist-packages/skbio/util/_warning.py:56: DeprecationWarning: local_pairwise_align_ssw is deprecated as of 0.5.8. It will be removed in favor of more general purpose and performant aligners. Additional details at https://github.com/scikit-bio/scikit-bio/issues/1814. 399s warn( 399s 399s alignment/tests/test_tabular_msa.py::TestGapFrequencies::test_no_positions_relative 399s /usr/lib/python3/dist-packages/skbio/alignment/_tabular_msa.py:1648: RuntimeWarning: invalid value encountered in divide 399s gap_freqs /= length 399s 399s diversity/tests/test_block.py::ParallelBetaDiversity::test_block_beta_diversity 399s /usr/lib/python3/dist-packages/skbio/util/_warning.py:56: DeprecationWarning: partial_beta_diversity is deprecated as of 0.5.0. The return type is unstable. Developer caution is advised. The resulting DistanceMatrix object will include zeros when distance has not been calculated, and therefore can be misleading. 399s warn( 399s 399s embedding/tests/test_protein.py: 3 warnings 399s sequence/tests/test_protein.py: 18 warnings 399s /usr/lib/python3/dist-packages/skbio/sequence/_protein.py:257: DeprecationWarning: `in1d` is deprecated. Use `np.isin` instead. 399s return np.in1d(self._bytes, self._stop_codes) 399s 399s metadata/tests/test_io.py: 10 warnings 399s /usr/lib/python3/dist-packages/skbio/metadata/io.py:411: FutureWarning: Downcasting behavior in `replace` is deprecated and will be removed in a future version. To retain the old behavior, explicitly call `result.infer_objects(copy=False)`. To opt-in to the future behavior, set `pd.set_option('future.no_silent_downcasting', True)` 399s series = series.replace("", np.nan) 399s 399s metadata/tests/test_io.py::TestSave::test_numeric_metadata_column_insdc_missing 399s metadata/tests/test_metadata_column.py::TestToSeries::test_encode_missing_true 399s metadata/tests/test_metadata_column.py::TestToDataframe::test_encode_missing_true 399s /usr/lib/python3/dist-packages/skbio/metadata/_metadata.py:1102: FutureWarning: Setting an item of incompatible dtype is deprecated and will raise an error in a future version of pandas. Value '['missing']' has dtype incompatible with float64, please explicitly cast to a compatible dtype first. 399s series[missing.index] = missing 399s 399s metadata/tests/test_missing.py::TestISNDC::test_roundtrip_all_missing_object 399s metadata/tests/test_missing.py::TestOmitted::test_roundtrip_all_missing_object 399s /usr/lib/python3/dist-packages/skbio/metadata/tests/test_missing.py:53: FutureWarning: Mismatched null-like values nan and None found. In a future version, pandas equality-testing functions (e.g. assert_frame_equal) will consider these not-matching and raise. 399s pdt.assert_series_equal(missing, series.astype(object)) 399s 399s metadata/tests/test_missing.py::TestOmitted::test_roundtrip_bool 399s metadata/tests/test_missing.py::TestOmitted::test_roundtrip_string 399s /usr/lib/python3/dist-packages/skbio/metadata/tests/test_missing.py:31: FutureWarning: Mismatched null-like values nan and None found. In a future version, pandas equality-testing functions (e.g. assert_frame_equal) will consider these not-matching and raise. 399s pdt.assert_series_equal(missing, series[1:].astype(object)) 399s 399s sequence/tests/test_grammared_sequence.py::TestGrammaredSequence::test_has_nondegenerates 399s sequence/tests/test_grammared_sequence.py::TestGrammaredSequence::test_has_nondegenerates 399s sequence/tests/test_grammared_sequence.py::TestGrammaredSequence::test_has_nondegenerates 399s sequence/tests/test_grammared_sequence.py::TestGrammaredSequence::test_has_nondegenerates 399s sequence/tests/test_grammared_sequence.py::TestGrammaredSequence::test_has_nondegenerates 399s sequence/tests/test_grammared_sequence.py::TestGrammaredSequence::test_has_nondegenerates 399s /usr/lib/python3/dist-packages/skbio/sequence/_grammared_sequence.py:639: DeprecationWarning: has_nondegenerates is deprecated as of 0.5.0 399s warn("has_nondegenerates is deprecated as of 0.5.0", DeprecationWarning) 399s 399s sequence/tests/test_grammared_sequence.py::TestGrammaredSequence::test_nondegenerate_chars 399s sequence/tests/test_grammared_sequence.py::TestGrammaredSequence::test_nondegenerate_chars 399s sequence/tests/test_grammared_sequence.py::TestGrammaredSequence::test_nondegenerate_chars 399s sequence/tests/test_nucleotide_sequences.py::TestNucleotideSequence::test_nondegenerate_chars 399s sequence/tests/test_nucleotide_sequences.py::TestNucleotideSequence::test_nondegenerate_chars 399s sequence/tests/test_nucleotide_sequences.py::TestNucleotideSequence::test_nondegenerate_chars 399s sequence/tests/test_nucleotide_sequences.py::TestNucleotideSequence::test_nondegenerate_chars 399s sequence/tests/test_protein.py::TestProtein::test_nondegenerate_chars 399s sequence/tests/test_protein.py::TestProtein::test_nondegenerate_chars 399s /usr/lib/python3/dist-packages/skbio/sequence/_grammared_sequence.py:313: DeprecationWarning: nondegenerate_chars is deprecated as of 0.5.0 399s warn("nondegenerate_chars is deprecated as of 0.5.0", DeprecationWarning) 399s 399s sequence/tests/test_grammared_sequence.py::TestGrammaredSequence::test_nondegenerates 399s sequence/tests/test_grammared_sequence.py::TestGrammaredSequence::test_nondegenerates 399s sequence/tests/test_grammared_sequence.py::TestGrammaredSequence::test_nondegenerates 399s sequence/tests/test_grammared_sequence.py::TestGrammaredSequence::test_nondegenerates 399s sequence/tests/test_grammared_sequence.py::TestGrammaredSequence::test_nondegenerates 399s sequence/tests/test_grammared_sequence.py::TestGrammaredSequence::test_nondegenerates 399s sequence/tests/test_grammared_sequence.py::TestGrammaredSequence::test_nondegenerates 399s /usr/lib/python3/dist-packages/skbio/sequence/_grammared_sequence.py:572: DeprecationWarning: nondenengerates is deprecated as of 0.5.0. 399s warn("nondenengerates is deprecated as of 0.5.0.", DeprecationWarning) 399s 399s sequence/tests/test_sequence.py::TestSequence::test_frequencies_empty_sequence 399s /usr/lib/python3/dist-packages/skbio/sequence/_sequence.py:1824: RuntimeWarning: invalid value encountered in divide 399s obs_counts = obs_counts / len(self) 399s 399s sequence/tests/test_sequence.py: 12 warnings 399s /usr/lib/python3/dist-packages/skbio/sequence/_sequence.py:2209: DeprecationWarning: `in1d` is deprecated. Use `np.isin` instead. 399s gaps = np.in1d(seq, gap_chars) 399s 399s stats/distance/tests/test_mantel.py::MantelTests::test_no_variation_pearson 399s /usr/lib/python3/dist-packages/skbio/stats/distance/_mantel.py:364: ConstantInputWarning: All values in data are exactly equal; results may not be reliable. 399s warnings.warn(ConstantInputWarning()) 399s 399s stats/distance/tests/test_mantel.py::MantelTests::test_no_variation_spearman 399s /usr/lib/python3/dist-packages/skbio/stats/distance/_mantel.py:483: ConstantInputWarning: All values in data are exactly equal; results may not be reliable. 399s warnings.warn(ConstantInputWarning()) 399s 399s stats/distance/tests/test_permdisp.py::testPERMDISP::test_call_via_series 399s stats/distance/tests/test_permdisp.py::testPERMDISP::test_call_via_series 399s /usr/lib/python3/dist-packages/skbio/stats/ordination/_principal_coordinate_analysis.py:146: RuntimeWarning: The result contains negative eigenvalues. Please compare their magnitude with the magnitude of some of the largest positive eigenvalues. If the negative ones are smaller, it's probably safe to ignore them, but if they are large in magnitude, the results won't be useful. See the Notes section for more details. The smallest eigenvalue is -0.006573677549550485 and the largest is 0.17668321589384078. 399s warn( 399s 399s stats/distance/tests/test_permdisp.py::testPERMDISP::test_centroids_eq_groups 399s stats/distance/tests/test_permdisp.py::testPERMDISP::test_no_permuations 399s /usr/lib/python3/dist-packages/skbio/stats/ordination/_principal_coordinate_analysis.py:146: RuntimeWarning: The result contains negative eigenvalues. Please compare their magnitude with the magnitude of some of the largest positive eigenvalues. If the negative ones are smaller, it's probably safe to ignore them, but if they are large in magnitude, the results won't be useful. See the Notes section for more details. The smallest eigenvalue is -13.54184654426961 and the largest is 16.5872013747859. 399s warn( 399s 399s stats/distance/tests/test_permdisp.py::testPERMDISP::test_centroids_mixedgroups 399s stats/distance/tests/test_permdisp.py::testPERMDISP::test_centroids_uneq_groups 399s /usr/lib/python3/dist-packages/skbio/stats/ordination/_principal_coordinate_analysis.py:146: RuntimeWarning: The result contains negative eigenvalues. Please compare their magnitude with the magnitude of some of the largest positive eigenvalues. If the negative ones are smaller, it's probably safe to ignore them, but if they are large in magnitude, the results won't be useful. See the Notes section for more details. The smallest eigenvalue is -15.629533932395208 and the largest is 20.90315427793891. 399s warn( 399s 399s stats/distance/tests/test_permdisp.py::testPERMDISP::test_centroids_null 399s /usr/lib/python3/dist-packages/skbio/stats/ordination/_principal_coordinate_analysis.py:190: RuntimeWarning: invalid value encountered in divide 399s proportion_explained = eigvals / sum_eigenvalues 399s 399s stats/distance/tests/test_permdisp.py::testPERMDISP::test_centroids_null 399s /usr/lib/python3/dist-packages/scipy/stats/_axis_nan_policy.py:605: ConstantInputWarning: Each of the input arrays is constant; the F statistic is not defined or infinite 399s res = hypotest_fun_out(*samples, axis=axis, **kwds) 399s 399s stats/distance/tests/test_permdisp.py::testPERMDISP::test_confirm_betadispr_results 399s stats/distance/tests/test_permdisp.py::testPERMDISP::test_confirm_betadispr_results 399s /usr/lib/python3/dist-packages/skbio/stats/ordination/_principal_coordinate_analysis.py:146: RuntimeWarning: The result contains negative eigenvalues. Please compare their magnitude with the magnitude of some of the largest positive eigenvalues. If the negative ones are smaller, it's probably safe to ignore them, but if they are large in magnitude, the results won't be useful. See the Notes section for more details. The smallest eigenvalue is -0.007758325147780521 and the largest is 2.7077929489469237. 399s warn( 399s 399s stats/ordination/tests/test_redundancy_analysis.py::TestRDAErrors::test_shape 399s /usr/lib/python3.13/unittest/case.py:707: DeprecationWarning: It is deprecated to return a value that is not None from a test case (>) 399s return self.run(*args, **kwds) 399s 399s stats/tests/test_composition.py::CompositionTests::test_multiplicative_replacement 399s /usr/lib/python3/dist-packages/skbio/util/_warning.py:60: UserWarning: multiplicative_replacement is deprecated as of 0.6.0. 399s warn(f"{func.__name__} is deprecated as of {ver}.") 399s 399s stats/tests/test_composition.py::AncomTests::test_ancom_alternative_test 399s /usr/lib/python3/dist-packages/scipy/stats/_axis_nan_policy.py:573: RuntimeWarning: Precision loss occurred in moment calculation due to catastrophic cancellation. This occurs when the data are nearly identical. Results may be unreliable. 399s res = hypotest_fun_out(*samples, **kwds) 399s 399s stats/tests/test_composition.py::AncomTests::test_ancom_multiple_comparisons_deprecated 399s /usr/lib/python3/dist-packages/skbio/util/_warning.py:60: UserWarning: ancom is deprecated as of 0.6.0. 399s warn(f"{func.__name__} is deprecated as of {ver}.") 399s 399s stats/tests/test_composition.py::AncomTests::test_ancom_no_signal 399s /usr/lib/python3/dist-packages/scipy/stats/_axis_nan_policy.py:573: ConstantInputWarning: Each of the input arrays is constant; the F statistic is not defined or infinite 399s res = hypotest_fun_out(*samples, **kwds) 399s 399s stats/tests/test_composition.py::VLRTests::test_pairwise_vlr 399s /usr/lib/python3/dist-packages/skbio/stats/composition.py:947: RuntimeWarning: divide by zero encountered in log 399s X_log = np.log(mat) 399s 399s stats/tests/test_composition.py::VLRTests::test_pairwise_vlr 399s /usr/lib/python3/dist-packages/numpy/lib/_function_base_impl.py:2888: RuntimeWarning: invalid value encountered in subtract 399s X -= avg[:, None] 399s 399s stats/tests/test_composition.py::VLRTests::test_vlr 399s /usr/lib/python3/dist-packages/skbio/stats/composition.py:831: RuntimeWarning: divide by zero encountered in log 399s x = np.log(x) 399s 399s stats/tests/test_composition.py::VLRTests::test_vlr 399s /usr/lib/python3/dist-packages/numpy/_core/_methods.py:191: RuntimeWarning: invalid value encountered in subtract 399s x = asanyarray(arr - arrmean) 399s 399s stats/tests/test_gradient.py::GradientTests::test_weight_by_vector 399s /usr/lib/python3/dist-packages/skbio/stats/gradient.py:167: FutureWarning: Setting an item of incompatible dtype is deprecated and will raise an error in a future version of pandas. Value '6.357142857142857' has dtype incompatible with int64, please explicitly cast to a compatible dtype first. 399s trajectories.loc[idx] = ( 399s 399s tree/tests/test_tree.py::TreeTests::test_root_at 399s /usr/lib/python3/dist-packages/skbio/tree/_tree.py:1327: FutureWarning: The default behavior of `root_at` is subject to change in 0.7.0. The new default behavior can be achieved by specifying `reset=True, branch_attrs=[], root_name=None`. 399s warn( 399s 399s tree/tests/test_tree.py::TreeTests::test_root_at 399s /usr/lib/python3/dist-packages/skbio/tree/_tree.py:776: FutureWarning: The default behavior of `unrooted_copy` is subject to change in 0.7.0. The new default behavior can be achieved by specifying `branch_attrs={"length", "support"}, root_name=None`. 399s warn( 399s 399s tree/tests/test_tree.py::TreeTests::test_root_at_midpoint 399s /usr/lib/python3/dist-packages/skbio/tree/_tree.py:1472: FutureWarning: The default behavior of `root_at_midpoint` is subject to change in 0.7.0. The new default behavior can be achieved by specifying `reset=True, branch_attrs=[], root_name=None`. 399s warn( 399s 399s tree/tests/test_tree.py::TreeTests::test_unrooted_deepcopy 399s /usr/lib/python3/dist-packages/skbio/util/_warning.py:56: DeprecationWarning: unrooted_deepcopy is deprecated as of 0.6.2. Use unrooted_copy instead. 399s warn( 399s 399s -- Docs: https://docs.pytest.org/en/stable/how-to/capture-warnings.html 399s ========== 2763 passed, 30 skipped, 103 warnings in 91.62s (0:01:31) =========== 400s autopkgtest [21:58:46]: test pybuild-autopkgtest: -----------------------] 400s pybuild-autopkgtest PASS 400s autopkgtest [21:58:46]: test pybuild-autopkgtest: - - - - - - - - - - results - - - - - - - - - - 401s autopkgtest [21:58:47]: @@@@@@@@@@@@@@@@@@@@ summary 401s pybuild-autopkgtest PASS 406s nova [W] Skipping flock for amd64 406s Creating nova instance adt-plucky-amd64-python-skbio-20250315-215206-juju-7f2275-prod-proposed-migration-environment-2-b1a9b415-fed5-4485-8751-d7f35d344e6a from image adt/ubuntu-plucky-amd64-server-20250304.img (UUID 9c7d4da5-d95f-4c85-ac1f-51eb37e75c4c)... 406s nova [W] Timed out waiting for 3f6878cd-c32d-4ade-afbd-d62e726ecd0d to get deleted.