0s autopkgtest [14:14:37]: starting date and time: 2025-01-03 14:14:37+0000 0s autopkgtest [14:14:37]: git checkout: 325255d2 Merge branch 'pin-any-arch' into 'ubuntu/production' 0s autopkgtest [14:14:37]: host juju-7f2275-prod-proposed-migration-environment-9; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work.qxnbp990/out --timeout-copy=6000 --setup-commands 'ln -s /dev/null /etc/systemd/system/bluetooth.service; printf "http_proxy=http://squid.internal:3128\nhttps_proxy=http://squid.internal:3128\nno_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\n" >> /etc/environment' --apt-pocket=proposed=src:python3-defaults --apt-upgrade pycoqc --timeout-short=300 --timeout-copy=20000 --timeout-build=20000 '--env=ADT_TEST_TRIGGERS=python3-defaults/3.13.1-1~exp2' -- lxd -r lxd-armhf-10.145.243.247 lxd-armhf-10.145.243.247:autopkgtest/ubuntu/plucky/armhf 54s autopkgtest [14:15:31]: testbed dpkg architecture: armhf 56s autopkgtest [14:15:33]: testbed apt version: 2.9.14ubuntu1 61s autopkgtest [14:15:38]: @@@@@@@@@@@@@@@@@@@@ test bed setup 63s autopkgtest [14:15:40]: testbed release detected to be: None 72s autopkgtest [14:15:49]: updating testbed package index (apt update) 74s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease [73.9 kB] 74s Get:2 http://ftpmaster.internal/ubuntu plucky InRelease [213 kB] 74s Hit:3 http://ftpmaster.internal/ubuntu plucky-updates InRelease 75s Hit:4 http://ftpmaster.internal/ubuntu plucky-security InRelease 75s Get:5 http://ftpmaster.internal/ubuntu plucky-proposed/universe Sources [669 kB] 75s Get:6 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse Sources [10.1 kB] 75s Get:7 http://ftpmaster.internal/ubuntu plucky-proposed/restricted Sources [9708 B] 75s Get:8 http://ftpmaster.internal/ubuntu plucky-proposed/main Sources [60.7 kB] 75s Get:9 http://ftpmaster.internal/ubuntu plucky-proposed/main armhf Packages [60.7 kB] 75s Get:10 http://ftpmaster.internal/ubuntu plucky-proposed/restricted armhf Packages [756 B] 75s Get:11 http://ftpmaster.internal/ubuntu plucky-proposed/universe armhf Packages [521 kB] 75s Get:12 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse armhf Packages [2064 B] 75s Get:13 http://ftpmaster.internal/ubuntu plucky/restricted Sources [15.2 kB] 75s Get:14 http://ftpmaster.internal/ubuntu plucky/multiverse Sources [297 kB] 75s Get:15 http://ftpmaster.internal/ubuntu plucky/universe Sources [20.9 MB] 76s Get:16 http://ftpmaster.internal/ubuntu plucky/main Sources [1383 kB] 76s Get:17 http://ftpmaster.internal/ubuntu plucky/main armhf Packages [1355 kB] 76s Get:18 http://ftpmaster.internal/ubuntu plucky/restricted armhf Packages [2544 B] 76s Get:19 http://ftpmaster.internal/ubuntu plucky/universe armhf Packages [14.9 MB] 77s Get:20 http://ftpmaster.internal/ubuntu plucky/multiverse armhf Packages [173 kB] 81s Fetched 40.7 MB in 6s (6507 kB/s) 82s Reading package lists... 89s autopkgtest [14:16:06]: upgrading testbed (apt dist-upgrade and autopurge) 92s Reading package lists... 92s Building dependency tree... 92s Reading state information... 93s Calculating upgrade...Starting pkgProblemResolver with broken count: 0 94s Starting 2 pkgProblemResolver with broken count: 0 94s Done 95s Entering ResolveByKeep 96s 97s The following packages were automatically installed and are no longer required: 97s libassuan0 libnsl2 libpython3.12-minimal libpython3.12-stdlib python3.12 97s python3.12-minimal 97s Use 'apt autoremove' to remove them. 97s The following NEW packages will be installed: 97s libpython3.13-minimal libpython3.13-stdlib openssl-provider-legacy 97s python3-bcrypt python3.13 python3.13-minimal 97s The following packages will be upgraded: 97s apport apport-core-dump-handler appstream apt apt-utils base-passwd bash 97s bash-completion binutils binutils-arm-linux-gnueabihf binutils-common 97s bsdextrautils bsdutils curl dirmngr dracut-install eject ethtool fdisk fwupd 97s gcc-14-base gettext-base gir1.2-girepository-2.0 gir1.2-glib-2.0 gnupg 97s gnupg-l10n gnupg-utils gpg gpg-agent gpg-wks-client gpgconf gpgsm gpgv 97s groff-base iputils-ping iputils-tracepath keyboxd libappstream5 97s libapt-pkg6.0t64 libatomic1 libbinutils libblkid1 libbpf1 libc-bin libc6 97s libcap-ng0 libctf-nobfd0 libctf0 libcurl3t64-gnutls libcurl4t64 97s libdebconfclient0 libfdisk1 libfribidi0 libftdi1-2 libfwupd3 libgcc-s1 97s libgirepository-1.0-1 libglib2.0-0t64 libglib2.0-bin libglib2.0-data 97s libgpg-error-l10n libgpg-error0 libgstreamer1.0-0 libjson-glib-1.0-0 97s libjson-glib-1.0-common libmount1 libnewt0.52 libnpth0t64 libnss-systemd 97s libnss3 libpam-systemd libpng16-16t64 libpython3-stdlib 97s libpython3.12-minimal libpython3.12-stdlib libqmi-glib5 libqmi-proxy 97s libreadline8t64 libsframe1 libsmartcols1 libssl3t64 libstdc++6 97s libsystemd-shared libsystemd0 libtraceevent1 libtraceevent1-plugin libudev1 97s libunistring5 libuuid1 libwrap0 libxkbcommon0 libxml2 libyaml-0-2 locales 97s make mount openssl pci.ids publicsuffix python-apt-common python3 97s python3-apport python3-apt python3-attr python3-cryptography python3-gdbm 97s python3-jinja2 python3-json-pointer python3-jsonpatch python3-minimal 97s python3-newt python3-openssl python3-pkg-resources python3-problem-report 97s python3-rich python3-setuptools python3-software-properties python3-wadllib 97s python3.12 python3.12-gdbm python3.12-minimal python3.13-gdbm 97s readline-common rsync software-properties-common systemd systemd-cryptsetup 97s systemd-resolved systemd-sysv systemd-timesyncd tar tzdata ucf udev usb.ids 97s util-linux uuid-runtime whiptail xauth 97s 139 upgraded, 6 newly installed, 0 to remove and 0 not upgraded. 97s Need to get 64.0 MB of archives. 97s After this operation, 28.5 MB of additional disk space will be used. 97s Get:1 http://ftpmaster.internal/ubuntu plucky/main armhf bash armhf 5.2.37-1ubuntu1 [677 kB] 97s Get:2 http://ftpmaster.internal/ubuntu plucky/main armhf bsdutils armhf 1:2.40.2-1ubuntu2 [108 kB] 97s Get:3 http://ftpmaster.internal/ubuntu plucky/main armhf tar armhf 1.35+dfsg-3.1 [240 kB] 97s Get:4 http://ftpmaster.internal/ubuntu plucky/main armhf libatomic1 armhf 14.2.0-12ubuntu1 [7892 B] 97s Get:5 http://ftpmaster.internal/ubuntu plucky/main armhf gcc-14-base armhf 14.2.0-12ubuntu1 [52.6 kB] 97s Get:6 http://ftpmaster.internal/ubuntu plucky/main armhf libgcc-s1 armhf 14.2.0-12ubuntu1 [40.6 kB] 97s Get:7 http://ftpmaster.internal/ubuntu plucky/main armhf libstdc++6 armhf 14.2.0-12ubuntu1 [711 kB] 97s Get:8 http://ftpmaster.internal/ubuntu plucky/main armhf libc6 armhf 2.40-4ubuntu1 [2866 kB] 98s Get:9 http://ftpmaster.internal/ubuntu plucky/main armhf openssl-provider-legacy armhf 3.4.0-1ubuntu2 [29.4 kB] 98s Get:10 http://ftpmaster.internal/ubuntu plucky/main armhf libssl3t64 armhf 3.4.0-1ubuntu2 [1756 kB] 98s Get:11 http://ftpmaster.internal/ubuntu plucky/main armhf systemd-timesyncd armhf 257-2ubuntu1 [41.2 kB] 98s Get:12 http://ftpmaster.internal/ubuntu plucky/main armhf systemd-resolved armhf 257-2ubuntu1 [307 kB] 98s Get:13 http://ftpmaster.internal/ubuntu plucky/main armhf systemd-cryptsetup armhf 257-2ubuntu1 [122 kB] 98s Get:14 http://ftpmaster.internal/ubuntu plucky/main armhf eject armhf 2.40.2-1ubuntu2 [62.3 kB] 98s Get:15 http://ftpmaster.internal/ubuntu plucky/main armhf bsdextrautils armhf 2.40.2-1ubuntu2 [99.4 kB] 98s Get:16 http://ftpmaster.internal/ubuntu plucky/main armhf fdisk armhf 2.40.2-1ubuntu2 [155 kB] 98s Get:17 http://ftpmaster.internal/ubuntu plucky/main armhf libblkid1 armhf 2.40.2-1ubuntu2 [167 kB] 98s Get:18 http://ftpmaster.internal/ubuntu plucky/main armhf libmount1 armhf 2.40.2-1ubuntu2 [189 kB] 98s Get:19 http://ftpmaster.internal/ubuntu plucky/main armhf libsmartcols1 armhf 2.40.2-1ubuntu2 [135 kB] 98s Get:20 http://ftpmaster.internal/ubuntu plucky/main armhf libuuid1 armhf 2.40.2-1ubuntu2 [39.5 kB] 98s Get:21 http://ftpmaster.internal/ubuntu plucky/main armhf util-linux armhf 2.40.2-1ubuntu2 [1195 kB] 98s Get:22 http://ftpmaster.internal/ubuntu plucky/main armhf uuid-runtime armhf 2.40.2-1ubuntu2 [62.7 kB] 98s Get:23 http://ftpmaster.internal/ubuntu plucky/main armhf libfdisk1 armhf 2.40.2-1ubuntu2 [211 kB] 98s Get:24 http://ftpmaster.internal/ubuntu plucky/main armhf mount armhf 2.40.2-1ubuntu2 [156 kB] 98s Get:25 http://ftpmaster.internal/ubuntu plucky/main armhf readline-common all 8.2-6 [56.5 kB] 98s Get:26 http://ftpmaster.internal/ubuntu plucky/main armhf libreadline8t64 armhf 8.2-6 [131 kB] 98s Get:27 http://ftpmaster.internal/ubuntu plucky/main armhf libnss-systemd armhf 257-2ubuntu1 [160 kB] 98s Get:28 http://ftpmaster.internal/ubuntu plucky/main armhf systemd armhf 257-2ubuntu1 [3489 kB] 98s Get:29 http://ftpmaster.internal/ubuntu plucky/main armhf udev armhf 257-2ubuntu1 [1974 kB] 98s Get:30 http://ftpmaster.internal/ubuntu plucky/main armhf systemd-sysv armhf 257-2ubuntu1 [11.8 kB] 98s Get:31 http://ftpmaster.internal/ubuntu plucky/main armhf libpam-systemd armhf 257-2ubuntu1 [233 kB] 98s Get:32 http://ftpmaster.internal/ubuntu plucky/main armhf libsystemd-shared armhf 257-2ubuntu1 [2156 kB] 98s Get:33 http://ftpmaster.internal/ubuntu plucky/main armhf libudev1 armhf 257-2ubuntu1 [190 kB] 98s Get:34 http://ftpmaster.internal/ubuntu plucky/main armhf libsystemd0 armhf 257-2ubuntu1 [483 kB] 98s Get:35 http://ftpmaster.internal/ubuntu plucky/main armhf libdebconfclient0 armhf 0.274ubuntu1 [11.2 kB] 98s Get:36 http://ftpmaster.internal/ubuntu plucky/main armhf base-passwd armhf 3.6.6 [53.4 kB] 98s Get:37 http://ftpmaster.internal/ubuntu plucky/main armhf libc-bin armhf 2.40-4ubuntu1 [542 kB] 98s Get:38 http://ftpmaster.internal/ubuntu plucky/main armhf libapt-pkg6.0t64 armhf 2.9.18 [1085 kB] 98s Get:39 http://ftpmaster.internal/ubuntu plucky/main armhf apt armhf 2.9.18 [1349 kB] 98s Get:40 http://ftpmaster.internal/ubuntu plucky/main armhf apt-utils armhf 2.9.18 [216 kB] 98s Get:41 http://ftpmaster.internal/ubuntu plucky/main armhf libgpg-error-l10n all 1.51-3 [8800 B] 98s Get:42 http://ftpmaster.internal/ubuntu plucky/main armhf libgpg-error0 armhf 1.51-3 [64.8 kB] 98s Get:43 http://ftpmaster.internal/ubuntu plucky/main armhf libnpth0t64 armhf 1.8-2 [7572 B] 98s Get:44 http://ftpmaster.internal/ubuntu plucky/main armhf gpg-wks-client armhf 2.4.4-2ubuntu21 [88.9 kB] 98s Get:45 http://ftpmaster.internal/ubuntu plucky/main armhf dirmngr armhf 2.4.4-2ubuntu21 [351 kB] 98s Get:46 http://ftpmaster.internal/ubuntu plucky/main armhf gpgsm armhf 2.4.4-2ubuntu21 [246 kB] 98s Get:47 http://ftpmaster.internal/ubuntu plucky/main armhf gnupg-utils armhf 2.4.4-2ubuntu21 [160 kB] 98s Get:48 http://ftpmaster.internal/ubuntu plucky/main armhf gpg-agent armhf 2.4.4-2ubuntu21 [238 kB] 98s Get:49 http://ftpmaster.internal/ubuntu plucky/main armhf gpg armhf 2.4.4-2ubuntu21 [536 kB] 98s Get:50 http://ftpmaster.internal/ubuntu plucky/main armhf gpgconf armhf 2.4.4-2ubuntu21 [118 kB] 98s Get:51 http://ftpmaster.internal/ubuntu plucky/main armhf gnupg all 2.4.4-2ubuntu21 [359 kB] 98s Get:52 http://ftpmaster.internal/ubuntu plucky/main armhf keyboxd armhf 2.4.4-2ubuntu21 [113 kB] 98s Get:53 http://ftpmaster.internal/ubuntu plucky/main armhf gpgv armhf 2.4.4-2ubuntu21 [228 kB] 98s Get:54 http://ftpmaster.internal/ubuntu plucky/main armhf libpython3.13-minimal armhf 3.13.1-2 [868 kB] 98s Get:55 http://ftpmaster.internal/ubuntu plucky/main armhf python3.13-minimal armhf 3.13.1-2 [2036 kB] 98s Get:56 http://ftpmaster.internal/ubuntu plucky/main armhf python3-cryptography armhf 43.0.0-1 [925 kB] 99s Get:57 http://ftpmaster.internal/ubuntu plucky-proposed/main armhf python3-minimal armhf 3.13.1-1~exp2 [27.6 kB] 99s Get:58 http://ftpmaster.internal/ubuntu plucky-proposed/main armhf python3 armhf 3.13.1-1~exp2 [23.9 kB] 99s Get:59 http://ftpmaster.internal/ubuntu plucky/main armhf python3-bcrypt armhf 4.2.0-2.1 [239 kB] 99s Get:60 http://ftpmaster.internal/ubuntu plucky/main armhf tzdata all 2024b-4ubuntu1 [196 kB] 99s Get:61 http://ftpmaster.internal/ubuntu plucky/main armhf libpython3.13-stdlib armhf 3.13.1-2 [1970 kB] 99s Get:62 http://ftpmaster.internal/ubuntu plucky/main armhf python3.13 armhf 3.13.1-2 [729 kB] 99s Get:63 http://ftpmaster.internal/ubuntu plucky-proposed/main armhf libpython3-stdlib armhf 3.13.1-1~exp2 [10.2 kB] 99s Get:64 http://ftpmaster.internal/ubuntu plucky/main armhf python3.12 armhf 3.12.8-3 [667 kB] 99s Get:65 http://ftpmaster.internal/ubuntu plucky/main armhf libpython3.12-stdlib armhf 3.12.8-3 [1939 kB] 99s Get:66 http://ftpmaster.internal/ubuntu plucky/main armhf python3.12-minimal armhf 3.12.8-3 [2029 kB] 99s Get:67 http://ftpmaster.internal/ubuntu plucky/main armhf libpython3.12-minimal armhf 3.12.8-3 [825 kB] 99s Get:68 http://ftpmaster.internal/ubuntu plucky/main armhf rsync armhf 3.3.0+ds1-2 [422 kB] 99s Get:69 http://ftpmaster.internal/ubuntu plucky/main armhf python-apt-common all 2.9.6build1 [21.0 kB] 99s Get:70 http://ftpmaster.internal/ubuntu plucky/main armhf python3-apt armhf 2.9.6build1 [174 kB] 99s Get:71 http://ftpmaster.internal/ubuntu plucky/main armhf python3-problem-report all 2.31.0-0ubuntu2 [25.3 kB] 99s Get:72 http://ftpmaster.internal/ubuntu plucky/main armhf python3-apport all 2.31.0-0ubuntu2 [93.1 kB] 99s Get:73 http://ftpmaster.internal/ubuntu plucky/main armhf libglib2.0-data all 2.82.4-1 [52.2 kB] 99s Get:74 http://ftpmaster.internal/ubuntu plucky/main armhf libglib2.0-bin armhf 2.82.4-1 [93.0 kB] 99s Get:75 http://ftpmaster.internal/ubuntu plucky/main armhf gir1.2-girepository-2.0 armhf 1.82.0-3 [25.3 kB] 99s Get:76 http://ftpmaster.internal/ubuntu plucky/main armhf gir1.2-glib-2.0 armhf 2.82.4-1 [182 kB] 99s Get:77 http://ftpmaster.internal/ubuntu plucky/main armhf libglib2.0-0t64 armhf 2.82.4-1 [1421 kB] 99s Get:78 http://ftpmaster.internal/ubuntu plucky/main armhf libgirepository-1.0-1 armhf 1.82.0-3 [108 kB] 99s Get:79 http://ftpmaster.internal/ubuntu plucky/main armhf apport-core-dump-handler all 2.31.0-0ubuntu2 [18.2 kB] 99s Get:80 http://ftpmaster.internal/ubuntu plucky/main armhf apport all 2.31.0-0ubuntu2 [82.9 kB] 99s Get:81 http://ftpmaster.internal/ubuntu plucky/main armhf libcap-ng0 armhf 0.8.5-4 [13.8 kB] 99s Get:82 http://ftpmaster.internal/ubuntu plucky/main armhf libunistring5 armhf 1.3-1 [583 kB] 99s Get:83 http://ftpmaster.internal/ubuntu plucky/main armhf iputils-ping armhf 3:20240905-1ubuntu1 [45.0 kB] 99s Get:84 http://ftpmaster.internal/ubuntu plucky/main armhf libbpf1 armhf 1:1.5.0-2 [158 kB] 99s Get:85 http://ftpmaster.internal/ubuntu plucky/main armhf libfribidi0 armhf 1.0.16-1 [24.3 kB] 99s Get:86 http://ftpmaster.internal/ubuntu plucky/main armhf python3-newt armhf 0.52.24-4ubuntu1 [20.1 kB] 99s Get:87 http://ftpmaster.internal/ubuntu plucky/main armhf libnewt0.52 armhf 0.52.24-4ubuntu1 [39.7 kB] 99s Get:88 http://ftpmaster.internal/ubuntu plucky/main armhf libxml2 armhf 2.12.7+dfsg+really2.9.14-0.2build1 [599 kB] 99s Get:89 http://ftpmaster.internal/ubuntu plucky/main armhf libyaml-0-2 armhf 0.2.5-2 [45.3 kB] 99s Get:90 http://ftpmaster.internal/ubuntu plucky/main armhf locales all 2.40-4ubuntu1 [4224 kB] 99s Get:91 http://ftpmaster.internal/ubuntu plucky/main armhf openssl armhf 3.4.0-1ubuntu2 [1159 kB] 99s Get:92 http://ftpmaster.internal/ubuntu plucky/main armhf python3-rich all 13.9.4-1 [190 kB] 99s Get:93 http://ftpmaster.internal/ubuntu plucky/main armhf ucf all 3.0046 [41.9 kB] 99s Get:94 http://ftpmaster.internal/ubuntu plucky/main armhf whiptail armhf 0.52.24-4ubuntu1 [17.3 kB] 99s Get:95 http://ftpmaster.internal/ubuntu plucky/main armhf bash-completion all 1:2.16.0-1 [214 kB] 99s Get:96 http://ftpmaster.internal/ubuntu plucky/main armhf ethtool armhf 1:6.11-1 [222 kB] 99s Get:97 http://ftpmaster.internal/ubuntu plucky/main armhf gettext-base armhf 0.22.5-3 [40.7 kB] 99s Get:98 http://ftpmaster.internal/ubuntu plucky/main armhf groff-base armhf 1.23.0-7 [949 kB] 99s Get:99 http://ftpmaster.internal/ubuntu plucky/main armhf iputils-tracepath armhf 3:20240905-1ubuntu1 [13.3 kB] 99s Get:100 http://ftpmaster.internal/ubuntu plucky/main armhf libpng16-16t64 armhf 1.6.44-3 [169 kB] 99s Get:101 http://ftpmaster.internal/ubuntu plucky/main armhf libtraceevent1-plugin armhf 1:1.8.4-2 [19.0 kB] 99s Get:102 http://ftpmaster.internal/ubuntu plucky/main armhf libtraceevent1 armhf 1:1.8.4-2 [53.8 kB] 100s Get:103 http://ftpmaster.internal/ubuntu plucky/main armhf libxkbcommon0 armhf 1.7.0-2 [113 kB] 100s Get:104 http://ftpmaster.internal/ubuntu plucky/main armhf pci.ids all 0.0~2024.11.25-1 [282 kB] 100s Get:105 http://ftpmaster.internal/ubuntu plucky/main armhf publicsuffix all 20241206.1516-0.1 [135 kB] 100s Get:106 http://ftpmaster.internal/ubuntu plucky/main armhf python3.13-gdbm armhf 3.13.1-2 [29.8 kB] 100s Get:107 http://ftpmaster.internal/ubuntu plucky/main armhf python3.12-gdbm armhf 3.12.8-3 [28.9 kB] 100s Get:108 http://ftpmaster.internal/ubuntu plucky/main armhf python3-gdbm armhf 3.13.1-1 [8668 B] 100s Get:109 http://ftpmaster.internal/ubuntu plucky/main armhf usb.ids all 2024.12.04-1 [223 kB] 100s Get:110 http://ftpmaster.internal/ubuntu plucky/main armhf xauth armhf 1:1.1.2-1.1 [23.0 kB] 100s Get:111 http://ftpmaster.internal/ubuntu plucky/main armhf libcurl3t64-gnutls armhf 8.11.1-1ubuntu1 [333 kB] 100s Get:112 http://ftpmaster.internal/ubuntu plucky/main armhf libappstream5 armhf 1.0.4-1 [211 kB] 100s Get:113 http://ftpmaster.internal/ubuntu plucky/main armhf appstream armhf 1.0.4-1 [67.3 kB] 100s Get:114 http://ftpmaster.internal/ubuntu plucky/main armhf libctf0 armhf 2.43.50.20241221-1ubuntu1 [74.8 kB] 100s Get:115 http://ftpmaster.internal/ubuntu plucky/main armhf libctf-nobfd0 armhf 2.43.50.20241221-1ubuntu1 [77.7 kB] 100s Get:116 http://ftpmaster.internal/ubuntu plucky/main armhf binutils-arm-linux-gnueabihf armhf 2.43.50.20241221-1ubuntu1 [2986 kB] 100s Get:117 http://ftpmaster.internal/ubuntu plucky/main armhf libbinutils armhf 2.43.50.20241221-1ubuntu1 [408 kB] 100s Get:118 http://ftpmaster.internal/ubuntu plucky/main armhf binutils armhf 2.43.50.20241221-1ubuntu1 [3090 B] 100s Get:119 http://ftpmaster.internal/ubuntu plucky/main armhf binutils-common armhf 2.43.50.20241221-1ubuntu1 [222 kB] 100s Get:120 http://ftpmaster.internal/ubuntu plucky/main armhf libsframe1 armhf 2.43.50.20241221-1ubuntu1 [12.1 kB] 100s Get:121 http://ftpmaster.internal/ubuntu plucky/main armhf curl armhf 8.11.1-1ubuntu1 [244 kB] 100s Get:122 http://ftpmaster.internal/ubuntu plucky/main armhf libcurl4t64 armhf 8.11.1-1ubuntu1 [337 kB] 100s Get:123 http://ftpmaster.internal/ubuntu plucky/main armhf dracut-install armhf 105-2ubuntu5 [37.3 kB] 100s Get:124 http://ftpmaster.internal/ubuntu plucky/main armhf libjson-glib-1.0-common all 1.10.6+ds-1 [5636 B] 100s Get:125 http://ftpmaster.internal/ubuntu plucky/main armhf libjson-glib-1.0-0 armhf 1.10.6+ds-1 [59.5 kB] 100s Get:126 http://ftpmaster.internal/ubuntu plucky/main armhf fwupd armhf 2.0.3-3 [5028 kB] 100s Get:127 http://ftpmaster.internal/ubuntu plucky/main armhf libfwupd3 armhf 2.0.3-3 [121 kB] 100s Get:128 http://ftpmaster.internal/ubuntu plucky/main armhf libqmi-proxy armhf 1.35.6-1 [5878 B] 100s Get:129 http://ftpmaster.internal/ubuntu plucky/main armhf libqmi-glib5 armhf 1.35.6-1 [928 kB] 100s Get:130 http://ftpmaster.internal/ubuntu plucky/main armhf gnupg-l10n all 2.4.4-2ubuntu21 [66.3 kB] 100s Get:131 http://ftpmaster.internal/ubuntu plucky/main armhf libftdi1-2 armhf 1.5-8 [26.3 kB] 100s Get:132 http://ftpmaster.internal/ubuntu plucky/main armhf libgstreamer1.0-0 armhf 1.24.10-2 [1109 kB] 100s Get:133 http://ftpmaster.internal/ubuntu plucky/main armhf libnss3 armhf 2:3.106-1ubuntu1 [1321 kB] 100s Get:134 http://ftpmaster.internal/ubuntu plucky/main armhf libwrap0 armhf 7.6.q-34 [45.7 kB] 100s Get:135 http://ftpmaster.internal/ubuntu plucky/main armhf make armhf 4.4.1-1 [180 kB] 100s Get:136 http://ftpmaster.internal/ubuntu plucky/main armhf python3-attr all 24.2.0-1 [50.2 kB] 100s Get:137 http://ftpmaster.internal/ubuntu plucky/main armhf python3-jinja2 all 3.1.3-1.1 [108 kB] 100s Get:138 http://ftpmaster.internal/ubuntu plucky/main armhf python3-json-pointer all 2.4-3 [8444 B] 100s Get:139 http://ftpmaster.internal/ubuntu plucky/main armhf python3-jsonpatch all 1.32-5 [12.3 kB] 100s Get:140 http://ftpmaster.internal/ubuntu plucky/main armhf python3-openssl all 24.3.0-1 [45.8 kB] 100s Get:141 http://ftpmaster.internal/ubuntu plucky/main armhf python3-pkg-resources all 75.6.0-1 [144 kB] 100s Get:142 http://ftpmaster.internal/ubuntu plucky/main armhf python3-setuptools all 75.6.0-1 [645 kB] 100s Get:143 http://ftpmaster.internal/ubuntu plucky/main armhf software-properties-common all 0.108 [16.5 kB] 100s Get:144 http://ftpmaster.internal/ubuntu plucky/main armhf python3-software-properties all 0.108 [30.9 kB] 100s Get:145 http://ftpmaster.internal/ubuntu plucky/main armhf python3-wadllib all 2.0.0-2 [36.2 kB] 102s Preconfiguring packages ... 102s Fetched 64.0 MB in 4s (17.7 MB/s) 102s (Reading database ... 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Use glob.glob and pass a directory to its root_dir argument instead. 128s for fn in glob1(directory, "%s.*" % fname): 128s Unpacking python3-attr (24.2.0-1) over (23.2.0-2) ... 128s Preparing to unpack .../54-python3-jinja2_3.1.3-1.1_all.deb ... 128s /usr/bin/py3clean:101: DeprecationWarning: glob.glob1 is deprecated and will be removed in Python 3.15. Use glob.glob and pass a directory to its root_dir argument instead. 128s for fn in glob1(directory, "%s.*" % fname): 128s Unpacking python3-jinja2 (3.1.3-1.1) over (3.1.3-1ubuntu1) ... 128s Preparing to unpack .../55-python3-json-pointer_2.4-3_all.deb ... 128s /usr/bin/py3clean:101: DeprecationWarning: glob.glob1 is deprecated and will be removed in Python 3.15. Use glob.glob and pass a directory to its root_dir argument instead. 128s for fn in glob1(directory, "%s.*" % fname): 128s Unpacking python3-json-pointer (2.4-3) over (2.4-2) ... 128s Preparing to unpack .../56-python3-jsonpatch_1.32-5_all.deb ... 128s /usr/bin/py3clean:101: DeprecationWarning: glob.glob1 is deprecated and will be removed in Python 3.15. Use glob.glob and pass a directory to its root_dir argument instead. 128s for fn in glob1(directory, "%s.*" % fname): 128s Unpacking python3-jsonpatch (1.32-5) over (1.32-4) ... 128s Preparing to unpack .../57-python3-openssl_24.3.0-1_all.deb ... 129s /usr/bin/py3clean:101: DeprecationWarning: glob.glob1 is deprecated and will be removed in Python 3.15. Use glob.glob and pass a directory to its root_dir argument instead. 129s for fn in glob1(directory, "%s.*" % fname): 129s Unpacking python3-openssl (24.3.0-1) over (24.2.1-1) ... 129s Preparing to unpack .../58-python3-pkg-resources_75.6.0-1_all.deb ... 129s /usr/bin/py3clean:101: DeprecationWarning: glob.glob1 is deprecated and will be removed in Python 3.15. Use glob.glob and pass a directory to its root_dir argument instead. 129s for fn in glob1(directory, "%s.*" % fname): 129s Unpacking python3-pkg-resources (75.6.0-1) over (75.2.0-1) ... 129s Preparing to unpack .../59-python3-setuptools_75.6.0-1_all.deb ... 129s /usr/bin/py3clean:101: DeprecationWarning: glob.glob1 is deprecated and will be removed in Python 3.15. Use glob.glob and pass a directory to its root_dir argument instead. 129s for fn in glob1(directory, "%s.*" % fname): 129s Unpacking python3-setuptools (75.6.0-1) over (75.2.0-1) ... 129s Preparing to unpack .../60-software-properties-common_0.108_all.deb ... 129s /usr/bin/py3clean:101: DeprecationWarning: glob.glob1 is deprecated and will be removed in Python 3.15. Use glob.glob and pass a directory to its root_dir argument instead. 129s for fn in glob1(directory, "%s.*" % fname): 129s Unpacking software-properties-common (0.108) over (0.105) ... 129s Preparing to unpack .../61-python3-software-properties_0.108_all.deb ... 130s /usr/bin/py3clean:101: DeprecationWarning: glob.glob1 is deprecated and will be removed in Python 3.15. Use glob.glob and pass a directory to its root_dir argument instead. 130s for fn in glob1(directory, "%s.*" % fname): 130s Unpacking python3-software-properties (0.108) over (0.105) ... 130s Preparing to unpack .../62-python3-wadllib_2.0.0-2_all.deb ... 130s /usr/bin/py3clean:101: DeprecationWarning: glob.glob1 is deprecated and will be removed in Python 3.15. Use glob.glob and pass a directory to its root_dir argument instead. 130s for fn in glob1(directory, "%s.*" % fname): 130s Unpacking python3-wadllib (2.0.0-2) over (2.0.0-1) ... 130s Setting up systemd-sysv (257-2ubuntu1) ... 130s Setting up pci.ids (0.0~2024.11.25-1) ... 130s Setting up libnewt0.52:armhf (0.52.24-4ubuntu1) ... 130s Setting up apt-utils (2.9.18) ... 130s Setting up bsdextrautils (2.40.2-1ubuntu2) ... 130s Setting up libcurl4t64:armhf (8.11.1-1ubuntu1) ... 130s Setting up libyaml-0-2:armhf (0.2.5-2) ... 130s Setting up python3.12-gdbm (3.12.8-3) ... 130s Setting up libpython3.12-minimal:armhf (3.12.8-3) ... 130s Setting up binutils-common:armhf (2.43.50.20241221-1ubuntu1) ... 130s Setting up libcurl3t64-gnutls:armhf (8.11.1-1ubuntu1) ... 130s Setting up libctf-nobfd0:armhf (2.43.50.20241221-1ubuntu1) ... 130s Setting up gettext-base (0.22.5-3) ... 130s Setting up libnss-systemd:armhf (257-2ubuntu1) ... 130s Setting up libnss3:armhf (2:3.106-1ubuntu1) ... 130s Setting up locales (2.40-4ubuntu1) ... 132s Generating locales (this might take a while)... 135s en_US.UTF-8... done 135s Generation complete. 135s Setting up libsframe1:armhf (2.43.50.20241221-1ubuntu1) ... 135s Setting up tzdata (2024b-4ubuntu1) ... 136s 136s Current default time zone: 'Etc/UTC' 136s Local time is now: Fri Jan 3 14:16:53 UTC 2025. 136s Universal Time is now: Fri Jan 3 14:16:53 UTC 2025. 136s Run 'dpkg-reconfigure tzdata' if you wish to change it. 136s 136s Setting up eject (2.40.2-1ubuntu2) ... 136s Setting up libftdi1-2:armhf (1.5-8) ... 136s Setting up libglib2.0-data (2.82.4-1) ... 136s Setting up systemd-cryptsetup (257-2ubuntu1) ... 136s Setting up libwrap0:armhf (7.6.q-34) ... 136s Setting up make (4.4.1-1) ... 136s Setting up gnupg-l10n (2.4.4-2ubuntu21) ... 136s Setting up bash-completion (1:2.16.0-1) ... 136s Setting up libfribidi0:armhf (1.0.16-1) ... 136s Setting up libpng16-16t64:armhf (1.6.44-3) ... 136s Setting up systemd-timesyncd (257-2ubuntu1) ... 137s systemd-time-wait-sync.service is a disabled or a static unit not running, not starting it. 137s Setting up libatomic1:armhf (14.2.0-12ubuntu1) ... 137s Setting up udev (257-2ubuntu1) ... 138s Setting up usb.ids (2024.12.04-1) ... 138s Setting up ucf (3.0046) ... 138s Installing new version of config file /etc/ucf.conf ... 138s Setting up libfdisk1:armhf (2.40.2-1ubuntu2) ... 138s Setting up whiptail (0.52.24-4ubuntu1) ... 138s Setting up python-apt-common (2.9.6build1) ... 138s Setting up dracut-install (105-2ubuntu5) ... 138s Setting up uuid-runtime (2.40.2-1ubuntu2) ... 139s uuidd.service is a disabled or a static unit not running, not starting it. 139s Setting up xauth (1:1.1.2-1.1) ... 139s Setting up groff-base (1.23.0-7) ... 139s Setting up libtraceevent1:armhf (1:1.8.4-2) ... 139s Setting up libpam-systemd:armhf (257-2ubuntu1) ... 139s Setting up libjson-glib-1.0-common (1.10.6+ds-1) ... 139s Setting up curl (8.11.1-1ubuntu1) ... 139s Setting up libbinutils:armhf (2.43.50.20241221-1ubuntu1) ... 139s Setting up openssl (3.4.0-1ubuntu2) ... 139s Installing new version of config file /etc/ssl/openssl.cnf ... 139s Setting up libgpg-error-l10n (1.51-3) ... 139s Setting up iputils-ping (3:20240905-1ubuntu1) ... 139s Setting up readline-common (8.2-6) ... 139s Setting up publicsuffix (20241206.1516-0.1) ... 139s Setting up libxml2:armhf (2.12.7+dfsg+really2.9.14-0.2build1) ... 139s Setting up libbpf1:armhf (1:1.5.0-2) ... 139s Setting up iputils-tracepath (3:20240905-1ubuntu1) ... 139s Setting up rsync (3.3.0+ds1-2) ... 141s rsync.service is a disabled or a static unit not running, not starting it. 141s Setting up python3.13-gdbm (3.13.1-2) ... 141s Setting up ethtool (1:6.11-1) ... 141s Setting up gnupg-utils (2.4.4-2ubuntu21) ... 141s Setting up systemd-resolved (257-2ubuntu1) ... 141s Setting up libxkbcommon0:armhf (1.7.0-2) ... 141s Setting up libctf0:armhf (2.43.50.20241221-1ubuntu1) ... 141s Setting up python3.12-minimal (3.12.8-3) ... 143s Setting up libglib2.0-0t64:armhf (2.82.4-1) ... 143s No schema files found: doing nothing. 143s Setting up gir1.2-glib-2.0:armhf (2.82.4-1) ... 143s Setting up libreadline8t64:armhf (8.2-6) ... 143s Setting up libtraceevent1-plugin:armhf (1:1.8.4-2) ... 143s Setting up gpgconf (2.4.4-2ubuntu21) ... 143s Setting up libgirepository-1.0-1:armhf (1.82.0-3) ... 143s Setting up binutils-arm-linux-gnueabihf (2.43.50.20241221-1ubuntu1) ... 143s Setting up libpython3.13-stdlib:armhf (3.13.1-2) ... 143s Setting up gpg (2.4.4-2ubuntu21) ... 143s Setting up libgstreamer1.0-0:armhf (1.24.10-2) ... 143s Setcap worked! gst-ptp-helper is not suid! 143s Setting up libpython3-stdlib:armhf (3.13.1-1~exp2) ... 143s Setting up gpg-agent (2.4.4-2ubuntu21) ... 144s Setting up libpython3.12-stdlib:armhf (3.12.8-3) ... 144s Setting up python3.13 (3.13.1-2) ... 145s Setting up python3.12 (3.12.8-3) ... 147s Setting up gpgsm (2.4.4-2ubuntu21) ... 147s Setting up libglib2.0-bin (2.82.4-1) ... 147s Setting up libappstream5:armhf (1.0.4-1) ... 147s Setting up libqmi-glib5:armhf (1.35.6-1) ... 147s Setting up python3 (3.13.1-1~exp2) ... 147s /usr/bin/py3clean:101: DeprecationWarning: glob.glob1 is deprecated and will be removed in Python 3.15. Use glob.glob and pass a directory to its root_dir argument instead. 147s for fn in glob1(directory, "%s.*" % fname): 147s Setting up binutils (2.43.50.20241221-1ubuntu1) ... 147s Setting up python3-newt:armhf (0.52.24-4ubuntu1) ... 148s Setting up fdisk (2.40.2-1ubuntu2) ... 148s Setting up libjson-glib-1.0-0:armhf (1.10.6+ds-1) ... 148s Setting up dirmngr (2.4.4-2ubuntu21) ... 148s Setting up python3-jinja2 (3.1.3-1.1) ... 148s Setting up appstream (1.0.4-1) ... 149s ✔ Metadata cache was updated successfully. 149s Setting up gir1.2-girepository-2.0:armhf (1.82.0-3) ... 149s Setting up python3-wadllib (2.0.0-2) ... 149s Setting up keyboxd (2.4.4-2ubuntu21) ... 149s Setting up python3-json-pointer (2.4-3) ... 149s Setting up gnupg (2.4.4-2ubuntu21) ... 149s Setting up python3-pkg-resources (75.6.0-1) ... 150s Setting up python3-attr (24.2.0-1) ... 151s Setting up python3-setuptools (75.6.0-1) ... 153s Setting up gpg-wks-client (2.4.4-2ubuntu21) ... 153s Setting up python3-rich (13.9.4-1) ... 154s Setting up python3-gdbm:armhf (3.13.1-1) ... 154s Setting up python3-problem-report (2.31.0-0ubuntu2) ... 154s Setting up python3-apt (2.9.6build1) ... 155s Setting up python3-jsonpatch (1.32-5) ... 155s Setting up python3-bcrypt (4.2.0-2.1) ... 155s Setting up libqmi-proxy (1.35.6-1) ... 155s Setting up libfwupd3:armhf (2.0.3-3) ... 155s Setting up python3-apport (2.31.0-0ubuntu2) ... 156s Setting up python3-software-properties (0.108) ... 156s Setting up python3-cryptography (43.0.0-1) ... 157s Setting up fwupd (2.0.3-3) ... 158s fwupd-refresh.service is a disabled or a static unit not running, not starting it. 158s fwupd.service is a disabled or a static unit not running, not starting it. 158s Setting up python3-openssl (24.3.0-1) ... 159s Setting up software-properties-common (0.108) ... 159s Setting up apport-core-dump-handler (2.31.0-0ubuntu2) ... 160s Setting up apport (2.31.0-0ubuntu2) ... 161s apport-autoreport.service is a disabled or a static unit not running, not starting it. 161s Processing triggers for dbus (1.14.10-4ubuntu5) ... 161s Processing triggers for shared-mime-info (2.4-5) ... 161s Warning: program compiled against libxml 212 using older 209 162s Processing triggers for debianutils (5.21) ... 162s Processing triggers for install-info (7.1.1-1) ... 162s Processing triggers for initramfs-tools (0.142ubuntu35) ... 162s Processing triggers for libc-bin (2.40-4ubuntu1) ... 162s Processing triggers for systemd (257-2ubuntu1) ... 162s Processing triggers for man-db (2.13.0-1) ... 169s Reading package lists... 169s Building dependency tree... 169s Reading state information... 170s Starting pkgProblemResolver with broken count: 0 170s Starting 2 pkgProblemResolver with broken count: 0 170s Done 172s The following packages will be REMOVED: 172s libassuan0* libnsl2* libpython3.12-minimal* libpython3.12-stdlib* 172s python3.12* python3.12-minimal* 172s 0 upgraded, 0 newly installed, 6 to remove and 0 not upgraded. 172s After this operation, 20.0 MB disk space will be freed. 172s (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 ... 60740 files and directories currently installed.) 172s Removing libassuan0:armhf (2.5.6-1build1) ... 172s Removing python3.12 (3.12.8-3) ... 172s Removing libpython3.12-stdlib:armhf (3.12.8-3) ... 173s Removing libnsl2:armhf (1.3.0-3build3) ... 173s Removing python3.12-minimal (3.12.8-3) ... 173s /usr/bin/py3clean:125: DeprecationWarning: glob.glob1 is deprecated and will be removed in Python 3.15. Use glob.glob and pass a directory to its root_dir argument instead. 173s for fn in glob1(directory, "%s.%s.py[co]" % (fname, magic_tag)): 174s Removing libpython3.12-minimal:armhf (3.12.8-3) ... 174s Processing triggers for systemd (257-2ubuntu1) ... 174s Processing triggers for man-db (2.13.0-1) ... 174s Processing triggers for libc-bin (2.40-4ubuntu1) ... 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 ... 60020 files and directories currently installed.) 175s Purging configuration files for python3.12-minimal (3.12.8-3) ... 175s Purging configuration files for libpython3.12-minimal:armhf (3.12.8-3) ... 178s autopkgtest [14:17:35]: rebooting testbed after setup commands that affected boot 228s autopkgtest [14:18:25]: testbed running kernel: Linux 6.8.0-49-generic #49~22.04.1-Ubuntu SMP PREEMPT_DYNAMIC Wed Nov 6 18:12:14 UTC 2 258s autopkgtest [14:18:55]: @@@@@@@@@@@@@@@@@@@@ apt-source pycoqc 271s Get:1 http://ftpmaster.internal/ubuntu plucky/universe pycoqc 2.5.2+dfsg-3 (dsc) [2051 B] 271s Get:2 http://ftpmaster.internal/ubuntu plucky/universe pycoqc 2.5.2+dfsg-3 (tar) [41.6 MB] 271s Get:3 http://ftpmaster.internal/ubuntu plucky/universe pycoqc 2.5.2+dfsg-3 (diff) [6764 B] 271s gpgv: Signature made Tue Dec 7 15:51:27 2021 UTC 271s gpgv: using RSA key F1F007320A035541F0A663CA578A0494D1C646D1 271s gpgv: issuer "tille@debian.org" 271s gpgv: Can't check signature: No public key 271s dpkg-source: warning: cannot verify inline signature for ./pycoqc_2.5.2+dfsg-3.dsc: no acceptable signature found 273s autopkgtest [14:19:10]: testing package pycoqc version 2.5.2+dfsg-3 276s autopkgtest [14:19:13]: build not needed 282s autopkgtest [14:19:19]: test run-unit-test: preparing testbed 284s Reading package lists... 284s Building dependency tree... 284s Reading state information... 285s Starting pkgProblemResolver with broken count: 0 285s Starting 2 pkgProblemResolver with broken count: 0 285s Done 286s The following NEW packages will be installed: 286s libaec0 libblas3 libdeflate0 libgfortran5 libhdf5-103-1t64 libhdf5-hl-100t64 286s libhts3t64 libhtscodecs2 liblapack3 liblbfgsb0 liblzf1 libsz2 pycoqc 286s python3-dateutil python3-decorator python3-fastjsonschema python3-h5py 286s python3-h5py-serial python3-jupyter-core python3-nbformat python3-numpy 286s python3-pandas python3-pandas-lib python3-platformdirs python3-plotly 286s python3-pysam python3-scipy python3-tenacity python3-tqdm python3-traitlets 286s python3-tz 286s 0 upgraded, 31 newly installed, 0 to remove and 0 not upgraded. 286s Need to get 47.7 MB of archives. 286s After this operation, 271 MB of additional disk space will be used. 286s Get:1 http://ftpmaster.internal/ubuntu plucky/universe armhf libaec0 armhf 1.1.3-1 [20.8 kB] 286s Get:2 http://ftpmaster.internal/ubuntu plucky/main armhf libblas3 armhf 3.12.0-4 [126 kB] 286s Get:3 http://ftpmaster.internal/ubuntu plucky/main armhf libdeflate0 armhf 1.22-1 [38.9 kB] 286s Get:4 http://ftpmaster.internal/ubuntu plucky/main armhf libgfortran5 armhf 14.2.0-12ubuntu1 [311 kB] 287s Get:5 http://ftpmaster.internal/ubuntu plucky/universe armhf libsz2 armhf 1.1.3-1 [5302 B] 287s Get:6 http://ftpmaster.internal/ubuntu plucky/universe armhf libhdf5-103-1t64 armhf 1.10.10+repack-5ubuntu1 [1266 kB] 287s Get:7 http://ftpmaster.internal/ubuntu plucky/universe armhf libhdf5-hl-100t64 armhf 1.10.10+repack-5ubuntu1 [56.2 kB] 287s Get:8 http://ftpmaster.internal/ubuntu plucky/universe armhf libhtscodecs2 armhf 1.6.1-1 [67.9 kB] 287s Get:9 http://ftpmaster.internal/ubuntu plucky/universe armhf libhts3t64 armhf 1.20+ds-2 [394 kB] 287s Get:10 http://ftpmaster.internal/ubuntu plucky/main armhf liblapack3 armhf 3.12.0-4 [2086 kB] 287s Get:11 http://ftpmaster.internal/ubuntu plucky/universe armhf liblbfgsb0 armhf 3.0+dfsg.4-1build1 [27.4 kB] 287s Get:12 http://ftpmaster.internal/ubuntu plucky/universe armhf liblzf1 armhf 3.6-4 [6554 B] 287s Get:13 http://ftpmaster.internal/ubuntu plucky/main armhf python3-numpy armhf 1:1.26.4+ds-12 [4001 kB] 287s Get:14 http://ftpmaster.internal/ubuntu plucky/universe armhf python3-h5py-serial armhf 3.11.0-8ubuntu3 [1559 kB] 287s Get:15 http://ftpmaster.internal/ubuntu plucky/main armhf python3-dateutil all 2.9.0-3 [80.2 kB] 287s Get:16 http://ftpmaster.internal/ubuntu plucky/main armhf python3-tz all 2024.2-1 [31.5 kB] 287s Get:17 http://ftpmaster.internal/ubuntu plucky/universe armhf python3-pandas-lib armhf 2.2.3+dfsg-5ubuntu1 [7608 kB] 287s Get:18 http://ftpmaster.internal/ubuntu plucky/universe armhf python3-pandas all 2.2.3+dfsg-5ubuntu1 [3112 kB] 287s Get:19 http://ftpmaster.internal/ubuntu plucky/main armhf python3-decorator all 5.1.1-5 [10.1 kB] 287s Get:20 http://ftpmaster.internal/ubuntu plucky/universe armhf python3-fastjsonschema all 2.21.1-1 [20.4 kB] 287s Get:21 http://ftpmaster.internal/ubuntu plucky/main armhf python3-platformdirs all 4.3.6-1 [16.8 kB] 287s Get:22 http://ftpmaster.internal/ubuntu plucky/universe armhf python3-traitlets all 5.14.3+really5.14.3-1 [71.5 kB] 287s Get:23 http://ftpmaster.internal/ubuntu plucky/universe armhf python3-jupyter-core all 5.7.2-5 [28.1 kB] 287s Get:24 http://ftpmaster.internal/ubuntu plucky/universe armhf python3-nbformat all 5.9.1-1 [41.2 kB] 287s Get:25 http://ftpmaster.internal/ubuntu plucky/main armhf python3-tenacity all 8.5.0-0ubuntu1 [17.0 kB] 287s Get:26 http://ftpmaster.internal/ubuntu plucky/universe armhf python3-plotly all 5.20.0+dfsg-1 [2766 kB] 287s Get:27 http://ftpmaster.internal/ubuntu plucky/universe armhf python3-pysam armhf 0.22.1+ds-2build1 [3965 kB] 288s Get:28 http://ftpmaster.internal/ubuntu plucky/universe armhf python3-scipy armhf 1.14.1-3ubuntu1 [19.8 MB] 288s Get:29 http://ftpmaster.internal/ubuntu plucky/universe armhf python3-tqdm all 4.67.1-1 [92.5 kB] 288s Get:30 http://ftpmaster.internal/ubuntu plucky/universe armhf python3-h5py all 3.11.0-8ubuntu3 [7982 B] 288s Get:31 http://ftpmaster.internal/ubuntu plucky/universe armhf pycoqc all 2.5.2+dfsg-3 [36.4 kB] 289s Fetched 47.7 MB in 2s (19.4 MB/s) 289s Selecting previously unselected package libaec0:armhf. 289s (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 ... 60018 files and directories currently installed.) 289s Preparing to unpack .../00-libaec0_1.1.3-1_armhf.deb ... 289s Unpacking libaec0:armhf (1.1.3-1) ... 289s Selecting previously unselected package libblas3:armhf. 289s Preparing to unpack .../01-libblas3_3.12.0-4_armhf.deb ... 289s Unpacking libblas3:armhf (3.12.0-4) ... 289s Selecting previously unselected package libdeflate0:armhf. 289s Preparing to unpack .../02-libdeflate0_1.22-1_armhf.deb ... 289s Unpacking libdeflate0:armhf (1.22-1) ... 289s Selecting previously unselected package libgfortran5:armhf. 289s Preparing to unpack .../03-libgfortran5_14.2.0-12ubuntu1_armhf.deb ... 289s Unpacking libgfortran5:armhf (14.2.0-12ubuntu1) ... 289s Selecting previously unselected package libsz2:armhf. 289s Preparing to unpack .../04-libsz2_1.1.3-1_armhf.deb ... 289s Unpacking libsz2:armhf (1.1.3-1) ... 289s Selecting previously unselected package libhdf5-103-1t64:armhf. 289s Preparing to unpack .../05-libhdf5-103-1t64_1.10.10+repack-5ubuntu1_armhf.deb ... 289s Unpacking libhdf5-103-1t64:armhf (1.10.10+repack-5ubuntu1) ... 289s Selecting previously unselected package libhdf5-hl-100t64:armhf. 289s Preparing to unpack .../06-libhdf5-hl-100t64_1.10.10+repack-5ubuntu1_armhf.deb ... 289s Unpacking libhdf5-hl-100t64:armhf (1.10.10+repack-5ubuntu1) ... 289s Selecting previously unselected package libhtscodecs2:armhf. 289s Preparing to unpack .../07-libhtscodecs2_1.6.1-1_armhf.deb ... 289s Unpacking libhtscodecs2:armhf (1.6.1-1) ... 289s Selecting previously unselected package libhts3t64:armhf. 290s Preparing to unpack .../08-libhts3t64_1.20+ds-2_armhf.deb ... 290s Unpacking libhts3t64:armhf (1.20+ds-2) ... 290s Selecting previously unselected package liblapack3:armhf. 290s Preparing to unpack .../09-liblapack3_3.12.0-4_armhf.deb ... 290s Unpacking liblapack3:armhf (3.12.0-4) ... 290s Selecting previously unselected package liblbfgsb0:armhf. 290s Preparing to unpack .../10-liblbfgsb0_3.0+dfsg.4-1build1_armhf.deb ... 290s Unpacking liblbfgsb0:armhf (3.0+dfsg.4-1build1) ... 290s Selecting previously unselected package liblzf1:armhf. 290s Preparing to unpack .../11-liblzf1_3.6-4_armhf.deb ... 290s Unpacking liblzf1:armhf (3.6-4) ... 290s Selecting previously unselected package python3-numpy. 290s Preparing to unpack .../12-python3-numpy_1%3a1.26.4+ds-12_armhf.deb ... 290s Unpacking python3-numpy (1:1.26.4+ds-12) ... 290s Selecting previously unselected package python3-h5py-serial. 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(4.67.1-1) ... 294s Selecting previously unselected package python3-h5py. 294s Preparing to unpack .../29-python3-h5py_3.11.0-8ubuntu3_all.deb ... 294s Unpacking python3-h5py (3.11.0-8ubuntu3) ... 294s Selecting previously unselected package pycoqc. 294s Preparing to unpack .../30-pycoqc_2.5.2+dfsg-3_all.deb ... 294s Unpacking pycoqc (2.5.2+dfsg-3) ... 294s Setting up libhtscodecs2:armhf (1.6.1-1) ... 294s Setting up python3-tenacity (8.5.0-0ubuntu1) ... 294s Setting up python3-tqdm (4.67.1-1) ... 295s Setting up libdeflate0:armhf (1.22-1) ... 295s Setting up libaec0:armhf (1.1.3-1) ... 295s Setting up python3-platformdirs (4.3.6-1) ... 295s Setting up python3-tz (2024.2-1) ... 295s Setting up python3-decorator (5.1.1-5) ... 295s Setting up libblas3:armhf (3.12.0-4) ... 295s update-alternatives: using /usr/lib/arm-linux-gnueabihf/blas/libblas.so.3 to provide /usr/lib/arm-linux-gnueabihf/libblas.so.3 (libblas.so.3-arm-linux-gnueabihf) in auto mode 295s Setting up liblzf1:armhf (3.6-4) ... 295s Setting up libgfortran5:armhf (14.2.0-12ubuntu1) ... 295s Setting up python3-fastjsonschema (2.21.1-1) ... 295s Setting up python3-traitlets (5.14.3+really5.14.3-1) ... 295s Setting up libhts3t64:armhf (1.20+ds-2) ... 295s Setting up python3-dateutil (2.9.0-3) ... 296s Setting up python3-jupyter-core (5.7.2-5) ... 296s Setting up libsz2:armhf (1.1.3-1) ... 296s Setting up liblapack3:armhf (3.12.0-4) ... 296s update-alternatives: using /usr/lib/arm-linux-gnueabihf/lapack/liblapack.so.3 to provide /usr/lib/arm-linux-gnueabihf/liblapack.so.3 (liblapack.so.3-arm-linux-gnueabihf) in auto mode 296s Setting up python3-pysam (0.22.1+ds-2build1) ... 296s Setting up python3-nbformat (5.9.1-1) ... 296s Setting up python3-plotly (5.20.0+dfsg-1) ... 304s Setting up python3-numpy (1:1.26.4+ds-12) ... 306s Setting up libhdf5-103-1t64:armhf (1.10.10+repack-5ubuntu1) ... 306s Setting up liblbfgsb0:armhf (3.0+dfsg.4-1build1) ... 306s Setting up libhdf5-hl-100t64:armhf (1.10.10+repack-5ubuntu1) ... 306s Setting up python3-scipy (1.14.1-3ubuntu1) ... 310s Setting up python3-pandas-lib:armhf (2.2.3+dfsg-5ubuntu1) ... 310s Setting up python3-h5py-serial (3.11.0-8ubuntu3) ... 310s Setting up python3-pandas (2.2.3+dfsg-5ubuntu1) ... 316s Setting up python3-h5py (3.11.0-8ubuntu3) ... 316s Setting up pycoqc (2.5.2+dfsg-3) ... 316s Processing triggers for libc-bin (2.40-4ubuntu1) ... 316s Processing triggers for man-db (2.13.0-1) ... 326s autopkgtest [14:20:03]: test run-unit-test: [----------------------- 330s Test 1 331s Checking arguments values 331s Check input data files 331s Parse data files 331s Merge data 331s Cleaning data 331s Loading plotting interface 331s PASS 331s 331s Test 2 332s Checking arguments values 332s Check input data files 332s Parse data files 332s Merge data 332s Cleaning data 332s Loading plotting interface 333s PASS 333s 333s Test 3 334s Checking arguments values 334s Check input data files 334s Parse data files 334s Merge data 334s Cleaning data 334s Loading plotting interface 335s PASS 335s 335s Test 4 336s Checking arguments values 336s Check input data files 336s Parse data files 336s Merge data 336s Cleaning data 336s Loading plotting interface 337s PASS 337s 337s Test 5 338s Checking arguments values 338s Check input data files 338s Parse data files 338s Merge data 338s Cleaning data 338s Loading plotting interface 339s PASS 339s 339s Test 6 340s PASS 340s 340s Test 7 341s Checking arguments values 341s Check input data files 341s Parse data files 341s Merge data 341s Cleaning data 341s Loading plotting interface 342s PASS 342s 342s Test 8 343s 0 reads [00:00, ? reads/s] 22 reads [00:00, 338.83 reads/s] 343s Total reads: 22 / Average speed: 272.05 reads/s 343s 343s read_id run_id channel start_time sequence_length_template mean_qscore_template calibration_strand_genome_template 343s 61e799eb-5571-4cc4-bbf6-b3929b197459 40ebe55356ada6c830fa793745ef4c498d896c73 103 26 844 8.56 filtered_out 343s 0ef36fa0-7c3f-47f5-8410-027f50724701 40ebe55356ada6c830fa793745ef4c498d896c73 108 26 915 9.407 filtered_out 343s 08642be5-5cf7-4c4c-8c45-e4d569b9a482 40ebe55356ada6c830fa793745ef4c498d896c73 121 28 450 7.805 filtered_out 343s c38cbad9-d91e-4208-9317-832f4e2cc289 40ebe55356ada6c830fa793745ef4c498d896c73 113 30 824 8.693 filtered_out 343s 5b7fadd0-c646-4c7b-9800-66ee658a5ca8 40ebe55356ada6c830fa793745ef4c498d896c73 150 37 468 7.608 filtered_out 343s 151757ea-53de-44b1-b86e-f823511af02a 40ebe55356ada6c830fa793745ef4c498d896c73 191 13 568 8.23 filtered_out 343s bcb20156-a5fe-4daa-aad9-b62c286e468d 40ebe55356ada6c830fa793745ef4c498d896c73 192 21 306 7.337 filtered_out 343s ed05c5e6-7aab-4970-a431-3411047764a6 40ebe55356ada6c830fa793745ef4c498d896c73 224 34 880 8.891 filtered_out 343s 3784283c-47cc-48ac-8d7b-7efd32123b56 40ebe55356ada6c830fa793745ef4c498d896c73 243 20 893 8.54 filtered_out 343s PASS 343s 343s Test 9 344s Check input data and options 344s Start processing fast5 files 344s 0 reads [00:00, ? reads/s] 22 reads [00:00, 831.79 reads/s] 344s Overall counts valid files: 22 344s 344s fields found mean_qscore_template: 22 344s called_events: 22 344s duration: 22 344s strand_score: 22 344s 344s fields not found 344s Total reads: 22 / Average speed: 509.0 reads/s 344s 344s mean_qscore_template called_events duration strand_score 344s 9.407 2848 42730 -0.0003 344s 8.56 5838 87570 -0.0003 344s 8.693 2383 35752 -0.0005 344s 7.608 1615 24233 -0.0007 344s 7.805 1438 21583 -0.0006 344s 8.23 2778 51387 -0.0007 344s 7.337 1972 29589 -0.0009 344s 8.891 2774 41612 -0.0006 344s 8.54 2023 30405 -0.0003 344s PASS 344s 344s Test 10 345s Check input data and options 345s Start processing fast5 files 345s 0 reads [00:00, ? reads/s] 22 reads [00:00, 512.09 reads/s] 345s Overall counts valid files: 22 345s 345s fields found read_id: 22 345s run_id: 22 345s channel: 22 345s start_time: 22 345s sequence_length_template: 22 345s mean_qscore_template: 22 345s calibration_strand_genome_template: 22 345s 345s fields not found barcode_arrangement: 22 345s 345s Total reads: 22 / Average speed: 373.02 reads/s 345s 345s read_id run_id channel start_time sequence_length_template mean_qscore_template calibration_strand_genome_template path 345s 61e799eb-5571-4cc4-bbf6-b3929b197459 40ebe55356ada6c830fa793745ef4c498d896c73 103 26 844 8.56 filtered_out /tmp/autopkgtest.iEIQDt/autopkgtest_tmp/datafast5/20180625_FAH77625_MN23126_sequencing_run_S1_57529_read_10_ch_103_strand.fast5 345s c38cbad9-d91e-4208-9317-832f4e2cc289 40ebe55356ada6c830fa793745ef4c498d896c73 113 30 824 8.693 filtered_out /tmp/autopkgtest.iEIQDt/autopkgtest_tmp/datafast5/20180625_FAH77625_MN23126_sequencing_run_S1_57529_read_10_ch_113_strand.fast5 345s 08642be5-5cf7-4c4c-8c45-e4d569b9a482 40ebe55356ada6c830fa793745ef4c498d896c73 121 28 450 7.805 filtered_out /tmp/autopkgtest.iEIQDt/autopkgtest_tmp/datafast5/20180625_FAH77625_MN23126_sequencing_run_S1_57529_read_10_ch_121_strand.fast5 345s 5b7fadd0-c646-4c7b-9800-66ee658a5ca8 40ebe55356ada6c830fa793745ef4c498d896c73 150 37 468 7.608 filtered_out /tmp/autopkgtest.iEIQDt/autopkgtest_tmp/datafast5/20180625_FAH77625_MN23126_sequencing_run_S1_57529_read_10_ch_150_strand.fast5 345s 151757ea-53de-44b1-b86e-f823511af02a 40ebe55356ada6c830fa793745ef4c498d896c73 191 13 568 8.23 filtered_out /tmp/autopkgtest.iEIQDt/autopkgtest_tmp/datafast5/20180625_FAH77625_MN23126_sequencing_run_S1_57529_read_10_ch_191_strand.fast5 345s bcb20156-a5fe-4daa-aad9-b62c286e468d 40ebe55356ada6c830fa793745ef4c498d896c73 192 21 306 7.337 filtered_out /tmp/autopkgtest.iEIQDt/autopkgtest_tmp/datafast5/20180625_FAH77625_MN23126_sequencing_run_S1_57529_read_10_ch_192_strand.fast5 345s 0ef36fa0-7c3f-47f5-8410-027f50724701 40ebe55356ada6c830fa793745ef4c498d896c73 108 26 915 9.407 filtered_out /tmp/autopkgtest.iEIQDt/autopkgtest_tmp/datafast5/20180625_FAH77625_MN23126_sequencing_run_S1_57529_read_10_ch_108_strand.fast5 345s ed05c5e6-7aab-4970-a431-3411047764a6 40ebe55356ada6c830fa793745ef4c498d896c73 224 34 880 8.891 filtered_out /tmp/autopkgtest.iEIQDt/autopkgtest_tmp/datafast5/20180625_FAH77625_MN23126_sequencing_run_S1_57529_read_10_ch_224_strand.fast5 345s 3784283c-47cc-48ac-8d7b-7efd32123b56 40ebe55356ada6c830fa793745ef4c498d896c73 243 20 893 8.54 filtered_out /tmp/autopkgtest.iEIQDt/autopkgtest_tmp/datafast5/20180625_FAH77625_MN23126_sequencing_run_S1_57529_read_10_ch_243_strand.fast5 345s PASS 345s 345s Test 11 346s Import data from sequencing summary file(s) and cleanup 346s Read files and import in a dataframe 346s Check input data files 346s Parse data files 347s Merge data 347s Cleanup missing barcodes values 347s Cleaning up low frequency barcodes 347s Split data per barcode 347s Processing data for Barcode barcode02 347s Processing data for Barcode barcode07 347s Processing data for Barcode barcode08 347s Processing data for Barcode barcode09 347s Processing data for Barcode barcode10 347s Processing data for Barcode barcode11 347s Processing data for Barcode barcode12 348s Processing data for Barcode unclassified 348s Barcode Counts 348s Counts Write 348s barcode02 2 False 348s barcode07 1 False 348s barcode08 30 False 348s barcode09 9945 True 348s barcode10 12644 True 348s barcode11 13594 True 348s barcode12 9813 True 348s unclassified 3971 False 348s PASS 348s 348s Test 12 349s General info 349s package_name: pycoQC 349s package_version: 2.5.2 349s timestamp: 2025-01-03 14:20:26.090683 349s 349s Runtime options 349s summary_file: ['Guppy-basecall-1D-DNA_sequencing_summary.txt'] 349s barcode_file: ['Guppy-basecall-1D-DNA_deepbinner_barcoding_summary.txt'] 349s output_dir: results/ 349s output_unclassified: False 349s min_barcode_percent: 0.1 349s verbose: True 349s quiet: False 349s 349s Import data from sequencing summary file(s) and cleanup 349s Read files and import in a dataframe 349s Check input data files 349s Sequencing summary files found: Guppy-basecall-1D-DNA_sequencing_summary.txt 349s Barcode files found: Guppy-basecall-1D-DNA_deepbinner_barcoding_summary.txt 349s Parse data files 349s Parse summary files 349s 3,999 reads found in initial file 349s Parse barcode files 349s Found valid Deepbinner barcode file 349s 3,775 reads with barcodes assigned 349s Merge data 349s Cleanup missing barcodes values 349s Cleaning up low frequency barcodes 349s Split data per barcode 349s Processing data for Barcode 1 349s Processing data for Barcode 2 349s Processing data for Barcode 3 349s Processing data for Barcode 4 349s Processing data for Barcode 5 349s Processing data for Barcode 6 349s Processing data for Barcode 7 349s Processing data for Barcode 8 349s Processing data for Barcode unclassified 349s Barcode Counts 349s Counts Write 349s 1 534 True 349s 2 206 True 349s 3 562 True 349s 4 579 True 349s 5 590 True 349s 6 655 True 349s 7 271 True 349s 8 378 True 349s unclassified 224 False 349s PASS 349s 349s Check if files really exist 349s PASS 349s 349s autopkgtest [14:20:26]: test run-unit-test: -----------------------] 354s autopkgtest [14:20:31]: test run-unit-test: - - - - - - - - - - results - - - - - - - - - - 354s run-unit-test PASS 358s autopkgtest [14:20:35]: @@@@@@@@@@@@@@@@@@@@ summary 358s run-unit-test PASS