0s autopkgtest [19:29:35]: starting date and time: 2024-11-13 19:29:35+0000 0s autopkgtest [19:29:35]: git checkout: 6f3be7a8 Fix armhf LXD image generation for plucky 0s autopkgtest [19:29:35]: host juju-7f2275-prod-proposed-migration-environment-9; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work.qdmpsajx/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\n" >> /etc/environment' --apt-pocket=proposed=src:python3-defaults,src:python3-stdlib-extensions --apt-upgrade pyensembl --timeout-short=300 --timeout-copy=20000 --timeout-build=20000 '--env=ADT_TEST_TRIGGERS=python3-defaults/3.12.7-1 python3-stdlib-extensions/3.12.7-1' -- lxd -r lxd-armhf-10.145.243.142 lxd-armhf-10.145.243.142:autopkgtest/ubuntu/plucky/armhf 56s autopkgtest [19:30:31]: testbed dpkg architecture: armhf 58s autopkgtest [19:30:33]: testbed apt version: 2.9.8 58s autopkgtest [19:30:33]: @@@@@@@@@@@@@@@@@@@@ test bed setup 66s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease [73.9 kB] 67s Get:2 http://ftpmaster.internal/ubuntu plucky-proposed/universe Sources [958 kB] 67s Get:3 http://ftpmaster.internal/ubuntu plucky-proposed/restricted Sources [7016 B] 67s Get:4 http://ftpmaster.internal/ubuntu plucky-proposed/main Sources [98.3 kB] 67s Get:5 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse Sources [17.2 kB] 67s Get:6 http://ftpmaster.internal/ubuntu plucky-proposed/main armhf Packages [101 kB] 67s Get:7 http://ftpmaster.internal/ubuntu plucky-proposed/universe armhf Packages [647 kB] 67s Get:8 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse armhf Packages [17.2 kB] 67s Fetched 1919 kB in 1s (1788 kB/s) 68s Reading package lists... 85s tee: /proc/self/fd/2: Permission denied 109s Hit:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease 109s Hit:2 http://ftpmaster.internal/ubuntu plucky InRelease 109s Hit:3 http://ftpmaster.internal/ubuntu plucky-updates InRelease 109s Hit:4 http://ftpmaster.internal/ubuntu plucky-security InRelease 111s Reading package lists... 111s Reading package lists... 111s Building dependency tree... 111s Reading state information... 113s Calculating upgrade... 114s The following packages were automatically installed and are no longer required: 114s libperl5.38t64 perl-modules-5.38 python3-netifaces 114s Use 'apt autoremove' to remove them. 114s The following NEW packages will be installed: 114s libperl5.40 perl-modules-5.40 python3.13-gdbm systemd-cryptsetup 114s The following packages will be upgraded: 114s apport apport-core-dump-handler base-files base-passwd bash-completion 114s dhcpcd-base distro-info-data dpkg dpkg-dev fwupd gcc-14-base info 114s install-info iproute2 libarchive13t64 libatomic1 libattr1 114s libblockdev-crypto3 libblockdev-fs3 libblockdev-loop3 libblockdev-mdraid3 114s libblockdev-nvme3 libblockdev-part3 libblockdev-swap3 libblockdev-utils3 114s libblockdev3 libbpf1 libbsd0 libbytesize-common libbytesize1 libdb5.3t64 114s libdpkg-perl libdrm-common libdrm2 libdw1t64 libedit2 libelf1t64 libevdev2 114s libfastjson4 libflashrom1 libftdi1-2 libfwupd2 libgcc-s1 libgnutls30t64 114s libgpgme11t64 libinih1 libjson-c5 libjson-glib-1.0-0 libjson-glib-1.0-common 114s libkeyutils1 libldap-common libldap2 liblocale-gettext-perl libmaxminddb0 114s libmnl0 libnetfilter-conntrack3 libnetplan1 libnewt0.52 libnghttp2-14 114s libnspr4 libnss-systemd libnvme1t64 libpam-systemd libpipeline1 libplymouth5 114s libpng16-16t64 libpopt0 libpython3-stdlib libpython3.12-minimal 114s libpython3.12-stdlib libsgutils2-1.46-2 libssh2-1t64 libstdc++6 114s libsystemd-shared libsystemd0 libtext-charwidth-perl libtext-iconv-perl 114s libtraceevent1 libtraceevent1-plugin libudev1 libudisks2-0 liburcu8t64 114s libutempter0 libuv1t64 libx11-6 libx11-data libxau6 libxmlb2 mawk 114s motd-news-config nano netplan-generator netplan.io openssh-client 114s openssh-server openssh-sftp-server pci.ids perl perl-base plymouth 114s plymouth-theme-ubuntu-text python3 python3-apport python3-certifi 114s python3-cffi-backend python3-configobj python3-gdbm python3-gi python3-idna 114s python3-jaraco.functools python3-json-pointer python3-jsonpatch 114s python3-lazr.restfulclient python3-lazr.uri python3-minimal 114s python3-more-itertools python3-netplan python3-newt python3-oauthlib 114s python3-problem-report python3-typeguard python3-urllib3 python3-wadllib 114s python3-zipp python3.12 python3.12-gdbm python3.12-minimal sg3-utils 114s sg3-utils-udev ssh-import-id systemd systemd-resolved systemd-sysv 114s systemd-timesyncd tzdata udev udisks2 ufw usbutils vim-common vim-tiny 114s whiptail xxd 114s 143 upgraded, 4 newly installed, 0 to remove and 0 not upgraded. 114s Need to get 45.5 MB of archives. 114s After this operation, 43.2 MB of additional disk space will be used. 114s Get:1 http://ftpmaster.internal/ubuntu plucky/main armhf motd-news-config all 13.5ubuntu3 [5190 B] 114s Get:2 http://ftpmaster.internal/ubuntu plucky/main armhf base-files armhf 13.5ubuntu3 [75.1 kB] 114s Get:3 http://ftpmaster.internal/ubuntu plucky/main armhf dpkg armhf 1.22.11ubuntu3 [1247 kB] 115s Get:4 http://ftpmaster.internal/ubuntu plucky/main armhf perl-modules-5.40 all 5.40.0-7 [3214 kB] 115s Get:5 http://ftpmaster.internal/ubuntu plucky/main armhf libperl5.40 armhf 5.40.0-7 [4139 kB] 115s Get:6 http://ftpmaster.internal/ubuntu plucky/main armhf perl armhf 5.40.0-7 [263 kB] 115s Get:7 http://ftpmaster.internal/ubuntu plucky/main armhf perl-base armhf 5.40.0-7 [1674 kB] 115s Get:8 http://ftpmaster.internal/ubuntu plucky/main armhf liblocale-gettext-perl armhf 1.07-7build1 [15.0 kB] 115s Get:9 http://ftpmaster.internal/ubuntu plucky/main armhf libtext-iconv-perl armhf 1.7-8build4 [12.8 kB] 115s Get:10 http://ftpmaster.internal/ubuntu plucky/main armhf libtext-charwidth-perl armhf 0.04-11build4 [9128 B] 115s Get:11 http://ftpmaster.internal/ubuntu plucky/main armhf libdb5.3t64 armhf 5.3.28+dfsg2-9 [655 kB] 115s Get:12 http://ftpmaster.internal/ubuntu plucky/main armhf base-passwd armhf 3.6.5 [53.2 kB] 115s Get:13 http://ftpmaster.internal/ubuntu plucky-proposed/main armhf python3-minimal armhf 3.12.7-1 [27.4 kB] 115s Get:14 http://ftpmaster.internal/ubuntu plucky-proposed/main armhf python3 armhf 3.12.7-1 [24.0 kB] 115s Get:15 http://ftpmaster.internal/ubuntu plucky/main armhf tzdata all 2024b-1ubuntu2 [274 kB] 115s Get:16 http://ftpmaster.internal/ubuntu plucky/main armhf python3.12 armhf 3.12.7-3 [661 kB] 115s Get:17 http://ftpmaster.internal/ubuntu plucky/main armhf libpython3.12-stdlib armhf 3.12.7-3 [1934 kB] 115s Get:18 http://ftpmaster.internal/ubuntu plucky/main armhf python3.12-minimal armhf 3.12.7-3 [2012 kB] 115s Get:19 http://ftpmaster.internal/ubuntu plucky/main armhf libpython3.12-minimal armhf 3.12.7-3 [822 kB] 115s Get:20 http://ftpmaster.internal/ubuntu plucky-proposed/main armhf libpython3-stdlib armhf 3.12.7-1 [10.0 kB] 115s Get:21 http://ftpmaster.internal/ubuntu plucky/main armhf libnss-systemd armhf 256.5-2ubuntu4 [155 kB] 115s Get:22 http://ftpmaster.internal/ubuntu plucky/main armhf systemd-timesyncd armhf 256.5-2ubuntu4 [40.7 kB] 115s Get:23 http://ftpmaster.internal/ubuntu plucky/main armhf systemd-resolved armhf 256.5-2ubuntu4 [309 kB] 115s Get:24 http://ftpmaster.internal/ubuntu plucky/main armhf libsystemd-shared armhf 256.5-2ubuntu4 [2129 kB] 115s Get:25 http://ftpmaster.internal/ubuntu plucky/main armhf libsystemd0 armhf 256.5-2ubuntu4 [428 kB] 115s Get:26 http://ftpmaster.internal/ubuntu plucky/main armhf systemd-sysv armhf 256.5-2ubuntu4 [11.9 kB] 115s Get:27 http://ftpmaster.internal/ubuntu plucky/main armhf libpam-systemd armhf 256.5-2ubuntu4 [226 kB] 115s Get:28 http://ftpmaster.internal/ubuntu plucky/main armhf systemd armhf 256.5-2ubuntu4 [3442 kB] 115s Get:29 http://ftpmaster.internal/ubuntu plucky/main armhf udev armhf 256.5-2ubuntu4 [1949 kB] 115s Get:30 http://ftpmaster.internal/ubuntu plucky/main armhf libudev1 armhf 256.5-2ubuntu4 [188 kB] 115s Get:31 http://ftpmaster.internal/ubuntu plucky/main armhf python3-problem-report all 2.30.0-0ubuntu5 [25.0 kB] 115s Get:32 http://ftpmaster.internal/ubuntu plucky/main armhf python3-apport all 2.30.0-0ubuntu5 [93.2 kB] 115s Get:33 http://ftpmaster.internal/ubuntu plucky/main armhf python3-gi armhf 3.50.0-3 [227 kB] 115s Get:34 http://ftpmaster.internal/ubuntu plucky/main armhf apport-core-dump-handler all 2.30.0-0ubuntu5 [17.9 kB] 115s Get:35 http://ftpmaster.internal/ubuntu plucky/main armhf apport all 2.30.0-0ubuntu5 [83.0 kB] 115s Get:36 http://ftpmaster.internal/ubuntu plucky/main armhf libbsd0 armhf 0.12.2-2 [36.8 kB] 115s Get:37 http://ftpmaster.internal/ubuntu plucky/main armhf libedit2 armhf 3.1-20240808-1 [79.0 kB] 115s Get:38 http://ftpmaster.internal/ubuntu plucky/main armhf openssh-sftp-server armhf 1:9.7p1-7ubuntu5 [35.4 kB] 116s Get:39 http://ftpmaster.internal/ubuntu plucky/main armhf openssh-server armhf 1:9.7p1-7ubuntu5 [505 kB] 116s Get:40 http://ftpmaster.internal/ubuntu plucky/main armhf openssh-client armhf 1:9.7p1-7ubuntu5 [889 kB] 116s Get:41 http://ftpmaster.internal/ubuntu plucky/main armhf libatomic1 armhf 14.2.0-8ubuntu1 [7846 B] 116s Get:42 http://ftpmaster.internal/ubuntu plucky/main armhf gcc-14-base armhf 14.2.0-8ubuntu1 [51.5 kB] 116s Get:43 http://ftpmaster.internal/ubuntu plucky/main armhf libstdc++6 armhf 14.2.0-8ubuntu1 [711 kB] 116s Get:44 http://ftpmaster.internal/ubuntu plucky/main armhf libgcc-s1 armhf 14.2.0-8ubuntu1 [40.8 kB] 116s Get:45 http://ftpmaster.internal/ubuntu plucky/main armhf libattr1 armhf 1:2.5.2-2 [10.5 kB] 116s Get:46 http://ftpmaster.internal/ubuntu plucky/main armhf libgnutls30t64 armhf 3.8.8-2ubuntu1 [955 kB] 116s Get:47 http://ftpmaster.internal/ubuntu plucky/main armhf install-info armhf 7.1.1-1 [61.4 kB] 116s Get:48 http://ftpmaster.internal/ubuntu plucky/main armhf mawk armhf 1.3.4.20240905-1 [116 kB] 116s Get:49 http://ftpmaster.internal/ubuntu plucky/main armhf dhcpcd-base armhf 1:10.1.0-2 [188 kB] 116s Get:50 http://ftpmaster.internal/ubuntu plucky/main armhf distro-info-data all 0.63 [6588 B] 116s Get:51 http://ftpmaster.internal/ubuntu plucky/main armhf libdw1t64 armhf 0.192-4 [243 kB] 116s Get:52 http://ftpmaster.internal/ubuntu plucky/main armhf libelf1t64 armhf 0.192-4 [50.2 kB] 116s Get:53 http://ftpmaster.internal/ubuntu plucky/main armhf libbpf1 armhf 1:1.5.0-1 [158 kB] 116s Get:54 http://ftpmaster.internal/ubuntu plucky/main armhf libmnl0 armhf 1.0.5-3 [10.7 kB] 116s Get:55 http://ftpmaster.internal/ubuntu plucky/main armhf iproute2 armhf 6.10.0-2ubuntu1 [1082 kB] 116s Get:56 http://ftpmaster.internal/ubuntu plucky/main armhf libfastjson4 armhf 1.2304.0-2 [20.2 kB] 116s Get:57 http://ftpmaster.internal/ubuntu plucky/main armhf libjson-c5 armhf 0.18+ds-1 [33.2 kB] 116s Get:58 http://ftpmaster.internal/ubuntu plucky/main armhf libkeyutils1 armhf 1.6.3-4ubuntu2 [8712 B] 116s Get:59 http://ftpmaster.internal/ubuntu plucky/main armhf netplan-generator armhf 1.1.1-1 [60.4 kB] 116s Get:60 http://ftpmaster.internal/ubuntu plucky/main armhf python3-cffi-backend armhf 1.17.1-2 [68.7 kB] 116s Get:61 http://ftpmaster.internal/ubuntu plucky/main armhf python3-netplan armhf 1.1.1-1 [24.1 kB] 116s Get:62 http://ftpmaster.internal/ubuntu plucky/main armhf netplan.io armhf 1.1.1-1 [66.4 kB] 116s Get:63 http://ftpmaster.internal/ubuntu plucky/main armhf libnetplan1 armhf 1.1.1-1 [122 kB] 116s Get:64 http://ftpmaster.internal/ubuntu plucky/main armhf python3-newt armhf 0.52.24-2ubuntu4 [19.7 kB] 116s Get:65 http://ftpmaster.internal/ubuntu plucky/main armhf libnewt0.52 armhf 0.52.24-2ubuntu4 [39.2 kB] 116s Get:66 http://ftpmaster.internal/ubuntu plucky/main armhf libpopt0 armhf 1.19+dfsg-2 [25.4 kB] 116s Get:67 http://ftpmaster.internal/ubuntu plucky/main armhf vim-tiny armhf 2:9.1.0777-1ubuntu1 [693 kB] 116s Get:68 http://ftpmaster.internal/ubuntu plucky/main armhf vim-common all 2:9.1.0777-1ubuntu1 [394 kB] 116s Get:69 http://ftpmaster.internal/ubuntu plucky/main armhf whiptail armhf 0.52.24-2ubuntu4 [17.2 kB] 116s Get:70 http://ftpmaster.internal/ubuntu plucky/main armhf xxd armhf 2:9.1.0777-1ubuntu1 [66.8 kB] 116s Get:71 http://ftpmaster.internal/ubuntu plucky/main armhf bash-completion all 1:2.14.0-2 [210 kB] 116s Get:72 http://ftpmaster.internal/ubuntu plucky/main armhf info armhf 7.1.1-1 [126 kB] 116s Get:73 http://ftpmaster.internal/ubuntu plucky/main armhf libdrm-common all 2.4.123-1 [8436 B] 116s Get:74 http://ftpmaster.internal/ubuntu plucky/main armhf libdrm2 armhf 2.4.123-1 [36.5 kB] 116s Get:75 http://ftpmaster.internal/ubuntu plucky/main armhf libevdev2 armhf 1.13.3+dfsg-1 [29.7 kB] 116s Get:76 http://ftpmaster.internal/ubuntu plucky/main armhf libmaxminddb0 armhf 1.11.0-1 [16.8 kB] 116s Get:77 http://ftpmaster.internal/ubuntu plucky/main armhf libnetfilter-conntrack3 armhf 1.1.0-1 [38.4 kB] 116s Get:78 http://ftpmaster.internal/ubuntu plucky/main armhf libnghttp2-14 armhf 1.64.0-1 [68.9 kB] 116s Get:79 http://ftpmaster.internal/ubuntu plucky/main armhf libpipeline1 armhf 1.5.8-1 [26.9 kB] 116s Get:80 http://ftpmaster.internal/ubuntu plucky/main armhf libpng16-16t64 armhf 1.6.44-2 [168 kB] 116s Get:81 http://ftpmaster.internal/ubuntu plucky/main armhf libplymouth5 armhf 24.004.60-1ubuntu11 [140 kB] 116s Get:82 http://ftpmaster.internal/ubuntu plucky/main armhf libtraceevent1-plugin armhf 1:1.8.3-1ubuntu1 [18.1 kB] 116s Get:83 http://ftpmaster.internal/ubuntu plucky/main armhf libtraceevent1 armhf 1:1.8.3-1ubuntu1 [52.1 kB] 116s Get:84 http://ftpmaster.internal/ubuntu plucky/main armhf liburcu8t64 armhf 0.14.1-1 [56.6 kB] 116s Get:85 http://ftpmaster.internal/ubuntu plucky/main armhf libuv1t64 armhf 1.48.0-7 [83.3 kB] 116s Get:86 http://ftpmaster.internal/ubuntu plucky/main armhf libx11-data all 2:1.8.10-2 [116 kB] 116s Get:87 http://ftpmaster.internal/ubuntu plucky/main armhf libx11-6 armhf 2:1.8.10-2 [587 kB] 116s Get:88 http://ftpmaster.internal/ubuntu plucky/main armhf libxau6 armhf 1:1.0.11-1 [6558 B] 116s Get:89 http://ftpmaster.internal/ubuntu plucky/main armhf nano armhf 8.2-1 [276 kB] 116s Get:90 http://ftpmaster.internal/ubuntu plucky/main armhf pci.ids all 0.0~2024.10.24-1 [279 kB] 116s Get:91 http://ftpmaster.internal/ubuntu plucky/main armhf plymouth-theme-ubuntu-text armhf 24.004.60-1ubuntu11 [9920 B] 116s Get:92 http://ftpmaster.internal/ubuntu plucky/main armhf plymouth armhf 24.004.60-1ubuntu11 [142 kB] 116s Get:93 http://ftpmaster.internal/ubuntu plucky/main armhf python3.12-gdbm armhf 3.12.7-3 [28.7 kB] 116s Get:94 http://ftpmaster.internal/ubuntu plucky/main armhf python3.13-gdbm armhf 3.13.0-2 [29.5 kB] 116s Get:95 http://ftpmaster.internal/ubuntu plucky-proposed/main armhf python3-gdbm armhf 3.12.7-1 [8642 B] 116s Get:96 http://ftpmaster.internal/ubuntu plucky/main armhf ufw all 0.36.2-8 [170 kB] 116s Get:97 http://ftpmaster.internal/ubuntu plucky/main armhf usbutils armhf 1:018-1 [76.1 kB] 116s Get:98 http://ftpmaster.internal/ubuntu plucky/main armhf dpkg-dev all 1.22.11ubuntu3 [1088 kB] 116s Get:99 http://ftpmaster.internal/ubuntu plucky/main armhf libdpkg-perl all 1.22.11ubuntu3 [279 kB] 116s Get:100 http://ftpmaster.internal/ubuntu plucky/main armhf libarchive13t64 armhf 3.7.4-1.1 [331 kB] 116s Get:101 http://ftpmaster.internal/ubuntu plucky/main armhf libftdi1-2 armhf 1.5-7 [25.7 kB] 117s Get:102 http://ftpmaster.internal/ubuntu plucky/main armhf libflashrom1 armhf 1.4.0-3ubuntu1 [141 kB] 117s Get:103 http://ftpmaster.internal/ubuntu plucky/main armhf libjson-glib-1.0-common all 1.10.0+ds-3 [5586 B] 117s Get:104 http://ftpmaster.internal/ubuntu plucky/main armhf libjson-glib-1.0-0 armhf 1.10.0+ds-3 [61.7 kB] 117s Get:105 http://ftpmaster.internal/ubuntu plucky/main armhf libfwupd2 armhf 1.9.26-2 [125 kB] 117s Get:106 http://ftpmaster.internal/ubuntu plucky/main armhf libxmlb2 armhf 0.3.21-1 [57.7 kB] 117s Get:107 http://ftpmaster.internal/ubuntu plucky/main armhf fwupd armhf 1.9.26-2 [4404 kB] 117s Get:108 http://ftpmaster.internal/ubuntu plucky/main armhf libblockdev-utils3 armhf 3.2.1-1 [17.4 kB] 117s Get:109 http://ftpmaster.internal/ubuntu plucky/main armhf libblockdev-crypto3 armhf 3.2.1-1 [22.4 kB] 117s Get:110 http://ftpmaster.internal/ubuntu plucky/main armhf libblockdev-fs3 armhf 3.2.1-1 [34.3 kB] 117s Get:111 http://ftpmaster.internal/ubuntu plucky/main armhf libblockdev-loop3 armhf 3.2.1-1 [6552 B] 117s Get:112 http://ftpmaster.internal/ubuntu plucky/main armhf libbytesize1 armhf 2.11-1ubuntu1 [12.0 kB] 117s Get:113 http://ftpmaster.internal/ubuntu plucky/main armhf libbytesize-common all 2.11-1ubuntu1 [3584 B] 117s Get:114 http://ftpmaster.internal/ubuntu plucky/main armhf libblockdev-mdraid3 armhf 3.2.1-1 [13.4 kB] 117s Get:115 http://ftpmaster.internal/ubuntu plucky/main armhf libnvme1t64 armhf 1.11-1 [73.8 kB] 117s Get:116 http://ftpmaster.internal/ubuntu plucky/main armhf libblockdev-nvme3 armhf 3.2.1-1 [17.6 kB] 117s Get:117 http://ftpmaster.internal/ubuntu plucky/main armhf libblockdev-part3 armhf 3.2.1-1 [16.5 kB] 117s Get:118 http://ftpmaster.internal/ubuntu plucky/main armhf libblockdev-swap3 armhf 3.2.1-1 [8952 B] 117s Get:119 http://ftpmaster.internal/ubuntu plucky/main armhf libblockdev3 armhf 3.2.1-1 [44.2 kB] 117s Get:120 http://ftpmaster.internal/ubuntu plucky/main armhf libgpgme11t64 armhf 1.23.2-5ubuntu4 [123 kB] 117s Get:121 http://ftpmaster.internal/ubuntu plucky/main armhf libinih1 armhf 58-1ubuntu1 [6750 B] 117s Get:122 http://ftpmaster.internal/ubuntu plucky/main armhf libldap-common all 2.6.8+dfsg-1~exp4ubuntu3 [32.3 kB] 117s Get:123 http://ftpmaster.internal/ubuntu plucky/main armhf libldap2 armhf 2.6.8+dfsg-1~exp4ubuntu3 [173 kB] 117s Get:124 http://ftpmaster.internal/ubuntu plucky/main armhf libnspr4 armhf 2:4.35-1.1ubuntu2 [94.1 kB] 117s Get:125 http://ftpmaster.internal/ubuntu plucky/main armhf libsgutils2-1.46-2 armhf 1.46-3ubuntu5 [82.5 kB] 117s Get:126 http://ftpmaster.internal/ubuntu plucky/main armhf libssh2-1t64 armhf 1.11.1-1 [116 kB] 117s Get:127 http://ftpmaster.internal/ubuntu plucky/main armhf udisks2 armhf 2.10.1-11ubuntu1 [278 kB] 117s Get:128 http://ftpmaster.internal/ubuntu plucky/main armhf libudisks2-0 armhf 2.10.1-11ubuntu1 [142 kB] 117s Get:129 http://ftpmaster.internal/ubuntu plucky/main armhf libutempter0 armhf 1.2.1-4 [9062 B] 117s Get:130 http://ftpmaster.internal/ubuntu plucky/main armhf python3-certifi all 2024.8.30+dfsg-1 [9742 B] 117s Get:131 http://ftpmaster.internal/ubuntu plucky/main armhf python3-configobj all 5.0.9-1 [33.9 kB] 117s Get:132 http://ftpmaster.internal/ubuntu plucky/main armhf python3-idna all 3.8-2 [47.0 kB] 117s Get:133 http://ftpmaster.internal/ubuntu plucky/main armhf python3-more-itertools all 10.5.0-1 [56.2 kB] 117s Get:134 http://ftpmaster.internal/ubuntu plucky/main armhf python3-jaraco.functools all 4.1.0-1 [11.8 kB] 117s Get:135 http://ftpmaster.internal/ubuntu plucky/main armhf python3-json-pointer all 2.4-2 [8396 B] 117s Get:136 http://ftpmaster.internal/ubuntu plucky/main armhf python3-jsonpatch all 1.32-4 [12.2 kB] 117s Get:137 http://ftpmaster.internal/ubuntu plucky/main armhf python3-lazr.uri all 1.0.6-4 [13.6 kB] 117s Get:138 http://ftpmaster.internal/ubuntu plucky/main armhf python3-wadllib all 2.0.0-1 [36.7 kB] 117s Get:139 http://ftpmaster.internal/ubuntu plucky/main armhf python3-oauthlib all 3.2.2-2 [89.8 kB] 117s Get:140 http://ftpmaster.internal/ubuntu plucky/main armhf python3-lazr.restfulclient all 0.14.6-2 [50.9 kB] 117s Get:141 http://ftpmaster.internal/ubuntu plucky/main armhf python3-typeguard all 4.4.1-1 [29.0 kB] 118s Get:142 http://ftpmaster.internal/ubuntu plucky/main armhf python3-urllib3 all 2.0.7-2ubuntu0.1 [93.1 kB] 118s Get:143 http://ftpmaster.internal/ubuntu plucky/main armhf python3-zipp all 3.21.0-1 [10.2 kB] 118s Get:144 http://ftpmaster.internal/ubuntu plucky/main armhf sg3-utils armhf 1.46-3ubuntu5 [816 kB] 118s Get:145 http://ftpmaster.internal/ubuntu plucky/main armhf sg3-utils-udev all 1.46-3ubuntu5 [5916 B] 118s Get:146 http://ftpmaster.internal/ubuntu plucky/main armhf systemd-cryptsetup armhf 256.5-2ubuntu4 [122 kB] 118s Get:147 http://ftpmaster.internal/ubuntu plucky/main armhf ssh-import-id all 5.11-0ubuntu3 [10.1 kB] 118s Preconfiguring packages ... 119s Fetched 45.5 MB in 4s (12.5 MB/s) 119s (Reading database ... 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(0.18+ds-1) ... 138s Setting up libevdev2:armhf (1.13.3+dfsg-1) ... 138s Setting up libldap2:armhf (2.6.8+dfsg-1~exp4ubuntu3) ... 138s Setting up info (7.1.1-1) ... 138s Setting up liblocale-gettext-perl (1.07-7build1) ... 138s Setting up libbpf1:armhf (1:1.5.0-1) ... 138s Setting up libudisks2-0:armhf (2.10.1-11ubuntu1) ... 138s Setting up python3.13-gdbm (3.13.0-2) ... 138s Setting up libpopt0:armhf (1.19+dfsg-2) ... 138s Setting up sg3-utils (1.46-3ubuntu5) ... 138s Setting up python3.12-minimal (3.12.7-3) ... 139s Setting up libpython3.12-stdlib:armhf (3.12.7-3) ... 139s Setting up libblockdev-mdraid3:armhf (3.2.1-1) ... 139s Setting up libblockdev-crypto3:armhf (3.2.1-1) ... 139s Setting up libblockdev-swap3:armhf (3.2.1-1) ... 139s Setting up iproute2 (6.10.0-2ubuntu1) ... 139s Setting up openssh-client (1:9.7p1-7ubuntu5) ... 139s Setting up python3.12 (3.12.7-3) ... 141s Setting up libblockdev-loop3:armhf (3.2.1-1) ... 141s Setting up systemd (256.5-2ubuntu4) ... 141s /usr/lib/tmpfiles.d/legacy.conf:13: Duplicate line for path "/run/lock", ignoring. 141s Created symlink '/run/systemd/system/tmp.mount' → '/dev/null'. 141s /usr/lib/tmpfiles.d/legacy.conf:13: Duplicate line for path "/run/lock", ignoring. 142s Setting up vim-tiny (2:9.1.0777-1ubuntu1) ... 142s Setting up libblockdev3:armhf (3.2.1-1) ... 142s Installing new version of config file /etc/libblockdev/3/conf.d/00-default.cfg ... 142s Setting up libjson-glib-1.0-0:armhf (1.10.0+ds-3) ... 142s Setting up libblockdev-part3:armhf (3.2.1-1) ... 142s Setting up sg3-utils-udev (1.46-3ubuntu5) ... 142s update-initramfs: deferring update (trigger activated) 142s Setting up libperl5.40:armhf (5.40.0-7) ... 142s Setting up perl (5.40.0-7) ... 142s Setting up systemd-cryptsetup (256.5-2ubuntu4) ... 142s Setting up libnvme1t64 (1.11-1) ... 142s Setting up systemd-timesyncd (256.5-2ubuntu4) ... 142s systemd-time-wait-sync.service is a disabled or a static unit not running, not starting it. 142s Setting up udev (256.5-2ubuntu4) ... 143s Setting up libdpkg-perl (1.22.11ubuntu3) ... 143s Setting up libblockdev-nvme3:armhf (3.2.1-1) ... 143s Setting up libdrm2:armhf (2.4.123-1) ... 143s Setting up whiptail (0.52.24-2ubuntu4) ... 143s Setting up libtraceevent1-plugin:armhf (1:1.8.3-1ubuntu1) ... 143s Setting up libplymouth5:armhf (24.004.60-1ubuntu11) ... 143s Setting up netplan-generator (1.1.1-1) ... 143s Removing 'diversion of /lib/systemd/system-generators/netplan to /lib/systemd/system-generators/netplan.usr-is-merged by netplan-generator' 143s Setting up libpython3-stdlib:armhf (3.12.7-1) ... 143s Setting up systemd-resolved (256.5-2ubuntu4) ... 144s Setting up openssh-sftp-server (1:9.7p1-7ubuntu5) ... 144s Setting up udisks2 (2.10.1-11ubuntu1) ... 144s vda: Failed to write 'change' to '/sys/devices/pci0000:00/0000:00:01.3/0000:04:00.0/virtio2/block/vda/uevent': Permission denied 144s vda1: Failed to write 'change' to '/sys/devices/pci0000:00/0000:00:01.3/0000:04:00.0/virtio2/block/vda/vda1/uevent': Permission denied 144s vda15: Failed to write 'change' to '/sys/devices/pci0000:00/0000:00:01.3/0000:04:00.0/virtio2/block/vda/vda15/uevent': Permission denied 144s vda2: Failed to write 'change' to '/sys/devices/pci0000:00/0000:00:01.3/0000:04:00.0/virtio2/block/vda/vda2/uevent': Permission denied 144s loop0: Failed to write 'change' to '/sys/devices/virtual/block/loop0/uevent': Permission denied 144s loop1: Failed to write 'change' to '/sys/devices/virtual/block/loop1/uevent': Permission denied 144s loop2: Failed to write 'change' to '/sys/devices/virtual/block/loop2/uevent': Permission denied 144s loop3: Failed to write 'change' to '/sys/devices/virtual/block/loop3/uevent': Permission denied 144s loop4: Failed to write 'change' to '/sys/devices/virtual/block/loop4/uevent': Permission denied 144s loop5: Failed to write 'change' to '/sys/devices/virtual/block/loop5/uevent': Permission denied 144s loop6: Failed to write 'change' to '/sys/devices/virtual/block/loop6/uevent': Permission denied 144s loop7: Failed to write 'change' to '/sys/devices/virtual/block/loop7/uevent': Permission denied 144s loop8: Failed to write 'change' to '/sys/devices/virtual/block/loop8/uevent': Permission denied 145s Setting up systemd-sysv (256.5-2ubuntu4) ... 145s Setting up openssh-server (1:9.7p1-7ubuntu5) ... 146s Setting up plymouth (24.004.60-1ubuntu11) ... 146s update-rc.d: warning: start and stop actions are no longer supported; falling back to defaults 147s update-rc.d: warning: start and stop actions are no longer supported; falling back to defaults 147s Setting up libfwupd2:armhf (1.9.26-2) ... 147s Setting up libnss-systemd:armhf (256.5-2ubuntu4) ... 147s Setting up python3 (3.12.7-1) ... 147s Setting up python3-zipp (3.21.0-1) ... 148s Setting up python3-newt:armhf (0.52.24-2ubuntu4) ... 148s Setting up dpkg-dev (1.22.11ubuntu3) ... 148s Setting up plymouth-theme-ubuntu-text (24.004.60-1ubuntu11) ... 148s update-initramfs: deferring update (trigger activated) 148s Setting up python3-oauthlib (3.2.2-2) ... 148s Setting up python3-configobj (5.0.9-1) ... 148s Setting up python3-certifi (2024.8.30+dfsg-1) ... 148s Setting up python3-gi (3.50.0-3) ... 149s Setting up python3-idna (3.8-2) ... 149s Setting up python3-urllib3 (2.0.7-2ubuntu0.1) ... 149s Setting up python3-json-pointer (2.4-2) ... 149s Setting up libpam-systemd:armhf (256.5-2ubuntu4) ... 150s Setting up fwupd (1.9.26-2) ... 150s fwupd-offline-update.service is a disabled or a static unit not running, not starting it. 150s fwupd-refresh.service is a disabled or a static unit not running, not starting it. 150s fwupd.service is a disabled or a static unit not running, not starting it. 150s Setting up python3-cffi-backend:armhf (1.17.1-2) ... 150s Setting up python3-more-itertools (10.5.0-1) ... 151s Setting up python3-jaraco.functools (4.1.0-1) ... 151s Setting up python3-gdbm:armhf (3.12.7-1) ... 151s Setting up python3-problem-report (2.30.0-0ubuntu5) ... 151s Setting up ssh-import-id (5.11-0ubuntu3) ... 151s Setting up python3-jsonpatch (1.32-4) ... 151s Setting up python3-typeguard (4.4.1-1) ... 151s Setting up ufw (0.36.2-8) ... 153s Setting up python3-lazr.uri (1.0.6-4) ... 153s Setting up python3-apport (2.30.0-0ubuntu5) ... 153s Setting up python3-wadllib (2.0.0-1) ... 153s Setting up python3-netplan (1.1.1-1) ... 154s Setting up python3-lazr.restfulclient (0.14.6-2) ... 154s Setting up netplan.io (1.1.1-1) ... 154s Setting up apport-core-dump-handler (2.30.0-0ubuntu5) ... 155s Setting up apport (2.30.0-0ubuntu5) ... 155s Installing new version of config file /etc/apport/crashdb.conf ... 155s apport-autoreport.service is a disabled or a static unit not running, not starting it. 156s Processing triggers for dbus (1.14.10-4ubuntu5) ... 156s Processing triggers for shared-mime-info (2.4-5) ... 156s Processing triggers for install-info (7.1.1-1) ... 156s Processing triggers for initramfs-tools (0.142ubuntu34) ... 157s Processing triggers for libc-bin (2.40-1ubuntu3) ... 157s Processing triggers for rsyslog (8.2406.0-1ubuntu2) ... 157s Processing triggers for man-db (2.12.1-3) ... 159s Reading package lists... 159s Building dependency tree... 159s Reading state information... 161s The following packages will be REMOVED: 161s libperl5.38t64* perl-modules-5.38* python3-netifaces* 162s 0 upgraded, 0 newly installed, 3 to remove and 0 not upgraded. 162s After this operation, 41.7 MB disk space will be freed. 162s (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 ... 61507 files and directories currently installed.) 162s Removing libperl5.38t64:armhf (5.38.2-5) ... 162s Removing perl-modules-5.38 (5.38.2-5) ... 162s Removing python3-netifaces:armhf (0.11.0-2build3) ... 162s Processing triggers for man-db (2.12.1-3) ... 162s Processing triggers for libc-bin (2.40-1ubuntu3) ... 164s autopkgtest [19:32:19]: rebooting testbed after setup commands that affected boot 233s autopkgtest [19:33:28]: testbed running kernel: Linux 6.8.0-47-generic #47~22.04.1-Ubuntu SMP PREEMPT_DYNAMIC Wed Oct 2 16:39:14 UTC 2 262s autopkgtest [19:33:57]: @@@@@@@@@@@@@@@@@@@@ apt-source pyensembl 272s Get:1 http://ftpmaster.internal/ubuntu plucky/universe pyensembl 2.3.13-1 (dsc) [2291 B] 272s Get:2 http://ftpmaster.internal/ubuntu plucky/universe pyensembl 2.3.13-1 (tar) [60.7 kB] 272s Get:3 http://ftpmaster.internal/ubuntu plucky/universe pyensembl 2.3.13-1 (diff) [5404 B] 273s gpgv: Signature made Sat May 11 16:47:07 2024 UTC 273s gpgv: using RSA key 8F6DE104377F3B11E741748731F3144544A1741A 273s gpgv: issuer "tchet@debian.org" 273s gpgv: Can't check signature: No public key 273s dpkg-source: warning: cannot verify inline signature for ./pyensembl_2.3.13-1.dsc: no acceptable signature found 273s autopkgtest [19:34:08]: testing package pyensembl version 2.3.13-1 275s autopkgtest [19:34:10]: build not needed 278s autopkgtest [19:34:13]: test run-unit-test: preparing testbed 288s Reading package lists... 288s Building dependency tree... 288s Reading state information... 289s Starting pkgProblemResolver with broken count: 0 289s Starting 2 pkgProblemResolver with broken count: 0 289s Done 290s The following additional packages will be installed: 290s libblas3 libgfortran5 libjs-jquery libjs-sphinxdoc libjs-underscore 290s liblapack3 libpython3.13-minimal libpython3.13-stdlib pyensembl pylint 290s python3-all python3-astroid python3-datacache python3-dateutil python3-dill 290s python3-gtfparse python3-iniconfig python3-isort python3-logilab-common 290s python3-mccabe python3-memoized-property python3-mypy-extensions 290s python3-numpy python3-packaging python3-pandas python3-pandas-lib 290s python3-platformdirs python3-pluggy python3-pytest python3-serializable 290s python3-simplejson python3-six python3-tomlkit python3-typechecks python3-tz 290s python3.13 python3.13-minimal 290s Suggested packages: 290s python3-objgraph gcc gfortran python-numpy-doc python3-dev python-pandas-doc 290s python3-statsmodels python3.13-venv python3.13-doc binfmt-support 290s Recommended packages: 290s javascript-common python3-tk python3-scipy python3-matplotlib 290s python3-bottleneck python3-numexpr python3-odf python3-openpyxl python3-bs4 290s python3-html5lib python3-lxml python3-tables 291s The following NEW packages will be installed: 291s autopkgtest-satdep libblas3 libgfortran5 libjs-jquery libjs-sphinxdoc 291s libjs-underscore liblapack3 libpython3.13-minimal libpython3.13-stdlib 291s pyensembl pylint python3-all python3-astroid python3-datacache 291s python3-dateutil python3-dill python3-gtfparse python3-iniconfig 291s python3-isort python3-logilab-common python3-mccabe 291s python3-memoized-property python3-mypy-extensions python3-numpy 291s python3-packaging python3-pandas python3-pandas-lib python3-platformdirs 291s python3-pluggy python3-pytest python3-serializable python3-simplejson 291s python3-six python3-tomlkit python3-typechecks python3-tz python3.13 291s python3.13-minimal 291s 0 upgraded, 38 newly installed, 0 to remove and 0 not upgraded. 291s Need to get 21.5 MB/21.5 MB of archives. 291s After this operation, 90.5 MB of additional disk space will be used. 291s Get:1 /tmp/autopkgtest.ejkml9/1-autopkgtest-satdep.deb autopkgtest-satdep armhf 0 [720 B] 291s Get:2 http://ftpmaster.internal/ubuntu plucky/main armhf libpython3.13-minimal armhf 3.13.0-2 [866 kB] 291s Get:3 http://ftpmaster.internal/ubuntu plucky/main armhf python3.13-minimal armhf 3.13.0-2 [1854 kB] 292s Get:4 http://ftpmaster.internal/ubuntu plucky/main armhf libblas3 armhf 3.12.0-3build2 [126 kB] 292s Get:5 http://ftpmaster.internal/ubuntu plucky/main armhf libgfortran5 armhf 14.2.0-8ubuntu1 [311 kB] 292s Get:6 http://ftpmaster.internal/ubuntu plucky/main armhf libjs-jquery all 3.6.1+dfsg+~3.5.14-1 [328 kB] 292s Get:7 http://ftpmaster.internal/ubuntu plucky/main armhf libjs-underscore all 1.13.4~dfsg+~1.11.4-3 [118 kB] 292s Get:8 http://ftpmaster.internal/ubuntu plucky/main armhf libjs-sphinxdoc all 7.4.7-4 [158 kB] 292s Get:9 http://ftpmaster.internal/ubuntu plucky/main armhf liblapack3 armhf 3.12.0-3build2 [2086 kB] 292s Get:10 http://ftpmaster.internal/ubuntu plucky/main armhf libpython3.13-stdlib armhf 3.13.0-2 [1972 kB] 293s Get:11 http://ftpmaster.internal/ubuntu plucky/universe armhf python3-astroid all 3.2.2-1 [174 kB] 293s Get:12 http://ftpmaster.internal/ubuntu plucky/universe armhf python3-isort all 5.13.2-2 [59.3 kB] 293s Get:13 http://ftpmaster.internal/ubuntu plucky/universe armhf python3-mypy-extensions all 1.0.0-1 [6148 B] 293s Get:14 http://ftpmaster.internal/ubuntu plucky/universe armhf python3-logilab-common all 2.0.0-1 [281 kB] 293s Get:15 http://ftpmaster.internal/ubuntu plucky/universe armhf python3-dill all 0.3.9-1 [84.5 kB] 293s Get:16 http://ftpmaster.internal/ubuntu plucky/universe armhf python3-mccabe all 0.7.0-1 [8678 B] 293s Get:17 http://ftpmaster.internal/ubuntu plucky/main armhf python3-platformdirs all 4.3.6-1 [16.8 kB] 293s Get:18 http://ftpmaster.internal/ubuntu plucky/universe armhf python3-tomlkit all 0.13.2-1 [37.6 kB] 293s Get:19 http://ftpmaster.internal/ubuntu plucky/universe armhf pylint all 3.2.7-1 [343 kB] 293s Get:20 http://ftpmaster.internal/ubuntu plucky/main armhf python3-six all 1.16.0-7 [13.1 kB] 293s Get:21 http://ftpmaster.internal/ubuntu plucky/main armhf python3-dateutil all 2.9.0-2 [80.3 kB] 293s Get:22 http://ftpmaster.internal/ubuntu plucky/main armhf python3-numpy armhf 1:1.26.4+ds-11build1 [3570 kB] 293s Get:23 http://ftpmaster.internal/ubuntu plucky/main armhf python3-tz all 2024.1-2 [31.4 kB] 293s Get:24 http://ftpmaster.internal/ubuntu plucky/universe armhf python3-pandas-lib armhf 2.2.3+dfsg-5 [4728 kB] 293s Get:25 http://ftpmaster.internal/ubuntu plucky/universe armhf python3-pandas all 2.2.3+dfsg-5 [3112 kB] 294s Get:26 http://ftpmaster.internal/ubuntu plucky/universe armhf python3-typechecks all 0.1.0+ds-4 [4562 B] 294s Get:27 http://ftpmaster.internal/ubuntu plucky/universe armhf python3-datacache all 1.4.1-2 [13.1 kB] 294s Get:28 http://ftpmaster.internal/ubuntu plucky/universe armhf python3-gtfparse all 1.3.0+ds-1 [10.1 kB] 294s Get:29 http://ftpmaster.internal/ubuntu plucky/universe armhf python3-memoized-property all 1.0.3-2 [5286 B] 294s Get:30 http://ftpmaster.internal/ubuntu plucky/main armhf python3-simplejson armhf 3.19.3-1 [52.2 kB] 294s Get:31 http://ftpmaster.internal/ubuntu plucky/universe armhf python3-serializable all 0.4.1+ds-1 [8392 B] 294s Get:32 http://ftpmaster.internal/ubuntu plucky/universe armhf pyensembl all 2.3.13-1 [37.1 kB] 294s Get:33 http://ftpmaster.internal/ubuntu plucky/main armhf python3.13 armhf 3.13.0-2 [719 kB] 294s Get:34 http://ftpmaster.internal/ubuntu plucky-proposed/main armhf python3-all armhf 3.12.7-1 [890 B] 294s Get:35 http://ftpmaster.internal/ubuntu plucky/universe armhf python3-iniconfig all 1.1.1-2 [6024 B] 294s Get:36 http://ftpmaster.internal/ubuntu plucky/main armhf python3-packaging all 24.1-1 [41.4 kB] 294s Get:37 http://ftpmaster.internal/ubuntu plucky/universe armhf python3-pluggy all 1.5.0-1 [21.0 kB] 294s Get:38 http://ftpmaster.internal/ubuntu plucky/universe armhf python3-pytest all 8.3.3-1 [251 kB] 294s Fetched 21.5 MB in 3s (6897 kB/s) 294s Selecting previously unselected package libpython3.13-minimal:armhf. 294s (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 ... 59567 files and directories currently installed.) 295s Preparing to unpack .../00-libpython3.13-minimal_3.13.0-2_armhf.deb ... 295s Unpacking libpython3.13-minimal:armhf (3.13.0-2) ... 295s Selecting previously unselected package python3.13-minimal. 295s Preparing to unpack .../01-python3.13-minimal_3.13.0-2_armhf.deb ... 295s Unpacking python3.13-minimal (3.13.0-2) ... 295s Selecting previously unselected package libblas3:armhf. 295s Preparing to unpack .../02-libblas3_3.12.0-3build2_armhf.deb ... 295s Unpacking libblas3:armhf (3.12.0-3build2) ... 295s Selecting previously unselected package libgfortran5:armhf. 295s Preparing to unpack .../03-libgfortran5_14.2.0-8ubuntu1_armhf.deb ... 295s Unpacking libgfortran5:armhf (14.2.0-8ubuntu1) ... 295s Selecting previously unselected package libjs-jquery. 295s Preparing to unpack .../04-libjs-jquery_3.6.1+dfsg+~3.5.14-1_all.deb ... 295s Unpacking libjs-jquery (3.6.1+dfsg+~3.5.14-1) ... 295s Selecting previously unselected package libjs-underscore. 295s Preparing to unpack .../05-libjs-underscore_1.13.4~dfsg+~1.11.4-3_all.deb ... 295s Unpacking libjs-underscore (1.13.4~dfsg+~1.11.4-3) ... 295s Selecting previously unselected package libjs-sphinxdoc. 295s Preparing to unpack .../06-libjs-sphinxdoc_7.4.7-4_all.deb ... 295s Unpacking libjs-sphinxdoc (7.4.7-4) ... 295s Selecting previously unselected package liblapack3:armhf. 295s Preparing to unpack .../07-liblapack3_3.12.0-3build2_armhf.deb ... 295s Unpacking liblapack3:armhf (3.12.0-3build2) ... 295s Selecting previously unselected package libpython3.13-stdlib:armhf. 295s Preparing to unpack .../08-libpython3.13-stdlib_3.13.0-2_armhf.deb ... 295s Unpacking libpython3.13-stdlib:armhf (3.13.0-2) ... 295s Selecting previously unselected package python3-astroid. 295s Preparing to unpack .../09-python3-astroid_3.2.2-1_all.deb ... 295s Unpacking python3-astroid (3.2.2-1) ... 295s Selecting previously unselected package python3-isort. 295s Preparing to unpack .../10-python3-isort_5.13.2-2_all.deb ... 295s Unpacking python3-isort (5.13.2-2) ... 295s Selecting previously unselected package python3-mypy-extensions. 295s Preparing to unpack .../11-python3-mypy-extensions_1.0.0-1_all.deb ... 295s Unpacking python3-mypy-extensions (1.0.0-1) ... 295s Selecting previously unselected package python3-logilab-common. 295s Preparing to unpack .../12-python3-logilab-common_2.0.0-1_all.deb ... 295s Unpacking python3-logilab-common (2.0.0-1) ... 296s Selecting previously unselected package python3-dill. 296s Preparing to unpack .../13-python3-dill_0.3.9-1_all.deb ... 296s Unpacking python3-dill (0.3.9-1) ... 296s Selecting previously unselected package python3-mccabe. 296s Preparing to unpack .../14-python3-mccabe_0.7.0-1_all.deb ... 296s Unpacking python3-mccabe (0.7.0-1) ... 296s Selecting previously unselected package python3-platformdirs. 296s Preparing to unpack .../15-python3-platformdirs_4.3.6-1_all.deb ... 296s Unpacking python3-platformdirs (4.3.6-1) ... 296s Selecting previously unselected package python3-tomlkit. 296s Preparing to unpack .../16-python3-tomlkit_0.13.2-1_all.deb ... 296s Unpacking python3-tomlkit (0.13.2-1) ... 296s Selecting previously unselected package pylint. 296s Preparing to unpack .../17-pylint_3.2.7-1_all.deb ... 296s Unpacking pylint (3.2.7-1) ... 296s Selecting previously unselected package python3-six. 296s Preparing to unpack .../18-python3-six_1.16.0-7_all.deb ... 296s Unpacking python3-six (1.16.0-7) ... 296s Selecting previously unselected package python3-dateutil. 296s Preparing to unpack .../19-python3-dateutil_2.9.0-2_all.deb ... 296s Unpacking python3-dateutil (2.9.0-2) ... 296s Selecting previously unselected package python3-numpy. 296s Preparing to unpack .../20-python3-numpy_1%3a1.26.4+ds-11build1_armhf.deb ... 296s Unpacking python3-numpy (1:1.26.4+ds-11build1) ... 296s Selecting previously unselected package python3-tz. 296s Preparing to unpack .../21-python3-tz_2024.1-2_all.deb ... 296s Unpacking python3-tz (2024.1-2) ... 296s Selecting previously unselected package python3-pandas-lib:armhf. 296s Preparing to unpack .../22-python3-pandas-lib_2.2.3+dfsg-5_armhf.deb ... 296s Unpacking python3-pandas-lib:armhf (2.2.3+dfsg-5) ... 296s Selecting previously unselected package python3-pandas. 297s Preparing to unpack .../23-python3-pandas_2.2.3+dfsg-5_all.deb ... 297s Unpacking python3-pandas (2.2.3+dfsg-5) ... 297s Selecting previously unselected package python3-typechecks. 297s Preparing to unpack .../24-python3-typechecks_0.1.0+ds-4_all.deb ... 297s Unpacking python3-typechecks (0.1.0+ds-4) ... 297s Selecting previously unselected package python3-datacache. 297s Preparing to unpack .../25-python3-datacache_1.4.1-2_all.deb ... 297s Unpacking python3-datacache (1.4.1-2) ... 297s Selecting previously unselected package python3-gtfparse. 297s Preparing to unpack .../26-python3-gtfparse_1.3.0+ds-1_all.deb ... 297s Unpacking python3-gtfparse (1.3.0+ds-1) ... 297s Selecting previously unselected package python3-memoized-property. 297s Preparing to unpack .../27-python3-memoized-property_1.0.3-2_all.deb ... 297s Unpacking python3-memoized-property (1.0.3-2) ... 297s Selecting previously unselected package python3-simplejson. 297s Preparing to unpack .../28-python3-simplejson_3.19.3-1_armhf.deb ... 297s Unpacking python3-simplejson (3.19.3-1) ... 297s Selecting previously unselected package python3-serializable. 297s Preparing to unpack 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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 300s Setting up python3-packaging (24.1-1) ... 301s Setting up python3-dill (0.3.9-1) ... 301s Setting up libgfortran5:armhf (14.2.0-8ubuntu1) ... 301s Setting up python3-isort (5.13.2-2) ... 302s Setting up python3-pluggy (1.5.0-1) ... 302s Setting up python3-astroid (3.2.2-1) ... 303s Setting up python3.13-minimal (3.13.0-2) ... 304s Setting up python3-dateutil (2.9.0-2) ... 304s Setting up python3-mccabe (0.7.0-1) ... 305s Setting up libjs-jquery (3.6.1+dfsg+~3.5.14-1) ... 305s Setting up python3-tomlkit (0.13.2-1) ... 305s Setting up libpython3.13-stdlib:armhf (3.13.0-2) ... 305s Setting up libjs-underscore (1.13.4~dfsg+~1.11.4-3) ... 305s Setting up liblapack3:armhf (3.12.0-3build2) ... 305s 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 305s Setting up python3.13 (3.13.0-2) ... 307s Setting up python3-pytest (8.3.3-1) ... 308s Setting up python3-all (3.12.7-1) ... 308s Setting up python3-serializable (0.4.1+ds-1) ... 308s Setting up python3-numpy (1:1.26.4+ds-11build1) ... 313s Setting up libjs-sphinxdoc (7.4.7-4) ... 313s Setting up python3-logilab-common (2.0.0-1) ... 314s Setting up python3-pandas-lib:armhf (2.2.3+dfsg-5) ... 314s Setting up python3-pandas (2.2.3+dfsg-5) ... 328s Setting up pylint (3.2.7-1) ... 330s Setting up python3-datacache (1.4.1-2) ... 330s Setting up python3-gtfparse (1.3.0+ds-1) ... 330s Setting up pyensembl (2.3.13-1) ... 330s Setting up autopkgtest-satdep (0) ... 330s Processing triggers for systemd (256.5-2ubuntu4) ... 331s Processing triggers for man-db (2.12.1-3) ... 331s Processing triggers for libc-bin (2.40-1ubuntu3) ... 347s (Reading database ... 64006 files and directories currently installed.) 347s Removing autopkgtest-satdep (0) ... 354s autopkgtest [19:35:29]: test run-unit-test: [----------------------- 357s ============================= test session starts ============================== 357s platform linux -- Python 3.13.0, pytest-8.3.3, pluggy-1.5.0 357s rootdir: /tmp/autopkgtest.ejkml9/autopkgtest_tmp 357s plugins: typeguard-4.4.1 357s collected 0 items / 4 errors 357s 357s ==================================== ERRORS ==================================== 357s ___________ ERROR collecting tests/test_ensembl_object_properties.py ___________ 357s ImportError while importing test module '/tmp/autopkgtest.ejkml9/autopkgtest_tmp/tests/test_ensembl_object_properties.py'. 357s Hint: make sure your test modules/packages have valid Python names. 357s Traceback: 357s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 357s return _bootstrap._gcd_import(name[level:], package, level) 357s tests/test_ensembl_object_properties.py:8: in 357s from .common import eq_ 357s tests/common.py:3: in 357s from pyensembl import genome_for_reference_name, cached_release 357s /usr/lib/python3/dist-packages/pyensembl/__init__.py:13: in 357s from .database import Database 357s /usr/lib/python3/dist-packages/pyensembl/database.py:17: in 357s import datacache 357s /usr/lib/python3/dist-packages/datacache/__init__.py:13: in 357s from .download import fetch_file, fetch_and_transform, fetch_csv_dataframe 357s /usr/lib/python3/dist-packages/datacache/download.py:24: in 357s import pandas as pd 357s /usr/lib/python3/dist-packages/pandas/__init__.py:19: in 357s raise ImportError( 357s E ImportError: Unable to import required dependencies: 357s E numpy: Error importing numpy: you should not try to import numpy from 357s E its source directory; please exit the numpy source tree, and relaunch 357s E your python interpreter from there. 357s _____________________ ERROR collecting tests/test_locus.py _____________________ 357s ImportError while importing test module '/tmp/autopkgtest.ejkml9/autopkgtest_tmp/tests/test_locus.py'. 357s Hint: make sure your test modules/packages have valid Python names. 357s Traceback: 357s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 357s return _bootstrap._gcd_import(name[level:], package, level) 357s tests/test_locus.py:1: in 357s from pyensembl.locus import Locus 357s /usr/lib/python3/dist-packages/pyensembl/__init__.py:13: in 357s from .database import Database 357s /usr/lib/python3/dist-packages/pyensembl/database.py:17: in 357s import datacache 357s /usr/lib/python3/dist-packages/datacache/__init__.py:13: in 357s from .download import fetch_file, fetch_and_transform, fetch_csv_dataframe 357s /usr/lib/python3/dist-packages/datacache/download.py:24: in 357s import pandas as pd 357s /usr/lib/python3/dist-packages/pandas/__init__.py:19: in 357s raise ImportError( 357s E ImportError: Unable to import required dependencies: 357s E numpy: Error importing numpy: you should not try to import numpy from 357s E its source directory; please exit the numpy source tree, and relaunch 357s E your python interpreter from there. 357s _______________ ERROR collecting tests/test_release_versions.py ________________ 357s ImportError while importing test module '/tmp/autopkgtest.ejkml9/autopkgtest_tmp/tests/test_release_versions.py'. 357s Hint: make sure your test modules/packages have valid Python names. 357s Traceback: 357s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 357s return _bootstrap._gcd_import(name[level:], package, level) 357s tests/test_release_versions.py:1: in 357s from pyensembl import EnsemblRelease, MAX_ENSEMBL_RELEASE 357s /usr/lib/python3/dist-packages/pyensembl/__init__.py:13: in 357s from .database import Database 357s /usr/lib/python3/dist-packages/pyensembl/database.py:17: in 357s import datacache 357s /usr/lib/python3/dist-packages/datacache/__init__.py:13: in 357s from .download import fetch_file, fetch_and_transform, fetch_csv_dataframe 357s /usr/lib/python3/dist-packages/datacache/download.py:24: in 357s import pandas as pd 357s /usr/lib/python3/dist-packages/pandas/__init__.py:19: in 357s raise ImportError( 357s E ImportError: Unable to import required dependencies: 357s E numpy: Error importing numpy: you should not try to import numpy from 357s E its source directory; please exit the numpy source tree, and relaunch 357s E your python interpreter from there. 357s _____________________ ERROR collecting tests/test_shell.py _____________________ 357s ImportError while importing test module '/tmp/autopkgtest.ejkml9/autopkgtest_tmp/tests/test_shell.py'. 357s Hint: make sure your test modules/packages have valid Python names. 357s Traceback: 357s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 357s return _bootstrap._gcd_import(name[level:], package, level) 357s tests/test_shell.py:1: in 357s from pyensembl.shell import parser, all_combinations_of_ensembl_genomes 357s /usr/lib/python3/dist-packages/pyensembl/__init__.py:13: in 357s from .database import Database 357s /usr/lib/python3/dist-packages/pyensembl/database.py:17: in 357s import datacache 357s /usr/lib/python3/dist-packages/datacache/__init__.py:13: in 357s from .download import fetch_file, fetch_and_transform, fetch_csv_dataframe 357s /usr/lib/python3/dist-packages/datacache/download.py:24: in 357s import pandas as pd 357s /usr/lib/python3/dist-packages/pandas/__init__.py:19: in 357s raise ImportError( 357s E ImportError: Unable to import required dependencies: 357s E numpy: Error importing numpy: you should not try to import numpy from 357s E its source directory; please exit the numpy source tree, and relaunch 357s E your python interpreter from there. 357s =========================== short test summary info ============================ 357s ERROR tests/test_ensembl_object_properties.py 357s ERROR tests/test_locus.py 357s ERROR tests/test_release_versions.py 357s ERROR tests/test_shell.py 357s !!!!!!!!!!!!!!!!!!! Interrupted: 4 errors during collection !!!!!!!!!!!!!!!!!!!! 357s ============================== 4 errors in 0.94s =============================== 358s autopkgtest [19:35:33]: test run-unit-test: -----------------------] 362s autopkgtest [19:35:37]: test run-unit-test: - - - - - - - - - - results - - - - - - - - - - 362s run-unit-test FAIL non-zero exit status 2 366s autopkgtest [19:35:41]: test pybuild-autopkgtest: preparing testbed 376s Reading package lists... 377s Building dependency tree... 377s Reading state information... 378s Starting pkgProblemResolver with broken count: 0 378s Starting 2 pkgProblemResolver with broken count: 0 378s Done 380s The following additional packages will be installed: 380s autoconf automake autopoint autotools-dev build-essential cpp cpp-14 380s cpp-14-arm-linux-gnueabihf cpp-arm-linux-gnueabihf debhelper debugedit 380s dh-autoreconf dh-python dh-strip-nondeterminism dwz g++ g++-14 380s g++-14-arm-linux-gnueabihf g++-arm-linux-gnueabihf gcc gcc-14 380s gcc-14-arm-linux-gnueabihf gcc-arm-linux-gnueabihf gettext intltool-debian 380s libarchive-zip-perl libasan8 libc-dev-bin libc6-dev libcc1-0 libcrypt-dev 380s libdebhelper-perl libfile-stripnondeterminism-perl libgcc-14-dev libgomp1 380s libisl23 libmpc3 libstdc++-14-dev libtool libubsan1 linux-libc-dev m4 380s po-debconf pybuild-plugin-autopkgtest rpcsvc-proto 380s Suggested packages: 380s autoconf-archive gnu-standards autoconf-doc cpp-doc gcc-14-locales 380s cpp-14-doc dh-make flit python3-build python3-installer python3-wheel 380s gcc-14-doc gcc-multilib manpages-dev flex bison gdb gcc-doc 380s gdb-arm-linux-gnueabihf gettext-doc libasprintf-dev libgettextpo-dev 380s libc-devtools glibc-doc libstdc++-14-doc libtool-doc gfortran 380s | fortran95-compiler gcj-jdk m4-doc libmail-box-perl 380s Recommended packages: 380s manpages manpages-dev libarchive-cpio-perl libltdl-dev libmail-sendmail-perl 380s The following NEW packages will be installed: 380s autoconf automake autopkgtest-satdep autopoint autotools-dev build-essential 380s cpp cpp-14 cpp-14-arm-linux-gnueabihf cpp-arm-linux-gnueabihf debhelper 380s debugedit dh-autoreconf dh-python dh-strip-nondeterminism dwz g++ g++-14 380s g++-14-arm-linux-gnueabihf g++-arm-linux-gnueabihf gcc gcc-14 380s gcc-14-arm-linux-gnueabihf gcc-arm-linux-gnueabihf gettext intltool-debian 380s libarchive-zip-perl libasan8 libc-dev-bin libc6-dev libcc1-0 libcrypt-dev 380s libdebhelper-perl libfile-stripnondeterminism-perl libgcc-14-dev libgomp1 380s libisl23 libmpc3 libstdc++-14-dev libtool libubsan1 linux-libc-dev m4 380s po-debconf pybuild-plugin-autopkgtest rpcsvc-proto 380s 0 upgraded, 46 newly installed, 0 to remove and 0 not upgraded. 380s Need to get 54.4 MB/54.4 MB of archives. 380s After this operation, 157 MB of additional disk space will be used. 380s Get:1 /tmp/autopkgtest.ejkml9/2-autopkgtest-satdep.deb autopkgtest-satdep armhf 0 [840 B] 380s Get:2 http://ftpmaster.internal/ubuntu plucky/main armhf m4 armhf 1.4.19-4build1 [235 kB] 380s Get:3 http://ftpmaster.internal/ubuntu plucky/main armhf autoconf all 2.72-3 [382 kB] 380s Get:4 http://ftpmaster.internal/ubuntu plucky/main armhf autotools-dev all 20220109.1 [44.9 kB] 380s Get:5 http://ftpmaster.internal/ubuntu plucky/main armhf automake all 1:1.16.5-1.3ubuntu1 [558 kB] 380s Get:6 http://ftpmaster.internal/ubuntu plucky/main armhf autopoint all 0.22.5-2 [616 kB] 380s Get:7 http://ftpmaster.internal/ubuntu plucky/main armhf libc-dev-bin armhf 2.40-1ubuntu3 [19.2 kB] 380s Get:8 http://ftpmaster.internal/ubuntu plucky/main armhf linux-libc-dev armhf 6.11.0-8.8 [1628 kB] 380s Get:9 http://ftpmaster.internal/ubuntu plucky/main armhf libcrypt-dev armhf 1:4.4.36-4build1 [120 kB] 380s Get:10 http://ftpmaster.internal/ubuntu plucky/main armhf rpcsvc-proto armhf 1.4.2-0ubuntu7 [62.2 kB] 380s Get:11 http://ftpmaster.internal/ubuntu plucky/main armhf libc6-dev armhf 2.40-1ubuntu3 [1370 kB] 380s Get:12 http://ftpmaster.internal/ubuntu plucky/main armhf libisl23 armhf 0.27-1 [546 kB] 380s Get:13 http://ftpmaster.internal/ubuntu plucky/main armhf libmpc3 armhf 1.3.1-1build2 [47.1 kB] 380s Get:14 http://ftpmaster.internal/ubuntu plucky/main armhf cpp-14-arm-linux-gnueabihf armhf 14.2.0-8ubuntu1 [9219 kB] 380s Get:15 http://ftpmaster.internal/ubuntu plucky/main armhf cpp-14 armhf 14.2.0-8ubuntu1 [1032 B] 380s Get:16 http://ftpmaster.internal/ubuntu plucky/main armhf cpp-arm-linux-gnueabihf armhf 4:14.1.0-2ubuntu1 [5464 B] 380s Get:17 http://ftpmaster.internal/ubuntu plucky/main armhf cpp armhf 4:14.1.0-2ubuntu1 [22.4 kB] 380s Get:18 http://ftpmaster.internal/ubuntu plucky/main armhf libcc1-0 armhf 14.2.0-8ubuntu1 [43.3 kB] 380s Get:19 http://ftpmaster.internal/ubuntu plucky/main armhf libgomp1 armhf 14.2.0-8ubuntu1 [125 kB] 380s Get:20 http://ftpmaster.internal/ubuntu plucky/main armhf libasan8 armhf 14.2.0-8ubuntu1 [2901 kB] 380s Get:21 http://ftpmaster.internal/ubuntu plucky/main armhf libubsan1 armhf 14.2.0-8ubuntu1 [1150 kB] 380s Get:22 http://ftpmaster.internal/ubuntu plucky/main armhf libgcc-14-dev armhf 14.2.0-8ubuntu1 [897 kB] 380s Get:23 http://ftpmaster.internal/ubuntu plucky/main armhf gcc-14-arm-linux-gnueabihf armhf 14.2.0-8ubuntu1 [18.0 MB] 381s Get:24 http://ftpmaster.internal/ubuntu plucky/main armhf gcc-14 armhf 14.2.0-8ubuntu1 [498 kB] 381s Get:25 http://ftpmaster.internal/ubuntu plucky/main armhf gcc-arm-linux-gnueabihf armhf 4:14.1.0-2ubuntu1 [1222 B] 381s Get:26 http://ftpmaster.internal/ubuntu plucky/main armhf gcc armhf 4:14.1.0-2ubuntu1 [5002 B] 381s Get:27 http://ftpmaster.internal/ubuntu plucky/main armhf libstdc++-14-dev armhf 14.2.0-8ubuntu1 [2569 kB] 381s Get:28 http://ftpmaster.internal/ubuntu plucky/main armhf g++-14-arm-linux-gnueabihf armhf 14.2.0-8ubuntu1 [10.5 MB] 381s Get:29 http://ftpmaster.internal/ubuntu plucky/main armhf g++-14 armhf 14.2.0-8ubuntu1 [19.9 kB] 381s Get:30 http://ftpmaster.internal/ubuntu plucky/main armhf g++-arm-linux-gnueabihf armhf 4:14.1.0-2ubuntu1 [968 B] 381s Get:31 http://ftpmaster.internal/ubuntu plucky/main armhf g++ armhf 4:14.1.0-2ubuntu1 [1084 B] 381s Get:32 http://ftpmaster.internal/ubuntu plucky/main armhf build-essential armhf 12.10ubuntu1 [4928 B] 381s Get:33 http://ftpmaster.internal/ubuntu plucky/main armhf libdebhelper-perl all 13.20ubuntu1 [94.2 kB] 381s Get:34 http://ftpmaster.internal/ubuntu plucky/main armhf libtool all 2.4.7-7build1 [166 kB] 381s Get:35 http://ftpmaster.internal/ubuntu plucky/main armhf dh-autoreconf all 20 [16.1 kB] 381s Get:36 http://ftpmaster.internal/ubuntu plucky/main armhf libarchive-zip-perl all 1.68-1 [90.2 kB] 381s Get:37 http://ftpmaster.internal/ubuntu plucky/main armhf libfile-stripnondeterminism-perl all 1.14.0-1 [20.1 kB] 381s Get:38 http://ftpmaster.internal/ubuntu plucky/main armhf dh-strip-nondeterminism all 1.14.0-1 [5058 B] 381s Get:39 http://ftpmaster.internal/ubuntu plucky/main armhf debugedit armhf 1:5.1-1 [46.5 kB] 381s Get:40 http://ftpmaster.internal/ubuntu plucky/main armhf dwz armhf 0.15-1build6 [116 kB] 381s Get:41 http://ftpmaster.internal/ubuntu plucky/main armhf gettext armhf 0.22.5-2 [995 kB] 381s Get:42 http://ftpmaster.internal/ubuntu plucky/main armhf intltool-debian all 0.35.0+20060710.6 [23.2 kB] 381s Get:43 http://ftpmaster.internal/ubuntu plucky/main armhf po-debconf all 1.0.21+nmu1 [233 kB] 381s Get:44 http://ftpmaster.internal/ubuntu plucky/main armhf debhelper all 13.20ubuntu1 [893 kB] 381s Get:45 http://ftpmaster.internal/ubuntu plucky/universe armhf dh-python all 6.20241024 [112 kB] 381s Get:46 http://ftpmaster.internal/ubuntu plucky/universe armhf pybuild-plugin-autopkgtest all 6.20241024 [1746 B] 382s Fetched 54.4 MB in 2s (25.8 MB/s) 382s Selecting previously unselected package m4. 382s (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 ... 64006 files and directories currently installed.) 382s Preparing to unpack .../00-m4_1.4.19-4build1_armhf.deb ... 382s Unpacking m4 (1.4.19-4build1) ... 382s Selecting previously unselected package autoconf. 382s Preparing to unpack .../01-autoconf_2.72-3_all.deb ... 382s Unpacking autoconf (2.72-3) ... 382s Selecting previously unselected package autotools-dev. 382s Preparing to unpack .../02-autotools-dev_20220109.1_all.deb ... 382s Unpacking autotools-dev (20220109.1) ... 382s Selecting previously unselected package automake. 382s Preparing to unpack .../03-automake_1%3a1.16.5-1.3ubuntu1_all.deb ... 382s Unpacking automake (1:1.16.5-1.3ubuntu1) ... 382s Selecting previously unselected package autopoint. 382s Preparing to unpack .../04-autopoint_0.22.5-2_all.deb ... 382s Unpacking autopoint (0.22.5-2) ... 382s Selecting previously unselected package libc-dev-bin. 382s Preparing to unpack .../05-libc-dev-bin_2.40-1ubuntu3_armhf.deb ... 382s Unpacking libc-dev-bin (2.40-1ubuntu3) ... 382s Selecting previously unselected package linux-libc-dev:armhf. 382s Preparing to unpack .../06-linux-libc-dev_6.11.0-8.8_armhf.deb ... 382s Unpacking linux-libc-dev:armhf (6.11.0-8.8) ... 383s Selecting previously unselected package libcrypt-dev:armhf. 383s Preparing to unpack .../07-libcrypt-dev_1%3a4.4.36-4build1_armhf.deb ... 383s Unpacking libcrypt-dev:armhf (1:4.4.36-4build1) ... 383s Selecting previously unselected package rpcsvc-proto. 383s Preparing to unpack .../08-rpcsvc-proto_1.4.2-0ubuntu7_armhf.deb ... 383s Unpacking rpcsvc-proto (1.4.2-0ubuntu7) ... 383s Selecting previously unselected package libc6-dev:armhf. 383s Preparing to unpack .../09-libc6-dev_2.40-1ubuntu3_armhf.deb ... 383s Unpacking libc6-dev:armhf (2.40-1ubuntu3) ... 383s Selecting previously unselected package libisl23:armhf. 383s Preparing to unpack .../10-libisl23_0.27-1_armhf.deb ... 383s Unpacking libisl23:armhf (0.27-1) ... 383s Selecting previously unselected package libmpc3:armhf. 383s Preparing to unpack .../11-libmpc3_1.3.1-1build2_armhf.deb ... 383s Unpacking libmpc3:armhf (1.3.1-1build2) ... 383s Selecting previously unselected package cpp-14-arm-linux-gnueabihf. 383s Preparing to unpack .../12-cpp-14-arm-linux-gnueabihf_14.2.0-8ubuntu1_armhf.deb ... 383s Unpacking cpp-14-arm-linux-gnueabihf (14.2.0-8ubuntu1) ... 383s Selecting previously unselected package cpp-14. 383s Preparing to unpack .../13-cpp-14_14.2.0-8ubuntu1_armhf.deb ... 383s Unpacking cpp-14 (14.2.0-8ubuntu1) ... 383s Selecting previously unselected package cpp-arm-linux-gnueabihf. 383s Preparing to unpack .../14-cpp-arm-linux-gnueabihf_4%3a14.1.0-2ubuntu1_armhf.deb ... 383s Unpacking cpp-arm-linux-gnueabihf (4:14.1.0-2ubuntu1) ... 383s Selecting previously unselected package cpp. 383s Preparing to unpack .../15-cpp_4%3a14.1.0-2ubuntu1_armhf.deb ... 383s Unpacking cpp (4:14.1.0-2ubuntu1) ... 383s Selecting previously unselected package libcc1-0:armhf. 384s Preparing to unpack .../16-libcc1-0_14.2.0-8ubuntu1_armhf.deb ... 384s Unpacking libcc1-0:armhf (14.2.0-8ubuntu1) ... 384s Selecting previously unselected package libgomp1:armhf. 384s Preparing to unpack .../17-libgomp1_14.2.0-8ubuntu1_armhf.deb ... 384s Unpacking libgomp1:armhf (14.2.0-8ubuntu1) ... 384s Selecting previously unselected package libasan8:armhf. 384s Preparing to unpack .../18-libasan8_14.2.0-8ubuntu1_armhf.deb ... 384s Unpacking libasan8:armhf (14.2.0-8ubuntu1) ... 384s Selecting previously unselected package libubsan1:armhf. 384s Preparing to unpack .../19-libubsan1_14.2.0-8ubuntu1_armhf.deb ... 384s Unpacking libubsan1:armhf (14.2.0-8ubuntu1) ... 384s Selecting previously unselected package libgcc-14-dev:armhf. 384s Preparing to unpack .../20-libgcc-14-dev_14.2.0-8ubuntu1_armhf.deb ... 384s Unpacking libgcc-14-dev:armhf (14.2.0-8ubuntu1) ... 384s Selecting previously unselected package gcc-14-arm-linux-gnueabihf. 384s Preparing to unpack .../21-gcc-14-arm-linux-gnueabihf_14.2.0-8ubuntu1_armhf.deb ... 384s Unpacking gcc-14-arm-linux-gnueabihf (14.2.0-8ubuntu1) ... 385s Selecting previously unselected package gcc-14. 385s Preparing to unpack .../22-gcc-14_14.2.0-8ubuntu1_armhf.deb ... 385s Unpacking gcc-14 (14.2.0-8ubuntu1) ... 385s Selecting previously unselected package gcc-arm-linux-gnueabihf. 385s Preparing to unpack .../23-gcc-arm-linux-gnueabihf_4%3a14.1.0-2ubuntu1_armhf.deb ... 385s Unpacking gcc-arm-linux-gnueabihf (4:14.1.0-2ubuntu1) ... 385s Selecting previously unselected package gcc. 385s Preparing to unpack .../24-gcc_4%3a14.1.0-2ubuntu1_armhf.deb ... 385s Unpacking gcc (4:14.1.0-2ubuntu1) ... 385s Selecting previously unselected package libstdc++-14-dev:armhf. 385s Preparing to unpack .../25-libstdc++-14-dev_14.2.0-8ubuntu1_armhf.deb ... 385s Unpacking libstdc++-14-dev:armhf (14.2.0-8ubuntu1) ... 385s Selecting previously unselected package g++-14-arm-linux-gnueabihf. 385s Preparing to unpack .../26-g++-14-arm-linux-gnueabihf_14.2.0-8ubuntu1_armhf.deb ... 385s Unpacking g++-14-arm-linux-gnueabihf (14.2.0-8ubuntu1) ... 385s Selecting previously unselected package g++-14. 385s Preparing to unpack .../27-g++-14_14.2.0-8ubuntu1_armhf.deb ... 385s Unpacking g++-14 (14.2.0-8ubuntu1) ... 385s Selecting previously unselected package g++-arm-linux-gnueabihf. 385s Preparing to unpack .../28-g++-arm-linux-gnueabihf_4%3a14.1.0-2ubuntu1_armhf.deb ... 385s Unpacking g++-arm-linux-gnueabihf (4:14.1.0-2ubuntu1) ... 385s Selecting previously unselected package g++. 385s Preparing to unpack .../29-g++_4%3a14.1.0-2ubuntu1_armhf.deb ... 385s Unpacking g++ (4:14.1.0-2ubuntu1) ... 385s Selecting previously unselected package build-essential. 385s Preparing to unpack .../30-build-essential_12.10ubuntu1_armhf.deb ... 385s Unpacking build-essential (12.10ubuntu1) ... 386s Selecting previously unselected package libdebhelper-perl. 386s Preparing to unpack .../31-libdebhelper-perl_13.20ubuntu1_all.deb ... 386s Unpacking libdebhelper-perl (13.20ubuntu1) ... 386s Selecting previously unselected package libtool. 386s Preparing to unpack .../32-libtool_2.4.7-7build1_all.deb ... 386s Unpacking libtool (2.4.7-7build1) ... 386s Selecting previously unselected package dh-autoreconf. 386s Preparing to unpack .../33-dh-autoreconf_20_all.deb ... 386s Unpacking dh-autoreconf (20) ... 386s Selecting previously unselected package libarchive-zip-perl. 386s Preparing to unpack .../34-libarchive-zip-perl_1.68-1_all.deb ... 386s Unpacking libarchive-zip-perl (1.68-1) ... 386s Selecting previously unselected package libfile-stripnondeterminism-perl. 386s Preparing to unpack .../35-libfile-stripnondeterminism-perl_1.14.0-1_all.deb ... 386s Unpacking libfile-stripnondeterminism-perl (1.14.0-1) ... 386s Selecting previously unselected package dh-strip-nondeterminism. 386s Preparing to unpack .../36-dh-strip-nondeterminism_1.14.0-1_all.deb ... 386s Unpacking dh-strip-nondeterminism (1.14.0-1) ... 386s Selecting previously unselected package debugedit. 386s Preparing to unpack .../37-debugedit_1%3a5.1-1_armhf.deb ... 386s Unpacking debugedit (1:5.1-1) ... 386s Selecting previously unselected package dwz. 386s Preparing to unpack .../38-dwz_0.15-1build6_armhf.deb ... 386s Unpacking dwz (0.15-1build6) ... 386s Selecting previously unselected package gettext. 386s Preparing to unpack .../39-gettext_0.22.5-2_armhf.deb ... 386s Unpacking gettext (0.22.5-2) ... 386s Selecting previously unselected package intltool-debian. 386s 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(0) ... 386s Setting up dh-python (6.20241024) ... 387s Setting up libarchive-zip-perl (1.68-1) ... 387s Setting up libdebhelper-perl (13.20ubuntu1) ... 387s Setting up linux-libc-dev:armhf (6.11.0-8.8) ... 387s Setting up m4 (1.4.19-4build1) ... 387s Setting up libgomp1:armhf (14.2.0-8ubuntu1) ... 387s Setting up autotools-dev (20220109.1) ... 387s Setting up rpcsvc-proto (1.4.2-0ubuntu7) ... 387s Setting up libmpc3:armhf (1.3.1-1build2) ... 387s Setting up autopoint (0.22.5-2) ... 387s Setting up autoconf (2.72-3) ... 387s Setting up libubsan1:armhf (14.2.0-8ubuntu1) ... 387s Setting up dwz (0.15-1build6) ... 387s Setting up libcrypt-dev:armhf (1:4.4.36-4build1) ... 387s Setting up libasan8:armhf (14.2.0-8ubuntu1) ... 387s Setting up debugedit (1:5.1-1) ... 387s Setting up libgcc-14-dev:armhf (14.2.0-8ubuntu1) ... 387s Setting up libisl23:armhf (0.27-1) ... 387s Setting up libc-dev-bin (2.40-1ubuntu3) ... 387s Setting up libcc1-0:armhf (14.2.0-8ubuntu1) ... 387s Setting up cpp-14-arm-linux-gnueabihf (14.2.0-8ubuntu1) ... 387s Setting up automake (1:1.16.5-1.3ubuntu1) ... 387s update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode 387s Setting up libfile-stripnondeterminism-perl (1.14.0-1) ... 387s Setting up gettext (0.22.5-2) ... 387s Setting up gcc-14-arm-linux-gnueabihf (14.2.0-8ubuntu1) ... 387s Setting up intltool-debian (0.35.0+20060710.6) ... 387s Setting up cpp-14 (14.2.0-8ubuntu1) ... 387s Setting up dh-strip-nondeterminism (1.14.0-1) ... 387s Setting up libc6-dev:armhf (2.40-1ubuntu3) ... 387s Setting up libstdc++-14-dev:armhf (14.2.0-8ubuntu1) ... 387s Setting up cpp-arm-linux-gnueabihf (4:14.1.0-2ubuntu1) ... 387s Setting up gcc-arm-linux-gnueabihf (4:14.1.0-2ubuntu1) ... 387s Setting up g++-14-arm-linux-gnueabihf (14.2.0-8ubuntu1) ... 387s Setting up po-debconf (1.0.21+nmu1) ... 387s Setting up gcc-14 (14.2.0-8ubuntu1) ... 387s Setting up cpp (4:14.1.0-2ubuntu1) ... 387s Setting up g++-14 (14.2.0-8ubuntu1) ... 387s Setting up g++-arm-linux-gnueabihf (4:14.1.0-2ubuntu1) ... 387s Setting up libtool (2.4.7-7build1) ... 387s Setting up gcc (4:14.1.0-2ubuntu1) ... 387s Setting up dh-autoreconf (20) ... 387s Setting up g++ (4:14.1.0-2ubuntu1) ... 387s update-alternatives: using /usr/bin/g++ to provide /usr/bin/c++ (c++) in auto mode 387s Setting up build-essential (12.10ubuntu1) ... 387s Setting up debhelper (13.20ubuntu1) ... 387s Setting up pybuild-plugin-autopkgtest (6.20241024) ... 387s Setting up autopkgtest-satdep (0) ... 387s Processing triggers for man-db (2.12.1-3) ... 388s Processing triggers for install-info (7.1.1-1) ... 388s Processing triggers for libc-bin (2.40-1ubuntu3) ... 402s (Reading database ... 67869 files and directories currently installed.) 402s Removing autopkgtest-satdep (0) ... 408s autopkgtest [19:36:23]: test pybuild-autopkgtest: pybuild-autopkgtest 408s autopkgtest [19:36:23]: test pybuild-autopkgtest: [----------------------- 410s pybuild-autopkgtest 411s I: pybuild base:311: cd /tmp/autopkgtest.ejkml9/autopkgtest_tmp/build; python3.13 -m pytest -v -k 'not test_download_cache.py and not test_gene_ids.py and not test_gene_names.py and not test_gene_objects.py and not test_id_length.py and not test_search.py and not test_serialization.py and not test_transcript_ids.py and not test_transcript_objects.py and not test_contigs.py and not test_exon_id.py and not test_exon_object.py and not test_string_representation.py and not test_timings.py and not test_transcript_sequences.py and not test_transcript_support_level.py' 411s ============================= test session starts ============================== 411s platform linux -- Python 3.13.0, pytest-8.3.3, pluggy-1.5.0 -- /usr/bin/python3.13 411s cachedir: .pytest_cache 411s rootdir: /tmp/autopkgtest.ejkml9/autopkgtest_tmp/build 411s plugins: typeguard-4.4.1 413s collecting ... collected 0 items / 25 errors 413s 413s ==================================== ERRORS ==================================== 413s ____________________ ERROR collecting tests/test_contigs.py ____________________ 413s ImportError while importing test module '/tmp/autopkgtest.ejkml9/autopkgtest_tmp/build/tests/test_contigs.py'. 413s Hint: make sure your test modules/packages have valid Python names. 413s Traceback: 413s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 413s return _bootstrap._gcd_import(name[level:], package, level) 413s tests/test_contigs.py:1: in 413s from pyensembl import genome_for_reference_name 413s /usr/lib/python3/dist-packages/pyensembl/__init__.py:13: in 413s from .database import Database 413s /usr/lib/python3/dist-packages/pyensembl/database.py:17: in 413s import datacache 413s /usr/lib/python3/dist-packages/datacache/__init__.py:13: in 413s from .download import fetch_file, fetch_and_transform, fetch_csv_dataframe 413s /usr/lib/python3/dist-packages/datacache/download.py:24: in 413s import pandas as pd 413s /usr/lib/python3/dist-packages/pandas/__init__.py:19: in 413s raise ImportError( 413s E ImportError: Unable to import required dependencies: 413s E numpy: Error importing numpy: you should not try to import numpy from 413s E its source directory; please exit the numpy source tree, and relaunch 413s E your python interpreter from there. 413s ________________ ERROR collecting tests/test_download_cache.py _________________ 413s ImportError while importing test module '/tmp/autopkgtest.ejkml9/autopkgtest_tmp/build/tests/test_download_cache.py'. 413s Hint: make sure your test modules/packages have valid Python names. 413s Traceback: 413s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 413s return _bootstrap._gcd_import(name[level:], package, level) 413s tests/test_download_cache.py:5: in 413s from pyensembl.download_cache import DownloadCache, MissingLocalFile, MissingRemoteFile 413s /usr/lib/python3/dist-packages/pyensembl/__init__.py:13: in 413s from .database import Database 413s /usr/lib/python3/dist-packages/pyensembl/database.py:17: in 413s import datacache 413s /usr/lib/python3/dist-packages/datacache/__init__.py:13: in 413s from .download import fetch_file, fetch_and_transform, fetch_csv_dataframe 413s /usr/lib/python3/dist-packages/datacache/download.py:24: in 413s import pandas as pd 413s /usr/lib/python3/dist-packages/pandas/__init__.py:19: in 413s raise ImportError( 413s E ImportError: Unable to import required dependencies: 413s E numpy: Error importing numpy: you should not try to import numpy from 413s E its source directory; please exit the numpy source tree, and relaunch 413s E your python interpreter from there. 413s __________________ ERROR collecting tests/test_ensembl_gtf.py __________________ 413s ImportError while importing test module '/tmp/autopkgtest.ejkml9/autopkgtest_tmp/build/tests/test_ensembl_gtf.py'. 413s Hint: make sure your test modules/packages have valid Python names. 413s Traceback: 413s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 413s return _bootstrap._gcd_import(name[level:], package, level) 413s tests/test_ensembl_gtf.py:5: in 413s from .common import run_multiple_genomes 413s tests/common.py:3: in 413s from pyensembl import genome_for_reference_name, cached_release 413s /usr/lib/python3/dist-packages/pyensembl/__init__.py:13: in 413s from .database import Database 413s /usr/lib/python3/dist-packages/pyensembl/database.py:17: in 413s import datacache 413s /usr/lib/python3/dist-packages/datacache/__init__.py:13: in 413s from .download import fetch_file, fetch_and_transform, fetch_csv_dataframe 413s /usr/lib/python3/dist-packages/datacache/download.py:24: in 413s import pandas as pd 413s /usr/lib/python3/dist-packages/pandas/__init__.py:19: in 413s raise ImportError( 413s E ImportError: Unable to import required dependencies: 413s E numpy: Error importing numpy: you should not try to import numpy from 413s E its source directory; please exit the numpy source tree, and relaunch 413s E your python interpreter from there. 413s ___________ ERROR collecting tests/test_ensembl_object_properties.py ___________ 413s ImportError while importing test module '/tmp/autopkgtest.ejkml9/autopkgtest_tmp/build/tests/test_ensembl_object_properties.py'. 413s Hint: make sure your test modules/packages have valid Python names. 413s Traceback: 413s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 413s return _bootstrap._gcd_import(name[level:], package, level) 413s tests/test_ensembl_object_properties.py:8: in 413s from .common import eq_ 413s tests/common.py:3: in 413s from pyensembl import genome_for_reference_name, cached_release 413s /usr/lib/python3/dist-packages/pyensembl/__init__.py:13: in 413s from .database import Database 413s /usr/lib/python3/dist-packages/pyensembl/database.py:17: in 413s import datacache 413s /usr/lib/python3/dist-packages/datacache/__init__.py:13: in 413s from .download import fetch_file, fetch_and_transform, fetch_csv_dataframe 413s /usr/lib/python3/dist-packages/datacache/download.py:24: in 413s import pandas as pd 413s /usr/lib/python3/dist-packages/pandas/__init__.py:19: in 413s raise ImportError( 413s E ImportError: Unable to import required dependencies: 413s E numpy: Error importing numpy: you should not try to import numpy from 413s E its source directory; please exit the numpy source tree, and relaunch 413s E your python interpreter from there. 413s ____________________ ERROR collecting tests/test_exon_id.py ____________________ 413s ImportError while importing test module '/tmp/autopkgtest.ejkml9/autopkgtest_tmp/build/tests/test_exon_id.py'. 413s Hint: make sure your test modules/packages have valid Python names. 413s Traceback: 413s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 413s return _bootstrap._gcd_import(name[level:], package, level) 413s tests/test_exon_id.py:7: in 413s from pyensembl import cached_release 413s /usr/lib/python3/dist-packages/pyensembl/__init__.py:13: in 413s from .database import Database 413s /usr/lib/python3/dist-packages/pyensembl/database.py:17: in 413s import datacache 413s /usr/lib/python3/dist-packages/datacache/__init__.py:13: in 413s from .download import fetch_file, fetch_and_transform, fetch_csv_dataframe 413s /usr/lib/python3/dist-packages/datacache/download.py:24: in 413s import pandas as pd 413s /usr/lib/python3/dist-packages/pandas/__init__.py:19: in 413s raise ImportError( 413s E ImportError: Unable to import required dependencies: 413s E numpy: Error importing numpy: you should not try to import numpy from 413s E its source directory; please exit the numpy source tree, and relaunch 413s E your python interpreter from there. 413s __________________ ERROR collecting tests/test_exon_object.py __________________ 413s ImportError while importing test module '/tmp/autopkgtest.ejkml9/autopkgtest_tmp/build/tests/test_exon_object.py'. 413s Hint: make sure your test modules/packages have valid Python names. 413s Traceback: 413s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 413s return _bootstrap._gcd_import(name[level:], package, level) 413s tests/test_exon_object.py:8: in 413s from pyensembl import cached_release 413s /usr/lib/python3/dist-packages/pyensembl/__init__.py:13: in 413s from .database import Database 413s /usr/lib/python3/dist-packages/pyensembl/database.py:17: in 413s import datacache 413s /usr/lib/python3/dist-packages/datacache/__init__.py:13: in 413s from .download import fetch_file, fetch_and_transform, fetch_csv_dataframe 413s /usr/lib/python3/dist-packages/datacache/download.py:24: in 413s import pandas as pd 413s /usr/lib/python3/dist-packages/pandas/__init__.py:19: in 413s raise ImportError( 413s E ImportError: Unable to import required dependencies: 413s E numpy: Error importing numpy: you should not try to import numpy from 413s E its source directory; please exit the numpy source tree, and relaunch 413s E your python interpreter from there. 413s ___________________ ERROR collecting tests/test_gene_ids.py ____________________ 413s ImportError while importing test module '/tmp/autopkgtest.ejkml9/autopkgtest_tmp/build/tests/test_gene_ids.py'. 413s Hint: make sure your test modules/packages have valid Python names. 413s Traceback: 413s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 413s return _bootstrap._gcd_import(name[level:], package, level) 413s tests/test_gene_ids.py:10: in 413s from pyensembl import ensembl_grch38, cached_release 413s /usr/lib/python3/dist-packages/pyensembl/__init__.py:13: in 413s from .database import Database 413s /usr/lib/python3/dist-packages/pyensembl/database.py:17: in 413s import datacache 413s /usr/lib/python3/dist-packages/datacache/__init__.py:13: in 413s from .download import fetch_file, fetch_and_transform, fetch_csv_dataframe 413s /usr/lib/python3/dist-packages/datacache/download.py:24: in 413s import pandas as pd 413s /usr/lib/python3/dist-packages/pandas/__init__.py:19: in 413s raise ImportError( 413s E ImportError: Unable to import required dependencies: 413s E numpy: Error importing numpy: you should not try to import numpy from 413s E its source directory; please exit the numpy source tree, and relaunch 413s E your python interpreter from there. 413s __________________ ERROR collecting tests/test_gene_names.py ___________________ 413s ImportError while importing test module '/tmp/autopkgtest.ejkml9/autopkgtest_tmp/build/tests/test_gene_names.py'. 413s Hint: make sure your test modules/packages have valid Python names. 413s Traceback: 413s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 413s return _bootstrap._gcd_import(name[level:], package, level) 413s tests/test_gene_names.py:6: in 413s from pyensembl import genome_for_reference_name 413s /usr/lib/python3/dist-packages/pyensembl/__init__.py:13: in 413s from .database import Database 413s /usr/lib/python3/dist-packages/pyensembl/database.py:17: in 413s import datacache 413s /usr/lib/python3/dist-packages/datacache/__init__.py:13: in 413s from .download import fetch_file, fetch_and_transform, fetch_csv_dataframe 413s /usr/lib/python3/dist-packages/datacache/download.py:24: in 413s import pandas as pd 413s /usr/lib/python3/dist-packages/pandas/__init__.py:19: in 413s raise ImportError( 413s E ImportError: Unable to import required dependencies: 413s E numpy: Error importing numpy: you should not try to import numpy from 413s E its source directory; please exit the numpy source tree, and relaunch 413s E your python interpreter from there. 413s _________________ ERROR collecting tests/test_gene_objects.py __________________ 413s ImportError while importing test module '/tmp/autopkgtest.ejkml9/autopkgtest_tmp/build/tests/test_gene_objects.py'. 413s Hint: make sure your test modules/packages have valid Python names. 413s Traceback: 413s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 413s return _bootstrap._gcd_import(name[level:], package, level) 413s tests/test_gene_objects.py:1: in 413s from .common import eq_ 413s tests/common.py:3: in 413s from pyensembl import genome_for_reference_name, cached_release 413s /usr/lib/python3/dist-packages/pyensembl/__init__.py:13: in 413s from .database import Database 413s /usr/lib/python3/dist-packages/pyensembl/database.py:17: in 413s import datacache 413s /usr/lib/python3/dist-packages/datacache/__init__.py:13: in 413s from .download import fetch_file, fetch_and_transform, fetch_csv_dataframe 413s /usr/lib/python3/dist-packages/datacache/download.py:24: in 413s import pandas as pd 413s /usr/lib/python3/dist-packages/pandas/__init__.py:19: in 413s raise ImportError( 413s E ImportError: Unable to import required dependencies: 413s E numpy: Error importing numpy: you should not try to import numpy from 413s E its source directory; please exit the numpy source tree, and relaunch 413s E your python interpreter from there. 413s ___________________ ERROR collecting tests/test_id_length.py ___________________ 413s ImportError while importing test module '/tmp/autopkgtest.ejkml9/autopkgtest_tmp/build/tests/test_id_length.py'. 413s Hint: make sure your test modules/packages have valid Python names. 413s Traceback: 413s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 413s return _bootstrap._gcd_import(name[level:], package, level) 413s tests/test_id_length.py:1: in 413s from .common import major_releases 413s tests/common.py:3: in 413s from pyensembl import genome_for_reference_name, cached_release 413s /usr/lib/python3/dist-packages/pyensembl/__init__.py:13: in 413s from .database import Database 413s /usr/lib/python3/dist-packages/pyensembl/database.py:17: in 413s import datacache 413s /usr/lib/python3/dist-packages/datacache/__init__.py:13: in 413s from .download import fetch_file, fetch_and_transform, fetch_csv_dataframe 413s /usr/lib/python3/dist-packages/datacache/download.py:24: in 413s import pandas as pd 413s /usr/lib/python3/dist-packages/pandas/__init__.py:19: in 413s raise ImportError( 413s E ImportError: Unable to import required dependencies: 413s E numpy: Error importing numpy: you should not try to import numpy from 413s E its source directory; please exit the numpy source tree, and relaunch 413s E your python interpreter from there. 413s _____________________ ERROR collecting tests/test_locus.py _____________________ 413s ImportError while importing test module '/tmp/autopkgtest.ejkml9/autopkgtest_tmp/build/tests/test_locus.py'. 413s Hint: make sure your test modules/packages have valid Python names. 413s Traceback: 413s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 413s return _bootstrap._gcd_import(name[level:], package, level) 413s tests/test_locus.py:1: in 413s from pyensembl.locus import Locus 413s /usr/lib/python3/dist-packages/pyensembl/__init__.py:13: in 413s from .database import Database 413s /usr/lib/python3/dist-packages/pyensembl/database.py:17: in 413s import datacache 413s /usr/lib/python3/dist-packages/datacache/__init__.py:13: in 413s from .download import fetch_file, fetch_and_transform, fetch_csv_dataframe 413s /usr/lib/python3/dist-packages/datacache/download.py:24: in 413s import pandas as pd 413s /usr/lib/python3/dist-packages/pandas/__init__.py:19: in 413s raise ImportError( 413s E ImportError: Unable to import required dependencies: 413s E numpy: Error importing numpy: you should not try to import numpy from 413s E its source directory; please exit the numpy source tree, and relaunch 413s E your python interpreter from there. 413s ____________ ERROR collecting tests/test_missing_genome_sources.py _____________ 413s ImportError while importing test module '/tmp/autopkgtest.ejkml9/autopkgtest_tmp/build/tests/test_missing_genome_sources.py'. 413s Hint: make sure your test modules/packages have valid Python names. 413s Traceback: 413s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 413s return _bootstrap._gcd_import(name[level:], package, level) 413s tests/test_missing_genome_sources.py:1: in 413s from pyensembl import Genome 413s /usr/lib/python3/dist-packages/pyensembl/__init__.py:13: in 413s from .database import Database 413s /usr/lib/python3/dist-packages/pyensembl/database.py:17: in 413s import datacache 413s /usr/lib/python3/dist-packages/datacache/__init__.py:13: in 413s from .download import fetch_file, fetch_and_transform, fetch_csv_dataframe 413s /usr/lib/python3/dist-packages/datacache/download.py:24: in 413s import pandas as pd 413s /usr/lib/python3/dist-packages/pandas/__init__.py:19: in 413s raise ImportError( 413s E ImportError: Unable to import required dependencies: 413s E numpy: Error importing numpy: you should not try to import numpy from 413s E its source directory; please exit the numpy source tree, and relaunch 413s E your python interpreter from there. 413s _____________________ ERROR collecting tests/test_mouse.py _____________________ 413s ImportError while importing test module '/tmp/autopkgtest.ejkml9/autopkgtest_tmp/build/tests/test_mouse.py'. 413s Hint: make sure your test modules/packages have valid Python names. 413s Traceback: 413s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 413s return _bootstrap._gcd_import(name[level:], package, level) 413s tests/test_mouse.py:1: in 413s from .common import eq_ 413s tests/common.py:3: in 413s from pyensembl import genome_for_reference_name, cached_release 413s /usr/lib/python3/dist-packages/pyensembl/__init__.py:13: in 413s from .database import Database 413s /usr/lib/python3/dist-packages/pyensembl/database.py:17: in 413s import datacache 413s /usr/lib/python3/dist-packages/datacache/__init__.py:13: in 413s from .download import fetch_file, fetch_and_transform, fetch_csv_dataframe 413s /usr/lib/python3/dist-packages/datacache/download.py:24: in 413s import pandas as pd 413s /usr/lib/python3/dist-packages/pandas/__init__.py:19: in 413s raise ImportError( 413s E ImportError: Unable to import required dependencies: 413s E numpy: Error importing numpy: you should not try to import numpy from 413s E its source directory; please exit the numpy source tree, and relaunch 413s E your python interpreter from there. 413s _______________ ERROR collecting tests/test_release_versions.py ________________ 413s ImportError while importing test module '/tmp/autopkgtest.ejkml9/autopkgtest_tmp/build/tests/test_release_versions.py'. 413s Hint: make sure your test modules/packages have valid Python names. 413s Traceback: 413s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 413s return _bootstrap._gcd_import(name[level:], package, level) 413s tests/test_release_versions.py:1: in 413s from pyensembl import EnsemblRelease, MAX_ENSEMBL_RELEASE 413s /usr/lib/python3/dist-packages/pyensembl/__init__.py:13: in 413s from .database import Database 413s /usr/lib/python3/dist-packages/pyensembl/database.py:17: in 413s import datacache 413s /usr/lib/python3/dist-packages/datacache/__init__.py:13: in 413s from .download import fetch_file, fetch_and_transform, fetch_csv_dataframe 413s /usr/lib/python3/dist-packages/datacache/download.py:24: in 413s import pandas as pd 413s /usr/lib/python3/dist-packages/pandas/__init__.py:19: in 413s raise ImportError( 413s E ImportError: Unable to import required dependencies: 413s E numpy: Error importing numpy: you should not try to import numpy from 413s E its source directory; please exit the numpy source tree, and relaunch 413s E your python interpreter from there. 413s ____________________ ERROR collecting tests/test_search.py _____________________ 413s ImportError while importing test module '/tmp/autopkgtest.ejkml9/autopkgtest_tmp/build/tests/test_search.py'. 413s Hint: make sure your test modules/packages have valid Python names. 413s Traceback: 413s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 413s return _bootstrap._gcd_import(name[level:], package, level) 413s tests/test_search.py:1: in 413s from pyensembl import find_nearest_locus 413s /usr/lib/python3/dist-packages/pyensembl/__init__.py:13: in 413s from .database import Database 413s /usr/lib/python3/dist-packages/pyensembl/database.py:17: in 413s import datacache 413s /usr/lib/python3/dist-packages/datacache/__init__.py:13: in 413s from .download import fetch_file, fetch_and_transform, fetch_csv_dataframe 413s /usr/lib/python3/dist-packages/datacache/download.py:24: in 413s import pandas as pd 413s /usr/lib/python3/dist-packages/pandas/__init__.py:19: in 413s raise ImportError( 413s E ImportError: Unable to import required dependencies: 413s E numpy: Error importing numpy: you should not try to import numpy from 413s E its source directory; please exit the numpy source tree, and relaunch 413s E your python interpreter from there. 413s _________________ ERROR collecting tests/test_sequence_data.py _________________ 413s ImportError while importing test module '/tmp/autopkgtest.ejkml9/autopkgtest_tmp/build/tests/test_sequence_data.py'. 413s Hint: make sure your test modules/packages have valid Python names. 413s Traceback: 413s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 413s return _bootstrap._gcd_import(name[level:], package, level) 413s tests/test_sequence_data.py:8: in 413s from pyensembl import SequenceData 413s /usr/lib/python3/dist-packages/pyensembl/__init__.py:13: in 413s from .database import Database 413s /usr/lib/python3/dist-packages/pyensembl/database.py:17: in 413s import datacache 413s /usr/lib/python3/dist-packages/datacache/__init__.py:13: in 413s from .download import fetch_file, fetch_and_transform, fetch_csv_dataframe 413s /usr/lib/python3/dist-packages/datacache/download.py:24: in 413s import pandas as pd 413s /usr/lib/python3/dist-packages/pandas/__init__.py:19: in 413s raise ImportError( 413s E ImportError: Unable to import required dependencies: 413s E numpy: Error importing numpy: you should not try to import numpy from 413s E its source directory; please exit the numpy source tree, and relaunch 413s E your python interpreter from there. 413s _________________ ERROR collecting tests/test_serialization.py _________________ 413s ImportError while importing test module '/tmp/autopkgtest.ejkml9/autopkgtest_tmp/build/tests/test_serialization.py'. 413s Hint: make sure your test modules/packages have valid Python names. 413s Traceback: 413s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 413s return _bootstrap._gcd_import(name[level:], package, level) 413s tests/test_serialization.py:15: in 413s from pyensembl import Genome, Transcript, Gene, Exon 413s /usr/lib/python3/dist-packages/pyensembl/__init__.py:13: in 413s from .database import Database 413s /usr/lib/python3/dist-packages/pyensembl/database.py:17: in 413s import datacache 413s /usr/lib/python3/dist-packages/datacache/__init__.py:13: in 413s from .download import fetch_file, fetch_and_transform, fetch_csv_dataframe 413s /usr/lib/python3/dist-packages/datacache/download.py:24: in 413s import pandas as pd 413s /usr/lib/python3/dist-packages/pandas/__init__.py:19: in 413s raise ImportError( 413s E ImportError: Unable to import required dependencies: 413s E numpy: Error importing numpy: you should not try to import numpy from 413s E its source directory; please exit the numpy source tree, and relaunch 413s E your python interpreter from there. 413s _____________________ ERROR collecting tests/test_shell.py _____________________ 413s ImportError while importing test module '/tmp/autopkgtest.ejkml9/autopkgtest_tmp/build/tests/test_shell.py'. 413s Hint: make sure your test modules/packages have valid Python names. 413s Traceback: 413s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 413s return _bootstrap._gcd_import(name[level:], package, level) 413s tests/test_shell.py:1: in 413s from pyensembl.shell import parser, all_combinations_of_ensembl_genomes 413s /usr/lib/python3/dist-packages/pyensembl/__init__.py:13: in 413s from .database import Database 413s /usr/lib/python3/dist-packages/pyensembl/database.py:17: in 413s import datacache 413s /usr/lib/python3/dist-packages/datacache/__init__.py:13: in 413s from .download import fetch_file, fetch_and_transform, fetch_csv_dataframe 413s /usr/lib/python3/dist-packages/datacache/download.py:24: in 413s import pandas as pd 413s /usr/lib/python3/dist-packages/pandas/__init__.py:19: in 413s raise ImportError( 413s E ImportError: Unable to import required dependencies: 413s E numpy: Error importing numpy: you should not try to import numpy from 413s E its source directory; please exit the numpy source tree, and relaunch 413s E your python interpreter from there. 413s _____________ ERROR collecting tests/test_string_representation.py _____________ 413s ImportError while importing test module '/tmp/autopkgtest.ejkml9/autopkgtest_tmp/build/tests/test_string_representation.py'. 413s Hint: make sure your test modules/packages have valid Python names. 413s Traceback: 413s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 413s return _bootstrap._gcd_import(name[level:], package, level) 413s tests/test_string_representation.py:1: in 413s from pyensembl import Locus, Gene, ensembl_grch37, Transcript, Exon 413s /usr/lib/python3/dist-packages/pyensembl/__init__.py:13: in 413s from .database import Database 413s /usr/lib/python3/dist-packages/pyensembl/database.py:17: in 413s import datacache 413s /usr/lib/python3/dist-packages/datacache/__init__.py:13: in 413s from .download import fetch_file, fetch_and_transform, fetch_csv_dataframe 413s /usr/lib/python3/dist-packages/datacache/download.py:24: in 413s import pandas as pd 413s /usr/lib/python3/dist-packages/pandas/__init__.py:19: in 413s raise ImportError( 413s E ImportError: Unable to import required dependencies: 413s E numpy: Error importing numpy: you should not try to import numpy from 413s E its source directory; please exit the numpy source tree, and relaunch 413s E your python interpreter from there. 413s ____________________ ERROR collecting tests/test_timings.py ____________________ 413s ImportError while importing test module '/tmp/autopkgtest.ejkml9/autopkgtest_tmp/build/tests/test_timings.py'. 413s Hint: make sure your test modules/packages have valid Python names. 413s Traceback: 413s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 413s return _bootstrap._gcd_import(name[level:], package, level) 413s tests/test_timings.py:1: in 413s from pyensembl import genome_for_reference_name 413s /usr/lib/python3/dist-packages/pyensembl/__init__.py:13: in 413s from .database import Database 413s /usr/lib/python3/dist-packages/pyensembl/database.py:17: in 413s import datacache 413s /usr/lib/python3/dist-packages/datacache/__init__.py:13: in 413s from .download import fetch_file, fetch_and_transform, fetch_csv_dataframe 413s /usr/lib/python3/dist-packages/datacache/download.py:24: in 413s import pandas as pd 413s /usr/lib/python3/dist-packages/pandas/__init__.py:19: in 413s raise ImportError( 413s E ImportError: Unable to import required dependencies: 413s E numpy: Error importing numpy: you should not try to import numpy from 413s E its source directory; please exit the numpy source tree, and relaunch 413s E your python interpreter from there. 413s ________________ ERROR collecting tests/test_transcript_ids.py _________________ 413s ImportError while importing test module '/tmp/autopkgtest.ejkml9/autopkgtest_tmp/build/tests/test_transcript_ids.py'. 413s Hint: make sure your test modules/packages have valid Python names. 413s Traceback: 413s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 413s return _bootstrap._gcd_import(name[level:], package, level) 413s tests/test_transcript_ids.py:7: in 413s from pyensembl import genome_for_reference_name 413s /usr/lib/python3/dist-packages/pyensembl/__init__.py:13: in 413s from .database import Database 413s /usr/lib/python3/dist-packages/pyensembl/database.py:17: in 413s import datacache 413s /usr/lib/python3/dist-packages/datacache/__init__.py:13: in 413s from .download import fetch_file, fetch_and_transform, fetch_csv_dataframe 413s /usr/lib/python3/dist-packages/datacache/download.py:24: in 413s import pandas as pd 413s /usr/lib/python3/dist-packages/pandas/__init__.py:19: in 413s raise ImportError( 413s E ImportError: Unable to import required dependencies: 413s E numpy: Error importing numpy: you should not try to import numpy from 413s E its source directory; please exit the numpy source tree, and relaunch 413s E your python interpreter from there. 413s ______________ ERROR collecting tests/test_transcript_objects.py _______________ 413s ImportError while importing test module '/tmp/autopkgtest.ejkml9/autopkgtest_tmp/build/tests/test_transcript_objects.py'. 413s Hint: make sure your test modules/packages have valid Python names. 413s Traceback: 413s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 413s return _bootstrap._gcd_import(name[level:], package, level) 413s tests/test_transcript_objects.py:1: in 413s from pyensembl import Locus, cached_release 413s /usr/lib/python3/dist-packages/pyensembl/__init__.py:13: in 413s from .database import Database 413s /usr/lib/python3/dist-packages/pyensembl/database.py:17: in 413s import datacache 413s /usr/lib/python3/dist-packages/datacache/__init__.py:13: in 413s from .download import fetch_file, fetch_and_transform, fetch_csv_dataframe 413s /usr/lib/python3/dist-packages/datacache/download.py:24: in 413s import pandas as pd 413s /usr/lib/python3/dist-packages/pandas/__init__.py:19: in 413s raise ImportError( 413s E ImportError: Unable to import required dependencies: 413s E numpy: Error importing numpy: you should not try to import numpy from 413s E its source directory; please exit the numpy source tree, and relaunch 413s E your python interpreter from there. 413s _____________ ERROR collecting tests/test_transcript_sequences.py ______________ 413s ImportError while importing test module '/tmp/autopkgtest.ejkml9/autopkgtest_tmp/build/tests/test_transcript_sequences.py'. 413s Hint: make sure your test modules/packages have valid Python names. 413s Traceback: 413s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 413s return _bootstrap._gcd_import(name[level:], package, level) 413s tests/test_transcript_sequences.py:7: in 413s from .common import eq_ 413s tests/common.py:3: in 413s from pyensembl import genome_for_reference_name, cached_release 413s /usr/lib/python3/dist-packages/pyensembl/__init__.py:13: in 413s from .database import Database 413s /usr/lib/python3/dist-packages/pyensembl/database.py:17: in 413s import datacache 413s /usr/lib/python3/dist-packages/datacache/__init__.py:13: in 413s from .download import fetch_file, fetch_and_transform, fetch_csv_dataframe 413s /usr/lib/python3/dist-packages/datacache/download.py:24: in 413s import pandas as pd 413s /usr/lib/python3/dist-packages/pandas/__init__.py:19: in 413s raise ImportError( 413s E ImportError: Unable to import required dependencies: 413s E numpy: Error importing numpy: you should not try to import numpy from 413s E its source directory; please exit the numpy source tree, and relaunch 413s E your python interpreter from there. 413s ___________ ERROR collecting tests/test_transcript_support_level.py ____________ 413s ImportError while importing test module '/tmp/autopkgtest.ejkml9/autopkgtest_tmp/build/tests/test_transcript_support_level.py'. 413s Hint: make sure your test modules/packages have valid Python names. 413s Traceback: 413s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 413s return _bootstrap._gcd_import(name[level:], package, level) 413s tests/test_transcript_support_level.py:7: in 413s from .common import eq_ 413s tests/common.py:3: in 413s from pyensembl import genome_for_reference_name, cached_release 413s /usr/lib/python3/dist-packages/pyensembl/__init__.py:13: in 413s from .database import Database 413s /usr/lib/python3/dist-packages/pyensembl/database.py:17: in 413s import datacache 413s /usr/lib/python3/dist-packages/datacache/__init__.py:13: in 413s from .download import fetch_file, fetch_and_transform, fetch_csv_dataframe 413s /usr/lib/python3/dist-packages/datacache/download.py:24: in 413s import pandas as pd 413s /usr/lib/python3/dist-packages/pandas/__init__.py:19: in 413s raise ImportError( 413s E ImportError: Unable to import required dependencies: 413s E numpy: Error importing numpy: you should not try to import numpy from 413s E its source directory; please exit the numpy source tree, and relaunch 413s E your python interpreter from there. 413s ___________________ ERROR collecting tests/test_ucsc_gtf.py ____________________ 413s ImportError while importing test module '/tmp/autopkgtest.ejkml9/autopkgtest_tmp/build/tests/test_ucsc_gtf.py'. 413s Hint: make sure your test modules/packages have valid Python names. 413s Traceback: 413s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 413s return _bootstrap._gcd_import(name[level:], package, level) 413s tests/test_ucsc_gtf.py:1: in 413s from pyensembl import Genome, Database 413s /usr/lib/python3/dist-packages/pyensembl/__init__.py:13: in 413s from .database import Database 413s /usr/lib/python3/dist-packages/pyensembl/database.py:17: in 413s import datacache 413s /usr/lib/python3/dist-packages/datacache/__init__.py:13: in 413s from .download import fetch_file, fetch_and_transform, fetch_csv_dataframe 413s /usr/lib/python3/dist-packages/datacache/download.py:24: in 413s import pandas as pd 413s /usr/lib/python3/dist-packages/pandas/__init__.py:19: in 413s raise ImportError( 413s E ImportError: Unable to import required dependencies: 413s E numpy: Error importing numpy: you should not try to import numpy from 413s E its source directory; please exit the numpy source tree, and relaunch 413s E your python interpreter from there. 413s =========================== short test summary info ============================ 413s ERROR tests/test_contigs.py 413s ERROR tests/test_download_cache.py 413s ERROR tests/test_ensembl_gtf.py 413s ERROR tests/test_ensembl_object_properties.py 413s ERROR tests/test_exon_id.py 413s ERROR tests/test_exon_object.py 413s ERROR tests/test_gene_ids.py 413s ERROR tests/test_gene_names.py 413s ERROR tests/test_gene_objects.py 413s ERROR tests/test_id_length.py 413s ERROR tests/test_locus.py 413s ERROR tests/test_missing_genome_sources.py 413s ERROR tests/test_mouse.py 413s ERROR tests/test_release_versions.py 413s ERROR tests/test_search.py 413s ERROR tests/test_sequence_data.py 413s ERROR tests/test_serialization.py 413s ERROR tests/test_shell.py 413s ERROR tests/test_string_representation.py 413s ERROR tests/test_timings.py 413s ERROR tests/test_transcript_ids.py 413s ERROR tests/test_transcript_objects.py 413s ERROR tests/test_transcript_sequences.py 413s ERROR tests/test_transcript_support_level.py 413s ERROR tests/test_ucsc_gtf.py 413s !!!!!!!!!!!!!!!!!!! Interrupted: 25 errors during collection !!!!!!!!!!!!!!!!!!! 413s ============================== 25 errors in 1.73s ============================== 413s E: pybuild pybuild:389: test: plugin distutils failed with: exit code=2: cd /tmp/autopkgtest.ejkml9/autopkgtest_tmp/build; python3.13 -m pytest -v -k 'not test_download_cache.py and not test_gene_ids.py and not test_gene_names.py and not test_gene_objects.py and not test_id_length.py and not test_search.py and not test_serialization.py and not test_transcript_ids.py and not test_transcript_objects.py and not test_contigs.py and not test_exon_id.py and not test_exon_object.py and not test_string_representation.py and not test_timings.py and not test_transcript_sequences.py and not test_transcript_support_level.py' 413s I: pybuild base:311: cd /tmp/autopkgtest.ejkml9/autopkgtest_tmp/build; python3.12 -m pytest -v -k 'not test_download_cache.py and not test_gene_ids.py and not test_gene_names.py and not test_gene_objects.py and not test_id_length.py and not test_search.py and not test_serialization.py and not test_transcript_ids.py and not test_transcript_objects.py and not test_contigs.py and not test_exon_id.py and not test_exon_object.py and not test_string_representation.py and not test_timings.py and not test_transcript_sequences.py and not test_transcript_support_level.py' 413s ============================= test session starts ============================== 413s platform linux -- Python 3.12.7, pytest-8.3.3, pluggy-1.5.0 -- /usr/bin/python3.12 413s cachedir: .pytest_cache 413s rootdir: /tmp/autopkgtest.ejkml9/autopkgtest_tmp/build 413s plugins: typeguard-4.4.1 414s collecting ... collected 126 items / 98 deselected / 28 selected 414s 414s tests/test_ensembl_object_properties.py::test_human_reference_name PASSED [ 3%] 414s tests/test_locus.py::test_normalize_chromosome PASSED [ 7%] 414s tests/test_locus.py::test_locus_overlaps PASSED [ 10%] 414s tests/test_locus.py::test_locus_contains PASSED [ 14%] 414s tests/test_locus.py::test_position_offset PASSED [ 17%] 414s tests/test_locus.py::test_range_offset PASSED [ 21%] 414s tests/test_locus.py::test_locus_distance PASSED [ 25%] 414s tests/test_missing_genome_sources.py::test_transcript_fasta_only PASSED [ 28%] 414s tests/test_missing_genome_sources.py::test_protein_fasta_only PASSED [ 32%] 415s tests/test_missing_genome_sources.py::test_gtf_only PASSED [ 35%] 415s tests/test_missing_genome_sources.py::test_gtf_transcript_only PASSED [ 39%] 415s tests/test_missing_genome_sources.py::test_gtf_protein_only PASSED [ 42%] 415s tests/test_mouse.py::test_mouse_ENSMUSG00000017167 PASSED [ 46%] 415s tests/test_release_versions.py::test_version_too_old_1 PASSED [ 50%] 415s tests/test_release_versions.py::test_version_too_old_47 PASSED [ 53%] 415s tests/test_release_versions.py::test_version_is_not_numeric PASSED [ 57%] 415s tests/test_release_versions.py::test_version_is_none PASSED [ 60%] 415s tests/test_release_versions.py::test_max_ensembl_release PASSED [ 64%] 415s tests/test_release_versions.py::test_int_version PASSED [ 67%] 415s tests/test_release_versions.py::test_str_version PASSED [ 71%] 415s tests/test_sequence_data.py::test_sequence_type PASSED [ 75%] 415s tests/test_sequence_data.py::test_missing_sequence PASSED [ 78%] 415s tests/test_sequence_data.py::test_clear_cache PASSED [ 82%] 415s tests/test_shell.py::test_genome_selection_grch38 PASSED [ 85%] 415s tests/test_ucsc_gtf.py::test_ucsc_gencode_gtf PASSED [ 89%] 415s tests/test_ucsc_gtf.py::test_ucsc_gencode_genome PASSED [ 92%] 415s tests/test_ucsc_gtf.py::test_ucsc_refseq_gtf PASSED [ 96%] 415s tests/test_ucsc_gtf.py::test_ucsc_refseq_genome PASSED [100%] 415s 415s =============================== warnings summary =============================== 415s ../../../../usr/lib/python3/dist-packages/pyensembl/shell.py:43 415s /usr/lib/python3/dist-packages/pyensembl/shell.py:43: DeprecationWarning: pkg_resources is deprecated as an API. See https://setuptools.pypa.io/en/latest/pkg_resources.html 415s import pkg_resources 415s 415s ../../../../usr/lib/python3/dist-packages/pkg_resources/__init__.py:3154 415s /usr/lib/python3/dist-packages/pkg_resources/__init__.py:3154: DeprecationWarning: Deprecated call to `pkg_resources.declare_namespace('logilab')`. 415s Implementing implicit namespace packages (as specified in PEP 420) is preferred to `pkg_resources.declare_namespace`. See https://setuptools.pypa.io/en/latest/references/keywords.html#keyword-namespace-packages 415s declare_namespace(pkg) 415s 415s ../../../../usr/lib/python3/dist-packages/pyensembl/shell.py:74 415s /usr/lib/python3/dist-packages/pyensembl/shell.py:74: DeprecationWarning: Nesting argument groups is deprecated. 415s release_group = root_group.add_argument_group() 415s 415s ../../../../usr/lib/python3/dist-packages/pyensembl/shell.py:96 415s /usr/lib/python3/dist-packages/pyensembl/shell.py:96: DeprecationWarning: Nesting argument groups is deprecated. 415s path_group = root_group.add_argument_group() 415s 415s -- Docs: https://docs.pytest.org/en/stable/how-to/capture-warnings.html 415s ================ 28 passed, 98 deselected, 4 warnings in 1.59s ================= 415s pybuild-autopkgtest: error: pybuild --autopkgtest --test-pytest -i python{version} -p "3.13 3.12" returned exit code 13 415s make: *** [/tmp/s9Eo2HbYzX/run:4: pybuild-autopkgtest] Error 25 415s pybuild-autopkgtest: error: /tmp/s9Eo2HbYzX/run pybuild-autopkgtest returned exit code 2 416s autopkgtest [19:36:31]: test pybuild-autopkgtest: -----------------------] 420s autopkgtest [19:36:35]: test pybuild-autopkgtest: - - - - - - - - - - results - - - - - - - - - - 420s pybuild-autopkgtest FAIL non-zero exit status 25 424s autopkgtest [19:36:39]: @@@@@@@@@@@@@@@@@@@@ summary 424s run-unit-test FAIL non-zero exit status 2 424s pybuild-autopkgtest FAIL non-zero exit status 25