0s autopkgtest [19:45:28]: starting date and time: 2024-11-13 19:45:28+0000 0s autopkgtest [19:45:28]: git checkout: 6f3be7a8 Fix armhf LXD image generation for plucky 0s autopkgtest [19:45:28]: host juju-7f2275-prod-proposed-migration-environment-15; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work.bvt_t6dk/out --timeout-copy=6000 --setup-commands /home/ubuntu/autopkgtest-cloud/worker-config-production/setup-canonical.sh --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' -- ssh -s /home/ubuntu/autopkgtest/ssh-setup/nova -- --flavor autopkgtest-ppc64el --security-groups autopkgtest-juju-7f2275-prod-proposed-migration-environment-15@bos03-ppc64el-25.secgroup --name adt-plucky-ppc64el-pyensembl-20241113-194528-juju-7f2275-prod-proposed-migration-environment-15-1b95b802-7d36-49c9-8dcf-16ab915f8c45 --image adt/ubuntu-plucky-ppc64el-server --keyname testbed-juju-7f2275-prod-proposed-migration-environment-15 --net-id=net_prod-proposed-migration-ppc64el -e TERM=linux -e ''"'"'http_proxy=http://squid.internal:3128'"'"'' -e ''"'"'https_proxy=http://squid.internal:3128'"'"'' -e ''"'"'no_proxy=127.0.0.1,127.0.1.1,login.ubuntu.com,localhost,localdomain,novalocal,internal,archive.ubuntu.com,ports.ubuntu.com,security.ubuntu.com,ddebs.ubuntu.com,changelogs.ubuntu.com,keyserver.ubuntu.com,launchpadlibrarian.net,launchpadcontent.net,launchpad.net,10.24.0.0/24,keystone.ps5.canonical.com,objectstorage.prodstack5.canonical.com'"'"'' --mirror=http://ftpmaster.internal/ubuntu/ 140s autopkgtest [19:47:48]: testbed dpkg architecture: ppc64el 141s autopkgtest [19:47:49]: testbed apt version: 2.9.8 141s autopkgtest [19:47:49]: @@@@@@@@@@@@@@@@@@@@ test bed setup 141s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease [73.9 kB] 142s Get:2 http://ftpmaster.internal/ubuntu plucky-proposed/universe Sources [958 kB] 142s Get:3 http://ftpmaster.internal/ubuntu plucky-proposed/restricted Sources [7016 B] 142s Get:4 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse Sources [17.2 kB] 142s Get:5 http://ftpmaster.internal/ubuntu plucky-proposed/main Sources [98.3 kB] 142s Get:6 http://ftpmaster.internal/ubuntu plucky-proposed/main ppc64el Packages [108 kB] 142s Get:7 http://ftpmaster.internal/ubuntu plucky-proposed/universe ppc64el Packages [673 kB] 143s Get:8 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse ppc64el Packages [20.8 kB] 143s Fetched 1956 kB in 1s (1372 kB/s) 143s Reading package lists... 145s Reading package lists... 146s Building dependency tree... 146s Reading state information... 146s Calculating upgrade... 146s The following NEW packages will be installed: 146s python3.13-gdbm 146s The following packages will be upgraded: 146s bpfcc-tools bpftrace libbpfcc libgnutls30t64 libjson-glib-1.0-0 146s libjson-glib-1.0-common libnewt0.52 libpython3-stdlib libutempter0 python3 146s python3-bpfcc python3-gdbm python3-minimal python3-newt whiptail 146s 15 upgraded, 1 newly installed, 0 to remove and 0 not upgraded. 146s Need to get 4700 kB of archives. 146s After this operation, 215 kB of additional disk space will be used. 146s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed/main ppc64el python3-minimal ppc64el 3.12.7-1 [27.4 kB] 146s Get:2 http://ftpmaster.internal/ubuntu plucky-proposed/main ppc64el python3 ppc64el 3.12.7-1 [24.0 kB] 147s Get:3 http://ftpmaster.internal/ubuntu plucky-proposed/main ppc64el libpython3-stdlib ppc64el 3.12.7-1 [10.0 kB] 147s Get:4 http://ftpmaster.internal/ubuntu plucky/main ppc64el libgnutls30t64 ppc64el 3.8.8-2ubuntu1 [1072 kB] 147s Get:5 http://ftpmaster.internal/ubuntu plucky/main ppc64el python3-newt ppc64el 0.52.24-2ubuntu4 [21.8 kB] 147s Get:6 http://ftpmaster.internal/ubuntu plucky/main ppc64el libnewt0.52 ppc64el 0.52.24-2ubuntu4 [62.1 kB] 147s Get:7 http://ftpmaster.internal/ubuntu plucky/main ppc64el whiptail ppc64el 0.52.24-2ubuntu4 [19.5 kB] 147s Get:8 http://ftpmaster.internal/ubuntu plucky/main ppc64el python3.13-gdbm ppc64el 3.13.0-2 [31.5 kB] 147s Get:9 http://ftpmaster.internal/ubuntu plucky-proposed/main ppc64el python3-gdbm ppc64el 3.12.7-1 [8640 B] 147s Get:10 http://ftpmaster.internal/ubuntu plucky/main ppc64el libbpfcc ppc64el 0.30.0+ds-1ubuntu5 [696 kB] 147s Get:11 http://ftpmaster.internal/ubuntu plucky/main ppc64el python3-bpfcc all 0.30.0+ds-1ubuntu5 [40.4 kB] 147s Get:12 http://ftpmaster.internal/ubuntu plucky/main ppc64el bpfcc-tools all 0.30.0+ds-1ubuntu5 [697 kB] 148s Get:13 http://ftpmaster.internal/ubuntu plucky/main ppc64el bpftrace ppc64el 0.21.2-2ubuntu2 [1898 kB] 148s Get:14 http://ftpmaster.internal/ubuntu plucky/main ppc64el libjson-glib-1.0-common all 1.10.0+ds-3 [5586 B] 148s Get:15 http://ftpmaster.internal/ubuntu plucky/main ppc64el libjson-glib-1.0-0 ppc64el 1.10.0+ds-3 [76.0 kB] 148s Get:16 http://ftpmaster.internal/ubuntu plucky/main ppc64el libutempter0 ppc64el 1.2.1-4 [9850 B] 148s Fetched 4700 kB in 2s (2576 kB/s) 149s (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 ... 73767 files and directories currently installed.) 149s Preparing to unpack .../python3-minimal_3.12.7-1_ppc64el.deb ... 149s Unpacking python3-minimal (3.12.7-1) over (3.12.6-0ubuntu1) ... 149s Setting up python3-minimal (3.12.7-1) ... 149s (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 ... 73767 files and directories currently installed.) 149s Preparing to unpack .../python3_3.12.7-1_ppc64el.deb ... 149s Unpacking python3 (3.12.7-1) over (3.12.6-0ubuntu1) ... 149s Preparing to unpack .../libpython3-stdlib_3.12.7-1_ppc64el.deb ... 149s Unpacking libpython3-stdlib:ppc64el (3.12.7-1) over (3.12.6-0ubuntu1) ... 149s Preparing to unpack .../libgnutls30t64_3.8.8-2ubuntu1_ppc64el.deb ... 149s Unpacking libgnutls30t64:ppc64el (3.8.8-2ubuntu1) over (3.8.6-2ubuntu1) ... 149s Setting up libgnutls30t64:ppc64el (3.8.8-2ubuntu1) ... 149s (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 ... 73767 files and directories currently installed.) 149s Preparing to unpack .../00-python3-newt_0.52.24-2ubuntu4_ppc64el.deb ... 149s Unpacking python3-newt:ppc64el (0.52.24-2ubuntu4) over (0.52.24-2ubuntu3) ... 149s Preparing to unpack .../01-libnewt0.52_0.52.24-2ubuntu4_ppc64el.deb ... 149s Unpacking libnewt0.52:ppc64el (0.52.24-2ubuntu4) over (0.52.24-2ubuntu3) ... 149s Preparing to unpack .../02-whiptail_0.52.24-2ubuntu4_ppc64el.deb ... 150s Unpacking whiptail (0.52.24-2ubuntu4) over (0.52.24-2ubuntu3) ... 150s Selecting previously unselected package python3.13-gdbm. 150s Preparing to unpack .../03-python3.13-gdbm_3.13.0-2_ppc64el.deb ... 150s Unpacking python3.13-gdbm (3.13.0-2) ... 150s Preparing to unpack .../04-python3-gdbm_3.12.7-1_ppc64el.deb ... 150s Unpacking python3-gdbm:ppc64el (3.12.7-1) over (3.12.6-1ubuntu1) ... 150s Preparing to unpack .../05-libbpfcc_0.30.0+ds-1ubuntu5_ppc64el.deb ... 150s Unpacking libbpfcc:ppc64el (0.30.0+ds-1ubuntu5) over (0.30.0+ds-1ubuntu4) ... 150s Preparing to unpack .../06-python3-bpfcc_0.30.0+ds-1ubuntu5_all.deb ... 150s Unpacking python3-bpfcc (0.30.0+ds-1ubuntu5) over (0.30.0+ds-1ubuntu4) ... 150s Preparing to unpack .../07-bpfcc-tools_0.30.0+ds-1ubuntu5_all.deb ... 150s Unpacking bpfcc-tools (0.30.0+ds-1ubuntu5) over (0.30.0+ds-1ubuntu4) ... 150s Preparing to unpack .../08-bpftrace_0.21.2-2ubuntu2_ppc64el.deb ... 150s Unpacking bpftrace (0.21.2-2ubuntu2) over (0.21.2-2) ... 150s Preparing to unpack .../09-libjson-glib-1.0-common_1.10.0+ds-3_all.deb ... 150s Unpacking libjson-glib-1.0-common (1.10.0+ds-3) over (1.10.0+ds-2) ... 150s Preparing to unpack .../10-libjson-glib-1.0-0_1.10.0+ds-3_ppc64el.deb ... 150s Unpacking libjson-glib-1.0-0:ppc64el (1.10.0+ds-3) over (1.10.0+ds-2) ... 150s Preparing to unpack .../11-libutempter0_1.2.1-4_ppc64el.deb ... 150s Unpacking libutempter0:ppc64el (1.2.1-4) over (1.2.1-3build1) ... 150s Setting up libnewt0.52:ppc64el (0.52.24-2ubuntu4) ... 150s Setting up libutempter0:ppc64el (1.2.1-4) ... 150s Setting up whiptail (0.52.24-2ubuntu4) ... 150s Setting up libjson-glib-1.0-common (1.10.0+ds-3) ... 150s Setting up libbpfcc:ppc64el (0.30.0+ds-1ubuntu5) ... 150s Setting up python3.13-gdbm (3.13.0-2) ... 150s Setting up libpython3-stdlib:ppc64el (3.12.7-1) ... 150s Setting up bpftrace (0.21.2-2ubuntu2) ... 150s Setting up python3 (3.12.7-1) ... 151s Setting up python3-newt:ppc64el (0.52.24-2ubuntu4) ... 151s Setting up libjson-glib-1.0-0:ppc64el (1.10.0+ds-3) ... 151s Setting up python3-bpfcc (0.30.0+ds-1ubuntu5) ... 151s Setting up python3-gdbm:ppc64el (3.12.7-1) ... 151s Setting up bpfcc-tools (0.30.0+ds-1ubuntu5) ... 151s Processing triggers for man-db (2.12.1-3) ... 153s Processing triggers for libc-bin (2.40-1ubuntu3) ... 153s Reading package lists... 153s Building dependency tree... 153s Reading state information... 153s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 154s Hit:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease 154s Hit:2 http://ftpmaster.internal/ubuntu plucky InRelease 154s Hit:3 http://ftpmaster.internal/ubuntu plucky-updates InRelease 154s Hit:4 http://ftpmaster.internal/ubuntu plucky-security InRelease 155s Reading package lists... 155s Reading package lists... 155s Building dependency tree... 155s Reading state information... 156s Calculating upgrade... 156s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 156s Reading package lists... 156s Building dependency tree... 156s Reading state information... 156s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 159s autopkgtest [19:48:07]: testbed running kernel: Linux 6.11.0-8-generic #8-Ubuntu SMP Mon Sep 16 13:49:23 UTC 2024 159s autopkgtest [19:48:07]: @@@@@@@@@@@@@@@@@@@@ apt-source pyensembl 160s Get:1 http://ftpmaster.internal/ubuntu plucky/universe pyensembl 2.3.13-1 (dsc) [2291 B] 160s Get:2 http://ftpmaster.internal/ubuntu plucky/universe pyensembl 2.3.13-1 (tar) [60.7 kB] 160s Get:3 http://ftpmaster.internal/ubuntu plucky/universe pyensembl 2.3.13-1 (diff) [5404 B] 161s gpgv: Signature made Sat May 11 16:47:07 2024 UTC 161s gpgv: using RSA key 8F6DE104377F3B11E741748731F3144544A1741A 161s gpgv: issuer "tchet@debian.org" 161s gpgv: Can't check signature: No public key 161s dpkg-source: warning: cannot verify inline signature for ./pyensembl_2.3.13-1.dsc: no acceptable signature found 161s autopkgtest [19:48:09]: testing package pyensembl version 2.3.13-1 161s autopkgtest [19:48:09]: build not needed 162s autopkgtest [19:48:10]: test run-unit-test: preparing testbed 164s Reading package lists... 164s Building dependency tree... 164s Reading state information... 164s Starting pkgProblemResolver with broken count: 0 164s Starting 2 pkgProblemResolver with broken count: 0 164s Done 165s The following additional packages will be installed: 165s libblas3 libgfortran5 libjs-jquery libjs-sphinxdoc libjs-underscore 165s liblapack3 libpython3.13-minimal libpython3.13-stdlib pyensembl pylint 165s python3-all python3-astroid python3-datacache python3-dateutil python3-dill 165s python3-gtfparse python3-iniconfig python3-isort python3-logilab-common 165s python3-mccabe python3-memoized-property python3-mypy-extensions 165s python3-numpy python3-packaging python3-pandas python3-pandas-lib 165s python3-platformdirs python3-pluggy python3-pytest python3-serializable 165s python3-simplejson python3-six python3-tomlkit python3-typechecks python3-tz 165s python3.13 python3.13-minimal 165s Suggested packages: 165s python3-objgraph gcc gfortran python-numpy-doc python3-dev python-pandas-doc 165s python3-statsmodels python3.13-venv python3.13-doc binfmt-support 165s Recommended packages: 165s javascript-common python3-tk python3-scipy python3-matplotlib 165s python3-bottleneck python3-numexpr python3-odf python3-openpyxl python3-bs4 165s python3-html5lib python3-lxml python3-tables 165s The following NEW packages will be installed: 165s autopkgtest-satdep libblas3 libgfortran5 libjs-jquery libjs-sphinxdoc 165s libjs-underscore liblapack3 libpython3.13-minimal libpython3.13-stdlib 165s pyensembl pylint python3-all python3-astroid python3-datacache 165s python3-dateutil python3-dill python3-gtfparse python3-iniconfig 165s python3-isort python3-logilab-common python3-mccabe 165s python3-memoized-property python3-mypy-extensions python3-numpy 165s python3-packaging python3-pandas python3-pandas-lib python3-platformdirs 165s python3-pluggy python3-pytest python3-serializable python3-simplejson 165s python3-six python3-tomlkit python3-typechecks python3-tz python3.13 165s python3.13-minimal 165s 0 upgraded, 38 newly installed, 0 to remove and 0 not upgraded. 165s Need to get 24.2 MB/24.2 MB of archives. 165s After this operation, 122 MB of additional disk space will be used. 165s Get:1 /tmp/autopkgtest.7El1Nc/1-autopkgtest-satdep.deb autopkgtest-satdep ppc64el 0 [724 B] 165s Get:2 http://ftpmaster.internal/ubuntu plucky/main ppc64el libpython3.13-minimal ppc64el 3.13.0-2 [881 kB] 166s Get:3 http://ftpmaster.internal/ubuntu plucky/main ppc64el python3.13-minimal ppc64el 3.13.0-2 [2302 kB] 166s Get:4 http://ftpmaster.internal/ubuntu plucky/main ppc64el libblas3 ppc64el 3.12.0-3build2 [222 kB] 166s Get:5 http://ftpmaster.internal/ubuntu plucky/main ppc64el libgfortran5 ppc64el 14.2.0-8ubuntu1 [571 kB] 166s Get:6 http://ftpmaster.internal/ubuntu plucky/main ppc64el libjs-jquery all 3.6.1+dfsg+~3.5.14-1 [328 kB] 166s Get:7 http://ftpmaster.internal/ubuntu plucky/main ppc64el libjs-underscore all 1.13.4~dfsg+~1.11.4-3 [118 kB] 166s Get:8 http://ftpmaster.internal/ubuntu plucky/main ppc64el libjs-sphinxdoc all 7.4.7-4 [158 kB] 166s Get:9 http://ftpmaster.internal/ubuntu plucky/main ppc64el liblapack3 ppc64el 3.12.0-3build2 [2806 kB] 167s Get:10 http://ftpmaster.internal/ubuntu plucky/main ppc64el libpython3.13-stdlib ppc64el 3.13.0-2 [2148 kB] 167s Get:11 http://ftpmaster.internal/ubuntu plucky/universe ppc64el python3-astroid all 3.2.2-1 [174 kB] 167s Get:12 http://ftpmaster.internal/ubuntu plucky/universe ppc64el python3-isort all 5.13.2-2 [59.3 kB] 167s Get:13 http://ftpmaster.internal/ubuntu plucky/universe ppc64el python3-mypy-extensions all 1.0.0-1 [6148 B] 167s Get:14 http://ftpmaster.internal/ubuntu plucky/universe ppc64el python3-logilab-common all 2.0.0-1 [281 kB] 167s Get:15 http://ftpmaster.internal/ubuntu plucky/universe ppc64el python3-dill all 0.3.9-1 [84.5 kB] 167s Get:16 http://ftpmaster.internal/ubuntu plucky/universe ppc64el python3-mccabe all 0.7.0-1 [8678 B] 167s Get:17 http://ftpmaster.internal/ubuntu plucky/main ppc64el python3-platformdirs all 4.3.6-1 [16.8 kB] 167s Get:18 http://ftpmaster.internal/ubuntu plucky/universe ppc64el python3-tomlkit all 0.13.2-1 [37.6 kB] 167s Get:19 http://ftpmaster.internal/ubuntu plucky/universe ppc64el pylint all 3.2.7-1 [343 kB] 168s Get:20 http://ftpmaster.internal/ubuntu plucky/main ppc64el python3-six all 1.16.0-7 [13.1 kB] 168s Get:21 http://ftpmaster.internal/ubuntu plucky/main ppc64el python3-dateutil all 2.9.0-2 [80.3 kB] 168s Get:22 http://ftpmaster.internal/ubuntu plucky/main ppc64el python3-numpy ppc64el 1:1.26.4+ds-11build1 [4434 kB] 168s Get:23 http://ftpmaster.internal/ubuntu plucky/main ppc64el python3-tz all 2024.1-2 [31.4 kB] 168s Get:24 http://ftpmaster.internal/ubuntu plucky/universe ppc64el python3-pandas-lib ppc64el 2.2.3+dfsg-5 [4761 kB] 169s Get:25 http://ftpmaster.internal/ubuntu plucky/universe ppc64el python3-pandas all 2.2.3+dfsg-5 [3112 kB] 170s Get:26 http://ftpmaster.internal/ubuntu plucky/universe ppc64el python3-typechecks all 0.1.0+ds-4 [4562 B] 170s Get:27 http://ftpmaster.internal/ubuntu plucky/universe ppc64el python3-datacache all 1.4.1-2 [13.1 kB] 170s Get:28 http://ftpmaster.internal/ubuntu plucky/universe ppc64el python3-gtfparse all 1.3.0+ds-1 [10.1 kB] 170s Get:29 http://ftpmaster.internal/ubuntu plucky/universe ppc64el python3-memoized-property all 1.0.3-2 [5286 B] 170s Get:30 http://ftpmaster.internal/ubuntu plucky/main ppc64el python3-simplejson ppc64el 3.19.3-1 [60.2 kB] 170s Get:31 http://ftpmaster.internal/ubuntu plucky/universe ppc64el python3-serializable all 0.4.1+ds-1 [8392 B] 170s Get:32 http://ftpmaster.internal/ubuntu plucky/universe ppc64el pyensembl all 2.3.13-1 [37.1 kB] 170s Get:33 http://ftpmaster.internal/ubuntu plucky/main ppc64el python3.13 ppc64el 3.13.0-2 [719 kB] 170s Get:34 http://ftpmaster.internal/ubuntu plucky-proposed/main ppc64el python3-all ppc64el 3.12.7-1 [888 B] 170s Get:35 http://ftpmaster.internal/ubuntu plucky/universe ppc64el python3-iniconfig all 1.1.1-2 [6024 B] 170s Get:36 http://ftpmaster.internal/ubuntu plucky/main ppc64el python3-packaging all 24.1-1 [41.4 kB] 170s Get:37 http://ftpmaster.internal/ubuntu plucky/universe ppc64el python3-pluggy all 1.5.0-1 [21.0 kB] 170s Get:38 http://ftpmaster.internal/ubuntu plucky/universe ppc64el python3-pytest all 8.3.3-1 [251 kB] 170s Fetched 24.2 MB in 5s (4963 kB/s) 170s Selecting previously unselected package libpython3.13-minimal:ppc64el. 170s (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 ... 73775 files and directories currently installed.) 170s Preparing to unpack .../00-libpython3.13-minimal_3.13.0-2_ppc64el.deb ... 170s Unpacking libpython3.13-minimal:ppc64el (3.13.0-2) ... 170s Selecting previously unselected package python3.13-minimal. 170s Preparing to unpack .../01-python3.13-minimal_3.13.0-2_ppc64el.deb ... 170s Unpacking python3.13-minimal (3.13.0-2) ... 170s Selecting previously unselected package libblas3:ppc64el. 170s Preparing to unpack .../02-libblas3_3.12.0-3build2_ppc64el.deb ... 170s Unpacking libblas3:ppc64el (3.12.0-3build2) ... 170s Selecting previously unselected package libgfortran5:ppc64el. 170s Preparing to unpack .../03-libgfortran5_14.2.0-8ubuntu1_ppc64el.deb ... 170s Unpacking libgfortran5:ppc64el (14.2.0-8ubuntu1) ... 170s Selecting previously unselected package libjs-jquery. 170s Preparing to unpack .../04-libjs-jquery_3.6.1+dfsg+~3.5.14-1_all.deb ... 171s Unpacking libjs-jquery (3.6.1+dfsg+~3.5.14-1) ... 171s Selecting previously unselected package libjs-underscore. 171s Preparing to unpack .../05-libjs-underscore_1.13.4~dfsg+~1.11.4-3_all.deb ... 171s Unpacking libjs-underscore (1.13.4~dfsg+~1.11.4-3) ... 171s Selecting previously unselected package libjs-sphinxdoc. 171s Preparing to unpack .../06-libjs-sphinxdoc_7.4.7-4_all.deb ... 171s Unpacking libjs-sphinxdoc (7.4.7-4) ... 171s Selecting previously unselected package liblapack3:ppc64el. 171s Preparing to unpack .../07-liblapack3_3.12.0-3build2_ppc64el.deb ... 171s Unpacking liblapack3:ppc64el (3.12.0-3build2) ... 171s Selecting previously unselected package libpython3.13-stdlib:ppc64el. 171s Preparing to unpack .../08-libpython3.13-stdlib_3.13.0-2_ppc64el.deb ... 171s Unpacking libpython3.13-stdlib:ppc64el (3.13.0-2) ... 171s Selecting previously unselected package python3-astroid. 171s Preparing to unpack .../09-python3-astroid_3.2.2-1_all.deb ... 171s Unpacking python3-astroid (3.2.2-1) ... 171s Selecting previously unselected package python3-isort. 171s Preparing to unpack .../10-python3-isort_5.13.2-2_all.deb ... 171s Unpacking python3-isort (5.13.2-2) ... 171s Selecting previously unselected package python3-mypy-extensions. 171s Preparing to unpack .../11-python3-mypy-extensions_1.0.0-1_all.deb ... 171s Unpacking python3-mypy-extensions (1.0.0-1) ... 171s Selecting previously unselected package python3-logilab-common. 171s Preparing to unpack .../12-python3-logilab-common_2.0.0-1_all.deb ... 171s Unpacking python3-logilab-common (2.0.0-1) ... 171s Selecting previously unselected package python3-dill. 171s Preparing to unpack .../13-python3-dill_0.3.9-1_all.deb ... 171s Unpacking python3-dill (0.3.9-1) ... 171s Selecting previously unselected package python3-mccabe. 171s Preparing to unpack .../14-python3-mccabe_0.7.0-1_all.deb ... 171s Unpacking python3-mccabe (0.7.0-1) ... 171s Selecting previously unselected package python3-platformdirs. 171s Preparing to unpack .../15-python3-platformdirs_4.3.6-1_all.deb ... 171s Unpacking python3-platformdirs (4.3.6-1) ... 171s Selecting previously unselected package python3-tomlkit. 171s Preparing to unpack .../16-python3-tomlkit_0.13.2-1_all.deb ... 171s Unpacking python3-tomlkit (0.13.2-1) ... 171s Selecting previously unselected package pylint. 171s Preparing to unpack .../17-pylint_3.2.7-1_all.deb ... 171s Unpacking pylint (3.2.7-1) ... 171s Selecting previously unselected package python3-six. 171s Preparing to unpack .../18-python3-six_1.16.0-7_all.deb ... 171s Unpacking python3-six (1.16.0-7) ... 171s Selecting previously unselected package python3-dateutil. 171s Preparing to unpack .../19-python3-dateutil_2.9.0-2_all.deb ... 171s Unpacking python3-dateutil (2.9.0-2) ... 171s Selecting previously unselected package python3-numpy. 171s Preparing to unpack .../20-python3-numpy_1%3a1.26.4+ds-11build1_ppc64el.deb ... 171s Unpacking python3-numpy (1:1.26.4+ds-11build1) ... 172s Selecting previously unselected package python3-tz. 172s Preparing to unpack .../21-python3-tz_2024.1-2_all.deb ... 172s Unpacking python3-tz (2024.1-2) ... 172s Selecting previously unselected package python3-pandas-lib:ppc64el. 172s Preparing to unpack .../22-python3-pandas-lib_2.2.3+dfsg-5_ppc64el.deb ... 172s Unpacking python3-pandas-lib:ppc64el (2.2.3+dfsg-5) ... 172s Selecting previously unselected package python3-pandas. 172s Preparing to unpack .../23-python3-pandas_2.2.3+dfsg-5_all.deb ... 172s Unpacking python3-pandas (2.2.3+dfsg-5) ... 172s Selecting previously unselected package python3-typechecks. 172s Preparing to unpack .../24-python3-typechecks_0.1.0+ds-4_all.deb ... 172s Unpacking python3-typechecks (0.1.0+ds-4) ... 172s Selecting previously unselected package python3-datacache. 172s Preparing to unpack .../25-python3-datacache_1.4.1-2_all.deb ... 172s Unpacking python3-datacache (1.4.1-2) ... 172s Selecting previously unselected package python3-gtfparse. 172s Preparing to unpack .../26-python3-gtfparse_1.3.0+ds-1_all.deb ... 172s Unpacking python3-gtfparse (1.3.0+ds-1) ... 172s Selecting previously unselected package python3-memoized-property. 172s Preparing to unpack .../27-python3-memoized-property_1.0.3-2_all.deb ... 172s Unpacking python3-memoized-property (1.0.3-2) ... 172s Selecting previously unselected package python3-simplejson. 172s Preparing to unpack .../28-python3-simplejson_3.19.3-1_ppc64el.deb ... 172s Unpacking python3-simplejson (3.19.3-1) ... 172s Selecting previously unselected package python3-serializable. 172s Preparing to unpack .../29-python3-serializable_0.4.1+ds-1_all.deb ... 172s Unpacking python3-serializable (0.4.1+ds-1) ... 172s Selecting previously unselected package pyensembl. 172s Preparing to unpack .../30-pyensembl_2.3.13-1_all.deb ... 172s Unpacking pyensembl (2.3.13-1) ... 172s Selecting previously unselected package python3.13. 172s Preparing to unpack .../31-python3.13_3.13.0-2_ppc64el.deb ... 172s Unpacking python3.13 (3.13.0-2) ... 172s Selecting previously unselected package python3-all. 172s Preparing to unpack .../32-python3-all_3.12.7-1_ppc64el.deb ... 172s Unpacking python3-all (3.12.7-1) ... 172s Selecting previously unselected package python3-iniconfig. 172s Preparing to unpack .../33-python3-iniconfig_1.1.1-2_all.deb ... 172s Unpacking python3-iniconfig (1.1.1-2) ... 173s Selecting previously unselected package python3-packaging. 173s Preparing to unpack .../34-python3-packaging_24.1-1_all.deb ... 173s Unpacking python3-packaging (24.1-1) ... 173s Selecting previously unselected package python3-pluggy. 173s Preparing to unpack .../35-python3-pluggy_1.5.0-1_all.deb ... 173s Unpacking python3-pluggy (1.5.0-1) ... 173s Selecting previously unselected package python3-pytest. 173s Preparing to unpack .../36-python3-pytest_8.3.3-1_all.deb ... 173s Unpacking python3-pytest (8.3.3-1) ... 173s Selecting previously unselected package autopkgtest-satdep. 173s Preparing to unpack .../37-1-autopkgtest-satdep.deb ... 173s Unpacking autopkgtest-satdep (0) ... 173s Setting up python3-iniconfig (1.1.1-2) ... 173s Setting up python3-typechecks (0.1.0+ds-4) ... 173s Setting up python3-memoized-property (1.0.3-2) ... 173s Setting up python3-mypy-extensions (1.0.0-1) ... 174s Setting up python3-platformdirs (4.3.6-1) ... 174s Setting up python3-tz (2024.1-2) ... 174s Setting up python3-six (1.16.0-7) ... 174s Setting up python3-simplejson (3.19.3-1) ... 175s Setting up libpython3.13-minimal:ppc64el (3.13.0-2) ... 175s Setting up libblas3:ppc64el (3.12.0-3build2) ... 175s update-alternatives: using /usr/lib/powerpc64le-linux-gnu/blas/libblas.so.3 to provide /usr/lib/powerpc64le-linux-gnu/libblas.so.3 (libblas.so.3-powerpc64le-linux-gnu) in auto mode 175s Setting up python3-packaging (24.1-1) ... 175s Setting up python3-dill (0.3.9-1) ... 176s Setting up libgfortran5:ppc64el (14.2.0-8ubuntu1) ... 176s Setting up python3-isort (5.13.2-2) ... 176s Setting up python3-pluggy (1.5.0-1) ... 176s Setting up python3-astroid (3.2.2-1) ... 177s Setting up python3.13-minimal (3.13.0-2) ... 178s Setting up python3-dateutil (2.9.0-2) ... 179s Setting up python3-mccabe (0.7.0-1) ... 179s Setting up libjs-jquery (3.6.1+dfsg+~3.5.14-1) ... 179s Setting up python3-tomlkit (0.13.2-1) ... 179s Setting up libpython3.13-stdlib:ppc64el (3.13.0-2) ... 179s Setting up libjs-underscore (1.13.4~dfsg+~1.11.4-3) ... 179s Setting up liblapack3:ppc64el (3.12.0-3build2) ... 179s update-alternatives: using /usr/lib/powerpc64le-linux-gnu/lapack/liblapack.so.3 to provide /usr/lib/powerpc64le-linux-gnu/liblapack.so.3 (liblapack.so.3-powerpc64le-linux-gnu) in auto mode 179s Setting up python3.13 (3.13.0-2) ... 180s Setting up python3-pytest (8.3.3-1) ... 181s Setting up python3-all (3.12.7-1) ... 181s Setting up python3-serializable (0.4.1+ds-1) ... 182s Setting up python3-numpy (1:1.26.4+ds-11build1) ... 186s Setting up libjs-sphinxdoc (7.4.7-4) ... 186s Setting up python3-logilab-common (2.0.0-1) ... 187s Setting up python3-pandas-lib:ppc64el (2.2.3+dfsg-5) ... 187s Setting up python3-pandas (2.2.3+dfsg-5) ... 200s Setting up pylint (3.2.7-1) ... 201s Setting up python3-datacache (1.4.1-2) ... 201s Setting up python3-gtfparse (1.3.0+ds-1) ... 201s Setting up pyensembl (2.3.13-1) ... 201s Setting up autopkgtest-satdep (0) ... 201s Processing triggers for systemd (256.5-2ubuntu4) ... 201s Processing triggers for man-db (2.12.1-3) ... 202s Processing triggers for libc-bin (2.40-1ubuntu3) ... 205s (Reading database ... 78213 files and directories currently installed.) 205s Removing autopkgtest-satdep (0) ... 205s autopkgtest [19:48:53]: test run-unit-test: [----------------------- 207s ============================= test session starts ============================== 207s platform linux -- Python 3.13.0, pytest-8.3.3, pluggy-1.5.0 207s rootdir: /tmp/autopkgtest.7El1Nc/autopkgtest_tmp 207s plugins: typeguard-4.4.1 207s collected 0 items / 4 errors 207s 207s ==================================== ERRORS ==================================== 207s ___________ ERROR collecting tests/test_ensembl_object_properties.py ___________ 207s ImportError while importing test module '/tmp/autopkgtest.7El1Nc/autopkgtest_tmp/tests/test_ensembl_object_properties.py'. 207s Hint: make sure your test modules/packages have valid Python names. 207s Traceback: 207s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 207s return _bootstrap._gcd_import(name[level:], package, level) 207s tests/test_ensembl_object_properties.py:8: in 207s from .common import eq_ 207s tests/common.py:3: in 207s from pyensembl import genome_for_reference_name, cached_release 207s /usr/lib/python3/dist-packages/pyensembl/__init__.py:13: in 207s from .database import Database 207s /usr/lib/python3/dist-packages/pyensembl/database.py:17: in 207s import datacache 207s /usr/lib/python3/dist-packages/datacache/__init__.py:13: in 207s from .download import fetch_file, fetch_and_transform, fetch_csv_dataframe 207s /usr/lib/python3/dist-packages/datacache/download.py:24: in 207s import pandas as pd 207s /usr/lib/python3/dist-packages/pandas/__init__.py:19: in 207s raise ImportError( 207s E ImportError: Unable to import required dependencies: 207s E numpy: Error importing numpy: you should not try to import numpy from 207s E its source directory; please exit the numpy source tree, and relaunch 207s E your python interpreter from there. 207s _____________________ ERROR collecting tests/test_locus.py _____________________ 207s ImportError while importing test module '/tmp/autopkgtest.7El1Nc/autopkgtest_tmp/tests/test_locus.py'. 207s Hint: make sure your test modules/packages have valid Python names. 207s Traceback: 207s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 207s return _bootstrap._gcd_import(name[level:], package, level) 207s tests/test_locus.py:1: in 207s from pyensembl.locus import Locus 207s /usr/lib/python3/dist-packages/pyensembl/__init__.py:13: in 207s from .database import Database 207s /usr/lib/python3/dist-packages/pyensembl/database.py:17: in 207s import datacache 207s /usr/lib/python3/dist-packages/datacache/__init__.py:13: in 207s from .download import fetch_file, fetch_and_transform, fetch_csv_dataframe 207s /usr/lib/python3/dist-packages/datacache/download.py:24: in 207s import pandas as pd 207s /usr/lib/python3/dist-packages/pandas/__init__.py:19: in 207s raise ImportError( 207s E ImportError: Unable to import required dependencies: 207s E numpy: Error importing numpy: you should not try to import numpy from 207s E its source directory; please exit the numpy source tree, and relaunch 207s E your python interpreter from there. 207s _______________ ERROR collecting tests/test_release_versions.py ________________ 207s ImportError while importing test module '/tmp/autopkgtest.7El1Nc/autopkgtest_tmp/tests/test_release_versions.py'. 207s Hint: make sure your test modules/packages have valid Python names. 207s Traceback: 207s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 207s return _bootstrap._gcd_import(name[level:], package, level) 207s tests/test_release_versions.py:1: in 207s from pyensembl import EnsemblRelease, MAX_ENSEMBL_RELEASE 207s /usr/lib/python3/dist-packages/pyensembl/__init__.py:13: in 207s from .database import Database 207s /usr/lib/python3/dist-packages/pyensembl/database.py:17: in 207s import datacache 207s /usr/lib/python3/dist-packages/datacache/__init__.py:13: in 207s from .download import fetch_file, fetch_and_transform, fetch_csv_dataframe 207s /usr/lib/python3/dist-packages/datacache/download.py:24: in 207s import pandas as pd 207s /usr/lib/python3/dist-packages/pandas/__init__.py:19: in 207s raise ImportError( 207s E ImportError: Unable to import required dependencies: 207s E numpy: Error importing numpy: you should not try to import numpy from 207s E its source directory; please exit the numpy source tree, and relaunch 207s E your python interpreter from there. 207s _____________________ ERROR collecting tests/test_shell.py _____________________ 207s ImportError while importing test module '/tmp/autopkgtest.7El1Nc/autopkgtest_tmp/tests/test_shell.py'. 207s Hint: make sure your test modules/packages have valid Python names. 207s Traceback: 207s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 207s return _bootstrap._gcd_import(name[level:], package, level) 207s tests/test_shell.py:1: in 207s from pyensembl.shell import parser, all_combinations_of_ensembl_genomes 207s /usr/lib/python3/dist-packages/pyensembl/__init__.py:13: in 207s from .database import Database 207s /usr/lib/python3/dist-packages/pyensembl/database.py:17: in 207s import datacache 207s /usr/lib/python3/dist-packages/datacache/__init__.py:13: in 207s from .download import fetch_file, fetch_and_transform, fetch_csv_dataframe 207s /usr/lib/python3/dist-packages/datacache/download.py:24: in 207s import pandas as pd 207s /usr/lib/python3/dist-packages/pandas/__init__.py:19: in 207s raise ImportError( 207s E ImportError: Unable to import required dependencies: 207s E numpy: Error importing numpy: you should not try to import numpy from 207s E its source directory; please exit the numpy source tree, and relaunch 207s E your python interpreter from there. 207s =========================== short test summary info ============================ 207s ERROR tests/test_ensembl_object_properties.py 207s ERROR tests/test_locus.py 207s ERROR tests/test_release_versions.py 207s ERROR tests/test_shell.py 207s !!!!!!!!!!!!!!!!!!! Interrupted: 4 errors during collection !!!!!!!!!!!!!!!!!!!! 207s ============================== 4 errors in 1.20s =============================== 207s autopkgtest [19:48:55]: test run-unit-test: -----------------------] 208s run-unit-test FAIL non-zero exit status 2 208s autopkgtest [19:48:56]: test run-unit-test: - - - - - - - - - - results - - - - - - - - - - 208s autopkgtest [19:48:56]: test pybuild-autopkgtest: preparing testbed 210s Reading package lists... 210s Building dependency tree... 210s Reading state information... 210s Starting pkgProblemResolver with broken count: 0 210s Starting 2 pkgProblemResolver with broken count: 0 210s Done 211s The following additional packages will be installed: 211s autoconf automake autopoint autotools-dev build-essential cpp cpp-14 211s cpp-14-powerpc64le-linux-gnu cpp-powerpc64le-linux-gnu debhelper debugedit 211s dh-autoreconf dh-python dh-strip-nondeterminism dwz g++ g++-14 211s g++-14-powerpc64le-linux-gnu g++-powerpc64le-linux-gnu gcc gcc-14 211s gcc-14-powerpc64le-linux-gnu gcc-powerpc64le-linux-gnu gettext 211s intltool-debian libarchive-zip-perl libasan8 libcc1-0 libdebhelper-perl 211s libfile-stripnondeterminism-perl libgcc-14-dev libgomp1 libisl23 libitm1 211s liblsan0 libmpc3 libquadmath0 libstdc++-14-dev libtool libtsan2 libubsan1 m4 211s po-debconf pybuild-plugin-autopkgtest 211s Suggested packages: 211s autoconf-archive gnu-standards autoconf-doc cpp-doc gcc-14-locales 211s cpp-14-doc dh-make flit python3-build python3-installer python3-wheel 211s gcc-14-doc gcc-multilib manpages-dev flex bison gdb gcc-doc 211s gdb-powerpc64le-linux-gnu gettext-doc libasprintf-dev libgettextpo-dev 211s libstdc++-14-doc libtool-doc gfortran | fortran95-compiler gcj-jdk m4-doc 211s libmail-box-perl 211s Recommended packages: 211s libarchive-cpio-perl libltdl-dev libmail-sendmail-perl 211s The following NEW packages will be installed: 211s autoconf automake autopkgtest-satdep autopoint autotools-dev build-essential 211s cpp cpp-14 cpp-14-powerpc64le-linux-gnu cpp-powerpc64le-linux-gnu debhelper 211s debugedit dh-autoreconf dh-python dh-strip-nondeterminism dwz g++ g++-14 211s g++-14-powerpc64le-linux-gnu g++-powerpc64le-linux-gnu gcc gcc-14 211s gcc-14-powerpc64le-linux-gnu gcc-powerpc64le-linux-gnu gettext 211s intltool-debian libarchive-zip-perl libasan8 libcc1-0 libdebhelper-perl 211s libfile-stripnondeterminism-perl libgcc-14-dev libgomp1 libisl23 libitm1 211s liblsan0 libmpc3 libquadmath0 libstdc++-14-dev libtool libtsan2 libubsan1 m4 211s po-debconf pybuild-plugin-autopkgtest 211s 0 upgraded, 45 newly installed, 0 to remove and 0 not upgraded. 211s Need to get 62.3 MB/62.3 MB of archives. 211s After this operation, 223 MB of additional disk space will be used. 211s Get:1 /tmp/autopkgtest.7El1Nc/2-autopkgtest-satdep.deb autopkgtest-satdep ppc64el 0 [836 B] 211s Get:2 http://ftpmaster.internal/ubuntu plucky/main ppc64el m4 ppc64el 1.4.19-4build1 [278 kB] 211s Get:3 http://ftpmaster.internal/ubuntu plucky/main ppc64el autoconf all 2.72-3 [382 kB] 212s Get:4 http://ftpmaster.internal/ubuntu plucky/main ppc64el autotools-dev all 20220109.1 [44.9 kB] 212s Get:5 http://ftpmaster.internal/ubuntu plucky/main ppc64el automake all 1:1.16.5-1.3ubuntu1 [558 kB] 212s Get:6 http://ftpmaster.internal/ubuntu plucky/main ppc64el autopoint all 0.22.5-2 [616 kB] 212s Get:7 http://ftpmaster.internal/ubuntu plucky/main ppc64el libisl23 ppc64el 0.27-1 [882 kB] 212s Get:8 http://ftpmaster.internal/ubuntu plucky/main ppc64el libmpc3 ppc64el 1.3.1-1build2 [62.1 kB] 212s Get:9 http://ftpmaster.internal/ubuntu plucky/main ppc64el cpp-14-powerpc64le-linux-gnu ppc64el 14.2.0-8ubuntu1 [10.5 MB] 213s Get:10 http://ftpmaster.internal/ubuntu plucky/main ppc64el cpp-14 ppc64el 14.2.0-8ubuntu1 [1034 B] 213s Get:11 http://ftpmaster.internal/ubuntu plucky/main ppc64el cpp-powerpc64le-linux-gnu ppc64el 4:14.1.0-2ubuntu1 [5456 B] 213s Get:12 http://ftpmaster.internal/ubuntu plucky/main ppc64el cpp ppc64el 4:14.1.0-2ubuntu1 [22.5 kB] 213s Get:13 http://ftpmaster.internal/ubuntu plucky/main ppc64el libcc1-0 ppc64el 14.2.0-8ubuntu1 [48.1 kB] 213s Get:14 http://ftpmaster.internal/ubuntu plucky/main ppc64el libgomp1 ppc64el 14.2.0-8ubuntu1 [161 kB] 213s Get:15 http://ftpmaster.internal/ubuntu plucky/main ppc64el libitm1 ppc64el 14.2.0-8ubuntu1 [31.9 kB] 213s Get:16 http://ftpmaster.internal/ubuntu plucky/main ppc64el libasan8 ppc64el 14.2.0-8ubuntu1 [2945 kB] 213s Get:17 http://ftpmaster.internal/ubuntu plucky/main ppc64el liblsan0 ppc64el 14.2.0-8ubuntu1 [1322 kB] 213s Get:18 http://ftpmaster.internal/ubuntu plucky/main ppc64el libtsan2 ppc64el 14.2.0-8ubuntu1 [2695 kB] 213s Get:19 http://ftpmaster.internal/ubuntu plucky/main ppc64el libubsan1 ppc64el 14.2.0-8ubuntu1 [1191 kB] 214s Get:20 http://ftpmaster.internal/ubuntu plucky/main ppc64el libquadmath0 ppc64el 14.2.0-8ubuntu1 [158 kB] 214s Get:21 http://ftpmaster.internal/ubuntu plucky/main ppc64el libgcc-14-dev ppc64el 14.2.0-8ubuntu1 [1619 kB] 214s Get:22 http://ftpmaster.internal/ubuntu plucky/main ppc64el gcc-14-powerpc64le-linux-gnu ppc64el 14.2.0-8ubuntu1 [20.6 MB] 214s Get:23 http://ftpmaster.internal/ubuntu plucky/main ppc64el gcc-14 ppc64el 14.2.0-8ubuntu1 [528 kB] 214s Get:24 http://ftpmaster.internal/ubuntu plucky/main ppc64el gcc-powerpc64le-linux-gnu ppc64el 4:14.1.0-2ubuntu1 [1222 B] 214s Get:25 http://ftpmaster.internal/ubuntu plucky/main ppc64el gcc ppc64el 4:14.1.0-2ubuntu1 [5006 B] 214s Get:26 http://ftpmaster.internal/ubuntu plucky/main ppc64el libstdc++-14-dev ppc64el 14.2.0-8ubuntu1 [2673 kB] 215s Get:27 http://ftpmaster.internal/ubuntu plucky/main ppc64el g++-14-powerpc64le-linux-gnu ppc64el 14.2.0-8ubuntu1 [12.0 MB] 215s Get:28 http://ftpmaster.internal/ubuntu plucky/main ppc64el g++-14 ppc64el 14.2.0-8ubuntu1 [19.9 kB] 215s Get:29 http://ftpmaster.internal/ubuntu plucky/main ppc64el g++-powerpc64le-linux-gnu ppc64el 4:14.1.0-2ubuntu1 [968 B] 215s Get:30 http://ftpmaster.internal/ubuntu plucky/main ppc64el g++ ppc64el 4:14.1.0-2ubuntu1 [1090 B] 215s Get:31 http://ftpmaster.internal/ubuntu plucky/main ppc64el build-essential ppc64el 12.10ubuntu1 [4936 B] 215s Get:32 http://ftpmaster.internal/ubuntu plucky/main ppc64el libdebhelper-perl all 13.20ubuntu1 [94.2 kB] 215s Get:33 http://ftpmaster.internal/ubuntu plucky/main ppc64el libtool all 2.4.7-7build1 [166 kB] 215s Get:34 http://ftpmaster.internal/ubuntu plucky/main ppc64el dh-autoreconf all 20 [16.1 kB] 215s Get:35 http://ftpmaster.internal/ubuntu plucky/main ppc64el libarchive-zip-perl all 1.68-1 [90.2 kB] 215s Get:36 http://ftpmaster.internal/ubuntu plucky/main ppc64el libfile-stripnondeterminism-perl all 1.14.0-1 [20.1 kB] 215s Get:37 http://ftpmaster.internal/ubuntu plucky/main ppc64el dh-strip-nondeterminism all 1.14.0-1 [5058 B] 215s Get:38 http://ftpmaster.internal/ubuntu plucky/main ppc64el debugedit ppc64el 1:5.1-1 [52.1 kB] 215s Get:39 http://ftpmaster.internal/ubuntu plucky/main ppc64el dwz ppc64el 0.15-1build6 [142 kB] 215s Get:40 http://ftpmaster.internal/ubuntu plucky/main ppc64el gettext ppc64el 0.22.5-2 [1082 kB] 215s Get:41 http://ftpmaster.internal/ubuntu plucky/main ppc64el intltool-debian all 0.35.0+20060710.6 [23.2 kB] 215s Get:42 http://ftpmaster.internal/ubuntu plucky/main ppc64el po-debconf all 1.0.21+nmu1 [233 kB] 215s Get:43 http://ftpmaster.internal/ubuntu plucky/main ppc64el debhelper all 13.20ubuntu1 [893 kB] 215s Get:44 http://ftpmaster.internal/ubuntu plucky/universe ppc64el dh-python all 6.20241024 [112 kB] 215s Get:45 http://ftpmaster.internal/ubuntu plucky/universe ppc64el pybuild-plugin-autopkgtest all 6.20241024 [1746 B] 216s Fetched 62.3 MB in 4s (14.4 MB/s) 216s Selecting previously unselected package m4. 216s (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 ... 78213 files and directories currently installed.) 216s Preparing to unpack .../00-m4_1.4.19-4build1_ppc64el.deb ... 216s Unpacking m4 (1.4.19-4build1) ... 216s Selecting previously unselected package autoconf. 216s Preparing to unpack .../01-autoconf_2.72-3_all.deb ... 216s Unpacking autoconf (2.72-3) ... 216s Selecting previously unselected package autotools-dev. 216s Preparing to unpack .../02-autotools-dev_20220109.1_all.deb ... 216s Unpacking 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autopkgtest-satdep (0) ... 219s Setting up dh-python (6.20241024) ... 220s Setting up libarchive-zip-perl (1.68-1) ... 220s Setting up libdebhelper-perl (13.20ubuntu1) ... 220s Setting up m4 (1.4.19-4build1) ... 220s Setting up libgomp1:ppc64el (14.2.0-8ubuntu1) ... 220s Setting up autotools-dev (20220109.1) ... 220s Setting up libquadmath0:ppc64el (14.2.0-8ubuntu1) ... 220s Setting up libmpc3:ppc64el (1.3.1-1build2) ... 220s Setting up autopoint (0.22.5-2) ... 220s Setting up autoconf (2.72-3) ... 220s Setting up libubsan1:ppc64el (14.2.0-8ubuntu1) ... 220s Setting up dwz (0.15-1build6) ... 220s Setting up libasan8:ppc64el (14.2.0-8ubuntu1) ... 220s Setting up debugedit (1:5.1-1) ... 220s Setting up libtsan2:ppc64el (14.2.0-8ubuntu1) ... 220s Setting up libisl23:ppc64el (0.27-1) ... 220s Setting up libcc1-0:ppc64el (14.2.0-8ubuntu1) ... 220s Setting up liblsan0:ppc64el (14.2.0-8ubuntu1) ... 220s Setting up libitm1:ppc64el (14.2.0-8ubuntu1) ... 220s Setting up automake (1:1.16.5-1.3ubuntu1) ... 220s update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode 220s Setting up libfile-stripnondeterminism-perl (1.14.0-1) ... 220s Setting up gettext (0.22.5-2) ... 220s Setting up intltool-debian (0.35.0+20060710.6) ... 220s Setting up cpp-14-powerpc64le-linux-gnu (14.2.0-8ubuntu1) ... 220s Setting up cpp-14 (14.2.0-8ubuntu1) ... 220s Setting up dh-strip-nondeterminism (1.14.0-1) ... 220s Setting up libgcc-14-dev:ppc64el (14.2.0-8ubuntu1) ... 220s Setting up libstdc++-14-dev:ppc64el (14.2.0-8ubuntu1) ... 220s Setting up cpp-powerpc64le-linux-gnu (4:14.1.0-2ubuntu1) ... 220s Setting up gcc-14-powerpc64le-linux-gnu (14.2.0-8ubuntu1) ... 220s Setting up g++-14-powerpc64le-linux-gnu (14.2.0-8ubuntu1) ... 220s Setting up po-debconf (1.0.21+nmu1) ... 220s Setting up gcc-14 (14.2.0-8ubuntu1) ... 220s Setting up gcc-powerpc64le-linux-gnu (4:14.1.0-2ubuntu1) ... 220s Setting up cpp (4:14.1.0-2ubuntu1) ... 220s Setting up g++-14 (14.2.0-8ubuntu1) ... 220s Setting up g++-powerpc64le-linux-gnu (4:14.1.0-2ubuntu1) ... 220s Setting up libtool (2.4.7-7build1) ... 220s Setting up gcc (4:14.1.0-2ubuntu1) ... 220s Setting up dh-autoreconf (20) ... 220s Setting up g++ (4:14.1.0-2ubuntu1) ... 220s update-alternatives: using /usr/bin/g++ to provide /usr/bin/c++ (c++) in auto mode 220s Setting up build-essential (12.10ubuntu1) ... 220s Setting up debhelper (13.20ubuntu1) ... 220s Setting up pybuild-plugin-autopkgtest (6.20241024) ... 220s Setting up autopkgtest-satdep (0) ... 220s Processing triggers for man-db (2.12.1-3) ... 221s Processing triggers for install-info (7.1.1-1) ... 221s Processing triggers for libc-bin (2.40-1ubuntu3) ... 224s (Reading database ... 80526 files and directories currently installed.) 224s Removing autopkgtest-satdep (0) ... 225s autopkgtest [19:49:13]: test pybuild-autopkgtest: pybuild-autopkgtest 225s autopkgtest [19:49:13]: test pybuild-autopkgtest: [----------------------- 225s pybuild-autopkgtest 225s I: pybuild base:311: cd /tmp/autopkgtest.7El1Nc/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' 226s ============================= test session starts ============================== 226s platform linux -- Python 3.13.0, pytest-8.3.3, pluggy-1.5.0 -- /usr/bin/python3.13 226s cachedir: .pytest_cache 226s rootdir: /tmp/autopkgtest.7El1Nc/autopkgtest_tmp/build 226s plugins: typeguard-4.4.1 228s collecting ... collected 0 items / 25 errors 228s 228s ==================================== ERRORS ==================================== 228s ____________________ ERROR collecting tests/test_contigs.py ____________________ 228s ImportError while importing test module '/tmp/autopkgtest.7El1Nc/autopkgtest_tmp/build/tests/test_contigs.py'. 228s Hint: make sure your test modules/packages have valid Python names. 228s Traceback: 228s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 228s return _bootstrap._gcd_import(name[level:], package, level) 228s tests/test_contigs.py:1: in 228s from pyensembl import genome_for_reference_name 228s /usr/lib/python3/dist-packages/pyensembl/__init__.py:13: in 228s from .database import Database 228s /usr/lib/python3/dist-packages/pyensembl/database.py:17: in 228s import datacache 228s /usr/lib/python3/dist-packages/datacache/__init__.py:13: in 228s from .download import fetch_file, fetch_and_transform, fetch_csv_dataframe 228s /usr/lib/python3/dist-packages/datacache/download.py:24: in 228s import pandas as pd 228s /usr/lib/python3/dist-packages/pandas/__init__.py:19: in 228s raise ImportError( 228s E ImportError: Unable to import required dependencies: 228s E numpy: Error importing numpy: you should not try to import numpy from 228s E its source directory; please exit the numpy source tree, and relaunch 228s E your python interpreter from there. 228s ________________ ERROR collecting tests/test_download_cache.py _________________ 228s ImportError while importing test module '/tmp/autopkgtest.7El1Nc/autopkgtest_tmp/build/tests/test_download_cache.py'. 228s Hint: make sure your test modules/packages have valid Python names. 228s Traceback: 228s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 228s return _bootstrap._gcd_import(name[level:], package, level) 228s tests/test_download_cache.py:5: in 228s from pyensembl.download_cache import DownloadCache, MissingLocalFile, MissingRemoteFile 228s /usr/lib/python3/dist-packages/pyensembl/__init__.py:13: in 228s from .database import Database 228s /usr/lib/python3/dist-packages/pyensembl/database.py:17: in 228s import datacache 228s /usr/lib/python3/dist-packages/datacache/__init__.py:13: in 228s from .download import fetch_file, fetch_and_transform, fetch_csv_dataframe 228s /usr/lib/python3/dist-packages/datacache/download.py:24: in 228s import pandas as pd 228s /usr/lib/python3/dist-packages/pandas/__init__.py:19: in 228s raise ImportError( 228s E ImportError: Unable to import required dependencies: 228s E numpy: Error importing numpy: you should not try to import numpy from 228s E its source directory; please exit the numpy source tree, and relaunch 228s E your python interpreter from there. 228s __________________ ERROR collecting tests/test_ensembl_gtf.py __________________ 228s ImportError while importing test module '/tmp/autopkgtest.7El1Nc/autopkgtest_tmp/build/tests/test_ensembl_gtf.py'. 228s Hint: make sure your test modules/packages have valid Python names. 228s Traceback: 228s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 228s return _bootstrap._gcd_import(name[level:], package, level) 228s tests/test_ensembl_gtf.py:5: in 228s from .common import run_multiple_genomes 228s tests/common.py:3: in 228s from pyensembl import genome_for_reference_name, cached_release 228s /usr/lib/python3/dist-packages/pyensembl/__init__.py:13: in 228s from .database import Database 228s /usr/lib/python3/dist-packages/pyensembl/database.py:17: in 228s import datacache 228s /usr/lib/python3/dist-packages/datacache/__init__.py:13: in 228s from .download import fetch_file, fetch_and_transform, fetch_csv_dataframe 228s /usr/lib/python3/dist-packages/datacache/download.py:24: in 228s import pandas as pd 228s /usr/lib/python3/dist-packages/pandas/__init__.py:19: in 228s raise ImportError( 228s E ImportError: Unable to import required dependencies: 228s E numpy: Error importing numpy: you should not try to import numpy from 228s E its source directory; please exit the numpy source tree, and relaunch 228s E your python interpreter from there. 228s ___________ ERROR collecting tests/test_ensembl_object_properties.py ___________ 228s ImportError while importing test module '/tmp/autopkgtest.7El1Nc/autopkgtest_tmp/build/tests/test_ensembl_object_properties.py'. 228s Hint: make sure your test modules/packages have valid Python names. 228s Traceback: 228s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 228s return _bootstrap._gcd_import(name[level:], package, level) 228s tests/test_ensembl_object_properties.py:8: in 228s from .common import eq_ 228s tests/common.py:3: in 228s from pyensembl import genome_for_reference_name, cached_release 228s /usr/lib/python3/dist-packages/pyensembl/__init__.py:13: in 228s from .database import Database 228s /usr/lib/python3/dist-packages/pyensembl/database.py:17: in 228s import datacache 228s /usr/lib/python3/dist-packages/datacache/__init__.py:13: in 228s from .download import fetch_file, fetch_and_transform, fetch_csv_dataframe 228s /usr/lib/python3/dist-packages/datacache/download.py:24: in 228s import pandas as pd 228s /usr/lib/python3/dist-packages/pandas/__init__.py:19: in 228s raise ImportError( 228s E ImportError: Unable to import required dependencies: 228s E numpy: Error importing numpy: you should not try to import numpy from 228s E its source directory; please exit the numpy source tree, and relaunch 228s E your python interpreter from there. 228s ____________________ ERROR collecting tests/test_exon_id.py ____________________ 228s ImportError while importing test module '/tmp/autopkgtest.7El1Nc/autopkgtest_tmp/build/tests/test_exon_id.py'. 228s Hint: make sure your test modules/packages have valid Python names. 228s Traceback: 228s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 228s return _bootstrap._gcd_import(name[level:], package, level) 228s tests/test_exon_id.py:7: in 228s from pyensembl import cached_release 228s /usr/lib/python3/dist-packages/pyensembl/__init__.py:13: in 228s from .database import Database 228s /usr/lib/python3/dist-packages/pyensembl/database.py:17: in 228s import datacache 228s /usr/lib/python3/dist-packages/datacache/__init__.py:13: in 228s from .download import fetch_file, fetch_and_transform, fetch_csv_dataframe 228s /usr/lib/python3/dist-packages/datacache/download.py:24: in 228s import pandas as pd 228s /usr/lib/python3/dist-packages/pandas/__init__.py:19: in 228s raise ImportError( 228s E ImportError: Unable to import required dependencies: 228s E numpy: Error importing numpy: you should not try to import numpy from 228s E its source directory; please exit the numpy source tree, and relaunch 228s E your python interpreter from there. 228s __________________ ERROR collecting tests/test_exon_object.py __________________ 228s ImportError while importing test module '/tmp/autopkgtest.7El1Nc/autopkgtest_tmp/build/tests/test_exon_object.py'. 228s Hint: make sure your test modules/packages have valid Python names. 228s Traceback: 228s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 228s return _bootstrap._gcd_import(name[level:], package, level) 228s tests/test_exon_object.py:8: in 228s from pyensembl import cached_release 228s /usr/lib/python3/dist-packages/pyensembl/__init__.py:13: in 228s from .database import Database 228s /usr/lib/python3/dist-packages/pyensembl/database.py:17: in 228s import datacache 228s /usr/lib/python3/dist-packages/datacache/__init__.py:13: in 228s from .download import fetch_file, fetch_and_transform, fetch_csv_dataframe 228s /usr/lib/python3/dist-packages/datacache/download.py:24: in 228s import pandas as pd 228s /usr/lib/python3/dist-packages/pandas/__init__.py:19: in 228s raise ImportError( 228s E ImportError: Unable to import required dependencies: 228s E numpy: Error importing numpy: you should not try to import numpy from 228s E its source directory; please exit the numpy source tree, and relaunch 228s E your python interpreter from there. 228s ___________________ ERROR collecting tests/test_gene_ids.py ____________________ 228s ImportError while importing test module '/tmp/autopkgtest.7El1Nc/autopkgtest_tmp/build/tests/test_gene_ids.py'. 228s Hint: make sure your test modules/packages have valid Python names. 228s Traceback: 228s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 228s return _bootstrap._gcd_import(name[level:], package, level) 228s tests/test_gene_ids.py:10: in 228s from pyensembl import ensembl_grch38, cached_release 228s /usr/lib/python3/dist-packages/pyensembl/__init__.py:13: in 228s from .database import Database 228s /usr/lib/python3/dist-packages/pyensembl/database.py:17: in 228s import datacache 228s /usr/lib/python3/dist-packages/datacache/__init__.py:13: in 228s from .download import fetch_file, fetch_and_transform, fetch_csv_dataframe 228s /usr/lib/python3/dist-packages/datacache/download.py:24: in 228s import pandas as pd 228s /usr/lib/python3/dist-packages/pandas/__init__.py:19: in 228s raise ImportError( 228s E ImportError: Unable to import required dependencies: 228s E numpy: Error importing numpy: you should not try to import numpy from 228s E its source directory; please exit the numpy source tree, and relaunch 228s E your python interpreter from there. 228s __________________ ERROR collecting tests/test_gene_names.py ___________________ 228s ImportError while importing test module '/tmp/autopkgtest.7El1Nc/autopkgtest_tmp/build/tests/test_gene_names.py'. 228s Hint: make sure your test modules/packages have valid Python names. 228s Traceback: 228s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 228s return _bootstrap._gcd_import(name[level:], package, level) 228s tests/test_gene_names.py:6: in 228s from pyensembl import genome_for_reference_name 228s /usr/lib/python3/dist-packages/pyensembl/__init__.py:13: in 228s from .database import Database 228s /usr/lib/python3/dist-packages/pyensembl/database.py:17: in 228s import datacache 228s /usr/lib/python3/dist-packages/datacache/__init__.py:13: in 228s from .download import fetch_file, fetch_and_transform, fetch_csv_dataframe 228s /usr/lib/python3/dist-packages/datacache/download.py:24: in 228s import pandas as pd 228s /usr/lib/python3/dist-packages/pandas/__init__.py:19: in 228s raise ImportError( 228s E ImportError: Unable to import required dependencies: 228s E numpy: Error importing numpy: you should not try to import numpy from 228s E its source directory; please exit the numpy source tree, and relaunch 228s E your python interpreter from there. 228s _________________ ERROR collecting tests/test_gene_objects.py __________________ 228s ImportError while importing test module '/tmp/autopkgtest.7El1Nc/autopkgtest_tmp/build/tests/test_gene_objects.py'. 228s Hint: make sure your test modules/packages have valid Python names. 228s Traceback: 228s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 228s return _bootstrap._gcd_import(name[level:], package, level) 228s tests/test_gene_objects.py:1: in 228s from .common import eq_ 228s tests/common.py:3: in 228s from pyensembl import genome_for_reference_name, cached_release 228s /usr/lib/python3/dist-packages/pyensembl/__init__.py:13: in 228s from .database import Database 228s /usr/lib/python3/dist-packages/pyensembl/database.py:17: in 228s import datacache 228s /usr/lib/python3/dist-packages/datacache/__init__.py:13: in 228s from .download import fetch_file, fetch_and_transform, fetch_csv_dataframe 228s /usr/lib/python3/dist-packages/datacache/download.py:24: in 228s import pandas as pd 228s /usr/lib/python3/dist-packages/pandas/__init__.py:19: in 228s raise ImportError( 228s E ImportError: Unable to import required dependencies: 228s E numpy: Error importing numpy: you should not try to import numpy from 228s E its source directory; please exit the numpy source tree, and relaunch 228s E your python interpreter from there. 228s ___________________ ERROR collecting tests/test_id_length.py ___________________ 228s ImportError while importing test module '/tmp/autopkgtest.7El1Nc/autopkgtest_tmp/build/tests/test_id_length.py'. 228s Hint: make sure your test modules/packages have valid Python names. 228s Traceback: 228s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 228s return _bootstrap._gcd_import(name[level:], package, level) 228s tests/test_id_length.py:1: in 228s from .common import major_releases 228s tests/common.py:3: in 228s from pyensembl import genome_for_reference_name, cached_release 228s /usr/lib/python3/dist-packages/pyensembl/__init__.py:13: in 228s from .database import Database 228s /usr/lib/python3/dist-packages/pyensembl/database.py:17: in 228s import datacache 228s /usr/lib/python3/dist-packages/datacache/__init__.py:13: in 228s from .download import fetch_file, fetch_and_transform, fetch_csv_dataframe 228s /usr/lib/python3/dist-packages/datacache/download.py:24: in 228s import pandas as pd 228s /usr/lib/python3/dist-packages/pandas/__init__.py:19: in 228s raise ImportError( 228s E ImportError: Unable to import required dependencies: 228s E numpy: Error importing numpy: you should not try to import numpy from 228s E its source directory; please exit the numpy source tree, and relaunch 228s E your python interpreter from there. 228s _____________________ ERROR collecting tests/test_locus.py _____________________ 228s ImportError while importing test module '/tmp/autopkgtest.7El1Nc/autopkgtest_tmp/build/tests/test_locus.py'. 228s Hint: make sure your test modules/packages have valid Python names. 228s Traceback: 228s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 228s return _bootstrap._gcd_import(name[level:], package, level) 228s tests/test_locus.py:1: in 228s from pyensembl.locus import Locus 228s /usr/lib/python3/dist-packages/pyensembl/__init__.py:13: in 228s from .database import Database 228s /usr/lib/python3/dist-packages/pyensembl/database.py:17: in 228s import datacache 228s /usr/lib/python3/dist-packages/datacache/__init__.py:13: in 228s from .download import fetch_file, fetch_and_transform, fetch_csv_dataframe 228s /usr/lib/python3/dist-packages/datacache/download.py:24: in 228s import pandas as pd 228s /usr/lib/python3/dist-packages/pandas/__init__.py:19: in 228s raise ImportError( 228s E ImportError: Unable to import required dependencies: 228s E numpy: Error importing numpy: you should not try to import numpy from 228s E its source directory; please exit the numpy source tree, and relaunch 228s E your python interpreter from there. 228s ____________ ERROR collecting tests/test_missing_genome_sources.py _____________ 228s ImportError while importing test module '/tmp/autopkgtest.7El1Nc/autopkgtest_tmp/build/tests/test_missing_genome_sources.py'. 228s Hint: make sure your test modules/packages have valid Python names. 228s Traceback: 228s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 228s return _bootstrap._gcd_import(name[level:], package, level) 228s tests/test_missing_genome_sources.py:1: in 228s from pyensembl import Genome 228s /usr/lib/python3/dist-packages/pyensembl/__init__.py:13: in 228s from .database import Database 228s /usr/lib/python3/dist-packages/pyensembl/database.py:17: in 228s import datacache 228s /usr/lib/python3/dist-packages/datacache/__init__.py:13: in 228s from .download import fetch_file, fetch_and_transform, fetch_csv_dataframe 228s /usr/lib/python3/dist-packages/datacache/download.py:24: in 228s import pandas as pd 228s /usr/lib/python3/dist-packages/pandas/__init__.py:19: in 228s raise ImportError( 228s E ImportError: Unable to import required dependencies: 228s E numpy: Error importing numpy: you should not try to import numpy from 228s E its source directory; please exit the numpy source tree, and relaunch 228s E your python interpreter from there. 228s _____________________ ERROR collecting tests/test_mouse.py _____________________ 228s ImportError while importing test module '/tmp/autopkgtest.7El1Nc/autopkgtest_tmp/build/tests/test_mouse.py'. 228s Hint: make sure your test modules/packages have valid Python names. 228s Traceback: 228s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 228s return _bootstrap._gcd_import(name[level:], package, level) 228s tests/test_mouse.py:1: in 228s from .common import eq_ 228s tests/common.py:3: in 228s from pyensembl import genome_for_reference_name, cached_release 228s /usr/lib/python3/dist-packages/pyensembl/__init__.py:13: in 228s from .database import Database 228s /usr/lib/python3/dist-packages/pyensembl/database.py:17: in 228s import datacache 228s /usr/lib/python3/dist-packages/datacache/__init__.py:13: in 228s from .download import fetch_file, fetch_and_transform, fetch_csv_dataframe 228s /usr/lib/python3/dist-packages/datacache/download.py:24: in 228s import pandas as pd 228s /usr/lib/python3/dist-packages/pandas/__init__.py:19: in 228s raise ImportError( 228s E ImportError: Unable to import required dependencies: 228s E numpy: Error importing numpy: you should not try to import numpy from 228s E its source directory; please exit the numpy source tree, and relaunch 228s E your python interpreter from there. 228s _______________ ERROR collecting tests/test_release_versions.py ________________ 228s ImportError while importing test module '/tmp/autopkgtest.7El1Nc/autopkgtest_tmp/build/tests/test_release_versions.py'. 228s Hint: make sure your test modules/packages have valid Python names. 228s Traceback: 228s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 228s return _bootstrap._gcd_import(name[level:], package, level) 228s tests/test_release_versions.py:1: in 228s from pyensembl import EnsemblRelease, MAX_ENSEMBL_RELEASE 228s /usr/lib/python3/dist-packages/pyensembl/__init__.py:13: in 228s from .database import Database 228s /usr/lib/python3/dist-packages/pyensembl/database.py:17: in 228s import datacache 228s /usr/lib/python3/dist-packages/datacache/__init__.py:13: in 228s from .download import fetch_file, fetch_and_transform, fetch_csv_dataframe 228s /usr/lib/python3/dist-packages/datacache/download.py:24: in 228s import pandas as pd 228s /usr/lib/python3/dist-packages/pandas/__init__.py:19: in 228s raise ImportError( 228s E ImportError: Unable to import required dependencies: 228s E numpy: Error importing numpy: you should not try to import numpy from 228s E its source directory; please exit the numpy source tree, and relaunch 228s E your python interpreter from there. 228s ____________________ ERROR collecting tests/test_search.py _____________________ 228s ImportError while importing test module '/tmp/autopkgtest.7El1Nc/autopkgtest_tmp/build/tests/test_search.py'. 228s Hint: make sure your test modules/packages have valid Python names. 228s Traceback: 228s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 228s return _bootstrap._gcd_import(name[level:], package, level) 228s tests/test_search.py:1: in 228s from pyensembl import find_nearest_locus 228s /usr/lib/python3/dist-packages/pyensembl/__init__.py:13: in 228s from .database import Database 228s /usr/lib/python3/dist-packages/pyensembl/database.py:17: in 228s import datacache 228s /usr/lib/python3/dist-packages/datacache/__init__.py:13: in 228s from .download import fetch_file, fetch_and_transform, fetch_csv_dataframe 228s /usr/lib/python3/dist-packages/datacache/download.py:24: in 228s import pandas as pd 228s /usr/lib/python3/dist-packages/pandas/__init__.py:19: in 228s raise ImportError( 228s E ImportError: Unable to import required dependencies: 228s E numpy: Error importing numpy: you should not try to import numpy from 228s E its source directory; please exit the numpy source tree, and relaunch 228s E your python interpreter from there. 228s _________________ ERROR collecting tests/test_sequence_data.py _________________ 228s ImportError while importing test module '/tmp/autopkgtest.7El1Nc/autopkgtest_tmp/build/tests/test_sequence_data.py'. 228s Hint: make sure your test modules/packages have valid Python names. 228s Traceback: 228s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 228s return _bootstrap._gcd_import(name[level:], package, level) 228s tests/test_sequence_data.py:8: in 228s from pyensembl import SequenceData 228s /usr/lib/python3/dist-packages/pyensembl/__init__.py:13: in 228s from .database import Database 228s /usr/lib/python3/dist-packages/pyensembl/database.py:17: in 228s import datacache 228s /usr/lib/python3/dist-packages/datacache/__init__.py:13: in 228s from .download import fetch_file, fetch_and_transform, fetch_csv_dataframe 228s /usr/lib/python3/dist-packages/datacache/download.py:24: in 228s import pandas as pd 228s /usr/lib/python3/dist-packages/pandas/__init__.py:19: in 228s raise ImportError( 228s E ImportError: Unable to import required dependencies: 228s E numpy: Error importing numpy: you should not try to import numpy from 228s E its source directory; please exit the numpy source tree, and relaunch 228s E your python interpreter from there. 228s _________________ ERROR collecting tests/test_serialization.py _________________ 228s ImportError while importing test module '/tmp/autopkgtest.7El1Nc/autopkgtest_tmp/build/tests/test_serialization.py'. 228s Hint: make sure your test modules/packages have valid Python names. 228s Traceback: 228s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 228s return _bootstrap._gcd_import(name[level:], package, level) 228s tests/test_serialization.py:15: in 228s from pyensembl import Genome, Transcript, Gene, Exon 228s /usr/lib/python3/dist-packages/pyensembl/__init__.py:13: in 228s from .database import Database 228s /usr/lib/python3/dist-packages/pyensembl/database.py:17: in 228s import datacache 228s /usr/lib/python3/dist-packages/datacache/__init__.py:13: in 228s from .download import fetch_file, fetch_and_transform, fetch_csv_dataframe 228s /usr/lib/python3/dist-packages/datacache/download.py:24: in 228s import pandas as pd 228s /usr/lib/python3/dist-packages/pandas/__init__.py:19: in 228s raise ImportError( 228s E ImportError: Unable to import required dependencies: 228s E numpy: Error importing numpy: you should not try to import numpy from 228s E its source directory; please exit the numpy source tree, and relaunch 228s E your python interpreter from there. 228s _____________________ ERROR collecting tests/test_shell.py _____________________ 228s ImportError while importing test module '/tmp/autopkgtest.7El1Nc/autopkgtest_tmp/build/tests/test_shell.py'. 228s Hint: make sure your test modules/packages have valid Python names. 228s Traceback: 228s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 228s return _bootstrap._gcd_import(name[level:], package, level) 228s tests/test_shell.py:1: in 228s from pyensembl.shell import parser, all_combinations_of_ensembl_genomes 228s /usr/lib/python3/dist-packages/pyensembl/__init__.py:13: in 228s from .database import Database 228s /usr/lib/python3/dist-packages/pyensembl/database.py:17: in 228s import datacache 228s /usr/lib/python3/dist-packages/datacache/__init__.py:13: in 228s from .download import fetch_file, fetch_and_transform, fetch_csv_dataframe 228s /usr/lib/python3/dist-packages/datacache/download.py:24: in 228s import pandas as pd 228s /usr/lib/python3/dist-packages/pandas/__init__.py:19: in 228s raise ImportError( 228s E ImportError: Unable to import required dependencies: 228s E numpy: Error importing numpy: you should not try to import numpy from 228s E its source directory; please exit the numpy source tree, and relaunch 228s E your python interpreter from there. 228s _____________ ERROR collecting tests/test_string_representation.py _____________ 228s ImportError while importing test module '/tmp/autopkgtest.7El1Nc/autopkgtest_tmp/build/tests/test_string_representation.py'. 228s Hint: make sure your test modules/packages have valid Python names. 228s Traceback: 228s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 228s return _bootstrap._gcd_import(name[level:], package, level) 228s tests/test_string_representation.py:1: in 228s from pyensembl import Locus, Gene, ensembl_grch37, Transcript, Exon 228s /usr/lib/python3/dist-packages/pyensembl/__init__.py:13: in 228s from .database import Database 228s /usr/lib/python3/dist-packages/pyensembl/database.py:17: in 228s import datacache 228s /usr/lib/python3/dist-packages/datacache/__init__.py:13: in 228s from .download import fetch_file, fetch_and_transform, fetch_csv_dataframe 228s /usr/lib/python3/dist-packages/datacache/download.py:24: in 228s import pandas as pd 228s /usr/lib/python3/dist-packages/pandas/__init__.py:19: in 228s raise ImportError( 228s E ImportError: Unable to import required dependencies: 228s E numpy: Error importing numpy: you should not try to import numpy from 228s E its source directory; please exit the numpy source tree, and relaunch 228s E your python interpreter from there. 228s ____________________ ERROR collecting tests/test_timings.py ____________________ 228s ImportError while importing test module '/tmp/autopkgtest.7El1Nc/autopkgtest_tmp/build/tests/test_timings.py'. 228s Hint: make sure your test modules/packages have valid Python names. 228s Traceback: 228s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 228s return _bootstrap._gcd_import(name[level:], package, level) 228s tests/test_timings.py:1: in 228s from pyensembl import genome_for_reference_name 228s /usr/lib/python3/dist-packages/pyensembl/__init__.py:13: in 228s from .database import Database 228s /usr/lib/python3/dist-packages/pyensembl/database.py:17: in 228s import datacache 228s /usr/lib/python3/dist-packages/datacache/__init__.py:13: in 228s from .download import fetch_file, fetch_and_transform, fetch_csv_dataframe 228s /usr/lib/python3/dist-packages/datacache/download.py:24: in 228s import pandas as pd 228s /usr/lib/python3/dist-packages/pandas/__init__.py:19: in 228s raise ImportError( 228s E ImportError: Unable to import required dependencies: 228s E numpy: Error importing numpy: you should not try to import numpy from 228s E its source directory; please exit the numpy source tree, and relaunch 228s E your python interpreter from there. 228s ________________ ERROR collecting tests/test_transcript_ids.py _________________ 228s ImportError while importing test module '/tmp/autopkgtest.7El1Nc/autopkgtest_tmp/build/tests/test_transcript_ids.py'. 228s Hint: make sure your test modules/packages have valid Python names. 228s Traceback: 228s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 228s return _bootstrap._gcd_import(name[level:], package, level) 228s tests/test_transcript_ids.py:7: in 228s from pyensembl import genome_for_reference_name 228s /usr/lib/python3/dist-packages/pyensembl/__init__.py:13: in 228s from .database import Database 228s /usr/lib/python3/dist-packages/pyensembl/database.py:17: in 228s import datacache 228s /usr/lib/python3/dist-packages/datacache/__init__.py:13: in 228s from .download import fetch_file, fetch_and_transform, fetch_csv_dataframe 228s /usr/lib/python3/dist-packages/datacache/download.py:24: in 228s import pandas as pd 228s /usr/lib/python3/dist-packages/pandas/__init__.py:19: in 228s raise ImportError( 228s E ImportError: Unable to import required dependencies: 228s E numpy: Error importing numpy: you should not try to import numpy from 228s E its source directory; please exit the numpy source tree, and relaunch 228s E your python interpreter from there. 228s ______________ ERROR collecting tests/test_transcript_objects.py _______________ 228s ImportError while importing test module '/tmp/autopkgtest.7El1Nc/autopkgtest_tmp/build/tests/test_transcript_objects.py'. 228s Hint: make sure your test modules/packages have valid Python names. 228s Traceback: 228s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 228s return _bootstrap._gcd_import(name[level:], package, level) 228s tests/test_transcript_objects.py:1: in 228s from pyensembl import Locus, cached_release 228s /usr/lib/python3/dist-packages/pyensembl/__init__.py:13: in 228s from .database import Database 228s /usr/lib/python3/dist-packages/pyensembl/database.py:17: in 228s import datacache 228s /usr/lib/python3/dist-packages/datacache/__init__.py:13: in 228s from .download import fetch_file, fetch_and_transform, fetch_csv_dataframe 228s /usr/lib/python3/dist-packages/datacache/download.py:24: in 228s import pandas as pd 228s /usr/lib/python3/dist-packages/pandas/__init__.py:19: in 228s raise ImportError( 228s E ImportError: Unable to import required dependencies: 228s E numpy: Error importing numpy: you should not try to import numpy from 228s E its source directory; please exit the numpy source tree, and relaunch 228s E your python interpreter from there. 228s _____________ ERROR collecting tests/test_transcript_sequences.py ______________ 228s ImportError while importing test module '/tmp/autopkgtest.7El1Nc/autopkgtest_tmp/build/tests/test_transcript_sequences.py'. 228s Hint: make sure your test modules/packages have valid Python names. 228s Traceback: 228s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 228s return _bootstrap._gcd_import(name[level:], package, level) 228s tests/test_transcript_sequences.py:7: in 228s from .common import eq_ 228s tests/common.py:3: in 228s from pyensembl import genome_for_reference_name, cached_release 228s /usr/lib/python3/dist-packages/pyensembl/__init__.py:13: in 228s from .database import Database 228s /usr/lib/python3/dist-packages/pyensembl/database.py:17: in 228s import datacache 228s /usr/lib/python3/dist-packages/datacache/__init__.py:13: in 228s from .download import fetch_file, fetch_and_transform, fetch_csv_dataframe 228s /usr/lib/python3/dist-packages/datacache/download.py:24: in 228s import pandas as pd 228s /usr/lib/python3/dist-packages/pandas/__init__.py:19: in 228s raise ImportError( 228s E ImportError: Unable to import required dependencies: 228s E numpy: Error importing numpy: you should not try to import numpy from 228s E its source directory; please exit the numpy source tree, and relaunch 228s E your python interpreter from there. 228s ___________ ERROR collecting tests/test_transcript_support_level.py ____________ 228s ImportError while importing test module '/tmp/autopkgtest.7El1Nc/autopkgtest_tmp/build/tests/test_transcript_support_level.py'. 228s Hint: make sure your test modules/packages have valid Python names. 228s Traceback: 228s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 228s return _bootstrap._gcd_import(name[level:], package, level) 228s tests/test_transcript_support_level.py:7: in 228s from .common import eq_ 228s tests/common.py:3: in 228s from pyensembl import genome_for_reference_name, cached_release 228s /usr/lib/python3/dist-packages/pyensembl/__init__.py:13: in 228s from .database import Database 228s /usr/lib/python3/dist-packages/pyensembl/database.py:17: in 228s import datacache 228s /usr/lib/python3/dist-packages/datacache/__init__.py:13: in 228s from .download import fetch_file, fetch_and_transform, fetch_csv_dataframe 228s /usr/lib/python3/dist-packages/datacache/download.py:24: in 228s import pandas as pd 228s /usr/lib/python3/dist-packages/pandas/__init__.py:19: in 228s raise ImportError( 228s E ImportError: Unable to import required dependencies: 228s E numpy: Error importing numpy: you should not try to import numpy from 228s E its source directory; please exit the numpy source tree, and relaunch 228s E your python interpreter from there. 228s ___________________ ERROR collecting tests/test_ucsc_gtf.py ____________________ 228s ImportError while importing test module '/tmp/autopkgtest.7El1Nc/autopkgtest_tmp/build/tests/test_ucsc_gtf.py'. 228s Hint: make sure your test modules/packages have valid Python names. 228s Traceback: 228s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 228s return _bootstrap._gcd_import(name[level:], package, level) 228s tests/test_ucsc_gtf.py:1: in 228s from pyensembl import Genome, Database 228s /usr/lib/python3/dist-packages/pyensembl/__init__.py:13: in 228s from .database import Database 228s /usr/lib/python3/dist-packages/pyensembl/database.py:17: in 228s import datacache 228s /usr/lib/python3/dist-packages/datacache/__init__.py:13: in 228s from .download import fetch_file, fetch_and_transform, fetch_csv_dataframe 228s /usr/lib/python3/dist-packages/datacache/download.py:24: in 228s import pandas as pd 228s /usr/lib/python3/dist-packages/pandas/__init__.py:19: in 228s raise ImportError( 228s E ImportError: Unable to import required dependencies: 228s E numpy: Error importing numpy: you should not try to import numpy from 228s E its source directory; please exit the numpy source tree, and relaunch 228s E your python interpreter from there. 228s =========================== short test summary info ============================ 228s ERROR tests/test_contigs.py 228s ERROR tests/test_download_cache.py 228s ERROR tests/test_ensembl_gtf.py 228s ERROR tests/test_ensembl_object_properties.py 228s ERROR tests/test_exon_id.py 228s ERROR tests/test_exon_object.py 228s ERROR tests/test_gene_ids.py 228s ERROR tests/test_gene_names.py 228s ERROR tests/test_gene_objects.py 228s ERROR tests/test_id_length.py 228s ERROR tests/test_locus.py 228s ERROR tests/test_missing_genome_sources.py 228s ERROR tests/test_mouse.py 228s ERROR tests/test_release_versions.py 228s ERROR tests/test_search.py 228s ERROR tests/test_sequence_data.py 228s ERROR tests/test_serialization.py 228s ERROR tests/test_shell.py 228s ERROR tests/test_string_representation.py 228s ERROR tests/test_timings.py 228s ERROR tests/test_transcript_ids.py 228s ERROR tests/test_transcript_objects.py 228s ERROR tests/test_transcript_sequences.py 228s ERROR tests/test_transcript_support_level.py 228s ERROR tests/test_ucsc_gtf.py 228s !!!!!!!!!!!!!!!!!!! Interrupted: 25 errors during collection !!!!!!!!!!!!!!!!!!! 228s ============================== 25 errors in 1.65s ============================== 228s E: pybuild pybuild:389: test: plugin distutils failed with: exit code=2: cd /tmp/autopkgtest.7El1Nc/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' 228s I: pybuild base:311: cd /tmp/autopkgtest.7El1Nc/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' 228s ============================= test session starts ============================== 228s platform linux -- Python 3.12.7, pytest-8.3.3, pluggy-1.5.0 -- /usr/bin/python3.12 228s cachedir: .pytest_cache 228s rootdir: /tmp/autopkgtest.7El1Nc/autopkgtest_tmp/build 228s plugins: typeguard-4.4.1 229s collecting ... collected 126 items / 98 deselected / 28 selected 229s 229s tests/test_ensembl_object_properties.py::test_human_reference_name PASSED [ 3%] 229s tests/test_locus.py::test_normalize_chromosome PASSED [ 7%] 229s tests/test_locus.py::test_locus_overlaps PASSED [ 10%] 229s tests/test_locus.py::test_locus_contains PASSED [ 14%] 229s tests/test_locus.py::test_position_offset PASSED [ 17%] 229s tests/test_locus.py::test_range_offset PASSED [ 21%] 229s tests/test_locus.py::test_locus_distance PASSED [ 25%] 229s tests/test_missing_genome_sources.py::test_transcript_fasta_only PASSED [ 28%] 229s tests/test_missing_genome_sources.py::test_protein_fasta_only PASSED [ 32%] 229s tests/test_missing_genome_sources.py::test_gtf_only PASSED [ 35%] 229s tests/test_missing_genome_sources.py::test_gtf_transcript_only PASSED [ 39%] 229s tests/test_missing_genome_sources.py::test_gtf_protein_only PASSED [ 42%] 229s tests/test_mouse.py::test_mouse_ENSMUSG00000017167 PASSED [ 46%] 229s tests/test_release_versions.py::test_version_too_old_1 PASSED [ 50%] 229s tests/test_release_versions.py::test_version_too_old_47 PASSED [ 53%] 229s tests/test_release_versions.py::test_version_is_not_numeric PASSED [ 57%] 229s tests/test_release_versions.py::test_version_is_none PASSED [ 60%] 229s tests/test_release_versions.py::test_max_ensembl_release PASSED [ 64%] 229s tests/test_release_versions.py::test_int_version PASSED [ 67%] 229s tests/test_release_versions.py::test_str_version PASSED [ 71%] 229s tests/test_sequence_data.py::test_sequence_type PASSED [ 75%] 229s tests/test_sequence_data.py::test_missing_sequence PASSED [ 78%] 229s tests/test_sequence_data.py::test_clear_cache PASSED [ 82%] 229s tests/test_shell.py::test_genome_selection_grch38 PASSED [ 85%] 229s tests/test_ucsc_gtf.py::test_ucsc_gencode_gtf PASSED [ 89%] 229s tests/test_ucsc_gtf.py::test_ucsc_gencode_genome PASSED [ 92%] 229s tests/test_ucsc_gtf.py::test_ucsc_refseq_gtf PASSED [ 96%] 229s tests/test_ucsc_gtf.py::test_ucsc_refseq_genome PASSED [100%] 229s 229s =============================== warnings summary =============================== 229s ../../../../usr/lib/python3/dist-packages/pyensembl/shell.py:43 229s /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 229s import pkg_resources 229s 229s ../../../../usr/lib/python3/dist-packages/pkg_resources/__init__.py:3154 229s /usr/lib/python3/dist-packages/pkg_resources/__init__.py:3154: DeprecationWarning: Deprecated call to `pkg_resources.declare_namespace('logilab')`. 229s 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 229s declare_namespace(pkg) 229s 229s ../../../../usr/lib/python3/dist-packages/pyensembl/shell.py:74 229s /usr/lib/python3/dist-packages/pyensembl/shell.py:74: DeprecationWarning: Nesting argument groups is deprecated. 229s release_group = root_group.add_argument_group() 229s 229s ../../../../usr/lib/python3/dist-packages/pyensembl/shell.py:96 229s /usr/lib/python3/dist-packages/pyensembl/shell.py:96: DeprecationWarning: Nesting argument groups is deprecated. 229s path_group = root_group.add_argument_group() 229s 229s -- Docs: https://docs.pytest.org/en/stable/how-to/capture-warnings.html 229s ================ 28 passed, 98 deselected, 4 warnings in 1.30s ================= 229s pybuild-autopkgtest: error: pybuild --autopkgtest --test-pytest -i python{version} -p "3.13 3.12" returned exit code 13 229s make: *** [/tmp/4i8TDapdiU/run:4: pybuild-autopkgtest] Error 25 229s pybuild-autopkgtest: error: /tmp/4i8TDapdiU/run pybuild-autopkgtest returned exit code 2 230s autopkgtest [19:49:18]: test pybuild-autopkgtest: -----------------------] 230s pybuild-autopkgtest FAIL non-zero exit status 25 230s autopkgtest [19:49:18]: test pybuild-autopkgtest: - - - - - - - - - - results - - - - - - - - - - 231s autopkgtest [19:49:19]: @@@@@@@@@@@@@@@@@@@@ summary 231s run-unit-test FAIL non-zero exit status 2 231s pybuild-autopkgtest FAIL non-zero exit status 25 235s nova [W] Using flock in prodstack6-ppc64el 235s Creating nova instance adt-plucky-ppc64el-pyensembl-20241113-194528-juju-7f2275-prod-proposed-migration-environment-15-1b95b802-7d36-49c9-8dcf-16ab915f8c45 from image adt/ubuntu-plucky-ppc64el-server-20241113.img (UUID 0c5715b6-5cca-4485-b8bf-b85dfd917a5f)...