0s autopkgtest [10:15:26]: starting date and time: 2024-11-13 10:15:26+0000 0s autopkgtest [10:15:26]: git checkout: 6f3be7a8 Fix armhf LXD image generation for plucky 0s autopkgtest [10:15:26]: host juju-7f2275-prod-proposed-migration-environment-15; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work.qv2xz__e/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 python-bx --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 --security-groups autopkgtest-juju-7f2275-prod-proposed-migration-environment-15@bos03-arm64-10.secgroup --name adt-plucky-arm64-python-bx-20241113-101525-juju-7f2275-prod-proposed-migration-environment-15-bf111503-b023-460f-bc7e-fdf15f18960f --image adt/ubuntu-plucky-arm64-server --keyname testbed-juju-7f2275-prod-proposed-migration-environment-15 --net-id=net_prod-proposed-migration -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/ 101s autopkgtest [10:17:07]: testbed dpkg architecture: arm64 101s autopkgtest [10:17:07]: testbed apt version: 2.9.8 101s autopkgtest [10:17:07]: @@@@@@@@@@@@@@@@@@@@ test bed setup 102s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease [73.9 kB] 102s Get:2 http://ftpmaster.internal/ubuntu plucky-proposed/restricted Sources [7016 B] 102s Get:3 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse Sources [15.3 kB] 102s Get:4 http://ftpmaster.internal/ubuntu plucky-proposed/main Sources [76.4 kB] 103s Get:5 http://ftpmaster.internal/ubuntu plucky-proposed/universe Sources [849 kB] 103s Get:6 http://ftpmaster.internal/ubuntu plucky-proposed/main arm64 Packages [104 kB] 103s Get:7 http://ftpmaster.internal/ubuntu plucky-proposed/restricted arm64 Packages [50.3 kB] 103s Get:8 http://ftpmaster.internal/ubuntu plucky-proposed/universe arm64 Packages [601 kB] 103s Get:9 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse arm64 Packages [17.1 kB] 103s Fetched 1794 kB in 1s (1228 kB/s) 103s Reading package lists... 105s Reading package lists... 106s Building dependency tree... 106s Reading state information... 106s Calculating upgrade... 107s The following NEW packages will be installed: 107s python3.13-gdbm 107s The following packages will be upgraded: 107s libpython3-stdlib python3 python3-gdbm python3-minimal 107s 4 upgraded, 1 newly installed, 0 to remove and 0 not upgraded. 107s Need to get 101 kB of archives. 107s After this operation, 141 kB of additional disk space will be used. 107s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed/main arm64 python3-minimal arm64 3.12.7-1 [27.4 kB] 107s Get:2 http://ftpmaster.internal/ubuntu plucky-proposed/main arm64 python3 arm64 3.12.7-1 [24.0 kB] 107s Get:3 http://ftpmaster.internal/ubuntu plucky-proposed/main arm64 libpython3-stdlib arm64 3.12.7-1 [10.0 kB] 107s Get:4 http://ftpmaster.internal/ubuntu plucky/main arm64 python3.13-gdbm arm64 3.13.0-2 [30.7 kB] 107s Get:5 http://ftpmaster.internal/ubuntu plucky-proposed/main arm64 python3-gdbm arm64 3.12.7-1 [8642 B] 108s Fetched 101 kB in 0s (294 kB/s) 108s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 79924 files and directories currently installed.) 108s Preparing to unpack .../python3-minimal_3.12.7-1_arm64.deb ... 108s Unpacking python3-minimal (3.12.7-1) over (3.12.6-0ubuntu1) ... 108s Setting up python3-minimal (3.12.7-1) ... 108s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 79924 files and directories currently installed.) 108s Preparing to unpack .../python3_3.12.7-1_arm64.deb ... 108s Unpacking python3 (3.12.7-1) over (3.12.6-0ubuntu1) ... 108s Preparing to unpack .../libpython3-stdlib_3.12.7-1_arm64.deb ... 108s Unpacking libpython3-stdlib:arm64 (3.12.7-1) over (3.12.6-0ubuntu1) ... 108s Selecting previously unselected package python3.13-gdbm. 108s Preparing to unpack .../python3.13-gdbm_3.13.0-2_arm64.deb ... 108s Unpacking python3.13-gdbm (3.13.0-2) ... 108s Preparing to unpack .../python3-gdbm_3.12.7-1_arm64.deb ... 108s Unpacking python3-gdbm:arm64 (3.12.7-1) over (3.12.6-1ubuntu1) ... 109s Setting up python3.13-gdbm (3.13.0-2) ... 109s Setting up libpython3-stdlib:arm64 (3.12.7-1) ... 109s Setting up python3 (3.12.7-1) ... 109s Setting up python3-gdbm:arm64 (3.12.7-1) ... 109s Processing triggers for man-db (2.12.1-3) ... 110s Reading package lists... 110s Building dependency tree... 110s Reading state information... 111s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 111s Hit:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease 111s Hit:2 http://ftpmaster.internal/ubuntu plucky InRelease 111s Hit:3 http://ftpmaster.internal/ubuntu plucky-updates InRelease 111s Hit:4 http://ftpmaster.internal/ubuntu plucky-security InRelease 112s Reading package lists... 112s Reading package lists... 112s Building dependency tree... 112s Reading state information... 113s Calculating upgrade... 113s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 113s Reading package lists... 114s Building dependency tree... 114s Reading state information... 115s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 118s autopkgtest [10:17:24]: testbed running kernel: Linux 6.11.0-8-generic #8-Ubuntu SMP PREEMPT_DYNAMIC Mon Sep 16 14:19:41 UTC 2024 118s autopkgtest [10:17:24]: @@@@@@@@@@@@@@@@@@@@ apt-source python-bx 120s Get:1 http://ftpmaster.internal/ubuntu plucky/universe python-bx 0.13.0-1 (dsc) [2278 B] 120s Get:2 http://ftpmaster.internal/ubuntu plucky/universe python-bx 0.13.0-1 (tar) [1612 kB] 120s Get:3 http://ftpmaster.internal/ubuntu plucky/universe python-bx 0.13.0-1 (diff) [13.8 kB] 120s gpgv: Signature made Sun Sep 22 12:26:19 2024 UTC 120s gpgv: using RSA key 8F6DE104377F3B11E741748731F3144544A1741A 120s gpgv: issuer "tchet@debian.org" 120s gpgv: Can't check signature: No public key 120s dpkg-source: warning: cannot verify inline signature for ./python-bx_0.13.0-1.dsc: no acceptable signature found 121s autopkgtest [10:17:27]: testing package python-bx version 0.13.0-1 122s autopkgtest [10:17:28]: build not needed 126s autopkgtest [10:17:32]: test pybuild-autopkgtest: preparing testbed 132s Reading package lists... 133s Building dependency tree... 133s Reading state information... 133s Starting pkgProblemResolver with broken count: 0 133s Starting 2 pkgProblemResolver with broken count: 0 133s Done 134s The following additional packages will be installed: 134s autoconf automake autopoint autotools-dev build-essential cpp cpp-14 134s cpp-14-aarch64-linux-gnu cpp-aarch64-linux-gnu cython3 debhelper debugedit 134s dh-autoreconf dh-python dh-strip-nondeterminism dwz g++ g++-14 134s g++-14-aarch64-linux-gnu g++-aarch64-linux-gnu gcc gcc-14 134s gcc-14-aarch64-linux-gnu gcc-aarch64-linux-gnu gettext intltool-debian 134s libarchive-zip-perl libasan8 libblas3 libcc1-0 libdebhelper-perl 134s libexpat1-dev libfile-stripnondeterminism-perl libgcc-14-dev libgfortran5 134s libgomp1 libhwasan0 libisl23 libitm1 libjs-jquery libjs-sphinxdoc 134s libjs-underscore liblapack3 liblsan0 libmpc3 libpython3-all-dev 134s libpython3-dev libpython3.12-dev libpython3.13 libpython3.13-dev 134s libpython3.13-minimal libpython3.13-stdlib libstdc++-14-dev libtool libtsan2 134s libubsan1 m4 po-debconf pybuild-plugin-autopkgtest pybuild-plugin-pyproject 134s python3-all python3-all-dev python3-build python3-bx python3-dev 134s python3-iniconfig python3-installer python3-lzo python3-numpy 134s python3-packaging python3-pluggy python3-pyproject-hooks python3-pytest 134s python3-pytest-cython python3-toml python3-wheel python3.12-dev python3.13 134s python3.13-dev python3.13-minimal zlib1g-dev 134s Suggested packages: 134s autoconf-archive gnu-standards autoconf-doc cpp-doc gcc-14-locales 134s cpp-14-doc cython-doc dh-make flit gcc-14-doc gcc-multilib manpages-dev flex 134s bison gdb gcc-doc gdb-aarch64-linux-gnu gettext-doc libasprintf-dev 134s libgettextpo-dev libstdc++-14-doc libtool-doc gfortran | fortran95-compiler 134s gcj-jdk m4-doc libmail-box-perl python3-pip python3-venv python-build-doc 134s python-installer-doc gfortran python-numpy-doc python3.13-venv 134s python3.13-doc binfmt-support 134s Recommended packages: 134s libarchive-cpio-perl javascript-common libltdl-dev libmail-sendmail-perl 134s The following NEW packages will be installed: 134s autoconf automake autopkgtest-satdep autopoint autotools-dev build-essential 134s cpp cpp-14 cpp-14-aarch64-linux-gnu cpp-aarch64-linux-gnu cython3 debhelper 134s debugedit dh-autoreconf dh-python dh-strip-nondeterminism dwz g++ g++-14 134s g++-14-aarch64-linux-gnu g++-aarch64-linux-gnu gcc gcc-14 134s gcc-14-aarch64-linux-gnu gcc-aarch64-linux-gnu gettext intltool-debian 134s libarchive-zip-perl libasan8 libblas3 libcc1-0 libdebhelper-perl 134s libexpat1-dev libfile-stripnondeterminism-perl libgcc-14-dev libgfortran5 134s libgomp1 libhwasan0 libisl23 libitm1 libjs-jquery libjs-sphinxdoc 134s libjs-underscore liblapack3 liblsan0 libmpc3 libpython3-all-dev 134s libpython3-dev libpython3.12-dev libpython3.13 libpython3.13-dev 134s libpython3.13-minimal libpython3.13-stdlib libstdc++-14-dev libtool libtsan2 134s libubsan1 m4 po-debconf pybuild-plugin-autopkgtest pybuild-plugin-pyproject 134s python3-all python3-all-dev python3-build python3-bx python3-dev 134s python3-iniconfig python3-installer python3-lzo python3-numpy 134s python3-packaging python3-pluggy python3-pyproject-hooks python3-pytest 134s python3-pytest-cython python3-toml python3-wheel python3.12-dev python3.13 134s python3.13-dev python3.13-minimal zlib1g-dev 134s 0 upgraded, 82 newly installed, 0 to remove and 0 not upgraded. 134s Need to get 96.1 MB/96.1 MB of archives. 134s After this operation, 354 MB of additional disk space will be used. 134s Get:1 /tmp/autopkgtest.G3V8vE/1-autopkgtest-satdep.deb autopkgtest-satdep arm64 0 [836 B] 134s Get:2 http://ftpmaster.internal/ubuntu plucky/main arm64 libpython3.13-minimal arm64 3.13.0-2 [877 kB] 135s Get:3 http://ftpmaster.internal/ubuntu plucky/main arm64 python3.13-minimal arm64 3.13.0-2 [2100 kB] 135s Get:4 http://ftpmaster.internal/ubuntu plucky/main arm64 m4 arm64 1.4.19-4build1 [240 kB] 135s Get:5 http://ftpmaster.internal/ubuntu plucky/main arm64 autoconf all 2.72-3 [382 kB] 135s Get:6 http://ftpmaster.internal/ubuntu plucky/main arm64 autotools-dev all 20220109.1 [44.9 kB] 135s Get:7 http://ftpmaster.internal/ubuntu plucky/main arm64 automake all 1:1.16.5-1.3ubuntu1 [558 kB] 135s Get:8 http://ftpmaster.internal/ubuntu plucky/main arm64 autopoint all 0.22.5-2 [616 kB] 135s Get:9 http://ftpmaster.internal/ubuntu plucky/main arm64 libisl23 arm64 0.27-1 [676 kB] 135s Get:10 http://ftpmaster.internal/ubuntu plucky/main arm64 libmpc3 arm64 1.3.1-1build2 [56.8 kB] 135s Get:11 http://ftpmaster.internal/ubuntu plucky/main arm64 cpp-14-aarch64-linux-gnu arm64 14.2.0-8ubuntu1 [10.6 MB] 135s Get:12 http://ftpmaster.internal/ubuntu plucky/main arm64 cpp-14 arm64 14.2.0-8ubuntu1 [1028 B] 135s Get:13 http://ftpmaster.internal/ubuntu plucky/main arm64 cpp-aarch64-linux-gnu arm64 4:14.1.0-2ubuntu1 [5452 B] 135s Get:14 http://ftpmaster.internal/ubuntu plucky/main arm64 cpp arm64 4:14.1.0-2ubuntu1 [22.5 kB] 135s Get:15 http://ftpmaster.internal/ubuntu plucky/main arm64 libcc1-0 arm64 14.2.0-8ubuntu1 [49.7 kB] 135s Get:16 http://ftpmaster.internal/ubuntu plucky/main arm64 libgomp1 arm64 14.2.0-8ubuntu1 [145 kB] 135s Get:17 http://ftpmaster.internal/ubuntu plucky/main arm64 libitm1 arm64 14.2.0-8ubuntu1 [27.8 kB] 135s Get:18 http://ftpmaster.internal/ubuntu plucky/main arm64 libasan8 arm64 14.2.0-8ubuntu1 [2893 kB] 135s Get:19 http://ftpmaster.internal/ubuntu plucky/main arm64 liblsan0 arm64 14.2.0-8ubuntu1 [1283 kB] 135s Get:20 http://ftpmaster.internal/ubuntu plucky/main arm64 libtsan2 arm64 14.2.0-8ubuntu1 [2686 kB] 136s Get:21 http://ftpmaster.internal/ubuntu plucky/main arm64 libubsan1 arm64 14.2.0-8ubuntu1 [1151 kB] 136s Get:22 http://ftpmaster.internal/ubuntu plucky/main arm64 libhwasan0 arm64 14.2.0-8ubuntu1 [1598 kB] 136s Get:23 http://ftpmaster.internal/ubuntu plucky/main arm64 libgcc-14-dev arm64 14.2.0-8ubuntu1 [2594 kB] 136s Get:24 http://ftpmaster.internal/ubuntu plucky/main arm64 gcc-14-aarch64-linux-gnu arm64 14.2.0-8ubuntu1 [20.9 MB] 136s Get:25 http://ftpmaster.internal/ubuntu plucky/main arm64 gcc-14 arm64 14.2.0-8ubuntu1 [518 kB] 136s Get:26 http://ftpmaster.internal/ubuntu plucky/main arm64 gcc-aarch64-linux-gnu arm64 4:14.1.0-2ubuntu1 [1200 B] 136s Get:27 http://ftpmaster.internal/ubuntu plucky/main arm64 gcc arm64 4:14.1.0-2ubuntu1 [4994 B] 136s Get:28 http://ftpmaster.internal/ubuntu plucky/main arm64 libstdc++-14-dev arm64 14.2.0-8ubuntu1 [2476 kB] 136s Get:29 http://ftpmaster.internal/ubuntu plucky/main arm64 g++-14-aarch64-linux-gnu arm64 14.2.0-8ubuntu1 [12.1 MB] 137s Get:30 http://ftpmaster.internal/ubuntu plucky/main arm64 g++-14 arm64 14.2.0-8ubuntu1 [19.9 kB] 137s Get:31 http://ftpmaster.internal/ubuntu plucky/main arm64 g++-aarch64-linux-gnu arm64 4:14.1.0-2ubuntu1 [958 B] 137s Get:32 http://ftpmaster.internal/ubuntu plucky/main arm64 g++ arm64 4:14.1.0-2ubuntu1 [1080 B] 137s Get:33 http://ftpmaster.internal/ubuntu plucky/main arm64 build-essential arm64 12.10ubuntu1 [4932 B] 137s Get:34 http://ftpmaster.internal/ubuntu plucky/universe arm64 cython3 arm64 3.0.11+dfsg-1ubuntu1 [2355 kB] 137s Get:35 http://ftpmaster.internal/ubuntu plucky/main arm64 libdebhelper-perl all 13.20ubuntu1 [94.2 kB] 137s Get:36 http://ftpmaster.internal/ubuntu plucky/main arm64 libtool all 2.4.7-7build1 [166 kB] 137s Get:37 http://ftpmaster.internal/ubuntu plucky/main arm64 dh-autoreconf all 20 [16.1 kB] 137s Get:38 http://ftpmaster.internal/ubuntu plucky/main arm64 libarchive-zip-perl all 1.68-1 [90.2 kB] 137s Get:39 http://ftpmaster.internal/ubuntu plucky/main arm64 libfile-stripnondeterminism-perl all 1.14.0-1 [20.1 kB] 137s Get:40 http://ftpmaster.internal/ubuntu plucky/main arm64 dh-strip-nondeterminism all 1.14.0-1 [5058 B] 137s Get:41 http://ftpmaster.internal/ubuntu plucky/main arm64 debugedit arm64 1:5.1-1 [45.9 kB] 137s Get:42 http://ftpmaster.internal/ubuntu plucky/main arm64 dwz arm64 0.15-1build6 [113 kB] 137s Get:43 http://ftpmaster.internal/ubuntu plucky/main arm64 gettext arm64 0.22.5-2 [930 kB] 137s Get:44 http://ftpmaster.internal/ubuntu plucky/main arm64 intltool-debian all 0.35.0+20060710.6 [23.2 kB] 137s Get:45 http://ftpmaster.internal/ubuntu plucky/main arm64 po-debconf all 1.0.21+nmu1 [233 kB] 137s Get:46 http://ftpmaster.internal/ubuntu plucky/main arm64 debhelper all 13.20ubuntu1 [893 kB] 137s Get:47 http://ftpmaster.internal/ubuntu plucky/universe arm64 dh-python all 6.20241024 [112 kB] 137s Get:48 http://ftpmaster.internal/ubuntu plucky/main arm64 libblas3 arm64 3.12.0-3build2 [152 kB] 137s Get:49 http://ftpmaster.internal/ubuntu plucky/main arm64 libexpat1-dev arm64 2.6.2-2 [128 kB] 137s Get:50 http://ftpmaster.internal/ubuntu plucky/main arm64 libgfortran5 arm64 14.2.0-8ubuntu1 [438 kB] 137s Get:51 http://ftpmaster.internal/ubuntu plucky/main arm64 libjs-jquery all 3.6.1+dfsg+~3.5.14-1 [328 kB] 137s Get:52 http://ftpmaster.internal/ubuntu plucky/main arm64 libjs-underscore all 1.13.4~dfsg+~1.11.4-3 [118 kB] 137s Get:53 http://ftpmaster.internal/ubuntu plucky/main arm64 libjs-sphinxdoc all 7.4.7-4 [158 kB] 137s Get:54 http://ftpmaster.internal/ubuntu plucky/main arm64 liblapack3 arm64 3.12.0-3build2 [2293 kB] 137s Get:55 http://ftpmaster.internal/ubuntu plucky/main arm64 zlib1g-dev arm64 1:1.3.dfsg+really1.3.1-1ubuntu1 [894 kB] 137s Get:56 http://ftpmaster.internal/ubuntu plucky/main arm64 libpython3.12-dev arm64 3.12.7-3 [5565 kB] 137s Get:57 http://ftpmaster.internal/ubuntu plucky-proposed/main arm64 libpython3-dev arm64 3.12.7-1 [10.3 kB] 137s Get:58 http://ftpmaster.internal/ubuntu plucky/main arm64 libpython3.13-stdlib arm64 3.13.0-2 [2073 kB] 137s Get:59 http://ftpmaster.internal/ubuntu plucky/main arm64 libpython3.13 arm64 3.13.0-2 [2262 kB] 137s Get:60 http://ftpmaster.internal/ubuntu plucky/main arm64 libpython3.13-dev arm64 3.13.0-2 [5386 kB] 137s Get:61 http://ftpmaster.internal/ubuntu plucky-proposed/main arm64 libpython3-all-dev arm64 3.12.7-1 [916 B] 137s Get:62 http://ftpmaster.internal/ubuntu plucky/universe arm64 pybuild-plugin-autopkgtest all 6.20241024 [1746 B] 137s Get:63 http://ftpmaster.internal/ubuntu plucky/main arm64 python3-packaging all 24.1-1 [41.4 kB] 137s Get:64 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-pyproject-hooks all 1.2.0-1 [10.2 kB] 137s Get:65 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-toml all 0.10.2-1 [16.5 kB] 137s Get:66 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-wheel all 0.44.0-1 [54.2 kB] 137s Get:67 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-build all 1.2.2-1 [31.0 kB] 137s Get:68 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-installer all 0.7.0+dfsg1-3 [17.4 kB] 137s Get:69 http://ftpmaster.internal/ubuntu plucky/universe arm64 pybuild-plugin-pyproject all 6.20241024 [1728 B] 137s Get:70 http://ftpmaster.internal/ubuntu plucky/main arm64 python3.13 arm64 3.13.0-2 [719 kB] 137s Get:71 http://ftpmaster.internal/ubuntu plucky-proposed/main arm64 python3-all arm64 3.12.7-1 [890 B] 137s Get:72 http://ftpmaster.internal/ubuntu plucky/main arm64 python3.12-dev arm64 3.12.7-3 [505 kB] 137s Get:73 http://ftpmaster.internal/ubuntu plucky-proposed/main arm64 python3-dev arm64 3.12.7-1 [26.7 kB] 138s Get:74 http://ftpmaster.internal/ubuntu plucky/main arm64 python3.13-dev arm64 3.13.0-2 [507 kB] 138s Get:75 http://ftpmaster.internal/ubuntu plucky-proposed/main arm64 python3-all-dev arm64 3.12.7-1 [914 B] 138s Get:76 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-lzo arm64 1.15-2 [9088 B] 138s Get:77 http://ftpmaster.internal/ubuntu plucky/main arm64 python3-numpy arm64 1:1.26.4+ds-11build1 [3654 kB] 138s Get:78 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-bx arm64 0.13.0-1 [706 kB] 138s Get:79 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-iniconfig all 1.1.1-2 [6024 B] 138s Get:80 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-pluggy all 1.5.0-1 [21.0 kB] 138s Get:81 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-pytest all 8.3.3-1 [251 kB] 138s Get:82 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-pytest-cython all 0.3.1-1 [7270 B] 138s Fetched 96.1 MB in 4s (26.9 MB/s) 138s Selecting previously unselected package libpython3.13-minimal:arm64. 138s (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 ... 79931 files and directories currently installed.) 138s Preparing to unpack .../00-libpython3.13-minimal_3.13.0-2_arm64.deb ... 138s Unpacking libpython3.13-minimal:arm64 (3.13.0-2) ... 138s Selecting previously unselected package python3.13-minimal. 138s Preparing to unpack .../01-python3.13-minimal_3.13.0-2_arm64.deb ... 138s Unpacking python3.13-minimal (3.13.0-2) ... 138s Selecting previously unselected package m4. 138s Preparing to unpack .../02-m4_1.4.19-4build1_arm64.deb ... 138s Unpacking m4 (1.4.19-4build1) ... 138s Selecting previously unselected package autoconf. 138s Preparing to unpack .../03-autoconf_2.72-3_all.deb ... 138s Unpacking autoconf (2.72-3) ... 138s Selecting previously unselected package autotools-dev. 138s Preparing to unpack .../04-autotools-dev_20220109.1_all.deb ... 138s Unpacking autotools-dev (20220109.1) ... 138s Selecting previously unselected package automake. 138s Preparing to unpack .../05-automake_1%3a1.16.5-1.3ubuntu1_all.deb ... 138s Unpacking automake (1:1.16.5-1.3ubuntu1) ... 138s Selecting previously unselected package autopoint. 138s Preparing to unpack .../06-autopoint_0.22.5-2_all.deb ... 138s Unpacking autopoint (0.22.5-2) ... 138s Selecting previously unselected package libisl23:arm64. 139s Preparing to unpack .../07-libisl23_0.27-1_arm64.deb ... 139s Unpacking libisl23:arm64 (0.27-1) ... 139s Selecting previously unselected package libmpc3:arm64. 139s Preparing to unpack .../08-libmpc3_1.3.1-1build2_arm64.deb ... 139s Unpacking libmpc3:arm64 (1.3.1-1build2) ... 139s Selecting previously unselected package cpp-14-aarch64-linux-gnu. 139s Preparing to unpack .../09-cpp-14-aarch64-linux-gnu_14.2.0-8ubuntu1_arm64.deb ... 139s Unpacking cpp-14-aarch64-linux-gnu (14.2.0-8ubuntu1) ... 139s Selecting previously unselected package cpp-14. 139s Preparing to unpack .../10-cpp-14_14.2.0-8ubuntu1_arm64.deb ... 139s Unpacking cpp-14 (14.2.0-8ubuntu1) ... 139s Selecting previously unselected package cpp-aarch64-linux-gnu. 139s Preparing to unpack .../11-cpp-aarch64-linux-gnu_4%3a14.1.0-2ubuntu1_arm64.deb ... 139s Unpacking cpp-aarch64-linux-gnu (4:14.1.0-2ubuntu1) ... 139s Selecting previously unselected package cpp. 139s Preparing to unpack .../12-cpp_4%3a14.1.0-2ubuntu1_arm64.deb ... 139s Unpacking cpp (4:14.1.0-2ubuntu1) ... 139s Selecting previously unselected package libcc1-0:arm64. 139s Preparing to unpack .../13-libcc1-0_14.2.0-8ubuntu1_arm64.deb ... 139s Unpacking libcc1-0:arm64 (14.2.0-8ubuntu1) ... 139s Selecting previously unselected package libgomp1:arm64. 139s Preparing to unpack .../14-libgomp1_14.2.0-8ubuntu1_arm64.deb ... 139s Unpacking libgomp1:arm64 (14.2.0-8ubuntu1) ... 139s Selecting previously unselected package libitm1:arm64. 139s Preparing to unpack .../15-libitm1_14.2.0-8ubuntu1_arm64.deb ... 139s Unpacking libitm1:arm64 (14.2.0-8ubuntu1) ... 139s Selecting previously unselected package libasan8:arm64. 139s Preparing to unpack .../16-libasan8_14.2.0-8ubuntu1_arm64.deb ... 139s Unpacking libasan8:arm64 (14.2.0-8ubuntu1) ... 139s Selecting previously unselected package liblsan0:arm64. 139s Preparing to unpack .../17-liblsan0_14.2.0-8ubuntu1_arm64.deb ... 139s Unpacking liblsan0:arm64 (14.2.0-8ubuntu1) ... 139s Selecting previously unselected package libtsan2:arm64. 139s Preparing to unpack .../18-libtsan2_14.2.0-8ubuntu1_arm64.deb ... 139s Unpacking libtsan2:arm64 (14.2.0-8ubuntu1) ... 139s Selecting previously unselected package libubsan1:arm64. 139s Preparing to unpack .../19-libubsan1_14.2.0-8ubuntu1_arm64.deb ... 139s Unpacking libubsan1:arm64 (14.2.0-8ubuntu1) ... 139s Selecting previously unselected package libhwasan0:arm64. 139s Preparing to unpack .../20-libhwasan0_14.2.0-8ubuntu1_arm64.deb ... 139s Unpacking libhwasan0:arm64 (14.2.0-8ubuntu1) ... 139s Selecting previously unselected package libgcc-14-dev:arm64. 139s Preparing to unpack .../21-libgcc-14-dev_14.2.0-8ubuntu1_arm64.deb ... 139s Unpacking libgcc-14-dev:arm64 (14.2.0-8ubuntu1) ... 139s Selecting previously unselected package gcc-14-aarch64-linux-gnu. 139s Preparing to unpack .../22-gcc-14-aarch64-linux-gnu_14.2.0-8ubuntu1_arm64.deb ... 139s Unpacking gcc-14-aarch64-linux-gnu (14.2.0-8ubuntu1) ... 140s Selecting previously unselected package gcc-14. 140s Preparing to unpack .../23-gcc-14_14.2.0-8ubuntu1_arm64.deb ... 140s Unpacking gcc-14 (14.2.0-8ubuntu1) ... 140s Selecting previously unselected package gcc-aarch64-linux-gnu. 140s Preparing to unpack .../24-gcc-aarch64-linux-gnu_4%3a14.1.0-2ubuntu1_arm64.deb ... 140s Unpacking gcc-aarch64-linux-gnu (4:14.1.0-2ubuntu1) ... 140s Selecting previously unselected package gcc. 140s Preparing to unpack .../25-gcc_4%3a14.1.0-2ubuntu1_arm64.deb ... 140s Unpacking gcc (4:14.1.0-2ubuntu1) ... 140s Selecting previously unselected package libstdc++-14-dev:arm64. 140s Preparing to unpack .../26-libstdc++-14-dev_14.2.0-8ubuntu1_arm64.deb ... 140s Unpacking libstdc++-14-dev:arm64 (14.2.0-8ubuntu1) ... 140s Selecting previously unselected package g++-14-aarch64-linux-gnu. 140s Preparing to unpack .../27-g++-14-aarch64-linux-gnu_14.2.0-8ubuntu1_arm64.deb ... 140s Unpacking g++-14-aarch64-linux-gnu (14.2.0-8ubuntu1) ... 140s Selecting previously unselected package g++-14. 140s Preparing to unpack .../28-g++-14_14.2.0-8ubuntu1_arm64.deb ... 140s Unpacking g++-14 (14.2.0-8ubuntu1) ... 141s Selecting previously unselected package g++-aarch64-linux-gnu. 141s Preparing to unpack .../29-g++-aarch64-linux-gnu_4%3a14.1.0-2ubuntu1_arm64.deb ... 141s Unpacking g++-aarch64-linux-gnu (4:14.1.0-2ubuntu1) ... 141s Selecting previously unselected package g++. 141s Preparing to unpack .../30-g++_4%3a14.1.0-2ubuntu1_arm64.deb ... 141s Unpacking g++ (4:14.1.0-2ubuntu1) ... 141s Selecting previously unselected package build-essential. 141s Preparing to unpack .../31-build-essential_12.10ubuntu1_arm64.deb ... 141s Unpacking build-essential (12.10ubuntu1) ... 141s Selecting previously unselected package cython3. 141s Preparing to unpack .../32-cython3_3.0.11+dfsg-1ubuntu1_arm64.deb ... 141s Unpacking cython3 (3.0.11+dfsg-1ubuntu1) ... 141s Selecting previously unselected package libdebhelper-perl. 141s Preparing to unpack .../33-libdebhelper-perl_13.20ubuntu1_all.deb ... 141s Unpacking libdebhelper-perl (13.20ubuntu1) ... 141s Selecting previously unselected package libtool. 141s Preparing to unpack .../34-libtool_2.4.7-7build1_all.deb ... 141s Unpacking libtool (2.4.7-7build1) ... 141s Selecting previously unselected package dh-autoreconf. 141s Preparing to unpack .../35-dh-autoreconf_20_all.deb ... 141s Unpacking dh-autoreconf (20) ... 141s Selecting previously unselected package libarchive-zip-perl. 141s Preparing to unpack .../36-libarchive-zip-perl_1.68-1_all.deb ... 141s Unpacking libarchive-zip-perl (1.68-1) ... 141s Selecting previously unselected package libfile-stripnondeterminism-perl. 141s Preparing to unpack .../37-libfile-stripnondeterminism-perl_1.14.0-1_all.deb ... 141s Unpacking libfile-stripnondeterminism-perl (1.14.0-1) ... 141s Selecting previously unselected package dh-strip-nondeterminism. 141s Preparing to unpack .../38-dh-strip-nondeterminism_1.14.0-1_all.deb ... 141s Unpacking dh-strip-nondeterminism (1.14.0-1) ... 141s Selecting previously unselected package debugedit. 141s Preparing to unpack .../39-debugedit_1%3a5.1-1_arm64.deb ... 141s Unpacking debugedit (1:5.1-1) ... 141s Selecting previously unselected package dwz. 141s Preparing to unpack .../40-dwz_0.15-1build6_arm64.deb ... 141s Unpacking dwz (0.15-1build6) ... 141s Selecting previously unselected package gettext. 141s Preparing to unpack .../41-gettext_0.22.5-2_arm64.deb ... 141s Unpacking gettext (0.22.5-2) ... 141s Selecting previously unselected package intltool-debian. 141s Preparing to unpack .../42-intltool-debian_0.35.0+20060710.6_all.deb ... 141s Unpacking intltool-debian (0.35.0+20060710.6) ... 141s Selecting previously unselected package po-debconf. 141s Preparing to unpack .../43-po-debconf_1.0.21+nmu1_all.deb ... 141s Unpacking po-debconf (1.0.21+nmu1) ... 141s Selecting previously unselected package debhelper. 141s Preparing to unpack .../44-debhelper_13.20ubuntu1_all.deb ... 141s Unpacking debhelper (13.20ubuntu1) ... 141s Selecting previously unselected package dh-python. 141s Preparing to unpack .../45-dh-python_6.20241024_all.deb ... 141s Unpacking dh-python (6.20241024) ... 141s Selecting previously unselected package libblas3:arm64. 141s Preparing to unpack .../46-libblas3_3.12.0-3build2_arm64.deb ... 141s Unpacking libblas3:arm64 (3.12.0-3build2) ... 141s Selecting previously unselected package libexpat1-dev:arm64. 141s Preparing to unpack .../47-libexpat1-dev_2.6.2-2_arm64.deb ... 141s Unpacking libexpat1-dev:arm64 (2.6.2-2) ... 141s Selecting previously unselected package libgfortran5:arm64. 141s Preparing to unpack .../48-libgfortran5_14.2.0-8ubuntu1_arm64.deb ... 141s Unpacking libgfortran5:arm64 (14.2.0-8ubuntu1) ... 141s Selecting previously unselected package libjs-jquery. 141s Preparing to unpack .../49-libjs-jquery_3.6.1+dfsg+~3.5.14-1_all.deb ... 141s Unpacking libjs-jquery (3.6.1+dfsg+~3.5.14-1) ... 141s Selecting previously unselected package libjs-underscore. 141s Preparing to unpack .../50-libjs-underscore_1.13.4~dfsg+~1.11.4-3_all.deb ... 141s Unpacking libjs-underscore (1.13.4~dfsg+~1.11.4-3) ... 141s Selecting previously unselected package libjs-sphinxdoc. 141s Preparing to unpack .../51-libjs-sphinxdoc_7.4.7-4_all.deb ... 141s Unpacking libjs-sphinxdoc (7.4.7-4) ... 141s Selecting previously unselected package liblapack3:arm64. 142s Preparing to unpack .../52-liblapack3_3.12.0-3build2_arm64.deb ... 142s Unpacking liblapack3:arm64 (3.12.0-3build2) ... 142s Selecting previously unselected package zlib1g-dev:arm64. 142s Preparing to unpack .../53-zlib1g-dev_1%3a1.3.dfsg+really1.3.1-1ubuntu1_arm64.deb ... 142s Unpacking zlib1g-dev:arm64 (1:1.3.dfsg+really1.3.1-1ubuntu1) ... 142s Selecting previously unselected package libpython3.12-dev:arm64. 142s Preparing to unpack .../54-libpython3.12-dev_3.12.7-3_arm64.deb ... 142s Unpacking libpython3.12-dev:arm64 (3.12.7-3) ... 142s Selecting previously unselected package libpython3-dev:arm64. 142s Preparing to unpack .../55-libpython3-dev_3.12.7-1_arm64.deb ... 142s Unpacking libpython3-dev:arm64 (3.12.7-1) ... 142s Selecting previously unselected package libpython3.13-stdlib:arm64. 142s Preparing to unpack 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Selecting previously unselected package python3-pluggy. 143s Preparing to unpack .../78-python3-pluggy_1.5.0-1_all.deb ... 143s Unpacking python3-pluggy (1.5.0-1) ... 143s Selecting previously unselected package python3-pytest. 143s Preparing to unpack .../79-python3-pytest_8.3.3-1_all.deb ... 143s Unpacking python3-pytest (8.3.3-1) ... 143s Selecting previously unselected package python3-pytest-cython. 143s Preparing to unpack .../80-python3-pytest-cython_0.3.1-1_all.deb ... 143s Unpacking python3-pytest-cython (0.3.1-1) ... 143s Selecting previously unselected package autopkgtest-satdep. 143s Preparing to unpack .../81-1-autopkgtest-satdep.deb ... 143s Unpacking autopkgtest-satdep (0) ... 143s Setting up dh-python (6.20241024) ... 143s Setting up python3-iniconfig (1.1.1-2) ... 144s Setting up libarchive-zip-perl (1.68-1) ... 144s Setting up libdebhelper-perl (13.20ubuntu1) ... 144s Setting up m4 (1.4.19-4build1) ... 144s Setting up libgomp1:arm64 (14.2.0-8ubuntu1) ... 144s Setting up python3-wheel (0.44.0-1) ... 144s Setting up libpython3.13-minimal:arm64 (3.13.0-2) ... 144s Setting up autotools-dev (20220109.1) ... 144s Setting up libblas3:arm64 (3.12.0-3build2) ... 144s update-alternatives: using /usr/lib/aarch64-linux-gnu/blas/libblas.so.3 to provide /usr/lib/aarch64-linux-gnu/libblas.so.3 (libblas.so.3-aarch64-linux-gnu) in auto mode 144s Setting up python3-packaging (24.1-1) ... 144s Setting up libexpat1-dev:arm64 (2.6.2-2) ... 144s Setting up python3-pyproject-hooks (1.2.0-1) ... 144s Setting up libmpc3:arm64 (1.3.1-1build2) ... 144s Setting up cython3 (3.0.11+dfsg-1ubuntu1) ... 146s Setting up autopoint (0.22.5-2) ... 146s Setting up python3-toml (0.10.2-1) ... 146s Setting up python3-installer (0.7.0+dfsg1-3) ... 147s Setting up libgfortran5:arm64 (14.2.0-8ubuntu1) ... 147s Setting up autoconf (2.72-3) ... 147s Setting up python3-pluggy (1.5.0-1) ... 147s Setting up libubsan1:arm64 (14.2.0-8ubuntu1) ... 147s Setting up zlib1g-dev:arm64 (1:1.3.dfsg+really1.3.1-1ubuntu1) ... 147s Setting up dwz (0.15-1build6) ... 147s Setting up libhwasan0:arm64 (14.2.0-8ubuntu1) ... 147s Setting up libasan8:arm64 (14.2.0-8ubuntu1) ... 147s Setting up debugedit (1:5.1-1) ... 147s Setting up python3.13-minimal (3.13.0-2) ... 148s Setting up libtsan2:arm64 (14.2.0-8ubuntu1) ... 148s Setting up libjs-jquery (3.6.1+dfsg+~3.5.14-1) ... 148s Setting up libisl23:arm64 (0.27-1) ... 148s Setting up python3-build (1.2.2-1) ... 148s Setting up libpython3.13-stdlib:arm64 (3.13.0-2) ... 148s Setting up libcc1-0:arm64 (14.2.0-8ubuntu1) ... 148s Setting up liblsan0:arm64 (14.2.0-8ubuntu1) ... 148s Setting up python3-lzo:arm64 (1.15-2) ... 148s Setting up libitm1:arm64 (14.2.0-8ubuntu1) ... 148s Setting up libjs-underscore (1.13.4~dfsg+~1.11.4-3) ... 148s Setting up libpython3.13:arm64 (3.13.0-2) ... 148s Setting up automake (1:1.16.5-1.3ubuntu1) ... 148s update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode 148s Setting up libfile-stripnondeterminism-perl (1.14.0-1) ... 148s Setting up liblapack3:arm64 (3.12.0-3build2) ... 148s update-alternatives: using /usr/lib/aarch64-linux-gnu/lapack/liblapack.so.3 to provide /usr/lib/aarch64-linux-gnu/liblapack.so.3 (liblapack.so.3-aarch64-linux-gnu) in auto mode 148s Setting up gettext (0.22.5-2) ... 148s Setting up python3.13 (3.13.0-2) ... 149s Setting up pybuild-plugin-pyproject (6.20241024) ... 149s Setting up python3-pytest (8.3.3-1) ... 150s Setting up python3-all (3.12.7-1) ... 150s Setting up libpython3.12-dev:arm64 (3.12.7-3) ... 150s Setting up intltool-debian (0.35.0+20060710.6) ... 150s Setting up libpython3.13-dev:arm64 (3.13.0-2) ... 150s Setting up python3.12-dev (3.12.7-3) ... 150s Setting up python3-numpy (1:1.26.4+ds-11build1) ... 154s Setting up libjs-sphinxdoc (7.4.7-4) ... 154s Setting up dh-strip-nondeterminism (1.14.0-1) ... 154s Setting up cpp-14-aarch64-linux-gnu (14.2.0-8ubuntu1) ... 154s Setting up libgcc-14-dev:arm64 (14.2.0-8ubuntu1) ... 154s Setting up libstdc++-14-dev:arm64 (14.2.0-8ubuntu1) ... 154s Setting up python3-bx (0.13.0-1) ... 154s Setting up libpython3-dev:arm64 (3.12.7-1) ... 154s Setting up python3-pytest-cython (0.3.1-1) ... 155s Setting up python3.13-dev (3.13.0-2) ... 155s Setting up po-debconf (1.0.21+nmu1) ... 155s Setting up cpp-aarch64-linux-gnu (4:14.1.0-2ubuntu1) ... 155s Setting up libpython3-all-dev:arm64 (3.12.7-1) ... 155s Setting up python3-dev (3.12.7-1) ... 155s Setting up cpp-14 (14.2.0-8ubuntu1) ... 155s Setting up cpp (4:14.1.0-2ubuntu1) ... 155s Setting up gcc-14-aarch64-linux-gnu (14.2.0-8ubuntu1) ... 155s Setting up python3-all-dev (3.12.7-1) ... 155s Setting up gcc-aarch64-linux-gnu (4:14.1.0-2ubuntu1) ... 155s Setting up g++-14-aarch64-linux-gnu (14.2.0-8ubuntu1) ... 155s Setting up gcc-14 (14.2.0-8ubuntu1) ... 155s Setting up g++-aarch64-linux-gnu (4:14.1.0-2ubuntu1) ... 155s Setting up g++-14 (14.2.0-8ubuntu1) ... 155s Setting up libtool (2.4.7-7build1) ... 155s Setting up gcc (4:14.1.0-2ubuntu1) ... 155s Setting up dh-autoreconf (20) ... 155s Setting up g++ (4:14.1.0-2ubuntu1) ... 155s update-alternatives: using /usr/bin/g++ to provide /usr/bin/c++ (c++) in auto mode 155s Setting up build-essential (12.10ubuntu1) ... 155s Setting up debhelper (13.20ubuntu1) ... 155s Setting up pybuild-plugin-autopkgtest (6.20241024) ... 155s Setting up autopkgtest-satdep (0) ... 155s Processing triggers for systemd (256.5-2ubuntu4) ... 155s Processing triggers for man-db (2.12.1-3) ... 156s Processing triggers for install-info (7.1.1-1) ... 156s Processing triggers for libc-bin (2.40-1ubuntu3) ... 166s (Reading database ... 85468 files and directories currently installed.) 166s Removing autopkgtest-satdep (0) ... 169s autopkgtest [10:18:15]: test pybuild-autopkgtest: pybuild-autopkgtest 169s autopkgtest [10:18:15]: test pybuild-autopkgtest: [----------------------- 171s find lib -name "*_tests.py" >> debian/pybuild.testfiles 171s pybuild-autopkgtest 171s I: pybuild base:311: cd /tmp/autopkgtest.G3V8vE/autopkgtest_tmp/build; python3.13 -m pytest 173s ============================= test session starts ============================== 173s platform linux -- Python 3.13.0, pytest-8.3.3, pluggy-1.5.0 173s rootdir: /tmp/autopkgtest.G3V8vE/autopkgtest_tmp/build 173s configfile: pytest.ini 173s plugins: typeguard-4.4.1, cython-0.3.1 173s collected 22 items / 44 errors 173s 173s ==================================== ERRORS ==================================== 173s _____________________ ERROR collecting array_tree_tests.py _____________________ 173s ImportError while importing test module '/tmp/autopkgtest.G3V8vE/autopkgtest_tmp/build/array_tree_tests.py'. 173s Hint: make sure your test modules/packages have valid Python names. 173s Traceback: 173s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 173s return _bootstrap._gcd_import(name[level:], package, level) 173s array_tree_tests.py:11: in 173s from bx.arrays.array_tree import ( 173s E ModuleNotFoundError: No module named 'bx.arrays.array_tree' 173s _____________________ ERROR collecting array_tree_tests.py _____________________ 173s ImportError while importing test module '/tmp/autopkgtest.G3V8vE/autopkgtest_tmp/build/array_tree_tests.py'. 173s Hint: make sure your test modules/packages have valid Python names. 173s Traceback: 173s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 173s return _bootstrap._gcd_import(name[level:], package, level) 173s array_tree_tests.py:11: in 173s from bx.arrays.array_tree import ( 173s E ModuleNotFoundError: No module named 'bx.arrays.array_tree' 173s ________________________ ERROR collecting bgzf_tests.py ________________________ 173s ImportError while importing test module '/tmp/autopkgtest.G3V8vE/autopkgtest_tmp/build/bgzf_tests.py'. 173s Hint: make sure your test modules/packages have valid Python names. 173s Traceback: 173s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 173s return _bootstrap._gcd_import(name[level:], package, level) 173s bgzf_tests.py:1: in 173s import bx.misc.bgzf 173s E ModuleNotFoundError: No module named 'bx.misc.bgzf' 173s ________________________ ERROR collecting bgzf_tests.py ________________________ 173s ImportError while importing test module '/tmp/autopkgtest.G3V8vE/autopkgtest_tmp/build/bgzf_tests.py'. 173s Hint: make sure your test modules/packages have valid Python names. 173s Traceback: 173s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 173s return _bootstrap._gcd_import(name[level:], package, level) 173s bgzf_tests.py:1: in 173s import bx.misc.bgzf 173s E ModuleNotFoundError: No module named 'bx.misc.bgzf' 173s _______________________ ERROR collecting bigwig_tests.py _______________________ 173s ImportError while importing test module '/tmp/autopkgtest.G3V8vE/autopkgtest_tmp/build/bigwig_tests.py'. 173s Hint: make sure your test modules/packages have valid Python names. 173s Traceback: 173s /usr/lib/python3/dist-packages/numpy/core/__init__.py:24: in 173s from . import multiarray 173s /usr/lib/python3/dist-packages/numpy/core/multiarray.py:10: in 173s from . import overrides 173s /usr/lib/python3/dist-packages/numpy/core/overrides.py:8: in 173s from numpy.core._multiarray_umath import ( 173s E ModuleNotFoundError: No module named 'numpy.core._multiarray_umath' 173s 173s During handling of the above exception, another exception occurred: 173s /usr/lib/python3/dist-packages/numpy/__init__.py:130: in 173s from numpy.__config__ import show as show_config 173s /usr/lib/python3/dist-packages/numpy/__config__.py:4: in 173s from numpy.core._multiarray_umath import ( 173s /usr/lib/python3/dist-packages/numpy/core/__init__.py:50: in 173s raise ImportError(msg) 173s E ImportError: 173s E 173s E IMPORTANT: PLEASE READ THIS FOR ADVICE ON HOW TO SOLVE THIS ISSUE! 173s E 173s E Importing the numpy C-extensions failed. This error can happen for 173s E many reasons, often due to issues with your setup or how NumPy was 173s E installed. 173s E 173s E We have compiled some common reasons and troubleshooting tips at: 173s E 173s E https://numpy.org/devdocs/user/troubleshooting-importerror.html 173s E 173s E Please note and check the following: 173s E 173s E * The Python version is: Python3.13 from "/usr/bin/python3.13" 173s E * The NumPy version is: "1.26.4" 173s E 173s E and make sure that they are the versions you expect. 173s E Please carefully study the documentation linked above for further help. 173s E 173s E Original error was: No module named 'numpy.core._multiarray_umath' 173s 173s The above exception was the direct cause of the following exception: 173s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 173s return _bootstrap._gcd_import(name[level:], package, level) 173s bigwig_tests.py:4: in 173s import numpy 173s /usr/lib/python3/dist-packages/numpy/__init__.py:135: in 173s raise ImportError(msg) from e 173s E ImportError: Error importing numpy: you should not try to import numpy from 173s E its source directory; please exit the numpy source tree, and relaunch 173s E your python interpreter from there. 173s _______________________ ERROR collecting bigwig_tests.py _______________________ 173s ImportError while importing test module '/tmp/autopkgtest.G3V8vE/autopkgtest_tmp/build/bigwig_tests.py'. 173s Hint: make sure your test modules/packages have valid Python names. 173s Traceback: 173s /usr/lib/python3/dist-packages/numpy/core/__init__.py:24: in 173s from . import multiarray 173s /usr/lib/python3/dist-packages/numpy/core/multiarray.py:10: in 173s from . import overrides 173s /usr/lib/python3/dist-packages/numpy/core/overrides.py:8: in 173s from numpy.core._multiarray_umath import ( 173s E ModuleNotFoundError: No module named 'numpy.core._multiarray_umath' 173s 173s During handling of the above exception, another exception occurred: 173s /usr/lib/python3/dist-packages/numpy/__init__.py:130: in 173s from numpy.__config__ import show as show_config 173s /usr/lib/python3/dist-packages/numpy/__config__.py:4: in 173s from numpy.core._multiarray_umath import ( 173s /usr/lib/python3/dist-packages/numpy/core/__init__.py:50: in 173s raise ImportError(msg) 173s E ImportError: 173s E 173s E IMPORTANT: PLEASE READ THIS FOR ADVICE ON HOW TO SOLVE THIS ISSUE! 173s E 173s E Importing the numpy C-extensions failed. This error can happen for 173s E many reasons, often due to issues with your setup or how NumPy was 173s E installed. 173s E 173s E We have compiled some common reasons and troubleshooting tips at: 173s E 173s E https://numpy.org/devdocs/user/troubleshooting-importerror.html 173s E 173s E Please note and check the following: 173s E 173s E * The Python version is: Python3.13 from "/usr/bin/python3.13" 173s E * The NumPy version is: "1.26.4" 173s E 173s E and make sure that they are the versions you expect. 173s E Please carefully study the documentation linked above for further help. 173s E 173s E Original error was: No module named 'numpy.core._multiarray_umath' 173s 173s The above exception was the direct cause of the following exception: 173s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 173s return _bootstrap._gcd_import(name[level:], package, level) 173s bigwig_tests.py:4: in 173s import numpy 173s /usr/lib/python3/dist-packages/numpy/__init__.py:135: in 173s raise ImportError(msg) from e 173s E ImportError: Error importing numpy: you should not try to import numpy from 173s E its source directory; please exit the numpy source tree, and relaunch 173s E your python interpreter from there. 173s ____________________ ERROR collecting binned_array_tests.py ____________________ 173s ImportError while importing test module '/tmp/autopkgtest.G3V8vE/autopkgtest_tmp/build/binned_array_tests.py'. 173s Hint: make sure your test modules/packages have valid Python names. 173s Traceback: 173s /usr/lib/python3/dist-packages/numpy/core/__init__.py:24: in 173s from . import multiarray 173s /usr/lib/python3/dist-packages/numpy/core/multiarray.py:10: in 173s from . import overrides 173s /usr/lib/python3/dist-packages/numpy/core/overrides.py:8: in 173s from numpy.core._multiarray_umath import ( 173s E ModuleNotFoundError: No module named 'numpy.core._multiarray_umath' 173s 173s During handling of the above exception, another exception occurred: 173s /usr/lib/python3/dist-packages/numpy/__init__.py:130: in 173s from numpy.__config__ import show as show_config 173s /usr/lib/python3/dist-packages/numpy/__config__.py:4: in 173s from numpy.core._multiarray_umath import ( 173s /usr/lib/python3/dist-packages/numpy/core/__init__.py:50: in 173s raise ImportError(msg) 173s E ImportError: 173s E 173s E IMPORTANT: PLEASE READ THIS FOR ADVICE ON HOW TO SOLVE THIS ISSUE! 173s E 173s E Importing the numpy C-extensions failed. This error can happen for 173s E many reasons, often due to issues with your setup or how NumPy was 173s E installed. 173s E 173s E We have compiled some common reasons and troubleshooting tips at: 173s E 173s E https://numpy.org/devdocs/user/troubleshooting-importerror.html 173s E 173s E Please note and check the following: 173s E 173s E * The Python version is: Python3.13 from "/usr/bin/python3.13" 173s E * The NumPy version is: "1.26.4" 173s E 173s E and make sure that they are the versions you expect. 173s E Please carefully study the documentation linked above for further help. 173s E 173s E Original error was: No module named 'numpy.core._multiarray_umath' 173s 173s The above exception was the direct cause of the following exception: 173s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 173s return _bootstrap._gcd_import(name[level:], package, level) 173s binned_array_tests.py:6: in 173s from numpy import ( 173s /usr/lib/python3/dist-packages/numpy/__init__.py:135: in 173s raise ImportError(msg) from e 173s E ImportError: Error importing numpy: you should not try to import numpy from 173s E its source directory; please exit the numpy source tree, and relaunch 173s E your python interpreter from there. 173s ____________________ ERROR collecting binned_array_tests.py ____________________ 173s ImportError while importing test module '/tmp/autopkgtest.G3V8vE/autopkgtest_tmp/build/binned_array_tests.py'. 173s Hint: make sure your test modules/packages have valid Python names. 173s Traceback: 173s /usr/lib/python3/dist-packages/numpy/core/__init__.py:24: in 173s from . import multiarray 173s /usr/lib/python3/dist-packages/numpy/core/multiarray.py:10: in 173s from . import overrides 173s /usr/lib/python3/dist-packages/numpy/core/overrides.py:8: in 173s from numpy.core._multiarray_umath import ( 173s E ModuleNotFoundError: No module named 'numpy.core._multiarray_umath' 173s 173s During handling of the above exception, another exception occurred: 173s /usr/lib/python3/dist-packages/numpy/__init__.py:130: in 173s from numpy.__config__ import show as show_config 173s /usr/lib/python3/dist-packages/numpy/__config__.py:4: in 173s from numpy.core._multiarray_umath import ( 173s /usr/lib/python3/dist-packages/numpy/core/__init__.py:50: in 173s raise ImportError(msg) 173s E ImportError: 173s E 173s E IMPORTANT: PLEASE READ THIS FOR ADVICE ON HOW TO SOLVE THIS ISSUE! 173s E 173s E Importing the numpy C-extensions failed. This error can happen for 173s E many reasons, often due to issues with your setup or how NumPy was 173s E installed. 173s E 173s E We have compiled some common reasons and troubleshooting tips at: 173s E 173s E https://numpy.org/devdocs/user/troubleshooting-importerror.html 173s E 173s E Please note and check the following: 173s E 173s E * The Python version is: Python3.13 from "/usr/bin/python3.13" 173s E * The NumPy version is: "1.26.4" 173s E 173s E and make sure that they are the versions you expect. 173s E Please carefully study the documentation linked above for further help. 173s E 173s E Original error was: No module named 'numpy.core._multiarray_umath' 173s 173s The above exception was the direct cause of the following exception: 173s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 173s return _bootstrap._gcd_import(name[level:], package, level) 173s binned_array_tests.py:6: in 173s from numpy import ( 173s /usr/lib/python3/dist-packages/numpy/__init__.py:135: in 173s raise ImportError(msg) from e 173s E ImportError: Error importing numpy: you should not try to import numpy from 173s E its source directory; please exit the numpy source tree, and relaunch 173s E your python interpreter from there. 173s _______________________ ERROR collecting bitset_tests.py _______________________ 173s ImportError while importing test module '/tmp/autopkgtest.G3V8vE/autopkgtest_tmp/build/bitset_tests.py'. 173s Hint: make sure your test modules/packages have valid Python names. 173s Traceback: 173s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 173s return _bootstrap._gcd_import(name[level:], package, level) 173s bitset_tests.py:7: in 173s import bx.bitset 173s E ModuleNotFoundError: No module named 'bx.bitset' 173s _______________________ ERROR collecting bitset_tests.py _______________________ 173s ImportError while importing test module '/tmp/autopkgtest.G3V8vE/autopkgtest_tmp/build/bitset_tests.py'. 173s Hint: make sure your test modules/packages have valid Python names. 173s Traceback: 173s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 173s return _bootstrap._gcd_import(name[level:], package, level) 173s bitset_tests.py:7: in 173s import bx.bitset 173s E ModuleNotFoundError: No module named 'bx.bitset' 173s ________________________ ERROR collecting cdb_tests.py _________________________ 173s ImportError while importing test module '/tmp/autopkgtest.G3V8vE/autopkgtest_tmp/build/cdb_tests.py'. 173s Hint: make sure your test modules/packages have valid Python names. 173s Traceback: 173s /usr/lib/python3/dist-packages/numpy/core/__init__.py:24: in 173s from . import multiarray 173s /usr/lib/python3/dist-packages/numpy/core/multiarray.py:10: in 173s from . import overrides 173s /usr/lib/python3/dist-packages/numpy/core/overrides.py:8: in 173s from numpy.core._multiarray_umath import ( 173s E ModuleNotFoundError: No module named 'numpy.core._multiarray_umath' 173s 173s During handling of the above exception, another exception occurred: 173s /usr/lib/python3/dist-packages/numpy/__init__.py:130: in 173s from numpy.__config__ import show as show_config 173s /usr/lib/python3/dist-packages/numpy/__config__.py:4: in 173s from numpy.core._multiarray_umath import ( 173s /usr/lib/python3/dist-packages/numpy/core/__init__.py:50: in 173s raise ImportError(msg) 173s E ImportError: 173s E 173s E IMPORTANT: PLEASE READ THIS FOR ADVICE ON HOW TO SOLVE THIS ISSUE! 173s E 173s E Importing the numpy C-extensions failed. This error can happen for 173s E many reasons, often due to issues with your setup or how NumPy was 173s E installed. 173s E 173s E We have compiled some common reasons and troubleshooting tips at: 173s E 173s E https://numpy.org/devdocs/user/troubleshooting-importerror.html 173s E 173s E Please note and check the following: 173s E 173s E * The Python version is: Python3.13 from "/usr/bin/python3.13" 173s E * The NumPy version is: "1.26.4" 173s E 173s E and make sure that they are the versions you expect. 173s E Please carefully study the documentation linked above for further help. 173s E 173s E Original error was: No module named 'numpy.core._multiarray_umath' 173s 173s The above exception was the direct cause of the following exception: 173s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 173s return _bootstrap._gcd_import(name[level:], package, level) 173s cdb_tests.py:3: in 173s from bx.misc.cdb import FileCDBDict 173s /usr/lib/python3/dist-packages/bx/misc/cdb.py:4: in 173s from bx.misc.binary_file import ( 173s /usr/lib/python3/dist-packages/bx/misc/binary_file.py:8: in 173s import numpy 173s /usr/lib/python3/dist-packages/numpy/__init__.py:135: in 173s raise ImportError(msg) from e 173s E ImportError: Error importing numpy: you should not try to import numpy from 173s E its source directory; please exit the numpy source tree, and relaunch 173s E your python interpreter from there. 173s ________________________ ERROR collecting cdb_tests.py _________________________ 173s ImportError while importing test module '/tmp/autopkgtest.G3V8vE/autopkgtest_tmp/build/cdb_tests.py'. 173s Hint: make sure your test modules/packages have valid Python names. 173s Traceback: 173s /usr/lib/python3/dist-packages/numpy/core/__init__.py:24: in 173s from . import multiarray 173s /usr/lib/python3/dist-packages/numpy/core/multiarray.py:10: in 173s from . import overrides 173s /usr/lib/python3/dist-packages/numpy/core/overrides.py:8: in 173s from numpy.core._multiarray_umath import ( 173s E ModuleNotFoundError: No module named 'numpy.core._multiarray_umath' 173s 173s During handling of the above exception, another exception occurred: 173s /usr/lib/python3/dist-packages/numpy/__init__.py:130: in 173s from numpy.__config__ import show as show_config 173s /usr/lib/python3/dist-packages/numpy/__config__.py:4: in 173s from numpy.core._multiarray_umath import ( 173s /usr/lib/python3/dist-packages/numpy/core/__init__.py:50: in 173s raise ImportError(msg) 173s E ImportError: 173s E 173s E IMPORTANT: PLEASE READ THIS FOR ADVICE ON HOW TO SOLVE THIS ISSUE! 173s E 173s E Importing the numpy C-extensions failed. This error can happen for 173s E many reasons, often due to issues with your setup or how NumPy was 173s E installed. 173s E 173s E We have compiled some common reasons and troubleshooting tips at: 173s E 173s E https://numpy.org/devdocs/user/troubleshooting-importerror.html 173s E 173s E Please note and check the following: 173s E 173s E * The Python version is: Python3.13 from "/usr/bin/python3.13" 173s E * The NumPy version is: "1.26.4" 173s E 173s E and make sure that they are the versions you expect. 173s E Please carefully study the documentation linked above for further help. 173s E 173s E Original error was: No module named 'numpy.core._multiarray_umath' 173s 173s The above exception was the direct cause of the following exception: 173s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 173s return _bootstrap._gcd_import(name[level:], package, level) 173s cdb_tests.py:3: in 173s from bx.misc.cdb import FileCDBDict 173s /usr/lib/python3/dist-packages/bx/misc/cdb.py:4: in 173s from bx.misc.binary_file import ( 173s /usr/lib/python3/dist-packages/bx/misc/binary_file.py:8: in 173s import numpy 173s /usr/lib/python3/dist-packages/numpy/__init__.py:135: in 173s raise ImportError(msg) from e 173s E ImportError: Error importing numpy: you should not try to import numpy from 173s E its source directory; please exit the numpy source tree, and relaunch 173s E your python interpreter from there. 173s ______________________ ERROR collecting cluster_tests.py _______________________ 173s ImportError while importing test module '/tmp/autopkgtest.G3V8vE/autopkgtest_tmp/build/cluster_tests.py'. 173s Hint: make sure your test modules/packages have valid Python names. 173s Traceback: 173s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 173s return _bootstrap._gcd_import(name[level:], package, level) 173s cluster_tests.py:3: in 173s from bx.intervals.cluster import ClusterTree 173s /usr/lib/python3/dist-packages/bx/intervals/__init__.py:7: in 173s from bx.intervals.intersection import ( 173s E ModuleNotFoundError: No module named 'bx.intervals.intersection' 173s ______________________ ERROR collecting cluster_tests.py _______________________ 173s ImportError while importing test module '/tmp/autopkgtest.G3V8vE/autopkgtest_tmp/build/cluster_tests.py'. 173s Hint: make sure your test modules/packages have valid Python names. 173s Traceback: 173s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 173s return _bootstrap._gcd_import(name[level:], package, level) 173s cluster_tests.py:3: in 173s from bx.intervals.cluster import ClusterTree 173s /usr/lib/python3/dist-packages/bx/intervals/__init__.py:7: in 173s from bx.intervals.intersection import ( 173s E ModuleNotFoundError: No module named 'bx.intervals.intersection' 173s ________________________ ERROR collecting epo_tests.py _________________________ 173s ImportError while importing test module '/tmp/autopkgtest.G3V8vE/autopkgtest_tmp/build/epo_tests.py'. 173s Hint: make sure your test modules/packages have valid Python names. 173s Traceback: 173s /usr/lib/python3/dist-packages/numpy/core/__init__.py:24: in 173s from . import multiarray 173s /usr/lib/python3/dist-packages/numpy/core/multiarray.py:10: in 173s from . import overrides 173s /usr/lib/python3/dist-packages/numpy/core/overrides.py:8: in 173s from numpy.core._multiarray_umath import ( 173s E ModuleNotFoundError: No module named 'numpy.core._multiarray_umath' 173s 173s During handling of the above exception, another exception occurred: 173s /usr/lib/python3/dist-packages/numpy/__init__.py:130: in 173s from numpy.__config__ import show as show_config 173s /usr/lib/python3/dist-packages/numpy/__config__.py:4: in 173s from numpy.core._multiarray_umath import ( 173s /usr/lib/python3/dist-packages/numpy/core/__init__.py:50: in 173s raise ImportError(msg) 173s E ImportError: 173s E 173s E IMPORTANT: PLEASE READ THIS FOR ADVICE ON HOW TO SOLVE THIS ISSUE! 173s E 173s E Importing the numpy C-extensions failed. This error can happen for 173s E many reasons, often due to issues with your setup or how NumPy was 173s E installed. 173s E 173s E We have compiled some common reasons and troubleshooting tips at: 173s E 173s E https://numpy.org/devdocs/user/troubleshooting-importerror.html 173s E 173s E Please note and check the following: 173s E 173s E * The Python version is: Python3.13 from "/usr/bin/python3.13" 173s E * The NumPy version is: "1.26.4" 173s E 173s E and make sure that they are the versions you expect. 173s E Please carefully study the documentation linked above for further help. 173s E 173s E Original error was: No module named 'numpy.core._multiarray_umath' 173s 173s The above exception was the direct cause of the following exception: 173s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 173s return _bootstrap._gcd_import(name[level:], package, level) 173s epo_tests.py:7: in 173s import numpy as np 173s /usr/lib/python3/dist-packages/numpy/__init__.py:135: in 173s raise ImportError(msg) from e 173s E ImportError: Error importing numpy: you should not try to import numpy from 173s E its source directory; please exit the numpy source tree, and relaunch 173s E your python interpreter from there. 173s ________________________ ERROR collecting epo_tests.py _________________________ 173s ImportError while importing test module '/tmp/autopkgtest.G3V8vE/autopkgtest_tmp/build/epo_tests.py'. 173s Hint: make sure your test modules/packages have valid Python names. 173s Traceback: 173s /usr/lib/python3/dist-packages/numpy/core/__init__.py:24: in 173s from . import multiarray 173s /usr/lib/python3/dist-packages/numpy/core/multiarray.py:10: in 173s from . import overrides 173s /usr/lib/python3/dist-packages/numpy/core/overrides.py:8: in 173s from numpy.core._multiarray_umath import ( 173s E ModuleNotFoundError: No module named 'numpy.core._multiarray_umath' 173s 173s During handling of the above exception, another exception occurred: 173s /usr/lib/python3/dist-packages/numpy/__init__.py:130: in 173s from numpy.__config__ import show as show_config 173s /usr/lib/python3/dist-packages/numpy/__config__.py:4: in 173s from numpy.core._multiarray_umath import ( 173s /usr/lib/python3/dist-packages/numpy/core/__init__.py:50: in 173s raise ImportError(msg) 173s E ImportError: 173s E 173s E IMPORTANT: PLEASE READ THIS FOR ADVICE ON HOW TO SOLVE THIS ISSUE! 173s E 173s E Importing the numpy C-extensions failed. This error can happen for 173s E many reasons, often due to issues with your setup or how NumPy was 173s E installed. 173s E 173s E We have compiled some common reasons and troubleshooting tips at: 173s E 173s E https://numpy.org/devdocs/user/troubleshooting-importerror.html 173s E 173s E Please note and check the following: 173s E 173s E * The Python version is: Python3.13 from "/usr/bin/python3.13" 173s E * The NumPy version is: "1.26.4" 173s E 173s E and make sure that they are the versions you expect. 173s E Please carefully study the documentation linked above for further help. 173s E 173s E Original error was: No module named 'numpy.core._multiarray_umath' 173s 173s The above exception was the direct cause of the following exception: 173s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 173s return _bootstrap._gcd_import(name[level:], package, level) 173s epo_tests.py:7: in 173s import numpy as np 173s /usr/lib/python3/dist-packages/numpy/__init__.py:135: in 173s raise ImportError(msg) from e 173s E ImportError: Error importing numpy: you should not try to import numpy from 173s E its source directory; please exit the numpy source tree, and relaunch 173s E your python interpreter from there. 173s _______________________ ERROR collecting fasta_tests.py ________________________ 173s ImportError while importing test module '/tmp/autopkgtest.G3V8vE/autopkgtest_tmp/build/fasta_tests.py'. 173s Hint: make sure your test modules/packages have valid Python names. 173s Traceback: 173s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 173s return _bootstrap._gcd_import(name[level:], package, level) 173s fasta_tests.py:7: in 173s from bx.seq import fasta 173s /usr/lib/python3/dist-packages/bx/seq/__init__.py:7: in 173s from bx.seq.core import ( 173s /usr/lib/python3/dist-packages/bx/seq/core.py:11: in 173s from . import ( 173s /usr/lib/python3/dist-packages/bx/seq/nib.py:30: in 173s from . import _nib 173s E ImportError: cannot import name '_nib' from partially initialized module 'bx.seq' (most likely due to a circular import) (/usr/lib/python3/dist-packages/bx/seq/__init__.py) 173s _______________________ ERROR collecting fasta_tests.py ________________________ 173s ImportError while importing test module '/tmp/autopkgtest.G3V8vE/autopkgtest_tmp/build/fasta_tests.py'. 173s Hint: make sure your test modules/packages have valid Python names. 173s Traceback: 173s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 173s return _bootstrap._gcd_import(name[level:], package, level) 173s fasta_tests.py:7: in 173s from bx.seq import fasta 173s /usr/lib/python3/dist-packages/bx/seq/__init__.py:7: in 173s from bx.seq.core import ( 173s /usr/lib/python3/dist-packages/bx/seq/core.py:11: in 173s from . import ( 173s /usr/lib/python3/dist-packages/bx/seq/nib.py:30: in 173s from . import _nib 173s E ImportError: cannot import name '_nib' from partially initialized module 'bx.seq' (most likely due to a circular import) (/usr/lib/python3/dist-packages/bx/seq/__init__.py) 173s ____________________ ERROR collecting intersection_tests.py ____________________ 173s ImportError while importing test module '/tmp/autopkgtest.G3V8vE/autopkgtest_tmp/build/intersection_tests.py'. 173s Hint: make sure your test modules/packages have valid Python names. 173s Traceback: 173s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 173s return _bootstrap._gcd_import(name[level:], package, level) 173s intersection_tests.py:10: in 173s from bx.intervals.intersection import ( 173s /usr/lib/python3/dist-packages/bx/intervals/__init__.py:7: in 173s from bx.intervals.intersection import ( 173s E ModuleNotFoundError: No module named 'bx.intervals.intersection' 173s ____________________ ERROR collecting intersection_tests.py ____________________ 173s ImportError while importing test module '/tmp/autopkgtest.G3V8vE/autopkgtest_tmp/build/intersection_tests.py'. 173s Hint: make sure your test modules/packages have valid Python names. 173s Traceback: 173s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 173s return _bootstrap._gcd_import(name[level:], package, level) 173s intersection_tests.py:10: in 173s from bx.intervals.intersection import ( 173s /usr/lib/python3/dist-packages/bx/intervals/__init__.py:7: in 173s from bx.intervals.intersection import ( 173s E ModuleNotFoundError: No module named 'bx.intervals.intersection' 173s ________________________ ERROR collecting lav_tests.py _________________________ 173s ImportError while importing test module '/tmp/autopkgtest.G3V8vE/autopkgtest_tmp/build/lav_tests.py'. 173s Hint: make sure your test modules/packages have valid Python names. 173s Traceback: 173s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 173s return _bootstrap._gcd_import(name[level:], package, level) 173s lav_tests.py:7: in 173s import bx.align.lav as lav 173s /usr/lib/python3/dist-packages/bx/align/lav.py:11: in 173s import bx.seq 173s /usr/lib/python3/dist-packages/bx/seq/__init__.py:7: in 173s from bx.seq.core import ( 173s /usr/lib/python3/dist-packages/bx/seq/core.py:11: in 173s from . import ( 173s /usr/lib/python3/dist-packages/bx/seq/nib.py:30: in 173s from . import _nib 173s E ImportError: cannot import name '_nib' from partially initialized module 'bx.seq' (most likely due to a circular import) (/usr/lib/python3/dist-packages/bx/seq/__init__.py) 173s ________________________ ERROR collecting lav_tests.py _________________________ 173s ImportError while importing test module '/tmp/autopkgtest.G3V8vE/autopkgtest_tmp/build/lav_tests.py'. 173s Hint: make sure your test modules/packages have valid Python names. 173s Traceback: 173s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 173s return _bootstrap._gcd_import(name[level:], package, level) 173s lav_tests.py:7: in 173s import bx.align.lav as lav 173s /usr/lib/python3/dist-packages/bx/align/lav.py:11: in 173s import bx.seq 173s /usr/lib/python3/dist-packages/bx/seq/__init__.py:7: in 173s from bx.seq.core import ( 173s /usr/lib/python3/dist-packages/bx/seq/core.py:11: in 173s from . import ( 173s /usr/lib/python3/dist-packages/bx/seq/nib.py:30: in 173s from . import _nib 173s E ImportError: cannot import name '_nib' from partially initialized module 'bx.seq' (most likely due to a circular import) (/usr/lib/python3/dist-packages/bx/seq/__init__.py) 173s ________________________ ERROR collecting nib_tests.py _________________________ 173s ImportError while importing test module '/tmp/autopkgtest.G3V8vE/autopkgtest_tmp/build/nib_tests.py'. 173s Hint: make sure your test modules/packages have valid Python names. 173s Traceback: 173s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 173s return _bootstrap._gcd_import(name[level:], package, level) 173s nib_tests.py:7: in 173s from bx.seq import nib 173s /usr/lib/python3/dist-packages/bx/seq/__init__.py:7: in 173s from bx.seq.core import ( 173s /usr/lib/python3/dist-packages/bx/seq/core.py:11: in 173s from . import ( 173s /usr/lib/python3/dist-packages/bx/seq/nib.py:30: in 173s from . import _nib 173s E ImportError: cannot import name '_nib' from partially initialized module 'bx.seq' (most likely due to a circular import) (/usr/lib/python3/dist-packages/bx/seq/__init__.py) 173s ________________________ ERROR collecting nib_tests.py _________________________ 173s ImportError while importing test module '/tmp/autopkgtest.G3V8vE/autopkgtest_tmp/build/nib_tests.py'. 173s Hint: make sure your test modules/packages have valid Python names. 173s Traceback: 173s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 173s return _bootstrap._gcd_import(name[level:], package, level) 173s nib_tests.py:7: in 173s from bx.seq import nib 173s /usr/lib/python3/dist-packages/bx/seq/__init__.py:7: in 173s from bx.seq.core import ( 173s /usr/lib/python3/dist-packages/bx/seq/core.py:11: in 173s from . import ( 173s /usr/lib/python3/dist-packages/bx/seq/nib.py:30: in 173s from . import _nib 173s E ImportError: cannot import name '_nib' from partially initialized module 'bx.seq' (most likely due to a circular import) (/usr/lib/python3/dist-packages/bx/seq/__init__.py) 173s _______________________ ERROR collecting phast_tests.py ________________________ 173s ImportError while importing test module '/tmp/autopkgtest.G3V8vE/autopkgtest_tmp/build/phast_tests.py'. 173s Hint: make sure your test modules/packages have valid Python names. 173s Traceback: 173s /usr/lib/python3/dist-packages/numpy/core/__init__.py:24: in 173s from . import multiarray 173s /usr/lib/python3/dist-packages/numpy/core/multiarray.py:10: in 173s from . import overrides 173s /usr/lib/python3/dist-packages/numpy/core/overrides.py:8: in 173s from numpy.core._multiarray_umath import ( 173s E ModuleNotFoundError: No module named 'numpy.core._multiarray_umath' 173s 173s During handling of the above exception, another exception occurred: 173s /usr/lib/python3/dist-packages/numpy/__init__.py:130: in 173s from numpy.__config__ import show as show_config 173s /usr/lib/python3/dist-packages/numpy/__config__.py:4: in 173s from numpy.core._multiarray_umath import ( 173s /usr/lib/python3/dist-packages/numpy/core/__init__.py:50: in 173s raise ImportError(msg) 173s E ImportError: 173s E 173s E IMPORTANT: PLEASE READ THIS FOR ADVICE ON HOW TO SOLVE THIS ISSUE! 173s E 173s E Importing the numpy C-extensions failed. This error can happen for 173s E many reasons, often due to issues with your setup or how NumPy was 173s E installed. 173s E 173s E We have compiled some common reasons and troubleshooting tips at: 173s E 173s E https://numpy.org/devdocs/user/troubleshooting-importerror.html 173s E 173s E Please note and check the following: 173s E 173s E * The Python version is: Python3.13 from "/usr/bin/python3.13" 173s E * The NumPy version is: "1.26.4" 173s E 173s E and make sure that they are the versions you expect. 173s E Please carefully study the documentation linked above for further help. 173s E 173s E Original error was: No module named 'numpy.core._multiarray_umath' 173s 173s The above exception was the direct cause of the following exception: 173s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 173s return _bootstrap._gcd_import(name[level:], package, level) 173s phast_tests.py:7: in 173s from numpy import ( 173s /usr/lib/python3/dist-packages/numpy/__init__.py:135: in 173s raise ImportError(msg) from e 173s E ImportError: Error importing numpy: you should not try to import numpy from 173s E its source directory; please exit the numpy source tree, and relaunch 173s E your python interpreter from there. 173s _______________________ ERROR collecting phast_tests.py ________________________ 173s ImportError while importing test module '/tmp/autopkgtest.G3V8vE/autopkgtest_tmp/build/phast_tests.py'. 173s Hint: make sure your test modules/packages have valid Python names. 173s Traceback: 173s /usr/lib/python3/dist-packages/numpy/core/__init__.py:24: in 173s from . import multiarray 173s /usr/lib/python3/dist-packages/numpy/core/multiarray.py:10: in 173s from . import overrides 173s /usr/lib/python3/dist-packages/numpy/core/overrides.py:8: in 173s from numpy.core._multiarray_umath import ( 173s E ModuleNotFoundError: No module named 'numpy.core._multiarray_umath' 173s 173s During handling of the above exception, another exception occurred: 173s /usr/lib/python3/dist-packages/numpy/__init__.py:130: in 173s from numpy.__config__ import show as show_config 173s /usr/lib/python3/dist-packages/numpy/__config__.py:4: in 173s from numpy.core._multiarray_umath import ( 173s /usr/lib/python3/dist-packages/numpy/core/__init__.py:50: in 173s raise ImportError(msg) 173s E ImportError: 173s E 173s E IMPORTANT: PLEASE READ THIS FOR ADVICE ON HOW TO SOLVE THIS ISSUE! 173s E 173s E Importing the numpy C-extensions failed. This error can happen for 173s E many reasons, often due to issues with your setup or how NumPy was 173s E installed. 173s E 173s E We have compiled some common reasons and troubleshooting tips at: 173s E 173s E https://numpy.org/devdocs/user/troubleshooting-importerror.html 173s E 173s E Please note and check the following: 173s E 173s E * The Python version is: Python3.13 from "/usr/bin/python3.13" 173s E * The NumPy version is: "1.26.4" 173s E 173s E and make sure that they are the versions you expect. 173s E Please carefully study the documentation linked above for further help. 173s E 173s E Original error was: No module named 'numpy.core._multiarray_umath' 173s 173s The above exception was the direct cause of the following exception: 173s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 173s return _bootstrap._gcd_import(name[level:], package, level) 173s phast_tests.py:7: in 173s from numpy import ( 173s /usr/lib/python3/dist-packages/numpy/__init__.py:135: in 173s raise ImportError(msg) from e 173s E ImportError: Error importing numpy: you should not try to import numpy from 173s E its source directory; please exit the numpy source tree, and relaunch 173s E your python interpreter from there.E: pybuild pybuild:389: test: plugin pyproject failed with: exit code=2: cd /tmp/autopkgtest.G3V8vE/autopkgtest_tmp/build; python3.13 -m pytest 173s I: pybuild base:311: cd /tmp/autopkgtest.G3V8vE/autopkgtest_tmp/build; python3.12 -m pytest 173s 173s ________________________ ERROR collecting pwm_tests.py _________________________ 173s ImportError while importing test module '/tmp/autopkgtest.G3V8vE/autopkgtest_tmp/build/pwm_tests.py'. 173s Hint: make sure your test modules/packages have valid Python names. 173s Traceback: 173s /usr/lib/python3/dist-packages/numpy/core/__init__.py:24: in 173s from . import multiarray 173s /usr/lib/python3/dist-packages/numpy/core/multiarray.py:10: in 173s from . import overrides 173s /usr/lib/python3/dist-packages/numpy/core/overrides.py:8: in 173s from numpy.core._multiarray_umath import ( 173s E ModuleNotFoundError: No module named 'numpy.core._multiarray_umath' 173s 173s During handling of the above exception, another exception occurred: 173s /usr/lib/python3/dist-packages/numpy/__init__.py:130: in 173s from numpy.__config__ import show as show_config 173s /usr/lib/python3/dist-packages/numpy/__config__.py:4: in 173s from numpy.core._multiarray_umath import ( 173s /usr/lib/python3/dist-packages/numpy/core/__init__.py:50: in 173s raise ImportError(msg) 173s E ImportError: 173s E 173s E IMPORTANT: PLEASE READ THIS FOR ADVICE ON HOW TO SOLVE THIS ISSUE! 173s E 173s E Importing the numpy C-extensions failed. This error can happen for 173s E many reasons, often due to issues with your setup or how NumPy was 173s E installed. 173s E 173s E We have compiled some common reasons and troubleshooting tips at: 173s E 173s E https://numpy.org/devdocs/user/troubleshooting-importerror.html 173s E 173s E Please note and check the following: 173s E 173s E * The Python version is: Python3.13 from "/usr/bin/python3.13" 173s E * The NumPy version is: "1.26.4" 173s E 173s E and make sure that they are the versions you expect. 173s E Please carefully study the documentation linked above for further help. 173s E 173s E Original error was: No module named 'numpy.core._multiarray_umath' 173s 173s The above exception was the direct cause of the following exception: 173s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 173s return _bootstrap._gcd_import(name[level:], package, level) 173s pwm_tests.py:1: in 173s from numpy import ( 173s /usr/lib/python3/dist-packages/numpy/__init__.py:135: in 173s raise ImportError(msg) from e 173s E ImportError: Error importing numpy: you should not try to import numpy from 173s E its source directory; please exit the numpy source tree, and relaunch 173s E your python interpreter from there. 173s ________________________ ERROR collecting pwm_tests.py _________________________ 173s ImportError while importing test module '/tmp/autopkgtest.G3V8vE/autopkgtest_tmp/build/pwm_tests.py'. 173s Hint: make sure your test modules/packages have valid Python names. 173s Traceback: 173s /usr/lib/python3/dist-packages/numpy/core/__init__.py:24: in 173s from . import multiarray 173s /usr/lib/python3/dist-packages/numpy/core/multiarray.py:10: in 173s from . import overrides 173s /usr/lib/python3/dist-packages/numpy/core/overrides.py:8: in 173s from numpy.core._multiarray_umath import ( 173s E ModuleNotFoundError: No module named 'numpy.core._multiarray_umath' 173s 173s During handling of the above exception, another exception occurred: 173s /usr/lib/python3/dist-packages/numpy/__init__.py:130: in 173s from numpy.__config__ import show as show_config 173s /usr/lib/python3/dist-packages/numpy/__config__.py:4: in 173s from numpy.core._multiarray_umath import ( 173s /usr/lib/python3/dist-packages/numpy/core/__init__.py:50: in 173s raise ImportError(msg) 173s E ImportError: 173s E 173s E IMPORTANT: PLEASE READ THIS FOR ADVICE ON HOW TO SOLVE THIS ISSUE! 173s E 173s E Importing the numpy C-extensions failed. This error can happen for 173s E many reasons, often due to issues with your setup or how NumPy was 173s E installed. 173s E 173s E We have compiled some common reasons and troubleshooting tips at: 173s E 173s E https://numpy.org/devdocs/user/troubleshooting-importerror.html 173s E 173s E Please note and check the following: 173s E 173s E * The Python version is: Python3.13 from "/usr/bin/python3.13" 173s E * The NumPy version is: "1.26.4" 173s E 173s E and make sure that they are the versions you expect. 173s E Please carefully study the documentation linked above for further help. 173s E 173s E Original error was: No module named 'numpy.core._multiarray_umath' 173s 173s The above exception was the direct cause of the following exception: 173s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 173s return _bootstrap._gcd_import(name[level:], package, level) 173s pwm_tests.py:1: in 173s from numpy import ( 173s /usr/lib/python3/dist-packages/numpy/__init__.py:135: in 173s raise ImportError(msg) from e 173s E ImportError: Error importing numpy: you should not try to import numpy from 173s E its source directory; please exit the numpy source tree, and relaunch 173s E your python interpreter from there. 173s ________________________ ERROR collecting qdna_tests.py ________________________ 173s ImportError while importing test module '/tmp/autopkgtest.G3V8vE/autopkgtest_tmp/build/qdna_tests.py'. 173s Hint: make sure your test modules/packages have valid Python names. 173s Traceback: 173s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 173s return _bootstrap._gcd_import(name[level:], package, level) 173s qdna_tests.py:7: in 173s from bx.seq import qdna 173s /usr/lib/python3/dist-packages/bx/seq/__init__.py:7: in 173s from bx.seq.core import ( 173s /usr/lib/python3/dist-packages/bx/seq/core.py:11: in 173s from . import ( 173s /usr/lib/python3/dist-packages/bx/seq/nib.py:30: in 173s from . import _nib 173s E ImportError: cannot import name '_nib' from partially initialized module 'bx.seq' (most likely due to a circular import) (/usr/lib/python3/dist-packages/bx/seq/__init__.py) 173s ________________________ ERROR collecting qdna_tests.py ________________________ 173s ImportError while importing test module '/tmp/autopkgtest.G3V8vE/autopkgtest_tmp/build/qdna_tests.py'. 173s Hint: make sure your test modules/packages have valid Python names. 173s Traceback: 173s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 173s return _bootstrap._gcd_import(name[level:], package, level) 173s qdna_tests.py:7: in 173s from bx.seq import qdna 173s /usr/lib/python3/dist-packages/bx/seq/__init__.py:7: in 173s from bx.seq.core import ( 173s /usr/lib/python3/dist-packages/bx/seq/core.py:11: in 173s from . import ( 173s /usr/lib/python3/dist-packages/bx/seq/nib.py:30: in 173s from . import _nib 173s E ImportError: cannot import name '_nib' from partially initialized module 'bx.seq' (most likely due to a circular import) (/usr/lib/python3/dist-packages/bx/seq/__init__.py) 173s _______________________ ERROR collecting score_tests.py ________________________ 173s ImportError while importing test module '/tmp/autopkgtest.G3V8vE/autopkgtest_tmp/build/score_tests.py'. 173s Hint: make sure your test modules/packages have valid Python names. 173s Traceback: 173s /usr/lib/python3/dist-packages/numpy/core/__init__.py:24: in 173s from . import multiarray 173s /usr/lib/python3/dist-packages/numpy/core/multiarray.py:10: in 173s from . import overrides 173s /usr/lib/python3/dist-packages/numpy/core/overrides.py:8: in 173s from numpy.core._multiarray_umath import ( 173s E ModuleNotFoundError: No module named 'numpy.core._multiarray_umath' 173s 173s During handling of the above exception, another exception occurred: 173s /usr/lib/python3/dist-packages/numpy/__init__.py:130: in 173s from numpy.__config__ import show as show_config 173s /usr/lib/python3/dist-packages/numpy/__config__.py:4: in 173s from numpy.core._multiarray_umath import ( 173s /usr/lib/python3/dist-packages/numpy/core/__init__.py:50: in 173s raise ImportError(msg) 173s E ImportError: 173s E 173s E IMPORTANT: PLEASE READ THIS FOR ADVICE ON HOW TO SOLVE THIS ISSUE! 173s E 173s E Importing the numpy C-extensions failed. This error can happen for 173s E many reasons, often due to issues with your setup or how NumPy was 173s E installed. 173s E 173s E We have compiled some common reasons and troubleshooting tips at: 173s E 173s E https://numpy.org/devdocs/user/troubleshooting-importerror.html 173s E 173s E Please note and check the following: 173s E 173s E * The Python version is: Python3.13 from "/usr/bin/python3.13" 173s E * The NumPy version is: "1.26.4" 173s E 173s E and make sure that they are the versions you expect. 173s E Please carefully study the documentation linked above for further help. 173s E 173s E Original error was: No module named 'numpy.core._multiarray_umath' 173s 173s The above exception was the direct cause of the following exception: 173s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 173s return _bootstrap._gcd_import(name[level:], package, level) 173s score_tests.py:8: in 173s from numpy import ( 173s /usr/lib/python3/dist-packages/numpy/__init__.py:135: in 173s raise ImportError(msg) from e 173s E ImportError: Error importing numpy: you should not try to import numpy from 173s E its source directory; please exit the numpy source tree, and relaunch 173s E your python interpreter from there. 173s _______________________ ERROR collecting score_tests.py ________________________ 173s ImportError while importing test module '/tmp/autopkgtest.G3V8vE/autopkgtest_tmp/build/score_tests.py'. 173s Hint: make sure your test modules/packages have valid Python names. 173s Traceback: 173s /usr/lib/python3/dist-packages/numpy/core/__init__.py:24: in 173s from . import multiarray 173s /usr/lib/python3/dist-packages/numpy/core/multiarray.py:10: in 173s from . import overrides 173s /usr/lib/python3/dist-packages/numpy/core/overrides.py:8: in 173s from numpy.core._multiarray_umath import ( 173s E ModuleNotFoundError: No module named 'numpy.core._multiarray_umath' 173s 173s During handling of the above exception, another exception occurred: 173s /usr/lib/python3/dist-packages/numpy/__init__.py:130: in 173s from numpy.__config__ import show as show_config 173s /usr/lib/python3/dist-packages/numpy/__config__.py:4: in 173s from numpy.core._multiarray_umath import ( 173s /usr/lib/python3/dist-packages/numpy/core/__init__.py:50: in 173s raise ImportError(msg) 173s E ImportError: 173s E 173s E IMPORTANT: PLEASE READ THIS FOR ADVICE ON HOW TO SOLVE THIS ISSUE! 173s E 173s E Importing the numpy C-extensions failed. This error can happen for 173s E many reasons, often due to issues with your setup or how NumPy was 173s E installed. 173s E 173s E We have compiled some common reasons and troubleshooting tips at: 173s E 173s E https://numpy.org/devdocs/user/troubleshooting-importerror.html 173s E 173s E Please note and check the following: 173s E 173s E * The Python version is: Python3.13 from "/usr/bin/python3.13" 173s E * The NumPy version is: "1.26.4" 173s E 173s E and make sure that they are the versions you expect. 173s E Please carefully study the documentation linked above for further help. 173s E 173s E Original error was: No module named 'numpy.core._multiarray_umath' 173s 173s The above exception was the direct cause of the following exception: 173s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 173s return _bootstrap._gcd_import(name[level:], package, level) 173s score_tests.py:8: in 173s from numpy import ( 173s /usr/lib/python3/dist-packages/numpy/__init__.py:135: in 173s raise ImportError(msg) from e 173s E ImportError: Error importing numpy: you should not try to import numpy from 173s E its source directory; please exit the numpy source tree, and relaunch 173s E your python interpreter from there. 173s _____________________ ERROR collecting seekbzip2_tests.py ______________________ 173s ImportError while importing test module '/tmp/autopkgtest.G3V8vE/autopkgtest_tmp/build/seekbzip2_tests.py'. 173s Hint: make sure your test modules/packages have valid Python names. 173s Traceback: 173s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 173s return _bootstrap._gcd_import(name[level:], package, level) 173s seekbzip2_tests.py:10: in 173s from bx.misc import seekbzip2 173s /usr/lib/python3/dist-packages/bx/misc/seekbzip2.py:7: in 173s from ._seekbzip2 import SeekBzip2 173s E ModuleNotFoundError: No module named 'bx.misc._seekbzip2' 173s _____________________ ERROR collecting seekbzip2_tests.py ______________________ 173s ImportError while importing test module '/tmp/autopkgtest.G3V8vE/autopkgtest_tmp/build/seekbzip2_tests.py'. 173s Hint: make sure your test modules/packages have valid Python names. 173s Traceback: 173s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 173s return _bootstrap._gcd_import(name[level:], package, level) 173s seekbzip2_tests.py:10: in 173s from bx.misc import seekbzip2 173s /usr/lib/python3/dist-packages/bx/misc/seekbzip2.py:7: in 173s from ._seekbzip2 import SeekBzip2 173s E ModuleNotFoundError: No module named 'bx.misc._seekbzip2' 173s ________________________ ERROR collecting seq_tests.py _________________________ 173s ImportError while importing test module '/tmp/autopkgtest.G3V8vE/autopkgtest_tmp/build/seq_tests.py'. 173s Hint: make sure your test modules/packages have valid Python names. 173s Traceback: 173s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 173s return _bootstrap._gcd_import(name[level:], package, level) 173s seq_tests.py:7: in 173s import bx.seq 173s /usr/lib/python3/dist-packages/bx/seq/__init__.py:7: in 173s from bx.seq.core import ( 173s /usr/lib/python3/dist-packages/bx/seq/core.py:11: in 173s from . import ( 173s /usr/lib/python3/dist-packages/bx/seq/nib.py:30: in 173s from . import _nib 173s E ImportError: cannot import name '_nib' from partially initialized module 'bx.seq' (most likely due to a circular import) (/usr/lib/python3/dist-packages/bx/seq/__init__.py) 173s ________________________ ERROR collecting seq_tests.py _________________________ 173s ImportError while importing test module '/tmp/autopkgtest.G3V8vE/autopkgtest_tmp/build/seq_tests.py'. 173s Hint: make sure your test modules/packages have valid Python names. 173s Traceback: 173s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 173s return _bootstrap._gcd_import(name[level:], package, level) 173s seq_tests.py:7: in 173s import bx.seq 173s /usr/lib/python3/dist-packages/bx/seq/__init__.py:7: in 173s from bx.seq.core import ( 173s /usr/lib/python3/dist-packages/bx/seq/core.py:11: in 173s from . import ( 173s /usr/lib/python3/dist-packages/bx/seq/nib.py:30: in 173s from . import _nib 173s E ImportError: cannot import name '_nib' from partially initialized module 'bx.seq' (most likely due to a circular import) (/usr/lib/python3/dist-packages/bx/seq/__init__.py) 173s _____________________ ERROR collecting seqmapping_tests.py _____________________ 173s ImportError while importing test module '/tmp/autopkgtest.G3V8vE/autopkgtest_tmp/build/seqmapping_tests.py'. 173s Hint: make sure your test modules/packages have valid Python names. 173s Traceback: 173s /usr/lib/python3/dist-packages/numpy/core/__init__.py:24: in 173s from . import multiarray 173s /usr/lib/python3/dist-packages/numpy/core/multiarray.py:10: in 173s from . import overrides 173s /usr/lib/python3/dist-packages/numpy/core/overrides.py:8: in 173s from numpy.core._multiarray_umath import ( 173s E ModuleNotFoundError: No module named 'numpy.core._multiarray_umath' 173s 173s During handling of the above exception, another exception occurred: 173s /usr/lib/python3/dist-packages/numpy/__init__.py:130: in 173s from numpy.__config__ import show as show_config 173s /usr/lib/python3/dist-packages/numpy/__config__.py:4: in 173s from numpy.core._multiarray_umath import ( 173s /usr/lib/python3/dist-packages/numpy/core/__init__.py:50: in 173s raise ImportError(msg) 173s E ImportError: 173s E 173s E IMPORTANT: PLEASE READ THIS FOR ADVICE ON HOW TO SOLVE THIS ISSUE! 173s E 173s E Importing the numpy C-extensions failed. This error can happen for 173s E many reasons, often due to issues with your setup or how NumPy was 173s E installed. 173s E 173s E We have compiled some common reasons and troubleshooting tips at: 173s E 173s E https://numpy.org/devdocs/user/troubleshooting-importerror.html 173s E 173s E Please note and check the following: 173s E 173s E * The Python version is: Python3.13 from "/usr/bin/python3.13" 173s E * The NumPy version is: "1.26.4" 173s E 173s E and make sure that they are the versions you expect. 173s E Please carefully study the documentation linked above for further help. 173s E 173s E Original error was: No module named 'numpy.core._multiarray_umath' 173s 173s The above exception was the direct cause of the following exception: 173s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 173s return _bootstrap._gcd_import(name[level:], package, level) 173s seqmapping_tests.py:8: in 173s from numpy import ( 173s /usr/lib/python3/dist-packages/numpy/__init__.py:135: in 173s raise ImportError(msg) from e 173s E ImportError: Error importing numpy: you should not try to import numpy from 173s E its source directory; please exit the numpy source tree, and relaunch 173s E your python interpreter from there. 173s _____________________ ERROR collecting seqmapping_tests.py _____________________ 173s ImportError while importing test module '/tmp/autopkgtest.G3V8vE/autopkgtest_tmp/build/seqmapping_tests.py'. 173s Hint: make sure your test modules/packages have valid Python names. 173s Traceback: 173s /usr/lib/python3/dist-packages/numpy/core/__init__.py:24: in 173s from . import multiarray 173s /usr/lib/python3/dist-packages/numpy/core/multiarray.py:10: in 173s from . import overrides 173s /usr/lib/python3/dist-packages/numpy/core/overrides.py:8: in 173s from numpy.core._multiarray_umath import ( 173s E ModuleNotFoundError: No module named 'numpy.core._multiarray_umath' 173s 173s During handling of the above exception, another exception occurred: 173s /usr/lib/python3/dist-packages/numpy/__init__.py:130: in 173s from numpy.__config__ import show as show_config 173s /usr/lib/python3/dist-packages/numpy/__config__.py:4: in 173s from numpy.core._multiarray_umath import ( 173s /usr/lib/python3/dist-packages/numpy/core/__init__.py:50: in 173s raise ImportError(msg) 173s E ImportError: 173s E 173s E IMPORTANT: PLEASE READ THIS FOR ADVICE ON HOW TO SOLVE THIS ISSUE! 173s E 173s E Importing the numpy C-extensions failed. This error can happen for 173s E many reasons, often due to issues with your setup or how NumPy was 173s E installed. 173s E 173s E We have compiled some common reasons and troubleshooting tips at: 173s E 173s E https://numpy.org/devdocs/user/troubleshooting-importerror.html 173s E 173s E Please note and check the following: 173s E 173s E * The Python version is: Python3.13 from "/usr/bin/python3.13" 173s E * The NumPy version is: "1.26.4" 173s E 173s E and make sure that they are the versions you expect. 173s E Please carefully study the documentation linked above for further help. 173s E 173s E Original error was: No module named 'numpy.core._multiarray_umath' 173s 173s The above exception was the direct cause of the following exception: 173s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 173s return _bootstrap._gcd_import(name[level:], package, level) 173s seqmapping_tests.py:8: in 173s from numpy import ( 173s /usr/lib/python3/dist-packages/numpy/__init__.py:135: in 173s raise ImportError(msg) from e 173s E ImportError: Error importing numpy: you should not try to import numpy from 173s E its source directory; please exit the numpy source tree, and relaunch 173s E your python interpreter from there. 173s ______________________ ERROR collecting sitemask_tests.py ______________________ 173s ImportError while importing test module '/tmp/autopkgtest.G3V8vE/autopkgtest_tmp/build/sitemask_tests.py'. 173s Hint: make sure your test modules/packages have valid Python names. 173s Traceback: 173s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 173s return _bootstrap._gcd_import(name[level:], package, level) 173s sitemask_tests.py:9: in 173s from bx.align.sitemask import cpg 173s /usr/lib/python3/dist-packages/bx/align/sitemask/cpg.py:6: in 173s from ._cpg import ( 173s E ModuleNotFoundError: No module named 'bx.align.sitemask._cpg' 173s ______________________ ERROR collecting sitemask_tests.py ______________________ 173s ImportError while importing test module '/tmp/autopkgtest.G3V8vE/autopkgtest_tmp/build/sitemask_tests.py'. 173s Hint: make sure your test modules/packages have valid Python names. 173s Traceback: 173s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 173s return _bootstrap._gcd_import(name[level:], package, level) 173s sitemask_tests.py:9: in 173s from bx.align.sitemask import cpg 173s /usr/lib/python3/dist-packages/bx/align/sitemask/cpg.py:6: in 173s from ._cpg import ( 173s E ModuleNotFoundError: No module named 'bx.align.sitemask._cpg' 173s ______________________ ERROR collecting transfac_tests.py ______________________ 173s ImportError while importing test module '/tmp/autopkgtest.G3V8vE/autopkgtest_tmp/build/transfac_tests.py'. 173s Hint: make sure your test modules/packages have valid Python names. 173s Traceback: 173s /usr/lib/python3/dist-packages/numpy/core/__init__.py:24: in 173s from . import multiarray 173s /usr/lib/python3/dist-packages/numpy/core/multiarray.py:10: in 173s from . import overrides 173s /usr/lib/python3/dist-packages/numpy/core/overrides.py:8: in 173s from numpy.core._multiarray_umath import ( 173s E ModuleNotFoundError: No module named 'numpy.core._multiarray_umath' 173s 173s During handling of the above exception, another exception occurred: 173s /usr/lib/python3/dist-packages/numpy/__init__.py:130: in 173s from numpy.__config__ import show as show_config 173s /usr/lib/python3/dist-packages/numpy/__config__.py:4: in 173s from numpy.core._multiarray_umath import ( 173s /usr/lib/python3/dist-packages/numpy/core/__init__.py:50: in 173s raise ImportError(msg) 173s E ImportError: 173s E 173s E IMPORTANT: PLEASE READ THIS FOR ADVICE ON HOW TO SOLVE THIS ISSUE! 173s E 173s E Importing the numpy C-extensions failed. This error can happen for 173s E many reasons, often due to issues with your setup or how NumPy was 173s E installed. 173s E 173s E We have compiled some common reasons and troubleshooting tips at: 173s E 173s E https://numpy.org/devdocs/user/troubleshooting-importerror.html 173s E 173s E Please note and check the following: 173s E 173s E * The Python version is: Python3.13 from "/usr/bin/python3.13" 173s E * The NumPy version is: "1.26.4" 173s E 173s E and make sure that they are the versions you expect. 173s E Please carefully study the documentation linked above for further help. 173s E 173s E Original error was: No module named 'numpy.core._multiarray_umath' 173s 173s The above exception was the direct cause of the following exception: 173s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 173s return _bootstrap._gcd_import(name[level:], package, level) 173s transfac_tests.py:3: in 173s from numpy import allclose 173s /usr/lib/python3/dist-packages/numpy/__init__.py:135: in 173s raise ImportError(msg) from e 173s E ImportError: Error importing numpy: you should not try to import numpy from 173s E its source directory; please exit the numpy source tree, and relaunch 173s E your python interpreter from there. 173s ______________________ ERROR collecting transfac_tests.py ______________________ 173s ImportError while importing test module '/tmp/autopkgtest.G3V8vE/autopkgtest_tmp/build/transfac_tests.py'. 173s Hint: make sure your test modules/packages have valid Python names. 173s Traceback: 173s /usr/lib/python3/dist-packages/numpy/core/__init__.py:24: in 173s from . import multiarray 173s /usr/lib/python3/dist-packages/numpy/core/multiarray.py:10: in 173s from . import overrides 173s /usr/lib/python3/dist-packages/numpy/core/overrides.py:8: in 173s from numpy.core._multiarray_umath import ( 173s E ModuleNotFoundError: No module named 'numpy.core._multiarray_umath' 173s 173s During handling of the above exception, another exception occurred: 173s /usr/lib/python3/dist-packages/numpy/__init__.py:130: in 173s from numpy.__config__ import show as show_config 173s /usr/lib/python3/dist-packages/numpy/__config__.py:4: in 173s from numpy.core._multiarray_umath import ( 173s /usr/lib/python3/dist-packages/numpy/core/__init__.py:50: in 173s raise ImportError(msg) 173s E ImportError: 173s E 173s E IMPORTANT: PLEASE READ THIS FOR ADVICE ON HOW TO SOLVE THIS ISSUE! 173s E 173s E Importing the numpy C-extensions failed. This error can happen for 173s E many reasons, often due to issues with your setup or how NumPy was 173s E installed. 173s E 173s E We have compiled some common reasons and troubleshooting tips at: 173s E 173s E https://numpy.org/devdocs/user/troubleshooting-importerror.html 173s E 173s E Please note and check the following: 173s E 173s E * The Python version is: Python3.13 from "/usr/bin/python3.13" 173s E * The NumPy version is: "1.26.4" 173s E 173s E and make sure that they are the versions you expect. 173s E Please carefully study the documentation linked above for further help. 173s E 173s E Original error was: No module named 'numpy.core._multiarray_umath' 173s 173s The above exception was the direct cause of the following exception: 173s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 173s return _bootstrap._gcd_import(name[level:], package, level) 173s transfac_tests.py:3: in 173s from numpy import allclose 173s /usr/lib/python3/dist-packages/numpy/__init__.py:135: in 173s raise ImportError(msg) from e 173s E ImportError: Error importing numpy: you should not try to import numpy from 173s E its source directory; please exit the numpy source tree, and relaunch 173s E your python interpreter from there. 173s _______________________ ERROR collecting twobit_tests.py _______________________ 173s ImportError while importing test module '/tmp/autopkgtest.G3V8vE/autopkgtest_tmp/build/twobit_tests.py'. 173s Hint: make sure your test modules/packages have valid Python names. 173s Traceback: 173s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 173s return _bootstrap._gcd_import(name[level:], package, level) 173s twobit_tests.py:5: in 173s from bx.seq import twobit 173s /usr/lib/python3/dist-packages/bx/seq/__init__.py:7: in 173s from bx.seq.core import ( 173s /usr/lib/python3/dist-packages/bx/seq/core.py:11: in 173s from . import ( 173s /usr/lib/python3/dist-packages/bx/seq/nib.py:30: in 173s from . import _nib 173s E ImportError: cannot import name '_nib' from partially initialized module 'bx.seq' (most likely due to a circular import) (/usr/lib/python3/dist-packages/bx/seq/__init__.py) 173s _______________________ ERROR collecting twobit_tests.py _______________________ 173s ImportError while importing test module '/tmp/autopkgtest.G3V8vE/autopkgtest_tmp/build/twobit_tests.py'. 173s Hint: make sure your test modules/packages have valid Python names. 173s Traceback: 173s /usr/lib/python3.13/importlib/__init__.py:88: in import_module 173s return _bootstrap._gcd_import(name[level:], package, level) 173s twobit_tests.py:5: in 173s from bx.seq import twobit 173s /usr/lib/python3/dist-packages/bx/seq/__init__.py:7: in 173s from bx.seq.core import ( 173s /usr/lib/python3/dist-packages/bx/seq/core.py:11: in 173s from . import ( 173s /usr/lib/python3/dist-packages/bx/seq/nib.py:30: in 173s from . import _nib 173s E ImportError: cannot import name '_nib' from partially initialized module 'bx.seq' (most likely due to a circular import) (/usr/lib/python3/dist-packages/bx/seq/__init__.py) 173s =============================== warnings summary =============================== 173s ../../../../usr/lib/python3/dist-packages/_pytest/config/__init__.py:1500 173s /usr/lib/python3/dist-packages/_pytest/config/__init__.py:1500: PytestConfigWarning: No files were found in testpaths; consider removing or adjusting your testpaths configuration. Searching recursively from the current directory instead. 173s self.args, self.args_source = self._decide_args( 173s 173s -- Docs: https://docs.pytest.org/en/stable/how-to/capture-warnings.html 173s =========================== short test summary info ============================ 173s ERROR array_tree_tests.py 173s ERROR array_tree_tests.py 173s ERROR bgzf_tests.py 173s ERROR bgzf_tests.py 173s ERROR bigwig_tests.py 173s ERROR bigwig_tests.py 173s ERROR binned_array_tests.py 173s ERROR binned_array_tests.py 173s ERROR bitset_tests.py 173s ERROR bitset_tests.py 173s ERROR cdb_tests.py 173s ERROR cdb_tests.py 173s ERROR cluster_tests.py 173s ERROR cluster_tests.py 173s ERROR epo_tests.py 173s ERROR epo_tests.py 173s ERROR fasta_tests.py 173s ERROR fasta_tests.py 173s ERROR intersection_tests.py 173s ERROR intersection_tests.py 173s ERROR lav_tests.py 173s ERROR lav_tests.py 173s ERROR nib_tests.py 173s ERROR nib_tests.py 173s ERROR phast_tests.py 173s ERROR phast_tests.py 173s ERROR pwm_tests.py 173s ERROR pwm_tests.py 173s ERROR qdna_tests.py 173s ERROR qdna_tests.py 173s ERROR score_tests.py 173s ERROR score_tests.py 173s ERROR seekbzip2_tests.py 173s ERROR seekbzip2_tests.py 173s ERROR seq_tests.py 173s ERROR seq_tests.py 173s ERROR seqmapping_tests.py 173s ERROR seqmapping_tests.py 173s ERROR sitemask_tests.py 173s ERROR sitemask_tests.py 173s ERROR transfac_tests.py 173s ERROR transfac_tests.py 173s ERROR twobit_tests.py 173s ERROR twobit_tests.py 173s !!!!!!!!!!!!!!!!!!! Interrupted: 44 errors during collection !!!!!!!!!!!!!!!!!!! 173s ======================== 1 warning, 44 errors in 1.14s ========================= 173s ============================= test session starts ============================== 173s platform linux -- Python 3.12.7, pytest-8.3.3, pluggy-1.5.0 173s rootdir: /tmp/autopkgtest.G3V8vE/autopkgtest_tmp/build 173s configfile: pytest.ini 173s plugins: typeguard-4.4.1, cython-0.3.1 173s collected 134 items 173s 175s array_tree_tests.py ...... [ 4%] 175s bgzf_tests.py . [ 5%] 175s bigwig_tests.py ........................... [ 25%] 175s binned_array_tests.py .... [ 28%] 176s bitset_tests.py .................. [ 41%] 176s cdb_tests.py . [ 42%] 176s cluster_tests.py ............. [ 52%] 176s epo_tests.py ..... [ 55%] 176s fasta_tests.py . [ 56%] 176s fpconst_tests.py . [ 57%] 177s intersection_tests.py ............. [ 67%] 178s interval_index_file_tests.py ... [ 69%] 178s lav_tests.py . [ 70%] 178s maf_tests.py ........ [ 76%] 178s newick_tests.py ........ [ 82%] 178s nib_tests.py . [ 82%] 178s phast_tests.py . [ 83%] 178s pwm_tests.py ... [ 85%] 178s qdna_tests.py . [ 86%] 178s score_tests.py ..... [ 90%] 178s seq_tests.py .... [ 93%] 178s sitemask_tests.py ... [ 95%] 178s transfac_tests.py . [ 96%] 178s twobit_tests.py ... [ 98%] 178s wiggle_tests.py .. [100%] 178s 178s =============================== warnings summary =============================== 178s ../../../../usr/lib/python3/dist-packages/_pytest/config/__init__.py:1500 178s /usr/lib/python3/dist-packages/_pytest/config/__init__.py:1500: PytestConfigWarning: No files were found in testpaths; consider removing or adjusting your testpaths configuration. Searching recursively from the current directory instead. 178s self.args, self.args_source = self._decide_args( 178s 178s bigwig_tests.py::TestBigWig::test_summary_from_file[chr1 10000 12000 10 mean n/a n/a n/a n/a -0.164968 -0.194169 -0.0533029 0.00390226 -0.00226906 -0.0365958\n] 178s bigwig_tests.py::TestBigWig::test_summary_from_file[chr1 10000 20000 100 mean n/a n/a n/a n/a n/a n/a n/a n/a n/a -0.163546 -0.272118 -0.127111 -0.116169 0.0202627 -0.0243522 0.0349913 -0.0054408 -0.00101548 -0.0307148 -0.0374406 -0.0024669 -0.034042 -0.0343892 -0.0199075 -0.0406878 -0.0322236 -0.080479 -0.235991 -0.0897865 -0.041593 0.019942 -0.0608448 0.0144338 -0.0348468 0.0195101 -0.0555526 -0.0892809 0.011672 -0.173894 -0.0849444 0.0718796 0.0608432 0.0313183 0.0439315 -0.0242363 0.03288 0.0318241 0.122005 0.0879138 0.00102565 0.0334753 -0.00263047 -0.103023 -0.0275437 0.0958326 0.0147229 -0.0629772 0.00541821 0.062474 0.069069 -0.0389339 0.0206174 0.0278476 -0.0182009 0.00568736 0.000397305 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python{version} -p "3.13 3.12" returned exit code 13 178s make: *** [/tmp/t8cZHXgpKa/run:4: pybuild-autopkgtest] Error 25 178s pybuild-autopkgtest: error: /tmp/t8cZHXgpKa/run pybuild-autopkgtest returned exit code 2 178s autopkgtest [10:18:24]: test pybuild-autopkgtest: -----------------------] 190s autopkgtest [10:18:36]: test pybuild-autopkgtest: - - - - - - - - - - results - - - - - - - - - - 190s pybuild-autopkgtest FAIL non-zero exit status 25 211s autopkgtest [10:18:57]: @@@@@@@@@@@@@@@@@@@@ summary 211s pybuild-autopkgtest FAIL non-zero exit status 25 284s nova [W] Skipping flock in bos03-arm64 284s Creating nova instance adt-plucky-arm64-python-bx-20241113-101525-juju-7f2275-prod-proposed-migration-environment-15-bf111503-b023-460f-bc7e-fdf15f18960f from image adt/ubuntu-plucky-arm64-server-20241113.img (UUID 2d7760e6-2439-4200-89d6-5ed33e5c6330)...