1s autopkgtest [19:45:26]: starting date and time: 2024-03-14 19:45:26+0000 1s autopkgtest [19:45:26]: git checkout: b506e79c ssh-setup/nova: fix ARCH having two lines of data 1s autopkgtest [19:45:26]: host juju-7f2275-prod-proposed-migration-environment-2; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work.5q9vdmm9/out --timeout-copy=6000 --setup-commands /home/ubuntu/autopkgtest-cloud/worker-config-production/setup-canonical.sh --apt-pocket=proposed=src:fftw3,src:openmpi,src:pmix --apt-upgrade opentsne --timeout-short=300 --timeout-copy=20000 --timeout-build=20000 '--env=ADT_TEST_TRIGGERS=fftw3/3.3.10-1ubuntu2 openmpi/4.1.6-5.1ubuntu3 pmix/5.0.1-4.1' -- ssh -s /home/ubuntu/autopkgtest/ssh-setup/nova -- --flavor autopkgtest --security-groups autopkgtest-juju-7f2275-prod-proposed-migration-environment-2@bos02-ppc64el-5.secgroup --name adt-noble-ppc64el-opentsne-20240314-194525-juju-7f2275-prod-proposed-migration-environment-2 --image adt/ubuntu-noble-ppc64el-server --keyname testbed-juju-7f2275-prod-proposed-migration-environment-2 --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,launchpadlibrarian.net,launchpadcontent.net,launchpad.net,10.24.0.0/24,keystone.ps5.canonical.com,objectstorage.prodstack5.canonical.com'"'"'' --mirror=http://ftpmaster.internal/ubuntu/ 109s autopkgtest [19:47:14]: testbed dpkg architecture: ppc64el 109s autopkgtest [19:47:14]: testbed apt version: 2.7.12 109s autopkgtest [19:47:14]: @@@@@@@@@@@@@@@@@@@@ test bed setup 110s Get:1 http://ftpmaster.internal/ubuntu noble-proposed InRelease [117 kB] 111s Get:2 http://ftpmaster.internal/ubuntu noble-proposed/universe Sources [3020 kB] 111s Get:3 http://ftpmaster.internal/ubuntu noble-proposed/multiverse Sources [48.4 kB] 111s Get:4 http://ftpmaster.internal/ubuntu noble-proposed/restricted Sources [4812 B] 111s Get:5 http://ftpmaster.internal/ubuntu noble-proposed/main Sources [454 kB] 111s Get:6 http://ftpmaster.internal/ubuntu noble-proposed/main ppc64el Packages [607 kB] 111s Get:7 http://ftpmaster.internal/ubuntu noble-proposed/main ppc64el c-n-f Metadata [3116 B] 111s Get:8 http://ftpmaster.internal/ubuntu noble-proposed/restricted ppc64el Packages [1372 B] 111s Get:9 http://ftpmaster.internal/ubuntu noble-proposed/restricted ppc64el c-n-f Metadata [116 B] 111s Get:10 http://ftpmaster.internal/ubuntu noble-proposed/universe ppc64el Packages [3317 kB] 111s Get:11 http://ftpmaster.internal/ubuntu noble-proposed/universe ppc64el c-n-f Metadata [8652 B] 111s Get:12 http://ftpmaster.internal/ubuntu noble-proposed/multiverse ppc64el Packages [42.8 kB] 111s Get:13 http://ftpmaster.internal/ubuntu noble-proposed/multiverse ppc64el c-n-f Metadata [116 B] 115s Fetched 7625 kB in 2s (3312 kB/s) 115s Reading package lists... 118s Reading package lists... 118s Building dependency tree... 118s Reading state information... 118s Calculating upgrade... 118s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 118s Reading package lists... 118s Building dependency tree... 118s Reading state information... 119s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 119s Hit:1 http://ftpmaster.internal/ubuntu noble-proposed InRelease 119s Hit:2 http://ftpmaster.internal/ubuntu noble InRelease 119s Hit:3 http://ftpmaster.internal/ubuntu noble-updates InRelease 119s Hit:4 http://ftpmaster.internal/ubuntu noble-security InRelease 121s Reading package lists... 121s Reading package lists... 121s Building dependency tree... 121s Reading state information... 121s Calculating upgrade... 121s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 121s Reading package lists... 121s Building dependency tree... 121s Reading state information... 122s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 124s autopkgtest [19:47:29]: testbed running kernel: Linux 6.8.0-11-generic #11-Ubuntu SMP Wed Feb 14 00:33:03 UTC 2024 124s autopkgtest [19:47:29]: @@@@@@@@@@@@@@@@@@@@ apt-source opentsne 127s Get:1 http://ftpmaster.internal/ubuntu noble/universe opentsne 1.0.0-1ubuntu1 (dsc) [2504 B] 127s Get:2 http://ftpmaster.internal/ubuntu noble/universe opentsne 1.0.0-1ubuntu1 (tar) [22.6 MB] 127s Get:3 http://ftpmaster.internal/ubuntu noble/universe opentsne 1.0.0-1ubuntu1 (diff) [4180 B] 127s gpgv: Signature made Sat Nov 18 14:02:42 2023 UTC 127s gpgv: using RSA key 25E3FF2D7F469DBE7D0D4E50AFCFEC8E669CE1C2 127s gpgv: Can't check signature: No public key 127s dpkg-source: warning: cannot verify inline signature for ./opentsne_1.0.0-1ubuntu1.dsc: no acceptable signature found 128s autopkgtest [19:47:33]: testing package opentsne version 1.0.0-1ubuntu1 129s autopkgtest [19:47:34]: build not needed 131s autopkgtest [19:47:36]: test command1: preparing testbed 134s Reading package lists... 134s Building dependency tree... 134s Reading state information... 134s Starting pkgProblemResolver with broken count: 0 134s Starting 2 pkgProblemResolver with broken count: 0 134s Done 134s The following additional packages will be installed: 134s libblas3 libfftw3-double3 libgfortran5 libgomp1 liblapack3 liblbfgsb0 134s python3-all python3-decorator python3-iniconfig python3-joblib python3-numpy 134s python3-opentsne python3-packaging python3-pluggy python3-pytest 134s python3-pytest-runner python3-scipy python3-sklearn python3-sklearn-lib 134s python3-threadpoolctl 134s Suggested packages: 134s libfftw3-bin libfftw3-dev gcc gfortran python3-dev python-scipy-doc 134s python3-dap python-sklearn-doc ipython3 134s Recommended packages: 134s python3-simplejson python3-psutil g++ | c++-compiler python3-pil 134s python3-matplotlib 134s The following NEW packages will be installed: 135s autopkgtest-satdep libblas3 libfftw3-double3 libgfortran5 libgomp1 135s liblapack3 liblbfgsb0 python3-all python3-decorator python3-iniconfig 135s python3-joblib python3-numpy python3-opentsne python3-packaging 135s python3-pluggy python3-pytest python3-pytest-runner python3-scipy 135s python3-sklearn python3-sklearn-lib python3-threadpoolctl 135s 0 upgraded, 21 newly installed, 0 to remove and 0 not upgraded. 135s Need to get 41.5 MB/41.5 MB of archives. 135s After this operation, 239 MB of additional disk space will be used. 135s Get:1 /tmp/autopkgtest.8GqYhJ/1-autopkgtest-satdep.deb autopkgtest-satdep ppc64el 0 [728 B] 135s Get:2 http://ftpmaster.internal/ubuntu noble/main ppc64el libblas3 ppc64el 3.12.0-3 [227 kB] 135s Get:3 http://ftpmaster.internal/ubuntu noble/main ppc64el libgomp1 ppc64el 14-20240303-1ubuntu1 [161 kB] 135s Get:4 http://ftpmaster.internal/ubuntu noble-proposed/main ppc64el libfftw3-double3 ppc64el 3.3.10-1ubuntu2 [443 kB] 135s Get:5 http://ftpmaster.internal/ubuntu noble/main ppc64el libgfortran5 ppc64el 14-20240303-1ubuntu1 [574 kB] 135s Get:6 http://ftpmaster.internal/ubuntu noble/main ppc64el liblapack3 ppc64el 3.12.0-3 [2804 kB] 135s Get:7 http://ftpmaster.internal/ubuntu noble/universe ppc64el liblbfgsb0 ppc64el 3.0+dfsg.4-1 [32.8 kB] 135s Get:8 http://ftpmaster.internal/ubuntu noble/main ppc64el python3-all ppc64el 3.12.1-0ubuntu2 [904 B] 135s Get:9 http://ftpmaster.internal/ubuntu noble/main ppc64el python3-decorator all 5.1.1-5 [10.1 kB] 135s Get:10 http://ftpmaster.internal/ubuntu noble/universe ppc64el python3-iniconfig all 1.1.1-2 [6024 B] 135s Get:11 http://ftpmaster.internal/ubuntu noble/universe ppc64el python3-joblib all 1.3.2-1 [207 kB] 135s Get:12 http://ftpmaster.internal/ubuntu noble/main ppc64el python3-numpy ppc64el 1:1.24.2-2 [5581 kB] 135s Get:13 http://ftpmaster.internal/ubuntu noble/universe ppc64el python3-scipy ppc64el 1.11.4-6 [21.4 MB] 136s Get:14 http://ftpmaster.internal/ubuntu noble/universe ppc64el python3-threadpoolctl all 3.1.0-1 [21.3 kB] 136s Get:15 http://ftpmaster.internal/ubuntu noble/universe ppc64el python3-sklearn-lib ppc64el 1.4.1.post1+dfsg-1 [6817 kB] 136s Get:16 http://ftpmaster.internal/ubuntu noble/universe ppc64el python3-sklearn all 1.4.1.post1+dfsg-1 [2261 kB] 136s Get:17 http://ftpmaster.internal/ubuntu noble/universe ppc64el python3-opentsne ppc64el 1.0.0-1ubuntu1 [533 kB] 136s Get:18 http://ftpmaster.internal/ubuntu noble/main ppc64el python3-packaging all 23.2-1 [40.6 kB] 136s Get:19 http://ftpmaster.internal/ubuntu noble/universe ppc64el python3-pluggy all 1.4.0-1 [20.4 kB] 136s Get:20 http://ftpmaster.internal/ubuntu noble/universe ppc64el python3-pytest all 7.4.4-1 [305 kB] 136s Get:21 http://ftpmaster.internal/ubuntu noble/universe ppc64el python3-pytest-runner all 2.11.1-4 [7450 B] 137s Fetched 41.5 MB in 2s (21.8 MB/s) 137s Selecting previously unselected package libblas3:ppc64el. 137s (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 ... 70095 files and directories currently installed.) 137s Preparing to unpack .../00-libblas3_3.12.0-3_ppc64el.deb ... 137s Unpacking libblas3:ppc64el (3.12.0-3) ... 137s Selecting previously unselected package libgomp1:ppc64el. 137s Preparing to unpack .../01-libgomp1_14-20240303-1ubuntu1_ppc64el.deb ... 137s Unpacking libgomp1:ppc64el (14-20240303-1ubuntu1) ... 137s Selecting previously unselected package libfftw3-double3:ppc64el. 137s Preparing to unpack .../02-libfftw3-double3_3.3.10-1ubuntu2_ppc64el.deb ... 137s Unpacking libfftw3-double3:ppc64el (3.3.10-1ubuntu2) ... 137s Selecting previously unselected package libgfortran5:ppc64el. 137s Preparing to unpack .../03-libgfortran5_14-20240303-1ubuntu1_ppc64el.deb ... 137s Unpacking libgfortran5:ppc64el (14-20240303-1ubuntu1) ... 137s Selecting previously unselected package liblapack3:ppc64el. 137s Preparing to unpack .../04-liblapack3_3.12.0-3_ppc64el.deb ... 137s Unpacking liblapack3:ppc64el (3.12.0-3) ... 137s Selecting previously unselected package liblbfgsb0:ppc64el. 137s Preparing to unpack .../05-liblbfgsb0_3.0+dfsg.4-1_ppc64el.deb ... 137s Unpacking liblbfgsb0:ppc64el (3.0+dfsg.4-1) ... 137s Selecting previously unselected package python3-all. 137s Preparing to unpack .../06-python3-all_3.12.1-0ubuntu2_ppc64el.deb ... 137s Unpacking python3-all (3.12.1-0ubuntu2) ... 137s Selecting previously unselected package python3-decorator. 137s Preparing to unpack .../07-python3-decorator_5.1.1-5_all.deb ... 137s Unpacking python3-decorator (5.1.1-5) ... 137s Selecting previously unselected package python3-iniconfig. 137s Preparing to unpack .../08-python3-iniconfig_1.1.1-2_all.deb ... 137s Unpacking python3-iniconfig (1.1.1-2) ... 137s Selecting previously unselected package python3-joblib. 137s Preparing to unpack .../09-python3-joblib_1.3.2-1_all.deb ... 137s Unpacking python3-joblib (1.3.2-1) ... 137s Selecting previously unselected package python3-numpy. 137s Preparing to unpack .../10-python3-numpy_1%3a1.24.2-2_ppc64el.deb ... 137s Unpacking python3-numpy (1:1.24.2-2) ... 138s Selecting previously unselected package python3-scipy. 138s Preparing to unpack .../11-python3-scipy_1.11.4-6_ppc64el.deb ... 138s Unpacking python3-scipy (1.11.4-6) ... 138s Selecting previously unselected package python3-threadpoolctl. 138s Preparing to unpack .../12-python3-threadpoolctl_3.1.0-1_all.deb ... 138s Unpacking python3-threadpoolctl (3.1.0-1) ... 139s Selecting previously unselected package python3-sklearn-lib:ppc64el. 139s Preparing to unpack .../13-python3-sklearn-lib_1.4.1.post1+dfsg-1_ppc64el.deb ... 139s Unpacking python3-sklearn-lib:ppc64el (1.4.1.post1+dfsg-1) ... 139s Selecting previously unselected package python3-sklearn. 139s Preparing to unpack .../14-python3-sklearn_1.4.1.post1+dfsg-1_all.deb ... 139s Unpacking python3-sklearn (1.4.1.post1+dfsg-1) ... 139s Selecting previously unselected package python3-opentsne. 139s Preparing to unpack .../15-python3-opentsne_1.0.0-1ubuntu1_ppc64el.deb ... 139s Unpacking python3-opentsne (1.0.0-1ubuntu1) ... 139s Selecting previously unselected package python3-packaging. 139s Preparing to unpack .../16-python3-packaging_23.2-1_all.deb ... 139s Unpacking python3-packaging (23.2-1) ... 139s Selecting previously unselected package python3-pluggy. 139s Preparing to unpack .../17-python3-pluggy_1.4.0-1_all.deb ... 139s Unpacking python3-pluggy (1.4.0-1) ... 139s Selecting previously unselected package python3-pytest. 139s Preparing to unpack .../18-python3-pytest_7.4.4-1_all.deb ... 139s Unpacking python3-pytest (7.4.4-1) ... 139s Selecting previously unselected package python3-pytest-runner. 139s Preparing to unpack .../19-python3-pytest-runner_2.11.1-4_all.deb ... 139s Unpacking python3-pytest-runner (2.11.1-4) ... 139s Selecting previously unselected package autopkgtest-satdep. 139s Preparing to unpack .../20-1-autopkgtest-satdep.deb ... 139s Unpacking autopkgtest-satdep (0) ... 139s Setting up python3-iniconfig (1.1.1-2) ... 139s Setting up python3-joblib (1.3.2-1) ... 140s Setting up python3-threadpoolctl (3.1.0-1) ... 140s Setting up python3-all (3.12.1-0ubuntu2) ... 140s Setting up libgomp1:ppc64el (14-20240303-1ubuntu1) ... 140s Setting up python3-decorator (5.1.1-5) ... 140s Setting up libblas3:ppc64el (3.12.0-3) ... 140s update-alternatives: using /usr/lib/powerpc64le-linux-gnu/blas/libblas.so.3 to provide /usr/lib/powerpc64le-linux-gnu/libblas.so.3 (libblas.so.3-powerpc64le-linux-gnu) in auto mode 140s Setting up python3-packaging (23.2-1) ... 140s Setting up libfftw3-double3:ppc64el (3.3.10-1ubuntu2) ... 140s Setting up libgfortran5:ppc64el (14-20240303-1ubuntu1) ... 140s Setting up python3-pluggy (1.4.0-1) ... 140s Setting up python3-pytest-runner (2.11.1-4) ... 140s Setting up liblapack3:ppc64el (3.12.0-3) ... 140s update-alternatives: using /usr/lib/powerpc64le-linux-gnu/lapack/liblapack.so.3 to provide /usr/lib/powerpc64le-linux-gnu/liblapack.so.3 (liblapack.so.3-powerpc64le-linux-gnu) in auto mode 140s Setting up python3-pytest (7.4.4-1) ... 141s Setting up python3-numpy (1:1.24.2-2) ... 143s Setting up liblbfgsb0:ppc64el (3.0+dfsg.4-1) ... 143s Setting up python3-scipy (1.11.4-6) ... 147s Setting up python3-sklearn-lib:ppc64el (1.4.1.post1+dfsg-1) ... 147s Setting up python3-sklearn (1.4.1.post1+dfsg-1) ... 149s Setting up python3-opentsne (1.0.0-1ubuntu1) ... 149s Setting up autopkgtest-satdep (0) ... 149s Processing triggers for man-db (2.12.0-3) ... 149s Processing triggers for libc-bin (2.39-0ubuntu2) ... 152s (Reading database ... 73943 files and directories currently installed.) 152s Removing autopkgtest-satdep (0) ... 153s autopkgtest [19:47:58]: test command1: set -efu ; cp -rf tests "$AUTOPKGTEST_TMP" ; for py in $(py3versions -r 2>/dev/null) ; do cd "$AUTOPKGTEST_TMP" ; echo "Testing with $py:" ; $py -m pytest ; done 153s autopkgtest [19:47:58]: test command1: [----------------------- 153s Testing with python3.12: 154s ============================= test session starts ============================== 154s platform linux -- Python 3.12.2, pytest-7.4.4, pluggy-1.4.0 154s rootdir: /tmp/autopkgtest.8GqYhJ/autopkgtest_tmp 154s collected 163 items 154s 155s tests/test_affinities.py ......................... [ 15%] 174s tests/test_correctness.py ......................x... [ 31%] 180s tests/test_different_usages.py ............ [ 38%] 184s tests/test_nearest_neighbors.py ..................ssssssssssssssssssssss [ 63%] 184s ss [ 64%] 185s tests/test_sklearn_wrapper.py ... [ 66%] 190s tests/test_tsne.py ...ss............................................... [ 98%] 190s tests/test_utils.py ... [100%] 190s 190s =============================== warnings summary =============================== 190s tests/test_correctness.py::TestDataMatricesWithDuplicatedRows::test_works_without_error 190s /usr/lib/python3/dist-packages/sklearn/preprocessing/_discretization.py:248: FutureWarning: In version 1.5 onwards, subsample=200_000 will be used by default. Set subsample explicitly to silence this warning in the mean time. Set subsample=None to disable subsampling explicitly. 190s warnings.warn( 190s 190s tests/test_different_usages.py::TestUsageWithCustomAffinity::test_affinity 190s tests/test_different_usages.py::TestUsageWithCustomAffinity::test_precomputed_affinity 190s tests/test_different_usages.py::TestUsageWithCustomAffinityAndCustomNeighbors::test_affinity_with_precomputed_distances 190s tests/test_different_usages.py::TestUsageWithCustomAffinityAndCustomNeighbors::test_affinity_with_precomputed_neighbors 190s tests/test_different_usages.py::TestUsageWithCustomAffinityAndCustomNeighbors::test_affinity_with_queryable_knn_index 190s tests/test_tsne.py::TestAffinityIntegration::test_transform_with_nonstandard_affinity 190s /usr/lib/python3/dist-packages/openTSNE/affinity.py:1219: FutureWarning: Using `mean` symmetrization, but the default behaviour is going to change to `max` in future versions. 190s warnings.warn( 190s 190s -- Docs: https://docs.pytest.org/en/stable/how-to/capture-warnings.html 190s =========== 136 passed, 26 skipped, 1 xfailed, 7 warnings in 36.98s ============ 191s autopkgtest [19:48:36]: test command1: -----------------------] 191s command1 PASS 191s autopkgtest [19:48:36]: test command1: - - - - - - - - - - results - - - - - - - - - - 191s autopkgtest [19:48:36]: @@@@@@@@@@@@@@@@@@@@ summary 191s command1 PASS 215s Creating nova instance adt-noble-ppc64el-opentsne-20240314-194525-juju-7f2275-prod-proposed-migration-environment-2 from image adt/ubuntu-noble-ppc64el-server-20240314.img (UUID a031584c-aec8-4412-bff6-4238354f4d17)...