0s autopkgtest [21:49:54]: starting date and time: 2024-03-13 21:49:54+0000
  0s autopkgtest [21:49:54]: git checkout: b506e79c ssh-setup/nova: fix ARCH having two lines of data
  0s autopkgtest [21:49:54]: host juju-7f2275-prod-proposed-migration-environment-3; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work.j7n09_h5/out --timeout-copy=6000 --setup-commands /home/ubuntu/autopkgtest-cloud/worker-config-production/setup-canonical.sh --apt-pocket=proposed=src:h5py,src:hdf5,src:openmpi,src:openssl,src:pmix --apt-upgrade r-bioc-mofa --timeout-short=300 --timeout-copy=20000 --timeout-build=20000 '--env=ADT_TEST_TRIGGERS=h5py/3.10.0-1ubuntu2 hdf5/1.10.10+repack-3.1ubuntu2 openmpi/4.1.6-5.1ubuntu3 openssl/3.0.13-0ubuntu1 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-3@bos03-arm64-1.secgroup --name adt-noble-arm64-r-bioc-mofa-20240313-214954-juju-7f2275-prod-proposed-migration-environment-3 --image adt/ubuntu-noble-arm64-server --keyname testbed-juju-7f2275-prod-proposed-migration-environment-3 --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/
111s autopkgtest [21:51:45]: testbed dpkg architecture: arm64
111s autopkgtest [21:51:45]: testbed apt version: 2.7.12
111s autopkgtest [21:51:45]: @@@@@@@@@@@@@@@@@@@@ test bed setup
112s Get:1 http://ftpmaster.internal/ubuntu noble-proposed InRelease [117 kB]
112s Get:2 http://ftpmaster.internal/ubuntu noble-proposed/multiverse Sources [42.3 kB]
113s Get:3 http://ftpmaster.internal/ubuntu noble-proposed/main Sources [450 kB]
113s Get:4 http://ftpmaster.internal/ubuntu noble-proposed/restricted Sources [4812 B]
113s Get:5 http://ftpmaster.internal/ubuntu noble-proposed/universe Sources [2818 kB]
113s Get:6 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 Packages [603 kB]
114s Get:7 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 c-n-f Metadata [3144 B]
114s Get:8 http://ftpmaster.internal/ubuntu noble-proposed/restricted arm64 Packages [20.3 kB]
114s Get:9 http://ftpmaster.internal/ubuntu noble-proposed/restricted arm64 c-n-f Metadata [116 B]
114s Get:10 http://ftpmaster.internal/ubuntu noble-proposed/universe arm64 Packages [3218 kB]
114s Get:11 http://ftpmaster.internal/ubuntu noble-proposed/universe arm64 c-n-f Metadata [8528 B]
114s Get:12 http://ftpmaster.internal/ubuntu noble-proposed/multiverse arm64 Packages [42.3 kB]
114s Get:13 http://ftpmaster.internal/ubuntu noble-proposed/multiverse arm64 c-n-f Metadata [116 B]
116s Fetched 7327 kB in 3s (2710 kB/s)
117s Reading package lists...
121s Reading package lists...
121s Building dependency tree...
121s Reading state information...
123s Calculating upgrade...
124s The following packages will be REMOVED:
124s   libssl3
124s The following NEW packages will be installed:
124s   libssl3t64
124s The following packages will be upgraded:
124s   console-setup console-setup-linux keyboard-configuration openssl
124s 4 upgraded, 1 newly installed, 1 to remove and 0 not upgraded.
124s Need to get 4955 kB of archives.
124s After this operation, 74.8 kB of additional disk space will be used.
124s Get:1 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 openssl arm64 3.0.13-0ubuntu1 [983 kB]
124s Get:2 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 libssl3t64 arm64 3.0.13-0ubuntu1 [1770 kB]
125s Get:3 http://ftpmaster.internal/ubuntu noble/main arm64 console-setup-linux all 1.226ubuntu1 [1880 kB]
125s Get:4 http://ftpmaster.internal/ubuntu noble/main arm64 console-setup all 1.226ubuntu1 [110 kB]
125s Get:5 http://ftpmaster.internal/ubuntu noble/main arm64 keyboard-configuration all 1.226ubuntu1 [212 kB]
126s Preconfiguring packages ...
127s Fetched 4955 kB in 1s (3799 kB/s)
127s (Reading database ... 
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(Reading database ... 74759 files and directories currently installed.)
127s Preparing to unpack .../openssl_3.0.13-0ubuntu1_arm64.deb ...
127s Unpacking openssl (3.0.13-0ubuntu1) over (3.0.10-1ubuntu4) ...
128s dpkg: libssl3:arm64: dependency problems, but removing anyway as you requested:
128s  wget depends on libssl3 (>= 3.0.0).
128s  u-boot-tools depends on libssl3 (>= 3.0.0).
128s  tnftp depends on libssl3 (>= 3.0.0).
128s  tcpdump depends on libssl3 (>= 3.0.0).
128s  systemd-resolved depends on libssl3 (>= 3.0.0).
128s  systemd depends on libssl3 (>= 3.0.0).
128s  sudo depends on libssl3 (>= 3.0.0).
128s  sbsigntool depends on libssl3 (>= 3.0.0).
128s  rsync depends on libssl3 (>= 3.0.0).
128s  python3-cryptography depends on libssl3 (>= 3.0.0).
128s  openssh-server depends on libssl3 (>= 3.0.10).
128s  openssh-client depends on libssl3 (>= 3.0.10).
128s  mtd-utils depends on libssl3 (>= 3.0.0).
128s  mokutil depends on libssl3 (>= 3.0.0).
128s  linux-headers-6.8.0-11-generic depends on libssl3 (>= 3.0.0).
128s  libsystemd-shared:arm64 depends on libssl3 (>= 3.0.0).
128s  libssh-4:arm64 depends on libssl3 (>= 3.0.0).
128s  libsasl2-modules:arm64 depends on libssl3 (>= 3.0.0).
128s  libsasl2-2:arm64 depends on libssl3 (>= 3.0.0).
128s  libpython3.12-minimal:arm64 depends on libssl3 (>= 3.0.0).
128s  libnvme1 depends on libssl3 (>= 3.0.0).
128s  libkrb5-3:arm64 depends on libssl3 (>= 3.0.0).
128s  libkmod2:arm64 depends on libssl3 (>= 3.0.0).
128s  libfido2-1:arm64 depends on libssl3 (>= 3.0.0).
128s  libcurl4:arm64 depends on libssl3 (>= 3.0.0).
128s  libcryptsetup12:arm64 depends on libssl3 (>= 3.0.0).
128s  kmod depends on libssl3 (>= 3.0.0).
128s  dhcpcd-base depends on libssl3 (>= 3.0.0).
128s  bind9-libs:arm64 depends on libssl3 (>= 3.0.0).
128s 
128s (Reading database ... 
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(Reading database ... 74759 files and directories currently installed.)
128s Removing libssl3:arm64 (3.0.10-1ubuntu4) ...
128s Selecting previously unselected package libssl3t64:arm64.
128s (Reading database ... 
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(Reading database ... 74748 files and directories currently installed.)
128s Preparing to unpack .../libssl3t64_3.0.13-0ubuntu1_arm64.deb ...
128s Unpacking libssl3t64:arm64 (3.0.13-0ubuntu1) ...
128s Preparing to unpack .../console-setup-linux_1.226ubuntu1_all.deb ...
128s Unpacking console-setup-linux (1.226ubuntu1) over (1.223ubuntu2) ...
128s Preparing to unpack .../console-setup_1.226ubuntu1_all.deb ...
128s Unpacking console-setup (1.226ubuntu1) over (1.223ubuntu2) ...
128s Preparing to unpack .../keyboard-configuration_1.226ubuntu1_all.deb ...
128s Unpacking keyboard-configuration (1.226ubuntu1) over (1.223ubuntu2) ...
128s Setting up libssl3t64:arm64 (3.0.13-0ubuntu1) ...
128s Setting up keyboard-configuration (1.226ubuntu1) ...
130s Your console font configuration will be updated the next time your system
130s boots. If you want to update it now, run 'setupcon' from a virtual console.
130s update-initramfs: deferring update (trigger activated)
130s Setting up openssl (3.0.13-0ubuntu1) ...
130s Setting up console-setup-linux (1.226ubuntu1) ...
132s Setting up console-setup (1.226ubuntu1) ...
135s update-initramfs: deferring update (trigger activated)
135s Processing triggers for man-db (2.12.0-3) ...
136s Processing triggers for libc-bin (2.39-0ubuntu2) ...
136s Processing triggers for initramfs-tools (0.142ubuntu20) ...
136s update-initramfs: Generating /boot/initrd.img-6.8.0-11-generic
136s W: No lz4 in /usr/bin:/sbin:/bin, using gzip
161s System running in EFI mode, skipping.
161s Reading package lists...
161s Building dependency tree...
161s Reading state information...
162s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
163s Hit:1 http://ftpmaster.internal/ubuntu noble InRelease
163s Hit:2 http://ftpmaster.internal/ubuntu noble-updates InRelease
164s Hit:3 http://ftpmaster.internal/ubuntu noble-security InRelease
164s Hit:4 http://ftpmaster.internal/ubuntu noble-proposed InRelease
166s Reading package lists...
166s Reading package lists...
166s Building dependency tree...
166s Reading state information...
166s Calculating upgrade...
167s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
167s Reading package lists...
167s Building dependency tree...
167s Reading state information...
168s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
168s autopkgtest [21:52:42]: rebooting testbed after setup commands that affected boot
431s autopkgtest-virt-ssh: WARNING: ssh connection failed. Retrying in 3 seconds...
438s autopkgtest [21:57:12]: testbed running kernel: Linux 6.8.0-11-generic #11-Ubuntu SMP PREEMPT_DYNAMIC Wed Feb 14 02:53:31 UTC 2024
442s autopkgtest [21:57:16]: @@@@@@@@@@@@@@@@@@@@ apt-source r-bioc-mofa
446s Get:1 http://ftpmaster.internal/ubuntu noble/universe r-bioc-mofa 1.6.1+dfsg-12 (dsc) [2554 B]
446s Get:2 http://ftpmaster.internal/ubuntu noble/universe r-bioc-mofa 1.6.1+dfsg-12 (tar) [915 kB]
446s Get:3 http://ftpmaster.internal/ubuntu noble/universe r-bioc-mofa 1.6.1+dfsg-12 (diff) [4216 B]
446s gpgv: Signature made Thu Nov 30 17:10:43 2023 UTC
446s gpgv:                using RSA key F1F007320A035541F0A663CA578A0494D1C646D1
446s gpgv:                issuer "tille@debian.org"
446s gpgv: Can't check signature: No public key
446s dpkg-source: warning: cannot verify inline signature for ./r-bioc-mofa_1.6.1+dfsg-12.dsc: no acceptable signature found
446s autopkgtest [21:57:20]: testing package r-bioc-mofa version 1.6.1+dfsg-12
447s autopkgtest [21:57:21]: build not needed
447s autopkgtest [21:57:21]: test autodep8-python3: preparing testbed
451s Reading package lists...
451s Building dependency tree...
451s Reading state information...
451s Starting pkgProblemResolver with broken count: 0
451s Starting 2 pkgProblemResolver with broken count: 0
451s Done
452s The following additional packages will be installed:
452s   libaec0 libblas3 libgfortran5 libhdf5-103-1t64 libhdf5-hl-100t64 liblapack3
452s   liblbfgsb0 liblzf1 libpython3.11-minimal libpython3.11-stdlib libsz2
452s   python3-all python3-dateutil python3-decorator python3-distutils
452s   python3-h5py python3-h5py-serial python3-lib2to3 python3-mofapy
452s   python3-numpy python3-pandas python3-pandas-lib python3-scipy python3.11
452s   python3.11-minimal
452s Suggested packages:
452s   python-h5py-doc r-bioc-mofa gcc gfortran python3-dev python3-pytest
452s   python-pandas-doc python3-statsmodels python-scipy-doc python3.11-venv
452s   python3.11-doc binfmt-support
452s Recommended packages:
452s   python3-sklearn python3-sklearn-pandas python3-matplotlib python3-bottleneck
452s   python3-numexpr python3-odf python3-openpyxl python3-bs4 python3-html5lib
452s   python3-lxml python3-tables g++ | c++-compiler python3-pil
452s The following NEW packages will be installed:
452s   autopkgtest-satdep libaec0 libblas3 libgfortran5 libhdf5-103-1t64
452s   libhdf5-hl-100t64 liblapack3 liblbfgsb0 liblzf1 libpython3.11-minimal
452s   libpython3.11-stdlib libsz2 python3-all python3-dateutil python3-decorator
452s   python3-distutils python3-h5py python3-h5py-serial python3-lib2to3
452s   python3-mofapy python3-numpy python3-pandas python3-pandas-lib python3-scipy
452s   python3.11 python3.11-minimal
452s 0 upgraded, 26 newly installed, 0 to remove and 0 not upgraded.
452s Need to get 44.7 MB/44.7 MB of archives.
452s After this operation, 226 MB of additional disk space will be used.
452s Get:1 /tmp/autopkgtest.gWyaZ4/1-autopkgtest-satdep.deb autopkgtest-satdep arm64 0 [712 B]
452s Get:2 http://ftpmaster.internal/ubuntu noble/main arm64 libpython3.11-minimal arm64 3.11.8-1 [837 kB]
453s Get:3 http://ftpmaster.internal/ubuntu noble/main arm64 python3.11-minimal arm64 3.11.8-1 [2150 kB]
453s Get:4 http://ftpmaster.internal/ubuntu noble/main arm64 libpython3.11-stdlib arm64 3.11.8-1 [1913 kB]
454s Get:5 http://ftpmaster.internal/ubuntu noble/main arm64 python3.11 arm64 3.11.8-1 [589 kB]
454s Get:6 http://ftpmaster.internal/ubuntu noble/universe arm64 libaec0 arm64 1.1.2-1 [21.7 kB]
454s Get:7 http://ftpmaster.internal/ubuntu noble/main arm64 libblas3 arm64 3.12.0-3 [143 kB]
454s Get:8 http://ftpmaster.internal/ubuntu noble/main arm64 libgfortran5 arm64 14-20240303-1ubuntu1 [444 kB]
454s Get:9 http://ftpmaster.internal/ubuntu noble/universe arm64 libsz2 arm64 1.1.2-1 [5168 B]
454s Get:10 http://ftpmaster.internal/ubuntu noble-proposed/universe arm64 libhdf5-103-1t64 arm64 1.10.10+repack-3.1ubuntu2 [1192 kB]
454s Get:11 http://ftpmaster.internal/ubuntu noble-proposed/universe arm64 libhdf5-hl-100t64 arm64 1.10.10+repack-3.1ubuntu2 [55.8 kB]
454s Get:12 http://ftpmaster.internal/ubuntu noble/main arm64 liblapack3 arm64 3.12.0-3 [2241 kB]
455s Get:13 http://ftpmaster.internal/ubuntu noble/universe arm64 liblbfgsb0 arm64 3.0+dfsg.4-1 [27.7 kB]
455s Get:14 http://ftpmaster.internal/ubuntu noble/universe arm64 liblzf1 arm64 3.6-4 [7426 B]
455s Get:15 http://ftpmaster.internal/ubuntu noble/main arm64 python3-lib2to3 all 3.11.5-1 [79.0 kB]
455s Get:16 http://ftpmaster.internal/ubuntu noble/main arm64 python3-distutils all 3.11.5-1 [131 kB]
455s Get:17 http://ftpmaster.internal/ubuntu noble/main arm64 python3-all arm64 3.12.1-0ubuntu2 [906 B]
455s Get:18 http://ftpmaster.internal/ubuntu noble/main arm64 python3-dateutil all 2.8.2-3 [79.2 kB]
455s Get:19 http://ftpmaster.internal/ubuntu noble/main arm64 python3-decorator all 5.1.1-5 [10.1 kB]
455s Get:20 http://ftpmaster.internal/ubuntu noble/main arm64 python3-numpy arm64 1:1.24.2-2 [4525 kB]
456s Get:21 http://ftpmaster.internal/ubuntu noble-proposed/universe arm64 python3-h5py-serial arm64 3.10.0-1ubuntu2 [887 kB]
456s Get:22 http://ftpmaster.internal/ubuntu noble-proposed/universe arm64 python3-h5py all 3.10.0-1ubuntu2 [7980 B]
456s Get:23 http://ftpmaster.internal/ubuntu noble/universe arm64 python3-pandas-lib arm64 2.1.4+dfsg-4ubuntu2 [7669 kB]
457s Get:24 http://ftpmaster.internal/ubuntu noble/universe arm64 python3-pandas all 2.1.4+dfsg-4ubuntu2 [3042 kB]
457s Get:25 http://ftpmaster.internal/ubuntu noble/universe arm64 python3-scipy arm64 1.11.4-6 [18.6 MB]
460s Get:26 http://ftpmaster.internal/ubuntu noble/universe arm64 python3-mofapy all 1.6.1+dfsg-12 [34.8 kB]
461s Fetched 44.7 MB in 8s (5409 kB/s)
461s Selecting previously unselected package libpython3.11-minimal:arm64.
462s (Reading database ... 
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(Reading database ... 100%
(Reading database ... 74761 files and directories currently installed.)
462s Preparing to unpack .../00-libpython3.11-minimal_3.11.8-1_arm64.deb ...
462s Unpacking libpython3.11-minimal:arm64 (3.11.8-1) ...
462s Selecting previously unselected package python3.11-minimal.
462s Preparing to unpack .../01-python3.11-minimal_3.11.8-1_arm64.deb ...
462s Unpacking python3.11-minimal (3.11.8-1) ...
462s Selecting previously unselected package libpython3.11-stdlib:arm64.
462s Preparing to unpack .../02-libpython3.11-stdlib_3.11.8-1_arm64.deb ...
462s Unpacking libpython3.11-stdlib:arm64 (3.11.8-1) ...
462s Selecting previously unselected package python3.11.
462s Preparing to unpack .../03-python3.11_3.11.8-1_arm64.deb ...
462s Unpacking python3.11 (3.11.8-1) ...
462s Selecting previously unselected package libaec0:arm64.
463s Preparing to unpack .../04-libaec0_1.1.2-1_arm64.deb ...
463s Unpacking libaec0:arm64 (1.1.2-1) ...
463s Selecting previously unselected package libblas3:arm64.
463s Preparing to unpack .../05-libblas3_3.12.0-3_arm64.deb ...
463s Unpacking libblas3:arm64 (3.12.0-3) ...
463s Selecting previously unselected package libgfortran5:arm64.
463s Preparing to unpack .../06-libgfortran5_14-20240303-1ubuntu1_arm64.deb ...
464s Unpacking libgfortran5:arm64 (14-20240303-1ubuntu1) ...
464s Selecting previously unselected package libsz2:arm64.
464s Preparing to unpack .../07-libsz2_1.1.2-1_arm64.deb ...
464s Unpacking libsz2:arm64 (1.1.2-1) ...
464s Selecting previously unselected package libhdf5-103-1t64:arm64.
464s Preparing to unpack .../08-libhdf5-103-1t64_1.10.10+repack-3.1ubuntu2_arm64.deb ...
464s Unpacking libhdf5-103-1t64:arm64 (1.10.10+repack-3.1ubuntu2) ...
464s Selecting previously unselected package libhdf5-hl-100t64:arm64.
464s Preparing to unpack .../09-libhdf5-hl-100t64_1.10.10+repack-3.1ubuntu2_arm64.deb ...
464s Unpacking libhdf5-hl-100t64:arm64 (1.10.10+repack-3.1ubuntu2) ...
464s Selecting previously unselected package liblapack3:arm64.
464s Preparing to unpack .../10-liblapack3_3.12.0-3_arm64.deb ...
464s Unpacking liblapack3:arm64 (3.12.0-3) ...
464s Selecting previously unselected package liblbfgsb0:arm64.
464s Preparing to unpack .../11-liblbfgsb0_3.0+dfsg.4-1_arm64.deb ...
464s Unpacking liblbfgsb0:arm64 (3.0+dfsg.4-1) ...
464s Selecting previously unselected package liblzf1:arm64.
464s Preparing to unpack .../12-liblzf1_3.6-4_arm64.deb ...
464s Unpacking liblzf1:arm64 (3.6-4) ...
464s Selecting previously unselected package python3-lib2to3.
464s Preparing to unpack .../13-python3-lib2to3_3.11.5-1_all.deb ...
464s Unpacking python3-lib2to3 (3.11.5-1) ...
464s Selecting previously unselected package python3-distutils.
464s Preparing to unpack .../14-python3-distutils_3.11.5-1_all.deb ...
464s Unpacking python3-distutils (3.11.5-1) ...
464s Selecting previously unselected package python3-all.
464s Preparing to unpack .../15-python3-all_3.12.1-0ubuntu2_arm64.deb ...
464s Unpacking python3-all (3.12.1-0ubuntu2) ...
464s Selecting previously unselected package python3-dateutil.
464s Preparing to unpack .../16-python3-dateutil_2.8.2-3_all.deb ...
464s Unpacking python3-dateutil (2.8.2-3) ...
464s Selecting previously unselected package python3-decorator.
465s Preparing to unpack .../17-python3-decorator_5.1.1-5_all.deb ...
465s Unpacking python3-decorator (5.1.1-5) ...
465s Selecting previously unselected package python3-numpy.
465s Preparing to unpack .../18-python3-numpy_1%3a1.24.2-2_arm64.deb ...
465s Unpacking python3-numpy (1:1.24.2-2) ...
465s Selecting previously unselected package python3-h5py-serial.
465s Preparing to unpack .../19-python3-h5py-serial_3.10.0-1ubuntu2_arm64.deb ...
465s Unpacking python3-h5py-serial (3.10.0-1ubuntu2) ...
465s Selecting previously unselected package python3-h5py.
465s Preparing to unpack .../20-python3-h5py_3.10.0-1ubuntu2_all.deb ...
465s Unpacking python3-h5py (3.10.0-1ubuntu2) ...
465s Selecting previously unselected package python3-pandas-lib:arm64.
465s Preparing to unpack .../21-python3-pandas-lib_2.1.4+dfsg-4ubuntu2_arm64.deb ...
465s Unpacking python3-pandas-lib:arm64 (2.1.4+dfsg-4ubuntu2) ...
466s Selecting previously unselected package python3-pandas.
466s Preparing to unpack .../22-python3-pandas_2.1.4+dfsg-4ubuntu2_all.deb ...
466s Unpacking python3-pandas (2.1.4+dfsg-4ubuntu2) ...
466s Selecting previously unselected package python3-scipy.
466s Preparing to unpack .../23-python3-scipy_1.11.4-6_arm64.deb ...
466s Unpacking python3-scipy (1.11.4-6) ...
466s Selecting previously unselected package python3-mofapy.
466s Preparing to unpack .../24-python3-mofapy_1.6.1+dfsg-12_all.deb ...
466s Unpacking python3-mofapy (1.6.1+dfsg-12) ...
466s Selecting previously unselected package autopkgtest-satdep.
466s Preparing to unpack .../25-1-autopkgtest-satdep.deb ...
466s Unpacking autopkgtest-satdep (0) ...
466s Setting up libaec0:arm64 (1.1.2-1) ...
466s Setting up python3-decorator (5.1.1-5) ...
467s Setting up libblas3:arm64 (3.12.0-3) ...
467s 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
467s Setting up liblzf1:arm64 (3.6-4) ...
467s Setting up libgfortran5:arm64 (14-20240303-1ubuntu1) ...
467s Setting up python3-dateutil (2.8.2-3) ...
467s Setting up libpython3.11-minimal:arm64 (3.11.8-1) ...
467s Setting up python3-lib2to3 (3.11.5-1) ...
467s Setting up libsz2:arm64 (1.1.2-1) ...
467s Setting up python3-distutils (3.11.5-1) ...
467s python3.12: can't get files for byte-compilation
467s Setting up python3.11-minimal (3.11.8-1) ...
468s Setting up liblapack3:arm64 (3.12.0-3) ...
468s 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
468s Setting up libpython3.11-stdlib:arm64 (3.11.8-1) ...
468s Setting up python3-all (3.12.1-0ubuntu2) ...
468s Setting up libhdf5-103-1t64:arm64 (1.10.10+repack-3.1ubuntu2) ...
468s Setting up liblbfgsb0:arm64 (3.0+dfsg.4-1) ...
468s Setting up libhdf5-hl-100t64:arm64 (1.10.10+repack-3.1ubuntu2) ...
468s Setting up python3.11 (3.11.8-1) ...
469s Setting up python3-numpy (1:1.24.2-2) ...
470s Setting up python3-scipy (1.11.4-6) ...
473s Setting up python3-pandas-lib:arm64 (2.1.4+dfsg-4ubuntu2) ...
473s Setting up python3-h5py-serial (3.10.0-1ubuntu2) ...
473s Setting up python3-pandas (2.1.4+dfsg-4ubuntu2) ...
477s Setting up python3-h5py (3.10.0-1ubuntu2) ...
478s Setting up python3-mofapy (1.6.1+dfsg-12) ...
478s /usr/lib/python3/dist-packages/mofapy/core/entry_point.py:41: SyntaxWarning: invalid escape sequence '\/'
478s   banner = """
478s /usr/lib/python3/dist-packages/mofapy/core/nongaussian_nodes.py:144: SyntaxWarning: invalid escape sequence '\p'
478s   """
478s /usr/lib/python3/dist-packages/mofapy/core/utils.py:178: SyntaxWarning: invalid escape sequence '\m'
478s   """Diagonal of :math:`\mathrm A\mathrm B^\intercal`.
478s Setting up autopkgtest-satdep (0) ...
478s Processing triggers for systemd (255.2-3ubuntu2) ...
478s Processing triggers for man-db (2.12.0-3) ...
479s Processing triggers for libc-bin (2.39-0ubuntu2) ...
483s (Reading database ... 80145 files and directories currently installed.)
483s Removing autopkgtest-satdep (0) ...
484s autopkgtest [21:57:58]: test autodep8-python3: set -e ; for py in $(py3versions -r 2>/dev/null) ; do cd "$AUTOPKGTEST_TMP" ; echo "Testing with $py:" ; $py -c "import mofapy; print(mofapy)" ; done
484s autopkgtest [21:57:58]: test autodep8-python3: [-----------------------
484s Testing with python3.12:
484s <module 'mofapy' from '/usr/lib/python3/dist-packages/mofapy/__init__.py'>
484s autopkgtest [21:57:58]: test autodep8-python3: -----------------------]
485s autodep8-python3     PASS (superficial)
485s autopkgtest [21:57:59]: test autodep8-python3:  - - - - - - - - - - results - - - - - - - - - -
485s autopkgtest [21:57:59]: @@@@@@@@@@@@@@@@@@@@ summary
485s autodep8-python3     PASS (superficial)
497s Creating nova instance adt-noble-arm64-r-bioc-mofa-20240313-214954-juju-7f2275-prod-proposed-migration-environment-3 from image adt/ubuntu-noble-arm64-server-20240313.img (UUID 363cdc04-8630-403e-ac93-f1c7b1a75157)...