0s autopkgtest [22:24:10]: starting date and time: 2024-03-17 22:24:10+0000
  0s autopkgtest [22:24:10]: git checkout: b506e79c ssh-setup/nova: fix ARCH having two lines of data
  0s autopkgtest [22:24:10]: host juju-7f2275-prod-proposed-migration-environment-2; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work._n269m7z/out --timeout-copy=6000 --setup-commands /home/ubuntu/autopkgtest-cloud/worker-config-production/setup-canonical.sh --apt-pocket=proposed=src:ncbi-blast+,src:mbedtls --apt-upgrade resfinder --timeout-short=300 --timeout-copy=20000 --timeout-build=20000 '--env=ADT_TEST_TRIGGERS=ncbi-blast+/2.12.0+ds-4build1 mbedtls/2.28.7-1.1ubuntu1' -- ssh -s /home/ubuntu/autopkgtest/ssh-setup/nova -- --flavor autopkgtest --security-groups autopkgtest-juju-7f2275-prod-proposed-migration-environment-2@bos02-s390x-10.secgroup --name adt-noble-s390x-resfinder-20240317-222410-juju-7f2275-prod-proposed-migration-environment-2 --image adt/ubuntu-noble-s390x-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/
149s autopkgtest [22:26:39]: testbed dpkg architecture: s390x
149s autopkgtest [22:26:39]: testbed apt version: 2.7.12
149s autopkgtest [22:26:39]: @@@@@@@@@@@@@@@@@@@@ test bed setup
150s Get:1 http://ftpmaster.internal/ubuntu noble-proposed InRelease [117 kB]
150s Get:2 http://ftpmaster.internal/ubuntu noble-proposed/multiverse Sources [51.4 kB]
150s Get:3 http://ftpmaster.internal/ubuntu noble-proposed/restricted Sources [6540 B]
150s Get:4 http://ftpmaster.internal/ubuntu noble-proposed/main Sources [485 kB]
150s Get:5 http://ftpmaster.internal/ubuntu noble-proposed/universe Sources [3691 kB]
150s Get:6 http://ftpmaster.internal/ubuntu noble-proposed/main s390x Packages [639 kB]
150s Get:7 http://ftpmaster.internal/ubuntu noble-proposed/main s390x c-n-f Metadata [3032 B]
150s Get:8 http://ftpmaster.internal/ubuntu noble-proposed/restricted s390x Packages [1372 B]
150s Get:9 http://ftpmaster.internal/ubuntu noble-proposed/restricted s390x c-n-f Metadata [116 B]
150s Get:10 http://ftpmaster.internal/ubuntu noble-proposed/universe s390x Packages [3878 kB]
151s Get:11 http://ftpmaster.internal/ubuntu noble-proposed/universe s390x c-n-f Metadata [7292 B]
151s Get:12 http://ftpmaster.internal/ubuntu noble-proposed/multiverse s390x Packages [33.2 kB]
151s Get:13 http://ftpmaster.internal/ubuntu noble-proposed/multiverse s390x c-n-f Metadata [116 B]
152s Fetched 8913 kB in 2s (4001 kB/s)
153s Reading package lists...
155s Reading package lists...
155s Building dependency tree...
155s Reading state information...
156s Calculating upgrade...
156s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
156s Reading package lists...
156s Building dependency tree...
156s Reading state information...
156s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
156s Hit:1 http://ftpmaster.internal/ubuntu noble-proposed InRelease
156s Hit:2 http://ftpmaster.internal/ubuntu noble InRelease
156s Hit:3 http://ftpmaster.internal/ubuntu noble-updates InRelease
157s Hit:4 http://ftpmaster.internal/ubuntu noble-security InRelease
158s Reading package lists...
158s Reading package lists...
158s Building dependency tree...
158s Reading state information...
158s Calculating upgrade...
158s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
158s Reading package lists...
158s Building dependency tree...
158s Reading state information...
158s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
161s autopkgtest [22:26:51]: testbed running kernel: Linux 6.8.0-11-generic #11-Ubuntu SMP Tue Feb 13 23:45:46 UTC 2024
161s autopkgtest [22:26:51]: @@@@@@@@@@@@@@@@@@@@ apt-source resfinder
163s Get:1 http://ftpmaster.internal/ubuntu noble/universe resfinder 4.4.2-1 (dsc) [2539 B]
163s Get:2 http://ftpmaster.internal/ubuntu noble/universe resfinder 4.4.2-1 (tar) [89.1 kB]
163s Get:3 http://ftpmaster.internal/ubuntu noble/universe resfinder 4.4.2-1 (tar) [359 kB]
163s Get:4 http://ftpmaster.internal/ubuntu noble/universe resfinder 4.4.2-1 (diff) [8332 B]
163s gpgv: Signature made Tue Jan 16 07:05:55 2024 UTC
163s gpgv:                using RSA key F1F007320A035541F0A663CA578A0494D1C646D1
163s gpgv:                issuer "tille@debian.org"
163s gpgv: Can't check signature: No public key
163s dpkg-source: warning: cannot verify inline signature for ./resfinder_4.4.2-1.dsc: no acceptable signature found
163s autopkgtest [22:26:53]: testing package resfinder version 4.4.2-1
164s autopkgtest [22:26:54]: build not needed
165s autopkgtest [22:26:55]: test run-unit-test: preparing testbed
166s Reading package lists...
167s Building dependency tree...
167s Reading state information...
167s Starting pkgProblemResolver with broken count: 0
167s Starting 2 pkgProblemResolver with broken count: 0
167s Done
167s The following additional packages will be installed:
167s   fontconfig-config fonts-dejavu-core fonts-dejavu-extra fonts-dejavu-mono
167s   fonts-urw-base35 git git-man kma libblas3 libcairo2 libdeflate0
167s   liberror-perl libfontconfig1 libfontenc1 libfreetype6 libgfortran5 libgomp1
167s   libgraphite2-3 libharfbuzz0b libimagequant0 libjbig0 libjpeg-turbo8 libjpeg8
167s   liblapack3 liblcms2-2 libmbedcrypto7t64 libmbedtls14t64 libmbedx509-1t64
167s   libopenjp2-7 libpixman-1-0 libraqm0 libsharpyuv0 libtiff6 libwebp7
167s   libwebpdemux2 libwebpmux3 libxcb-render0 libxcb-shm0 libxrender1 ncbi-blast+
167s   ncbi-blast+-legacy ncbi-data python3-biopython python3-cairo python3-cgecore
167s   python3-cgelib python3-dateutil python3-freetype python3-git python3-gitdb
167s   python3-numpy python3-pandas python3-pandas-lib python3-pil
167s   python3-reportlab python3-rlpycairo python3-smmap python3-tabulate resfinder
167s   resfinder-db resfinder-example sgml-base w3c-sgml-lib x11-common
167s   xfonts-encodings xfonts-utils xml-core
167s Suggested packages:
167s   fonts-freefont-otf | fonts-freefont-ttf fonts-texgyre git-daemon-run
167s   | git-daemon-sysvinit git-doc git-email git-gui gitk gitweb git-cvs
167s   git-mediawiki git-svn liblcms2-utils python3-tk bwa clustalo clustalw
167s   dialign dssp emboss fasttree mafft muscle3 phylip phyml prank probcons
167s   python3-mysqldb python3-matplotlib python3-mmtf python3-rdflib
167s   python3-psycopg2 python3-scipy raxml samtools t-coffee wise python-git-doc
167s   gcc gfortran python3-dev python3-pytest python-pandas-doc
167s   python3-statsmodels python-pil-doc pdf-viewer python3-egenix-mxtexttools
167s   python-reportlab-doc rl-accel rl-renderpm sgml-base-doc debhelper
167s Recommended packages:
167s   python-biopython-doc python3-scipy python3-matplotlib python3-bottleneck
167s   python3-numexpr python3-odf python3-openpyxl python3-bs4 python3-html5lib
167s   python3-lxml python3-tables python3-olefile
167s The following NEW packages will be installed:
167s   autopkgtest-satdep fontconfig-config fonts-dejavu-core fonts-dejavu-extra
167s   fonts-dejavu-mono fonts-urw-base35 git git-man kma libblas3 libcairo2
167s   libdeflate0 liberror-perl libfontconfig1 libfontenc1 libfreetype6
167s   libgfortran5 libgomp1 libgraphite2-3 libharfbuzz0b libimagequant0 libjbig0
167s   libjpeg-turbo8 libjpeg8 liblapack3 liblcms2-2 libmbedcrypto7t64
167s   libmbedtls14t64 libmbedx509-1t64 libopenjp2-7 libpixman-1-0 libraqm0
167s   libsharpyuv0 libtiff6 libwebp7 libwebpdemux2 libwebpmux3 libxcb-render0
167s   libxcb-shm0 libxrender1 ncbi-blast+ ncbi-blast+-legacy ncbi-data
167s   python3-biopython python3-cairo python3-cgecore python3-cgelib
167s   python3-dateutil python3-freetype python3-git python3-gitdb python3-numpy
167s   python3-pandas python3-pandas-lib python3-pil python3-reportlab
167s   python3-rlpycairo python3-smmap python3-tabulate resfinder resfinder-db
167s   resfinder-example sgml-base w3c-sgml-lib x11-common xfonts-encodings
167s   xfonts-utils xml-core
167s 0 upgraded, 68 newly installed, 0 to remove and 0 not upgraded.
167s Need to get 78.2 MB/78.2 MB of archives.
167s After this operation, 364 MB of additional disk space will be used.
167s Get:1 /tmp/autopkgtest.sEtNOj/1-autopkgtest-satdep.deb autopkgtest-satdep s390x 0 [748 B]
167s Get:2 http://ftpmaster.internal/ubuntu noble/main s390x sgml-base all 1.31 [11.4 kB]
167s Get:3 http://ftpmaster.internal/ubuntu noble/main s390x fonts-dejavu-mono all 2.37-8 [502 kB]
167s Get:4 http://ftpmaster.internal/ubuntu noble/main s390x fonts-dejavu-core all 2.37-8 [835 kB]
168s Get:5 http://ftpmaster.internal/ubuntu noble/main s390x libfontenc1 s390x 1:1.1.8-1 [14.8 kB]
168s Get:6 http://ftpmaster.internal/ubuntu noble/main s390x libfreetype6 s390x 2.13.2+dfsg-1 [431 kB]
168s Get:7 http://ftpmaster.internal/ubuntu noble/main s390x x11-common all 1:7.7+23ubuntu2 [23.4 kB]
168s Get:8 http://ftpmaster.internal/ubuntu noble/main s390x xfonts-encodings all 1:1.0.5-0ubuntu2 [578 kB]
168s Get:9 http://ftpmaster.internal/ubuntu noble/main s390x xfonts-utils s390x 1:7.7+6build2 [94.8 kB]
168s Get:10 http://ftpmaster.internal/ubuntu noble/main s390x fonts-urw-base35 all 20200910-8 [11.0 MB]
168s Get:11 http://ftpmaster.internal/ubuntu noble/main s390x fontconfig-config s390x 2.15.0-1ubuntu1 [37.0 kB]
168s Get:12 http://ftpmaster.internal/ubuntu noble/main s390x fonts-dejavu-extra all 2.37-8 [1947 kB]
168s Get:13 http://ftpmaster.internal/ubuntu noble/main s390x liberror-perl all 0.17029-2 [25.6 kB]
168s Get:14 http://ftpmaster.internal/ubuntu noble/main s390x git-man all 1:2.43.0-1ubuntu1 [1100 kB]
168s Get:15 http://ftpmaster.internal/ubuntu noble/main s390x git s390x 1:2.43.0-1ubuntu1 [3837 kB]
168s Get:16 http://ftpmaster.internal/ubuntu noble/universe s390x kma s390x 1.4.14-2 [257 kB]
168s Get:17 http://ftpmaster.internal/ubuntu noble/main s390x libblas3 s390x 3.12.0-3 [245 kB]
168s Get:18 http://ftpmaster.internal/ubuntu noble/main s390x libfontconfig1 s390x 2.15.0-1ubuntu1 [150 kB]
168s Get:19 http://ftpmaster.internal/ubuntu noble/main s390x libpixman-1-0 s390x 0.42.2-1 [173 kB]
168s Get:20 http://ftpmaster.internal/ubuntu noble/main s390x libxcb-render0 s390x 1.15-1 [17.0 kB]
168s Get:21 http://ftpmaster.internal/ubuntu noble/main s390x libxcb-shm0 s390x 1.15-1 [5782 B]
168s Get:22 http://ftpmaster.internal/ubuntu noble/main s390x libxrender1 s390x 1:0.9.10-1.1 [19.4 kB]
168s Get:23 http://ftpmaster.internal/ubuntu noble/main s390x libcairo2 s390x 1.18.0-1 [578 kB]
168s Get:24 http://ftpmaster.internal/ubuntu noble/main s390x libdeflate0 s390x 1.19-1 [46.0 kB]
168s Get:25 http://ftpmaster.internal/ubuntu noble/main s390x libgfortran5 s390x 14-20240303-1ubuntu1 [598 kB]
168s Get:26 http://ftpmaster.internal/ubuntu noble/main s390x libgomp1 s390x 14-20240303-1ubuntu1 [151 kB]
168s Get:27 http://ftpmaster.internal/ubuntu noble/main s390x libgraphite2-3 s390x 1.3.14-2 [90.4 kB]
168s Get:28 http://ftpmaster.internal/ubuntu noble/main s390x libharfbuzz0b s390x 8.3.0-2 [515 kB]
168s Get:29 http://ftpmaster.internal/ubuntu noble/main s390x libimagequant0 s390x 2.18.0-1 [42.9 kB]
168s Get:30 http://ftpmaster.internal/ubuntu noble/main s390x libjpeg-turbo8 s390x 2.1.5-2ubuntu1 [128 kB]
168s Get:31 http://ftpmaster.internal/ubuntu noble/main s390x libjpeg8 s390x 8c-2ubuntu11 [2146 B]
168s Get:32 http://ftpmaster.internal/ubuntu noble/main s390x liblapack3 s390x 3.12.0-3 [2979 kB]
168s Get:33 http://ftpmaster.internal/ubuntu noble/main s390x liblcms2-2 s390x 2.14-2 [155 kB]
168s Get:34 http://ftpmaster.internal/ubuntu noble-proposed/universe s390x libmbedcrypto7t64 s390x 2.28.7-1.1ubuntu1 [216 kB]
168s Get:35 http://ftpmaster.internal/ubuntu noble-proposed/universe s390x libmbedx509-1t64 s390x 2.28.7-1.1ubuntu1 [46.2 kB]
168s Get:36 http://ftpmaster.internal/ubuntu noble-proposed/universe s390x libmbedtls14t64 s390x 2.28.7-1.1ubuntu1 [84.7 kB]
168s Get:37 http://ftpmaster.internal/ubuntu noble/main s390x libraqm0 s390x 0.10.1-1 [14.4 kB]
168s Get:38 http://ftpmaster.internal/ubuntu noble/main s390x libsharpyuv0 s390x 1.3.2-0.4 [14.8 kB]
168s Get:39 http://ftpmaster.internal/ubuntu noble/main s390x libjbig0 s390x 2.1-6.1ubuntu1 [29.8 kB]
168s Get:40 http://ftpmaster.internal/ubuntu noble/main s390x libwebp7 s390x 1.3.2-0.4 [207 kB]
168s Get:41 http://ftpmaster.internal/ubuntu noble/main s390x libtiff6 s390x 4.5.1+git230720-3ubuntu1 [253 kB]
169s Get:42 http://ftpmaster.internal/ubuntu noble/main s390x libwebpdemux2 s390x 1.3.2-0.4 [12.4 kB]
169s Get:43 http://ftpmaster.internal/ubuntu noble/main s390x libwebpmux3 s390x 1.3.2-0.4 [25.4 kB]
169s Get:44 http://ftpmaster.internal/ubuntu noble/universe s390x ncbi-data all 6.1.20170106+dfsg1-10 [4395 kB]
169s Get:45 http://ftpmaster.internal/ubuntu noble-proposed/universe s390x ncbi-blast+ s390x 2.12.0+ds-4build1 [12.8 MB]
169s Get:46 http://ftpmaster.internal/ubuntu noble-proposed/universe s390x ncbi-blast+-legacy all 2.12.0+ds-4build1 [4990 B]
169s Get:47 http://ftpmaster.internal/ubuntu noble/main s390x python3-numpy s390x 1:1.24.2-2 [5137 kB]
169s Get:48 http://ftpmaster.internal/ubuntu noble/main s390x libopenjp2-7 s390x 2.5.0-2 [169 kB]
169s Get:49 http://ftpmaster.internal/ubuntu noble/main s390x python3-pil s390x 10.2.0-1 [519 kB]
169s Get:50 http://ftpmaster.internal/ubuntu noble/main s390x python3-cairo s390x 1.25.1-2 [150 kB]
169s Get:51 http://ftpmaster.internal/ubuntu noble/universe s390x python3-freetype all 2.4.0-1 [83.1 kB]
169s Get:52 http://ftpmaster.internal/ubuntu noble/universe s390x python3-rlpycairo all 0.3.0-3 [9130 B]
169s Get:53 http://ftpmaster.internal/ubuntu noble/universe s390x python3-reportlab all 4.1.0-1 [683 kB]
169s Get:54 http://ftpmaster.internal/ubuntu noble/main s390x xml-core all 0.19 [20.3 kB]
169s Get:55 http://ftpmaster.internal/ubuntu noble/universe s390x w3c-sgml-lib all 1.3-3 [280 kB]
169s Get:56 http://ftpmaster.internal/ubuntu noble/universe s390x python3-biopython s390x 1.81+dfsg-3 [2234 kB]
169s Get:57 http://ftpmaster.internal/ubuntu noble/universe s390x python3-cgecore all 1.5.6+ds-1 [28.8 kB]
169s Get:58 http://ftpmaster.internal/ubuntu noble/main s390x python3-dateutil all 2.8.2-3 [79.2 kB]
169s Get:59 http://ftpmaster.internal/ubuntu noble/universe s390x python3-smmap all 6.0.0-1 [20.5 kB]
169s Get:60 http://ftpmaster.internal/ubuntu noble/universe s390x python3-gitdb all 4.0.11-1 [46.2 kB]
169s Get:61 http://ftpmaster.internal/ubuntu noble/universe s390x python3-git all 3.1.37-3 [138 kB]
169s Get:62 http://ftpmaster.internal/ubuntu noble/universe s390x python3-pandas-lib s390x 2.1.4+dfsg-4ubuntu2 [8852 kB]
169s Get:63 http://ftpmaster.internal/ubuntu noble/universe s390x python3-pandas all 2.1.4+dfsg-4ubuntu2 [3042 kB]
169s Get:64 http://ftpmaster.internal/ubuntu noble/universe s390x python3-cgelib all 0.7.3-3 [48.2 kB]
169s Get:65 http://ftpmaster.internal/ubuntu noble/main s390x python3-tabulate all 0.8.10-1 [38.2 kB]
169s Get:66 http://ftpmaster.internal/ubuntu noble/universe s390x resfinder-db all 0.0+git20220524.fa32d9a-1 [11.3 MB]
170s Get:67 http://ftpmaster.internal/ubuntu noble/universe s390x resfinder all 4.4.2-1 [66.5 kB]
170s Get:68 http://ftpmaster.internal/ubuntu noble/universe s390x resfinder-example all 4.4.2-1 [572 kB]
170s Fetched 78.2 MB in 3s (28.6 MB/s)
170s Selecting previously unselected package sgml-base.
170s (Reading database ... 
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(Reading database ... 60%
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(Reading database ... 75%
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(Reading database ... 85%
(Reading database ... 90%
(Reading database ... 95%
(Reading database ... 100%
(Reading database ... 52171 files and directories currently installed.)
170s Preparing to unpack .../00-sgml-base_1.31_all.deb ...
170s Unpacking sgml-base (1.31) ...
170s Selecting previously unselected package fonts-dejavu-mono.
170s Preparing to unpack .../01-fonts-dejavu-mono_2.37-8_all.deb ...
170s Unpacking fonts-dejavu-mono (2.37-8) ...
170s Selecting previously unselected package fonts-dejavu-core.
170s Preparing to unpack .../02-fonts-dejavu-core_2.37-8_all.deb ...
170s Unpacking fonts-dejavu-core (2.37-8) ...
170s Selecting previously unselected package libfontenc1:s390x.
170s Preparing to unpack .../03-libfontenc1_1%3a1.1.8-1_s390x.deb ...
170s Unpacking libfontenc1:s390x (1:1.1.8-1) ...
170s Selecting previously unselected package libfreetype6:s390x.
170s Preparing to unpack .../04-libfreetype6_2.13.2+dfsg-1_s390x.deb ...
170s Unpacking libfreetype6:s390x (2.13.2+dfsg-1) ...
170s Selecting previously unselected package x11-common.
170s Preparing to unpack .../05-x11-common_1%3a7.7+23ubuntu2_all.deb ...
170s Unpacking x11-common (1:7.7+23ubuntu2) ...
170s Selecting previously unselected package xfonts-encodings.
170s Preparing to unpack .../06-xfonts-encodings_1%3a1.0.5-0ubuntu2_all.deb ...
170s Unpacking xfonts-encodings (1:1.0.5-0ubuntu2) ...
170s Selecting previously unselected package xfonts-utils.
170s Preparing to unpack .../07-xfonts-utils_1%3a7.7+6build2_s390x.deb ...
170s Unpacking xfonts-utils (1:7.7+6build2) ...
170s Selecting previously unselected package fonts-urw-base35.
170s Preparing to unpack .../08-fonts-urw-base35_20200910-8_all.deb ...
170s Unpacking fonts-urw-base35 (20200910-8) ...
171s Selecting previously unselected package fontconfig-config.
171s Preparing to unpack .../09-fontconfig-config_2.15.0-1ubuntu1_s390x.deb ...
171s Unpacking fontconfig-config (2.15.0-1ubuntu1) ...
171s Selecting previously unselected package fonts-dejavu-extra.
171s Preparing to unpack .../10-fonts-dejavu-extra_2.37-8_all.deb ...
171s Unpacking fonts-dejavu-extra (2.37-8) ...
171s Selecting previously unselected package liberror-perl.
171s Preparing to unpack .../11-liberror-perl_0.17029-2_all.deb ...
171s Unpacking liberror-perl (0.17029-2) ...
171s Selecting previously unselected package git-man.
171s Preparing to unpack .../12-git-man_1%3a2.43.0-1ubuntu1_all.deb ...
171s Unpacking git-man (1:2.43.0-1ubuntu1) ...
171s Selecting previously unselected package git.
171s Preparing to unpack .../13-git_1%3a2.43.0-1ubuntu1_s390x.deb ...
171s Unpacking git (1:2.43.0-1ubuntu1) ...
171s Selecting previously unselected package kma.
171s Preparing to unpack .../14-kma_1.4.14-2_s390x.deb ...
171s Unpacking kma (1.4.14-2) ...
171s Selecting previously unselected package libblas3:s390x.
171s Preparing to unpack .../15-libblas3_3.12.0-3_s390x.deb ...
171s Unpacking libblas3:s390x (3.12.0-3) ...
171s Selecting previously unselected package libfontconfig1:s390x.
171s Preparing to unpack .../16-libfontconfig1_2.15.0-1ubuntu1_s390x.deb ...
171s Unpacking libfontconfig1:s390x (2.15.0-1ubuntu1) ...
171s Selecting previously unselected package libpixman-1-0:s390x.
171s Preparing to unpack .../17-libpixman-1-0_0.42.2-1_s390x.deb ...
171s Unpacking libpixman-1-0:s390x (0.42.2-1) ...
171s Selecting previously unselected package libxcb-render0:s390x.
171s Preparing to unpack .../18-libxcb-render0_1.15-1_s390x.deb ...
171s Unpacking libxcb-render0:s390x (1.15-1) ...
171s Selecting previously unselected package libxcb-shm0:s390x.
171s Preparing to unpack .../19-libxcb-shm0_1.15-1_s390x.deb ...
171s Unpacking libxcb-shm0:s390x (1.15-1) ...
171s Selecting previously unselected package libxrender1:s390x.
171s Preparing to unpack .../20-libxrender1_1%3a0.9.10-1.1_s390x.deb ...
171s Unpacking libxrender1:s390x (1:0.9.10-1.1) ...
171s Selecting previously unselected package libcairo2:s390x.
171s Preparing to unpack .../21-libcairo2_1.18.0-1_s390x.deb ...
171s Unpacking libcairo2:s390x (1.18.0-1) ...
171s Selecting previously unselected package libdeflate0:s390x.
171s Preparing to unpack .../22-libdeflate0_1.19-1_s390x.deb ...
171s Unpacking libdeflate0:s390x (1.19-1) ...
171s Selecting previously unselected package libgfortran5:s390x.
171s Preparing to unpack .../23-libgfortran5_14-20240303-1ubuntu1_s390x.deb ...
171s Unpacking libgfortran5:s390x (14-20240303-1ubuntu1) ...
171s Selecting previously unselected package libgomp1:s390x.
171s Preparing to unpack .../24-libgomp1_14-20240303-1ubuntu1_s390x.deb ...
171s Unpacking libgomp1:s390x (14-20240303-1ubuntu1) ...
171s Selecting previously unselected package libgraphite2-3:s390x.
171s Preparing to unpack .../25-libgraphite2-3_1.3.14-2_s390x.deb ...
171s Unpacking libgraphite2-3:s390x (1.3.14-2) ...
171s Selecting previously unselected package libharfbuzz0b:s390x.
171s Preparing to unpack .../26-libharfbuzz0b_8.3.0-2_s390x.deb ...
171s Unpacking libharfbuzz0b:s390x (8.3.0-2) ...
171s Selecting previously unselected package libimagequant0:s390x.
171s Preparing to unpack .../27-libimagequant0_2.18.0-1_s390x.deb ...
171s Unpacking libimagequant0:s390x (2.18.0-1) ...
171s Selecting previously unselected package libjpeg-turbo8:s390x.
171s Preparing to unpack .../28-libjpeg-turbo8_2.1.5-2ubuntu1_s390x.deb ...
171s Unpacking libjpeg-turbo8:s390x (2.1.5-2ubuntu1) ...
171s Selecting previously unselected package libjpeg8:s390x.
171s Preparing to unpack .../29-libjpeg8_8c-2ubuntu11_s390x.deb ...
171s Unpacking libjpeg8:s390x (8c-2ubuntu11) ...
171s Selecting previously unselected package liblapack3:s390x.
171s Preparing to unpack .../30-liblapack3_3.12.0-3_s390x.deb ...
171s Unpacking liblapack3:s390x (3.12.0-3) ...
171s Selecting previously unselected package liblcms2-2:s390x.
171s Preparing to unpack .../31-liblcms2-2_2.14-2_s390x.deb ...
171s Unpacking liblcms2-2:s390x (2.14-2) ...
171s Selecting previously unselected package libmbedcrypto7t64:s390x.
171s Preparing to unpack .../32-libmbedcrypto7t64_2.28.7-1.1ubuntu1_s390x.deb ...
171s Unpacking libmbedcrypto7t64:s390x (2.28.7-1.1ubuntu1) ...
171s Selecting previously unselected package libmbedx509-1t64:s390x.
171s Preparing to unpack .../33-libmbedx509-1t64_2.28.7-1.1ubuntu1_s390x.deb ...
171s Unpacking libmbedx509-1t64:s390x (2.28.7-1.1ubuntu1) ...
171s Selecting previously unselected package libmbedtls14t64:s390x.
171s Preparing to unpack .../34-libmbedtls14t64_2.28.7-1.1ubuntu1_s390x.deb ...
171s Unpacking libmbedtls14t64:s390x (2.28.7-1.1ubuntu1) ...
171s Selecting previously unselected package libraqm0:s390x.
171s Preparing to unpack .../35-libraqm0_0.10.1-1_s390x.deb ...
171s Unpacking libraqm0:s390x (0.10.1-1) ...
171s Selecting previously unselected package libsharpyuv0:s390x.
171s Preparing to unpack .../36-libsharpyuv0_1.3.2-0.4_s390x.deb ...
171s Unpacking libsharpyuv0:s390x (1.3.2-0.4) ...
171s Selecting previously unselected package libjbig0:s390x.
171s Preparing to unpack .../37-libjbig0_2.1-6.1ubuntu1_s390x.deb ...
171s Unpacking libjbig0:s390x (2.1-6.1ubuntu1) ...
171s Selecting previously unselected package libwebp7:s390x.
171s Preparing to unpack .../38-libwebp7_1.3.2-0.4_s390x.deb ...
171s Unpacking libwebp7:s390x (1.3.2-0.4) ...
171s Selecting previously unselected package libtiff6:s390x.
171s Preparing to unpack .../39-libtiff6_4.5.1+git230720-3ubuntu1_s390x.deb ...
171s Unpacking libtiff6:s390x (4.5.1+git230720-3ubuntu1) ...
171s Selecting previously unselected package libwebpdemux2:s390x.
171s Preparing to unpack .../40-libwebpdemux2_1.3.2-0.4_s390x.deb ...
171s Unpacking libwebpdemux2:s390x (1.3.2-0.4) ...
171s Selecting previously unselected package libwebpmux3:s390x.
171s Preparing to unpack .../41-libwebpmux3_1.3.2-0.4_s390x.deb ...
171s Unpacking libwebpmux3:s390x (1.3.2-0.4) ...
171s Selecting previously unselected package ncbi-data.
171s Preparing to unpack .../42-ncbi-data_6.1.20170106+dfsg1-10_all.deb ...
171s Unpacking ncbi-data (6.1.20170106+dfsg1-10) ...
172s Selecting previously unselected package ncbi-blast+.
172s Preparing to unpack .../43-ncbi-blast+_2.12.0+ds-4build1_s390x.deb ...
172s Unpacking ncbi-blast+ (2.12.0+ds-4build1) ...
172s Selecting previously unselected package ncbi-blast+-legacy.
172s Preparing to unpack .../44-ncbi-blast+-legacy_2.12.0+ds-4build1_all.deb ...
172s Unpacking ncbi-blast+-legacy (2.12.0+ds-4build1) ...
172s Selecting previously unselected package python3-numpy.
172s Preparing to unpack .../45-python3-numpy_1%3a1.24.2-2_s390x.deb ...
172s Unpacking python3-numpy (1:1.24.2-2) ...
172s Selecting previously unselected package libopenjp2-7:s390x.
172s Preparing to unpack .../46-libopenjp2-7_2.5.0-2_s390x.deb ...
172s Unpacking libopenjp2-7:s390x (2.5.0-2) ...
172s Selecting previously unselected package python3-pil:s390x.
172s Preparing to unpack .../47-python3-pil_10.2.0-1_s390x.deb ...
172s Unpacking python3-pil:s390x (10.2.0-1) ...
172s Selecting previously unselected package python3-cairo.
172s Preparing to unpack .../48-python3-cairo_1.25.1-2_s390x.deb ...
172s Unpacking python3-cairo (1.25.1-2) ...
172s Selecting previously unselected package python3-freetype.
172s Preparing to unpack .../49-python3-freetype_2.4.0-1_all.deb ...
172s Unpacking python3-freetype (2.4.0-1) ...
172s Selecting previously unselected package python3-rlpycairo.
172s Preparing to unpack .../50-python3-rlpycairo_0.3.0-3_all.deb ...
172s Unpacking python3-rlpycairo (0.3.0-3) ...
172s Selecting previously unselected package python3-reportlab.
172s Preparing to unpack .../51-python3-reportlab_4.1.0-1_all.deb ...
172s Unpacking python3-reportlab (4.1.0-1) ...
172s Selecting previously unselected package xml-core.
172s Preparing to unpack .../52-xml-core_0.19_all.deb ...
172s Unpacking xml-core (0.19) ...
172s Selecting previously unselected package w3c-sgml-lib.
172s Preparing to unpack .../53-w3c-sgml-lib_1.3-3_all.deb ...
172s Unpacking w3c-sgml-lib (1.3-3) ...
172s Selecting previously unselected package python3-biopython.
172s Preparing to unpack .../54-python3-biopython_1.81+dfsg-3_s390x.deb ...
172s Unpacking python3-biopython (1.81+dfsg-3) ...
173s Selecting previously unselected package python3-cgecore.
173s Preparing to unpack .../55-python3-cgecore_1.5.6+ds-1_all.deb ...
173s Unpacking python3-cgecore (1.5.6+ds-1) ...
173s Selecting previously unselected package python3-dateutil.
173s Preparing to unpack .../56-python3-dateutil_2.8.2-3_all.deb ...
173s Unpacking python3-dateutil (2.8.2-3) ...
173s Selecting previously unselected package python3-smmap.
173s Preparing to unpack .../57-python3-smmap_6.0.0-1_all.deb ...
173s Unpacking python3-smmap (6.0.0-1) ...
173s Selecting previously unselected package python3-gitdb.
173s Preparing to unpack .../58-python3-gitdb_4.0.11-1_all.deb ...
173s Unpacking python3-gitdb (4.0.11-1) ...
173s Selecting previously unselected package python3-git.
173s Preparing to unpack .../59-python3-git_3.1.37-3_all.deb ...
173s Unpacking python3-git (3.1.37-3) ...
173s Selecting previously unselected package python3-pandas-lib:s390x.
173s Preparing to unpack .../60-python3-pandas-lib_2.1.4+dfsg-4ubuntu2_s390x.deb ...
173s Unpacking python3-pandas-lib:s390x (2.1.4+dfsg-4ubuntu2) ...
173s Selecting previously unselected package python3-pandas.
173s Preparing to unpack .../61-python3-pandas_2.1.4+dfsg-4ubuntu2_all.deb ...
173s Unpacking python3-pandas (2.1.4+dfsg-4ubuntu2) ...
173s Selecting previously unselected package python3-cgelib.
173s Preparing to unpack .../62-python3-cgelib_0.7.3-3_all.deb ...
173s Unpacking python3-cgelib (0.7.3-3) ...
173s Selecting previously unselected package python3-tabulate.
173s Preparing to unpack .../63-python3-tabulate_0.8.10-1_all.deb ...
173s Unpacking python3-tabulate (0.8.10-1) ...
173s Selecting previously unselected package resfinder-db.
173s Preparing to unpack .../64-resfinder-db_0.0+git20220524.fa32d9a-1_all.deb ...
173s Unpacking resfinder-db (0.0+git20220524.fa32d9a-1) ...
174s Selecting previously unselected package resfinder.
174s Preparing to unpack .../65-resfinder_4.4.2-1_all.deb ...
174s Unpacking resfinder (4.4.2-1) ...
174s Selecting previously unselected package resfinder-example.
174s Preparing to unpack .../66-resfinder-example_4.4.2-1_all.deb ...
174s Unpacking resfinder-example (4.4.2-1) ...
174s Selecting previously unselected package autopkgtest-satdep.
174s Preparing to unpack .../67-1-autopkgtest-satdep.deb ...
174s Unpacking autopkgtest-satdep (0) ...
174s Setting up libgraphite2-3:s390x (1.3.14-2) ...
174s Setting up liblcms2-2:s390x (2.14-2) ...
174s Setting up ncbi-data (6.1.20170106+dfsg1-10) ...
174s Setting up libpixman-1-0:s390x (0.42.2-1) ...
174s Setting up libsharpyuv0:s390x (1.3.2-0.4) ...
174s Setting up libmbedcrypto7t64:s390x (2.28.7-1.1ubuntu1) ...
174s Setting up resfinder-db (0.0+git20220524.fa32d9a-1) ...
174s Setting up libxrender1:s390x (1:0.9.10-1.1) ...
174s Setting up libxcb-render0:s390x (1.15-1) ...
174s Setting up x11-common (1:7.7+23ubuntu2) ...
174s Setting up libdeflate0:s390x (1.19-1) ...
174s Setting up python3-tabulate (0.8.10-1) ...
174s Setting up libxcb-shm0:s390x (1.15-1) ...
174s Setting up libgomp1:s390x (14-20240303-1ubuntu1) ...
174s Setting up libjbig0:s390x (2.1-6.1ubuntu1) ...
174s Setting up liberror-perl (0.17029-2) ...
174s Setting up libfontenc1:s390x (1:1.1.8-1) ...
174s Setting up libblas3:s390x (3.12.0-3) ...
174s update-alternatives: using /usr/lib/s390x-linux-gnu/blas/libblas.so.3 to provide /usr/lib/s390x-linux-gnu/libblas.so.3 (libblas.so.3-s390x-linux-gnu) in auto mode
174s Setting up libfreetype6:s390x (2.13.2+dfsg-1) ...
174s Setting up xfonts-encodings (1:1.0.5-0ubuntu2) ...
174s Setting up libimagequant0:s390x (2.18.0-1) ...
174s Setting up fonts-dejavu-mono (2.37-8) ...
174s Setting up fonts-dejavu-core (2.37-8) ...
174s Setting up libjpeg-turbo8:s390x (2.1.5-2ubuntu1) ...
174s Setting up libgfortran5:s390x (14-20240303-1ubuntu1) ...
174s Setting up libwebp7:s390x (1.3.2-0.4) ...
174s Setting up fonts-dejavu-extra (2.37-8) ...
174s Setting up kma (1.4.14-2) ...
174s Setting up libopenjp2-7:s390x (2.5.0-2) ...
174s Setting up git-man (1:2.43.0-1ubuntu1) ...
174s Setting up libharfbuzz0b:s390x (8.3.0-2) ...
174s Setting up python3-dateutil (2.8.2-3) ...
174s Setting up sgml-base (1.31) ...
174s Setting up resfinder-example (4.4.2-1) ...
174s Setting up libwebpmux3:s390x (1.3.2-0.4) ...
174s Setting up python3-smmap (6.0.0-1) ...
175s Setting up libjpeg8:s390x (8c-2ubuntu11) ...
175s Setting up liblapack3:s390x (3.12.0-3) ...
175s update-alternatives: using /usr/lib/s390x-linux-gnu/lapack/liblapack.so.3 to provide /usr/lib/s390x-linux-gnu/liblapack.so.3 (liblapack.so.3-s390x-linux-gnu) in auto mode
175s Setting up libmbedx509-1t64:s390x (2.28.7-1.1ubuntu1) ...
175s Setting up fontconfig-config (2.15.0-1ubuntu1) ...
175s Setting up libwebpdemux2:s390x (1.3.2-0.4) ...
175s Setting up python3-gitdb (4.0.11-1) ...
175s Setting up python3-freetype (2.4.0-1) ...
175s Setting up xfonts-utils (1:7.7+6build2) ...
175s Setting up libraqm0:s390x (0.10.1-1) ...
175s Setting up git (1:2.43.0-1ubuntu1) ...
175s Setting up python3-numpy (1:1.24.2-2) ...
177s Setting up libmbedtls14t64:s390x (2.28.7-1.1ubuntu1) ...
177s Setting up libtiff6:s390x (4.5.1+git230720-3ubuntu1) ...
177s Setting up xml-core (0.19) ...
177s Setting up libfontconfig1:s390x (2.15.0-1ubuntu1) ...
177s Setting up python3-pandas-lib:s390x (2.1.4+dfsg-4ubuntu2) ...
177s Setting up fonts-urw-base35 (20200910-8) ...
177s Setting up libcairo2:s390x (1.18.0-1) ...
177s Setting up ncbi-blast+ (2.12.0+ds-4build1) ...
177s Setting up python3-pil:s390x (10.2.0-1) ...
178s Setting up python3-pandas (2.1.4+dfsg-4ubuntu2) ...
181s Setting up python3-git (3.1.37-3) ...
181s Setting up ncbi-blast+-legacy (2.12.0+ds-4build1) ...
181s Setting up python3-cairo (1.25.1-2) ...
182s Setting up python3-cgelib (0.7.3-3) ...
182s Setting up python3-rlpycairo (0.3.0-3) ...
182s Setting up python3-reportlab (4.1.0-1) ...
183s Processing triggers for libc-bin (2.39-0ubuntu2) ...
183s Processing triggers for man-db (2.12.0-3) ...
183s Processing triggers for sgml-base (1.31) ...
183s Setting up w3c-sgml-lib (1.3-3) ...
206s Setting up python3-biopython (1.81+dfsg-3) ...
207s Setting up python3-cgecore (1.5.6+ds-1) ...
207s /usr/lib/python3/dist-packages/cgecore/cgefinder.py:242: SyntaxWarning: invalid escape sequence '\w'
207s   start = re.search("^-*(\w+)", align_query).start(1)
207s /usr/lib/python3/dist-packages/cgecore/cgefinder.py:243: SyntaxWarning: invalid escape sequence '\w'
207s   end = re.search("\w+(-*)$", align_query).start(1)
207s /usr/lib/python3/dist-packages/cgecore/utility.py:137: SyntaxWarning: invalid escape sequence '\{'
207s   """
207s /usr/lib/python3/dist-packages/cgecore/utility.py:491: SyntaxWarning: invalid escape sequence '\w'
207s   src = re.sub('[^\w/\-\.\*]', '', src)
207s /usr/lib/python3/dist-packages/cgecore/utility.py:492: SyntaxWarning: invalid escape sequence '\w'
207s   dst = re.sub('[^\w/\-\.\*]', '', dst)
207s /usr/lib/python3/dist-packages/cgecore/utility.py:493: SyntaxWarning: invalid escape sequence '\W'
207s   if len(re.sub('[\W]', '', src)) < 5 or len(re.sub('[\W]', '', dst)) < 5:
207s /usr/lib/python3/dist-packages/cgecore/utility.py:493: SyntaxWarning: invalid escape sequence '\W'
207s   if len(re.sub('[\W]', '', src)) < 5 or len(re.sub('[\W]', '', dst)) < 5:
207s /usr/lib/python3/dist-packages/cgecore/utility.py:520: SyntaxWarning: invalid escape sequence '\w'
207s   invalid_chars = re.findall('[^\w/\-\.\*]', os.path.basename(file_))
207s /usr/lib/python3/dist-packages/cgecore/utility.py:539: SyntaxWarning: invalid escape sequence '\w'
207s   src = re.sub('[^\w/\-\.\*]', '', src)
207s /usr/lib/python3/dist-packages/cgecore/utility.py:540: SyntaxWarning: invalid escape sequence '\w'
207s   dst = re.sub('[^\w/\-\.\*]', '', dst)
207s /usr/lib/python3/dist-packages/cgecore/utility.py:541: SyntaxWarning: invalid escape sequence '\W'
207s   if len(re.sub('[\W]', '', src)) < 5 or len(re.sub('[\W]', '', dst)) < 5:
207s /usr/lib/python3/dist-packages/cgecore/utility.py:541: SyntaxWarning: invalid escape sequence '\W'
207s   if len(re.sub('[\W]', '', src)) < 5 or len(re.sub('[\W]', '', dst)) < 5:
207s Setting up resfinder (4.4.2-1) ...
207s Setting up autopkgtest-satdep (0) ...
211s (Reading database ... 59142 files and directories currently installed.)
211s Removing autopkgtest-satdep (0) ...
212s autopkgtest [22:27:42]: test run-unit-test: [-----------------------
212s Indexing files as needed
230s ['INSTALL.py']
231s ['INSTALL.py']
231s Running tests
235s ....
235s ----------------------------------------------------------------------
235s Ran 4 tests in 3.909s
235s 
235s OK
235s Cleanup
235s PASS
235s autopkgtest [22:28:05]: test run-unit-test: -----------------------]
236s autopkgtest [22:28:06]: test run-unit-test:  - - - - - - - - - - results - - - - - - - - - -
236s run-unit-test        PASS
236s autopkgtest [22:28:06]: test version-test: preparing testbed
333s autopkgtest [22:29:43]: testbed dpkg architecture: s390x
333s autopkgtest [22:29:43]: testbed apt version: 2.7.12
333s autopkgtest [22:29:43]: @@@@@@@@@@@@@@@@@@@@ test bed setup
334s Get:1 http://ftpmaster.internal/ubuntu noble-proposed InRelease [117 kB]
334s Get:2 http://ftpmaster.internal/ubuntu noble-proposed/multiverse Sources [51.4 kB]
334s Get:3 http://ftpmaster.internal/ubuntu noble-proposed/main Sources [485 kB]
335s Get:4 http://ftpmaster.internal/ubuntu noble-proposed/restricted Sources [6540 B]
335s Get:5 http://ftpmaster.internal/ubuntu noble-proposed/universe Sources [3691 kB]
335s Get:6 http://ftpmaster.internal/ubuntu noble-proposed/main s390x Packages [639 kB]
335s Get:7 http://ftpmaster.internal/ubuntu noble-proposed/main s390x c-n-f Metadata [3032 B]
335s Get:8 http://ftpmaster.internal/ubuntu noble-proposed/restricted s390x Packages [1372 B]
335s Get:9 http://ftpmaster.internal/ubuntu noble-proposed/restricted s390x c-n-f Metadata [116 B]
335s Get:10 http://ftpmaster.internal/ubuntu noble-proposed/universe s390x Packages [3878 kB]
335s Get:11 http://ftpmaster.internal/ubuntu noble-proposed/universe s390x c-n-f Metadata [7292 B]
335s Get:12 http://ftpmaster.internal/ubuntu noble-proposed/multiverse s390x Packages [33.2 kB]
335s Get:13 http://ftpmaster.internal/ubuntu noble-proposed/multiverse s390x c-n-f Metadata [116 B]
337s Fetched 8913 kB in 2s (3984 kB/s)
337s Reading package lists...
339s Reading package lists...
339s Building dependency tree...
339s Reading state information...
340s Calculating upgrade...
340s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
340s Reading package lists...
340s Building dependency tree...
340s Reading state information...
340s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
340s Hit:1 http://ftpmaster.internal/ubuntu noble-proposed InRelease
341s Hit:2 http://ftpmaster.internal/ubuntu noble InRelease
341s Hit:3 http://ftpmaster.internal/ubuntu noble-updates InRelease
341s Hit:4 http://ftpmaster.internal/ubuntu noble-security InRelease
342s Reading package lists...
342s Reading package lists...
342s Building dependency tree...
342s Reading state information...
342s Calculating upgrade...
342s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
342s Reading package lists...
342s Building dependency tree...
342s Reading state information...
343s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
346s Reading package lists...
346s Building dependency tree...
346s Reading state information...
347s Starting pkgProblemResolver with broken count: 0
347s Starting 2 pkgProblemResolver with broken count: 0
347s Done
347s The following additional packages will be installed:
347s   fontconfig-config fonts-dejavu-core fonts-dejavu-extra fonts-dejavu-mono
347s   fonts-urw-base35 git git-man kma libblas3 libcairo2 libdeflate0
347s   liberror-perl libfontconfig1 libfontenc1 libfreetype6 libgfortran5 libgomp1
347s   libgraphite2-3 libharfbuzz0b libimagequant0 libjbig0 libjpeg-turbo8 libjpeg8
347s   liblapack3 liblcms2-2 libmbedcrypto7t64 libmbedtls14t64 libmbedx509-1t64
347s   libopenjp2-7 libpixman-1-0 libraqm0 libsharpyuv0 libtiff6 libwebp7
347s   libwebpdemux2 libwebpmux3 libxcb-render0 libxcb-shm0 libxrender1 ncbi-blast+
347s   ncbi-blast+-legacy ncbi-data python3-biopython python3-cairo python3-cgecore
347s   python3-cgelib python3-dateutil python3-freetype python3-git python3-gitdb
347s   python3-numpy python3-pandas python3-pandas-lib python3-pil
347s   python3-reportlab python3-rlpycairo python3-smmap python3-tabulate resfinder
347s   resfinder-db resfinder-example sgml-base w3c-sgml-lib x11-common
347s   xfonts-encodings xfonts-utils xml-core
347s Suggested packages:
347s   fonts-freefont-otf | fonts-freefont-ttf fonts-texgyre git-daemon-run
347s   | git-daemon-sysvinit git-doc git-email git-gui gitk gitweb git-cvs
347s   git-mediawiki git-svn liblcms2-utils python3-tk bwa clustalo clustalw
347s   dialign dssp emboss fasttree mafft muscle3 phylip phyml prank probcons
347s   python3-mysqldb python3-matplotlib python3-mmtf python3-rdflib
347s   python3-psycopg2 python3-scipy raxml samtools t-coffee wise python-git-doc
347s   gcc gfortran python3-dev python3-pytest python-pandas-doc
347s   python3-statsmodels python-pil-doc pdf-viewer python3-egenix-mxtexttools
347s   python-reportlab-doc rl-accel rl-renderpm sgml-base-doc debhelper
347s Recommended packages:
347s   python-biopython-doc python3-scipy python3-matplotlib python3-bottleneck
347s   python3-numexpr python3-odf python3-openpyxl python3-bs4 python3-html5lib
347s   python3-lxml python3-tables python3-olefile
347s The following NEW packages will be installed:
347s   autopkgtest-satdep fontconfig-config fonts-dejavu-core fonts-dejavu-extra
347s   fonts-dejavu-mono fonts-urw-base35 git git-man kma libblas3 libcairo2
347s   libdeflate0 liberror-perl libfontconfig1 libfontenc1 libfreetype6
347s   libgfortran5 libgomp1 libgraphite2-3 libharfbuzz0b libimagequant0 libjbig0
347s   libjpeg-turbo8 libjpeg8 liblapack3 liblcms2-2 libmbedcrypto7t64
347s   libmbedtls14t64 libmbedx509-1t64 libopenjp2-7 libpixman-1-0 libraqm0
347s   libsharpyuv0 libtiff6 libwebp7 libwebpdemux2 libwebpmux3 libxcb-render0
347s   libxcb-shm0 libxrender1 ncbi-blast+ ncbi-blast+-legacy ncbi-data
347s   python3-biopython python3-cairo python3-cgecore python3-cgelib
347s   python3-dateutil python3-freetype python3-git python3-gitdb python3-numpy
347s   python3-pandas python3-pandas-lib python3-pil python3-reportlab
347s   python3-rlpycairo python3-smmap python3-tabulate resfinder resfinder-db
347s   resfinder-example sgml-base w3c-sgml-lib x11-common xfonts-encodings
347s   xfonts-utils xml-core
347s 0 upgraded, 68 newly installed, 0 to remove and 0 not upgraded.
347s Need to get 78.2 MB/78.2 MB of archives.
347s After this operation, 364 MB of additional disk space will be used.
347s Get:1 /tmp/autopkgtest.sEtNOj/2-autopkgtest-satdep.deb autopkgtest-satdep s390x 0 [720 B]
347s Get:2 http://ftpmaster.internal/ubuntu noble/main s390x sgml-base all 1.31 [11.4 kB]
347s Get:3 http://ftpmaster.internal/ubuntu noble/main s390x fonts-dejavu-mono all 2.37-8 [502 kB]
347s Get:4 http://ftpmaster.internal/ubuntu noble/main s390x fonts-dejavu-core all 2.37-8 [835 kB]
348s Get:5 http://ftpmaster.internal/ubuntu noble/main s390x libfontenc1 s390x 1:1.1.8-1 [14.8 kB]
348s Get:6 http://ftpmaster.internal/ubuntu noble/main s390x libfreetype6 s390x 2.13.2+dfsg-1 [431 kB]
348s Get:7 http://ftpmaster.internal/ubuntu noble/main s390x x11-common all 1:7.7+23ubuntu2 [23.4 kB]
348s Get:8 http://ftpmaster.internal/ubuntu noble/main s390x xfonts-encodings all 1:1.0.5-0ubuntu2 [578 kB]
348s Get:9 http://ftpmaster.internal/ubuntu noble/main s390x xfonts-utils s390x 1:7.7+6build2 [94.8 kB]
348s Get:10 http://ftpmaster.internal/ubuntu noble/main s390x fonts-urw-base35 all 20200910-8 [11.0 MB]
348s Get:11 http://ftpmaster.internal/ubuntu noble/main s390x fontconfig-config s390x 2.15.0-1ubuntu1 [37.0 kB]
348s Get:12 http://ftpmaster.internal/ubuntu noble/main s390x fonts-dejavu-extra all 2.37-8 [1947 kB]
348s Get:13 http://ftpmaster.internal/ubuntu noble/main s390x liberror-perl all 0.17029-2 [25.6 kB]
348s Get:14 http://ftpmaster.internal/ubuntu noble/main s390x git-man all 1:2.43.0-1ubuntu1 [1100 kB]
348s Get:15 http://ftpmaster.internal/ubuntu noble/main s390x git s390x 1:2.43.0-1ubuntu1 [3837 kB]
348s Get:16 http://ftpmaster.internal/ubuntu noble/universe s390x kma s390x 1.4.14-2 [257 kB]
348s Get:17 http://ftpmaster.internal/ubuntu noble/main s390x libblas3 s390x 3.12.0-3 [245 kB]
348s Get:18 http://ftpmaster.internal/ubuntu noble/main s390x libfontconfig1 s390x 2.15.0-1ubuntu1 [150 kB]
348s Get:19 http://ftpmaster.internal/ubuntu noble/main s390x libpixman-1-0 s390x 0.42.2-1 [173 kB]
348s Get:20 http://ftpmaster.internal/ubuntu noble/main s390x libxcb-render0 s390x 1.15-1 [17.0 kB]
348s Get:21 http://ftpmaster.internal/ubuntu noble/main s390x libxcb-shm0 s390x 1.15-1 [5782 B]
348s Get:22 http://ftpmaster.internal/ubuntu noble/main s390x libxrender1 s390x 1:0.9.10-1.1 [19.4 kB]
348s Get:23 http://ftpmaster.internal/ubuntu noble/main s390x libcairo2 s390x 1.18.0-1 [578 kB]
348s Get:24 http://ftpmaster.internal/ubuntu noble/main s390x libdeflate0 s390x 1.19-1 [46.0 kB]
348s Get:25 http://ftpmaster.internal/ubuntu noble/main s390x libgfortran5 s390x 14-20240303-1ubuntu1 [598 kB]
348s Get:26 http://ftpmaster.internal/ubuntu noble/main s390x libgomp1 s390x 14-20240303-1ubuntu1 [151 kB]
348s Get:27 http://ftpmaster.internal/ubuntu noble/main s390x libgraphite2-3 s390x 1.3.14-2 [90.4 kB]
348s Get:28 http://ftpmaster.internal/ubuntu noble/main s390x libharfbuzz0b s390x 8.3.0-2 [515 kB]
348s Get:29 http://ftpmaster.internal/ubuntu noble/main s390x libimagequant0 s390x 2.18.0-1 [42.9 kB]
348s Get:30 http://ftpmaster.internal/ubuntu noble/main s390x libjpeg-turbo8 s390x 2.1.5-2ubuntu1 [128 kB]
348s Get:31 http://ftpmaster.internal/ubuntu noble/main s390x libjpeg8 s390x 8c-2ubuntu11 [2146 B]
348s Get:32 http://ftpmaster.internal/ubuntu noble/main s390x liblapack3 s390x 3.12.0-3 [2979 kB]
349s Get:33 http://ftpmaster.internal/ubuntu noble/main s390x liblcms2-2 s390x 2.14-2 [155 kB]
349s Get:34 http://ftpmaster.internal/ubuntu noble-proposed/universe s390x libmbedcrypto7t64 s390x 2.28.7-1.1ubuntu1 [216 kB]
349s Get:35 http://ftpmaster.internal/ubuntu noble-proposed/universe s390x libmbedx509-1t64 s390x 2.28.7-1.1ubuntu1 [46.2 kB]
349s Get:36 http://ftpmaster.internal/ubuntu noble-proposed/universe s390x libmbedtls14t64 s390x 2.28.7-1.1ubuntu1 [84.7 kB]
349s Get:37 http://ftpmaster.internal/ubuntu noble/main s390x libraqm0 s390x 0.10.1-1 [14.4 kB]
349s Get:38 http://ftpmaster.internal/ubuntu noble/main s390x libsharpyuv0 s390x 1.3.2-0.4 [14.8 kB]
349s Get:39 http://ftpmaster.internal/ubuntu noble/main s390x libjbig0 s390x 2.1-6.1ubuntu1 [29.8 kB]
349s Get:40 http://ftpmaster.internal/ubuntu noble/main s390x libwebp7 s390x 1.3.2-0.4 [207 kB]
349s Get:41 http://ftpmaster.internal/ubuntu noble/main s390x libtiff6 s390x 4.5.1+git230720-3ubuntu1 [253 kB]
349s Get:42 http://ftpmaster.internal/ubuntu noble/main s390x libwebpdemux2 s390x 1.3.2-0.4 [12.4 kB]
349s Get:43 http://ftpmaster.internal/ubuntu noble/main s390x libwebpmux3 s390x 1.3.2-0.4 [25.4 kB]
349s Get:44 http://ftpmaster.internal/ubuntu noble/universe s390x ncbi-data all 6.1.20170106+dfsg1-10 [4395 kB]
349s Get:45 http://ftpmaster.internal/ubuntu noble-proposed/universe s390x ncbi-blast+ s390x 2.12.0+ds-4build1 [12.8 MB]
349s Get:46 http://ftpmaster.internal/ubuntu noble-proposed/universe s390x ncbi-blast+-legacy all 2.12.0+ds-4build1 [4990 B]
349s Get:47 http://ftpmaster.internal/ubuntu noble/main s390x python3-numpy s390x 1:1.24.2-2 [5137 kB]
350s Get:48 http://ftpmaster.internal/ubuntu noble/main s390x libopenjp2-7 s390x 2.5.0-2 [169 kB]
350s Get:49 http://ftpmaster.internal/ubuntu noble/main s390x python3-pil s390x 10.2.0-1 [519 kB]
350s Get:50 http://ftpmaster.internal/ubuntu noble/main s390x python3-cairo s390x 1.25.1-2 [150 kB]
350s Get:51 http://ftpmaster.internal/ubuntu noble/universe s390x python3-freetype all 2.4.0-1 [83.1 kB]
350s Get:52 http://ftpmaster.internal/ubuntu noble/universe s390x python3-rlpycairo all 0.3.0-3 [9130 B]
350s Get:53 http://ftpmaster.internal/ubuntu noble/universe s390x python3-reportlab all 4.1.0-1 [683 kB]
350s Get:54 http://ftpmaster.internal/ubuntu noble/main s390x xml-core all 0.19 [20.3 kB]
350s Get:55 http://ftpmaster.internal/ubuntu noble/universe s390x w3c-sgml-lib all 1.3-3 [280 kB]
350s Get:56 http://ftpmaster.internal/ubuntu noble/universe s390x python3-biopython s390x 1.81+dfsg-3 [2234 kB]
350s Get:57 http://ftpmaster.internal/ubuntu noble/universe s390x python3-cgecore all 1.5.6+ds-1 [28.8 kB]
350s Get:58 http://ftpmaster.internal/ubuntu noble/main s390x python3-dateutil all 2.8.2-3 [79.2 kB]
350s Get:59 http://ftpmaster.internal/ubuntu noble/universe s390x python3-smmap all 6.0.0-1 [20.5 kB]
350s Get:60 http://ftpmaster.internal/ubuntu noble/universe s390x python3-gitdb all 4.0.11-1 [46.2 kB]
350s Get:61 http://ftpmaster.internal/ubuntu noble/universe s390x python3-git all 3.1.37-3 [138 kB]
350s Get:62 http://ftpmaster.internal/ubuntu noble/universe s390x python3-pandas-lib s390x 2.1.4+dfsg-4ubuntu2 [8852 kB]
350s Get:63 http://ftpmaster.internal/ubuntu noble/universe s390x python3-pandas all 2.1.4+dfsg-4ubuntu2 [3042 kB]
350s Get:64 http://ftpmaster.internal/ubuntu noble/universe s390x python3-cgelib all 0.7.3-3 [48.2 kB]
350s Get:65 http://ftpmaster.internal/ubuntu noble/main s390x python3-tabulate all 0.8.10-1 [38.2 kB]
350s Get:66 http://ftpmaster.internal/ubuntu noble/universe s390x resfinder-db all 0.0+git20220524.fa32d9a-1 [11.3 MB]
351s Get:67 http://ftpmaster.internal/ubuntu noble/universe s390x resfinder all 4.4.2-1 [66.5 kB]
351s Get:68 http://ftpmaster.internal/ubuntu noble/universe s390x resfinder-example all 4.4.2-1 [572 kB]
351s Fetched 78.2 MB in 4s (21.2 MB/s)
351s Selecting previously unselected package sgml-base.
351s (Reading database ... 
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(Reading database ... 52171 files and directories currently installed.)
351s Preparing to unpack .../00-sgml-base_1.31_all.deb ...
351s Unpacking sgml-base (1.31) ...
351s Selecting previously unselected package fonts-dejavu-mono.
351s Preparing to unpack .../01-fonts-dejavu-mono_2.37-8_all.deb ...
351s Unpacking fonts-dejavu-mono (2.37-8) ...
351s Selecting previously unselected package fonts-dejavu-core.
351s Preparing to unpack .../02-fonts-dejavu-core_2.37-8_all.deb ...
351s Unpacking fonts-dejavu-core (2.37-8) ...
351s Selecting previously unselected package libfontenc1:s390x.
351s Preparing to unpack .../03-libfontenc1_1%3a1.1.8-1_s390x.deb ...
351s Unpacking libfontenc1:s390x (1:1.1.8-1) ...
351s Selecting previously unselected package libfreetype6:s390x.
351s Preparing to unpack .../04-libfreetype6_2.13.2+dfsg-1_s390x.deb ...
351s Unpacking libfreetype6:s390x (2.13.2+dfsg-1) ...
351s Selecting previously unselected package x11-common.
351s Preparing to unpack .../05-x11-common_1%3a7.7+23ubuntu2_all.deb ...
351s Unpacking x11-common (1:7.7+23ubuntu2) ...
351s Selecting previously unselected package xfonts-encodings.
351s Preparing to unpack .../06-xfonts-encodings_1%3a1.0.5-0ubuntu2_all.deb ...
351s Unpacking xfonts-encodings (1:1.0.5-0ubuntu2) ...
351s Selecting previously unselected package xfonts-utils.
351s Preparing to unpack .../07-xfonts-utils_1%3a7.7+6build2_s390x.deb ...
351s Unpacking xfonts-utils (1:7.7+6build2) ...
351s Selecting previously unselected package fonts-urw-base35.
351s Preparing to unpack .../08-fonts-urw-base35_20200910-8_all.deb ...
351s Unpacking fonts-urw-base35 (20200910-8) ...
351s Selecting previously unselected package fontconfig-config.
351s Preparing to unpack .../09-fontconfig-config_2.15.0-1ubuntu1_s390x.deb ...
352s Unpacking fontconfig-config (2.15.0-1ubuntu1) ...
352s Selecting previously unselected package fonts-dejavu-extra.
352s Preparing to unpack .../10-fonts-dejavu-extra_2.37-8_all.deb ...
352s Unpacking fonts-dejavu-extra (2.37-8) ...
352s Selecting previously unselected package liberror-perl.
352s Preparing to unpack .../11-liberror-perl_0.17029-2_all.deb ...
352s Unpacking liberror-perl (0.17029-2) ...
352s Selecting previously unselected package git-man.
352s Preparing to unpack .../12-git-man_1%3a2.43.0-1ubuntu1_all.deb ...
352s Unpacking git-man (1:2.43.0-1ubuntu1) ...
352s Selecting previously unselected package git.
352s Preparing to unpack .../13-git_1%3a2.43.0-1ubuntu1_s390x.deb ...
352s Unpacking git (1:2.43.0-1ubuntu1) ...
352s Selecting previously unselected package kma.
352s Preparing to unpack .../14-kma_1.4.14-2_s390x.deb ...
352s Unpacking kma (1.4.14-2) ...
352s Selecting previously unselected package libblas3:s390x.
352s Preparing to unpack .../15-libblas3_3.12.0-3_s390x.deb ...
352s Unpacking libblas3:s390x (3.12.0-3) ...
352s Selecting previously unselected package libfontconfig1:s390x.
352s Preparing to unpack .../16-libfontconfig1_2.15.0-1ubuntu1_s390x.deb ...
352s Unpacking libfontconfig1:s390x (2.15.0-1ubuntu1) ...
352s Selecting previously unselected package libpixman-1-0:s390x.
352s Preparing to unpack .../17-libpixman-1-0_0.42.2-1_s390x.deb ...
352s Unpacking libpixman-1-0:s390x (0.42.2-1) ...
352s Selecting previously unselected package libxcb-render0:s390x.
352s Preparing to unpack .../18-libxcb-render0_1.15-1_s390x.deb ...
352s Unpacking libxcb-render0:s390x (1.15-1) ...
352s Selecting previously unselected package libxcb-shm0:s390x.
352s Preparing to unpack .../19-libxcb-shm0_1.15-1_s390x.deb ...
352s Unpacking libxcb-shm0:s390x (1.15-1) ...
352s Selecting previously unselected package libxrender1:s390x.
352s Preparing to unpack .../20-libxrender1_1%3a0.9.10-1.1_s390x.deb ...
352s Unpacking libxrender1:s390x (1:0.9.10-1.1) ...
352s Selecting previously unselected package libcairo2:s390x.
352s Preparing to unpack .../21-libcairo2_1.18.0-1_s390x.deb ...
352s Unpacking libcairo2:s390x (1.18.0-1) ...
352s Selecting previously unselected package libdeflate0:s390x.
352s Preparing to unpack .../22-libdeflate0_1.19-1_s390x.deb ...
352s Unpacking libdeflate0:s390x (1.19-1) ...
352s Selecting previously unselected package libgfortran5:s390x.
352s Preparing to unpack .../23-libgfortran5_14-20240303-1ubuntu1_s390x.deb ...
352s Unpacking libgfortran5:s390x (14-20240303-1ubuntu1) ...
352s Selecting previously unselected package libgomp1:s390x.
352s Preparing to unpack .../24-libgomp1_14-20240303-1ubuntu1_s390x.deb ...
352s Unpacking libgomp1:s390x (14-20240303-1ubuntu1) ...
352s Selecting previously unselected package libgraphite2-3:s390x.
352s Preparing to unpack .../25-libgraphite2-3_1.3.14-2_s390x.deb ...
352s Unpacking libgraphite2-3:s390x (1.3.14-2) ...
352s Selecting previously unselected package libharfbuzz0b:s390x.
352s Preparing to unpack .../26-libharfbuzz0b_8.3.0-2_s390x.deb ...
352s Unpacking libharfbuzz0b:s390x (8.3.0-2) ...
352s Selecting previously unselected package libimagequant0:s390x.
352s Preparing to unpack .../27-libimagequant0_2.18.0-1_s390x.deb ...
352s Unpacking libimagequant0:s390x (2.18.0-1) ...
352s Selecting previously unselected package libjpeg-turbo8:s390x.
352s Preparing to unpack .../28-libjpeg-turbo8_2.1.5-2ubuntu1_s390x.deb ...
352s Unpacking libjpeg-turbo8:s390x (2.1.5-2ubuntu1) ...
352s Selecting previously unselected package libjpeg8:s390x.
352s Preparing to unpack .../29-libjpeg8_8c-2ubuntu11_s390x.deb ...
352s Unpacking libjpeg8:s390x (8c-2ubuntu11) ...
352s Selecting previously unselected package liblapack3:s390x.
352s Preparing to unpack .../30-liblapack3_3.12.0-3_s390x.deb ...
352s Unpacking liblapack3:s390x (3.12.0-3) ...
352s Selecting previously unselected package liblcms2-2:s390x.
352s Preparing to unpack .../31-liblcms2-2_2.14-2_s390x.deb ...
352s Unpacking liblcms2-2:s390x (2.14-2) ...
352s Selecting previously unselected package libmbedcrypto7t64:s390x.
352s Preparing to unpack .../32-libmbedcrypto7t64_2.28.7-1.1ubuntu1_s390x.deb ...
352s Unpacking libmbedcrypto7t64:s390x (2.28.7-1.1ubuntu1) ...
352s Selecting previously unselected package libmbedx509-1t64:s390x.
352s Preparing to unpack .../33-libmbedx509-1t64_2.28.7-1.1ubuntu1_s390x.deb ...
352s Unpacking libmbedx509-1t64:s390x (2.28.7-1.1ubuntu1) ...
352s Selecting previously unselected package libmbedtls14t64:s390x.
352s Preparing to unpack .../34-libmbedtls14t64_2.28.7-1.1ubuntu1_s390x.deb ...
352s Unpacking libmbedtls14t64:s390x (2.28.7-1.1ubuntu1) ...
352s Selecting previously unselected package libraqm0:s390x.
352s Preparing to unpack .../35-libraqm0_0.10.1-1_s390x.deb ...
352s Unpacking libraqm0:s390x (0.10.1-1) ...
352s Selecting previously unselected package libsharpyuv0:s390x.
352s Preparing to unpack .../36-libsharpyuv0_1.3.2-0.4_s390x.deb ...
352s Unpacking libsharpyuv0:s390x (1.3.2-0.4) ...
352s Selecting previously unselected package libjbig0:s390x.
352s Preparing to unpack .../37-libjbig0_2.1-6.1ubuntu1_s390x.deb ...
352s Unpacking libjbig0:s390x (2.1-6.1ubuntu1) ...
352s Selecting previously unselected package libwebp7:s390x.
352s Preparing to unpack .../38-libwebp7_1.3.2-0.4_s390x.deb ...
352s Unpacking libwebp7:s390x (1.3.2-0.4) ...
352s Selecting previously unselected package libtiff6:s390x.
352s Preparing to unpack .../39-libtiff6_4.5.1+git230720-3ubuntu1_s390x.deb ...
352s Unpacking libtiff6:s390x (4.5.1+git230720-3ubuntu1) ...
352s Selecting previously unselected package libwebpdemux2:s390x.
352s Preparing to unpack .../40-libwebpdemux2_1.3.2-0.4_s390x.deb ...
352s Unpacking libwebpdemux2:s390x (1.3.2-0.4) ...
352s Selecting previously unselected package libwebpmux3:s390x.
352s Preparing to unpack .../41-libwebpmux3_1.3.2-0.4_s390x.deb ...
352s Unpacking libwebpmux3:s390x (1.3.2-0.4) ...
352s Selecting previously unselected package ncbi-data.
352s Preparing to unpack .../42-ncbi-data_6.1.20170106+dfsg1-10_all.deb ...
352s Unpacking ncbi-data (6.1.20170106+dfsg1-10) ...
353s Selecting previously unselected package ncbi-blast+.
353s Preparing to unpack .../43-ncbi-blast+_2.12.0+ds-4build1_s390x.deb ...
353s Unpacking ncbi-blast+ (2.12.0+ds-4build1) ...
353s Selecting previously unselected package ncbi-blast+-legacy.
353s Preparing to unpack .../44-ncbi-blast+-legacy_2.12.0+ds-4build1_all.deb ...
353s Unpacking ncbi-blast+-legacy (2.12.0+ds-4build1) ...
353s Selecting previously unselected package python3-numpy.
353s Preparing to unpack .../45-python3-numpy_1%3a1.24.2-2_s390x.deb ...
353s Unpacking python3-numpy (1:1.24.2-2) ...
353s Selecting previously unselected package libopenjp2-7:s390x.
353s Preparing to unpack .../46-libopenjp2-7_2.5.0-2_s390x.deb ...
353s Unpacking libopenjp2-7:s390x (2.5.0-2) ...
353s Selecting previously unselected package python3-pil:s390x.
353s Preparing to unpack .../47-python3-pil_10.2.0-1_s390x.deb ...
353s Unpacking python3-pil:s390x (10.2.0-1) ...
353s Selecting previously unselected package python3-cairo.
353s Preparing to unpack .../48-python3-cairo_1.25.1-2_s390x.deb ...
353s Unpacking python3-cairo (1.25.1-2) ...
353s Selecting previously unselected package python3-freetype.
353s Preparing to unpack .../49-python3-freetype_2.4.0-1_all.deb ...
353s Unpacking python3-freetype (2.4.0-1) ...
353s Selecting previously unselected package python3-rlpycairo.
353s Preparing to unpack .../50-python3-rlpycairo_0.3.0-3_all.deb ...
353s Unpacking python3-rlpycairo (0.3.0-3) ...
353s Selecting previously unselected package python3-reportlab.
353s Preparing to unpack .../51-python3-reportlab_4.1.0-1_all.deb ...
353s Unpacking python3-reportlab (4.1.0-1) ...
353s Selecting previously unselected package xml-core.
353s Preparing to unpack .../52-xml-core_0.19_all.deb ...
353s Unpacking xml-core (0.19) ...
353s Selecting previously unselected package w3c-sgml-lib.
353s Preparing to unpack .../53-w3c-sgml-lib_1.3-3_all.deb ...
353s Unpacking w3c-sgml-lib (1.3-3) ...
354s Selecting previously unselected package python3-biopython.
354s Preparing to unpack .../54-python3-biopython_1.81+dfsg-3_s390x.deb ...
354s Unpacking python3-biopython (1.81+dfsg-3) ...
354s Selecting previously unselected package python3-cgecore.
354s Preparing to unpack .../55-python3-cgecore_1.5.6+ds-1_all.deb ...
354s Unpacking python3-cgecore (1.5.6+ds-1) ...
354s Selecting previously unselected package python3-dateutil.
354s Preparing to unpack .../56-python3-dateutil_2.8.2-3_all.deb ...
354s Unpacking python3-dateutil (2.8.2-3) ...
354s Selecting previously unselected package python3-smmap.
354s Preparing to unpack .../57-python3-smmap_6.0.0-1_all.deb ...
354s Unpacking python3-smmap (6.0.0-1) ...
354s Selecting previously unselected package python3-gitdb.
354s Preparing to unpack .../58-python3-gitdb_4.0.11-1_all.deb ...
354s Unpacking python3-gitdb (4.0.11-1) ...
354s Selecting previously unselected package python3-git.
354s Preparing to unpack .../59-python3-git_3.1.37-3_all.deb ...
354s Unpacking python3-git (3.1.37-3) ...
354s Selecting previously unselected package python3-pandas-lib:s390x.
354s Preparing to unpack .../60-python3-pandas-lib_2.1.4+dfsg-4ubuntu2_s390x.deb ...
354s Unpacking python3-pandas-lib:s390x (2.1.4+dfsg-4ubuntu2) ...
354s Selecting previously unselected package python3-pandas.
354s Preparing to unpack .../61-python3-pandas_2.1.4+dfsg-4ubuntu2_all.deb ...
354s Unpacking python3-pandas (2.1.4+dfsg-4ubuntu2) ...
354s Selecting previously unselected package python3-cgelib.
354s Preparing to unpack .../62-python3-cgelib_0.7.3-3_all.deb ...
354s Unpacking python3-cgelib (0.7.3-3) ...
354s Selecting previously unselected package python3-tabulate.
354s Preparing to unpack .../63-python3-tabulate_0.8.10-1_all.deb ...
354s Unpacking python3-tabulate (0.8.10-1) ...
354s Selecting previously unselected package resfinder-db.
354s Preparing to unpack .../64-resfinder-db_0.0+git20220524.fa32d9a-1_all.deb ...
354s Unpacking resfinder-db (0.0+git20220524.fa32d9a-1) ...
355s Selecting previously unselected package resfinder.
355s Preparing to unpack .../65-resfinder_4.4.2-1_all.deb ...
355s Unpacking resfinder (4.4.2-1) ...
355s Selecting previously unselected package resfinder-example.
355s Preparing to unpack .../66-resfinder-example_4.4.2-1_all.deb ...
355s Unpacking resfinder-example (4.4.2-1) ...
355s Selecting previously unselected package autopkgtest-satdep.
355s Preparing to unpack .../67-2-autopkgtest-satdep.deb ...
355s Unpacking autopkgtest-satdep (0) ...
355s Setting up libgraphite2-3:s390x (1.3.14-2) ...
355s Setting up liblcms2-2:s390x (2.14-2) ...
355s Setting up ncbi-data (6.1.20170106+dfsg1-10) ...
355s Setting up libpixman-1-0:s390x (0.42.2-1) ...
355s Setting up libsharpyuv0:s390x (1.3.2-0.4) ...
355s Setting up libmbedcrypto7t64:s390x (2.28.7-1.1ubuntu1) ...
355s Setting up resfinder-db (0.0+git20220524.fa32d9a-1) ...
355s Setting up libxrender1:s390x (1:0.9.10-1.1) ...
355s Setting up libxcb-render0:s390x (1.15-1) ...
355s Setting up x11-common (1:7.7+23ubuntu2) ...
355s Setting up libdeflate0:s390x (1.19-1) ...
355s Setting up python3-tabulate (0.8.10-1) ...
355s Setting up libxcb-shm0:s390x (1.15-1) ...
355s Setting up libgomp1:s390x (14-20240303-1ubuntu1) ...
355s Setting up libjbig0:s390x (2.1-6.1ubuntu1) ...
355s Setting up liberror-perl (0.17029-2) ...
355s Setting up libfontenc1:s390x (1:1.1.8-1) ...
355s Setting up libblas3:s390x (3.12.0-3) ...
355s update-alternatives: using /usr/lib/s390x-linux-gnu/blas/libblas.so.3 to provide /usr/lib/s390x-linux-gnu/libblas.so.3 (libblas.so.3-s390x-linux-gnu) in auto mode
355s Setting up libfreetype6:s390x (2.13.2+dfsg-1) ...
355s Setting up xfonts-encodings (1:1.0.5-0ubuntu2) ...
355s Setting up libimagequant0:s390x (2.18.0-1) ...
355s Setting up fonts-dejavu-mono (2.37-8) ...
355s Setting up fonts-dejavu-core (2.37-8) ...
355s Setting up libjpeg-turbo8:s390x (2.1.5-2ubuntu1) ...
355s Setting up libgfortran5:s390x (14-20240303-1ubuntu1) ...
355s Setting up libwebp7:s390x (1.3.2-0.4) ...
355s Setting up fonts-dejavu-extra (2.37-8) ...
355s Setting up kma (1.4.14-2) ...
355s Setting up libopenjp2-7:s390x (2.5.0-2) ...
355s Setting up git-man (1:2.43.0-1ubuntu1) ...
355s Setting up libharfbuzz0b:s390x (8.3.0-2) ...
355s Setting up python3-dateutil (2.8.2-3) ...
355s Setting up sgml-base (1.31) ...
356s Setting up resfinder-example (4.4.2-1) ...
356s Setting up libwebpmux3:s390x (1.3.2-0.4) ...
356s Setting up python3-smmap (6.0.0-1) ...
356s Setting up libjpeg8:s390x (8c-2ubuntu11) ...
356s Setting up liblapack3:s390x (3.12.0-3) ...
356s update-alternatives: using /usr/lib/s390x-linux-gnu/lapack/liblapack.so.3 to provide /usr/lib/s390x-linux-gnu/liblapack.so.3 (liblapack.so.3-s390x-linux-gnu) in auto mode
356s Setting up libmbedx509-1t64:s390x (2.28.7-1.1ubuntu1) ...
356s Setting up fontconfig-config (2.15.0-1ubuntu1) ...
356s Setting up libwebpdemux2:s390x (1.3.2-0.4) ...
356s Setting up python3-gitdb (4.0.11-1) ...
356s Setting up python3-freetype (2.4.0-1) ...
356s Setting up xfonts-utils (1:7.7+6build2) ...
356s Setting up libraqm0:s390x (0.10.1-1) ...
356s Setting up git (1:2.43.0-1ubuntu1) ...
356s Setting up python3-numpy (1:1.24.2-2) ...
358s Setting up libmbedtls14t64:s390x (2.28.7-1.1ubuntu1) ...
358s Setting up libtiff6:s390x (4.5.1+git230720-3ubuntu1) ...
358s Setting up xml-core (0.19) ...
358s Setting up libfontconfig1:s390x (2.15.0-1ubuntu1) ...
358s Setting up python3-pandas-lib:s390x (2.1.4+dfsg-4ubuntu2) ...
358s Setting up fonts-urw-base35 (20200910-8) ...
358s Setting up libcairo2:s390x (1.18.0-1) ...
358s Setting up ncbi-blast+ (2.12.0+ds-4build1) ...
358s Setting up python3-pil:s390x (10.2.0-1) ...
358s Setting up python3-pandas (2.1.4+dfsg-4ubuntu2) ...
362s Setting up python3-git (3.1.37-3) ...
362s Setting up ncbi-blast+-legacy (2.12.0+ds-4build1) ...
362s Setting up python3-cairo (1.25.1-2) ...
362s Setting up python3-cgelib (0.7.3-3) ...
362s Setting up python3-rlpycairo (0.3.0-3) ...
363s Setting up python3-reportlab (4.1.0-1) ...
363s Processing triggers for libc-bin (2.39-0ubuntu2) ...
363s Processing triggers for man-db (2.12.0-3) ...
364s Processing triggers for sgml-base (1.31) ...
364s Setting up w3c-sgml-lib (1.3-3) ...
387s Setting up python3-biopython (1.81+dfsg-3) ...
388s Setting up python3-cgecore (1.5.6+ds-1) ...
388s /usr/lib/python3/dist-packages/cgecore/cgefinder.py:242: SyntaxWarning: invalid escape sequence '\w'
388s   start = re.search("^-*(\w+)", align_query).start(1)
388s /usr/lib/python3/dist-packages/cgecore/cgefinder.py:243: SyntaxWarning: invalid escape sequence '\w'
388s   end = re.search("\w+(-*)$", align_query).start(1)
388s /usr/lib/python3/dist-packages/cgecore/utility.py:137: SyntaxWarning: invalid escape sequence '\{'
388s   """
388s /usr/lib/python3/dist-packages/cgecore/utility.py:491: SyntaxWarning: invalid escape sequence '\w'
388s   src = re.sub('[^\w/\-\.\*]', '', src)
388s /usr/lib/python3/dist-packages/cgecore/utility.py:492: SyntaxWarning: invalid escape sequence '\w'
388s   dst = re.sub('[^\w/\-\.\*]', '', dst)
388s /usr/lib/python3/dist-packages/cgecore/utility.py:493: SyntaxWarning: invalid escape sequence '\W'
388s   if len(re.sub('[\W]', '', src)) < 5 or len(re.sub('[\W]', '', dst)) < 5:
388s /usr/lib/python3/dist-packages/cgecore/utility.py:493: SyntaxWarning: invalid escape sequence '\W'
388s   if len(re.sub('[\W]', '', src)) < 5 or len(re.sub('[\W]', '', dst)) < 5:
388s /usr/lib/python3/dist-packages/cgecore/utility.py:520: SyntaxWarning: invalid escape sequence '\w'
388s   invalid_chars = re.findall('[^\w/\-\.\*]', os.path.basename(file_))
388s /usr/lib/python3/dist-packages/cgecore/utility.py:539: SyntaxWarning: invalid escape sequence '\w'
388s   src = re.sub('[^\w/\-\.\*]', '', src)
388s /usr/lib/python3/dist-packages/cgecore/utility.py:540: SyntaxWarning: invalid escape sequence '\w'
388s   dst = re.sub('[^\w/\-\.\*]', '', dst)
388s /usr/lib/python3/dist-packages/cgecore/utility.py:541: SyntaxWarning: invalid escape sequence '\W'
388s   if len(re.sub('[\W]', '', src)) < 5 or len(re.sub('[\W]', '', dst)) < 5:
388s /usr/lib/python3/dist-packages/cgecore/utility.py:541: SyntaxWarning: invalid escape sequence '\W'
388s   if len(re.sub('[\W]', '', src)) < 5 or len(re.sub('[\W]', '', dst)) < 5:
388s Setting up resfinder (4.4.2-1) ...
388s Setting up autopkgtest-satdep (0) ...
392s (Reading database ... 59142 files and directories currently installed.)
392s Removing autopkgtest-satdep (0) ...
393s autopkgtest [22:30:43]: test version-test: [-----------------------
394s PASS
394s autopkgtest [22:30:44]: test version-test: -----------------------]
395s autopkgtest [22:30:45]: test version-test:  - - - - - - - - - - results - - - - - - - - - -
395s version-test         PASS (superficial)
395s autopkgtest [22:30:45]: @@@@@@@@@@@@@@@@@@@@ summary
395s run-unit-test        PASS
395s version-test         PASS (superficial)
405s Creating nova instance adt-noble-s390x-resfinder-20240317-222410-juju-7f2275-prod-proposed-migration-environment-2 from image adt/ubuntu-noble-s390x-server-20240316.img (UUID 7afe023c-7cb8-41b6-91a7-c69e7d1e7c0d)...
405s Creating nova instance adt-noble-s390x-resfinder-20240317-222410-juju-7f2275-prod-proposed-migration-environment-2 from image adt/ubuntu-noble-s390x-server-20240316.img (UUID 7afe023c-7cb8-41b6-91a7-c69e7d1e7c0d)...