0s autopkgtest [22:20:50]: starting date and time: 2024-03-17 22:20:50+0000 0s autopkgtest [22:20:50]: git checkout: b506e79c ssh-setup/nova: fix ARCH having two lines of data 0s autopkgtest [22:20:50]: host juju-7f2275-prod-proposed-migration-environment-2; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work.qbtt22co/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 presto --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-15.secgroup --name adt-noble-s390x-presto-20240317-222050-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/ 80s autopkgtest [22:22:10]: testbed dpkg architecture: s390x 80s autopkgtest [22:22:10]: testbed apt version: 2.7.12 80s autopkgtest [22:22:10]: @@@@@@@@@@@@@@@@@@@@ test bed setup 81s Get:1 http://ftpmaster.internal/ubuntu noble-proposed InRelease [117 kB] 81s Get:2 http://ftpmaster.internal/ubuntu noble-proposed/main Sources [485 kB] 81s Get:3 http://ftpmaster.internal/ubuntu noble-proposed/universe Sources [3691 kB] 81s Get:4 http://ftpmaster.internal/ubuntu noble-proposed/restricted Sources [6540 B] 81s Get:5 http://ftpmaster.internal/ubuntu noble-proposed/multiverse Sources [51.4 kB] 81s Get:6 http://ftpmaster.internal/ubuntu noble-proposed/main s390x Packages [639 kB] 81s Get:7 http://ftpmaster.internal/ubuntu noble-proposed/main s390x c-n-f Metadata [3032 B] 81s Get:8 http://ftpmaster.internal/ubuntu noble-proposed/restricted s390x Packages [1372 B] 81s Get:9 http://ftpmaster.internal/ubuntu noble-proposed/restricted s390x c-n-f Metadata [116 B] 81s Get:10 http://ftpmaster.internal/ubuntu noble-proposed/universe s390x Packages [3878 kB] 82s Get:11 http://ftpmaster.internal/ubuntu noble-proposed/universe s390x c-n-f Metadata [7292 B] 82s Get:12 http://ftpmaster.internal/ubuntu noble-proposed/multiverse s390x Packages [33.2 kB] 82s Get:13 http://ftpmaster.internal/ubuntu noble-proposed/multiverse s390x c-n-f Metadata [116 B] 83s Fetched 8913 kB in 2s (4013 kB/s) 84s Reading package lists... 86s Reading package lists... 86s Building dependency tree... 86s Reading state information... 86s Calculating upgrade... 86s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 86s Reading package lists... 87s Building dependency tree... 87s Reading state information... 87s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 87s Hit:1 http://ftpmaster.internal/ubuntu noble-proposed InRelease 87s Hit:2 http://ftpmaster.internal/ubuntu noble InRelease 87s Hit:3 http://ftpmaster.internal/ubuntu noble-updates InRelease 87s Hit:4 http://ftpmaster.internal/ubuntu noble-security InRelease 88s Reading package lists... 89s Reading package lists... 89s Building dependency tree... 89s Reading state information... 89s Calculating upgrade... 89s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 89s Reading package lists... 89s Building dependency tree... 89s Reading state information... 89s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 92s autopkgtest [22:22:22]: testbed running kernel: Linux 6.8.0-11-generic #11-Ubuntu SMP Tue Feb 13 23:45:46 UTC 2024 92s autopkgtest [22:22:22]: @@@@@@@@@@@@@@@@@@@@ apt-source presto 94s Get:1 http://ftpmaster.internal/ubuntu noble/universe presto 0.7.2-1 (dsc) [2233 B] 94s Get:2 http://ftpmaster.internal/ubuntu noble/universe presto 0.7.2-1 (tar) [362 kB] 94s Get:3 http://ftpmaster.internal/ubuntu noble/universe presto 0.7.2-1 (diff) [20.8 kB] 94s gpgv: Signature made Mon Feb 19 12:51:18 2024 UTC 94s gpgv: using RSA key 4A31DB5A1EE4096C87399880903649294C33F9B7 94s gpgv: Can't check signature: No public key 94s dpkg-source: warning: cannot verify inline signature for ./presto_0.7.2-1.dsc: no acceptable signature found 94s autopkgtest [22:22:24]: testing package presto version 0.7.2-1 95s autopkgtest [22:22:25]: build not needed 95s autopkgtest [22:22:25]: test pybuild-autopkgtest: preparing testbed 96s Reading package lists... 97s Building dependency tree... 97s Reading state information... 97s Starting pkgProblemResolver with broken count: 0 97s Starting 2 pkgProblemResolver with broken count: 0 97s Done 97s The following additional packages will be installed: 97s autoconf automake autopoint autotools-dev build-essential cd-hit cpp cpp-13 97s cpp-13-s390x-linux-gnu cpp-s390x-linux-gnu debhelper debugedit dh-autoreconf 97s dh-python dh-strip-nondeterminism dwz fontconfig-config fonts-dejavu-core 97s fonts-dejavu-extra fonts-dejavu-mono fonts-urw-base35 g++ g++-13 97s g++-13-s390x-linux-gnu g++-s390x-linux-gnu gcc gcc-13 gcc-13-s390x-linux-gnu 97s gcc-s390x-linux-gnu gettext intltool-debian libarchive-zip-perl libasan8 97s libatomic1 libblas3 libc-dev-bin libc6-dev libcairo2 libcc1-0 libcrypt-dev 97s libdebhelper-perl libdeflate0 libdw1 libfile-stripnondeterminism-perl 97s libfontconfig1 libfontenc1 libfreetype6 libgcc-13-dev libgfortran5 libgomp1 97s libgraphite2-3 libharfbuzz0b libimagequant0 libisl23 libitm1 libjbig0 97s libjpeg-turbo8 libjpeg8 liblapack3 liblbfgsb0 liblcms2-2 libmbedcrypto7t64 97s libmbedtls14t64 libmbedx509-1t64 libmpc3 libnsl-dev libopenjp2-7 97s libpixman-1-0 libraqm0 libsharpyuv0 libstdc++-13-dev libsub-override-perl 97s libtiff6 libtirpc-dev libtool libubsan1 libwebp7 libwebpdemux2 libwebpmux3 97s libxcb-render0 libxcb-shm0 libxrender1 linux-libc-dev m4 ncbi-blast+ 97s ncbi-data po-debconf presto pybuild-plugin-autopkgtest python3-all 97s python3-biopython python3-cairo python3-dateutil python3-decorator 97s python3-freetype python3-numpy python3-packaging python3-pandas 97s python3-pandas-lib python3-pil python3-presto python3-reportlab 97s python3-rlpycairo python3-scipy rpcsvc-proto sgml-base w3c-sgml-lib 97s x11-common xfonts-encodings xfonts-utils xml-core 97s Suggested packages: 97s autoconf-archive gnu-standards autoconf-doc cpp-doc gcc-13-locales 97s cpp-13-doc dh-make flit python3-build python3-installer python3-wheel 97s fonts-freefont-otf | fonts-freefont-ttf fonts-texgyre g++-multilib 97s g++-13-multilib gcc-13-doc gcc-multilib manpages-dev flex bison gdb gcc-doc 97s gcc-13-multilib gdb-s390x-linux-gnu gettext-doc libasprintf-dev 97s libgettextpo-dev glibc-doc liblcms2-utils libstdc++-13-doc libtool-doc 97s gfortran | fortran95-compiler gcj-jdk m4-doc libmail-box-perl python3-tk bwa 97s clustalo clustalw dialign dssp emboss fasttree mafft muscle3 phylip phyml 97s prank probcons python3-mysqldb python3-matplotlib python3-mmtf 97s python3-rdflib python3-psycopg2 raxml samtools t-coffee wise gfortran 97s python3-dev python3-pytest python-pandas-doc python3-statsmodels 97s python-pil-doc pdf-viewer python3-egenix-mxtexttools python-reportlab-doc 97s rl-accel rl-renderpm python-scipy-doc sgml-base-doc 97s Recommended packages: 97s manpages manpages-dev libc-devtools libarchive-cpio-perl libltdl-dev 97s libmail-sendmail-perl python-biopython-doc python3-matplotlib 97s python3-bottleneck python3-numexpr python3-odf python3-openpyxl python3-bs4 97s python3-html5lib python3-lxml python3-tables python3-olefile 97s The following NEW packages will be installed: 97s autoconf automake autopkgtest-satdep autopoint autotools-dev build-essential 97s cd-hit cpp cpp-13 cpp-13-s390x-linux-gnu cpp-s390x-linux-gnu debhelper 97s debugedit dh-autoreconf dh-python dh-strip-nondeterminism dwz 97s fontconfig-config fonts-dejavu-core fonts-dejavu-extra fonts-dejavu-mono 97s fonts-urw-base35 g++ g++-13 g++-13-s390x-linux-gnu g++-s390x-linux-gnu gcc 97s gcc-13 gcc-13-s390x-linux-gnu gcc-s390x-linux-gnu gettext intltool-debian 97s libarchive-zip-perl libasan8 libatomic1 libblas3 libc-dev-bin libc6-dev 97s libcairo2 libcc1-0 libcrypt-dev libdebhelper-perl libdeflate0 libdw1 97s libfile-stripnondeterminism-perl libfontconfig1 libfontenc1 libfreetype6 97s libgcc-13-dev libgfortran5 libgomp1 libgraphite2-3 libharfbuzz0b 97s libimagequant0 libisl23 libitm1 libjbig0 libjpeg-turbo8 libjpeg8 liblapack3 97s liblbfgsb0 liblcms2-2 libmbedcrypto7t64 libmbedtls14t64 libmbedx509-1t64 97s libmpc3 libnsl-dev libopenjp2-7 libpixman-1-0 libraqm0 libsharpyuv0 97s libstdc++-13-dev libsub-override-perl libtiff6 libtirpc-dev libtool 97s libubsan1 libwebp7 libwebpdemux2 libwebpmux3 libxcb-render0 libxcb-shm0 97s libxrender1 linux-libc-dev m4 ncbi-blast+ ncbi-data po-debconf presto 97s pybuild-plugin-autopkgtest python3-all python3-biopython python3-cairo 97s python3-dateutil python3-decorator python3-freetype python3-numpy 97s python3-packaging python3-pandas python3-pandas-lib python3-pil 97s python3-presto python3-reportlab python3-rlpycairo python3-scipy 97s rpcsvc-proto sgml-base w3c-sgml-lib x11-common xfonts-encodings xfonts-utils 97s xml-core 97s 0 upgraded, 112 newly installed, 0 to remove and 0 not upgraded. 97s Need to get 139 MB/139 MB of archives. 97s After this operation, 533 MB of additional disk space will be used. 97s Get:1 /tmp/autopkgtest.wPcFno/1-autopkgtest-satdep.deb autopkgtest-satdep s390x 0 [816 B] 97s Get:2 http://ftpmaster.internal/ubuntu noble/main s390x sgml-base all 1.31 [11.4 kB] 97s Get:3 http://ftpmaster.internal/ubuntu noble/main s390x m4 s390x 1.4.19-4 [255 kB] 98s Get:4 http://ftpmaster.internal/ubuntu noble/main s390x autoconf all 2.71-3 [339 kB] 98s Get:5 http://ftpmaster.internal/ubuntu noble/main s390x autotools-dev all 20220109.1 [44.9 kB] 98s Get:6 http://ftpmaster.internal/ubuntu noble/main s390x automake all 1:1.16.5-1.3ubuntu1 [558 kB] 98s Get:7 http://ftpmaster.internal/ubuntu noble/main s390x autopoint all 0.21-14ubuntu1 [422 kB] 98s Get:8 http://ftpmaster.internal/ubuntu noble/main s390x libc-dev-bin s390x 2.39-0ubuntu2 [20.2 kB] 98s Get:9 http://ftpmaster.internal/ubuntu noble/main s390x linux-libc-dev s390x 6.8.0-11.11 [1590 kB] 98s Get:10 http://ftpmaster.internal/ubuntu noble/main s390x libcrypt-dev s390x 1:4.4.36-4 [135 kB] 98s Get:11 http://ftpmaster.internal/ubuntu noble/main s390x libtirpc-dev s390x 1.3.4+ds-1build1 [225 kB] 98s Get:12 http://ftpmaster.internal/ubuntu noble/main s390x libnsl-dev s390x 1.3.0-3 [73.5 kB] 98s Get:13 http://ftpmaster.internal/ubuntu noble/main s390x rpcsvc-proto s390x 1.4.2-0ubuntu6 [64.7 kB] 98s Get:14 http://ftpmaster.internal/ubuntu noble/main s390x libc6-dev s390x 2.39-0ubuntu2 [1629 kB] 98s Get:15 http://ftpmaster.internal/ubuntu noble/main s390x libisl23 s390x 0.26-3 [722 kB] 98s Get:16 http://ftpmaster.internal/ubuntu noble/main s390x libmpc3 s390x 1.3.1-1 [54.9 kB] 98s Get:17 http://ftpmaster.internal/ubuntu noble/main s390x cpp-13-s390x-linux-gnu s390x 13.2.0-17ubuntu2 [9929 kB] 98s Get:18 http://ftpmaster.internal/ubuntu noble/main s390x cpp-13 s390x 13.2.0-17ubuntu2 [1026 B] 98s Get:19 http://ftpmaster.internal/ubuntu noble/main s390x cpp-s390x-linux-gnu s390x 4:13.2.0-7ubuntu1 [5308 B] 98s Get:20 http://ftpmaster.internal/ubuntu noble/main s390x cpp s390x 4:13.2.0-7ubuntu1 [22.4 kB] 98s Get:21 http://ftpmaster.internal/ubuntu noble/main s390x libcc1-0 s390x 14-20240303-1ubuntu1 [49.9 kB] 98s Get:22 http://ftpmaster.internal/ubuntu noble/main s390x libgomp1 s390x 14-20240303-1ubuntu1 [151 kB] 99s Get:23 http://ftpmaster.internal/ubuntu noble/main s390x libitm1 s390x 14-20240303-1ubuntu1 [31.1 kB] 99s Get:24 http://ftpmaster.internal/ubuntu noble/main s390x libatomic1 s390x 14-20240303-1ubuntu1 [9392 B] 99s Get:25 http://ftpmaster.internal/ubuntu noble/main s390x libasan8 s390x 14-20240303-1ubuntu1 [2998 kB] 99s Get:26 http://ftpmaster.internal/ubuntu noble/main s390x libubsan1 s390x 14-20240303-1ubuntu1 [1186 kB] 99s Get:27 http://ftpmaster.internal/ubuntu noble/main s390x libgcc-13-dev s390x 13.2.0-17ubuntu2 [1003 kB] 99s Get:28 http://ftpmaster.internal/ubuntu noble/main s390x gcc-13-s390x-linux-gnu s390x 13.2.0-17ubuntu2 [19.1 MB] 99s Get:29 http://ftpmaster.internal/ubuntu noble/main s390x gcc-13 s390x 13.2.0-17ubuntu2 [467 kB] 99s Get:30 http://ftpmaster.internal/ubuntu noble/main s390x gcc-s390x-linux-gnu s390x 4:13.2.0-7ubuntu1 [1208 B] 99s Get:31 http://ftpmaster.internal/ubuntu noble/main s390x gcc s390x 4:13.2.0-7ubuntu1 [5014 B] 99s Get:32 http://ftpmaster.internal/ubuntu noble/main s390x libstdc++-13-dev s390x 13.2.0-17ubuntu2 [2430 kB] 99s Get:33 http://ftpmaster.internal/ubuntu noble/main s390x g++-13-s390x-linux-gnu s390x 13.2.0-17ubuntu2 [11.3 MB] 100s Get:34 http://ftpmaster.internal/ubuntu noble/main s390x g++-13 s390x 13.2.0-17ubuntu2 [14.4 kB] 100s Get:35 http://ftpmaster.internal/ubuntu noble/main s390x g++-s390x-linux-gnu s390x 4:13.2.0-7ubuntu1 [956 B] 100s Get:36 http://ftpmaster.internal/ubuntu noble/main s390x g++ s390x 4:13.2.0-7ubuntu1 [1096 B] 100s Get:37 http://ftpmaster.internal/ubuntu noble/main s390x build-essential s390x 12.10ubuntu1 [4930 B] 100s Get:38 http://ftpmaster.internal/ubuntu noble/universe s390x cd-hit s390x 4.8.1-4 [521 kB] 100s Get:39 http://ftpmaster.internal/ubuntu noble/main s390x libdebhelper-perl all 13.14.1ubuntu1 [89.5 kB] 100s Get:40 http://ftpmaster.internal/ubuntu noble/main s390x libtool all 2.4.7-7 [166 kB] 100s Get:41 http://ftpmaster.internal/ubuntu noble/main s390x dh-autoreconf all 20 [16.1 kB] 100s Get:42 http://ftpmaster.internal/ubuntu noble/main s390x libarchive-zip-perl all 1.68-1 [90.2 kB] 100s Get:43 http://ftpmaster.internal/ubuntu noble/main s390x libsub-override-perl all 0.10-1 [10.0 kB] 100s Get:44 http://ftpmaster.internal/ubuntu noble/main s390x libfile-stripnondeterminism-perl all 1.13.1-1 [18.1 kB] 100s Get:45 http://ftpmaster.internal/ubuntu noble/main s390x dh-strip-nondeterminism all 1.13.1-1 [5362 B] 100s Get:46 http://ftpmaster.internal/ubuntu noble/main s390x libdw1 s390x 0.190-1 [282 kB] 100s Get:47 http://ftpmaster.internal/ubuntu noble/main s390x debugedit s390x 1:5.0-5 [47.5 kB] 100s Get:48 http://ftpmaster.internal/ubuntu noble/main s390x dwz s390x 0.15-1 [108 kB] 100s Get:49 http://ftpmaster.internal/ubuntu noble/main s390x gettext s390x 0.21-14ubuntu1 [917 kB] 100s Get:50 http://ftpmaster.internal/ubuntu noble/main s390x intltool-debian all 0.35.0+20060710.6 [23.2 kB] 100s Get:51 http://ftpmaster.internal/ubuntu noble/main s390x po-debconf all 1.0.21+nmu1 [233 kB] 100s Get:52 http://ftpmaster.internal/ubuntu noble/main s390x debhelper all 13.14.1ubuntu1 [869 kB] 100s Get:53 http://ftpmaster.internal/ubuntu noble/universe s390x dh-python all 6.20231223ubuntu2 [111 kB] 100s Get:54 http://ftpmaster.internal/ubuntu noble/main s390x fonts-dejavu-mono all 2.37-8 [502 kB] 100s Get:55 http://ftpmaster.internal/ubuntu noble/main s390x fonts-dejavu-core all 2.37-8 [835 kB] 100s Get:56 http://ftpmaster.internal/ubuntu noble/main s390x libfontenc1 s390x 1:1.1.8-1 [14.8 kB] 100s Get:57 http://ftpmaster.internal/ubuntu noble/main s390x libfreetype6 s390x 2.13.2+dfsg-1 [431 kB] 100s Get:58 http://ftpmaster.internal/ubuntu noble/main s390x x11-common all 1:7.7+23ubuntu2 [23.4 kB] 100s Get:59 http://ftpmaster.internal/ubuntu noble/main s390x xfonts-encodings all 1:1.0.5-0ubuntu2 [578 kB] 100s Get:60 http://ftpmaster.internal/ubuntu noble/main s390x xfonts-utils s390x 1:7.7+6build2 [94.8 kB] 100s Get:61 http://ftpmaster.internal/ubuntu noble/main s390x fonts-urw-base35 all 20200910-8 [11.0 MB] 100s Get:62 http://ftpmaster.internal/ubuntu noble/main s390x fontconfig-config s390x 2.15.0-1ubuntu1 [37.0 kB] 100s Get:63 http://ftpmaster.internal/ubuntu noble/main s390x fonts-dejavu-extra all 2.37-8 [1947 kB] 100s Get:64 http://ftpmaster.internal/ubuntu noble/main s390x libblas3 s390x 3.12.0-3 [245 kB] 100s Get:65 http://ftpmaster.internal/ubuntu noble/main s390x libfontconfig1 s390x 2.15.0-1ubuntu1 [150 kB] 100s Get:66 http://ftpmaster.internal/ubuntu noble/main s390x libpixman-1-0 s390x 0.42.2-1 [173 kB] 100s Get:67 http://ftpmaster.internal/ubuntu noble/main s390x libxcb-render0 s390x 1.15-1 [17.0 kB] 100s Get:68 http://ftpmaster.internal/ubuntu noble/main s390x libxcb-shm0 s390x 1.15-1 [5782 B] 100s Get:69 http://ftpmaster.internal/ubuntu noble/main s390x libxrender1 s390x 1:0.9.10-1.1 [19.4 kB] 100s Get:70 http://ftpmaster.internal/ubuntu noble/main s390x libcairo2 s390x 1.18.0-1 [578 kB] 100s Get:71 http://ftpmaster.internal/ubuntu noble/main s390x libdeflate0 s390x 1.19-1 [46.0 kB] 100s Get:72 http://ftpmaster.internal/ubuntu noble/main s390x libgfortran5 s390x 14-20240303-1ubuntu1 [598 kB] 100s Get:73 http://ftpmaster.internal/ubuntu noble/main s390x libgraphite2-3 s390x 1.3.14-2 [90.4 kB] 100s Get:74 http://ftpmaster.internal/ubuntu noble/main s390x libharfbuzz0b s390x 8.3.0-2 [515 kB] 100s Get:75 http://ftpmaster.internal/ubuntu noble/main s390x libimagequant0 s390x 2.18.0-1 [42.9 kB] 100s Get:76 http://ftpmaster.internal/ubuntu noble/main s390x libjpeg-turbo8 s390x 2.1.5-2ubuntu1 [128 kB] 100s Get:77 http://ftpmaster.internal/ubuntu noble/main s390x libjpeg8 s390x 8c-2ubuntu11 [2146 B] 100s Get:78 http://ftpmaster.internal/ubuntu noble/main s390x liblapack3 s390x 3.12.0-3 [2979 kB] 100s Get:79 http://ftpmaster.internal/ubuntu noble/universe s390x liblbfgsb0 s390x 3.0+dfsg.4-1 [28.4 kB] 100s Get:80 http://ftpmaster.internal/ubuntu noble/main s390x liblcms2-2 s390x 2.14-2 [155 kB] 100s Get:81 http://ftpmaster.internal/ubuntu noble-proposed/universe s390x libmbedcrypto7t64 s390x 2.28.7-1.1ubuntu1 [216 kB] 100s Get:82 http://ftpmaster.internal/ubuntu noble-proposed/universe s390x libmbedx509-1t64 s390x 2.28.7-1.1ubuntu1 [46.2 kB] 100s Get:83 http://ftpmaster.internal/ubuntu noble-proposed/universe s390x libmbedtls14t64 s390x 2.28.7-1.1ubuntu1 [84.7 kB] 100s Get:84 http://ftpmaster.internal/ubuntu noble/main s390x libraqm0 s390x 0.10.1-1 [14.4 kB] 100s Get:85 http://ftpmaster.internal/ubuntu noble/main s390x libsharpyuv0 s390x 1.3.2-0.4 [14.8 kB] 100s Get:86 http://ftpmaster.internal/ubuntu noble/main s390x libjbig0 s390x 2.1-6.1ubuntu1 [29.8 kB] 100s Get:87 http://ftpmaster.internal/ubuntu noble/main s390x libwebp7 s390x 1.3.2-0.4 [207 kB] 101s Get:88 http://ftpmaster.internal/ubuntu noble/main s390x libtiff6 s390x 4.5.1+git230720-3ubuntu1 [253 kB] 101s Get:89 http://ftpmaster.internal/ubuntu noble/main s390x libwebpdemux2 s390x 1.3.2-0.4 [12.4 kB] 101s Get:90 http://ftpmaster.internal/ubuntu noble/main s390x libwebpmux3 s390x 1.3.2-0.4 [25.4 kB] 101s Get:91 http://ftpmaster.internal/ubuntu noble/universe s390x ncbi-data all 6.1.20170106+dfsg1-10 [4395 kB] 101s Get:92 http://ftpmaster.internal/ubuntu noble-proposed/universe s390x ncbi-blast+ s390x 2.12.0+ds-4build1 [12.8 MB] 101s Get:93 http://ftpmaster.internal/ubuntu noble/main s390x python3-numpy s390x 1:1.24.2-2 [5137 kB] 101s Get:94 http://ftpmaster.internal/ubuntu noble/main s390x libopenjp2-7 s390x 2.5.0-2 [169 kB] 101s Get:95 http://ftpmaster.internal/ubuntu noble/main s390x python3-pil s390x 10.2.0-1 [519 kB] 101s Get:96 http://ftpmaster.internal/ubuntu noble/main s390x python3-cairo s390x 1.25.1-2 [150 kB] 101s Get:97 http://ftpmaster.internal/ubuntu noble/universe s390x python3-freetype all 2.4.0-1 [83.1 kB] 101s Get:98 http://ftpmaster.internal/ubuntu noble/universe s390x python3-rlpycairo all 0.3.0-3 [9130 B] 101s Get:99 http://ftpmaster.internal/ubuntu noble/universe s390x python3-reportlab all 4.1.0-1 [683 kB] 101s Get:100 http://ftpmaster.internal/ubuntu noble/main s390x xml-core all 0.19 [20.3 kB] 101s Get:101 http://ftpmaster.internal/ubuntu noble/universe s390x w3c-sgml-lib all 1.3-3 [280 kB] 101s Get:102 http://ftpmaster.internal/ubuntu noble/universe s390x python3-biopython s390x 1.81+dfsg-3 [2234 kB] 101s Get:103 http://ftpmaster.internal/ubuntu noble/main s390x python3-dateutil all 2.8.2-3 [79.2 kB] 101s Get:104 http://ftpmaster.internal/ubuntu noble/universe s390x python3-pandas-lib s390x 2.1.4+dfsg-4ubuntu2 [8852 kB] 102s Get:105 http://ftpmaster.internal/ubuntu noble/universe s390x python3-pandas all 2.1.4+dfsg-4ubuntu2 [3042 kB] 102s Get:106 http://ftpmaster.internal/ubuntu noble/main s390x python3-decorator all 5.1.1-5 [10.1 kB] 102s Get:107 http://ftpmaster.internal/ubuntu noble/universe s390x python3-scipy s390x 1.11.4-6 [20.1 MB] 103s Get:108 http://ftpmaster.internal/ubuntu noble/main s390x python3-packaging all 23.2-1 [40.6 kB] 103s Get:109 http://ftpmaster.internal/ubuntu noble/universe s390x python3-presto s390x 0.7.2-1 [80.7 kB] 103s Get:110 http://ftpmaster.internal/ubuntu noble/universe s390x presto all 0.7.2-1 [240 kB] 103s Get:111 http://ftpmaster.internal/ubuntu noble/universe s390x pybuild-plugin-autopkgtest all 6.20231223ubuntu2 [1760 B] 103s Get:112 http://ftpmaster.internal/ubuntu noble/main s390x python3-all s390x 3.12.1-0ubuntu2 [908 B] 104s Fetched 139 MB in 6s (23.8 MB/s) 104s Selecting previously unselected package sgml-base. 104s (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 ... 52171 files and directories currently installed.) 104s Preparing to unpack .../000-sgml-base_1.31_all.deb ... 104s Unpacking sgml-base (1.31) ... 104s Selecting previously unselected package m4. 104s Preparing to unpack .../001-m4_1.4.19-4_s390x.deb ... 104s Unpacking m4 (1.4.19-4) ... 104s Selecting previously unselected package autoconf. 104s Preparing to unpack .../002-autoconf_2.71-3_all.deb ... 104s Unpacking autoconf (2.71-3) ... 104s Selecting previously unselected package autotools-dev. 104s Preparing to unpack .../003-autotools-dev_20220109.1_all.deb ... 104s Unpacking autotools-dev (20220109.1) ... 104s Selecting previously unselected package automake. 104s Preparing to unpack .../004-automake_1%3a1.16.5-1.3ubuntu1_all.deb ... 104s Unpacking automake (1:1.16.5-1.3ubuntu1) ... 104s Selecting previously unselected package autopoint. 104s Preparing to unpack .../005-autopoint_0.21-14ubuntu1_all.deb ... 104s Unpacking autopoint (0.21-14ubuntu1) ... 104s Selecting previously unselected package libc-dev-bin. 104s Preparing to unpack .../006-libc-dev-bin_2.39-0ubuntu2_s390x.deb ... 104s Unpacking libc-dev-bin (2.39-0ubuntu2) ... 104s Selecting previously unselected package linux-libc-dev:s390x. 104s Preparing to unpack .../007-linux-libc-dev_6.8.0-11.11_s390x.deb ... 104s Unpacking linux-libc-dev:s390x (6.8.0-11.11) ... 104s Selecting previously unselected package libcrypt-dev:s390x. 104s Preparing to unpack .../008-libcrypt-dev_1%3a4.4.36-4_s390x.deb ... 104s Unpacking libcrypt-dev:s390x (1:4.4.36-4) ... 104s Selecting previously unselected package libtirpc-dev:s390x. 104s Preparing to unpack .../009-libtirpc-dev_1.3.4+ds-1build1_s390x.deb ... 104s Unpacking libtirpc-dev:s390x (1.3.4+ds-1build1) ... 104s Selecting previously unselected package libnsl-dev:s390x. 104s Preparing to unpack .../010-libnsl-dev_1.3.0-3_s390x.deb ... 104s Unpacking libnsl-dev:s390x (1.3.0-3) ... 104s Selecting previously unselected package rpcsvc-proto. 104s Preparing to unpack .../011-rpcsvc-proto_1.4.2-0ubuntu6_s390x.deb ... 104s Unpacking rpcsvc-proto (1.4.2-0ubuntu6) ... 104s Selecting previously unselected package libc6-dev:s390x. 104s Preparing to unpack .../012-libc6-dev_2.39-0ubuntu2_s390x.deb ... 104s Unpacking libc6-dev:s390x (2.39-0ubuntu2) ... 104s Selecting previously unselected package libisl23:s390x. 104s Preparing to unpack .../013-libisl23_0.26-3_s390x.deb ... 104s Unpacking libisl23:s390x (0.26-3) ... 104s Selecting previously unselected package libmpc3:s390x. 104s Preparing to unpack .../014-libmpc3_1.3.1-1_s390x.deb ... 104s Unpacking libmpc3:s390x (1.3.1-1) ... 104s Selecting previously unselected package cpp-13-s390x-linux-gnu. 104s Preparing to unpack .../015-cpp-13-s390x-linux-gnu_13.2.0-17ubuntu2_s390x.deb ... 104s Unpacking cpp-13-s390x-linux-gnu (13.2.0-17ubuntu2) ... 104s Selecting previously unselected package cpp-13. 104s Preparing to unpack .../016-cpp-13_13.2.0-17ubuntu2_s390x.deb ... 104s Unpacking cpp-13 (13.2.0-17ubuntu2) ... 104s Selecting previously unselected package cpp-s390x-linux-gnu. 104s Preparing to unpack .../017-cpp-s390x-linux-gnu_4%3a13.2.0-7ubuntu1_s390x.deb ... 104s Unpacking cpp-s390x-linux-gnu (4:13.2.0-7ubuntu1) ... 104s Selecting previously unselected package cpp. 104s Preparing to unpack .../018-cpp_4%3a13.2.0-7ubuntu1_s390x.deb ... 104s Unpacking cpp (4:13.2.0-7ubuntu1) ... 104s Selecting previously unselected package libcc1-0:s390x. 104s Preparing to unpack .../019-libcc1-0_14-20240303-1ubuntu1_s390x.deb ... 104s Unpacking libcc1-0:s390x (14-20240303-1ubuntu1) ... 104s Selecting previously unselected package libgomp1:s390x. 104s Preparing to unpack .../020-libgomp1_14-20240303-1ubuntu1_s390x.deb ... 104s Unpacking libgomp1:s390x (14-20240303-1ubuntu1) ... 104s Selecting previously unselected package libitm1:s390x. 104s Preparing to unpack .../021-libitm1_14-20240303-1ubuntu1_s390x.deb ... 104s Unpacking libitm1:s390x (14-20240303-1ubuntu1) ... 104s Selecting previously unselected package libatomic1:s390x. 104s Preparing to unpack .../022-libatomic1_14-20240303-1ubuntu1_s390x.deb ... 104s Unpacking libatomic1:s390x (14-20240303-1ubuntu1) ... 104s Selecting previously unselected package libasan8:s390x. 104s Preparing to unpack .../023-libasan8_14-20240303-1ubuntu1_s390x.deb ... 104s Unpacking libasan8:s390x (14-20240303-1ubuntu1) ... 105s Selecting previously unselected package libubsan1:s390x. 105s Preparing to unpack .../024-libubsan1_14-20240303-1ubuntu1_s390x.deb ... 105s Unpacking libubsan1:s390x (14-20240303-1ubuntu1) ... 105s Selecting previously unselected package libgcc-13-dev:s390x. 105s Preparing to unpack .../025-libgcc-13-dev_13.2.0-17ubuntu2_s390x.deb ... 105s Unpacking libgcc-13-dev:s390x (13.2.0-17ubuntu2) ... 105s Selecting previously unselected package gcc-13-s390x-linux-gnu. 105s Preparing to unpack .../026-gcc-13-s390x-linux-gnu_13.2.0-17ubuntu2_s390x.deb ... 105s Unpacking gcc-13-s390x-linux-gnu (13.2.0-17ubuntu2) ... 105s Selecting previously unselected package gcc-13. 105s Preparing to unpack .../027-gcc-13_13.2.0-17ubuntu2_s390x.deb ... 105s Unpacking gcc-13 (13.2.0-17ubuntu2) ... 105s Selecting previously unselected package gcc-s390x-linux-gnu. 105s Preparing to unpack .../028-gcc-s390x-linux-gnu_4%3a13.2.0-7ubuntu1_s390x.deb ... 105s Unpacking gcc-s390x-linux-gnu (4:13.2.0-7ubuntu1) ... 105s Selecting previously unselected package gcc. 105s Preparing to unpack .../029-gcc_4%3a13.2.0-7ubuntu1_s390x.deb ... 105s Unpacking gcc (4:13.2.0-7ubuntu1) ... 105s Selecting previously unselected package libstdc++-13-dev:s390x. 105s Preparing to unpack .../030-libstdc++-13-dev_13.2.0-17ubuntu2_s390x.deb ... 105s Unpacking libstdc++-13-dev:s390x (13.2.0-17ubuntu2) ... 105s Selecting previously unselected package g++-13-s390x-linux-gnu. 105s Preparing to unpack .../031-g++-13-s390x-linux-gnu_13.2.0-17ubuntu2_s390x.deb ... 105s Unpacking g++-13-s390x-linux-gnu (13.2.0-17ubuntu2) ... 106s Selecting previously unselected package g++-13. 106s Preparing to unpack .../032-g++-13_13.2.0-17ubuntu2_s390x.deb ... 106s Unpacking g++-13 (13.2.0-17ubuntu2) ... 106s Selecting previously unselected package g++-s390x-linux-gnu. 106s Preparing to unpack .../033-g++-s390x-linux-gnu_4%3a13.2.0-7ubuntu1_s390x.deb ... 106s Unpacking g++-s390x-linux-gnu (4:13.2.0-7ubuntu1) ... 106s Selecting previously unselected package g++. 106s Preparing to unpack .../034-g++_4%3a13.2.0-7ubuntu1_s390x.deb ... 106s Unpacking g++ (4:13.2.0-7ubuntu1) ... 106s Selecting previously unselected package build-essential. 106s Preparing to unpack .../035-build-essential_12.10ubuntu1_s390x.deb ... 106s Unpacking build-essential (12.10ubuntu1) ... 106s Selecting previously unselected package cd-hit. 106s Preparing to unpack .../036-cd-hit_4.8.1-4_s390x.deb ... 106s Unpacking cd-hit (4.8.1-4) ... 106s Selecting previously unselected package libdebhelper-perl. 106s Preparing to unpack .../037-libdebhelper-perl_13.14.1ubuntu1_all.deb ... 106s Unpacking libdebhelper-perl (13.14.1ubuntu1) ... 106s Selecting previously unselected package libtool. 106s Preparing to unpack .../038-libtool_2.4.7-7_all.deb ... 106s Unpacking libtool (2.4.7-7) ... 106s Selecting previously unselected package dh-autoreconf. 106s Preparing to unpack .../039-dh-autoreconf_20_all.deb ... 106s Unpacking dh-autoreconf (20) ... 106s Selecting previously unselected package libarchive-zip-perl. 106s Preparing to unpack .../040-libarchive-zip-perl_1.68-1_all.deb ... 106s Unpacking libarchive-zip-perl (1.68-1) ... 106s Selecting previously unselected package libsub-override-perl. 106s Preparing to unpack .../041-libsub-override-perl_0.10-1_all.deb ... 106s Unpacking libsub-override-perl (0.10-1) ... 106s Selecting previously unselected package libfile-stripnondeterminism-perl. 106s Preparing to unpack .../042-libfile-stripnondeterminism-perl_1.13.1-1_all.deb ... 106s Unpacking libfile-stripnondeterminism-perl (1.13.1-1) ... 106s Selecting previously unselected package dh-strip-nondeterminism. 106s Preparing to unpack .../043-dh-strip-nondeterminism_1.13.1-1_all.deb ... 106s Unpacking dh-strip-nondeterminism (1.13.1-1) ... 106s Selecting previously unselected package libdw1:s390x. 106s Preparing to unpack .../044-libdw1_0.190-1_s390x.deb ... 106s Unpacking libdw1:s390x (0.190-1) ... 106s Selecting previously unselected package debugedit. 106s Preparing to unpack .../045-debugedit_1%3a5.0-5_s390x.deb ... 106s Unpacking debugedit (1:5.0-5) ... 106s Selecting previously unselected package dwz. 106s Preparing to unpack .../046-dwz_0.15-1_s390x.deb ... 106s Unpacking dwz (0.15-1) ... 106s Selecting previously unselected package gettext. 106s Preparing to unpack .../047-gettext_0.21-14ubuntu1_s390x.deb ... 106s Unpacking gettext (0.21-14ubuntu1) ... 106s Selecting previously unselected package intltool-debian. 106s Preparing to unpack .../048-intltool-debian_0.35.0+20060710.6_all.deb ... 106s Unpacking intltool-debian (0.35.0+20060710.6) ... 106s Selecting previously unselected package po-debconf. 106s Preparing to unpack .../049-po-debconf_1.0.21+nmu1_all.deb ... 106s Unpacking po-debconf (1.0.21+nmu1) ... 106s Selecting previously unselected package debhelper. 106s Preparing to unpack .../050-debhelper_13.14.1ubuntu1_all.deb ... 106s Unpacking debhelper (13.14.1ubuntu1) ... 106s Selecting previously unselected package dh-python. 106s Preparing to unpack .../051-dh-python_6.20231223ubuntu2_all.deb ... 106s Unpacking dh-python (6.20231223ubuntu2) ... 106s Selecting previously unselected package fonts-dejavu-mono. 106s Preparing to unpack .../052-fonts-dejavu-mono_2.37-8_all.deb ... 106s Unpacking fonts-dejavu-mono (2.37-8) ... 106s Selecting previously unselected package fonts-dejavu-core. 106s Preparing to unpack .../053-fonts-dejavu-core_2.37-8_all.deb ... 106s Unpacking fonts-dejavu-core (2.37-8) ... 106s Selecting previously unselected package libfontenc1:s390x. 106s Preparing to unpack .../054-libfontenc1_1%3a1.1.8-1_s390x.deb ... 106s Unpacking libfontenc1:s390x (1:1.1.8-1) ... 106s Selecting previously unselected package libfreetype6:s390x. 106s Preparing to unpack .../055-libfreetype6_2.13.2+dfsg-1_s390x.deb ... 106s Unpacking libfreetype6:s390x (2.13.2+dfsg-1) ... 106s Selecting previously unselected package x11-common. 106s Preparing to unpack .../056-x11-common_1%3a7.7+23ubuntu2_all.deb ... 106s Unpacking x11-common (1:7.7+23ubuntu2) ... 106s Selecting previously unselected package xfonts-encodings. 106s Preparing to unpack .../057-xfonts-encodings_1%3a1.0.5-0ubuntu2_all.deb ... 106s Unpacking xfonts-encodings (1:1.0.5-0ubuntu2) ... 106s Selecting previously unselected package xfonts-utils. 106s Preparing to unpack .../058-xfonts-utils_1%3a7.7+6build2_s390x.deb ... 106s Unpacking xfonts-utils (1:7.7+6build2) ... 106s Selecting previously unselected package fonts-urw-base35. 106s Preparing to unpack .../059-fonts-urw-base35_20200910-8_all.deb ... 106s Unpacking fonts-urw-base35 (20200910-8) ... 106s Selecting previously unselected package fontconfig-config. 106s Preparing to unpack .../060-fontconfig-config_2.15.0-1ubuntu1_s390x.deb ... 106s Unpacking fontconfig-config (2.15.0-1ubuntu1) ... 106s Selecting previously unselected package fonts-dejavu-extra. 106s Preparing to unpack .../061-fonts-dejavu-extra_2.37-8_all.deb ... 106s Unpacking fonts-dejavu-extra (2.37-8) ... 106s Selecting previously unselected package libblas3:s390x. 106s Preparing to unpack .../062-libblas3_3.12.0-3_s390x.deb ... 106s Unpacking libblas3:s390x (3.12.0-3) ... 106s Selecting previously unselected package libfontconfig1:s390x. 106s Preparing to unpack .../063-libfontconfig1_2.15.0-1ubuntu1_s390x.deb ... 106s Unpacking libfontconfig1:s390x (2.15.0-1ubuntu1) ... 106s Selecting previously unselected package libpixman-1-0:s390x. 107s Preparing to unpack .../064-libpixman-1-0_0.42.2-1_s390x.deb ... 107s Unpacking libpixman-1-0:s390x (0.42.2-1) ... 107s Selecting previously unselected package libxcb-render0:s390x. 107s Preparing to unpack .../065-libxcb-render0_1.15-1_s390x.deb ... 107s Unpacking libxcb-render0:s390x (1.15-1) ... 107s Selecting previously unselected package libxcb-shm0:s390x. 107s Preparing to unpack .../066-libxcb-shm0_1.15-1_s390x.deb ... 107s Unpacking libxcb-shm0:s390x (1.15-1) ... 107s Selecting previously unselected package libxrender1:s390x. 107s Preparing to unpack .../067-libxrender1_1%3a0.9.10-1.1_s390x.deb ... 107s Unpacking libxrender1:s390x (1:0.9.10-1.1) ... 107s Selecting previously unselected package libcairo2:s390x. 107s Preparing to unpack .../068-libcairo2_1.18.0-1_s390x.deb ... 107s Unpacking libcairo2:s390x (1.18.0-1) ... 107s Selecting previously unselected package libdeflate0:s390x. 107s Preparing to unpack .../069-libdeflate0_1.19-1_s390x.deb ... 107s Unpacking libdeflate0:s390x (1.19-1) ... 107s Selecting previously unselected package libgfortran5:s390x. 107s Preparing to unpack .../070-libgfortran5_14-20240303-1ubuntu1_s390x.deb ... 107s Unpacking libgfortran5:s390x (14-20240303-1ubuntu1) ... 107s Selecting previously unselected package libgraphite2-3:s390x. 107s Preparing to unpack .../071-libgraphite2-3_1.3.14-2_s390x.deb ... 107s Unpacking libgraphite2-3:s390x (1.3.14-2) ... 107s Selecting previously unselected package libharfbuzz0b:s390x. 107s Preparing to unpack .../072-libharfbuzz0b_8.3.0-2_s390x.deb ... 107s Unpacking libharfbuzz0b:s390x (8.3.0-2) ... 107s Selecting previously unselected package libimagequant0:s390x. 107s Preparing to unpack .../073-libimagequant0_2.18.0-1_s390x.deb ... 107s Unpacking libimagequant0:s390x (2.18.0-1) ... 107s Selecting previously unselected package libjpeg-turbo8:s390x. 107s Preparing to unpack .../074-libjpeg-turbo8_2.1.5-2ubuntu1_s390x.deb ... 107s Unpacking libjpeg-turbo8:s390x (2.1.5-2ubuntu1) ... 107s Selecting previously unselected package libjpeg8:s390x. 107s Preparing to unpack .../075-libjpeg8_8c-2ubuntu11_s390x.deb ... 107s Unpacking libjpeg8:s390x (8c-2ubuntu11) ... 107s Selecting previously unselected package liblapack3:s390x. 107s Preparing to unpack .../076-liblapack3_3.12.0-3_s390x.deb ... 107s Unpacking liblapack3:s390x (3.12.0-3) ... 107s Selecting previously unselected package liblbfgsb0:s390x. 107s Preparing to unpack .../077-liblbfgsb0_3.0+dfsg.4-1_s390x.deb ... 107s Unpacking liblbfgsb0:s390x (3.0+dfsg.4-1) ... 107s Selecting previously unselected package liblcms2-2:s390x. 107s Preparing to unpack .../078-liblcms2-2_2.14-2_s390x.deb ... 107s Unpacking liblcms2-2:s390x (2.14-2) ... 107s Selecting previously unselected package libmbedcrypto7t64:s390x. 107s Preparing to unpack .../079-libmbedcrypto7t64_2.28.7-1.1ubuntu1_s390x.deb ... 107s Unpacking libmbedcrypto7t64:s390x (2.28.7-1.1ubuntu1) ... 107s Selecting previously unselected package libmbedx509-1t64:s390x. 107s Preparing to unpack .../080-libmbedx509-1t64_2.28.7-1.1ubuntu1_s390x.deb ... 107s Unpacking libmbedx509-1t64:s390x (2.28.7-1.1ubuntu1) ... 107s Selecting previously unselected package libmbedtls14t64:s390x. 107s Preparing to unpack .../081-libmbedtls14t64_2.28.7-1.1ubuntu1_s390x.deb ... 107s Unpacking libmbedtls14t64:s390x (2.28.7-1.1ubuntu1) ... 107s Selecting previously unselected package libraqm0:s390x. 107s Preparing to unpack .../082-libraqm0_0.10.1-1_s390x.deb ... 107s Unpacking libraqm0:s390x (0.10.1-1) ... 107s Selecting previously unselected package libsharpyuv0:s390x. 107s Preparing to unpack .../083-libsharpyuv0_1.3.2-0.4_s390x.deb ... 107s Unpacking libsharpyuv0:s390x (1.3.2-0.4) ... 107s Selecting previously unselected package libjbig0:s390x. 107s Preparing to unpack .../084-libjbig0_2.1-6.1ubuntu1_s390x.deb ... 107s Unpacking libjbig0:s390x (2.1-6.1ubuntu1) ... 107s Selecting previously unselected package libwebp7:s390x. 107s Preparing to unpack .../085-libwebp7_1.3.2-0.4_s390x.deb ... 107s Unpacking libwebp7:s390x (1.3.2-0.4) ... 107s Selecting previously unselected package libtiff6:s390x. 107s Preparing to unpack .../086-libtiff6_4.5.1+git230720-3ubuntu1_s390x.deb ... 107s Unpacking libtiff6:s390x (4.5.1+git230720-3ubuntu1) ... 107s Selecting previously unselected package libwebpdemux2:s390x. 107s Preparing to unpack .../087-libwebpdemux2_1.3.2-0.4_s390x.deb ... 107s Unpacking libwebpdemux2:s390x (1.3.2-0.4) ... 107s Selecting previously unselected package libwebpmux3:s390x. 107s Preparing to unpack .../088-libwebpmux3_1.3.2-0.4_s390x.deb ... 107s Unpacking libwebpmux3:s390x (1.3.2-0.4) ... 107s Selecting previously unselected package ncbi-data. 107s Preparing to unpack .../089-ncbi-data_6.1.20170106+dfsg1-10_all.deb ... 107s Unpacking ncbi-data (6.1.20170106+dfsg1-10) ... 107s Selecting previously unselected package ncbi-blast+. 107s Preparing to unpack .../090-ncbi-blast+_2.12.0+ds-4build1_s390x.deb ... 107s Unpacking ncbi-blast+ (2.12.0+ds-4build1) ... 108s Selecting previously unselected package python3-numpy. 108s Preparing to unpack .../091-python3-numpy_1%3a1.24.2-2_s390x.deb ... 108s Unpacking python3-numpy (1:1.24.2-2) ... 108s Selecting previously unselected package libopenjp2-7:s390x. 108s Preparing to unpack .../092-libopenjp2-7_2.5.0-2_s390x.deb ... 108s Unpacking libopenjp2-7:s390x (2.5.0-2) ... 108s Selecting previously unselected package python3-pil:s390x. 108s Preparing to unpack .../093-python3-pil_10.2.0-1_s390x.deb ... 108s Unpacking python3-pil:s390x (10.2.0-1) ... 108s Selecting previously unselected package python3-cairo. 108s Preparing to unpack .../094-python3-cairo_1.25.1-2_s390x.deb ... 108s Unpacking python3-cairo (1.25.1-2) ... 108s Selecting previously unselected package python3-freetype. 108s Preparing to unpack .../095-python3-freetype_2.4.0-1_all.deb ... 108s Unpacking python3-freetype (2.4.0-1) ... 108s Selecting previously unselected package python3-rlpycairo. 108s Preparing to unpack .../096-python3-rlpycairo_0.3.0-3_all.deb ... 108s Unpacking python3-rlpycairo (0.3.0-3) ... 108s Selecting previously unselected package python3-reportlab. 108s Preparing to unpack .../097-python3-reportlab_4.1.0-1_all.deb ... 108s Unpacking python3-reportlab (4.1.0-1) ... 108s Selecting previously unselected package xml-core. 108s Preparing to unpack .../098-xml-core_0.19_all.deb ... 108s Unpacking xml-core (0.19) ... 108s Selecting previously unselected package w3c-sgml-lib. 108s Preparing to unpack .../099-w3c-sgml-lib_1.3-3_all.deb ... 108s Unpacking w3c-sgml-lib (1.3-3) ... 108s Selecting previously unselected package python3-biopython. 108s Preparing to unpack .../100-python3-biopython_1.81+dfsg-3_s390x.deb ... 108s Unpacking python3-biopython (1.81+dfsg-3) ... 108s Selecting previously unselected package python3-dateutil. 108s Preparing to unpack .../101-python3-dateutil_2.8.2-3_all.deb ... 108s Unpacking python3-dateutil (2.8.2-3) ... 108s Selecting previously unselected package python3-pandas-lib:s390x. 108s Preparing to unpack .../102-python3-pandas-lib_2.1.4+dfsg-4ubuntu2_s390x.deb ... 108s Unpacking python3-pandas-lib:s390x (2.1.4+dfsg-4ubuntu2) ... 108s Selecting previously unselected package python3-pandas. 108s Preparing to unpack .../103-python3-pandas_2.1.4+dfsg-4ubuntu2_all.deb ... 108s Unpacking python3-pandas (2.1.4+dfsg-4ubuntu2) ... 109s Selecting previously unselected package python3-decorator. 109s Preparing to unpack .../104-python3-decorator_5.1.1-5_all.deb ... 109s Unpacking python3-decorator (5.1.1-5) ... 109s Selecting previously unselected package python3-scipy. 109s Preparing to unpack .../105-python3-scipy_1.11.4-6_s390x.deb ... 109s Unpacking python3-scipy (1.11.4-6) ... 109s Selecting previously unselected package python3-packaging. 109s Preparing to unpack .../106-python3-packaging_23.2-1_all.deb ... 109s Unpacking python3-packaging (23.2-1) ... 110s Selecting previously unselected package python3-presto. 110s Preparing to unpack .../107-python3-presto_0.7.2-1_s390x.deb ... 110s Unpacking python3-presto (0.7.2-1) ... 110s Selecting previously unselected package presto. 110s Preparing to unpack .../108-presto_0.7.2-1_all.deb ... 110s Unpacking presto (0.7.2-1) ... 110s Selecting previously unselected package pybuild-plugin-autopkgtest. 110s Preparing to unpack .../109-pybuild-plugin-autopkgtest_6.20231223ubuntu2_all.deb ... 110s Unpacking pybuild-plugin-autopkgtest (6.20231223ubuntu2) ... 110s Selecting previously unselected package python3-all. 110s Preparing to unpack .../110-python3-all_3.12.1-0ubuntu2_s390x.deb ... 110s Unpacking python3-all (3.12.1-0ubuntu2) ... 110s Selecting previously unselected package autopkgtest-satdep. 110s Preparing to unpack .../111-1-autopkgtest-satdep.deb ... 110s Unpacking autopkgtest-satdep (0) ... 110s Setting up dh-python (6.20231223ubuntu2) ... 110s Setting up libgraphite2-3:s390x (1.3.14-2) ... 110s Setting up liblcms2-2:s390x (2.14-2) ... 110s Setting up ncbi-data (6.1.20170106+dfsg1-10) ... 110s Setting up libpixman-1-0:s390x (0.42.2-1) ... 110s Setting up libsharpyuv0:s390x (1.3.2-0.4) ... 110s Setting up libdw1:s390x (0.190-1) ... 110s Setting up libmbedcrypto7t64:s390x (2.28.7-1.1ubuntu1) ... 110s Setting up libxrender1:s390x (1:0.9.10-1.1) ... 110s Setting up libxcb-render0:s390x (1.15-1) ... 110s Setting up libarchive-zip-perl (1.68-1) ... 110s Setting up libdebhelper-perl (13.14.1ubuntu1) ... 110s Setting up x11-common (1:7.7+23ubuntu2) ... 110s Setting up libdeflate0:s390x (1.19-1) ... 110s Setting up linux-libc-dev:s390x (6.8.0-11.11) ... 110s Setting up m4 (1.4.19-4) ... 110s Setting up python3-all (3.12.1-0ubuntu2) ... 110s Setting up libxcb-shm0:s390x (1.15-1) ... 110s Setting up libgomp1:s390x (14-20240303-1ubuntu1) ... 110s Setting up libjbig0:s390x (2.1-6.1ubuntu1) ... 110s Setting up python3-decorator (5.1.1-5) ... 110s Setting up libfontenc1:s390x (1:1.1.8-1) ... 110s Setting up autotools-dev (20220109.1) ... 110s Setting up libblas3:s390x (3.12.0-3) ... 110s 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 110s Setting up python3-packaging (23.2-1) ... 110s Setting up libtirpc-dev:s390x (1.3.4+ds-1build1) ... 110s Setting up rpcsvc-proto (1.4.2-0ubuntu6) ... 110s Setting up libfreetype6:s390x (2.13.2+dfsg-1) ... 110s Setting up xfonts-encodings (1:1.0.5-0ubuntu2) ... 110s Setting up libimagequant0:s390x (2.18.0-1) ... 110s Setting up fonts-dejavu-mono (2.37-8) ... 110s Setting up libmpc3:s390x (1.3.1-1) ... 110s Setting up libatomic1:s390x (14-20240303-1ubuntu1) ... 110s Setting up autopoint (0.21-14ubuntu1) ... 110s Setting up fonts-dejavu-core (2.37-8) ... 110s Setting up libjpeg-turbo8:s390x (2.1.5-2ubuntu1) ... 110s Setting up libgfortran5:s390x (14-20240303-1ubuntu1) ... 110s Setting up autoconf (2.71-3) ... 110s Setting up libwebp7:s390x (1.3.2-0.4) ... 110s Setting up libubsan1:s390x (14-20240303-1ubuntu1) ... 110s Setting up fonts-dejavu-extra (2.37-8) ... 110s Setting up dwz (0.15-1) ... 110s Setting up libnsl-dev:s390x (1.3.0-3) ... 110s Setting up libcrypt-dev:s390x (1:4.4.36-4) ... 110s Setting up libasan8:s390x (14-20240303-1ubuntu1) ... 110s Setting up debugedit (1:5.0-5) ... 110s Setting up libopenjp2-7:s390x (2.5.0-2) ... 110s Setting up libsub-override-perl (0.10-1) ... 110s Setting up libharfbuzz0b:s390x (8.3.0-2) ... 110s Setting up python3-dateutil (2.8.2-3) ... 110s Setting up sgml-base (1.31) ... 110s Setting up libisl23:s390x (0.26-3) ... 110s Setting up libc-dev-bin (2.39-0ubuntu2) ... 110s Setting up libwebpmux3:s390x (1.3.2-0.4) ... 110s Setting up libcc1-0:s390x (14-20240303-1ubuntu1) ... 110s Setting up libitm1:s390x (14-20240303-1ubuntu1) ... 110s Setting up cd-hit (4.8.1-4) ... 110s Setting up libjpeg8:s390x (8c-2ubuntu11) ... 110s Setting up automake (1:1.16.5-1.3ubuntu1) ... 110s update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode 110s Setting up libfile-stripnondeterminism-perl (1.13.1-1) ... 110s Setting up liblapack3:s390x (3.12.0-3) ... 110s 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 110s Setting up gettext (0.21-14ubuntu1) ... 110s Setting up libmbedx509-1t64:s390x (2.28.7-1.1ubuntu1) ... 111s Setting up fontconfig-config (2.15.0-1ubuntu1) ... 111s Setting up libwebpdemux2:s390x (1.3.2-0.4) ... 111s Setting up python3-freetype (2.4.0-1) ... 111s Setting up xfonts-utils (1:7.7+6build2) ... 111s Setting up intltool-debian (0.35.0+20060710.6) ... 111s Setting up cpp-13-s390x-linux-gnu (13.2.0-17ubuntu2) ... 111s Setting up libraqm0:s390x (0.10.1-1) ... 111s Setting up python3-numpy (1:1.24.2-2) ... 112s Setting up dh-strip-nondeterminism (1.13.1-1) ... 112s Setting up libgcc-13-dev:s390x (13.2.0-17ubuntu2) ... 112s Setting up libmbedtls14t64:s390x (2.28.7-1.1ubuntu1) ... 113s Setting up libtiff6:s390x (4.5.1+git230720-3ubuntu1) ... 113s Setting up xml-core (0.19) ... 113s Setting up libc6-dev:s390x (2.39-0ubuntu2) ... 113s Setting up libfontconfig1:s390x (2.15.0-1ubuntu1) ... 113s Setting up libstdc++-13-dev:s390x (13.2.0-17ubuntu2) ... 113s Setting up liblbfgsb0:s390x (3.0+dfsg.4-1) ... 113s Setting up python3-scipy (1.11.4-6) ... 115s Setting up cpp-13 (13.2.0-17ubuntu2) ... 115s Setting up cpp-s390x-linux-gnu (4:13.2.0-7ubuntu1) ... 115s Setting up po-debconf (1.0.21+nmu1) ... 115s Setting up python3-pandas-lib:s390x (2.1.4+dfsg-4ubuntu2) ... 115s Setting up fonts-urw-base35 (20200910-8) ... 115s Setting up libcairo2:s390x (1.18.0-1) ... 115s Setting up ncbi-blast+ (2.12.0+ds-4build1) ... 115s Setting up python3-pil:s390x (10.2.0-1) ... 116s Setting up python3-pandas (2.1.4+dfsg-4ubuntu2) ... 120s Setting up gcc-13-s390x-linux-gnu (13.2.0-17ubuntu2) ... 120s Setting up gcc-s390x-linux-gnu (4:13.2.0-7ubuntu1) ... 120s Setting up g++-13-s390x-linux-gnu (13.2.0-17ubuntu2) ... 120s Setting up gcc-13 (13.2.0-17ubuntu2) ... 120s Setting up cpp (4:13.2.0-7ubuntu1) ... 120s Setting up g++-13 (13.2.0-17ubuntu2) ... 120s Setting up python3-cairo (1.25.1-2) ... 120s Setting up libtool (2.4.7-7) ... 120s Setting up g++-s390x-linux-gnu (4:13.2.0-7ubuntu1) ... 120s Setting up gcc (4:13.2.0-7ubuntu1) ... 120s Setting up dh-autoreconf (20) ... 120s Setting up python3-rlpycairo (0.3.0-3) ... 120s Setting up python3-reportlab (4.1.0-1) ... 120s Setting up g++ (4:13.2.0-7ubuntu1) ... 120s update-alternatives: using /usr/bin/g++ to provide /usr/bin/c++ (c++) in auto mode 120s Setting up build-essential (12.10ubuntu1) ... 121s Setting up debhelper (13.14.1ubuntu1) ... 121s Setting up pybuild-plugin-autopkgtest (6.20231223ubuntu2) ... 121s Processing triggers for libc-bin (2.39-0ubuntu2) ... 121s Processing triggers for man-db (2.12.0-3) ... 122s Processing triggers for install-info (7.1-3) ... 122s Processing triggers for sgml-base (1.31) ... 122s Setting up w3c-sgml-lib (1.3-3) ... 144s Setting up python3-biopython (1.81+dfsg-3) ... 145s Setting up python3-presto (0.7.2-1) ... 146s /usr/lib/python3/dist-packages/presto/Annotation.py:293: SyntaxWarning: invalid escape sequence '\s' 146s sub_regex = '[%s\s]+' % re.escape(''.join(delimiter)) 146s /usr/lib/python3/dist-packages/presto/Annotation.py:368: SyntaxWarning: invalid escape sequence '\s' 146s sub_regex = '[%s\s]+' % re.escape(''.join(delimiter[1:])) 146s /usr/lib/python3/dist-packages/presto/Annotation.py:491: SyntaxWarning: invalid escape sequence '\s' 146s header['SPECIES'] = re.sub('\s', '_', fields[2]) 146s /usr/lib/python3/dist-packages/presto/Annotation.py:493: SyntaxWarning: invalid escape sequence '\(' 146s header['FUNCTIONALITY'] = re.sub('[\(\)\[\]]', '', fields[3]) 146s /usr/lib/python3/dist-packages/presto/Annotation.py:494: SyntaxWarning: invalid escape sequence '\s' 146s header['PARTIAL'] = 'FALSE' if re.sub('\s', '', fields[13]) == '' else 'TRUE' 146s /usr/lib/python3/dist-packages/presto/Applications.py:61: SyntaxWarning: invalid escape sequence '\.' 146s version = re.sub('\.linux.*$','',version) 146s /usr/lib/python3/dist-packages/presto/Applications.py:288: SyntaxWarning: invalid escape sequence '\>' 146s id_regex = re.compile('([0-9]+\t[0-9]+nt, \>)(.+)(\.\.\.)') 146s /usr/lib/python3/dist-packages/presto/IO.py:34: SyntaxWarning: invalid escape sequence '\s' 146s if replace_special: parse_id = lambda x: re.sub('[\s,=|]+', '_', x) 146s Setting up presto (0.7.2-1) ... 146s Setting up autopkgtest-satdep (0) ... 149s (Reading database ... 63124 files and directories currently installed.) 149s Removing autopkgtest-satdep (0) ... 150s autopkgtest [22:23:20]: test pybuild-autopkgtest: pybuild-autopkgtest 150s autopkgtest [22:23:20]: test pybuild-autopkgtest: [----------------------- 150s pybuild-autopkgtest 150s I: pybuild pybuild:310: cp -r /tmp/autopkgtest.wPcFno/build.mMy/src/bin /tmp/autopkgtest.wPcFno/autopkgtest_tmp/build; rm /tmp/autopkgtest.wPcFno/build.mMy/src/tests/test_ClusterSets.py || echo "Test file already removed or moved"; 150s I: pybuild base:305: cd /tmp/autopkgtest.wPcFno/autopkgtest_tmp/build; python3.12 -m unittest discover -v 151s test_collapseAnnotation (tests.test_Annotation.TestAnnotation.test_collapseAnnotation) ... ok 151s test_getCoordKey (tests.test_Annotation.TestAnnotation.test_getCoordKey) ... ok 151s test_mergeAnnotation (tests.test_Annotation.TestAnnotation.test_mergeAnnotation) ... ok 151s test_renameAnnotation (tests.test_Annotation.TestAnnotation.test_renameAnnotation) ... ok 151s test_alignAssembly (tests.test_AssemblePairs.TestAssemblePairs.test_alignAssembly) ... skipped '-> alignAssembly() skipped\n' 151s test_makeBlastnDb (tests.test_AssemblePairs.TestAssemblePairs.test_makeBlastnDb) ... skipped '-> makeBlastnDb() skipped\n' 151s test_makeUSearchDb (tests.test_AssemblePairs.TestAssemblePairs.test_makeUSearchDb) ... skipped '-> makeUSearchDb() skipped\n' 151s test_referenceAssembly (tests.test_AssemblePairs.TestAssemblePairs.test_referenceAssembly) ... skipped '-> referenceAssembly() skipped\n' 151s test_runBlastn (tests.test_AssemblePairs.TestAssemblePairs.test_runBlastn) ... skipped '-> runBlastn() skipped\n' 151s test_runUSearch (tests.test_AssemblePairs.TestAssemblePairs.test_runUSearch) ... skipped '-> runUSearch() skipped\n' 151s test_calculateSetError (tests.test_BuildConsensus.TestBuildConsensus.test_calculateSetError) ... ok 151s test_deleteSeqPositions (tests.test_BuildConsensus.TestBuildConsensus.test_deleteSeqPositions) ... ok 151s test_findGapPositions (tests.test_BuildConsensus.TestBuildConsensus.test_findGapPositions) ... ok 151s test_frequencyConsensus (tests.test_BuildConsensus.TestBuildConsensus.test_frequencyConsensus) ... ok 151s test_qualityConsensus (tests.test_BuildConsensus.TestBuildConsensus.test_qualityConsensus) ... ok 151s test_checkSeqEqual (tests.test_CollapseSeq.TestCollapseSeq.test_checkSeqEqual) ... ok 151s test_convert454Header (tests.test_ConvertHeaders.TestConvertHeaders.test_convert454Header) ... ok 151s test_convertGenbankHeader (tests.test_ConvertHeaders.TestConvertHeaders.test_convertGenbankHeader) ... ok 151s test_convertGenericHeader (tests.test_ConvertHeaders.TestConvertHeaders.test_convertGenericHeader) ... ok 151s test_convertIMGTHeader (tests.test_ConvertHeaders.TestConvertHeaders.test_convertIMGTHeader) ... ok 151s test_convertIlluminaHeader (tests.test_ConvertHeaders.TestConvertHeaders.test_convertIlluminaHeader) ... ok 151s test_convertSRAHeader (tests.test_ConvertHeaders.TestConvertHeaders.test_convertSRAHeader) ... ok 151s test_calculateDistances (tests.test_EstimateError.TestEstimateError.test_calculateDistances) ... ok 151s test_countMismatches (tests.test_EstimateError.TestEstimateError.test_countMismatches) ... ok 151s test_initializeMismatchDictionary (tests.test_EstimateError.TestEstimateError.test_initializeMismatchDictionary) ... ok 151s test_getFileType (tests.test_IO.TestIO.test_getFileType) ... ok 151s test_extractAlignment (tests.test_MaskPrimers.TestMaskPrimers.test_extractAlignment) ... ok 151s test_localAlignment (tests.test_MaskPrimers.TestMaskPrimers.test_localAlignment) ... ok 151s test_maskSeq (tests.test_MaskPrimers.TestMaskPrimers.test_maskSeq) ... ok 151s test_scoreAlignment (tests.test_MaskPrimers.TestMaskPrimers.test_scoreAlignment) ... ok 151s test_calculateSetError (tests.test_Sequence.TestSequence.test_calculateSetError) ... ok 151s test_filterQuality (tests.test_Sequence.TestSequence.test_filterQuality) ... ok 151s test_meanQuality (tests.test_Sequence.TestSequence.test_meanQuality) ... ok 151s test_scoreDNA (tests.test_Sequence.TestSequence.test_scoreDNA) ... ok 151s test_scoreSeqPair (tests.test_Sequence.TestSequence.test_scoreSeqPair) ... ok 151s test_weightDNA (tests.test_Sequence.TestSequence.test_weightDNA) ... ok 151s test_consensusUnify (tests.test_UnifyHeaders.TestConvertHeaders.test_consensusUnify) ... ok 151s test_deletionUnify (tests.test_UnifyHeaders.TestConvertHeaders.test_deletionUnify) ... ok 151s 151s ---------------------------------------------------------------------- 151s Ran 38 tests in 0.041s 151s 151s OK (skipped=6) 151s -> test_collapseAnnotation() 151s OrderedDict({'ID': 'SEQ1', 'TEST1': 'A', 'TEST2': 1, 'TEST3': 'First'}) 151s OrderedDict({'ID': 'SEQ1', 'TEST1': 'B', 'TEST2': 2, 'TEST3': 'Second'}) 151s OrderedDict({'ID': 'SEQ1', 'TEST1': ['A', 'B'], 'TEST2': [1, 2], 'TEST3': ['First', 'Second']}) 151s OrderedDict({'ID': 'SEQ1', 'TEST1': 'AB', 'TEST2': '12', 'TEST3': 'FirstSecond'}) 151s OrderedDict({'ID': 'SEQ1', 'TEST1': 'A,B', 'TEST2': '1', 'TEST3': ['First', 'Second']}) 151s OrderedDict({'ID': 'SEQ1', 'TEST1': 'A,B', 'TEST2': '2', 'TEST3': ['First', 'Second']}) 151s OrderedDict({'ID': 'SEQ1', 'TEST1': 'A,B', 'TEST2': '3', 'TEST3': ['First', 'Second']}) 151s <- test_collapseAnnotation() 0.000 151s -> test_getCoordKey() 151s ['MISEQ:132:000000000-A2F3U:1:1101:14340:1555', 'HWI-EAS209_0006_FC706VJ:5:58:5894:21141', 'MS6_33112:1:1101:18371:1066'] 151s ['SRR001666.1', 'SRR735691.1', 'SRR1383326.1', 'SRR1383326.1', 'ERR346596.6'] 151s ['000034_0199_0169', 'GXGJ56Z01AE06X'] 151s <- test_getCoordKey() 0.000 151s -> test_mergeAnnotation() 151s OrderedDict({'ID': 'SEQ1', 'TEST1': 'A,B,C,C', 'TEST2': '1,2,3', 'TEST3': ['First', 'Second']}) 151s OrderedDict({'ID': 'SEQ1', 'TEST1': 'C,C,A,B', 'TEST2': '3,1,2', 'TEST3': ['First', 'Second']}) 151s <- test_mergeAnnotation() 0.000 151s -> test_renameAnnotation() 151s OrderedDict({'ID': 'SEQ1', 'RENAMED1': 'A,B', 'TEST2': [1, 2], 'TEST3': ['First', 'Second']}) 151s OrderedDict({'ID': 'SEQ1', 'RENAMED2': 'A,B', 'TEST2': [1, 2], 'TEST3': ['First', 'Second']}) 151s OrderedDict({'ID': 'SEQ1', 'TEST1': 'A,B,1,2', 'TEST3': ['First', 'Second']}) 151s OrderedDict({'ID': 'SEQ1', 'TEST1': 'A,B,1,2,First,Second'}) 151s <- test_renameAnnotation() 0.000 151s -> test_calculateSetError() 151s Frequency consensus error> 151s REF> CGGCGTAA 151s SEQ1> CGGCGTAA 151s SEQ2> CCNNGTAA 151s SEQ3> CGGC--TA 151s SEQ4> CGNN--TA 151s SEQ5> CGGC--AA 151s ERROR> 0.250000 151s Quality consensus error> 151s REF> CGGCNNAA 151s SEQ1> CGGCGTAA 151s SEQ2> CCNNGTAA 151s SEQ3> CGGC--TA 151s SEQ4> CGNN--TA 151s SEQ5> CGGC--AA 151s ERROR> 0.233333 151s <- test_calculateSetError() 0.000 151s -> test_deleteSeqPositions() 151s MAX_GAP=0.4> CGGCAA 151s MAX_GAP=0.8> CGGCGTAA 151s <- test_deleteSeqPositions() 0.000 151s -> test_findGapPositions() 151s MAX_GAP=0.4> [4, 5] 151s MAX_GAP=0.8> [] 151s <- test_findGapPositions() 0.000 151s -> test_frequencyConsensus() 151s MIN_FREQ=0.2> CGGCGTAA 151s MIN_FREQ=0.8> CGGCGTNA 151s <- test_frequencyConsensus() 0.000 151s -> test_qualityConsensus() 151s MIN_QUAL=0> CGGCGTAA [90, 90, 36, 36, 16, 16, 72, 90] 151s MIN_QUAL=20> CGGCNNAA [90, 90, 36, 36, 0, 0, 72, 90] 151s MIN_FREQ=0.8> CGGCNNNA [90, 90, 36, 36, 0, 0, 0, 90] 151s <- test_qualityConsensus() 0.000 151s -> test_checkSeqEqual() 151s DNA Equality> 151s SEQ1|COUNT=1> CCACGTTTTAGTAATTAATA 151s SEQ2|COUNT=2> CCACGTTTTAGTAATTAATA 151s EQUAL> True 151s 151s SEQ1|COUNT=1> CCACGTTTTAGTAATTAATA 151s SEQ3|COUNT=3> CCACGTTTTACTAATTAATA 151s EQUAL> False 151s 151s SEQ1|COUNT=1> CCACGTTTTAGTAATTAATA 151s SEQ4|COUNT=4> CCACGTTTTANTAATTAATA 151s EQUAL> True 151s 151s SEQ2|COUNT=2> CCACGTTTTAGTAATTAATA 151s SEQ3|COUNT=3> CCACGTTTTACTAATTAATA 151s EQUAL> False 151s 151s SEQ2|COUNT=2> CCACGTTTTAGTAATTAATA 151s SEQ4|COUNT=4> CCACGTTTTANTAATTAATA 151s EQUAL> True 151s 151s SEQ3|COUNT=3> CCACGTTTTACTAATTAATA 151s SEQ4|COUNT=4> CCACGTTTTANTAATTAATA 151s EQUAL> True 151s 151s <- test_checkSeqEqual() 0.000 151s -> test_convert454Header() 151s OrderedDict({'ID': '000034_0199_0169', 'LENGTH': '437', 'UACCNO': 'GNDG01201ARRCR'}) 151s OrderedDict({'ID': 'GXGJ56Z01AE06X', 'LENGTH': '222'}) 151s <- test_convert454Header() 0.000 151s -> test_convertGenbankHeader() 151s OrderedDict({'ID': 'CM000663.2', 'GI': '568336023', 'SOURCE': 'gb', 'DESC': 'Homo_sapiens_chromosome_1_GRCh38_reference_primary_assembly'}) 151s OrderedDict({'ID': 'CM000663.2', 'DESC': 'Homo_sapiens_chromosome_1__GRCh38_reference_primary_assembly'}) 151s <- test_convertGenbankHeader() 0.000 151s -> test_convertGenericHeader() 151s OrderedDict({'ID': 'gi_568336023_gb_CM000663.2_Homo_sapiens_chromosome_1_GRCh38_reference_primary_assembly'}) 151s OrderedDict({'ID': 'CM000663.2_Homo_sapiens_chromosome_1_GRCh38_reference_primary_assembly'}) 151s OrderedDict({'ID': 'M99641_IGHV1-18*01_Homo_sapiens_F_V-REGION_188..483_296_nt_1_296+24_320_'}) 151s OrderedDict({'ID': "Z29978_IGHV1-69*07_Homo_sapiens_F_V-REGION_1..233_233_nt_1_233+58_291_partial_in_5'_and_in_3'_"}) 151s OrderedDict({'ID': 'AB019439_IGHV(III)-22-2*01_Homo_sapiens_P_L-PART1+V-EXON_168065..168119+168222..168262_96_nt_1_96+0_96_'}) 151s OrderedDict({'ID': 'AE000659_TRAV11*01_Homo_sapiens_(P)_V-REGION_85121..85397_276_nt_1_276+42_318_'}) 151s <- test_convertGenericHeader() 0.000 151s -> test_convertIMGTHeader() 151s OrderedDict({'ID': 'IGHV1-18*01', 'SPECIES': 'Homo_sapiens', 'REGION': 'V-REGION', 'FUNCTIONALITY': 'F', 'PARTIAL': 'FALSE', 'ACCESSION': 'M99641'}) 151s OrderedDict({'ID': 'IGHV1-69*07', 'SPECIES': 'Homo_sapiens', 'REGION': 'V-REGION', 'FUNCTIONALITY': 'F', 'PARTIAL': 'TRUE', 'ACCESSION': 'Z29978'}) 151s OrderedDict({'ID': 'IGHV(III)-22-2*01', 'SPECIES': 'Homo_sapiens', 'REGION': 'L-PART1+V-EXON', 'FUNCTIONALITY': 'P', 'PARTIAL': 'FALSE', 'ACCESSION': 'AB019439'}) 151s OrderedDict({'ID': 'TRAV11*01', 'SPECIES': 'Homo_sapiens', 'REGION': 'V-REGION', 'FUNCTIONALITY': 'P', 'PARTIAL': 'FALSE', 'ACCESSION': 'AE000659'}) 151s OrderedDict({'ID': 'IGHV1-18*01'}) 151s OrderedDict({'ID': 'IGHV1-69*07'}) 151s OrderedDict({'ID': 'IGHV(III)-22-2*01'}) 151s OrderedDict({'ID': 'TRAV11*01'}) 151s <- test_convertIMGTHeader() 0.000 151s -> test_convertIlluminaHeader() 151s OrderedDict({'ID': 'MISEQ:132:000000000-A2F3U:1:1101:14340:1555', 'INDEX': 'ATCACG', 'READ': '1'}) 151s OrderedDict({'ID': 'HWI-EAS209_0006_FC706VJ:5:58:5894:21141', 'INDEX': 'ATCACG', 'READ': '1'}) 151s OrderedDict({'ID': 'MS6_33112:1:1101:18371:1066', 'READ': '1'}) 151s <- test_convertIlluminaHeader() 0.000 151s -> test_convertSRAHeader() 151s OrderedDict({'ID': 'SRR001666.1', 'DESC': '071112_SLXA-EAS1_s_7:5:1:817:345', 'LENGTH': '36'}) 151s OrderedDict({'ID': 'SRR735691.1', 'DESC': 'GXGJ56Z01AE06X', 'LENGTH': '222'}) 151s OrderedDict({'ID': 'SRR1383326.1', 'DESC': '1', 'LENGTH': '250'}) 151s OrderedDict({'ID': 'SRR1383326.1', 'READ': '2', 'DESC': '1', 'LENGTH': '250'}) 151s OrderedDict({'ID': 'ERR346596.6', 'DESC': 'BS-DSFCONTROL04:4:000000000-A3F0Y:1:1101:13220:1649/1'}) 151s <- test_convertSRAHeader() 0.000 151s -> test_calculateDistances() 151s <- test_calculateDistances() 0.000 151s -> test_countMismatches() 151s <- test_countMismatches() 0.001 151s -> test_initializeMismatchDictionary() 151s <- test_initializeMismatchDictionary() 0.000 151s -> test_getFileType() 151s <- test_getFileType() 0.000 151s -> test_extractAlignment() 151s SEQ1> 151s SEQ> CCACGTTTTAGTAATTAATA 151s ALN-SEQ> CCACGTTTTAGT 151s ALN-PR> ----GTTTTAGT 151s PRIMER> GTTTTAGT 151s START> 4 151s END> 12 151s GAPS> 0 151s ERROR> 0.000000 151s 151s SEQ2> 151s SEQ> CCNCGTTTTAGTAATTAATA 151s ALN-SEQ> CCNCGTTTTAGT 151s ALN-PR> ----GTTTTAGT 151s PRIMER> GTTTTAGT 151s START> 4 151s END> 12 151s GAPS> 0 151s ERROR> 0.000000 151s 151s SEQ3> 151s SEQ> GGGCGTTTTAGTAATTAATA 151s ALN-SEQ> GGGCGTTTTAGT 151s ALN-PR> ----GTTTTAGT 151s PRIMER> GTTTTAGT 151s START> 4 151s END> 12 151s GAPS> 0 151s ERROR> 0.000000 151s 151s SEQ4> 151s SEQ> GGNNGTTTTACTAATTAATA 151s ALN-SEQ> GGNNGTTTTACT 151s ALN-PR> ----GTTTTACT 151s PRIMER> GTTTTACT 151s START> 4 151s END> 12 151s GAPS> 0 151s ERROR> 0.000000 151s 151s SEQ5> 151s SEQ> NNGCNNNNNACTAATTAATA 151s ALN-SEQ> NNGCNNNNNACT 151s ALN-PR> ----NNNNNACT 151s PRIMER> NNNNNACT 151s START> 4 151s END> 12 151s GAPS> 0 151s ERROR> 0.000000 151s 151s SEQ6> 151s SEQ> GGGATANNNACTAATTAATA 151s ALN-SEQ> GGGATANNNACT 151s ALN-PR> ----TANNNACT 151s PRIMER> TANNNACT 151s START> 4 151s END> 12 151s GAPS> 0 151s ERROR> 0.000000 151s 151s SEQ7> 151s SEQ> NNNNNNNNNNNNNNNNNNNN 151s ALN-SEQ> NNNNNNNNNNNN 151s ALN-PR> ----NNNNNNNN 151s PRIMER> NNNNNNNN 151s START> 4 151s END> 12 151s GAPS> 0 151s ERROR> 0.000000 151s 151s <- test_extractAlignment() 0.000 151s -> test_localAlignment() 151s TEST Ns> 151s SEQ1> 151s SEQ> CCACGTTTTAGTAATTAATA 151s ALN-SEQ> CCACGTTTTAGTAATTAATA 151s ALN-PR> -CACGTTTT----------- 151s PRIMER> PR1 151s START> 1 151s END> 9 151s GAPS> 0 151s ERROR> 0.000000 151s 151s SEQ2> 151s SEQ> CCNCGTTTTAGTAATTAATA 151s ALN-SEQ> CCNCGTTTTAGTAATTAATA 151s ALN-PR> -CACGTTTT----------- 151s PRIMER> PR1 151s START> 1 151s END> 9 151s GAPS> 0 151s ERROR> 0.125000 151s 151s SEQ3> 151s SEQ> GGGCGTTTTAGTAATTAATA 151s ALN-SEQ> GGGCGTTTTAGTAATTAATA 151s ALN-PR> -GGCGTTTT----------- 151s PRIMER> PR2 151s START> 1 151s END> 9 151s GAPS> 0 151s ERROR> 0.000000 151s 151s SEQ4> 151s SEQ> GGNNGTTTTACTAATTAATA 151s ALN-SEQ> GGNNGTTTTACTAATTAATA 151s ALN-PR> GGC-GTTTT----------- 151s PRIMER> PR2 151s START> 0 151s END> 9 151s GAPS> 1 151s ERROR> 0.250000 151s 151s SEQ5> 151s SEQ> NNGCNNNNNACTAATTAATA 151s ALN-SEQ> NNGCNNNNNACTAATTAATA 151s ALN-PR> ------------ANATAA-- 151s PRIMER> PR3 151s START> 12 151s END> 18 151s GAPS> 0 151s ERROR> 0.375000 151s 151s SEQ6> 151s SEQ> GGGATANNNACTAATTAATA 151s ALN-SEQ> GGGATANNNACTAATTAATA 151s ALN-PR> -GGANA-------------- 151s PRIMER> PR3 151s START> 1 151s END> 6 151s GAPS> 0 151s ERROR> 0.375000 151s 151s SEQ7> 151s SEQ> NNNNNNNNNNNNNNNNNNNN 151s ALN-SEQ> None 151s ALN-PR> None 151s PRIMER> None 151s START> None 151s END> None 151s GAPS> 0 151s ERROR> 1.000000 151s 151s TEST INDELS> 151s SEQ1> 151s SEQ> CGGATCTTCTACTCCATACGTCCGTCAGTCGTGGATCTGATCTAGCTGCGCCTTTTTCTCAG 151s ALN-SEQ> CGGATCTTCTACTCCATACGTCCGTCAGTCGTGGATCTGATCTAGCTGCGCCTTTTTCTCAG 151s ALN-PR> ---------------ATACGTCCGTCAGTCGTGGATGT------------------------ 151s PRIMER> PR1 151s START> 15 151s END> 38 151s GAPS> 0 151s ERROR> 0.083333 151s 151s SEQ2> 151s SEQ> CGGATCTTCTACTCAAAACCGTCCTCAGTCGTGGATCTGGTCTAGCTGGGGCTGTTTCCCTG 151s ALN-SEQ> CGGATCTTCTACTCAAAACCGTCC-TCAGTCGTGGATCTGGTCTAGCTGGGGCTGTTTCCCTG 151s ALN-PR> --------------AATAC-GTCCGTCAGTCGTGGATGT------------------------ 151s PRIMER> PR1 151s START> 14 151s END> 38 151s GAPS> 2 151s ERROR> 0.208333 151s 151s SEQ3> 151s SEQ> GGTTTAAGTTAAGATAATACGTCCGTCAGTCGTGATCTGTTTTACATGGGGGCATCACCCAG 151s ALN-SEQ> GGTTTAAGTTAAGATAATACGTCCGTCAGTCGTG-ATCTGTTTTACATGGGGGCATCACCCAG 151s ALN-PR> ---------------AATACGTCCGTCAGTCGTGGATGT------------------------ 151s PRIMER> PR1 151s START> 15 151s END> 38 151s GAPS> 1 151s ERROR> 0.125000 151s 151s SEQ4> 151s SEQ> CAACCACATGGGTCCTCTAGAGAATCCCCTGAGAGCTCCGTTCCTCACCATGGACTGGACCT 151s ALN-SEQ> CAACCACATGGGTCCTCTAGAGAATCCCCTGAGAGCTCCGTTCCTCACCATGGACTGGACCT 151s ALN-PR> ------CATCT-TCCTCTA------------------------------------------- 151s PRIMER> PR2 151s START> 6 151s END> 19 151s GAPS> 1 151s ERROR> 0.250000 151s 151s SEQ5> 151s SEQ> CAACCACATGGTCCTCTAGAGAATCCCCTGAGAGCTCCGTTCCTCACCATGGACTGGACCTG 151s ALN-SEQ> CAACCACATGGTCCTCTAGAGAATCCCCTGAGAGCTCCGTTCCTCACCATGGACTGGACCTG 151s ALN-PR> ------CATCTTCCTCTA-------------------------------------------- 151s PRIMER> PR2 151s START> 6 151s END> 18 151s GAPS> 0 151s ERROR> 0.166667 151s 151s SEQ6> 151s SEQ> TCTGTCCTCTAGAGAATCCCCTGAGAGCTCCGTTCCTCACCATGGACTGGACCTCAACCACA 151s ALN-SEQ> TCTGTCCTCTAGAGAATCCCCTGAGAGCTCCGTTCCTCACCATGGACTGGACCTCAACCACA 151s ALN-PR> TCT-TCCTCTA--------------------------------------------------- 151s PRIMER> PR2 151s START> 0 151s END> 11 151s GAPS> 1 151s ERROR> 0.250000 151s 151s SEQ7> 151s SEQ> AGGTGAAGAAGCCTGGGGCCTCCGTGAAGGTCTCCTGCTCGGCTTCTGGATACGCCTTCACC 151s ALN-SEQ> AGGTGAAGAAGCCTGGGGCCTCCGTGAAGGTCTCCTGCTCGGCTTCTGGATACGCCTTCACC 151s ALN-PR> --GTGAAGA-GCCTG----------------------------------------------- 151s PRIMER> PR3 151s START> 2 151s END> 15 151s GAPS> 1 151s ERROR> 0.083333 151s 151s SEQ8> 151s SEQ> A--TGAAGAAGCCTGGGGCCTCCGTGAAGGTCTCCTGCTCGGCTTCTGGATACGCCTTCACC 151s ALN-SEQ> A--TGAAGAAGCCTGGGGCCTCCGTGAAGGTCTCCTGCTCGGCTTCTGGATACGCCTTCACC 151s ALN-PR> ---TGAAGA-GCCTG----------------------------------------------- 151s PRIMER> PR3 151s START> 3 151s END> 15 151s GAPS> 1 151s ERROR> 0.166667 151s 151s SEQ9> 151s SEQ> ANNTGAAGAAGNNTGGGGCCTCCGTGAAGGTCTCCTGCTCGGCTTCTGGATACGCCTTCACC 151s ALN-SEQ> ANNTGAAGAAGNNTGGGGCCTCCGTGAAGGTCTCCTGCTCGGCTTCTGGATACGCCTTCACC 151s ALN-PR> ---TGAAGA-GCCTG----------------------------------------------- 151s PRIMER> PR3 151s START> 3 151s END> 15 151s GAPS> 1 151s ERROR> 0.333333 151s 151s SEQ10> 151s SEQ> -------------------------------------------------------------- 151s ALN-SEQ> None 151s ALN-PR> None 151s PRIMER> None 151s START> None 151s END> None 151s GAPS> 0 151s ERROR> 1.000000 151s 151s <- test_localAlignment() 0.021 151s -> test_maskSeq() 151s TEST CUT> 151s ID> SEQ|PRIMER=A|BARCODE=CCA 151s SEQ> AGTAATTAATA 151s 151s TEST MASK> 151s ID> SEQ|PRIMER=A|BARCODE=CCA 151s SEQ> NNNNNNAGTAATTAATA 151s 151s TEST TRIM> 151s ID> SEQ|PRIMER=A|BARCODE=CCA 151s SEQ> CGTTTTAGTAATTAATA 151s 151s TEST TAG> 151s ID> SEQ|PRIMER=A|BARCODE=CCA 151s SEQ> CCACGTTTTAGTAATTAATA 151s 151s <- test_maskSeq() 0.001 151s -> test_scoreAlignment() 151s SEQ1> 151s SEQ> CCACGTTTTAGTAATTAATA 151s ALN-SEQ> CCACGTTTT 151s ALN-PR> -CACGTTTT 151s PRIMER> PR1 151s START> 1 151s END> 9 151s GAPS> 0 151s ERROR> 0.000000 151s 151s SEQ2> 151s SEQ> CCNCGTTTTAGTAATTAATA 151s ALN-SEQ> CCNCGTTTT 151s ALN-PR> -CACGTTTT 151s PRIMER> PR1 151s START> 1 151s END> 9 151s GAPS> 0 151s ERROR> 0.125000 151s 151s SEQ3> 151s SEQ> GGGCGTTTTAGTAATTAATA 151s ALN-SEQ> GGGCGTTTT 151s ALN-PR> -GGCGTTTT 151s PRIMER> PR2 151s START> 1 151s END> 9 151s GAPS> 0 151s ERROR> 0.000000 151s 151s SEQ4> 151s SEQ> GGNNGTTTTACTAATTAATA 151s ALN-SEQ> GGNNGTTTT 151s ALN-PR> -GGCGTTTT 151s PRIMER> PR2 151s START> 1 151s END> 9 151s GAPS> 0 151s ERROR> 0.250000 151s 151s SEQ5> 151s SEQ> NNGCNNNNNACTAATTAATA 151s ALN-SEQ> NNGCNNNNN 151s ALN-PR> -GGCGTTTT 151s PRIMER> PR2 151s START> 1 151s END> 9 151s GAPS> 0 151s ERROR> 0.750000 151s 151s SEQ6> 151s SEQ> GGGATANNNACTAATTAATA 151s ALN-SEQ> GGGATANNN 151s ALN-PR> -GGANATAA 151s PRIMER> PR3 151s START> 1 151s END> 9 151s GAPS> 0 151s ERROR> 0.375000 151s 151s SEQ7> 151s SEQ> NNNNNNNNNNNNNNNNNNNN 151s ALN-SEQ> NNNNNNNNN 151s ALN-PR> -CACGTTTT 151s PRIMER> None 151s START> 1 151s END> 9 151s GAPS> 0 151s ERROR> 1.000000 151s 151s <- test_scoreAlignment() 0.007 151s -> test_calculateSetError() 151s REF> CGGCGTAA 0.4347826086956522 151s REF> NNNNNNNN 1.0 151s <- test_calculateSetError() 0.000 151s -> test_filterQuality() 151s RESULT> True 25 151s RESULT> False 5 151s RESULT> False 0 151s <- test_filterQuality() 0.000 151s -> test_meanQuality() 151s RESULT> 25 [30, 30, 20, 20, 30, 30, 40, 40] 151s RESULT> 5 [30, 30, 0, 0, 30, 30, 20, 20] 151s RESULT> 0 [0, 0, 0, 0, 0, 0, 0, 0] 151s <- test_meanQuality() 0.000 151s -> test_scoreDNA() 151s Default DNA Scores> 151s A==A> 1 151s A==T> 0 151s A==R> 1 151s U==T> 1 151s A==N> 1 151s N==A> 1 151s A==-> 0 151s -==A> 0 151s Symmetric DNA Scores> 151s A==A> 1 151s A==T> 0 151s A==R> 1 151s U==T> 1 151s A==N> 1 151s N==A> 1 151s A==-> 1 151s -==A> 1 151s Asymmetric DNA Scores> 151s A==A> 1 151s A==T> 0 151s A==R> 1 151s U==T> 1 151s A==N> 1 151s N==A> 0 151s A==-> 1 151s -==A> 0 151s <- test_scoreDNA() 0.000 151s -> test_scoreSeqPair() 151s Default DNA Scores> 151s SEQ1> CGGCGTAA 151s SEQ2> CGNNGTAG 151s SCORE> 7 151s WEIGHT> 8 151s ERROR> 0.125000 151s 151s SEQ1> CGGCGTAA 151s SEQ3> CGGC--AA 151s SCORE> 6 151s WEIGHT> 8 151s ERROR> 0.250000 151s 151s SEQ1> CGGCGTAA 151s SEQ4> CGNN--AG 151s SCORE> 5 151s WEIGHT> 8 151s ERROR> 0.375000 151s 151s SEQ1> CGGCGTAA 151s SEQ5> NNNNNNNN 151s SCORE> 8 151s WEIGHT> 8 151s ERROR> 0.000000 151s 151s SEQ1> CGGCGTAA 151s SEQ6> NNNNNNAA 151s SCORE> 8 151s WEIGHT> 8 151s ERROR> 0.000000 151s 151s SEQ1> CGGCGTAA 151s SEQ7> -------- 151s SCORE> 0 151s WEIGHT> 8 151s ERROR> 1.000000 151s 151s SEQ1> CGGCGTAA 151s SEQ8> CG------ 151s SCORE> 2 151s WEIGHT> 8 151s ERROR> 0.750000 151s 151s SEQ2> CGNNGTAG 151s SEQ3> CGGC--AA 151s SCORE> 5 151s WEIGHT> 8 151s ERROR> 0.375000 151s 151s SEQ2> CGNNGTAG 151s SEQ4> CGNN--AG 151s SCORE> 6 151s WEIGHT> 8 151s ERROR> 0.250000 151s 151s SEQ2> CGNNGTAG 151s SEQ5> NNNNNNNN 151s SCORE> 8 151s WEIGHT> 8 151s ERROR> 0.000000 151s 151s SEQ2> CGNNGTAG 151s SEQ6> NNNNNNAA 151s SCORE> 7 151s WEIGHT> 8 151s ERROR> 0.125000 151s 151s SEQ2> CGNNGTAG 151s SEQ7> -------- 151s SCORE> 0 151s WEIGHT> 8 151s ERROR> 1.000000 151s 151s SEQ2> CGNNGTAG 151s SEQ8> CG------ 151s SCORE> 2 151s WEIGHT> 8 151s ERROR> 0.750000 151s 151s SEQ3> CGGC--AA 151s SEQ4> CGNN--AG 151s SCORE> 7 151s WEIGHT> 8 151s ERROR> 0.125000 151s 151s SEQ3> CGGC--AA 151s SEQ5> NNNNNNNN 151s SCORE> 6 151s WEIGHT> 8 151s ERROR> 0.250000 151s 151s SEQ3> CGGC--AA 151s SEQ6> NNNNNNAA 151s SCORE> 6 151s WEIGHT> 8 151s ERROR> 0.250000 151s 151s SEQ3> CGGC--AA 151s SEQ7> -------- 151s SCORE> 2 151s WEIGHT> 8 151s ERROR> 0.750000 151s 151s SEQ3> CGGC--AA 151s SEQ8> CG------ 151s SCORE> 4 151s WEIGHT> 8 151s ERROR> 0.500000 151s 151s SEQ4> CGNN--AG 151s SEQ5> NNNNNNNN 151s SCORE> 6 151s WEIGHT> 8 151s ERROR> 0.250000 151s 151s SEQ4> CGNN--AG 151s SEQ6> NNNNNNAA 151s SCORE> 5 151s WEIGHT> 8 151s ERROR> 0.375000 151s 151s SEQ4> CGNN--AG 151s SEQ7> -------- 151s SCORE> 2 151s WEIGHT> 8 151s ERROR> 0.750000 151s 151s SEQ4> CGNN--AG 151s SEQ8> CG------ 151s SCORE> 4 151s WEIGHT> 8 151s ERROR> 0.500000 151s 151s SEQ5> NNNNNNNN 151s SEQ6> NNNNNNAA 151s SCORE> 8 151s WEIGHT> 8 151s ERROR> 0.000000 151s 151s SEQ5> NNNNNNNN 151s SEQ7> -------- 151s SCORE> 0 151s WEIGHT> 8 151s ERROR> 1.000000 151s 151s SEQ5> NNNNNNNN 151s SEQ8> CG------ 151s SCORE> 2 151s WEIGHT> 8 151s ERROR> 0.750000 151s 151s SEQ6> NNNNNNAA 151s SEQ7> -------- 151s SCORE> 0 151s WEIGHT> 8 151s ERROR> 1.000000 151s 151s SEQ6> NNNNNNAA 151s SEQ8> CG------ 151s SCORE> 2 151s WEIGHT> 8 151s ERROR> 0.750000 151s 151s SEQ7> -------- 151s SEQ8> CG------ 151s SCORE> 6 151s WEIGHT> 8 151s ERROR> 0.250000 151s 151s Asymmetric DNA Scores> 151s SEQ1> CGGCGTAA 151s SEQ2> CGNNGTAG 151s SCORE> 7 151s WEIGHT> 8 151s ERROR> 0.125000 151s 151s SEQ1> CGGCGTAA 151s SEQ3> CGGC--AA 151s SCORE> 8 151s WEIGHT> 8 151s ERROR> 0.000000 151s 151s SEQ1> CGGCGTAA 151s SEQ4> CGNN--AG 151s SCORE> 7 151s WEIGHT> 8 151s ERROR> 0.125000 151s 151s SEQ1> CGGCGTAA 151s SEQ5> NNNNNNNN 151s SCORE> 8 151s WEIGHT> 8 151s ERROR> 0.000000 151s 151s SEQ1> CGGCGTAA 151s SEQ6> NNNNNNAA 151s SCORE> 8 151s WEIGHT> 8 151s ERROR> 0.000000 151s 151s SEQ1> CGGCGTAA 151s SEQ7> -------- 151s SCORE> 8 151s WEIGHT> 8 151s ERROR> 0.000000 151s 151s SEQ1> CGGCGTAA 151s SEQ8> CG------ 151s SCORE> 8 151s WEIGHT> 8 151s ERROR> 0.000000 151s 151s SEQ2> CGNNGTAG 151s SEQ3> CGGC--AA 151s SCORE> 5 151s WEIGHT> 8 151s ERROR> 0.375000 151s 151s SEQ2> CGNNGTAG 151s SEQ4> CGNN--AG 151s SCORE> 6 151s WEIGHT> 8 151s ERROR> 0.250000 151s 151s SEQ2> CGNNGTAG 151s SEQ5> NNNNNNNN 151s SCORE> 6 151s WEIGHT> 8 151s ERROR> 0.250000 151s 151s SEQ2> CGNNGTAG 151s SEQ6> NNNNNNAA 151s SCORE> 5 151s WEIGHT> 8 151s ERROR> 0.375000 151s 151s SEQ2> CGNNGTAG 151s SEQ7> -------- 151s SCORE> 6 151s WEIGHT> 8 151s ERROR> 0.250000 151s 151s SEQ2> CGNNGTAG 151s SEQ8> CG------ 151s SCORE> 6 151s WEIGHT> 8 151s ERROR> 0.250000 151s 151s SEQ3> CGGC--AA 151s SEQ4> CGNN--AG 151s SCORE> 5 151s WEIGHT> 8 151s ERROR> 0.375000 151s 151s SEQ3> CGGC--AA 151s SEQ5> NNNNNNNN 151s SCORE> 6 151s WEIGHT> 8 151s ERROR> 0.250000 151s 151s SEQ3> CGGC--AA 151s SEQ6> NNNNNNAA 151s SCORE> 6 151s WEIGHT> 8 151s ERROR> 0.250000 151s 151s SEQ3> CGGC--AA 151s SEQ7> -------- 151s SCORE> 6 151s WEIGHT> 8 151s ERROR> 0.250000 151s 151s SEQ3> CGGC--AA 151s SEQ8> CG------ 151s SCORE> 6 151s WEIGHT> 8 151s ERROR> 0.250000 151s 151s SEQ4> CGNN--AG 151s SEQ5> NNNNNNNN 151s SCORE> 4 151s WEIGHT> 8 151s ERROR> 0.500000 151s 151s SEQ4> CGNN--AG 151s SEQ6> NNNNNNAA 151s SCORE> 3 151s WEIGHT> 8 151s ERROR> 0.625000 151s 151s SEQ4> CGNN--AG 151s SEQ7> -------- 151s SCORE> 4 151s WEIGHT> 8 151s ERROR> 0.500000 151s 151s SEQ4> CGNN--AG 151s SEQ8> CG------ 151s SCORE> 4 151s WEIGHT> 8 151s ERROR> 0.500000 151s 151s SEQ5> NNNNNNNN 151s SEQ6> NNNNNNAA 151s SCORE> 0 151s WEIGHT> 8 151s ERROR> 1.000000 151s 151s SEQ5> NNNNNNNN 151s SEQ7> -------- 151s SCORE> 0 151s WEIGHT> 8 151s ERROR> 1.000000 151s 151s SEQ5> NNNNNNNN 151s SEQ8> CG------ 151s SCORE> 0 151s WEIGHT> 8 151s ERROR> 1.000000 151s 151s SEQ6> NNNNNNAA 151s SEQ7> -------- 151s SCORE> 2 151s WEIGHT> 8 151s ERROR> 0.750000 151s 151s SEQ6> NNNNNNAA 151s SEQ8> CG------ 151s SCORE> 2 151s WEIGHT> 8 151s ERROR> 0.750000 151s 151s SEQ7> -------- 151s SEQ8> CG------ 151s SCORE> 0 151s WEIGHT> 8 151s ERROR> 1.000000 151s 151s Masked DNA Scores> 151s SEQ1> CGGCGTAA 151s SEQ2> CGNNGTAG 151s SCORE> 5 151s WEIGHT> 6 151s ERROR> 0.166667 151s 151s SEQ1> CGGCGTAA 151s SEQ3> CGGC--AA 151s SCORE> 6 151s WEIGHT> 8 151s ERROR> 0.250000 151s 151s SEQ1> CGGCGTAA 151s SEQ4> CGNN--AG 151s SCORE> 3 151s WEIGHT> 6 151s ERROR> 0.500000 151s 151s SEQ1> CGGCGTAA 151s SEQ5> NNNNNNNN 151s SCORE> 0 151s WEIGHT> 0 151s ERROR> 1.000000 151s 151s SEQ1> CGGCGTAA 151s SEQ6> NNNNNNAA 151s SCORE> 2 151s WEIGHT> 2 151s ERROR> 0.000000 151s 151s SEQ1> CGGCGTAA 151s SEQ7> -------- 151s SCORE> 0 151s WEIGHT> 8 151s ERROR> 1.000000 151s 151s SEQ1> CGGCGTAA 151s SEQ8> CG------ 151s SCORE> 2 151s WEIGHT> 8 151s ERROR> 0.750000 151s 151s SEQ2> CGNNGTAG 151s SEQ3> CGGC--AA 151s SCORE> 3 151s WEIGHT> 6 151s ERROR> 0.500000 151s 151s SEQ2> CGNNGTAG 151s SEQ4> CGNN--AG 151s SCORE> 4 151s WEIGHT> 6 151s ERROR> 0.333333 151s 151s SEQ2> CGNNGTAG 151s SEQ5> NNNNNNNN 151s SCORE> 0 151s WEIGHT> 0 151s ERROR> 1.000000 151s 151s SEQ2> CGNNGTAG 151s SEQ6> NNNNNNAA 151s SCORE> 1 151s WEIGHT> 2 151s ERROR> 0.500000 151s 151s SEQ2> CGNNGTAG 151s SEQ7> -------- 151s SCORE> 0 151s WEIGHT> 6 151s ERROR> 1.000000 151s 151s SEQ2> CGNNGTAG 151s SEQ8> CG------ 151s SCORE> 2 151s WEIGHT> 6 151s ERROR> 0.666667 151s 151s SEQ3> CGGC--AA 151s SEQ4> CGNN--AG 151s SCORE> 5 151s WEIGHT> 6 151s ERROR> 0.166667 151s 151s SEQ3> CGGC--AA 151s SEQ5> NNNNNNNN 151s SCORE> 0 151s WEIGHT> 0 151s ERROR> 1.000000 151s 151s SEQ3> CGGC--AA 151s SEQ6> NNNNNNAA 151s SCORE> 2 151s WEIGHT> 2 151s ERROR> 0.000000 151s 151s SEQ3> CGGC--AA 151s SEQ7> -------- 151s SCORE> 2 151s WEIGHT> 8 151s ERROR> 0.750000 151s 151s SEQ3> CGGC--AA 151s SEQ8> CG------ 151s SCORE> 4 151s WEIGHT> 8 151s ERROR> 0.500000 151s 151s SEQ4> CGNN--AG 151s SEQ5> NNNNNNNN 151s SCORE> 0 151s WEIGHT> 0 151s ERROR> 1.000000 151s 151s SEQ4> CGNN--AG 151s SEQ6> NNNNNNAA 151s SCORE> 1 151s WEIGHT> 2 151s ERROR> 0.500000 151s 151s SEQ4> CGNN--AG 151s SEQ7> -------- 151s SCORE> 2 151s WEIGHT> 6 151s ERROR> 0.666667 151s 151s SEQ4> CGNN--AG 151s SEQ8> CG------ 151s SCORE> 4 151s WEIGHT> 6 151s ERROR> 0.333333 151s 151s SEQ5> NNNNNNNN 151s SEQ6> NNNNNNAA 151s SCORE> 0 151s WEIGHT> 0 151s ERROR> 1.000000 151s 151s SEQ5> NNNNNNNN 151s SEQ7> -------- 151s SCORE> 0 151s WEIGHT> 0 151s ERROR> 1.000000 151s 151s SEQ5> NNNNNNNN 151s SEQ8> CG------ 151s SCORE> 0 151s WEIGHT> 0 151s ERROR> 1.000000 151s 151s SEQ6> NNNNNNAA 151s SEQ7> -------- 151s SCORE> 0 151s WEIGHT> 2 151s ERROR> 1.000000 151s 151s SEQ6> NNNNNNAA 151s SEQ8> CG------ 151s SCORE> 0 151s WEIGHT> 2 151s ERROR> 1.000000 151s 151s SEQ7> -------- 151s SEQ8> CG------ 151s SCORE> 6 151s WEIGHT> 8 151s ERROR> 0.250000 151s 151s <- test_scoreSeqPair() 0.005 151s -> test_weightDNA() 151s DNA Weight> 151s SEQ1> 8 151s SEQ2> 6 151s SEQ3> 8 151s SEQ4> 6 151s SEQ5> 0 151s SEQ6> 2 151s SEQ7> 8 151s SEQ8> 8 151s AA Weight> 151s SEQ1> 8 151s SEQ2> 6 151s SEQ3> 8 151s SEQ4> 6 151s <- test_weightDNA() 0.000 151s -> test_consensusUnify() 151s ID> SEQ0|BARCODE=AAAA|SAMPLE=S1 -> SEQ0|BARCODE=AAAA|SAMPLE=S1 151s ID> SEQ1|BARCODE=AAAA|SAMPLE=S1 -> SEQ1|BARCODE=AAAA|SAMPLE=S1 151s ID> SEQ2|BARCODE=AAAA|SAMPLE=S2 -> SEQ2|BARCODE=AAAA|SAMPLE=S1 151s ID> SEQ3|BARCODE=AAAA|SAMPLE=S3 -> SEQ3|BARCODE=AAAA|SAMPLE=S1 151s ID> SEQ4|BARCODE=CCCC|SAMPLE=S1 -> SEQ4|BARCODE=CCCC|SAMPLE=S1 151s ID> SEQ5|BARCODE=CCCC|SAMPLE=S2 -> SEQ5|BARCODE=CCCC|SAMPLE=S1 151s ID> SEQ6|BARCODE=GGGG|SAMPLE=S2 -> SEQ6|BARCODE=GGGG|SAMPLE=S2 151s ID> SEQ7|BARCODE=GGGG|SAMPLE=S2 -> SEQ7|BARCODE=GGGG|SAMPLE=S2 151s <- test_consensusUnify() 0.000 151s -> test_deletionUnify() 151s ID> SEQ0|BARCODE=AAAA|SAMPLE=S1 -> False 151s ID> SEQ1|BARCODE=AAAA|SAMPLE=S1 -> False 151s ID> SEQ2|BARCODE=AAAA|SAMPLE=S2 -> False 151s ID> SEQ3|BARCODE=AAAA|SAMPLE=S3 -> False 151s ID> SEQ4|BARCODE=CCCC|SAMPLE=S1 -> False 151s ID> SEQ5|BARCODE=CCCC|SAMPLE=S2 -> False 151s ID> SEQ6|BARCODE=GGGG|SAMPLE=S2 -> True 151s ID> SEQ7|BARCODE=GGGG|SAMPLE=S2 -> True 151s <- test_deletionUnify() 0.000 151s autopkgtest [22:23:21]: test pybuild-autopkgtest: -----------------------] 152s autopkgtest [22:23:22]: test pybuild-autopkgtest: - - - - - - - - - - results - - - - - - - - - - 152s pybuild-autopkgtest PASS 152s autopkgtest [22:23:22]: @@@@@@@@@@@@@@@@@@@@ summary 152s pybuild-autopkgtest PASS 162s Creating nova instance adt-noble-s390x-presto-20240317-222050-juju-7f2275-prod-proposed-migration-environment-2 from image adt/ubuntu-noble-s390x-server-20240316.img (UUID 7afe023c-7cb8-41b6-91a7-c69e7d1e7c0d)...