0s autopkgtest [15:18:54]: starting date and time: 2024-03-23 15:18:54+0000
  0s autopkgtest [15:18:54]: git checkout: 4a1cd702 l/adt_testbed: don't blame the testbed for unsolvable build deps
  0s autopkgtest [15:18:54]: host juju-7f2275-prod-proposed-migration-environment-3; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work.45251vmc/out --timeout-copy=6000 --setup-commands /home/ubuntu/autopkgtest-cloud/worker-config-production/setup-canonical.sh --setup-commands /home/ubuntu/autopkgtest/setup-commands/setup-testbed --apt-pocket=proposed=src:python-pysam,src:curl,src:gnutls28,src:htslib,src:libpsl,src:nettle,src:openssl --apt-upgrade iva --timeout-short=300 --timeout-copy=20000 --timeout-build=20000 '--env=ADT_TEST_TRIGGERS=python-pysam/0.22.0+ds-1build1 curl/8.5.0-2ubuntu7 gnutls28/3.8.3-1.1ubuntu2 htslib/1.19+ds-1.1build2 libpsl/0.21.2-1.1 nettle/3.9.1-2.2 openssl/3.0.13-0ubuntu2' -- ssh -s /home/ubuntu/autopkgtest/ssh-setup/nova -- --flavor autopkgtest --security-groups autopkgtest-juju-7f2275-prod-proposed-migration-environment-3@bos02-ppc64el-4.secgroup --name adt-noble-ppc64el-iva-20240323-151854-juju-7f2275-prod-proposed-migration-environment-3 --image adt/ubuntu-noble-ppc64el-server --keyname testbed-juju-7f2275-prod-proposed-migration-environment-3 --net-id=net_prod-proposed-migration -e TERM=linux -e ''"'"'http_proxy=http://squid.internal:3128'"'"'' -e ''"'"'https_proxy=http://squid.internal:3128'"'"'' -e ''"'"'no_proxy=127.0.0.1,127.0.1.1,login.ubuntu.com,localhost,localdomain,novalocal,internal,archive.ubuntu.com,ports.ubuntu.com,security.ubuntu.com,ddebs.ubuntu.com,changelogs.ubuntu.com,launchpadlibrarian.net,launchpadcontent.net,launchpad.net,10.24.0.0/24,keystone.ps5.canonical.com,objectstorage.prodstack5.canonical.com'"'"'' --mirror=http://ftpmaster.internal/ubuntu/
104s autopkgtest [15:20:38]: testbed dpkg architecture: ppc64el
104s autopkgtest [15:20:38]: testbed apt version: 2.7.12
104s autopkgtest [15:20:38]: @@@@@@@@@@@@@@@@@@@@ test bed setup
105s Get:1 http://ftpmaster.internal/ubuntu noble-proposed InRelease [117 kB]
105s Get:2 http://ftpmaster.internal/ubuntu noble-proposed/restricted Sources [6540 B]
105s Get:3 http://ftpmaster.internal/ubuntu noble-proposed/multiverse Sources [56.9 kB]
105s Get:4 http://ftpmaster.internal/ubuntu noble-proposed/main Sources [493 kB]
106s Get:5 http://ftpmaster.internal/ubuntu noble-proposed/universe Sources [3969 kB]
107s Get:6 http://ftpmaster.internal/ubuntu noble-proposed/main ppc64el Packages [659 kB]
107s Get:7 http://ftpmaster.internal/ubuntu noble-proposed/main ppc64el c-n-f Metadata [3116 B]
107s Get:8 http://ftpmaster.internal/ubuntu noble-proposed/restricted ppc64el Packages [1372 B]
107s Get:9 http://ftpmaster.internal/ubuntu noble-proposed/restricted ppc64el c-n-f Metadata [116 B]
107s Get:10 http://ftpmaster.internal/ubuntu noble-proposed/universe ppc64el Packages [4248 kB]
108s Get:11 http://ftpmaster.internal/ubuntu noble-proposed/universe ppc64el c-n-f Metadata [8652 B]
108s Get:12 http://ftpmaster.internal/ubuntu noble-proposed/multiverse ppc64el Packages [60.8 kB]
108s Get:13 http://ftpmaster.internal/ubuntu noble-proposed/multiverse ppc64el c-n-f Metadata [116 B]
111s Fetched 9623 kB in 4s (2177 kB/s)
111s Reading package lists...
114s Reading package lists...
114s Building dependency tree...
114s Reading state information...
114s Calculating upgrade...
114s The following packages will be REMOVED:
114s   libssl3
114s The following NEW packages will be installed:
114s   libssl3t64
114s The following packages have been kept back:
114s   curl
114s The following packages will be upgraded:
114s   openssl
114s 1 upgraded, 1 newly installed, 1 to remove and 1 not upgraded.
114s Need to get 3151 kB of archives.
114s After this operation, 73.7 kB of additional disk space will be used.
114s Get:1 http://ftpmaster.internal/ubuntu noble-proposed/main ppc64el openssl ppc64el 3.0.13-0ubuntu2 [1026 kB]
116s Get:2 http://ftpmaster.internal/ubuntu noble-proposed/main ppc64el libssl3t64 ppc64el 3.0.13-0ubuntu2 [2125 kB]
117s Fetched 3151 kB in 2s (1389 kB/s)
117s (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 ... 70156 files and directories currently installed.)
117s Preparing to unpack .../openssl_3.0.13-0ubuntu2_ppc64el.deb ...
117s Unpacking openssl (3.0.13-0ubuntu2) over (3.0.10-1ubuntu4) ...
117s dpkg: libssl3:ppc64el: dependency problems, but removing anyway as you requested:
117s  wget depends on libssl3 (>= 3.0.0).
117s  tnftp depends on libssl3 (>= 3.0.0).
117s  tcpdump depends on libssl3 (>= 3.0.0).
117s  systemd-resolved depends on libssl3 (>= 3.0.0).
117s  systemd depends on libssl3 (>= 3.0.0).
117s  sudo depends on libssl3 (>= 3.0.0).
117s  rsync depends on libssl3 (>= 3.0.0).
117s  python3-cryptography depends on libssl3 (>= 3.0.0).
117s  openssh-server depends on libssl3 (>= 3.0.10).
117s  openssh-client depends on libssl3 (>= 3.0.10).
117s  linux-headers-6.8.0-11-generic depends on libssl3 (>= 3.0.0).
117s  libsystemd-shared:ppc64el depends on libssl3 (>= 3.0.0).
117s  libssh-4:ppc64el depends on libssl3 (>= 3.0.0).
117s  libsasl2-modules:ppc64el depends on libssl3 (>= 3.0.0).
117s  libsasl2-2:ppc64el depends on libssl3 (>= 3.0.0).
117s  libpython3.12-minimal:ppc64el depends on libssl3 (>= 3.0.0).
117s  libpython3.11-minimal:ppc64el depends on libssl3 (>= 3.0.0).
117s  libnvme1 depends on libssl3 (>= 3.0.0).
117s  libkrb5-3:ppc64el depends on libssl3 (>= 3.0.0).
117s  libkmod2:ppc64el depends on libssl3 (>= 3.0.0).
117s  libfido2-1:ppc64el depends on libssl3 (>= 3.0.0).
117s  libcurl4:ppc64el depends on libssl3 (>= 3.0.0).
117s  libcryptsetup12:ppc64el depends on libssl3 (>= 3.0.0).
117s  kmod depends on libssl3 (>= 3.0.0).
117s  dhcpcd-base depends on libssl3 (>= 3.0.0).
117s  bind9-libs:ppc64el depends on libssl3 (>= 3.0.0).
117s 
117s (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 ... 70156 files and directories currently installed.)
117s Removing libssl3:ppc64el (3.0.10-1ubuntu4) ...
117s Selecting previously unselected package libssl3t64:ppc64el.
117s (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 ... 70145 files and directories currently installed.)
117s Preparing to unpack .../libssl3t64_3.0.13-0ubuntu2_ppc64el.deb ...
117s Unpacking libssl3t64:ppc64el (3.0.13-0ubuntu2) ...
117s Setting up libssl3t64:ppc64el (3.0.13-0ubuntu2) ...
117s Setting up openssl (3.0.13-0ubuntu2) ...
117s Processing triggers for man-db (2.12.0-3) ...
118s Processing triggers for libc-bin (2.39-0ubuntu6) ...
118s Reading package lists...
118s Building dependency tree...
118s Reading state information...
118s 0 upgraded, 0 newly installed, 0 to remove and 1 not upgraded.
119s sh: Attempting to set up Debian/Ubuntu apt sources automatically
119s sh: Distribution appears to be Ubuntu
120s Reading package lists...
120s Building dependency tree...
120s Reading state information...
120s eatmydata is already the newest version (131-1).
120s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
120s Reading package lists...
121s Building dependency tree...
121s Reading state information...
121s dbus is already the newest version (1.14.10-4ubuntu1).
121s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
121s Reading package lists...
121s Building dependency tree...
121s Reading state information...
121s rng-tools-debian is already the newest version (2.4).
121s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
121s Reading package lists...
121s Building dependency tree...
121s Reading state information...
121s The following packages will be REMOVED:
121s   cloud-init* python3-configobj* python3-debconf*
122s 0 upgraded, 0 newly installed, 3 to remove and 0 not upgraded.
122s After this operation, 3256 kB disk space will be freed.
122s (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 ... 70158 files and directories currently installed.)
122s Removing cloud-init (24.1.2-0ubuntu1) ...
122s Removing python3-configobj (5.0.8-3) ...
122s Removing python3-debconf (1.5.86) ...
122s Processing triggers for man-db (2.12.0-3) ...
123s (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 ... 69769 files and directories currently installed.)
123s Purging configuration files for cloud-init (24.1.2-0ubuntu1) ...
123s dpkg: warning: while removing cloud-init, directory '/etc/cloud/cloud.cfg.d' not empty so not removed
123s Processing triggers for rsyslog (8.2312.0-3ubuntu3) ...
123s invoke-rc.d: policy-rc.d denied execution of try-restart.
123s Reading package lists...
123s Building dependency tree...
123s Reading state information...
124s linux-generic is already the newest version (6.8.0-11.11+1).
124s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
124s Hit:1 http://ftpmaster.internal/ubuntu noble InRelease
124s Hit:2 http://ftpmaster.internal/ubuntu noble-updates InRelease
124s Hit:3 http://ftpmaster.internal/ubuntu noble-security InRelease
127s Reading package lists...
127s Reading package lists...
127s Building dependency tree...
127s Reading state information...
127s Calculating upgrade...
127s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
127s Reading package lists...
127s Building dependency tree...
127s Reading state information...
127s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
128s autopkgtest [15:21:02]: rebooting testbed after setup commands that affected boot
294s autopkgtest [15:23:48]: testbed running kernel: Linux 6.8.0-11-generic #11-Ubuntu SMP Wed Feb 14 00:33:03 UTC 2024
297s autopkgtest [15:23:51]: @@@@@@@@@@@@@@@@@@@@ apt-source iva
301s Get:1 http://ftpmaster.internal/ubuntu noble/universe iva 1.0.11+ds-5 (dsc) [2289 B]
301s Get:2 http://ftpmaster.internal/ubuntu noble/universe iva 1.0.11+ds-5 (tar) [8681 kB]
301s Get:3 http://ftpmaster.internal/ubuntu noble/universe iva 1.0.11+ds-5 (diff) [5992 B]
301s gpgv: Signature made Thu Feb  1 12:52:13 2024 UTC
301s gpgv:                using RSA key F1F007320A035541F0A663CA578A0494D1C646D1
301s gpgv:                issuer "tille@debian.org"
301s gpgv: Can't check signature: No public key
301s dpkg-source: warning: cannot verify inline signature for ./iva_1.0.11+ds-5.dsc: no acceptable signature found
301s autopkgtest [15:23:55]: testing package iva version 1.0.11+ds-5
302s autopkgtest [15:23:56]: build not needed
303s autopkgtest [15:23:57]: test test-example: preparing testbed
307s Reading package lists...
307s Building dependency tree...
307s Reading state information...
307s Starting pkgProblemResolver with broken count: 0
307s Starting 2 pkgProblemResolver with broken count: 0
307s Done
307s The following additional packages will be installed:
307s   adwaita-icon-theme at-spi2-common ca-certificates-java default-jre
307s   default-jre-headless fastaq fontconfig fontconfig-config fonts-dejavu-core
307s   fonts-dejavu-mono gtk-update-icon-cache hicolor-icon-theme
307s   humanity-icon-theme iva java-common kmc libasound2 libasound2-data
307s   libatk1.0-0 libavahi-client3 libavahi-common-data libavahi-common3
307s   libbambamc0 libblas3 libcairo2 libcups2 libdatrie1 libdeflate0
307s   libdrm-amdgpu1 libdrm-nouveau2 libdrm-radeon1 libfontconfig1
307s   libgdk-pixbuf-2.0-0 libgdk-pixbuf2.0-common libgfortran5 libgif7 libgl1
307s   libgl1-mesa-dri libglapi-mesa libglvnd0 libglx-mesa0 libglx0 libgraphite2-3
307s   libgtk2.0-0 libgtk2.0-common libharfbuzz0b libhts3 libhtscodecs2 libjbig0
307s   libjbzip2-java libjpeg-turbo8 libjpeg8 liblapack3 liblcms2-2 liblerc4
307s   libllvm17 libpango-1.0-0 libpangocairo-1.0-0 libpangoft2-1.0-0 libpcsclite1
307s   libpixman-1-0 libsharpyuv0 libthai-data libthai0 libtiff6 libvulkan1
307s   libwebp7 libx11-xcb1 libxcb-dri2-0 libxcb-dri3-0 libxcb-glx0 libxcb-present0
307s   libxcb-randr0 libxcb-render0 libxcb-shm0 libxcb-sync1 libxcb-xfixes0
307s   libxcomposite1 libxcursor1 libxdamage1 libxfixes3 libxi6 libxinerama1
307s   libxrandr2 libxrender1 libxshmfence1 libxtst6 libxxf86vm1 mummer
307s   openjdk-21-jre openjdk-21-jre-headless python3-networkx python3-numpy
307s   python3-packaging python3-pysam samtools smalt trimmomatic ubuntu-mono
307s   x11-common
307s Suggested packages:
307s   libasound2-plugins alsa-utils cups-common gvfs liblcms2-utils pcscd
307s   libnss-mdns fonts-dejavu-extra fonts-ipafont-gothic fonts-ipafont-mincho
307s   fonts-wqy-microhei | fonts-wqy-zenhei fonts-indic python-networkx-doc
307s   python3-gdal python3-matplotlib python3-pydot python3-pygraphviz
307s   python3-scipy gcc gfortran python3-dev python3-pytest cwltool
307s Recommended packages:
307s   librsvg2-common r-base-core bioperl alsa-ucm-conf alsa-topology-conf
307s   libgdk-pixbuf2.0-bin libgl1-amber-dri libgail-common libgtk2.0-bin
307s   mesa-vulkan-drivers | vulkan-icd libatk-wrapper-java-jni fonts-dejavu-extra
307s The following NEW packages will be installed:
307s   adwaita-icon-theme at-spi2-common autopkgtest-satdep ca-certificates-java
307s   default-jre default-jre-headless fastaq fontconfig fontconfig-config
307s   fonts-dejavu-core fonts-dejavu-mono gtk-update-icon-cache hicolor-icon-theme
307s   humanity-icon-theme iva java-common kmc libasound2 libasound2-data
307s   libatk1.0-0 libavahi-client3 libavahi-common-data libavahi-common3
307s   libbambamc0 libblas3 libcairo2 libcups2 libdatrie1 libdeflate0
307s   libdrm-amdgpu1 libdrm-nouveau2 libdrm-radeon1 libfontconfig1
307s   libgdk-pixbuf-2.0-0 libgdk-pixbuf2.0-common libgfortran5 libgif7 libgl1
307s   libgl1-mesa-dri libglapi-mesa libglvnd0 libglx-mesa0 libglx0 libgraphite2-3
307s   libgtk2.0-0 libgtk2.0-common libharfbuzz0b libhts3 libhtscodecs2 libjbig0
307s   libjbzip2-java libjpeg-turbo8 libjpeg8 liblapack3 liblcms2-2 liblerc4
307s   libllvm17 libpango-1.0-0 libpangocairo-1.0-0 libpangoft2-1.0-0 libpcsclite1
307s   libpixman-1-0 libsharpyuv0 libthai-data libthai0 libtiff6 libvulkan1
307s   libwebp7 libx11-xcb1 libxcb-dri2-0 libxcb-dri3-0 libxcb-glx0 libxcb-present0
307s   libxcb-randr0 libxcb-render0 libxcb-shm0 libxcb-sync1 libxcb-xfixes0
307s   libxcomposite1 libxcursor1 libxdamage1 libxfixes3 libxi6 libxinerama1
307s   libxrandr2 libxrender1 libxshmfence1 libxtst6 libxxf86vm1 mummer
307s   openjdk-21-jre openjdk-21-jre-headless python3-networkx python3-numpy
307s   python3-packaging python3-pysam samtools smalt trimmomatic ubuntu-mono
307s   x11-common
307s 0 upgraded, 101 newly installed, 0 to remove and 0 not upgraded.
307s Need to get 120 MB/120 MB of archives.
307s After this operation, 569 MB of additional disk space will be used.
307s Get:1 /tmp/autopkgtest.495b0q/1-autopkgtest-satdep.deb autopkgtest-satdep ppc64el 0 [728 B]
307s Get:2 http://ftpmaster.internal/ubuntu noble/main ppc64el libgdk-pixbuf2.0-common all 2.42.10+dfsg-3 [7624 B]
308s Get:3 http://ftpmaster.internal/ubuntu noble/main ppc64el libjpeg-turbo8 ppc64el 2.1.5-2ubuntu1 [212 kB]
308s Get:4 http://ftpmaster.internal/ubuntu noble/main ppc64el libjpeg8 ppc64el 8c-2ubuntu11 [2148 B]
308s Get:5 http://ftpmaster.internal/ubuntu noble/main ppc64el libdeflate0 ppc64el 1.19-1 [61.9 kB]
308s Get:6 http://ftpmaster.internal/ubuntu noble/main ppc64el libjbig0 ppc64el 2.1-6.1ubuntu1 [34.7 kB]
308s Get:7 http://ftpmaster.internal/ubuntu noble/main ppc64el liblerc4 ppc64el 4.0.0+ds-4ubuntu1 [266 kB]
308s Get:8 http://ftpmaster.internal/ubuntu noble/main ppc64el libsharpyuv0 ppc64el 1.3.2-0.4 [28.7 kB]
308s Get:9 http://ftpmaster.internal/ubuntu noble/main ppc64el libwebp7 ppc64el 1.3.2-0.4 [312 kB]
308s Get:10 http://ftpmaster.internal/ubuntu noble/main ppc64el libtiff6 ppc64el 4.5.1+git230720-3ubuntu1 [323 kB]
308s Get:11 http://ftpmaster.internal/ubuntu noble/main ppc64el libgdk-pixbuf-2.0-0 ppc64el 2.42.10+dfsg-3 [186 kB]
308s Get:12 http://ftpmaster.internal/ubuntu noble/main ppc64el gtk-update-icon-cache ppc64el 3.24.40-2ubuntu1 [53.2 kB]
308s Get:13 http://ftpmaster.internal/ubuntu noble/main ppc64el hicolor-icon-theme all 0.17-2 [9976 B]
308s Get:14 http://ftpmaster.internal/ubuntu noble/main ppc64el humanity-icon-theme all 0.6.16 [1282 kB]
309s Get:15 http://ftpmaster.internal/ubuntu noble/main ppc64el ubuntu-mono all 24.04-0ubuntu1 [151 kB]
309s Get:16 http://ftpmaster.internal/ubuntu noble/main ppc64el adwaita-icon-theme all 46~rc-1 [723 kB]
309s Get:17 http://ftpmaster.internal/ubuntu noble/main ppc64el at-spi2-common all 2.50.0-1 [7864 B]
309s Get:18 http://ftpmaster.internal/ubuntu noble/main ppc64el ca-certificates-java all 20240118 [11.6 kB]
309s Get:19 http://ftpmaster.internal/ubuntu noble/main ppc64el java-common all 0.75+exp1 [6798 B]
309s Get:20 http://ftpmaster.internal/ubuntu noble/main ppc64el libavahi-common-data ppc64el 0.8-13ubuntu2 [29.5 kB]
309s Get:21 http://ftpmaster.internal/ubuntu noble/main ppc64el libavahi-common3 ppc64el 0.8-13ubuntu2 [25.8 kB]
309s Get:22 http://ftpmaster.internal/ubuntu noble/main ppc64el libavahi-client3 ppc64el 0.8-13ubuntu2 [30.6 kB]
309s Get:23 http://ftpmaster.internal/ubuntu noble/main ppc64el libcups2 ppc64el 2.4.6-0ubuntu3 [344 kB]
309s Get:24 http://ftpmaster.internal/ubuntu noble/main ppc64el liblcms2-2 ppc64el 2.14-2 [243 kB]
309s Get:25 http://ftpmaster.internal/ubuntu noble/main ppc64el fonts-dejavu-mono all 2.37-8 [502 kB]
309s Get:26 http://ftpmaster.internal/ubuntu noble/main ppc64el fonts-dejavu-core all 2.37-8 [835 kB]
309s Get:27 http://ftpmaster.internal/ubuntu noble/main ppc64el fontconfig-config ppc64el 2.15.0-1ubuntu1 [37.0 kB]
309s Get:28 http://ftpmaster.internal/ubuntu noble/main ppc64el libfontconfig1 ppc64el 2.15.0-1ubuntu1 [190 kB]
309s Get:29 http://ftpmaster.internal/ubuntu noble/main ppc64el libasound2-data all 1.2.10-3build1 [20.7 kB]
309s Get:30 http://ftpmaster.internal/ubuntu noble/main ppc64el libasound2 ppc64el 1.2.10-3build1 [496 kB]
309s Get:31 http://ftpmaster.internal/ubuntu noble/main ppc64el libgraphite2-3 ppc64el 1.3.14-2 [105 kB]
309s Get:32 http://ftpmaster.internal/ubuntu noble/main ppc64el libharfbuzz0b ppc64el 8.3.0-2 [576 kB]
309s Get:33 http://ftpmaster.internal/ubuntu noble/main ppc64el libpcsclite1 ppc64el 2.0.0-1 [27.9 kB]
309s Get:34 http://ftpmaster.internal/ubuntu noble/main ppc64el openjdk-21-jre-headless ppc64el 21.0.2+13-2 [45.8 MB]
313s Get:35 http://ftpmaster.internal/ubuntu noble/main ppc64el default-jre-headless ppc64el 2:1.21-75+exp1 [3102 B]
313s Get:36 http://ftpmaster.internal/ubuntu noble/main ppc64el libgtk2.0-common all 2.24.33-2ubuntu2 [125 kB]
313s Get:37 http://ftpmaster.internal/ubuntu noble/main ppc64el libatk1.0-0 ppc64el 2.50.0-1 [57.8 kB]
313s Get:38 http://ftpmaster.internal/ubuntu noble/main ppc64el libpixman-1-0 ppc64el 0.42.2-1 [300 kB]
313s Get:39 http://ftpmaster.internal/ubuntu noble/main ppc64el libxcb-render0 ppc64el 1.15-1 [17.2 kB]
313s Get:40 http://ftpmaster.internal/ubuntu noble/main ppc64el libxcb-shm0 ppc64el 1.15-1 [5896 B]
313s Get:41 http://ftpmaster.internal/ubuntu noble/main ppc64el libxrender1 ppc64el 1:0.9.10-1.1 [23.3 kB]
313s Get:42 http://ftpmaster.internal/ubuntu noble/main ppc64el libcairo2 ppc64el 1.18.0-1 [735 kB]
313s Get:43 http://ftpmaster.internal/ubuntu noble/main ppc64el fontconfig ppc64el 2.15.0-1ubuntu1 [192 kB]
313s Get:44 http://ftpmaster.internal/ubuntu noble/main ppc64el libthai-data all 0.1.29-2 [158 kB]
313s Get:45 http://ftpmaster.internal/ubuntu noble/main ppc64el libdatrie1 ppc64el 0.2.13-3 [25.1 kB]
313s Get:46 http://ftpmaster.internal/ubuntu noble/main ppc64el libthai0 ppc64el 0.1.29-2 [21.4 kB]
313s Get:47 http://ftpmaster.internal/ubuntu noble/main ppc64el libpango-1.0-0 ppc64el 1.51.0+ds-4 [266 kB]
313s Get:48 http://ftpmaster.internal/ubuntu noble/main ppc64el libpangoft2-1.0-0 ppc64el 1.51.0+ds-4 [49.5 kB]
313s Get:49 http://ftpmaster.internal/ubuntu noble/main ppc64el libpangocairo-1.0-0 ppc64el 1.51.0+ds-4 [31.2 kB]
313s Get:50 http://ftpmaster.internal/ubuntu noble/main ppc64el libxcomposite1 ppc64el 1:0.4.5-1build2 [7400 B]
313s Get:51 http://ftpmaster.internal/ubuntu noble/main ppc64el libxfixes3 ppc64el 1:6.0.0-2 [11.6 kB]
313s Get:52 http://ftpmaster.internal/ubuntu noble/main ppc64el libxcursor1 ppc64el 1:1.2.1-1 [26.9 kB]
313s Get:53 http://ftpmaster.internal/ubuntu noble/main ppc64el libxdamage1 ppc64el 1:1.1.6-1 [6320 B]
313s Get:54 http://ftpmaster.internal/ubuntu noble/main ppc64el libxi6 ppc64el 2:1.8.1-1 [37.9 kB]
313s Get:55 http://ftpmaster.internal/ubuntu noble/main ppc64el libxinerama1 ppc64el 2:1.1.4-3 [7658 B]
313s Get:56 http://ftpmaster.internal/ubuntu noble/main ppc64el libxrandr2 ppc64el 2:1.5.2-2 [22.7 kB]
313s Get:57 http://ftpmaster.internal/ubuntu noble/main ppc64el libgtk2.0-0 ppc64el 2.24.33-2ubuntu2 [2201 kB]
313s Get:58 http://ftpmaster.internal/ubuntu noble/main ppc64el libglvnd0 ppc64el 1.7.0-1 [84.0 kB]
313s Get:59 http://ftpmaster.internal/ubuntu noble/main ppc64el libglapi-mesa ppc64el 24.0.1-1ubuntu1 [41.8 kB]
313s Get:60 http://ftpmaster.internal/ubuntu noble/main ppc64el libx11-xcb1 ppc64el 2:1.8.7-1 [7866 B]
313s Get:61 http://ftpmaster.internal/ubuntu noble/main ppc64el libxcb-dri2-0 ppc64el 1.15-1 [7444 B]
313s Get:62 http://ftpmaster.internal/ubuntu noble/main ppc64el libxcb-dri3-0 ppc64el 1.15-1 [7392 B]
313s Get:63 http://ftpmaster.internal/ubuntu noble/main ppc64el libxcb-glx0 ppc64el 1.15-1 [26.2 kB]
313s Get:64 http://ftpmaster.internal/ubuntu noble/main ppc64el libxcb-present0 ppc64el 1.15-1 [5814 B]
313s Get:65 http://ftpmaster.internal/ubuntu noble/main ppc64el libxcb-randr0 ppc64el 1.15-1 [18.9 kB]
313s Get:66 http://ftpmaster.internal/ubuntu noble/main ppc64el libxcb-sync1 ppc64el 1.15-1 [9720 B]
313s Get:67 http://ftpmaster.internal/ubuntu noble/main ppc64el libxcb-xfixes0 ppc64el 1.15-1 [10.6 kB]
313s Get:68 http://ftpmaster.internal/ubuntu noble/main ppc64el libxshmfence1 ppc64el 1.3-1build4 [5566 B]
313s Get:69 http://ftpmaster.internal/ubuntu noble/main ppc64el libxxf86vm1 ppc64el 1:1.1.4-1build3 [11.8 kB]
313s Get:70 http://ftpmaster.internal/ubuntu noble/main ppc64el libvulkan1 ppc64el 1.3.275.0-1 [176 kB]
313s Get:71 http://ftpmaster.internal/ubuntu noble/main ppc64el libdrm-amdgpu1 ppc64el 2.4.120-2 [24.5 kB]
313s Get:72 http://ftpmaster.internal/ubuntu noble/main ppc64el libdrm-nouveau2 ppc64el 2.4.120-2 [21.2 kB]
313s Get:73 http://ftpmaster.internal/ubuntu noble/main ppc64el libdrm-radeon1 ppc64el 2.4.120-2 [30.6 kB]
313s Get:74 http://ftpmaster.internal/ubuntu noble/main ppc64el libllvm17 ppc64el 1:17.0.6-5build1 [27.3 MB]
315s Get:75 http://ftpmaster.internal/ubuntu noble/main ppc64el libgl1-mesa-dri ppc64el 24.0.1-1ubuntu1 [5885 kB]
315s Get:76 http://ftpmaster.internal/ubuntu noble/main ppc64el libglx-mesa0 ppc64el 24.0.1-1ubuntu1 [160 kB]
315s Get:77 http://ftpmaster.internal/ubuntu noble/main ppc64el libglx0 ppc64el 1.7.0-1 [42.1 kB]
315s Get:78 http://ftpmaster.internal/ubuntu noble/main ppc64el libgl1 ppc64el 1.7.0-1 [108 kB]
315s Get:79 http://ftpmaster.internal/ubuntu noble/main ppc64el libgif7 ppc64el 5.2.1-2.5 [39.6 kB]
315s Get:80 http://ftpmaster.internal/ubuntu noble/main ppc64el x11-common all 1:7.7+23ubuntu2 [23.4 kB]
315s Get:81 http://ftpmaster.internal/ubuntu noble/main ppc64el libxtst6 ppc64el 2:1.2.3-1.1 [15.4 kB]
315s Get:82 http://ftpmaster.internal/ubuntu noble/main ppc64el openjdk-21-jre ppc64el 21.0.2+13-2 [253 kB]
315s Get:83 http://ftpmaster.internal/ubuntu noble/main ppc64el default-jre ppc64el 2:1.21-75+exp1 [922 B]
315s Get:84 http://ftpmaster.internal/ubuntu noble/universe ppc64el libhtscodecs2 ppc64el 1.6.0-1 [110 kB]
315s Get:85 http://ftpmaster.internal/ubuntu noble/universe ppc64el libhts3 ppc64el 1.18+ds-1 [553 kB]
315s Get:86 http://ftpmaster.internal/ubuntu noble/universe ppc64el samtools ppc64el 1.19.2-1 [669 kB]
315s Get:87 http://ftpmaster.internal/ubuntu noble/universe ppc64el fastaq all 3.17.0-6 [47.9 kB]
315s Get:88 http://ftpmaster.internal/ubuntu noble/main ppc64el python3-networkx all 2.8.8-1ubuntu1 [1468 kB]
315s Get:89 http://ftpmaster.internal/ubuntu noble/main ppc64el python3-packaging all 23.2-1 [40.6 kB]
315s Get:90 http://ftpmaster.internal/ubuntu noble/universe ppc64el python3-pysam ppc64el 0.22.0+ds-1 [5037 kB]
316s Get:91 http://ftpmaster.internal/ubuntu noble/universe ppc64el kmc ppc64el 3.2.4+dfsg-1 [1002 kB]
316s Get:92 http://ftpmaster.internal/ubuntu noble/universe ppc64el mummer ppc64el 3.23+dfsg-8 [714 kB]
316s Get:93 http://ftpmaster.internal/ubuntu noble/universe ppc64el libbambamc0 ppc64el 0.0.50-6 [43.9 kB]
316s Get:94 http://ftpmaster.internal/ubuntu noble/universe ppc64el smalt ppc64el 0.7.6-13 [132 kB]
316s Get:95 http://ftpmaster.internal/ubuntu noble/main ppc64el libblas3 ppc64el 3.12.0-3 [227 kB]
316s Get:96 http://ftpmaster.internal/ubuntu noble/main ppc64el libgfortran5 ppc64el 14-20240303-1ubuntu1 [574 kB]
316s Get:97 http://ftpmaster.internal/ubuntu noble/main ppc64el liblapack3 ppc64el 3.12.0-3 [2804 kB]
316s Get:98 http://ftpmaster.internal/ubuntu noble/main ppc64el python3-numpy ppc64el 1:1.24.2-2 [5581 kB]
316s Get:99 http://ftpmaster.internal/ubuntu noble/universe ppc64el iva ppc64el 1.0.11+ds-5 [8582 kB]
317s Get:100 http://ftpmaster.internal/ubuntu noble/universe ppc64el libjbzip2-java all 0.9.1-8 [42.4 kB]
317s Get:101 http://ftpmaster.internal/ubuntu noble/universe ppc64el trimmomatic all 0.39+dfsg-2 [758 kB]
317s Fetched 120 MB in 9s (12.8 MB/s)
317s Selecting previously unselected package libgdk-pixbuf2.0-common.
317s (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 ... 69714 files and directories currently installed.)
317s Preparing to unpack .../000-libgdk-pixbuf2.0-common_2.42.10+dfsg-3_all.deb ...
317s Unpacking libgdk-pixbuf2.0-common (2.42.10+dfsg-3) ...
317s Selecting previously unselected package libjpeg-turbo8:ppc64el.
317s Preparing to unpack .../001-libjpeg-turbo8_2.1.5-2ubuntu1_ppc64el.deb ...
317s Unpacking libjpeg-turbo8:ppc64el (2.1.5-2ubuntu1) ...
317s Selecting previously unselected package libjpeg8:ppc64el.
317s Preparing to unpack .../002-libjpeg8_8c-2ubuntu11_ppc64el.deb ...
317s Unpacking libjpeg8:ppc64el (8c-2ubuntu11) ...
317s Selecting previously unselected package libdeflate0:ppc64el.
317s Preparing to unpack .../003-libdeflate0_1.19-1_ppc64el.deb ...
317s Unpacking libdeflate0:ppc64el (1.19-1) ...
317s Selecting previously unselected package libjbig0:ppc64el.
317s Preparing to unpack .../004-libjbig0_2.1-6.1ubuntu1_ppc64el.deb ...
317s Unpacking libjbig0:ppc64el (2.1-6.1ubuntu1) ...
317s Selecting previously unselected package liblerc4:ppc64el.
317s Preparing to unpack .../005-liblerc4_4.0.0+ds-4ubuntu1_ppc64el.deb ...
317s Unpacking liblerc4:ppc64el (4.0.0+ds-4ubuntu1) ...
317s Selecting previously unselected package libsharpyuv0:ppc64el.
317s Preparing to unpack .../006-libsharpyuv0_1.3.2-0.4_ppc64el.deb ...
317s Unpacking libsharpyuv0:ppc64el (1.3.2-0.4) ...
317s Selecting previously unselected package libwebp7:ppc64el.
317s Preparing to unpack .../007-libwebp7_1.3.2-0.4_ppc64el.deb ...
317s Unpacking libwebp7:ppc64el (1.3.2-0.4) ...
317s Selecting previously unselected package libtiff6:ppc64el.
317s Preparing to unpack .../008-libtiff6_4.5.1+git230720-3ubuntu1_ppc64el.deb ...
317s Unpacking libtiff6:ppc64el (4.5.1+git230720-3ubuntu1) ...
317s Selecting previously unselected package libgdk-pixbuf-2.0-0:ppc64el.
317s Preparing to unpack .../009-libgdk-pixbuf-2.0-0_2.42.10+dfsg-3_ppc64el.deb ...
317s Unpacking libgdk-pixbuf-2.0-0:ppc64el (2.42.10+dfsg-3) ...
317s Selecting previously unselected package gtk-update-icon-cache.
317s Preparing to unpack .../010-gtk-update-icon-cache_3.24.40-2ubuntu1_ppc64el.deb ...
317s Unpacking gtk-update-icon-cache (3.24.40-2ubuntu1) ...
317s Selecting previously unselected package hicolor-icon-theme.
317s Preparing to unpack .../011-hicolor-icon-theme_0.17-2_all.deb ...
317s Unpacking hicolor-icon-theme (0.17-2) ...
317s Selecting previously unselected package humanity-icon-theme.
317s Preparing to unpack .../012-humanity-icon-theme_0.6.16_all.deb ...
317s Unpacking humanity-icon-theme (0.6.16) ...
318s Selecting previously unselected package ubuntu-mono.
318s Preparing to unpack .../013-ubuntu-mono_24.04-0ubuntu1_all.deb ...
318s Unpacking ubuntu-mono (24.04-0ubuntu1) ...
319s Selecting previously unselected package adwaita-icon-theme.
319s Preparing to unpack .../014-adwaita-icon-theme_46~rc-1_all.deb ...
319s Unpacking adwaita-icon-theme (46~rc-1) ...
319s Selecting previously unselected package at-spi2-common.
319s Preparing to unpack .../015-at-spi2-common_2.50.0-1_all.deb ...
319s Unpacking at-spi2-common (2.50.0-1) ...
319s Selecting previously unselected package ca-certificates-java.
319s Preparing to unpack .../016-ca-certificates-java_20240118_all.deb ...
319s Unpacking ca-certificates-java (20240118) ...
319s Selecting previously unselected package java-common.
319s Preparing to unpack .../017-java-common_0.75+exp1_all.deb ...
319s Unpacking java-common (0.75+exp1) ...
319s Selecting previously unselected package libavahi-common-data:ppc64el.
319s Preparing to unpack .../018-libavahi-common-data_0.8-13ubuntu2_ppc64el.deb ...
319s Unpacking libavahi-common-data:ppc64el (0.8-13ubuntu2) ...
319s Selecting previously unselected package libavahi-common3:ppc64el.
319s Preparing to unpack .../019-libavahi-common3_0.8-13ubuntu2_ppc64el.deb ...
319s Unpacking libavahi-common3:ppc64el (0.8-13ubuntu2) ...
319s Selecting previously unselected package libavahi-client3:ppc64el.
319s Preparing to unpack .../020-libavahi-client3_0.8-13ubuntu2_ppc64el.deb ...
319s Unpacking libavahi-client3:ppc64el (0.8-13ubuntu2) ...
319s Selecting previously unselected package libcups2:ppc64el.
319s Preparing to unpack .../021-libcups2_2.4.6-0ubuntu3_ppc64el.deb ...
319s Unpacking libcups2:ppc64el (2.4.6-0ubuntu3) ...
319s Selecting previously unselected package liblcms2-2:ppc64el.
319s Preparing to unpack .../022-liblcms2-2_2.14-2_ppc64el.deb ...
319s Unpacking liblcms2-2:ppc64el (2.14-2) ...
319s Selecting previously unselected package fonts-dejavu-mono.
319s Preparing to unpack .../023-fonts-dejavu-mono_2.37-8_all.deb ...
319s Unpacking fonts-dejavu-mono (2.37-8) ...
319s Selecting previously unselected package fonts-dejavu-core.
319s Preparing to unpack .../024-fonts-dejavu-core_2.37-8_all.deb ...
319s Unpacking fonts-dejavu-core (2.37-8) ...
319s Selecting previously unselected package fontconfig-config.
319s Preparing to unpack .../025-fontconfig-config_2.15.0-1ubuntu1_ppc64el.deb ...
319s Unpacking fontconfig-config (2.15.0-1ubuntu1) ...
319s Selecting previously unselected package libfontconfig1:ppc64el.
319s Preparing to unpack .../026-libfontconfig1_2.15.0-1ubuntu1_ppc64el.deb ...
319s Unpacking libfontconfig1:ppc64el (2.15.0-1ubuntu1) ...
319s Selecting previously unselected package libasound2-data.
319s Preparing to unpack .../027-libasound2-data_1.2.10-3build1_all.deb ...
319s Unpacking libasound2-data (1.2.10-3build1) ...
319s Selecting previously unselected package libasound2:ppc64el.
319s Preparing to unpack .../028-libasound2_1.2.10-3build1_ppc64el.deb ...
319s Unpacking libasound2:ppc64el (1.2.10-3build1) ...
319s Selecting previously unselected package libgraphite2-3:ppc64el.
319s Preparing to unpack .../029-libgraphite2-3_1.3.14-2_ppc64el.deb ...
319s Unpacking libgraphite2-3:ppc64el (1.3.14-2) ...
319s Selecting previously unselected package libharfbuzz0b:ppc64el.
319s Preparing to unpack .../030-libharfbuzz0b_8.3.0-2_ppc64el.deb ...
319s Unpacking libharfbuzz0b:ppc64el (8.3.0-2) ...
319s Selecting previously unselected package libpcsclite1:ppc64el.
319s Preparing to unpack .../031-libpcsclite1_2.0.0-1_ppc64el.deb ...
319s Unpacking libpcsclite1:ppc64el (2.0.0-1) ...
319s Selecting previously unselected package openjdk-21-jre-headless:ppc64el.
319s Preparing to unpack .../032-openjdk-21-jre-headless_21.0.2+13-2_ppc64el.deb ...
319s Unpacking openjdk-21-jre-headless:ppc64el (21.0.2+13-2) ...
320s Selecting previously unselected package default-jre-headless.
320s Preparing to unpack .../033-default-jre-headless_2%3a1.21-75+exp1_ppc64el.deb ...
320s Unpacking default-jre-headless (2:1.21-75+exp1) ...
321s Selecting previously unselected package libgtk2.0-common.
321s Preparing to unpack .../034-libgtk2.0-common_2.24.33-2ubuntu2_all.deb ...
321s Unpacking libgtk2.0-common (2.24.33-2ubuntu2) ...
321s Selecting previously unselected package libatk1.0-0:ppc64el.
321s Preparing to unpack .../035-libatk1.0-0_2.50.0-1_ppc64el.deb ...
321s Unpacking libatk1.0-0:ppc64el (2.50.0-1) ...
321s Selecting previously unselected package libpixman-1-0:ppc64el.
321s Preparing to unpack .../036-libpixman-1-0_0.42.2-1_ppc64el.deb ...
321s Unpacking libpixman-1-0:ppc64el (0.42.2-1) ...
321s Selecting previously unselected package libxcb-render0:ppc64el.
321s Preparing to unpack .../037-libxcb-render0_1.15-1_ppc64el.deb ...
321s Unpacking libxcb-render0:ppc64el (1.15-1) ...
321s Selecting previously unselected package libxcb-shm0:ppc64el.
321s Preparing to unpack .../038-libxcb-shm0_1.15-1_ppc64el.deb ...
321s Unpacking libxcb-shm0:ppc64el (1.15-1) ...
321s Selecting previously unselected package libxrender1:ppc64el.
321s Preparing to unpack .../039-libxrender1_1%3a0.9.10-1.1_ppc64el.deb ...
321s Unpacking libxrender1:ppc64el (1:0.9.10-1.1) ...
321s Selecting previously unselected package libcairo2:ppc64el.
321s Preparing to unpack .../040-libcairo2_1.18.0-1_ppc64el.deb ...
321s Unpacking libcairo2:ppc64el (1.18.0-1) ...
321s Selecting previously unselected package fontconfig.
321s Preparing to unpack .../041-fontconfig_2.15.0-1ubuntu1_ppc64el.deb ...
321s Unpacking fontconfig (2.15.0-1ubuntu1) ...
321s Selecting previously unselected package libthai-data.
321s Preparing to unpack .../042-libthai-data_0.1.29-2_all.deb ...
321s Unpacking libthai-data (0.1.29-2) ...
321s Selecting previously unselected package libdatrie1:ppc64el.
321s Preparing to unpack .../043-libdatrie1_0.2.13-3_ppc64el.deb ...
321s Unpacking libdatrie1:ppc64el (0.2.13-3) ...
321s Selecting previously unselected package libthai0:ppc64el.
321s Preparing to unpack .../044-libthai0_0.1.29-2_ppc64el.deb ...
321s Unpacking libthai0:ppc64el (0.1.29-2) ...
321s Selecting previously unselected package libpango-1.0-0:ppc64el.
321s Preparing to unpack .../045-libpango-1.0-0_1.51.0+ds-4_ppc64el.deb ...
321s Unpacking libpango-1.0-0:ppc64el (1.51.0+ds-4) ...
321s Selecting previously unselected package libpangoft2-1.0-0:ppc64el.
321s Preparing to unpack .../046-libpangoft2-1.0-0_1.51.0+ds-4_ppc64el.deb ...
321s Unpacking libpangoft2-1.0-0:ppc64el (1.51.0+ds-4) ...
321s Selecting previously unselected package libpangocairo-1.0-0:ppc64el.
321s Preparing to unpack .../047-libpangocairo-1.0-0_1.51.0+ds-4_ppc64el.deb ...
321s Unpacking libpangocairo-1.0-0:ppc64el (1.51.0+ds-4) ...
321s Selecting previously unselected package libxcomposite1:ppc64el.
321s Preparing to unpack .../048-libxcomposite1_1%3a0.4.5-1build2_ppc64el.deb ...
321s Unpacking libxcomposite1:ppc64el (1:0.4.5-1build2) ...
321s Selecting previously unselected package libxfixes3:ppc64el.
321s Preparing to unpack .../049-libxfixes3_1%3a6.0.0-2_ppc64el.deb ...
321s Unpacking libxfixes3:ppc64el (1:6.0.0-2) ...
321s Selecting previously unselected package libxcursor1:ppc64el.
321s Preparing to unpack .../050-libxcursor1_1%3a1.2.1-1_ppc64el.deb ...
321s Unpacking libxcursor1:ppc64el (1:1.2.1-1) ...
321s Selecting previously unselected package libxdamage1:ppc64el.
321s Preparing to unpack .../051-libxdamage1_1%3a1.1.6-1_ppc64el.deb ...
321s Unpacking libxdamage1:ppc64el (1:1.1.6-1) ...
321s Selecting previously unselected package libxi6:ppc64el.
321s Preparing to unpack .../052-libxi6_2%3a1.8.1-1_ppc64el.deb ...
321s Unpacking libxi6:ppc64el (2:1.8.1-1) ...
321s Selecting previously unselected package libxinerama1:ppc64el.
321s Preparing to unpack .../053-libxinerama1_2%3a1.1.4-3_ppc64el.deb ...
321s Unpacking libxinerama1:ppc64el (2:1.1.4-3) ...
321s Selecting previously unselected package libxrandr2:ppc64el.
321s Preparing to unpack .../054-libxrandr2_2%3a1.5.2-2_ppc64el.deb ...
321s Unpacking libxrandr2:ppc64el (2:1.5.2-2) ...
321s Selecting previously unselected package libgtk2.0-0:ppc64el.
321s Preparing to unpack .../055-libgtk2.0-0_2.24.33-2ubuntu2_ppc64el.deb ...
321s Unpacking libgtk2.0-0:ppc64el (2.24.33-2ubuntu2) ...
321s Selecting previously unselected package libglvnd0:ppc64el.
321s Preparing to unpack .../056-libglvnd0_1.7.0-1_ppc64el.deb ...
321s Unpacking libglvnd0:ppc64el (1.7.0-1) ...
321s Selecting previously unselected package libglapi-mesa:ppc64el.
321s Preparing to unpack .../057-libglapi-mesa_24.0.1-1ubuntu1_ppc64el.deb ...
321s Unpacking libglapi-mesa:ppc64el (24.0.1-1ubuntu1) ...
321s Selecting previously unselected package libx11-xcb1:ppc64el.
321s Preparing to unpack .../058-libx11-xcb1_2%3a1.8.7-1_ppc64el.deb ...
321s Unpacking libx11-xcb1:ppc64el (2:1.8.7-1) ...
321s Selecting previously unselected package libxcb-dri2-0:ppc64el.
321s Preparing to unpack .../059-libxcb-dri2-0_1.15-1_ppc64el.deb ...
321s Unpacking libxcb-dri2-0:ppc64el (1.15-1) ...
321s Selecting previously unselected package libxcb-dri3-0:ppc64el.
321s Preparing to unpack .../060-libxcb-dri3-0_1.15-1_ppc64el.deb ...
321s Unpacking libxcb-dri3-0:ppc64el (1.15-1) ...
321s Selecting previously unselected package libxcb-glx0:ppc64el.
321s Preparing to unpack .../061-libxcb-glx0_1.15-1_ppc64el.deb ...
321s Unpacking libxcb-glx0:ppc64el (1.15-1) ...
321s Selecting previously unselected package libxcb-present0:ppc64el.
321s Preparing to unpack .../062-libxcb-present0_1.15-1_ppc64el.deb ...
321s Unpacking libxcb-present0:ppc64el (1.15-1) ...
321s Selecting previously unselected package libxcb-randr0:ppc64el.
321s Preparing to unpack .../063-libxcb-randr0_1.15-1_ppc64el.deb ...
321s Unpacking libxcb-randr0:ppc64el (1.15-1) ...
321s Selecting previously unselected package libxcb-sync1:ppc64el.
321s Preparing to unpack .../064-libxcb-sync1_1.15-1_ppc64el.deb ...
321s Unpacking libxcb-sync1:ppc64el (1.15-1) ...
321s Selecting previously unselected package libxcb-xfixes0:ppc64el.
321s Preparing to unpack .../065-libxcb-xfixes0_1.15-1_ppc64el.deb ...
321s Unpacking libxcb-xfixes0:ppc64el (1.15-1) ...
321s Selecting previously unselected package libxshmfence1:ppc64el.
321s Preparing to unpack .../066-libxshmfence1_1.3-1build4_ppc64el.deb ...
321s Unpacking libxshmfence1:ppc64el (1.3-1build4) ...
321s Selecting previously unselected package libxxf86vm1:ppc64el.
321s Preparing to unpack .../067-libxxf86vm1_1%3a1.1.4-1build3_ppc64el.deb ...
321s Unpacking libxxf86vm1:ppc64el (1:1.1.4-1build3) ...
321s Selecting previously unselected package libvulkan1:ppc64el.
321s Preparing to unpack .../068-libvulkan1_1.3.275.0-1_ppc64el.deb ...
321s Unpacking libvulkan1:ppc64el (1.3.275.0-1) ...
321s Selecting previously unselected package libdrm-amdgpu1:ppc64el.
321s Preparing to unpack .../069-libdrm-amdgpu1_2.4.120-2_ppc64el.deb ...
321s Unpacking libdrm-amdgpu1:ppc64el (2.4.120-2) ...
321s Selecting previously unselected package libdrm-nouveau2:ppc64el.
321s Preparing to unpack .../070-libdrm-nouveau2_2.4.120-2_ppc64el.deb ...
321s Unpacking libdrm-nouveau2:ppc64el (2.4.120-2) ...
321s Selecting previously unselected package libdrm-radeon1:ppc64el.
321s Preparing to unpack .../071-libdrm-radeon1_2.4.120-2_ppc64el.deb ...
321s Unpacking libdrm-radeon1:ppc64el (2.4.120-2) ...
321s Selecting previously unselected package libllvm17:ppc64el.
321s Preparing to unpack .../072-libllvm17_1%3a17.0.6-5build1_ppc64el.deb ...
321s Unpacking libllvm17:ppc64el (1:17.0.6-5build1) ...
322s Selecting previously unselected package libgl1-mesa-dri:ppc64el.
322s Preparing to unpack .../073-libgl1-mesa-dri_24.0.1-1ubuntu1_ppc64el.deb ...
322s Unpacking libgl1-mesa-dri:ppc64el (24.0.1-1ubuntu1) ...
322s Selecting previously unselected package libglx-mesa0:ppc64el.
322s Preparing to unpack .../074-libglx-mesa0_24.0.1-1ubuntu1_ppc64el.deb ...
322s Unpacking libglx-mesa0:ppc64el (24.0.1-1ubuntu1) ...
322s Selecting previously unselected package libglx0:ppc64el.
322s Preparing to unpack .../075-libglx0_1.7.0-1_ppc64el.deb ...
322s Unpacking libglx0:ppc64el (1.7.0-1) ...
322s Selecting previously unselected package libgl1:ppc64el.
322s Preparing to unpack .../076-libgl1_1.7.0-1_ppc64el.deb ...
322s Unpacking libgl1:ppc64el (1.7.0-1) ...
322s Selecting previously unselected package libgif7:ppc64el.
322s Preparing to unpack .../077-libgif7_5.2.1-2.5_ppc64el.deb ...
322s Unpacking libgif7:ppc64el (5.2.1-2.5) ...
322s Selecting previously unselected package x11-common.
322s Preparing to unpack .../078-x11-common_1%3a7.7+23ubuntu2_all.deb ...
322s Unpacking x11-common (1:7.7+23ubuntu2) ...
322s Selecting previously unselected package libxtst6:ppc64el.
322s Preparing to unpack .../079-libxtst6_2%3a1.2.3-1.1_ppc64el.deb ...
322s Unpacking libxtst6:ppc64el (2:1.2.3-1.1) ...
322s Selecting previously unselected package openjdk-21-jre:ppc64el.
322s Preparing to unpack .../080-openjdk-21-jre_21.0.2+13-2_ppc64el.deb ...
322s Unpacking openjdk-21-jre:ppc64el (21.0.2+13-2) ...
322s Selecting previously unselected package default-jre.
322s Preparing to unpack .../081-default-jre_2%3a1.21-75+exp1_ppc64el.deb ...
322s Unpacking default-jre (2:1.21-75+exp1) ...
322s Selecting previously unselected package libhtscodecs2:ppc64el.
322s Preparing to unpack .../082-libhtscodecs2_1.6.0-1_ppc64el.deb ...
322s Unpacking libhtscodecs2:ppc64el (1.6.0-1) ...
322s Selecting previously unselected package libhts3:ppc64el.
322s Preparing to unpack .../083-libhts3_1.18+ds-1_ppc64el.deb ...
322s Unpacking libhts3:ppc64el (1.18+ds-1) ...
322s Selecting previously unselected package samtools.
322s Preparing to unpack .../084-samtools_1.19.2-1_ppc64el.deb ...
322s Unpacking samtools (1.19.2-1) ...
322s Selecting previously unselected package fastaq.
322s Preparing to unpack .../085-fastaq_3.17.0-6_all.deb ...
322s Unpacking fastaq (3.17.0-6) ...
322s Selecting previously unselected package python3-networkx.
322s Preparing to unpack .../086-python3-networkx_2.8.8-1ubuntu1_all.deb ...
322s Unpacking python3-networkx (2.8.8-1ubuntu1) ...
323s Selecting previously unselected package python3-packaging.
323s Preparing to unpack .../087-python3-packaging_23.2-1_all.deb ...
323s Unpacking python3-packaging (23.2-1) ...
323s Selecting previously unselected package python3-pysam.
323s Preparing to unpack .../088-python3-pysam_0.22.0+ds-1_ppc64el.deb ...
323s Unpacking python3-pysam (0.22.0+ds-1) ...
323s Selecting previously unselected package kmc.
323s Preparing to unpack .../089-kmc_3.2.4+dfsg-1_ppc64el.deb ...
323s Unpacking kmc (3.2.4+dfsg-1) ...
323s Selecting previously unselected package mummer.
323s Preparing to unpack .../090-mummer_3.23+dfsg-8_ppc64el.deb ...
323s Unpacking mummer (3.23+dfsg-8) ...
323s Selecting previously unselected package libbambamc0:ppc64el.
323s Preparing to unpack .../091-libbambamc0_0.0.50-6_ppc64el.deb ...
323s Unpacking libbambamc0:ppc64el (0.0.50-6) ...
323s Selecting previously unselected package smalt.
323s Preparing to unpack .../092-smalt_0.7.6-13_ppc64el.deb ...
323s Unpacking smalt (0.7.6-13) ...
323s Selecting previously unselected package libblas3:ppc64el.
323s Preparing to unpack .../093-libblas3_3.12.0-3_ppc64el.deb ...
323s Unpacking libblas3:ppc64el (3.12.0-3) ...
323s Selecting previously unselected package libgfortran5:ppc64el.
323s Preparing to unpack .../094-libgfortran5_14-20240303-1ubuntu1_ppc64el.deb ...
323s Unpacking libgfortran5:ppc64el (14-20240303-1ubuntu1) ...
323s Selecting previously unselected package liblapack3:ppc64el.
323s Preparing to unpack .../095-liblapack3_3.12.0-3_ppc64el.deb ...
323s Unpacking liblapack3:ppc64el (3.12.0-3) ...
323s Selecting previously unselected package python3-numpy.
323s Preparing to unpack .../096-python3-numpy_1%3a1.24.2-2_ppc64el.deb ...
323s Unpacking python3-numpy (1:1.24.2-2) ...
324s Selecting previously unselected package iva.
324s Preparing to unpack .../097-iva_1.0.11+ds-5_ppc64el.deb ...
324s Unpacking iva (1.0.11+ds-5) ...
324s Selecting previously unselected package libjbzip2-java.
324s Preparing to unpack .../098-libjbzip2-java_0.9.1-8_all.deb ...
324s Unpacking libjbzip2-java (0.9.1-8) ...
324s Selecting previously unselected package trimmomatic.
324s Preparing to unpack .../099-trimmomatic_0.39+dfsg-2_all.deb ...
324s Unpacking trimmomatic (0.39+dfsg-2) ...
324s Selecting previously unselected package autopkgtest-satdep.
324s Preparing to unpack .../100-1-autopkgtest-satdep.deb ...
324s Unpacking autopkgtest-satdep (0) ...
324s Setting up libhtscodecs2:ppc64el (1.6.0-1) ...
324s Setting up libgraphite2-3:ppc64el (1.3.14-2) ...
324s Setting up libxcb-dri3-0:ppc64el (1.15-1) ...
324s Setting up liblcms2-2:ppc64el (2.14-2) ...
324s Setting up libpixman-1-0:ppc64el (0.42.2-1) ...
324s Setting up libsharpyuv0:ppc64el (1.3.2-0.4) ...
324s Setting up libx11-xcb1:ppc64el (2:1.8.7-1) ...
324s Setting up libdrm-nouveau2:ppc64el (2.4.120-2) ...
324s Setting up libxdamage1:ppc64el (1:1.1.6-1) ...
324s Setting up libxcb-xfixes0:ppc64el (1.15-1) ...
324s Setting up liblerc4:ppc64el (4.0.0+ds-4ubuntu1) ...
324s Setting up hicolor-icon-theme (0.17-2) ...
324s Setting up libxi6:ppc64el (2:1.8.1-1) ...
324s Setting up java-common (0.75+exp1) ...
324s Setting up libxrender1:ppc64el (1:0.9.10-1.1) ...
324s Setting up libdatrie1:ppc64el (0.2.13-3) ...
324s Setting up libxcb-render0:ppc64el (1.15-1) ...
324s Setting up libdrm-radeon1:ppc64el (2.4.120-2) ...
324s Setting up libglvnd0:ppc64el (1.7.0-1) ...
324s Setting up libxcb-glx0:ppc64el (1.15-1) ...
324s Setting up libgdk-pixbuf2.0-common (2.42.10+dfsg-3) ...
324s Setting up x11-common (1:7.7+23ubuntu2) ...
324s Setting up libdeflate0:ppc64el (1.19-1) ...
324s Setting up libxcb-shm0:ppc64el (1.15-1) ...
324s Setting up python3-networkx (2.8.8-1ubuntu1) ...
325s /usr/lib/python3/dist-packages/networkx/readwrite/tests/test_gml.py:556: SyntaxWarning: invalid octal escape sequence '\420'
325s   "graph [edge [ source u'u\4200' target u'u\4200' ] "
325s /usr/lib/python3/dist-packages/networkx/readwrite/tests/test_gml.py:557: SyntaxWarning: invalid octal escape sequence '\420'
325s   + "node [ id u'u\4200' label b ] ]"
325s Setting up libjbig0:ppc64el (2.1-6.1ubuntu1) ...
325s Setting up libxxf86vm1:ppc64el (1:1.1.4-1build3) ...
325s Setting up libxcb-present0:ppc64el (1.15-1) ...
325s Setting up libasound2-data (1.2.10-3build1) ...
325s Setting up libblas3:ppc64el (3.12.0-3) ...
325s update-alternatives: using /usr/lib/powerpc64le-linux-gnu/blas/libblas.so.3 to provide /usr/lib/powerpc64le-linux-gnu/libblas.so.3 (libblas.so.3-powerpc64le-linux-gnu) in auto mode
325s Setting up python3-packaging (23.2-1) ...
326s Setting up libxfixes3:ppc64el (1:6.0.0-2) ...
326s Setting up libxcb-sync1:ppc64el (1.15-1) ...
326s Setting up libavahi-common-data:ppc64el (0.8-13ubuntu2) ...
326s Setting up libxinerama1:ppc64el (2:1.1.4-3) ...
326s Setting up libbambamc0:ppc64el (0.0.50-6) ...
326s Setting up fonts-dejavu-mono (2.37-8) ...
326s Setting up libxrandr2:ppc64el (2:1.5.2-2) ...
326s Setting up fonts-dejavu-core (2.37-8) ...
326s Setting up libjbzip2-java (0.9.1-8) ...
326s Setting up libpcsclite1:ppc64el (2.0.0-1) ...
326s Setting up libjpeg-turbo8:ppc64el (2.1.5-2ubuntu1) ...
326s Setting up libglapi-mesa:ppc64el (24.0.1-1ubuntu1) ...
326s Setting up libgfortran5:ppc64el (14-20240303-1ubuntu1) ...
326s Setting up libvulkan1:ppc64el (1.3.275.0-1) ...
326s Setting up libwebp7:ppc64el (1.3.2-0.4) ...
326s Setting up libxcb-dri2-0:ppc64el (1.15-1) ...
326s Setting up libgif7:ppc64el (5.2.1-2.5) ...
326s Setting up libxshmfence1:ppc64el (1.3-1build4) ...
326s Setting up at-spi2-common (2.50.0-1) ...
326s Setting up libxcb-randr0:ppc64el (1.15-1) ...
326s Setting up libasound2:ppc64el (1.2.10-3build1) ...
326s Setting up mummer (3.23+dfsg-8) ...
326s Setting up libharfbuzz0b:ppc64el (8.3.0-2) ...
326s Setting up libthai-data (0.1.29-2) ...
326s Setting up libgtk2.0-common (2.24.33-2ubuntu2) ...
326s Setting up libatk1.0-0:ppc64el (2.50.0-1) ...
326s Setting up ca-certificates-java (20240118) ...
326s No JRE found. Skipping Java certificates setup.
326s Setting up libllvm17:ppc64el (1:17.0.6-5build1) ...
326s Setting up kmc (3.2.4+dfsg-1) ...
326s Setting up libxcomposite1:ppc64el (1:0.4.5-1build2) ...
326s Setting up libdrm-amdgpu1:ppc64el (2.4.120-2) ...
326s Setting up libjpeg8:ppc64el (8c-2ubuntu11) ...
326s Setting up smalt (0.7.6-13) ...
326s Setting up liblapack3:ppc64el (3.12.0-3) ...
326s update-alternatives: using /usr/lib/powerpc64le-linux-gnu/lapack/liblapack.so.3 to provide /usr/lib/powerpc64le-linux-gnu/liblapack.so.3 (liblapack.so.3-powerpc64le-linux-gnu) in auto mode
326s Setting up libhts3:ppc64el (1.18+ds-1) ...
326s Setting up python3-pysam (0.22.0+ds-1) ...
326s Setting up fontconfig-config (2.15.0-1ubuntu1) ...
326s Setting up libxtst6:ppc64el (2:1.2.3-1.1) ...
326s Setting up libxcursor1:ppc64el (1:1.2.1-1) ...
326s Setting up libgl1-mesa-dri:ppc64el (24.0.1-1ubuntu1) ...
326s Setting up libavahi-common3:ppc64el (0.8-13ubuntu2) ...
326s Setting up samtools (1.19.2-1) ...
326s Setting up libthai0:ppc64el (0.1.29-2) ...
326s Setting up python3-numpy (1:1.24.2-2) ...
328s Setting up libtiff6:ppc64el (4.5.1+git230720-3ubuntu1) ...
328s Setting up libgdk-pixbuf-2.0-0:ppc64el (2.42.10+dfsg-3) ...
328s Setting up libfontconfig1:ppc64el (2.15.0-1ubuntu1) ...
328s Setting up libavahi-client3:ppc64el (0.8-13ubuntu2) ...
328s Setting up gtk-update-icon-cache (3.24.40-2ubuntu1) ...
328s Setting up fontconfig (2.15.0-1ubuntu1) ...
330s Regenerating fonts cache... done.
330s Setting up libglx-mesa0:ppc64el (24.0.1-1ubuntu1) ...
330s Setting up libglx0:ppc64el (1.7.0-1) ...
330s Setting up fastaq (3.17.0-6) ...
330s /usr/lib/python3/dist-packages/pyfastaq/sequences.py:37: SyntaxWarning: invalid escape sequence '\s'
330s   phylip_regex = re.compile('^\s*[0-9]+\s+[0-9]+$')
330s /usr/lib/python3/dist-packages/pyfastaq/sequences.py:38: SyntaxWarning: invalid escape sequence '\s'
330s   gbk_regex = re.compile('^LOCUS\s+\S')
330s Setting up libpango-1.0-0:ppc64el (1.51.0+ds-4) ...
330s Setting up libcairo2:ppc64el (1.18.0-1) ...
330s Setting up libgl1:ppc64el (1.7.0-1) ...
330s Setting up libcups2:ppc64el (2.4.6-0ubuntu3) ...
330s Setting up libpangoft2-1.0-0:ppc64el (1.51.0+ds-4) ...
330s Setting up libpangocairo-1.0-0:ppc64el (1.51.0+ds-4) ...
330s Setting up openjdk-21-jre-headless:ppc64el (21.0.2+13-2) ...
330s update-alternatives: using /usr/lib/jvm/java-21-openjdk-ppc64el/bin/java to provide /usr/bin/java (java) in auto mode
330s update-alternatives: using /usr/lib/jvm/java-21-openjdk-ppc64el/bin/jpackage to provide /usr/bin/jpackage (jpackage) in auto mode
330s update-alternatives: using /usr/lib/jvm/java-21-openjdk-ppc64el/bin/keytool to provide /usr/bin/keytool (keytool) in auto mode
330s update-alternatives: using /usr/lib/jvm/java-21-openjdk-ppc64el/bin/rmiregistry to provide /usr/bin/rmiregistry (rmiregistry) in auto mode
330s update-alternatives: using /usr/lib/jvm/java-21-openjdk-ppc64el/lib/jexec to provide /usr/bin/jexec (jexec) in auto mode
330s Setting up adwaita-icon-theme (46~rc-1) ...
330s update-alternatives: using /usr/share/icons/Adwaita/cursor.theme to provide /usr/share/icons/default/index.theme (x-cursor-theme) in auto mode
330s Setting up libgtk2.0-0:ppc64el (2.24.33-2ubuntu2) ...
330s Setting up humanity-icon-theme (0.6.16) ...
330s Setting up ubuntu-mono (24.04-0ubuntu1) ...
330s Processing triggers for man-db (2.12.0-3) ...
331s Processing triggers for libc-bin (2.39-0ubuntu6) ...
331s Processing triggers for ca-certificates-java (20240118) ...
332s Adding debian:ACCVRAIZ1.pem
332s Adding debian:AC_RAIZ_FNMT-RCM.pem
332s Adding debian:AC_RAIZ_FNMT-RCM_SERVIDORES_SEGUROS.pem
332s Adding debian:ANF_Secure_Server_Root_CA.pem
332s Adding debian:Actalis_Authentication_Root_CA.pem
332s Adding debian:AffirmTrust_Commercial.pem
332s Adding debian:AffirmTrust_Networking.pem
332s Adding debian:AffirmTrust_Premium.pem
332s Adding debian:AffirmTrust_Premium_ECC.pem
332s Adding debian:Amazon_Root_CA_1.pem
332s Adding debian:Amazon_Root_CA_2.pem
332s Adding debian:Amazon_Root_CA_3.pem
332s Adding debian:Amazon_Root_CA_4.pem
332s Adding debian:Atos_TrustedRoot_2011.pem
332s Adding debian:Atos_TrustedRoot_Root_CA_ECC_TLS_2021.pem
332s Adding debian:Atos_TrustedRoot_Root_CA_RSA_TLS_2021.pem
332s Adding debian:Autoridad_de_Certificacion_Firmaprofesional_CIF_A62634068.pem
332s Adding debian:BJCA_Global_Root_CA1.pem
332s Adding debian:BJCA_Global_Root_CA2.pem
332s Adding debian:Baltimore_CyberTrust_Root.pem
332s Adding debian:Buypass_Class_2_Root_CA.pem
332s Adding debian:Buypass_Class_3_Root_CA.pem
332s Adding debian:CA_Disig_Root_R2.pem
332s Adding debian:CFCA_EV_ROOT.pem
332s Adding debian:COMODO_Certification_Authority.pem
332s Adding debian:COMODO_ECC_Certification_Authority.pem
332s Adding debian:COMODO_RSA_Certification_Authority.pem
332s Adding debian:Certainly_Root_E1.pem
332s Adding debian:Certainly_Root_R1.pem
332s Adding debian:Certigna.pem
332s Adding debian:Certigna_Root_CA.pem
332s Adding debian:Certum_EC-384_CA.pem
332s Adding debian:Certum_Trusted_Network_CA.pem
332s Adding debian:Certum_Trusted_Network_CA_2.pem
332s Adding debian:Certum_Trusted_Root_CA.pem
332s Adding debian:CommScope_Public_Trust_ECC_Root-01.pem
332s Adding debian:CommScope_Public_Trust_ECC_Root-02.pem
332s Adding debian:CommScope_Public_Trust_RSA_Root-01.pem
332s Adding debian:CommScope_Public_Trust_RSA_Root-02.pem
332s Adding debian:Comodo_AAA_Services_root.pem
332s Adding debian:D-TRUST_BR_Root_CA_1_2020.pem
332s Adding debian:D-TRUST_EV_Root_CA_1_2020.pem
332s Adding debian:D-TRUST_Root_Class_3_CA_2_2009.pem
332s Adding debian:D-TRUST_Root_Class_3_CA_2_EV_2009.pem
332s Adding debian:DigiCert_Assured_ID_Root_CA.pem
332s Adding debian:DigiCert_Assured_ID_Root_G2.pem
332s Adding debian:DigiCert_Assured_ID_Root_G3.pem
332s Adding debian:DigiCert_Global_Root_CA.pem
332s Adding debian:DigiCert_Global_Root_G2.pem
332s Adding debian:DigiCert_Global_Root_G3.pem
332s Adding debian:DigiCert_High_Assurance_EV_Root_CA.pem
332s Adding debian:DigiCert_TLS_ECC_P384_Root_G5.pem
332s Adding debian:DigiCert_TLS_RSA4096_Root_G5.pem
332s Adding debian:DigiCert_Trusted_Root_G4.pem
332s Adding debian:Entrust.net_Premium_2048_Secure_Server_CA.pem
332s Adding debian:Entrust_Root_Certification_Authority.pem
332s Adding debian:Entrust_Root_Certification_Authority_-_EC1.pem
332s Adding debian:Entrust_Root_Certification_Authority_-_G2.pem
332s Adding debian:Entrust_Root_Certification_Authority_-_G4.pem
332s Adding debian:GDCA_TrustAUTH_R5_ROOT.pem
332s Adding debian:GLOBALTRUST_2020.pem
332s Adding debian:GTS_Root_R1.pem
332s Adding debian:GTS_Root_R2.pem
332s Adding debian:GTS_Root_R3.pem
332s Adding debian:GTS_Root_R4.pem
332s Adding debian:GlobalSign_ECC_Root_CA_-_R4.pem
332s Adding debian:GlobalSign_ECC_Root_CA_-_R5.pem
332s Adding debian:GlobalSign_Root_CA.pem
332s Adding debian:GlobalSign_Root_CA_-_R3.pem
332s Adding debian:GlobalSign_Root_CA_-_R6.pem
332s Adding debian:GlobalSign_Root_E46.pem
332s Adding debian:GlobalSign_Root_R46.pem
332s Adding debian:Go_Daddy_Class_2_CA.pem
332s Adding debian:Go_Daddy_Root_Certificate_Authority_-_G2.pem
332s Adding debian:HARICA_TLS_ECC_Root_CA_2021.pem
332s Adding debian:HARICA_TLS_RSA_Root_CA_2021.pem
332s Adding debian:Hellenic_Academic_and_Research_Institutions_ECC_RootCA_2015.pem
332s Adding debian:Hellenic_Academic_and_Research_Institutions_RootCA_2015.pem
332s Adding debian:HiPKI_Root_CA_-_G1.pem
332s Adding debian:Hongkong_Post_Root_CA_3.pem
332s Adding debian:ISRG_Root_X1.pem
332s Adding debian:ISRG_Root_X2.pem
332s Adding debian:IdenTrust_Commercial_Root_CA_1.pem
332s Adding debian:IdenTrust_Public_Sector_Root_CA_1.pem
332s Adding debian:Izenpe.com.pem
332s Adding debian:Microsec_e-Szigno_Root_CA_2009.pem
332s Adding debian:Microsoft_ECC_Root_Certificate_Authority_2017.pem
332s Adding debian:Microsoft_RSA_Root_Certificate_Authority_2017.pem
332s Adding debian:NAVER_Global_Root_Certification_Authority.pem
332s Adding debian:NetLock_Arany_=Class_Gold=_Főtanúsítvány.pem
332s Adding debian:OISTE_WISeKey_Global_Root_GB_CA.pem
332s Adding debian:OISTE_WISeKey_Global_Root_GC_CA.pem
332s Adding debian:QuoVadis_Root_CA_1_G3.pem
332s Adding debian:QuoVadis_Root_CA_2.pem
332s Adding debian:QuoVadis_Root_CA_2_G3.pem
332s Adding debian:QuoVadis_Root_CA_3.pem
332s Adding debian:QuoVadis_Root_CA_3_G3.pem
332s Adding debian:SSL.com_EV_Root_Certification_Authority_ECC.pem
332s Adding debian:SSL.com_EV_Root_Certification_Authority_RSA_R2.pem
332s Adding debian:SSL.com_Root_Certification_Authority_ECC.pem
332s Adding debian:SSL.com_Root_Certification_Authority_RSA.pem
332s Adding debian:SSL.com_TLS_ECC_Root_CA_2022.pem
332s Adding debian:SSL.com_TLS_RSA_Root_CA_2022.pem
332s Adding debian:SZAFIR_ROOT_CA2.pem
332s Adding debian:Sectigo_Public_Server_Authentication_Root_E46.pem
332s Adding debian:Sectigo_Public_Server_Authentication_Root_R46.pem
332s Adding debian:SecureSign_RootCA11.pem
332s Adding debian:SecureTrust_CA.pem
332s Adding debian:Secure_Global_CA.pem
332s Adding debian:Security_Communication_ECC_RootCA1.pem
332s Adding debian:Security_Communication_RootCA2.pem
332s Adding debian:Security_Communication_RootCA3.pem
332s Adding debian:Security_Communication_Root_CA.pem
332s Adding debian:Starfield_Class_2_CA.pem
332s Adding debian:Starfield_Root_Certificate_Authority_-_G2.pem
332s Adding debian:Starfield_Services_Root_Certificate_Authority_-_G2.pem
332s Adding debian:SwissSign_Gold_CA_-_G2.pem
332s Adding debian:SwissSign_Silver_CA_-_G2.pem
332s Adding debian:T-TeleSec_GlobalRoot_Class_2.pem
332s Adding debian:T-TeleSec_GlobalRoot_Class_3.pem
332s Adding debian:TUBITAK_Kamu_SM_SSL_Kok_Sertifikasi_-_Surum_1.pem
332s Adding debian:TWCA_Global_Root_CA.pem
332s Adding debian:TWCA_Root_Certification_Authority.pem
332s Adding debian:TeliaSonera_Root_CA_v1.pem
332s Adding debian:Telia_Root_CA_v2.pem
332s Adding debian:TrustAsia_Global_Root_CA_G3.pem
332s Adding debian:TrustAsia_Global_Root_CA_G4.pem
332s Adding debian:Trustwave_Global_Certification_Authority.pem
332s Adding debian:Trustwave_Global_ECC_P256_Certification_Authority.pem
332s Adding debian:Trustwave_Global_ECC_P384_Certification_Authority.pem
332s Adding debian:TunTrust_Root_CA.pem
332s Adding debian:UCA_Extended_Validation_Root.pem
332s Adding debian:UCA_Global_G2_Root.pem
332s Adding debian:USERTrust_ECC_Certification_Authority.pem
332s Adding debian:USERTrust_RSA_Certification_Authority.pem
332s Adding debian:XRamp_Global_CA_Root.pem
332s Adding debian:certSIGN_ROOT_CA.pem
332s Adding debian:certSIGN_Root_CA_G2.pem
332s Adding debian:e-Szigno_Root_CA_2017.pem
332s Adding debian:ePKI_Root_Certification_Authority.pem
332s Adding debian:emSign_ECC_Root_CA_-_C3.pem
332s Adding debian:emSign_ECC_Root_CA_-_G3.pem
332s Adding debian:emSign_Root_CA_-_C1.pem
332s Adding debian:emSign_Root_CA_-_G1.pem
332s Adding debian:vTrus_ECC_Root_CA.pem
332s Adding debian:vTrus_Root_CA.pem
332s done.
332s Setting up openjdk-21-jre:ppc64el (21.0.2+13-2) ...
332s Setting up default-jre-headless (2:1.21-75+exp1) ...
332s Setting up iva (1.0.11+ds-5) ...
333s /usr/lib/python3/dist-packages/iva/external_progs.py:33: SyntaxWarning: invalid escape sequence '\('
333s   'kmc': ('kmc', re.compile('^K-Mer Counter \(KMC\) ver\. (.*) \(.*\)$')),
333s /usr/lib/python3/dist-packages/iva/external_progs.py:34: SyntaxWarning: invalid escape sequence '\('
333s   'kmc_dump': ('kmc_dump', re.compile('^KMC dump ver. (.*) \(.*\)$')),
333s /usr/lib/python3/dist-packages/iva/external_progs.py:37: SyntaxWarning: invalid escape sequence '\('
333s   'nucmer': ('nucmer --version', re.compile('^NUCmer \(NUCleotide MUMmer\) version (.*)$')),
333s /usr/lib/python3/dist-packages/iva/external_progs.py:38: SyntaxWarning: invalid escape sequence '\('
333s   'R': ('R --version', re.compile('^R version (.*) \(.*\) --')),
333s /usr/lib/python3/dist-packages/iva/external_progs.py:40: SyntaxWarning: invalid escape sequence '\d'
333s   'samtools': ('samtools', re.compile('(\d+\.\d+[\.\d]*)')),
333s /usr/lib/python3/dist-packages/iva/kraken.py:360: SyntaxWarning: invalid escape sequence '\.'
333s   self._genbank2embl(fname, re.sub('\.gbk$', '', fname) + '.embl')
333s /usr/lib/python3/dist-packages/iva/kraken.py:415: SyntaxWarning: invalid escape sequence '\W'
333s   return re.sub('\W', '_', s).strip('_')
333s /usr/lib/python3/dist-packages/iva/mapping.py:161: SyntaxWarning: invalid escape sequence '\^'
333s   s = re.sub('\^.', '', s)
333s Setting up default-jre (2:1.21-75+exp1) ...
333s Setting up trimmomatic (0.39+dfsg-2) ...
333s Setting up autopkgtest-satdep (0) ...
336s (Reading database ... 86059 files and directories currently installed.)
336s Removing autopkgtest-satdep (0) ...
337s autopkgtest [15:24:31]: test test-example: [-----------------------
351s The following command failed with exit code 1
351s /usr/bin/iva --threads 1 --trimmomatic /usr/share/java/trimmomatic.jar --pcr_primers hiv_pcr_primers.fa -f reads_1.fq.gz -r reads_2.fq.gz iva.out
351s 
351s The output was:
351s 
351s The following command failed with exit code 1
351s bash run_kmc.sh
351s 
351s The output was:
351s 
351s Error: std::bad_alloc
351s 
351s 
351s Running iva in test mode...
351s Copied input test files into here: /tmp/tmp.rsNDK6Trcx/test
351s Current working directory: /tmp/tmp.rsNDK6Trcx/test
351s Running iva on the test data with the command:
351s /usr/bin/iva --threads 1 --trimmomatic /usr/share/java/trimmomatic.jar --pcr_primers hiv_pcr_primers.fa -f reads_1.fq.gz -r reads_2.fq.gz iva.out
352s autopkgtest [15:24:46]: test test-example: -----------------------]
352s autopkgtest [15:24:46]: test test-example:  - - - - - - - - - - results - - - - - - - - - -
352s test-example         FAIL non-zero exit status 1
352s autopkgtest [15:24:46]: test test-example:  - - - - - - - - - - stderr - - - - - - - - - -
352s The following command failed with exit code 1
352s /usr/bin/iva --threads 1 --trimmomatic /usr/share/java/trimmomatic.jar --pcr_primers hiv_pcr_primers.fa -f reads_1.fq.gz -r reads_2.fq.gz iva.out
352s 
352s The output was:
352s 
352s The following command failed with exit code 1
352s bash run_kmc.sh
352s 
352s The output was:
352s 
352s Error: std::bad_alloc
352s 
352s 
353s autopkgtest [15:24:47]: @@@@@@@@@@@@@@@@@@@@ summary
353s test-example         FAIL non-zero exit status 1
363s Creating nova instance adt-noble-ppc64el-iva-20240323-151854-juju-7f2275-prod-proposed-migration-environment-3 from image adt/ubuntu-noble-ppc64el-server-20240323.img (UUID ff8abf95-5243-4ea5-b7f5-3bf690534a1d)...