0s autopkgtest [15:48:19]: starting date and time: 2024-03-23 15:48:19+0000 0s autopkgtest [15:48:19]: git checkout: 4a1cd702 l/adt_testbed: don't blame the testbed for unsolvable build deps 0s autopkgtest [15:48:19]: host juju-7f2275-prod-proposed-migration-environment-2; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work.g6epb7tp/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:samtools,src:curl,src:gnutls28,src:htslib,src:libpsl,src:nettle,src:openssl --apt-upgrade pbsuite --timeout-short=300 --timeout-copy=20000 --timeout-build=20000 '--env=ADT_TEST_TRIGGERS=samtools/1.19.2-1build1 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-2@bos01-ppc64el-10.secgroup --name adt-noble-ppc64el-pbsuite-20240323-154819-juju-7f2275-prod-proposed-migration-environment-2 --image adt/ubuntu-noble-ppc64el-server --keyname testbed-juju-7f2275-prod-proposed-migration-environment-2 --net-id=net_prod-proposed-migration -e TERM=linux -e ''"'"'http_proxy=http://squid.internal:3128'"'"'' -e ''"'"'https_proxy=http://squid.internal:3128'"'"'' -e ''"'"'no_proxy=127.0.0.1,127.0.1.1,login.ubuntu.com,localhost,localdomain,novalocal,internal,archive.ubuntu.com,ports.ubuntu.com,security.ubuntu.com,ddebs.ubuntu.com,changelogs.ubuntu.com,launchpadlibrarian.net,launchpadcontent.net,launchpad.net,10.24.0.0/24,keystone.ps5.canonical.com,objectstorage.prodstack5.canonical.com'"'"'' --mirror=http://us.ports.ubuntu.com/ubuntu-ports/ 151s autopkgtest [15:50:50]: testbed dpkg architecture: ppc64el 151s autopkgtest [15:50:50]: testbed apt version: 2.7.12 151s autopkgtest [15:50:50]: @@@@@@@@@@@@@@@@@@@@ test bed setup 152s Get:1 http://ftpmaster.internal/ubuntu noble-proposed InRelease [117 kB] 152s Get:2 http://ftpmaster.internal/ubuntu noble-proposed/restricted Sources [6540 B] 152s Get:3 http://ftpmaster.internal/ubuntu noble-proposed/multiverse Sources [56.9 kB] 152s Get:4 http://ftpmaster.internal/ubuntu noble-proposed/universe Sources [3969 kB] 153s Get:5 http://ftpmaster.internal/ubuntu noble-proposed/main Sources [493 kB] 153s Get:6 http://ftpmaster.internal/ubuntu noble-proposed/main ppc64el Packages [659 kB] 153s Get:7 http://ftpmaster.internal/ubuntu noble-proposed/main ppc64el c-n-f Metadata [3116 B] 153s Get:8 http://ftpmaster.internal/ubuntu noble-proposed/restricted ppc64el Packages [1372 B] 153s Get:9 http://ftpmaster.internal/ubuntu noble-proposed/restricted ppc64el c-n-f Metadata [116 B] 153s Get:10 http://ftpmaster.internal/ubuntu noble-proposed/universe ppc64el Packages [4248 kB] 153s Get:11 http://ftpmaster.internal/ubuntu noble-proposed/universe ppc64el c-n-f Metadata [8652 B] 153s Get:12 http://ftpmaster.internal/ubuntu noble-proposed/multiverse ppc64el Packages [60.8 kB] 153s Get:13 http://ftpmaster.internal/ubuntu noble-proposed/multiverse ppc64el c-n-f Metadata [116 B] 156s Fetched 9623 kB in 2s (4256 kB/s) 157s Reading package lists... 159s Reading package lists... 159s Building dependency tree... 159s Reading state information... 159s Calculating upgrade... 159s The following packages will be REMOVED: 159s libssl3 159s The following NEW packages will be installed: 159s libssl3t64 159s The following packages have been kept back: 159s curl 159s The following packages will be upgraded: 159s cloud-init fonts-ubuntu-console libbsd0 libc-bin libc6 locales openssl 159s python3-markupsafe 160s 8 upgraded, 1 newly installed, 1 to remove and 1 not upgraded. 160s Need to get 12.1 MB of archives. 160s After this operation, 10.2 kB of additional disk space will be used. 160s Get:1 http://ftpmaster.internal/ubuntu noble/main ppc64el libc6 ppc64el 2.39-0ubuntu6 [3274 kB] 160s Get:2 http://ftpmaster.internal/ubuntu noble/main ppc64el libc-bin ppc64el 2.39-0ubuntu6 [751 kB] 160s Get:3 http://ftpmaster.internal/ubuntu noble-proposed/main ppc64el openssl ppc64el 3.0.13-0ubuntu2 [1026 kB] 160s Get:4 http://ftpmaster.internal/ubuntu noble-proposed/main ppc64el libssl3t64 ppc64el 3.0.13-0ubuntu2 [2125 kB] 160s Get:5 http://ftpmaster.internal/ubuntu noble/main ppc64el libbsd0 ppc64el 0.12.1-1 [56.9 kB] 160s Get:6 http://ftpmaster.internal/ubuntu noble/main ppc64el locales all 2.39-0ubuntu6 [4232 kB] 160s Get:7 http://ftpmaster.internal/ubuntu noble/main ppc64el fonts-ubuntu-console all 0.869+git20240321-0ubuntu1 [18.7 kB] 160s Get:8 http://ftpmaster.internal/ubuntu noble/main ppc64el python3-markupsafe ppc64el 2.1.5-1build1 [13.2 kB] 160s Get:9 http://ftpmaster.internal/ubuntu noble/main ppc64el cloud-init all 24.1.2-0ubuntu1 [597 kB] 161s Preconfiguring packages ... 161s Fetched 12.1 MB in 1s (10.7 MB/s) 161s (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 ... 70157 files and directories currently installed.) 161s Preparing to unpack .../libc6_2.39-0ubuntu6_ppc64el.deb ... 161s Unpacking libc6:ppc64el (2.39-0ubuntu6) over (2.39-0ubuntu2) ... 161s Setting up libc6:ppc64el (2.39-0ubuntu6) ... 162s (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 ... 70157 files and directories currently installed.) 162s Preparing to unpack .../libc-bin_2.39-0ubuntu6_ppc64el.deb ... 162s Unpacking libc-bin (2.39-0ubuntu6) over (2.39-0ubuntu2) ... 162s Setting up libc-bin (2.39-0ubuntu6) ... 162s (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 ... 70157 files and directories currently installed.) 162s Preparing to unpack .../openssl_3.0.13-0ubuntu2_ppc64el.deb ... 162s Unpacking openssl (3.0.13-0ubuntu2) over (3.0.10-1ubuntu4) ... 162s dpkg: libssl3:ppc64el: dependency problems, but removing anyway as you requested: 162s wget depends on libssl3 (>= 3.0.0). 162s tnftp depends on libssl3 (>= 3.0.0). 162s tcpdump depends on libssl3 (>= 3.0.0). 162s systemd-resolved depends on libssl3 (>= 3.0.0). 162s systemd depends on libssl3 (>= 3.0.0). 162s sudo depends on libssl3 (>= 3.0.0). 162s rsync depends on libssl3 (>= 3.0.0). 162s python3-cryptography depends on libssl3 (>= 3.0.0). 162s openssh-server depends on libssl3 (>= 3.0.10). 162s openssh-client depends on libssl3 (>= 3.0.10). 162s linux-headers-6.8.0-11-generic depends on libssl3 (>= 3.0.0). 162s libsystemd-shared:ppc64el depends on libssl3 (>= 3.0.0). 162s libssh-4:ppc64el depends on libssl3 (>= 3.0.0). 162s libsasl2-modules:ppc64el depends on libssl3 (>= 3.0.0). 162s libsasl2-2:ppc64el depends on libssl3 (>= 3.0.0). 162s libpython3.12-minimal:ppc64el depends on libssl3 (>= 3.0.0). 162s libpython3.11-minimal:ppc64el depends on libssl3 (>= 3.0.0). 162s libnvme1 depends on libssl3 (>= 3.0.0). 162s libkrb5-3:ppc64el depends on libssl3 (>= 3.0.0). 162s libkmod2:ppc64el depends on libssl3 (>= 3.0.0). 162s libfido2-1:ppc64el depends on libssl3 (>= 3.0.0). 162s libcurl4:ppc64el depends on libssl3 (>= 3.0.0). 162s libcryptsetup12:ppc64el depends on libssl3 (>= 3.0.0). 162s kmod depends on libssl3 (>= 3.0.0). 162s dhcpcd-base depends on libssl3 (>= 3.0.0). 162s bind9-libs:ppc64el depends on libssl3 (>= 3.0.0). 162s 162s (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 ... 70157 files and directories currently installed.) 162s Removing libssl3:ppc64el (3.0.10-1ubuntu4) ... 162s Selecting previously unselected package libssl3t64:ppc64el. 162s (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 ... 70146 files and directories currently installed.) 162s Preparing to unpack .../0-libssl3t64_3.0.13-0ubuntu2_ppc64el.deb ... 162s Unpacking libssl3t64:ppc64el (3.0.13-0ubuntu2) ... 162s Preparing to unpack .../1-libbsd0_0.12.1-1_ppc64el.deb ... 162s Unpacking libbsd0:ppc64el (0.12.1-1) over (0.11.8-1) ... 162s Preparing to unpack .../2-locales_2.39-0ubuntu6_all.deb ... 162s Unpacking locales (2.39-0ubuntu6) over (2.39-0ubuntu2) ... 162s Preparing to unpack .../3-fonts-ubuntu-console_0.869+git20240321-0ubuntu1_all.deb ... 162s Unpacking fonts-ubuntu-console (0.869+git20240321-0ubuntu1) over (0.869-0ubuntu1) ... 162s Preparing to unpack .../4-python3-markupsafe_2.1.5-1build1_ppc64el.deb ... 162s Unpacking python3-markupsafe (2.1.5-1build1) over (2.1.5-1) ... 163s Preparing to unpack .../5-cloud-init_24.1.2-0ubuntu1_all.deb ... 163s Unpacking cloud-init (24.1.2-0ubuntu1) over (24.1.1-0ubuntu1) ... 163s Setting up fonts-ubuntu-console (0.869+git20240321-0ubuntu1) ... 163s Setting up cloud-init (24.1.2-0ubuntu1) ... 164s Setting up libssl3t64:ppc64el (3.0.13-0ubuntu2) ... 164s Setting up locales (2.39-0ubuntu6) ... 165s Generating locales (this might take a while)... 166s en_US.UTF-8... done 166s Generation complete. 166s Setting up python3-markupsafe (2.1.5-1build1) ... 166s Setting up openssl (3.0.13-0ubuntu2) ... 166s Setting up libbsd0:ppc64el (0.12.1-1) ... 166s Processing triggers for rsyslog (8.2312.0-3ubuntu3) ... 166s Processing triggers for man-db (2.12.0-3) ... 167s Processing triggers for libc-bin (2.39-0ubuntu6) ... 168s Reading package lists... 168s Building dependency tree... 168s Reading state information... 168s 0 upgraded, 0 newly installed, 0 to remove and 1 not upgraded. 169s sh: Attempting to set up Debian/Ubuntu apt sources automatically 169s sh: Distribution appears to be Ubuntu 169s Reading package lists... 169s Building dependency tree... 169s Reading state information... 170s eatmydata is already the newest version (131-1). 170s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 170s Reading package lists... 170s Building dependency tree... 170s Reading state information... 170s dbus is already the newest version (1.14.10-4ubuntu1). 170s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 170s Reading package lists... 170s Building dependency tree... 170s Reading state information... 170s rng-tools-debian is already the newest version (2.4). 170s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 170s Reading package lists... 170s Building dependency tree... 170s Reading state information... 171s The following packages will be REMOVED: 171s cloud-init* python3-configobj* python3-debconf* 171s 0 upgraded, 0 newly installed, 3 to remove and 0 not upgraded. 171s After this operation, 3256 kB disk space will be freed. 171s (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.) 171s Removing cloud-init (24.1.2-0ubuntu1) ... 171s Removing python3-configobj (5.0.8-3) ... 171s Removing python3-debconf (1.5.86) ... 171s Processing triggers for man-db (2.12.0-3) ... 172s (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.) 172s Purging configuration files for cloud-init (24.1.2-0ubuntu1) ... 172s dpkg: warning: while removing cloud-init, directory '/etc/cloud/cloud.cfg.d' not empty so not removed 172s Processing triggers for rsyslog (8.2312.0-3ubuntu3) ... 172s invoke-rc.d: policy-rc.d denied execution of try-restart. 172s Reading package lists... 173s Building dependency tree... 173s Reading state information... 173s linux-generic is already the newest version (6.8.0-11.11+1). 173s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 173s Hit:1 http://ftpmaster.internal/ubuntu noble InRelease 173s Hit:2 http://ftpmaster.internal/ubuntu noble-updates InRelease 173s Hit:3 http://ftpmaster.internal/ubuntu noble-security InRelease 176s Reading package lists... 176s Reading package lists...autopkgtest [15:51:15]: rebooting testbed after setup commands that affected boot 176s 176s Building dependency tree... 176s Reading state information... 176s Calculating upgrade... 176s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 176s Reading package lists... 176s Building dependency tree... 176s Reading state information... 176s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 332s autopkgtest [15:53:51]: testbed running kernel: Linux 6.8.0-11-generic #11-Ubuntu SMP Wed Feb 14 00:33:03 UTC 2024 335s autopkgtest [15:53:54]: @@@@@@@@@@@@@@@@@@@@ apt-source pbsuite 339s Get:1 http://ftpmaster.internal/ubuntu noble/universe pbsuite 15.8.24+dfsg-7 (dsc) [2281 B] 339s Get:2 http://ftpmaster.internal/ubuntu noble/universe pbsuite 15.8.24+dfsg-7 (tar) [1615 kB] 339s Get:3 http://ftpmaster.internal/ubuntu noble/universe pbsuite 15.8.24+dfsg-7 (diff) [24.5 kB] 339s gpgv: Signature made Mon Feb 8 07:05:55 2021 UTC 339s gpgv: using RSA key 3E99A526F5DCC0CBBF1CEEA600BAE74B343369F1 339s gpgv: issuer "npatra974@gmail.com" 339s gpgv: Can't check signature: No public key 339s dpkg-source: warning: cannot verify inline signature for ./pbsuite_15.8.24+dfsg-7.dsc: no acceptable signature found 339s autopkgtest [15:53:58]: testing package pbsuite version 15.8.24+dfsg-7 340s autopkgtest [15:53:59]: build not needed 355s autopkgtest [15:54:14]: test pbhoney: preparing testbed 374s Reading package lists... 374s Building dependency tree... 374s Reading state information... 374s Starting pkgProblemResolver with broken count: 0 374s Starting 2 pkgProblemResolver with broken count: 0 374s Done 375s The following additional packages will be installed: 375s blasr libaec0 libblas3 libblasr5.3.5 libdeflate0 libgfortran5 libhdf5-103-1 375s libhdf5-cpp-103-1 libhdf5-hl-100 libhts3 libhtscodecs2 liblapack3 liblzf1 375s libpbbam2.4.0 libpbcopper2.3.0 libpbseq libsz2 pbdagcon pbhoney pbjelly 375s python3-h5py python3-h5py-serial python3-intervaltree 375s python3-intervaltree-bio python3-networkx python3-numpy python3-pbbanana 375s python3-pbsuite-utils python3-pysam python3-sortedcontainers samtools 375s Suggested packages: 375s python-h5py-doc python-networkx-doc python3-gdal python3-matplotlib 375s python3-pydot python3-pygraphviz python3-scipy gcc gfortran python3-dev 375s python3-pytest python-sortedcontainers-doc cwltool 375s The following NEW packages will be installed: 375s autopkgtest-satdep blasr libaec0 libblas3 libblasr5.3.5 libdeflate0 375s libgfortran5 libhdf5-103-1 libhdf5-cpp-103-1 libhdf5-hl-100 libhts3 375s libhtscodecs2 liblapack3 liblzf1 libpbbam2.4.0 libpbcopper2.3.0 libpbseq 375s libsz2 pbdagcon pbhoney pbjelly python3-h5py python3-h5py-serial 375s python3-intervaltree python3-intervaltree-bio python3-networkx python3-numpy 375s python3-pbbanana python3-pbsuite-utils python3-pysam 375s python3-sortedcontainers samtools 375s 0 upgraded, 32 newly installed, 0 to remove and 0 not upgraded. 375s Need to get 26.1 MB/26.1 MB of archives. 375s After this operation, 146 MB of additional disk space will be used. 375s Get:1 /tmp/autopkgtest.2svFo4/1-autopkgtest-satdep.deb autopkgtest-satdep ppc64el 0 [716 B] 375s Get:2 http://ftpmaster.internal/ubuntu noble/universe ppc64el libaec0 ppc64el 1.1.2-1 [29.9 kB] 375s Get:3 http://ftpmaster.internal/ubuntu noble/universe ppc64el libsz2 ppc64el 1.1.2-1 [5472 B] 375s Get:4 http://ftpmaster.internal/ubuntu noble/universe ppc64el libhdf5-103-1 ppc64el 1.10.10+repack-3ubuntu1 [1375 kB] 375s Get:5 http://ftpmaster.internal/ubuntu noble/universe ppc64el libhdf5-cpp-103-1 ppc64el 1.10.10+repack-3ubuntu1 [129 kB] 375s Get:6 http://ftpmaster.internal/ubuntu noble/main ppc64el libdeflate0 ppc64el 1.19-1 [61.9 kB] 375s Get:7 http://ftpmaster.internal/ubuntu noble/universe ppc64el libhtscodecs2 ppc64el 1.6.0-1 [110 kB] 375s Get:8 http://ftpmaster.internal/ubuntu noble/universe ppc64el libhts3 ppc64el 1.18+ds-1 [553 kB] 375s Get:9 http://ftpmaster.internal/ubuntu noble/universe ppc64el libpbcopper2.3.0 ppc64el 2.3.0+dfsg-2 [594 kB] 375s Get:10 http://ftpmaster.internal/ubuntu noble/universe ppc64el libpbbam2.4.0 ppc64el 2.4.0+dfsg-1build1 [751 kB] 375s Get:11 http://ftpmaster.internal/ubuntu noble/universe ppc64el libblasr5.3.5 ppc64el 5.3.5+dfsg-6build3 [1255 kB] 375s Get:12 http://ftpmaster.internal/ubuntu noble/universe ppc64el libpbseq ppc64el 5.3.5+dfsg-6build3 [3068 B] 375s Get:13 http://ftpmaster.internal/ubuntu noble/universe ppc64el blasr ppc64el 5.3.5+dfsg-6build4 [264 kB] 375s Get:14 http://ftpmaster.internal/ubuntu noble/main ppc64el libblas3 ppc64el 3.12.0-3 [227 kB] 375s Get:15 http://ftpmaster.internal/ubuntu noble/main ppc64el libgfortran5 ppc64el 14-20240303-1ubuntu1 [574 kB] 375s Get:16 http://ftpmaster.internal/ubuntu noble/universe ppc64el libhdf5-hl-100 ppc64el 1.10.10+repack-3ubuntu1 [69.9 kB] 375s Get:17 http://ftpmaster.internal/ubuntu noble/main ppc64el liblapack3 ppc64el 3.12.0-3 [2804 kB] 375s Get:18 http://ftpmaster.internal/ubuntu noble/universe ppc64el liblzf1 ppc64el 3.6-4 [7920 B] 375s Get:19 http://ftpmaster.internal/ubuntu noble/universe ppc64el pbdagcon ppc64el 0.3+git20180411.c14c422+dfsg-8build3 [279 kB] 375s Get:20 http://ftpmaster.internal/ubuntu noble/universe ppc64el python3-pysam ppc64el 0.22.0+ds-1 [5037 kB] 376s Get:21 http://ftpmaster.internal/ubuntu noble/universe ppc64el python3-pbsuite-utils all 15.8.24+dfsg-7 [506 kB] 376s Get:22 http://ftpmaster.internal/ubuntu noble/main ppc64el python3-networkx all 2.8.8-1ubuntu1 [1468 kB] 376s Get:23 http://ftpmaster.internal/ubuntu noble/universe ppc64el pbjelly all 15.8.24+dfsg-7 [966 kB] 376s Get:24 http://ftpmaster.internal/ubuntu noble/universe ppc64el python3-pbbanana all 15.8.24+dfsg-7 [16.7 kB] 376s Get:25 http://ftpmaster.internal/ubuntu noble/main ppc64el python3-numpy ppc64el 1:1.24.2-2 [5581 kB] 376s Get:26 http://ftpmaster.internal/ubuntu noble/universe ppc64el python3-h5py-serial ppc64el 3.10.0-1ubuntu1 [1635 kB] 376s Get:27 http://ftpmaster.internal/ubuntu noble/universe ppc64el python3-h5py all 3.10.0-1ubuntu1 [7970 B] 376s Get:28 http://ftpmaster.internal/ubuntu noble/main ppc64el python3-sortedcontainers all 2.4.0-2 [27.6 kB] 376s Get:29 http://ftpmaster.internal/ubuntu noble/universe ppc64el python3-intervaltree all 3.0.2-1.1 [22.4 kB] 376s Get:30 http://ftpmaster.internal/ubuntu noble/universe ppc64el python3-intervaltree-bio all 1.0.1-4 [8260 B] 376s Get:31 http://ftpmaster.internal/ubuntu noble/universe ppc64el samtools ppc64el 1.19.2-1 [669 kB] 376s Get:32 http://ftpmaster.internal/ubuntu noble/universe ppc64el pbhoney all 15.8.24+dfsg-7 [1051 kB] 376s Fetched 26.1 MB in 1s (19.5 MB/s) 376s Selecting previously unselected package libaec0:ppc64el. 376s (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.) 376s Preparing to unpack .../00-libaec0_1.1.2-1_ppc64el.deb ... 376s Unpacking libaec0:ppc64el (1.1.2-1) ... 376s Selecting previously unselected package libsz2:ppc64el. 376s Preparing to unpack .../01-libsz2_1.1.2-1_ppc64el.deb ... 376s Unpacking libsz2:ppc64el (1.1.2-1) ... 376s Selecting previously unselected package libhdf5-103-1:ppc64el. 376s Preparing to unpack .../02-libhdf5-103-1_1.10.10+repack-3ubuntu1_ppc64el.deb ... 376s Unpacking libhdf5-103-1:ppc64el (1.10.10+repack-3ubuntu1) ... 376s Selecting previously unselected package libhdf5-cpp-103-1:ppc64el. 376s Preparing to unpack .../03-libhdf5-cpp-103-1_1.10.10+repack-3ubuntu1_ppc64el.deb ... 376s Unpacking libhdf5-cpp-103-1:ppc64el (1.10.10+repack-3ubuntu1) ... 376s Selecting previously unselected package libdeflate0:ppc64el. 376s Preparing to unpack .../04-libdeflate0_1.19-1_ppc64el.deb ... 376s Unpacking libdeflate0:ppc64el (1.19-1) ... 376s Selecting previously unselected package libhtscodecs2:ppc64el. 376s Preparing to unpack .../05-libhtscodecs2_1.6.0-1_ppc64el.deb ... 376s Unpacking libhtscodecs2:ppc64el (1.6.0-1) ... 376s Selecting previously unselected package libhts3:ppc64el. 376s Preparing to unpack .../06-libhts3_1.18+ds-1_ppc64el.deb ... 376s Unpacking libhts3:ppc64el (1.18+ds-1) ... 376s Selecting previously unselected package libpbcopper2.3.0:ppc64el. 376s Preparing to unpack .../07-libpbcopper2.3.0_2.3.0+dfsg-2_ppc64el.deb ... 376s Unpacking libpbcopper2.3.0:ppc64el (2.3.0+dfsg-2) ... 376s Selecting previously unselected package libpbbam2.4.0:ppc64el. 376s Preparing to unpack .../08-libpbbam2.4.0_2.4.0+dfsg-1build1_ppc64el.deb ... 376s Unpacking libpbbam2.4.0:ppc64el (2.4.0+dfsg-1build1) ... 376s Selecting previously unselected package libblasr5.3.5:ppc64el. 376s Preparing to unpack .../09-libblasr5.3.5_5.3.5+dfsg-6build3_ppc64el.deb ... 376s Unpacking libblasr5.3.5:ppc64el (5.3.5+dfsg-6build3) ... 377s Selecting previously unselected package libpbseq:ppc64el. 377s Preparing to unpack .../10-libpbseq_5.3.5+dfsg-6build3_ppc64el.deb ... 377s Unpacking libpbseq:ppc64el (5.3.5+dfsg-6build3) ... 377s Selecting previously unselected package blasr. 377s Preparing to unpack .../11-blasr_5.3.5+dfsg-6build4_ppc64el.deb ... 377s Unpacking blasr (5.3.5+dfsg-6build4) ... 377s Selecting previously unselected package libblas3:ppc64el. 377s Preparing to unpack .../12-libblas3_3.12.0-3_ppc64el.deb ... 377s Unpacking libblas3:ppc64el (3.12.0-3) ... 377s Selecting previously unselected package libgfortran5:ppc64el. 377s Preparing to unpack .../13-libgfortran5_14-20240303-1ubuntu1_ppc64el.deb ... 377s Unpacking libgfortran5:ppc64el (14-20240303-1ubuntu1) ... 377s Selecting previously unselected package libhdf5-hl-100:ppc64el. 377s Preparing to unpack .../14-libhdf5-hl-100_1.10.10+repack-3ubuntu1_ppc64el.deb ... 377s Unpacking libhdf5-hl-100:ppc64el (1.10.10+repack-3ubuntu1) ... 377s Selecting previously unselected package liblapack3:ppc64el. 377s Preparing to unpack .../15-liblapack3_3.12.0-3_ppc64el.deb ... 377s Unpacking liblapack3:ppc64el (3.12.0-3) ... 377s Selecting previously unselected package liblzf1:ppc64el. 377s Preparing to unpack .../16-liblzf1_3.6-4_ppc64el.deb ... 377s Unpacking liblzf1:ppc64el (3.6-4) ... 377s Selecting previously unselected package pbdagcon. 377s Preparing to unpack .../17-pbdagcon_0.3+git20180411.c14c422+dfsg-8build3_ppc64el.deb ... 377s Unpacking pbdagcon (0.3+git20180411.c14c422+dfsg-8build3) ... 377s Selecting previously unselected package python3-pysam. 377s Preparing to unpack .../18-python3-pysam_0.22.0+ds-1_ppc64el.deb ... 377s Unpacking python3-pysam (0.22.0+ds-1) ... 377s Selecting previously unselected package python3-pbsuite-utils. 377s Preparing to unpack .../19-python3-pbsuite-utils_15.8.24+dfsg-7_all.deb ... 377s Unpacking python3-pbsuite-utils (15.8.24+dfsg-7) ... 377s Selecting previously unselected package python3-networkx. 377s Preparing to unpack .../20-python3-networkx_2.8.8-1ubuntu1_all.deb ... 377s Unpacking python3-networkx (2.8.8-1ubuntu1) ... 377s Selecting previously unselected package pbjelly. 377s Preparing to unpack .../21-pbjelly_15.8.24+dfsg-7_all.deb ... 377s Unpacking pbjelly (15.8.24+dfsg-7) ... 377s Selecting previously unselected package python3-pbbanana. 377s Preparing to unpack .../22-python3-pbbanana_15.8.24+dfsg-7_all.deb ... 377s Unpacking python3-pbbanana (15.8.24+dfsg-7) ... 377s Selecting previously unselected package python3-numpy. 377s Preparing to unpack .../23-python3-numpy_1%3a1.24.2-2_ppc64el.deb ... 377s Unpacking python3-numpy (1:1.24.2-2) ... 378s Selecting previously unselected package python3-h5py-serial. 378s Preparing to unpack .../24-python3-h5py-serial_3.10.0-1ubuntu1_ppc64el.deb ... 378s Unpacking python3-h5py-serial (3.10.0-1ubuntu1) ... 378s Selecting previously unselected package python3-h5py. 378s Preparing to unpack .../25-python3-h5py_3.10.0-1ubuntu1_all.deb ... 378s Unpacking python3-h5py (3.10.0-1ubuntu1) ... 378s Selecting previously unselected package python3-sortedcontainers. 378s Preparing to unpack .../26-python3-sortedcontainers_2.4.0-2_all.deb ... 378s Unpacking python3-sortedcontainers (2.4.0-2) ... 378s Selecting previously unselected package python3-intervaltree. 378s Preparing to unpack .../27-python3-intervaltree_3.0.2-1.1_all.deb ... 378s Unpacking python3-intervaltree (3.0.2-1.1) ... 378s Selecting previously unselected package python3-intervaltree-bio. 378s Preparing to unpack .../28-python3-intervaltree-bio_1.0.1-4_all.deb ... 378s Unpacking python3-intervaltree-bio (1.0.1-4) ... 378s Selecting previously unselected package samtools. 378s Preparing to unpack .../29-samtools_1.19.2-1_ppc64el.deb ... 378s Unpacking samtools (1.19.2-1) ... 378s Selecting previously unselected package pbhoney. 378s Preparing to unpack .../30-pbhoney_15.8.24+dfsg-7_all.deb ... 378s Unpacking pbhoney (15.8.24+dfsg-7) ... 378s Selecting previously unselected package autopkgtest-satdep. 378s Preparing to unpack .../31-1-autopkgtest-satdep.deb ... 378s Unpacking autopkgtest-satdep (0) ... 378s Setting up libhtscodecs2:ppc64el (1.6.0-1) ... 378s Setting up libdeflate0:ppc64el (1.19-1) ... 378s Setting up python3-sortedcontainers (2.4.0-2) ... 378s Setting up python3-networkx (2.8.8-1ubuntu1) ... 379s /usr/lib/python3/dist-packages/networkx/readwrite/tests/test_gml.py:556: SyntaxWarning: invalid octal escape sequence '\420' 379s "graph [edge [ source u'u\4200' target u'u\4200' ] " 379s /usr/lib/python3/dist-packages/networkx/readwrite/tests/test_gml.py:557: SyntaxWarning: invalid octal escape sequence '\420' 379s + "node [ id u'u\4200' label b ] ]" 379s Setting up libaec0:ppc64el (1.1.2-1) ... 379s Setting up libblas3:ppc64el (3.12.0-3) ... 379s 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 379s Setting up liblzf1:ppc64el (3.6-4) ... 379s Setting up libgfortran5:ppc64el (14-20240303-1ubuntu1) ... 379s Setting up libsz2:ppc64el (1.1.2-1) ... 379s Setting up libpbcopper2.3.0:ppc64el (2.3.0+dfsg-2) ... 379s Setting up liblapack3:ppc64el (3.12.0-3) ... 379s 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 379s Setting up libhts3:ppc64el (1.18+ds-1) ... 379s Setting up python3-pysam (0.22.0+ds-1) ... 380s Setting up python3-intervaltree (3.0.2-1.1) ... 380s Setting up python3-pbsuite-utils (15.8.24+dfsg-7) ... 380s /usr/lib/python3/dist-packages/pbsuite/utils/BamStat.py:75: SyntaxWarning: invalid escape sequence '\d' 380s for i in re.findall("\d+|\^?[ATCGN]+", md): 380s /usr/lib/python3/dist-packages/pbsuite/utils/FileHandlers.py:49: SyntaxWarning: invalid escape sequence '\s' 380s splRE = re.compile("\s+") 380s /usr/lib/python3/dist-packages/pbsuite/utils/FileHandlers.py:60: SyntaxWarning: invalid escape sequence '\s' 380s splRE = re.compile("\s+") 380s /usr/lib/python3/dist-packages/pbsuite/utils/FileHandlers.py:87: SyntaxWarning: invalid escape sequence '\s' 380s self[key] = list(map(int, re.split("\s+", self[key].getvalue().strip()))) 380s /usr/lib/python3/dist-packages/pbsuite/utils/FileHandlers.py:475: SyntaxWarning: invalid escape sequence '\d' 380s subreadGrab = re.compile(".*/(\d+)_(\d+)$") 380s /usr/lib/python3/dist-packages/pbsuite/utils/FileHandlers.py:499: SyntaxWarning: invalid escape sequence '\s' 380s data = re.split("\s+",line) 380s /usr/lib/python3/dist-packages/pbsuite/utils/FileHandlers.py:609: SyntaxWarning: invalid escape sequence '\s' 380s data = re.split("\s+",line) 380s /usr/lib/python3/dist-packages/pbsuite/utils/VCFIO.py:110: SyntaxWarning: invalid escape sequence '\s' 380s METARE = re.compile(('##\s*(?P\w+)\s*=\s*\<\s*ID\s*=\s*(?P\w+)\s*' 380s /usr/lib/python3/dist-packages/pbsuite/utils/VCFIO.py:111: SyntaxWarning: invalid escape sequence '\s' 380s ',\s*(Number\s*=\s*(?P[0-9.])\s*,' 380s /usr/lib/python3/dist-packages/pbsuite/utils/VCFIO.py:112: SyntaxWarning: invalid escape sequence '\s' 380s '\s*Type\s*=\s*(?P\w+)\s*,)?' 380s /usr/lib/python3/dist-packages/pbsuite/utils/VCFIO.py:113: SyntaxWarning: invalid escape sequence '\s' 380s '\s*Description\s*=\s*"(?P.*)"\s*\>\s*'),\ 380s /usr/lib/python3/dist-packages/pbsuite/utils/jellyoutputrename.py:22: SyntaxWarning: invalid escape sequence '\d' 380s regex = re.compile("ref\d{7}") 380s Setting up libpbbam2.4.0:ppc64el (2.4.0+dfsg-1build1) ... 380s Setting up samtools (1.19.2-1) ... 380s Setting up python3-numpy (1:1.24.2-2) ... 384s Setting up libhdf5-103-1:ppc64el (1.10.10+repack-3ubuntu1) ... 384s Setting up libhdf5-cpp-103-1:ppc64el (1.10.10+repack-3ubuntu1) ... 384s Setting up python3-intervaltree-bio (1.0.1-4) ... 384s Setting up libhdf5-hl-100:ppc64el (1.10.10+repack-3ubuntu1) ... 384s Setting up python3-h5py-serial (3.10.0-1ubuntu1) ... 384s Setting up libblasr5.3.5:ppc64el (5.3.5+dfsg-6build3) ... 384s Setting up python3-h5py (3.10.0-1ubuntu1) ... 384s Setting up libpbseq:ppc64el (5.3.5+dfsg-6build3) ... 384s Setting up blasr (5.3.5+dfsg-6build4) ... 384s Setting up pbdagcon (0.3+git20180411.c14c422+dfsg-8build3) ... 384s Setting up pbjelly (15.8.24+dfsg-7) ... 384s /usr/lib/python3/dist-packages/pbsuite/jelly/Extraction.py:59: SyntaxWarning: invalid escape sequence '\d' 384s getSub = re.compile("(.*)##(\d+)#(\d+)##$") 384s /usr/lib/python3/dist-packages/pbsuite/jelly/Extraction.py:326: SyntaxWarning: invalid escape sequence '\s' 384s splRE = re.compile("\s+") 384s /usr/lib/python3/dist-packages/pbsuite/jelly/Setup.py:16: SyntaxWarning: invalid escape sequence '\|' 384s refParser = re.compile("(.*)\|(ref\d{7})/?(\d+)?$") 384s /usr/lib/python3/dist-packages/pbsuite/jelly/Stages.py:82: SyntaxWarning: invalid escape sequence '\d' 384s nprocRe = re.compile("--nproc (\d+)") 384s /usr/lib/python3/dist-packages/pbsuite/jelly/m4pie.py:17: SyntaxWarning: invalid escape sequence '\d' 384s """ 384s /usr/lib/python3/dist-packages/pbsuite/jelly/m4pie.py:108: SyntaxWarning: invalid escape sequence '\d' 384s datGrab = re.compile("^(?P\d+)(?P[pe])(?P\d+)__(?P.*)$") 384s Setting up python3-pbbanana (15.8.24+dfsg-7) ... 384s /usr/lib/python3/dist-packages/pbsuite/banana/MakeOverlapTable.py:10: SyntaxWarning: invalid escape sequence '\d' 384s subreadGrab = re.compile(".*/(\d+)_(\d+)$") 384s /usr/lib/python3/dist-packages/pbsuite/banana/MakeOverlapTable.py:26: SyntaxWarning: invalid escape sequence '\s' 384s data = re.split("\s+",line) 384s /usr/lib/python3/dist-packages/pbsuite/banana/MakeReciprocal.py:12: SyntaxWarning: invalid escape sequence '\d' 384s subreadGrab = re.compile(".*/(\d+)_(\d+)$") 384s /usr/lib/python3/dist-packages/pbsuite/banana/MakeReciprocal.py:36: SyntaxWarning: invalid escape sequence '\s' 384s data = re.split("\s+",line) 384s /usr/lib/python3/dist-packages/pbsuite/banana/OLCAssembly.py:277: SyntaxWarning: invalid escape sequence '\:' 384s _exe("grep iid alignments.overlaps_realigned | cut -f2 -d\: > internal.ids") 384s /usr/lib/python3/dist-packages/pbsuite/banana/OLCAssembly.py:304: SyntaxWarning: invalid escape sequence '\d' 384s getContigName = re.compile("(\d+)_contig") 384s /usr/lib/python3/dist-packages/pbsuite/banana/chunkyBlasr.py:123: SyntaxWarning: invalid escape sequence '\ ' 384s "awk -F\ '{{if ($1 < 500) print $2}}' | " 384s Setting up pbhoney (15.8.24+dfsg-7) ... 384s /usr/lib/python3/dist-packages/pbsuite/honey/Force.py:523: SyntaxWarning: invalid escape sequence '\?' 384s forceRe = re.compile("(?PTrue|False|\?)\[(?P.*)\|(?P.*)\]") 384s /usr/lib/python3/dist-packages/pbsuite/honey/bampie.py:85: SyntaxWarning: invalid escape sequence '\d' 384s """ 384s /usr/lib/python3/dist-packages/pbsuite/honey/bampie.py:166: SyntaxWarning: invalid escape sequence '\d' 384s datGrab = re.compile("^(?P\d+)(?P[pe])(?P[01])(?P.*):(?P\d+)__(?P.*)$") 384s /usr/lib/python3/dist-packages/pbsuite/honey/realign.py:199: SyntaxWarning: invalid escape sequence '\d' 384s for i in re.findall("\d+|\^?[ATCGN]+", md): 384s Setting up autopkgtest-satdep (0) ... 384s Processing triggers for man-db (2.12.0-3) ... 384s Processing triggers for libc-bin (2.39-0ubuntu6) ... 386s (Reading database ... 72443 files and directories currently installed.) 386s Removing autopkgtest-satdep (0) ... 388s autopkgtest [15:54:47]: test pbhoney: [----------------------- 388s PIEMapping 388s 388s Please Cite: English, Adam C., William J. Salerno, Jeffery G. 388s Reid. "PBHoney: identyfying genomic variants via 388s long-read discordance and interrupted mapping." 388s BMC Bioinformatics 2014, 15:180 (June 10, 2014). 388s doi:10.1186/1471-2105-15-180 388s 388s 2024-03-23 15:54:47,672 [INFO] Running /usr/bin/Honey pie filtered_subreads.fastq lambda_modified.fasta -o mappingFinal.sam 388s 2024-03-23 15:54:47,673 [INFO] Running Blasr 428s 2024-03-23 15:55:27,524 [INFO] [0, b'[INFO] 2024-03-23T15:54:47 [blasr] started.\n[INFO] 2024-03-23T15:55:27 [blasr] ended.\n', None] 428s 2024-03-23 15:55:27,525 [INFO] Mapping Tails 428s 2024-03-23 15:55:27,528 [INFO] Extracting tails 428s 2024-03-23 15:55:27,772 [INFO] Parsed 433 reads 428s 2024-03-23 15:55:27,772 [INFO] Found 278 tails 428s 2024-03-23 15:55:27,772 [INFO] 21 reads had double tails 428s 2024-03-23 15:55:27,773 [INFO] Running Blasr 436s 2024-03-23 15:55:35,961 [INFO] [0, b'[INFO] 2024-03-23T15:55:27 [blasr] started.\n[INFO] 2024-03-23T15:55:35 [blasr] ended.\n', None] 436s 2024-03-23 15:55:35,961 [INFO] Consolidating alignments 437s 2024-03-23 15:55:35,988 [INFO] 172 tails mapped 437s Sam To Bam 437s Calling Tails 437s 437s Please Cite: English, Adam C., William J. Salerno, Jeffery G. 437s Reid. "PBHoney: identyfying genomic variants via 437s long-read discordance and interrupted mapping." 437s BMC Bioinformatics 2014, 15:180 (June 10, 2014). 437s doi:10.1186/1471-2105-15-180 437s 437s 2024-03-23 15:55:36,423 [INFO] Running /usr/bin/Honey tails mappingFinal.bam 437s 2024-03-23 15:55:36,423 [INFO] Parsing lambda_NEB3011 437s 2024-03-23 15:55:36,450 [INFO] Parsing lambda_NEB3011_lambda_NEB3011 437s 2024-03-23 15:55:36,464 [INFO] Chrom lambda_NEB3011_lambda_NEB3011 made 56 pre-filter clusters 437s 2024-03-23 15:55:36,465 [INFO] Chrom lambda_NEB3011_lambda_NEB3011 made 10 post-filter clusters 437s 2024-03-23 15:55:36,465 [INFO] Finished 437s Calling Spots 437s 437s Please Cite: English, Adam C., William J. Salerno, Jeffery G. 437s Reid. "PBHoney: identyfying genomic variants via 437s long-read discordance and interrupted mapping." 437s BMC Bioinformatics 2014, 15:180 (June 10, 2014). 437s doi:10.1186/1471-2105-15-180 437s 437s 2024-03-23 15:55:36,714 [INFO] Running /usr/bin/Honey spots --reference lambda_modified.fasta mappingFinal.bam 437s 2024-03-23 15:55:36,729 [INFO] Starting lambda_NEB3011:ErrorCounter 437s 2024-03-23 15:55:36,741 [INFO] 605 reads to parse in lambda_NEB3011 437s 2024-03-23 15:55:36,744 [INFO] 5% complete 437s 2024-03-23 15:55:36,745 [INFO] 10% complete 437s 2024-03-23 15:55:36,749 [INFO] 15% complete 437s 2024-03-23 15:55:36,751 [INFO] 20% complete 437s 2024-03-23 15:55:36,752 [INFO] 25% complete 437s 2024-03-23 15:55:36,755 [INFO] 30% complete 437s 2024-03-23 15:55:36,758 [INFO] 35% complete 437s 2024-03-23 15:55:36,760 [INFO] 40% complete 437s 2024-03-23 15:55:36,761 [INFO] 45% complete 437s 2024-03-23 15:55:36,763 [INFO] 50% complete 437s 2024-03-23 15:55:36,765 [INFO] 55% complete 437s 2024-03-23 15:55:36,767 [INFO] 60% complete 437s 2024-03-23 15:55:36,770 [INFO] 65% complete 437s 2024-03-23 15:55:36,771 [INFO] 70% complete 437s 2024-03-23 15:55:36,773 [INFO] 75% complete 437s 2024-03-23 15:55:36,775 [INFO] 80% complete 437s 2024-03-23 15:55:36,777 [INFO] 85% complete 437s 2024-03-23 15:55:36,780 [INFO] 90% complete 437s 2024-03-23 15:55:36,781 [INFO] 95% complete 437s 2024-03-23 15:55:36,798 [INFO] lambda_NEB3011:ErrorCounter -> spot 437s 2024-03-23 15:55:36,798 [INFO] Starting lambda_NEB3011:SpotCaller 437s 2024-03-23 15:55:36,812 [INFO] |lambda_NEB3011:SpotCaller|COV processing 437s 2024-03-23 15:55:36,812 [INFO] |lambda_NEB3011:SpotCaller|MaxCov:32 MeanCov:16 StdCov:5 MinCov:5 437s 2024-03-23 15:55:36,813 [INFO] |lambda_NEB3011:SpotCaller|INS processing 437s 2024-03-23 15:55:36,819 [INFO] |lambda_NEB3011:SpotCaller|RateMean 0.032458 -- RateStd 0.177212 437s 2024-03-23 15:55:36,819 [INFO] |lambda_NEB3011:SpotCaller|DEL processing 437s 2024-03-23 15:55:36,825 [INFO] |lambda_NEB3011:SpotCaller|RateMean 0.104832 -- RateStd 0.306337 437s 2024-03-23 15:55:36,827 [INFO] Finished 437s 2024-03-23 15:55:36,827 [INFO] Thread Consumer-1: Exiting 438s autopkgtest [15:55:37]: test pbhoney: -----------------------] 438s autopkgtest [15:55:37]: test pbhoney: - - - - - - - - - - results - - - - - - - - - - 438s pbhoney PASS 439s autopkgtest [15:55:38]: @@@@@@@@@@@@@@@@@@@@ summary 439s pbhoney PASS 453s Creating nova instance adt-noble-ppc64el-pbsuite-20240323-154819-juju-7f2275-prod-proposed-migration-environment-2 from image adt/ubuntu-noble-ppc64el-server-20240321.img (UUID 024d6af5-fcba-4a84-85f9-01f41e1878d6)...