0s autopkgtest [12:39:18]: starting date and time: 2024-03-21 12:39:18+0000 0s autopkgtest [12:39:18]: git checkout: 4a1cd702 l/adt_testbed: don't blame the testbed for unsolvable build deps 0s autopkgtest [12:39:18]: host juju-7f2275-prod-proposed-migration-environment-2; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work.u8mwsat3/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:wise,src:glib2.0 --apt-upgrade wise --timeout-short=300 --timeout-copy=20000 --timeout-build=20000 '--env=ADT_TEST_TRIGGERS=wise/2.4.1-24 glib2.0/2.79.3-3ubuntu5' -- ssh -s /home/ubuntu/autopkgtest/ssh-setup/nova -- --flavor autopkgtest --security-groups autopkgtest-juju-7f2275-prod-proposed-migration-environment-2@lcy02-74.secgroup --name adt-noble-amd64-wise-20240321-123918-juju-7f2275-prod-proposed-migration-environment-2 --image adt/ubuntu-noble-amd64-server --keyname testbed-juju-7f2275-prod-proposed-migration-environment-2 --net-id=net_prod-proposed-migration -e TERM=linux -e ''"'"'http_proxy=http://squid.internal:3128'"'"'' -e ''"'"'https_proxy=http://squid.internal:3128'"'"'' -e ''"'"'no_proxy=127.0.0.1,127.0.1.1,login.ubuntu.com,localhost,localdomain,novalocal,internal,archive.ubuntu.com,ports.ubuntu.com,security.ubuntu.com,ddebs.ubuntu.com,changelogs.ubuntu.com,launchpadlibrarian.net,launchpadcontent.net,launchpad.net,10.24.0.0/24,keystone.ps5.canonical.com,objectstorage.prodstack5.canonical.com'"'"'' --mirror=http://ftpmaster.internal/ubuntu/ 289s autopkgtest [12:44:07]: testbed dpkg architecture: amd64 289s autopkgtest [12:44:07]: testbed apt version: 2.7.12 289s autopkgtest [12:44:07]: @@@@@@@@@@@@@@@@@@@@ test bed setup 289s Get:1 http://ftpmaster.internal/ubuntu noble-proposed InRelease [117 kB] 290s Get:2 http://ftpmaster.internal/ubuntu noble-proposed/universe Sources [3774 kB] 290s Get:3 http://ftpmaster.internal/ubuntu noble-proposed/main Sources [495 kB] 290s Get:4 http://ftpmaster.internal/ubuntu noble-proposed/restricted Sources [6540 B] 290s Get:5 http://ftpmaster.internal/ubuntu noble-proposed/multiverse Sources [53.9 kB] 290s Get:6 http://ftpmaster.internal/ubuntu noble-proposed/main amd64 Packages [696 kB] 290s Get:7 http://ftpmaster.internal/ubuntu noble-proposed/main i386 Packages [460 kB] 290s Get:8 http://ftpmaster.internal/ubuntu noble-proposed/main amd64 c-n-f Metadata [3508 B] 290s Get:9 http://ftpmaster.internal/ubuntu noble-proposed/restricted i386 Packages [6700 B] 290s Get:10 http://ftpmaster.internal/ubuntu noble-proposed/restricted amd64 Packages [30.5 kB] 290s Get:11 http://ftpmaster.internal/ubuntu noble-proposed/restricted amd64 c-n-f Metadata [116 B] 290s Get:12 http://ftpmaster.internal/ubuntu noble-proposed/universe amd64 Packages [4238 kB] 290s Get:13 http://ftpmaster.internal/ubuntu noble-proposed/universe i386 Packages [1273 kB] 290s Get:14 http://ftpmaster.internal/ubuntu noble-proposed/universe amd64 c-n-f Metadata [9396 B] 290s Get:15 http://ftpmaster.internal/ubuntu noble-proposed/multiverse i386 Packages [26.8 kB] 290s Get:16 http://ftpmaster.internal/ubuntu noble-proposed/multiverse amd64 Packages [93.7 kB] 290s Get:17 http://ftpmaster.internal/ubuntu noble-proposed/multiverse amd64 c-n-f Metadata [196 B] 293s Fetched 11.3 MB in 1s (7808 kB/s) 293s Reading package lists... 295s Reading package lists... 295s Building dependency tree... 295s Reading state information... 295s Calculating upgrade... 295s The following packages will be REMOVED: 295s libglib2.0-0 295s The following NEW packages will be installed: 295s libglib2.0-0t64 xdg-user-dirs 295s The following packages will be upgraded: 295s debianutils gir1.2-glib-2.0 libglib2.0-data linux-firmware 296s 4 upgraded, 2 newly installed, 1 to remove and 0 not upgraded. 296s Need to get 477 MB of archives. 296s After this operation, 5887 kB of additional disk space will be used. 296s Get:1 http://ftpmaster.internal/ubuntu noble/main amd64 debianutils amd64 5.17 [89.8 kB] 296s Get:2 http://ftpmaster.internal/ubuntu noble-proposed/main amd64 gir1.2-glib-2.0 amd64 2.79.3-3ubuntu5 [183 kB] 296s Get:3 http://ftpmaster.internal/ubuntu noble-proposed/main amd64 libglib2.0-0t64 amd64 2.79.3-3ubuntu5 [1540 kB] 296s Get:4 http://ftpmaster.internal/ubuntu noble-proposed/main amd64 libglib2.0-data all 2.79.3-3ubuntu5 [46.6 kB] 296s Get:5 http://ftpmaster.internal/ubuntu noble/main amd64 xdg-user-dirs amd64 0.18-1 [18.4 kB] 296s Get:6 http://ftpmaster.internal/ubuntu noble/main amd64 linux-firmware amd64 20240318.git3b128b60-0ubuntu1 [475 MB] 299s Fetched 477 MB in 4s (136 MB/s) 300s (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 ... 71803 files and directories currently installed.) 300s Preparing to unpack .../debianutils_5.17_amd64.deb ... 300s Unpacking debianutils (5.17) over (5.16) ... 300s Setting up debianutils (5.17) ... 300s (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 ... 71803 files and directories currently installed.) 300s Preparing to unpack .../gir1.2-glib-2.0_2.79.3-3ubuntu5_amd64.deb ... 300s Unpacking gir1.2-glib-2.0:amd64 (2.79.3-3ubuntu5) over (2.79.2-1~ubuntu1) ... 300s dpkg: libglib2.0-0:amd64: dependency problems, but removing anyway as you requested: 300s udisks2 depends on libglib2.0-0 (>= 2.77.0). 300s shared-mime-info depends on libglib2.0-0 (>= 2.75.3). 300s python3-gi depends on libglib2.0-0 (>= 2.77.0). 300s python3-dbus depends on libglib2.0-0 (>= 2.16.0). 300s netplan.io depends on libglib2.0-0 (>= 2.70.0). 300s netplan-generator depends on libglib2.0-0 (>= 2.70.0). 300s libxmlb2:amd64 depends on libglib2.0-0 (>= 2.54.0). 300s libvolume-key1:amd64 depends on libglib2.0-0 (>= 2.18.0). 300s libudisks2-0:amd64 depends on libglib2.0-0 (>= 2.75.3). 300s libqrtr-glib0:amd64 depends on libglib2.0-0 (>= 2.56). 300s libqmi-proxy depends on libglib2.0-0 (>= 2.30.0). 300s libqmi-glib5:amd64 depends on libglib2.0-0 (>= 2.54.0). 300s libpolkit-gobject-1-0:amd64 depends on libglib2.0-0 (>= 2.38.0). 300s libpolkit-agent-1-0:amd64 depends on libglib2.0-0 (>= 2.38.0). 300s libnetplan0:amd64 depends on libglib2.0-0 (>= 2.75.3). 300s libmm-glib0:amd64 depends on libglib2.0-0 (>= 2.62.0). 300s libmbim-proxy depends on libglib2.0-0 (>= 2.56). 300s libmbim-glib4:amd64 depends on libglib2.0-0 (>= 2.56). 300s libjson-glib-1.0-0:amd64 depends on libglib2.0-0 (>= 2.75.3). 300s libjcat1:amd64 depends on libglib2.0-0 (>= 2.75.3). 300s libgusb2:amd64 depends on libglib2.0-0 (>= 2.75.3). 300s libgudev-1.0-0:amd64 depends on libglib2.0-0 (>= 2.38.0). 300s libgirepository-1.0-1:amd64 depends on libglib2.0-0 (>= 2.79.0). 300s libfwupd2:amd64 depends on libglib2.0-0 (>= 2.79.0). 300s libblockdev3:amd64 depends on libglib2.0-0 (>= 2.42.2). 300s libblockdev-utils3:amd64 depends on libglib2.0-0 (>= 2.75.3). 300s libblockdev-swap3:amd64 depends on libglib2.0-0 (>= 2.42.2). 300s libblockdev-part3:amd64 depends on libglib2.0-0 (>= 2.42.2). 300s libblockdev-nvme3:amd64 depends on libglib2.0-0 (>= 2.42.2). 300s libblockdev-mdraid3:amd64 depends on libglib2.0-0 (>= 2.42.2). 300s libblockdev-loop3:amd64 depends on libglib2.0-0 (>= 2.42.2). 300s libblockdev-fs3:amd64 depends on libglib2.0-0 (>= 2.42.2). 300s libblockdev-crypto3:amd64 depends on libglib2.0-0 (>= 2.42.2). 300s fwupd depends on libglib2.0-0 (>= 2.79.0). 300s bolt depends on libglib2.0-0 (>= 2.56.0). 300s 300s (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 ... 71803 files and directories currently installed.) 300s Removing libglib2.0-0:amd64 (2.79.2-1~ubuntu1) ... 300s Selecting previously unselected package libglib2.0-0t64:amd64. 300s (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 ... 71778 files and directories currently installed.) 300s Preparing to unpack .../libglib2.0-0t64_2.79.3-3ubuntu5_amd64.deb ... 300s libglib2.0-0t64.preinst: Removing /var/lib/dpkg/info/libglib2.0-0:amd64.postrm to avoid loss of /usr/share/glib-2.0/schemas/gschemas.compiled... 300s removed '/var/lib/dpkg/info/libglib2.0-0:amd64.postrm' 300s Unpacking libglib2.0-0t64:amd64 (2.79.3-3ubuntu5) ... 300s Preparing to unpack .../libglib2.0-data_2.79.3-3ubuntu5_all.deb ... 300s Unpacking libglib2.0-data (2.79.3-3ubuntu5) over (2.79.2-1~ubuntu1) ... 300s Selecting previously unselected package xdg-user-dirs. 300s Preparing to unpack .../xdg-user-dirs_0.18-1_amd64.deb ... 300s Unpacking xdg-user-dirs (0.18-1) ... 300s Preparing to unpack .../linux-firmware_20240318.git3b128b60-0ubuntu1_amd64.deb ... 300s Unpacking linux-firmware (20240318.git3b128b60-0ubuntu1) over (20240202.git36777504-0ubuntu1) ... 303s Setting up xdg-user-dirs (0.18-1) ... 303s Setting up linux-firmware (20240318.git3b128b60-0ubuntu1) ... 303s Setting up libglib2.0-0t64:amd64 (2.79.3-3ubuntu5) ... 303s No schema files found: doing nothing. 303s Setting up libglib2.0-data (2.79.3-3ubuntu5) ... 303s Setting up gir1.2-glib-2.0:amd64 (2.79.3-3ubuntu5) ... 303s Processing triggers for man-db (2.12.0-3) ... 304s Processing triggers for libc-bin (2.39-0ubuntu2) ... 304s Processing triggers for initramfs-tools (0.142ubuntu20) ... 304s update-initramfs: Generating /boot/initrd.img-6.8.0-11-generic 304s W: No lz4 in /usr/bin:/sbin:/bin, using gzip 311s Reading package lists... 312s Building dependency tree... 312s Reading state information... 312s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 313s sh: Attempting to set up Debian/Ubuntu apt sources automatically 313s Reading package lists...sh: Distribution appears to be Ubuntu 313s 314s Building dependency tree... 314s Reading state information... 314s eatmydata is already the newest version (131-1). 314s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 314s Reading package lists... 314s Building dependency tree... 314s Reading state information... 315s dbus is already the newest version (1.14.10-4ubuntu1). 315s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 315s Reading package lists... 315s Building dependency tree... 315s Reading state information... 315s rng-tools-debian is already the newest version (2.4). 315s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 315s Reading package lists... 315s Building dependency tree... 315s Reading state information... 316s The following packages will be REMOVED: 316s cloud-init* python3-configobj* python3-debconf* 316s 0 upgraded, 0 newly installed, 3 to remove and 0 not upgraded. 316s After this operation, 3252 kB disk space will be freed. 316s (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 ... 71879 files and directories currently installed.) 316s Removing cloud-init (24.1.1-0ubuntu1) ... 316s Removing python3-configobj (5.0.8-3) ... 316s Removing python3-debconf (1.5.86) ... 317s Processing triggers for man-db (2.12.0-3) ... 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 ... 71490 files and directories currently installed.) 317s Purging configuration files for cloud-init (24.1.1-0ubuntu1) ... 317s dpkg: warning: while removing cloud-init, directory '/etc/cloud/cloud.cfg.d' not empty so not removed 317s Processing triggers for rsyslog (8.2312.0-3ubuntu3) ... 317s invoke-rc.d: policy-rc.d denied execution of try-restart. 318s Reading package lists... 318s Building dependency tree... 318s Reading state information... 318s linux-generic is already the newest version (6.8.0-11.11+1). 318s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 318s Hit:1 http://ftpmaster.internal/ubuntu noble InRelease 319s Hit:2 http://ftpmaster.internal/ubuntu noble-updates InRelease 319s Hit:3 http://ftpmaster.internal/ubuntu noble-security InRelease 321s Reading package lists... 321s Reading package lists... 321s Building dependency tree... 321s Reading state information... 322s Calculating upgrade... 322s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 322s Reading package lists... 322s Building dependency tree... 322s Reading state information... 322s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 322s autopkgtest [12:44:40]: rebooting testbed after setup commands that affected boot 466s autopkgtest [12:47:04]: testbed running kernel: Linux 6.8.0-11-generic #11-Ubuntu SMP PREEMPT_DYNAMIC Wed Feb 14 00:29:05 UTC 2024 466s autopkgtest [12:47:04]: @@@@@@@@@@@@@@@@@@@@ apt-source wise 468s Get:1 http://ftpmaster.internal/ubuntu noble/universe wise 2.4.1-23 (dsc) [2179 B] 468s Get:2 http://ftpmaster.internal/ubuntu noble/universe wise 2.4.1-23 (tar) [3410 kB] 468s Get:3 http://ftpmaster.internal/ubuntu noble/universe wise 2.4.1-23 (diff) [27.2 kB] 468s gpgv: Signature made Sat Apr 18 16:13:39 2020 UTC 468s gpgv: using RSA key F1F007320A035541F0A663CA578A0494D1C646D1 468s gpgv: issuer "tille@debian.org" 468s gpgv: Can't check signature: No public key 468s dpkg-source: warning: cannot verify inline signature for ./wise_2.4.1-23.dsc: no acceptable signature found 468s autopkgtest [12:47:06]: testing package wise version 2.4.1-23 468s autopkgtest [12:47:06]: build not needed 468s autopkgtest [12:47:06]: test run-unit-test: preparing testbed 473s Reading package lists... 474s Building dependency tree... 474s Reading state information... 474s Starting pkgProblemResolver with broken count: 0 474s Starting 2 pkgProblemResolver with broken count: 0 474s Done 474s The following additional packages will be installed: 474s wise wise-data 474s Suggested packages: 474s wise-doc 475s The following NEW packages will be installed: 475s autopkgtest-satdep wise wise-data 475s 0 upgraded, 3 newly installed, 0 to remove and 0 not upgraded. 475s Need to get 1072 kB/1073 kB of archives. 475s After this operation, 10.6 MB of additional disk space will be used. 475s Get:1 /tmp/autopkgtest.kk2Lou/1-autopkgtest-satdep.deb autopkgtest-satdep amd64 0 [708 B] 475s Get:2 http://ftpmaster.internal/ubuntu noble/universe amd64 wise-data all 2.4.1-23 [76.8 kB] 475s Get:3 http://ftpmaster.internal/ubuntu noble/universe amd64 wise amd64 2.4.1-23 [995 kB] 475s Fetched 1072 kB in 0s (15.5 MB/s) 475s Selecting previously unselected package wise-data. 475s (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 ... 71435 files and directories currently installed.) 475s Preparing to unpack .../wise-data_2.4.1-23_all.deb ... 475s Unpacking wise-data (2.4.1-23) ... 475s Selecting previously unselected package wise. 475s Preparing to unpack .../wise_2.4.1-23_amd64.deb ... 475s Unpacking wise (2.4.1-23) ... 476s Selecting previously unselected package autopkgtest-satdep. 476s Preparing to unpack .../1-autopkgtest-satdep.deb ... 476s Unpacking autopkgtest-satdep (0) ... 476s Setting up wise-data (2.4.1-23) ... 476s Setting up wise (2.4.1-23) ... 476s Setting up autopkgtest-satdep (0) ... 476s Processing triggers for man-db (2.12.0-3) ... 478s (Reading database ... 71529 files and directories currently installed.) 478s Removing autopkgtest-satdep (0) ... 478s autopkgtest [12:47:16]: test run-unit-test: [----------------------- 478s >>> Doing promoterwise promoterwise standard test 478s >>> Calling [promoterwise -silent pw.human pw.mouse > TEMP-PW] 478s >>> promoterwise ... Passed 478s >>> Doing basic-cdna cdna test case (protein v cdna), all outputs 478s >>> Calling [estwise short.pep short.dna -indel 1e-5 -subs 1e-5 -pretty -para -sum -alb -pal -silent -alg 333 > TEMP] 478s >>> basic-cdna ... Passed 478s >>> Doing basic-genomic genomic test case (protein v genomic), all outputs 478s >>> Calling [genewise short.pep short.dna -pretty -para -genes -sum -cdna -trans -ace -gener -alb -pal -quiet -dymem linear > TEMP] 478s >>> basic-genomic ... Passed 478s >>> Doing hmm-binary-cdna cdna test case (protein v cdna), all outputs 478s >>> Calling [estwise HMM.binary -indel 1e-5 -subs 1e-5 -hmmer short.dna -pretty -para -sum -alb -pal -quiet -alg 333L > TEMP] 478s >>> hmm-binary-cdna ... Passed 478s >>> Doing hmm-wrong-dna HMMs vs DNA sequence when there is no match 478s >>> Calling [genewise wrong.hmm -hmmer short.dna -alg 623 -pal > TEMP] 478s Information 478s In making HSHNCPA1 a genomic sequence, converted 2 bases (0.5%) to 478s N's from non ATGCN 478s GeneWise6 Matrix calculation: [ 0] Cells 0%[ 1000] Cells 3%[ 2000] Cells 6%[ 3000] Cells 9%[ 4000] Cells 12%[ 5000] Cells 15%[ 6000] Cells 18%[ 7000] Cells 21%[ 8000] Cells 24%[ 9000] Cells 27%[ 10000] Cells 30%[ 11000] Cells 33%[ 12000] Cells 36%[ 13000] Cells 39%[ 14000] Cells 42%[ 15000] Cells 45%[ 16000] Cells 48%[ 17000] Cells 51%[ 18000] Cells 54%[ 19000] Cells 57%[ 20000] Cells 61%[ 21000] Cells 64%[ 22000] Cells 67%[ 23000] Cells 70%[ 24000] Cells 73%[ 25000] Cells 76%[ 26000] Cells 79%[ 27000] Cells 82%[ 28000] Cells 85%[ 29000] Cells 88%[ 30000] Cells 91%[ 31000] Cells 94%[ 32000] Cells 97% 478s >>> hmm-wrong-dna ... Passed 478s >>> Doing hmm-wrong-dna-est HMMs vs DNA sequence when there is no match 478s >>> Calling [estwise wrong.hmm -hmmer short.dna -alg 333 -pal > TEMP] 478s Information 478s In making HSHNCPA1 a cdna sequence, converted 2 bases (0.5%) to N's 478s from non ATGCN 478s EstWise3 Matrix calculation: [ 0] Cells 0%[ 1000] Cells 3%[ 2000] Cells 6%[ 3000] Cells 9%[ 4000] Cells 12%[ 5000] Cells 15%[ 6000] Cells 18%[ 7000] Cells 21%[ 8000] Cells 24%[ 9000] Cells 27%[ 10000] Cells 30%[ 11000] Cells 33%[ 12000] Cells 36%[ 13000] Cells 39%[ 14000] Cells 42%[ 15000] Cells 45%[ 16000] Cells 48%[ 17000] Cells 51%[ 18000] Cells 54%[ 19000] Cells 57%[ 20000] Cells 61%[ 21000] Cells 64%[ 22000] Cells 67%[ 23000] Cells 70%[ 24000] Cells 73%[ 25000] Cells 76%[ 26000] Cells 79%[ 27000] Cells 82%[ 28000] Cells 85%[ 29000] Cells 88%[ 30000] Cells 91%[ 31000] Cells 94%[ 32000] Cells 97% 478s EstWise3 Matrix calculation: [ 0] Cells 0%[ 1000] Cells 3%[ 2000] Cells 6%[ 3000] Cells 9%[ 4000] Cells 12%[ 5000] Cells 15%[ 6000] Cells 18%[ 7000] Cells 21%[ 8000] Cells 24%[ 9000] Cells 27%[ 10000] Cells 30%[ 11000] Cells 33%[ 12000] Cells 36%[ 13000] Cells 39%[ 14000] Cells 42%[ 15000] Cells 45%[ 16000] Cells 48%[ 17000] Cells 51%[ 18000] Cells 54%[ 19000] Cells 57%[ 20000] Cells 61%[ 21000] Cells 64%[ 22000] Cells 67%[ 23000] Cells 70%[ 24000] Cells 73%[ 25000] Cells 76%[ 26000] Cells 79%[ 27000] Cells 82%[ 28000] Cells 85%[ 29000] Cells 88%[ 30000] Cells 91%[ 31000] Cells 94%[ 32000] Cells 97% 478s >>> hmm-wrong-dna-est ... Passed 478s >>> Doing hmm-ascii-genomic cdna test case (protein v cdna), all outputs 478s >>> Calling [genewise -init local HMM.ascii -hmmer short.dna -pretty -para -genes -sum -cdna -trans -ace -gener -alb -pal -quiet > TEMP] 478s >>> hmm-ascii-genomic ... Passed 478s >>> Doing genewise-db genewisedb hmm vs DNA sequences. Could take a while 478s >>> Calling [genewisedb rrm.HMM -hmmer dna.db -pretty -para -gener -genes -cdna -trans -ace -quiet -init global > TEMP] 479s >>> genewise-db ... Passed 479s >>> Doing genewise-db-lite genewisedb hmm vs DNA sequences, using GWLITE. Could take a while 479s >>> Calling [genewisedb rrm.HMM -hmmer dna.db -pretty -para -gener -genes -cdna -trans -ace -quiet -init global -alg 6LITE > TEMP] 479s >>> genewise-db-lite ... Passed 479s >>> Doing estwise-db estwisedb hmm vs DNA sequences. Could take a while 479s >>> Calling [estwisedb -init local rrm.HMM -hmmer dna.db -pretty -para -alb -quiet -alg 333 -aalg 333 > TEMP] 479s >>> estwise-db ... Passed 479s >>> Doing pswdb Protein smith waterman db search 479s >>> Calling [pswdb road.pep pep.fa -quiet > TEMP ] 479s >>> pswdb ... Passed 479s >>> Doing genewisedb-pfam-mode genewisedb designed for Pfam searching 479s >>> Calling [genewisedb -pfam rrm.HMM -dnas short.dna -pretty -para -alb -quiet -alg 623 -aalg 623L > TEMP] 479s >>> genewisedb-pfam-mode ... Passed 479s Tests passed 479s autopkgtest [12:47:17]: test run-unit-test: -----------------------] 479s autopkgtest [12:47:17]: test run-unit-test: - - - - - - - - - - results - - - - - - - - - - 479s run-unit-test PASS 479s autopkgtest [12:47:17]: @@@@@@@@@@@@@@@@@@@@ summary 479s run-unit-test PASS 489s Creating nova instance adt-noble-amd64-wise-20240321-123918-juju-7f2275-prod-proposed-migration-environment-2 from image adt/ubuntu-noble-amd64-server-20240320.img (UUID 3219a3f4-90ea-47d9-8dfb-3912f2ae9f95)...