0s autopkgtest [17:15:46]: starting date and time: 2024-03-24 17:15:46+0000 0s autopkgtest [17:15:46]: git checkout: 4a1cd702 l/adt_testbed: don't blame the testbed for unsolvable build deps 0s autopkgtest [17:15:46]: host juju-7f2275-prod-proposed-migration-environment-2; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work.czn2z9fn/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 tiddit --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-2@bos03-arm64-14.secgroup --name adt-noble-arm64-tiddit-20240324-171546-juju-7f2275-prod-proposed-migration-environment-2 --image adt/ubuntu-noble-arm64-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/ 66s autopkgtest [17:16:52]: testbed dpkg architecture: arm64 66s autopkgtest [17:16:52]: testbed apt version: 2.7.12 66s autopkgtest [17:16:52]: @@@@@@@@@@@@@@@@@@@@ test bed setup 67s Get:1 http://ftpmaster.internal/ubuntu noble-proposed InRelease [117 kB] 67s Get:2 http://ftpmaster.internal/ubuntu noble-proposed/restricted Sources [6540 B] 67s Get:3 http://ftpmaster.internal/ubuntu noble-proposed/universe Sources [3986 kB] 69s Get:4 http://ftpmaster.internal/ubuntu noble-proposed/main Sources [496 kB] 69s Get:5 http://ftpmaster.internal/ubuntu noble-proposed/multiverse Sources [57.3 kB] 69s Get:6 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 Packages [708 kB] 69s Get:7 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 c-n-f Metadata [3144 B] 69s Get:8 http://ftpmaster.internal/ubuntu noble-proposed/restricted arm64 Packages [33.7 kB] 69s Get:9 http://ftpmaster.internal/ubuntu noble-proposed/restricted arm64 c-n-f Metadata [116 B] 69s Get:10 http://ftpmaster.internal/ubuntu noble-proposed/universe arm64 Packages [4364 kB] 69s Get:11 http://ftpmaster.internal/ubuntu noble-proposed/universe arm64 c-n-f Metadata [8528 B] 69s Get:12 http://ftpmaster.internal/ubuntu noble-proposed/multiverse arm64 Packages [70.1 kB] 69s Get:13 http://ftpmaster.internal/ubuntu noble-proposed/multiverse arm64 c-n-f Metadata [116 B] 69s Fetched 9850 kB in 2s (5443 kB/s) 70s Reading package lists... 73s Reading package lists... 73s Building dependency tree... 73s Reading state information... 74s Calculating upgrade... 74s The following packages will be REMOVED: 74s libssl3 74s The following NEW packages will be installed: 74s libssl3t64 74s The following packages have been kept back: 74s curl 74s The following packages will be upgraded: 74s openssl 74s 1 upgraded, 1 newly installed, 1 to remove and 1 not upgraded. 74s Need to get 2777 kB of archives. 74s After this operation, 139 kB of additional disk space will be used. 74s Get:1 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 openssl arm64 3.0.13-0ubuntu2 [985 kB] 75s Get:2 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 libssl3t64 arm64 3.0.13-0ubuntu2 [1793 kB] 76s Fetched 2777 kB in 1s (3869 kB/s) 76s (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 ... 74819 files and directories currently installed.) 76s Preparing to unpack .../openssl_3.0.13-0ubuntu2_arm64.deb ... 76s Unpacking openssl (3.0.13-0ubuntu2) over (3.0.10-1ubuntu4) ... 77s dpkg: libssl3:arm64: dependency problems, but removing anyway as you requested: 77s wget depends on libssl3 (>= 3.0.0). 77s u-boot-tools depends on libssl3 (>= 3.0.0). 77s tnftp depends on libssl3 (>= 3.0.0). 77s tcpdump depends on libssl3 (>= 3.0.0). 77s systemd-resolved depends on libssl3 (>= 3.0.0). 77s systemd depends on libssl3 (>= 3.0.0). 77s sudo depends on libssl3 (>= 3.0.0). 77s sbsigntool depends on libssl3 (>= 3.0.0). 77s rsync depends on libssl3 (>= 3.0.0). 77s python3-cryptography depends on libssl3 (>= 3.0.0). 77s openssh-server depends on libssl3 (>= 3.0.10). 77s openssh-client depends on libssl3 (>= 3.0.10). 77s mtd-utils depends on libssl3 (>= 3.0.0). 77s mokutil depends on libssl3 (>= 3.0.0). 77s linux-headers-6.8.0-11-generic depends on libssl3 (>= 3.0.0). 77s libsystemd-shared:arm64 depends on libssl3 (>= 3.0.0). 77s libssh-4:arm64 depends on libssl3 (>= 3.0.0). 77s libsasl2-modules:arm64 depends on libssl3 (>= 3.0.0). 77s libsasl2-2:arm64 depends on libssl3 (>= 3.0.0). 77s libpython3.12-minimal:arm64 depends on libssl3 (>= 3.0.0). 77s libnvme1 depends on libssl3 (>= 3.0.0). 77s libkrb5-3:arm64 depends on libssl3 (>= 3.0.0). 77s libkmod2:arm64 depends on libssl3 (>= 3.0.0). 77s libfido2-1:arm64 depends on libssl3 (>= 3.0.0). 77s libcurl4:arm64 depends on libssl3 (>= 3.0.0). 77s libcryptsetup12:arm64 depends on libssl3 (>= 3.0.0). 77s kmod depends on libssl3 (>= 3.0.0). 77s dhcpcd-base depends on libssl3 (>= 3.0.0). 77s bind9-libs:arm64 depends on libssl3 (>= 3.0.0). 77s 77s (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 ... 74819 files and directories currently installed.) 77s Removing libssl3:arm64 (3.0.10-1ubuntu4) ... 77s Selecting previously unselected package libssl3t64:arm64. 77s (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 ... 74808 files and directories currently installed.) 77s Preparing to unpack .../libssl3t64_3.0.13-0ubuntu2_arm64.deb ... 77s Unpacking libssl3t64:arm64 (3.0.13-0ubuntu2) ... 77s Setting up libssl3t64:arm64 (3.0.13-0ubuntu2) ... 77s Setting up openssl (3.0.13-0ubuntu2) ... 77s Processing triggers for man-db (2.12.0-3) ... 77s Processing triggers for libc-bin (2.39-0ubuntu6) ... 78s Reading package lists... 78s Building dependency tree... 78s Reading state information... 78s 0 upgraded, 0 newly installed, 0 to remove and 1 not upgraded. 79s sh: Attempting to set up Debian/Ubuntu apt sources automatically 79s sh: Distribution appears to be Ubuntu 80s Reading package lists... 80s Building dependency tree... 80s Reading state information... 81s eatmydata is already the newest version (131-1). 81s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 81s Reading package lists... 81s Building dependency tree... 81s Reading state information... 82s dbus is already the newest version (1.14.10-4ubuntu1). 82s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 82s Reading package lists... 82s Building dependency tree... 82s Reading state information... 82s rng-tools-debian is already the newest version (2.4). 82s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 82s Reading package lists... 83s Building dependency tree... 83s Reading state information... 83s The following packages will be REMOVED: 83s cloud-init* python3-configobj* python3-debconf* 84s 0 upgraded, 0 newly installed, 3 to remove and 0 not upgraded. 84s After this operation, 3256 kB disk space will be freed. 84s (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 ... 74821 files and directories currently installed.) 84s Removing cloud-init (24.1.2-0ubuntu1) ... 84s Removing python3-configobj (5.0.8-3) ... 84s Removing python3-debconf (1.5.86) ... 84s Processing triggers for man-db (2.12.0-3) ... 85s (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 ... 74432 files and directories currently installed.) 85s Purging configuration files for cloud-init (24.1.2-0ubuntu1) ... 85s dpkg: warning: while removing cloud-init, directory '/etc/cloud/cloud.cfg.d' not empty so not removed 85s Processing triggers for rsyslog (8.2312.0-3ubuntu3) ... 85s invoke-rc.d: policy-rc.d denied execution of try-restart. 86s Reading package lists... 86s Building dependency tree... 86s Reading state information... 86s linux-generic is already the newest version (6.8.0-11.11+1). 86s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 87s Hit:1 http://ftpmaster.internal/ubuntu noble InRelease 87s Hit:2 http://ftpmaster.internal/ubuntu noble-updates InRelease 87s Hit:3 http://ftpmaster.internal/ubuntu noble-security InRelease 88s Reading package lists... 88s Reading package lists... 89s Building dependency tree... 89s Reading state information... 89s Calculating upgrade... 89s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 89s Reading package lists... 90s Building dependency tree... 90s Reading state information... 90s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 90s autopkgtest [17:17:16]: rebooting testbed after setup commands that affected boot 126s autopkgtest [17:17:52]: testbed running kernel: Linux 6.8.0-11-generic #11-Ubuntu SMP PREEMPT_DYNAMIC Wed Feb 14 02:53:31 UTC 2024 129s autopkgtest [17:17:55]: @@@@@@@@@@@@@@@@@@@@ apt-source tiddit 132s Get:1 http://ftpmaster.internal/ubuntu noble/universe tiddit 3.6.1+dfsg-1 (dsc) [2106 B] 132s Get:2 http://ftpmaster.internal/ubuntu noble/universe tiddit 3.6.1+dfsg-1 (tar) [19.5 kB] 132s Get:3 http://ftpmaster.internal/ubuntu noble/universe tiddit 3.6.1+dfsg-1 (diff) [1731 kB] 132s gpgv: Signature made Wed Nov 8 20:32:59 2023 UTC 132s gpgv: using RSA key F1F007320A035541F0A663CA578A0494D1C646D1 132s gpgv: issuer "tille@debian.org" 132s gpgv: Can't check signature: No public key 132s dpkg-source: warning: cannot verify inline signature for ./tiddit_3.6.1+dfsg-1.dsc: no acceptable signature found 133s autopkgtest [17:17:59]: testing package tiddit version 3.6.1+dfsg-1 134s autopkgtest [17:18:00]: build not needed 134s autopkgtest [17:18:00]: test run-unit-test: preparing testbed 138s Reading package lists... 138s Building dependency tree... 138s Reading state information... 139s Starting pkgProblemResolver with broken count: 0 139s Starting 2 pkgProblemResolver with broken count: 0 139s Done 139s The following additional packages will be installed: 139s libblas3 libdeflate0 libgfortran5 libhts3 libhtscodecs2 liblapack3 139s libpython3.11-minimal libpython3.11-stdlib python3-joblib python3-numpy 139s python3-pysam python3.11 python3.11-minimal samtools tiddit 139s Suggested packages: 139s gcc gfortran python3-dev python3-pytest python3.11-venv python3.11-doc 139s binfmt-support cwltool 139s Recommended packages: 139s python3-pytest python3-simplejson python3-psutil 139s The following NEW packages will be installed: 139s autopkgtest-satdep libblas3 libdeflate0 libgfortran5 libhts3 libhtscodecs2 139s liblapack3 libpython3.11-minimal libpython3.11-stdlib python3-joblib 139s python3-numpy python3-pysam python3.11 python3.11-minimal samtools tiddit 140s 0 upgraded, 16 newly installed, 0 to remove and 0 not upgraded. 140s Need to get 19.1 MB/19.1 MB of archives. 140s After this operation, 105 MB of additional disk space will be used. 140s Get:1 /tmp/autopkgtest.j2K2rb/1-autopkgtest-satdep.deb autopkgtest-satdep arm64 0 [708 B] 140s Get:2 http://ftpmaster.internal/ubuntu noble/main arm64 libpython3.11-minimal arm64 3.11.8-1 [837 kB] 140s Get:3 http://ftpmaster.internal/ubuntu noble/main arm64 python3.11-minimal arm64 3.11.8-1 [2150 kB] 140s Get:4 http://ftpmaster.internal/ubuntu noble/main arm64 libpython3.11-stdlib arm64 3.11.8-1 [1913 kB] 140s Get:5 http://ftpmaster.internal/ubuntu noble/main arm64 python3.11 arm64 3.11.8-1 [589 kB] 140s Get:6 http://ftpmaster.internal/ubuntu noble/main arm64 libblas3 arm64 3.12.0-3 [143 kB] 140s Get:7 http://ftpmaster.internal/ubuntu noble/main arm64 libdeflate0 arm64 1.19-1 [43.4 kB] 140s Get:8 http://ftpmaster.internal/ubuntu noble/main arm64 libgfortran5 arm64 14-20240303-1ubuntu1 [444 kB] 140s Get:9 http://ftpmaster.internal/ubuntu noble/universe arm64 libhtscodecs2 arm64 1.6.0-1 [78.1 kB] 140s Get:10 http://ftpmaster.internal/ubuntu noble/universe arm64 libhts3 arm64 1.18+ds-1 [422 kB] 140s Get:11 http://ftpmaster.internal/ubuntu noble/main arm64 liblapack3 arm64 3.12.0-3 [2241 kB] 140s Get:12 http://ftpmaster.internal/ubuntu noble/universe arm64 python3-joblib all 1.3.2-1 [207 kB] 140s Get:13 http://ftpmaster.internal/ubuntu noble/main arm64 python3-numpy arm64 1:1.24.2-2 [4525 kB] 140s Get:14 http://ftpmaster.internal/ubuntu noble/universe arm64 python3-pysam arm64 0.22.0+ds-1 [4399 kB] 141s Get:15 http://ftpmaster.internal/ubuntu noble/universe arm64 samtools arm64 1.19.2-1 [584 kB] 141s Get:16 http://ftpmaster.internal/ubuntu noble/universe arm64 tiddit arm64 3.6.1+dfsg-1 [482 kB] 141s Fetched 19.1 MB in 1s (17.0 MB/s) 141s Selecting previously unselected package libpython3.11-minimal:arm64. 141s (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 ... 74377 files and directories currently installed.) 141s Preparing to unpack .../00-libpython3.11-minimal_3.11.8-1_arm64.deb ... 141s Unpacking libpython3.11-minimal:arm64 (3.11.8-1) ... 141s Selecting previously unselected package python3.11-minimal. 141s Preparing to unpack .../01-python3.11-minimal_3.11.8-1_arm64.deb ... 141s Unpacking python3.11-minimal (3.11.8-1) ... 142s Selecting previously unselected package libpython3.11-stdlib:arm64. 142s Preparing to unpack .../02-libpython3.11-stdlib_3.11.8-1_arm64.deb ... 142s Unpacking libpython3.11-stdlib:arm64 (3.11.8-1) ... 142s Selecting previously unselected package python3.11. 142s Preparing to unpack .../03-python3.11_3.11.8-1_arm64.deb ... 142s Unpacking python3.11 (3.11.8-1) ... 142s Selecting previously unselected package libblas3:arm64. 142s Preparing to unpack .../04-libblas3_3.12.0-3_arm64.deb ... 142s Unpacking libblas3:arm64 (3.12.0-3) ... 142s Selecting previously unselected package libdeflate0:arm64. 142s Preparing to unpack .../05-libdeflate0_1.19-1_arm64.deb ... 142s Unpacking libdeflate0:arm64 (1.19-1) ... 142s Selecting previously unselected package libgfortran5:arm64. 142s Preparing to unpack .../06-libgfortran5_14-20240303-1ubuntu1_arm64.deb ... 142s Unpacking libgfortran5:arm64 (14-20240303-1ubuntu1) ... 142s Selecting previously unselected package libhtscodecs2:arm64. 142s Preparing to unpack .../07-libhtscodecs2_1.6.0-1_arm64.deb ... 142s Unpacking libhtscodecs2:arm64 (1.6.0-1) ... 142s Selecting previously unselected package libhts3:arm64. 142s Preparing to unpack .../08-libhts3_1.18+ds-1_arm64.deb ... 142s Unpacking libhts3:arm64 (1.18+ds-1) ... 142s Selecting previously unselected package liblapack3:arm64. 142s Preparing to unpack .../09-liblapack3_3.12.0-3_arm64.deb ... 142s Unpacking liblapack3:arm64 (3.12.0-3) ... 142s Selecting previously unselected package python3-joblib. 142s Preparing to unpack .../10-python3-joblib_1.3.2-1_all.deb ... 142s Unpacking python3-joblib (1.3.2-1) ... 142s Selecting previously unselected package python3-numpy. 142s Preparing to unpack .../11-python3-numpy_1%3a1.24.2-2_arm64.deb ... 142s Unpacking python3-numpy (1:1.24.2-2) ... 143s Selecting previously unselected package python3-pysam. 143s Preparing to unpack .../12-python3-pysam_0.22.0+ds-1_arm64.deb ... 143s Unpacking python3-pysam (0.22.0+ds-1) ... 143s Selecting previously unselected package samtools. 143s Preparing to unpack .../13-samtools_1.19.2-1_arm64.deb ... 143s Unpacking samtools (1.19.2-1) ... 143s Selecting previously unselected package tiddit. 143s Preparing to unpack .../14-tiddit_3.6.1+dfsg-1_arm64.deb ... 143s Unpacking tiddit (3.6.1+dfsg-1) ... 143s Selecting previously unselected package autopkgtest-satdep. 143s Preparing to unpack .../15-1-autopkgtest-satdep.deb ... 143s Unpacking autopkgtest-satdep (0) ... 143s Setting up libhtscodecs2:arm64 (1.6.0-1) ... 143s Setting up python3-joblib (1.3.2-1) ... 143s Setting up libdeflate0:arm64 (1.19-1) ... 143s Setting up libblas3:arm64 (3.12.0-3) ... 144s update-alternatives: using /usr/lib/aarch64-linux-gnu/blas/libblas.so.3 to provide /usr/lib/aarch64-linux-gnu/libblas.so.3 (libblas.so.3-aarch64-linux-gnu) in auto mode 144s Setting up libgfortran5:arm64 (14-20240303-1ubuntu1) ... 144s Setting up libpython3.11-minimal:arm64 (3.11.8-1) ... 144s Setting up python3.11-minimal (3.11.8-1) ... 145s Setting up liblapack3:arm64 (3.12.0-3) ... 145s update-alternatives: using /usr/lib/aarch64-linux-gnu/lapack/liblapack.so.3 to provide /usr/lib/aarch64-linux-gnu/liblapack.so.3 (liblapack.so.3-aarch64-linux-gnu) in auto mode 145s Setting up libhts3:arm64 (1.18+ds-1) ... 145s Setting up python3-pysam (0.22.0+ds-1) ... 145s Setting up libpython3.11-stdlib:arm64 (3.11.8-1) ... 145s Setting up samtools (1.19.2-1) ... 145s Setting up python3.11 (3.11.8-1) ... 146s Setting up python3-numpy (1:1.24.2-2) ... 148s Setting up tiddit (3.6.1+dfsg-1) ... 148s Setting up autopkgtest-satdep (0) ... 148s Processing triggers for systemd (255.2-3ubuntu2) ... 148s Processing triggers for man-db (2.12.0-3) ... 149s Processing triggers for libc-bin (2.39-0ubuntu6) ... 152s (Reading database ... 76767 files and directories currently installed.) 152s Removing autopkgtest-satdep (0) ... 153s autopkgtest [17:18:19]: test run-unit-test: [----------------------- 153s Test 1 153s + echo 'Test 1' 153s + tiddit --cov --bam normal.bam -o test1 163s + tiddit --cov -w --bam normal.bam -o test1 170s + for f in test1.* 170s + '[' -s test1.bed ']' 170s + cat test1.bed 170s + tail -20 170s hs37d5 35468001 35468501 0.0 170s hs37d5 35468501 35469001 0.0 170s hs37d5 35469001 35469501 0.0 170s hs37d5 35469501 35470001 0.0 170s hs37d5 35470001 35470501 0.0 170s hs37d5 35470501 35471001 0.0 170s hs37d5 35471001 35471501 0.0 170s hs37d5 35471501 35472001 0.0 170s hs37d5 35472001 35472501 0.0 170s hs37d5 35472501 35473001 0.0 170s hs37d5 35473001 35473501 0.0 170s hs37d5 35473501 35474001 0.0 170s hs37d5 35474001 35474501 0.0 170s hs37d5 35474501 35475001 0.0 170s hs37d5 35475001 35475501 0.0 170s hs37d5 35475501 35476001 0.0 170s hs37d5 35476001 35476501 0.0 170s hs37d5 35476501 35477001 0.0 170s hs37d5 35477001 35477501 0.0 170s hs37d5 35477501 35477943 0.0 170s + for f in test1.* 170s + '[' -s test1.wig ']' 170s + cat test1.wig 170s + tail -20 170s 0.0 170s 0.0 170s 0.0 170s 0.0 170s 0.0 170s 0.0 170s 0.0 170s 0.0 170s 0.0 170s 0.0 170s 0.0 170s 0.0 170s 0.0 170s 0.0 170s 0.0 170s 0.0 170s 0.0 170s 0.0 170s 0.0 170s 0.0 170s + rm -f ./test1.bed ./test1.wig 170s + echo PASS 170s + echo 'Test 2' 170s + tiddit --cov --bam normal.bam -o test2 170s PASS 170s Test 2 180s + tiddit --cov -w --bam tumor.bam -o test2 186s + for f in test2.* 186s + '[' -s test2.bed ']' 186s + cat test2.bed 186s + tail -20 186s hs37d5 35468001 35468501 0.0 186s hs37d5 35468501 35469001 0.0 186s hs37d5 35469001 35469501 0.0 186s hs37d5 35469501 35470001 0.0 186s hs37d5 35470001 35470501 0.0 186s hs37d5 35470501 35471001 0.0 186s hs37d5 35471001 35471501 0.0 186s hs37d5 35471501 35472001 0.0 186s hs37d5 35472001 35472501 0.0 186s hs37d5 35472501 35473001 0.0 186s hs37d5 35473001 35473501 0.0 186s hs37d5 35473501 35474001 0.0 186s hs37d5 35474001 35474501 0.0 186s hs37d5 35474501 35475001 0.0 186s hs37d5 35475001 35475501 0.0 186s hs37d5 35475501 35476001 0.0 186s hs37d5 35476001 35476501 0.0 186s hs37d5 35476501 35477001 0.0 186s hs37d5 35477001 35477501 0.0 186s hs37d5 35477501 35477943 0.0 186s + for f in test2.* 186s + '[' -s test2.wig ']' 186s + cat test2.wig 186s + tail -20 186s 0.0 186s 0.0 186s 0.0 186s 0.0 186s 0.0 186s 0.0 186s 0.0 186s 0.0 186s 0.0 186s 0.0 186s 0.0 186s 0.0 186s 0.0 186s 0.0 186s 0.0 186s 0.0 186s 0.0 186s 0.0 186s 0.0 186s 0.0 186s + rm -f ./test2.bed ./test2.wig 186s PASS 186s + echo PASS 186s autopkgtest [17:18:52]: test run-unit-test: -----------------------] 187s autopkgtest [17:18:53]: test run-unit-test: - - - - - - - - - - results - - - - - - - - - - 187s run-unit-test PASS 187s autopkgtest [17:18:53]: @@@@@@@@@@@@@@@@@@@@ summary 187s run-unit-test PASS 191s Creating nova instance adt-noble-arm64-tiddit-20240324-171546-juju-7f2275-prod-proposed-migration-environment-2 from image adt/ubuntu-noble-arm64-server-20240324.img (UUID 943dd583-2042-4622-b4ce-bdf10ad153ac)...