0s autopkgtest [21:42:36]: starting date and time: 2024-11-15 21:42:36+0000 0s autopkgtest [21:42:36]: git checkout: 0acbae0a WIP show VirtSubproc stderr in real-time 0s autopkgtest [21:42:36]: host juju-7f2275-prod-proposed-migration-environment-2; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work.uiub_u3d/out --timeout-copy=6000 --setup-commands /home/ubuntu/autopkgtest-cloud/worker-config-production/setup-canonical.sh --apt-pocket=proposed=src:scikit-learn --apt-upgrade macs --timeout-short=300 --timeout-copy=20000 --timeout-build=20000 --env=ADT_TEST_TRIGGERS=scikit-learn/1.4.2+dfsg-6build1 -- ssh -s /home/ubuntu/autopkgtest/ssh-setup/nova -- --flavor autopkgtest --security-groups autopkgtest-juju-7f2275-prod-proposed-migration-environment-2@lcy02-68.secgroup --name adt-plucky-amd64-macs-20241115-214236-juju-7f2275-prod-proposed-migration-environment-2-5783779d-4471-4690-910d-1e1ddacc4bda --image adt/ubuntu-plucky-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,keyserver.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/ 45s autopkgtest [21:43:21]: testbed dpkg architecture: amd64 45s autopkgtest [21:43:21]: testbed apt version: 2.9.8 45s autopkgtest [21:43:21]: @@@@@@@@@@@@@@@@@@@@ test bed setup 45s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease [73.9 kB] 45s Get:2 http://ftpmaster.internal/ubuntu plucky-proposed/universe Sources [1029 kB] 45s Get:3 http://ftpmaster.internal/ubuntu plucky-proposed/restricted Sources [7016 B] 45s Get:4 http://ftpmaster.internal/ubuntu plucky-proposed/main Sources [93.0 kB] 45s Get:5 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse Sources [15.5 kB] 45s Get:6 http://ftpmaster.internal/ubuntu plucky-proposed/main i386 Packages [111 kB] 45s Get:7 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 Packages [176 kB] 45s Get:8 http://ftpmaster.internal/ubuntu plucky-proposed/restricted amd64 Packages [32.6 kB] 45s Get:9 http://ftpmaster.internal/ubuntu plucky-proposed/universe i386 Packages [297 kB] 45s Get:10 http://ftpmaster.internal/ubuntu plucky-proposed/universe amd64 Packages [811 kB] 45s Get:11 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse amd64 Packages [9416 B] 45s Get:12 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse i386 Packages [740 B] 46s Fetched 2655 kB in 0s (7449 kB/s) 46s Reading package lists... 47s Reading package lists... 47s Building dependency tree... 47s Reading state information... 48s Calculating upgrade... 48s The following NEW packages will be installed: 48s libassuan9 48s The following packages will be upgraded: 48s libgpgme11t64 libseccomp2 python3-cffi-backend python3-markupsafe 48s 4 upgraded, 1 newly installed, 0 to remove and 0 not upgraded. 48s Need to get 361 kB of archives. 48s After this operation, 377 kB of additional disk space will be used. 48s Get:1 http://ftpmaster.internal/ubuntu plucky/main amd64 libseccomp2 amd64 2.5.5-1ubuntu5 [53.3 kB] 48s Get:2 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-cffi-backend amd64 1.17.1-2build1 [96.7 kB] 48s Get:3 http://ftpmaster.internal/ubuntu plucky/main amd64 libassuan9 amd64 3.0.1-2 [42.9 kB] 48s Get:4 http://ftpmaster.internal/ubuntu plucky/main amd64 libgpgme11t64 amd64 1.24.0-2ubuntu1 [155 kB] 48s Get:5 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-markupsafe amd64 2.1.5-1build3 [13.0 kB] 49s Fetched 361 kB in 0s (11.0 MB/s) 49s (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 ... 75575 files and directories currently installed.) 49s Preparing to unpack .../libseccomp2_2.5.5-1ubuntu5_amd64.deb ... 49s Unpacking libseccomp2:amd64 (2.5.5-1ubuntu5) over (2.5.5-1ubuntu4) ... 49s Setting up libseccomp2:amd64 (2.5.5-1ubuntu5) ... 49s (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 ... 75575 files and directories currently installed.) 49s Preparing to unpack .../python3-cffi-backend_1.17.1-2build1_amd64.deb ... 49s Unpacking python3-cffi-backend:amd64 (1.17.1-2build1) over (1.17.1-2) ... 49s Selecting previously unselected package libassuan9:amd64. 49s Preparing to unpack .../libassuan9_3.0.1-2_amd64.deb ... 49s Unpacking libassuan9:amd64 (3.0.1-2) ... 49s Preparing to unpack .../libgpgme11t64_1.24.0-2ubuntu1_amd64.deb ... 49s Unpacking libgpgme11t64:amd64 (1.24.0-2ubuntu1) over (1.23.2-5ubuntu4) ... 49s Preparing to unpack .../python3-markupsafe_2.1.5-1build3_amd64.deb ... 49s Unpacking python3-markupsafe (2.1.5-1build3) over (2.1.5-1build2) ... 49s Setting up python3-markupsafe (2.1.5-1build3) ... 49s Setting up libassuan9:amd64 (3.0.1-2) ... 49s Setting up libgpgme11t64:amd64 (1.24.0-2ubuntu1) ... 49s Setting up python3-cffi-backend:amd64 (1.17.1-2build1) ... 49s Processing triggers for libc-bin (2.40-1ubuntu3) ... 49s Reading package lists... 50s Building dependency tree... 50s Reading state information... 50s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 50s Hit:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease 50s Hit:2 http://ftpmaster.internal/ubuntu plucky InRelease 50s Hit:3 http://ftpmaster.internal/ubuntu plucky-updates InRelease 50s Hit:4 http://ftpmaster.internal/ubuntu plucky-security InRelease 52s Reading package lists... 52s Reading package lists... 52s Building dependency tree... 52s Reading state information... 53s Calculating upgrade... 53s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 53s Reading package lists... 53s Building dependency tree... 53s Reading state information... 54s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 55s autopkgtest [21:43:31]: testbed running kernel: Linux 6.11.0-8-generic #8-Ubuntu SMP PREEMPT_DYNAMIC Mon Sep 16 13:41:20 UTC 2024 56s autopkgtest [21:43:32]: @@@@@@@@@@@@@@@@@@@@ apt-source macs 59s Get:1 http://ftpmaster.internal/ubuntu plucky/universe macs 3.0.2-1 (dsc) [2152 B] 59s Get:2 http://ftpmaster.internal/ubuntu plucky/universe macs 3.0.2-1 (tar) [197 MB] 59s Get:3 http://ftpmaster.internal/ubuntu plucky/universe macs 3.0.2-1 (diff) [1268 kB] 59s gpgv: Signature made Sat Sep 7 23:10:03 2024 UTC 59s gpgv: using RSA key 724D609337113C710550D7473C26763F6C67E6E2 59s gpgv: Can't check signature: No public key 59s dpkg-source: warning: cannot verify inline signature for ./macs_3.0.2-1.dsc: no acceptable signature found 64s autopkgtest [21:43:40]: testing package macs version 3.0.2-1 64s autopkgtest [21:43:40]: build not needed 67s autopkgtest [21:43:43]: test run-unit-test: preparing testbed 68s Reading package lists... 68s Building dependency tree... 68s Reading state information... 68s Starting pkgProblemResolver with broken count: 0 68s Starting 2 pkgProblemResolver with broken count: 0 68s Done 69s The following additional packages will be installed: 69s libblas3 libgfortran5 libgomp1 liblapack3 liblbfgsb0 macs python3-cykhash 69s python3-decorator python3-hmmlearn python3-joblib python3-numpy 69s python3-scipy python3-sklearn python3-sklearn-lib python3-threadpoolctl 69s Suggested packages: 69s python-joblib-doc gcc gfortran python-numpy-doc python3-dev python3-pytest 69s python-scipy-doc python3-dap python-sklearn-doc ipython3 69s Recommended packages: 69s python3-pytest python3-simplejson python3-psutil g++ | c++-compiler 69s python3-pil python3-matplotlib 69s The following NEW packages will be installed: 69s autopkgtest-satdep libblas3 libgfortran5 libgomp1 liblapack3 liblbfgsb0 macs 69s python3-cykhash python3-decorator python3-hmmlearn python3-joblib 69s python3-numpy python3-scipy python3-sklearn python3-sklearn-lib 69s python3-threadpoolctl 69s 0 upgraded, 16 newly installed, 0 to remove and 0 not upgraded. 69s Need to get 39.8 MB/39.8 MB of archives. 69s After this operation, 182 MB of additional disk space will be used. 69s Get:1 /tmp/autopkgtest.myJU6Z/1-autopkgtest-satdep.deb autopkgtest-satdep amd64 0 [704 B] 69s Get:2 http://ftpmaster.internal/ubuntu plucky/main amd64 libblas3 amd64 3.12.0-3build2 [247 kB] 69s Get:3 http://ftpmaster.internal/ubuntu plucky/main amd64 libgfortran5 amd64 14.2.0-8ubuntu1 [909 kB] 69s Get:4 http://ftpmaster.internal/ubuntu plucky/main amd64 libgomp1 amd64 14.2.0-8ubuntu1 [148 kB] 69s Get:5 http://ftpmaster.internal/ubuntu plucky/main amd64 liblapack3 amd64 3.12.0-3build2 [2668 kB] 69s Get:6 http://ftpmaster.internal/ubuntu plucky/universe amd64 liblbfgsb0 amd64 3.0+dfsg.4-1build1 [29.9 kB] 69s Get:7 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-numpy amd64 1:1.26.4+ds-11build1 [4479 kB] 69s Get:8 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-cykhash amd64 2.0.0-3build1 [454 kB] 69s Get:9 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-decorator all 5.1.1-5 [10.1 kB] 69s Get:10 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-scipy amd64 1.13.1-5 [18.2 MB] 69s Get:11 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-joblib all 1.3.2-5 [206 kB] 69s Get:12 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-threadpoolctl all 3.1.0-1 [21.3 kB] 69s Get:13 http://ftpmaster.internal/ubuntu plucky-proposed/universe amd64 python3-sklearn-lib amd64 1.4.2+dfsg-6build1 [6868 kB] 70s Get:14 http://ftpmaster.internal/ubuntu plucky-proposed/universe amd64 python3-sklearn all 1.4.2+dfsg-6build1 [2257 kB] 70s Get:15 http://ftpmaster.internal/ubuntu plucky/universe amd64 python3-hmmlearn amd64 0.3.2-2 [127 kB] 70s Get:16 http://ftpmaster.internal/ubuntu plucky/universe amd64 macs amd64 3.0.2-1 [3234 kB] 70s Fetched 39.8 MB in 1s (57.9 MB/s) 70s Selecting previously unselected package libblas3:amd64. 70s (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 ... 75582 files and directories currently installed.) 70s Preparing to unpack .../00-libblas3_3.12.0-3build2_amd64.deb ... 70s Unpacking libblas3:amd64 (3.12.0-3build2) ... 70s Selecting previously unselected package libgfortran5:amd64. 70s Preparing to unpack .../01-libgfortran5_14.2.0-8ubuntu1_amd64.deb ... 70s Unpacking libgfortran5:amd64 (14.2.0-8ubuntu1) ... 70s Selecting previously unselected package libgomp1:amd64. 70s Preparing to unpack .../02-libgomp1_14.2.0-8ubuntu1_amd64.deb ... 70s Unpacking libgomp1:amd64 (14.2.0-8ubuntu1) ... 70s Selecting previously unselected package liblapack3:amd64. 70s Preparing to unpack .../03-liblapack3_3.12.0-3build2_amd64.deb ... 70s Unpacking liblapack3:amd64 (3.12.0-3build2) ... 70s Selecting previously unselected package liblbfgsb0:amd64. 70s Preparing to unpack .../04-liblbfgsb0_3.0+dfsg.4-1build1_amd64.deb ... 70s Unpacking liblbfgsb0:amd64 (3.0+dfsg.4-1build1) ... 70s Selecting previously unselected package python3-numpy. 70s Preparing to unpack .../05-python3-numpy_1%3a1.26.4+ds-11build1_amd64.deb ... 70s Unpacking python3-numpy (1:1.26.4+ds-11build1) ... 71s Selecting previously unselected package python3-cykhash. 71s Preparing to unpack .../06-python3-cykhash_2.0.0-3build1_amd64.deb ... 71s Unpacking python3-cykhash (2.0.0-3build1) ... 71s Selecting previously unselected package python3-decorator. 71s Preparing to unpack .../07-python3-decorator_5.1.1-5_all.deb ... 71s Unpacking python3-decorator (5.1.1-5) ... 71s Selecting previously unselected package python3-scipy. 71s Preparing to unpack .../08-python3-scipy_1.13.1-5_amd64.deb ... 71s Unpacking python3-scipy (1.13.1-5) ... 71s Selecting previously unselected package python3-joblib. 71s Preparing to unpack .../09-python3-joblib_1.3.2-5_all.deb ... 71s Unpacking python3-joblib (1.3.2-5) ... 71s Selecting previously unselected package python3-threadpoolctl. 71s Preparing to unpack .../10-python3-threadpoolctl_3.1.0-1_all.deb ... 71s Unpacking python3-threadpoolctl (3.1.0-1) ... 71s Selecting previously unselected package python3-sklearn-lib:amd64. 71s Preparing to unpack .../11-python3-sklearn-lib_1.4.2+dfsg-6build1_amd64.deb ... 71s Unpacking python3-sklearn-lib:amd64 (1.4.2+dfsg-6build1) ... 72s Selecting previously unselected package python3-sklearn. 72s Preparing to unpack .../12-python3-sklearn_1.4.2+dfsg-6build1_all.deb ... 72s Unpacking python3-sklearn (1.4.2+dfsg-6build1) ... 72s Selecting previously unselected package python3-hmmlearn. 72s Preparing to unpack .../13-python3-hmmlearn_0.3.2-2_amd64.deb ... 72s Unpacking python3-hmmlearn (0.3.2-2) ... 72s Selecting previously unselected package macs. 72s Preparing to unpack .../14-macs_3.0.2-1_amd64.deb ... 72s Unpacking macs (3.0.2-1) ... 72s Selecting previously unselected package autopkgtest-satdep. 72s Preparing to unpack .../15-1-autopkgtest-satdep.deb ... 72s Unpacking autopkgtest-satdep (0) ... 72s Setting up python3-joblib (1.3.2-5) ... 72s Setting up python3-threadpoolctl (3.1.0-1) ... 72s Setting up libgomp1:amd64 (14.2.0-8ubuntu1) ... 72s Setting up python3-cykhash (2.0.0-3build1) ... 73s Setting up python3-decorator (5.1.1-5) ... 73s Setting up libblas3:amd64 (3.12.0-3build2) ... 73s update-alternatives: using /usr/lib/x86_64-linux-gnu/blas/libblas.so.3 to provide /usr/lib/x86_64-linux-gnu/libblas.so.3 (libblas.so.3-x86_64-linux-gnu) in auto mode 73s Setting up libgfortran5:amd64 (14.2.0-8ubuntu1) ... 73s Setting up liblapack3:amd64 (3.12.0-3build2) ... 73s update-alternatives: using /usr/lib/x86_64-linux-gnu/lapack/liblapack.so.3 to provide /usr/lib/x86_64-linux-gnu/liblapack.so.3 (liblapack.so.3-x86_64-linux-gnu) in auto mode 73s Setting up python3-numpy (1:1.26.4+ds-11build1) ... 75s Setting up liblbfgsb0:amd64 (3.0+dfsg.4-1build1) ... 75s Setting up python3-scipy (1.13.1-5) ... 78s Setting up python3-sklearn-lib:amd64 (1.4.2+dfsg-6build1) ... 78s Setting up python3-sklearn (1.4.2+dfsg-6build1) ... 80s Setting up python3-hmmlearn (0.3.2-2) ... 80s Setting up macs (3.0.2-1) ... 80s Setting up autopkgtest-satdep (0) ... 80s Processing triggers for man-db (2.13.0-1) ... 81s Processing triggers for libc-bin (2.40-1ubuntu3) ... 83s (Reading database ... 79208 files and directories currently installed.) 83s Removing autopkgtest-satdep (0) ... 83s autopkgtest [21:43:59]: test run-unit-test: [----------------------- 83s + pkg=macs 83s + '[' /tmp/autopkgtest.myJU6Z/autopkgtest_tmp = '' ']' 83s + cp -a /usr/share/doc/macs/examples/aluY.chr1.bed.gz /usr/share/doc/macs/examples/gerp.chr1.bed.gz /tmp/autopkgtest.myJU6Z/autopkgtest_tmp 83s + cd /tmp/autopkgtest.myJU6Z/autopkgtest_tmp 83s + gunzip aluY.chr1.bed.gz gerp.chr1.bed.gz 83s + macs3 callpeak -t aluY.chr1.bed --nomodel -g hs -n test -B -q 0.01 84s INFO @ 15 Nov 2024 21:44:00: [39 MB] 84s # Command line: callpeak -t aluY.chr1.bed --nomodel -g hs -n test -B -q 0.01 84s # ARGUMENTS LIST: 84s # name = test 84s # format = AUTO 84s # ChIP-seq file = ['aluY.chr1.bed'] 84s # control file = None 84s # effective genome size = 2.91e+09 84s # band width = 300 84s # model fold = [5, 50] 84s # qvalue cutoff = 1.00e-02 84s # The maximum gap between significant sites is assigned as the read length/tag size. 84s # The minimum length of peaks is assigned as the predicted fragment length "d". 84s # Larger dataset will be scaled towards smaller dataset. 84s # Range for calculating regional lambda is: 10000 bps 84s # Broad region calling is off 84s # Paired-End mode is off 84s 84s INFO @ 15 Nov 2024 21:44:00: [39 MB] #1 read tag files... 84s INFO @ 15 Nov 2024 21:44:00: [39 MB] #1 read treatment tags... 84s INFO @ 15 Nov 2024 21:44:00: [40 MB] Detected format is: BED 84s INFO @ 15 Nov 2024 21:44:00: [41 MB] #1 tag size is determined as 294 bps 84s INFO @ 15 Nov 2024 21:44:00: [41 MB] #1 tag size = 294.0 84s INFO @ 15 Nov 2024 21:44:00: [41 MB] #1 total tags in treatment: 11628 84s INFO @ 15 Nov 2024 21:44:00: [41 MB] #1 user defined the maximum tags... 84s INFO @ 15 Nov 2024 21:44:00: [41 MB] #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) 84s INFO @ 15 Nov 2024 21:44:00: [41 MB] #1 tags after filtering in treatment: 11628 84s INFO @ 15 Nov 2024 21:44:00: [41 MB] #1 Redundant rate of treatment: 0.00 84s INFO @ 15 Nov 2024 21:44:00: [41 MB] #1 finished! 84s INFO @ 15 Nov 2024 21:44:00: [41 MB] #2 Build Peak Model... 84s INFO @ 15 Nov 2024 21:44:00: [41 MB] #2 Skipped... 84s INFO @ 15 Nov 2024 21:44:00: [41 MB] #2 Use 200 as fragment length 84s INFO @ 15 Nov 2024 21:44:00: [41 MB] #3 Call peaks... 84s INFO @ 15 Nov 2024 21:44:00: [42 MB] #3 Pre-compute pvalue-qvalue table... 84s INFO @ 15 Nov 2024 21:44:00: [44 MB] #3 In the peak calling step, the following will be performed simultaneously: 84s INFO @ 15 Nov 2024 21:44:00: [44 MB] #3 Write bedGraph files for treatment pileup (after scaling if necessary)... test_treat_pileup.bdg 84s INFO @ 15 Nov 2024 21:44:00: [44 MB] #3 Write bedGraph files for control lambda (after scaling if necessary)... test_control_lambda.bdg 84s INFO @ 15 Nov 2024 21:44:00: [44 MB] #3 Pileup will be based on sequencing depth in treatment. 84s INFO @ 15 Nov 2024 21:44:00: [44 MB] #3 Call peaks for each chromosome... 84s INFO @ 15 Nov 2024 21:44:00: [44 MB] #4 Write output xls file... test_peaks.xls 84s INFO @ 15 Nov 2024 21:44:00: [45 MB] #4 Write peak in narrowPeak format file... test_peaks.narrowPeak 84s INFO @ 15 Nov 2024 21:44:00: [45 MB] #4 Write summits bed file... test_summits.bed 84s INFO @ 15 Nov 2024 21:44:00: [45 MB] Done! 84s + macs3 callpeak -t gerp.chr1.bed --nomodel --broad -g hs --broad-cutoff 0.1 84s INFO @ 15 Nov 2024 21:44:00: [39 MB] 84s # Command line: callpeak -t gerp.chr1.bed --nomodel --broad -g hs --broad-cutoff 0.1 84s # ARGUMENTS LIST: 84s # name = NA 84s # format = AUTO 84s # ChIP-seq file = ['gerp.chr1.bed'] 84s # control file = None 84s # effective genome size = 2.91e+09 84s # band width = 300 84s # model fold = [5, 50] 84s # qvalue cutoff for narrow/strong regions = 5.00e-02 84s # qvalue cutoff for broad/weak regions = 1.00e-01 84s # The maximum gap between significant sites is assigned as the read length/tag size. 84s # The minimum length of peaks is assigned as the predicted fragment length "d". 84s # Larger dataset will be scaled towards smaller dataset. 84s # Range for calculating regional lambda is: 10000 bps 84s # Broad region calling is on 84s # Paired-End mode is off 84s 84s INFO @ 15 Nov 2024 21:44:00: [39 MB] #1 read tag files... 84s INFO @ 15 Nov 2024 21:44:00: [39 MB] #1 read treatment tags... 84s INFO @ 15 Nov 2024 21:44:00: [39 MB] Detected format is: BED 84s INFO @ 15 Nov 2024 21:44:00: [50 MB] #1 tag size is determined as 181 bps 84s INFO @ 15 Nov 2024 21:44:00: [50 MB] #1 tag size = 181.0 84s INFO @ 15 Nov 2024 21:44:00: [50 MB] #1 total tags in treatment: 88292 84s INFO @ 15 Nov 2024 21:44:00: [50 MB] #1 user defined the maximum tags... 84s INFO @ 15 Nov 2024 21:44:00: [50 MB] #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) 84s INFO @ 15 Nov 2024 21:44:00: [50 MB] #1 tags after filtering in treatment: 88292 84s INFO @ 15 Nov 2024 21:44:00: [50 MB] #1 Redundant rate of treatment: 0.00 84s INFO @ 15 Nov 2024 21:44:00: [50 MB] #1 finished! 84s INFO @ 15 Nov 2024 21:44:00: [50 MB] #2 Build Peak Model... 84s INFO @ 15 Nov 2024 21:44:00: [50 MB] #2 Skipped... 84s INFO @ 15 Nov 2024 21:44:00: [50 MB] #2 Use 200 as fragment length 84s INFO @ 15 Nov 2024 21:44:00: [50 MB] #3 Call peaks... 84s INFO @ 15 Nov 2024 21:44:00: [50 MB] #3 Call broad peaks with given level1 -log10qvalue cutoff and level2: 1.301030, 1.000000... 84s INFO @ 15 Nov 2024 21:44:00: [50 MB] #3 Pre-compute pvalue-qvalue table... 84s INFO @ 15 Nov 2024 21:44:00: [68 MB] #3 Call peaks for each chromosome... 84s INFO @ 15 Nov 2024 21:44:00: [70 MB] #4 Write output xls file... NA_peaks.xls 84s INFO @ 15 Nov 2024 21:44:00: [70 MB] #4 Write broad peak in broadPeak format file... NA_peaks.broadPeak 84s INFO @ 15 Nov 2024 21:44:00: [70 MB] #4 Write broad peak in bed12/gappedPeak format file... NA_peaks.gappedPeak 84s INFO @ 15 Nov 2024 21:44:00: [70 MB] Done! 85s autopkgtest [21:44:01]: test run-unit-test: -----------------------] 85s autopkgtest [21:44:01]: test run-unit-test: - - - - - - - - - - results - - - - - - - - - - 85s run-unit-test PASS 85s autopkgtest [21:44:01]: @@@@@@@@@@@@@@@@@@@@ summary 85s run-unit-test PASS 95s virt: nova [W] Skipping flock for amd64 95s virt: Creating nova instance adt-plucky-amd64-macs-20241115-214236-juju-7f2275-prod-proposed-migration-environment-2-5783779d-4471-4690-910d-1e1ddacc4bda from image adt/ubuntu-plucky-amd64-server-20241115.img (UUID cc9375bb-1426-47d8-a5d8-f3536037532e)...