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annotate test-data/log_picard.txt @ 2:35c97cd9e35f draft

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planemo upload for repository https://github.com/EnginesOn/galaxy_tools/tree/master/tools/multiqc commit 1110117e9b07da7913ea4480566a00d1bb373531-dirty
author engineson
date Fri, 27 May 2016 06:25:21 -0400
parents 8f25feb85166
children
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8f25feb85166 planemo upload for repository https://github.com/EnginesOn/galaxy_tools/tree/master/tools/multiqc commit 1110117e9b07da7913ea4480566a00d1bb373531-dirty
engineson
parents:
diff changeset
1 [2016-05-23 09:33:33,915] multiqc [INFO ] This is MultiQC v0.6
8f25feb85166 planemo upload for repository https://github.com/EnginesOn/galaxy_tools/tree/master/tools/multiqc commit 1110117e9b07da7913ea4480566a00d1bb373531-dirty
engineson
parents:
diff changeset
2 [2016-05-23 09:33:33,915] multiqc [DEBUG ] Command : /root/dependencies/multiqc/0.6/cmonjeau/package_multiqc_0_6/021c59fc29be/bin/multiqc multiqc_WDir
8f25feb85166 planemo upload for repository https://github.com/EnginesOn/galaxy_tools/tree/master/tools/multiqc commit 1110117e9b07da7913ea4480566a00d1bb373531-dirty
engineson
parents:
diff changeset
3 [2016-05-23 09:33:33,916] multiqc [DEBUG ] Working dir : /root/galaxy/database/jobs_directory/000/97/working
8f25feb85166 planemo upload for repository https://github.com/EnginesOn/galaxy_tools/tree/master/tools/multiqc commit 1110117e9b07da7913ea4480566a00d1bb373531-dirty
engineson
parents:
diff changeset
4 [2016-05-23 09:33:33,916] multiqc [DEBUG ] Template : default
8f25feb85166 planemo upload for repository https://github.com/EnginesOn/galaxy_tools/tree/master/tools/multiqc commit 1110117e9b07da7913ea4480566a00d1bb373531-dirty
engineson
parents:
diff changeset
5 [2016-05-23 09:33:33,916] multiqc [DEBUG ] No MultiQC config found: /root/dependencies/multiqc/0.6/cmonjeau/package_multiqc_0_6/021c59fc29be/lib/python/multiqc-0.6-py2.7.egg/multiqc_config.yaml
8f25feb85166 planemo upload for repository https://github.com/EnginesOn/galaxy_tools/tree/master/tools/multiqc commit 1110117e9b07da7913ea4480566a00d1bb373531-dirty
engineson
parents:
diff changeset
6 [2016-05-23 09:33:33,916] multiqc [DEBUG ] No MultiQC config found: /root/.multiqc_config.yaml
8f25feb85166 planemo upload for repository https://github.com/EnginesOn/galaxy_tools/tree/master/tools/multiqc commit 1110117e9b07da7913ea4480566a00d1bb373531-dirty
engineson
parents:
diff changeset
7 [2016-05-23 09:33:33,916] multiqc [DEBUG ] No MultiQC config found: multiqc_config.yaml
8f25feb85166 planemo upload for repository https://github.com/EnginesOn/galaxy_tools/tree/master/tools/multiqc commit 1110117e9b07da7913ea4480566a00d1bb373531-dirty
engineson
parents:
diff changeset
8 [2016-05-23 09:33:34,048] multiqc [INFO ] Searching 'multiqc_WDir'
8f25feb85166 planemo upload for repository https://github.com/EnginesOn/galaxy_tools/tree/master/tools/multiqc commit 1110117e9b07da7913ea4480566a00d1bb373531-dirty
engineson
parents:
diff changeset
9 [2016-05-23 09:33:34,049] multiqc [DEBUG ] Analysing modules: snpeff, qualimap, featureCounts, methylQA, rseqc, picard, preseq, samblaster, samtools, bamtools, bismark, hicup, salmon, star, tophat, bowtie2, bowtie1, cutadapt, trimmomatic, skewer, fastq_screen, fastqc
8f25feb85166 planemo upload for repository https://github.com/EnginesOn/galaxy_tools/tree/master/tools/multiqc commit 1110117e9b07da7913ea4480566a00d1bb373531-dirty
engineson
parents:
diff changeset
10 [2016-05-23 09:33:34,049] multiqc [DEBUG ] Using temporary directory for creating report: /root/galaxy/database/tmp/tmp4Zyt3V
8f25feb85166 planemo upload for repository https://github.com/EnginesOn/galaxy_tools/tree/master/tools/multiqc commit 1110117e9b07da7913ea4480566a00d1bb373531-dirty
engineson
parents:
diff changeset
11 [2016-05-23 09:33:34,056] multiqc.modules.snpeff.snpeff [DEBUG ] Could not find any data in ('multiqc_WDir',)
8f25feb85166 planemo upload for repository https://github.com/EnginesOn/galaxy_tools/tree/master/tools/multiqc commit 1110117e9b07da7913ea4480566a00d1bb373531-dirty
engineson
parents:
diff changeset
12 [2016-05-23 09:33:34,057] multiqc.modules.qualimap.qualimap [DEBUG ] Could not find any reports in ('multiqc_WDir',)
8f25feb85166 planemo upload for repository https://github.com/EnginesOn/galaxy_tools/tree/master/tools/multiqc commit 1110117e9b07da7913ea4480566a00d1bb373531-dirty
engineson
parents:
diff changeset
13 [2016-05-23 09:33:34,059] multiqc.modules.featureCounts.feature_counts [DEBUG ] Could not find any reports in ('multiqc_WDir',)
8f25feb85166 planemo upload for repository https://github.com/EnginesOn/galaxy_tools/tree/master/tools/multiqc commit 1110117e9b07da7913ea4480566a00d1bb373531-dirty
engineson
parents:
diff changeset
14 [2016-05-23 09:33:34,061] multiqc.modules.methylQA.methylQA [DEBUG ] Could not find any reports in ('multiqc_WDir',)
8f25feb85166 planemo upload for repository https://github.com/EnginesOn/galaxy_tools/tree/master/tools/multiqc commit 1110117e9b07da7913ea4480566a00d1bb373531-dirty
engineson
parents:
diff changeset
15 [2016-05-23 09:33:34,069] multiqc.modules.rseqc.rseqc [DEBUG ] Could not find any reports in ('multiqc_WDir',)
8f25feb85166 planemo upload for repository https://github.com/EnginesOn/galaxy_tools/tree/master/tools/multiqc commit 1110117e9b07da7913ea4480566a00d1bb373531-dirty
engineson
parents:
diff changeset
16 [2016-05-23 09:33:34,083] multiqc.modules.picard.picard [INFO ] Found 1 dupMetrics reports
8f25feb85166 planemo upload for repository https://github.com/EnginesOn/galaxy_tools/tree/master/tools/multiqc commit 1110117e9b07da7913ea4480566a00d1bb373531-dirty
engineson
parents:
diff changeset
17 [2016-05-23 09:33:34,083] multiqc.modules.picard.picard [INFO ] Found 1 insertSize reports
8f25feb85166 planemo upload for repository https://github.com/EnginesOn/galaxy_tools/tree/master/tools/multiqc commit 1110117e9b07da7913ea4480566a00d1bb373531-dirty
engineson
parents:
diff changeset
18 [2016-05-23 09:33:34,088] multiqc.modules.picard.picard [INFO ] Found 1 GCbias reports
8f25feb85166 planemo upload for repository https://github.com/EnginesOn/galaxy_tools/tree/master/tools/multiqc commit 1110117e9b07da7913ea4480566a00d1bb373531-dirty
engineson
parents:
diff changeset
19 [2016-05-23 09:33:34,091] multiqc.modules.preseq.preseq [DEBUG ] Could not find any preseq data in ('multiqc_WDir',)
8f25feb85166 planemo upload for repository https://github.com/EnginesOn/galaxy_tools/tree/master/tools/multiqc commit 1110117e9b07da7913ea4480566a00d1bb373531-dirty
engineson
parents:
diff changeset
20 [2016-05-23 09:33:34,094] multiqc.modules.samblaster.samblaster [DEBUG ] Could not find any data in ('multiqc_WDir',)
8f25feb85166 planemo upload for repository https://github.com/EnginesOn/galaxy_tools/tree/master/tools/multiqc commit 1110117e9b07da7913ea4480566a00d1bb373531-dirty
engineson
parents:
diff changeset
21 [2016-05-23 09:33:34,097] multiqc.modules.samtools.samtools [DEBUG ] Could not find any reports in ('multiqc_WDir',)
8f25feb85166 planemo upload for repository https://github.com/EnginesOn/galaxy_tools/tree/master/tools/multiqc commit 1110117e9b07da7913ea4480566a00d1bb373531-dirty
engineson
parents:
diff changeset
22 [2016-05-23 09:33:34,100] multiqc.modules.bamtools.bamtools [DEBUG ] Could not find any reports in ('multiqc_WDir',)
8f25feb85166 planemo upload for repository https://github.com/EnginesOn/galaxy_tools/tree/master/tools/multiqc commit 1110117e9b07da7913ea4480566a00d1bb373531-dirty
engineson
parents:
diff changeset
23 [2016-05-23 09:33:34,102] multiqc.modules.bismark.bismark [DEBUG ] Could not find any reports in ('multiqc_WDir',)
8f25feb85166 planemo upload for repository https://github.com/EnginesOn/galaxy_tools/tree/master/tools/multiqc commit 1110117e9b07da7913ea4480566a00d1bb373531-dirty
engineson
parents:
diff changeset
24 [2016-05-23 09:33:34,104] multiqc.modules.hicup.hicup [DEBUG ] Could not find any HiCUP data in ('multiqc_WDir',)
8f25feb85166 planemo upload for repository https://github.com/EnginesOn/galaxy_tools/tree/master/tools/multiqc commit 1110117e9b07da7913ea4480566a00d1bb373531-dirty
engineson
parents:
diff changeset
25 [2016-05-23 09:33:34,106] multiqc.modules.salmon.salmon [DEBUG ] Could not find any Salmon data in ('multiqc_WDir',)
8f25feb85166 planemo upload for repository https://github.com/EnginesOn/galaxy_tools/tree/master/tools/multiqc commit 1110117e9b07da7913ea4480566a00d1bb373531-dirty
engineson
parents:
diff changeset
26 [2016-05-23 09:33:34,108] multiqc.modules.star.star [DEBUG ] Could not find any reports in ('multiqc_WDir',)
8f25feb85166 planemo upload for repository https://github.com/EnginesOn/galaxy_tools/tree/master/tools/multiqc commit 1110117e9b07da7913ea4480566a00d1bb373531-dirty
engineson
parents:
diff changeset
27 [2016-05-23 09:33:34,110] multiqc.modules.tophat.tophat [DEBUG ] Could not find any reports in ('multiqc_WDir',)
8f25feb85166 planemo upload for repository https://github.com/EnginesOn/galaxy_tools/tree/master/tools/multiqc commit 1110117e9b07da7913ea4480566a00d1bb373531-dirty
engineson
parents:
diff changeset
28 [2016-05-23 09:33:34,113] multiqc.modules.bowtie2.bowtie2 [DEBUG ] Could not find any reports in ('multiqc_WDir',)
8f25feb85166 planemo upload for repository https://github.com/EnginesOn/galaxy_tools/tree/master/tools/multiqc commit 1110117e9b07da7913ea4480566a00d1bb373531-dirty
engineson
parents:
diff changeset
29 [2016-05-23 09:33:34,116] multiqc.modules.bowtie1.bowtie1 [DEBUG ] Could not find any reports in ('multiqc_WDir',)
8f25feb85166 planemo upload for repository https://github.com/EnginesOn/galaxy_tools/tree/master/tools/multiqc commit 1110117e9b07da7913ea4480566a00d1bb373531-dirty
engineson
parents:
diff changeset
30 [2016-05-23 09:33:34,118] multiqc.modules.cutadapt.cutadapt [DEBUG ] Could not find any reports in ('multiqc_WDir',)
8f25feb85166 planemo upload for repository https://github.com/EnginesOn/galaxy_tools/tree/master/tools/multiqc commit 1110117e9b07da7913ea4480566a00d1bb373531-dirty
engineson
parents:
diff changeset
31 [2016-05-23 09:33:34,121] multiqc.modules.trimmomatic.trimmomatic [DEBUG ] Could not find any Trimmomatic data in ('multiqc_WDir',)
8f25feb85166 planemo upload for repository https://github.com/EnginesOn/galaxy_tools/tree/master/tools/multiqc commit 1110117e9b07da7913ea4480566a00d1bb373531-dirty
engineson
parents:
diff changeset
32 [2016-05-23 09:33:34,124] multiqc.modules.skewer.skewer [DEBUG ] Could not find any data in ('multiqc_WDir',)
8f25feb85166 planemo upload for repository https://github.com/EnginesOn/galaxy_tools/tree/master/tools/multiqc commit 1110117e9b07da7913ea4480566a00d1bb373531-dirty
engineson
parents:
diff changeset
33 [2016-05-23 09:33:34,126] multiqc.modules.fastq_screen.fastq_screen [DEBUG ] Could not find any reports in ('multiqc_WDir',)
8f25feb85166 planemo upload for repository https://github.com/EnginesOn/galaxy_tools/tree/master/tools/multiqc commit 1110117e9b07da7913ea4480566a00d1bb373531-dirty
engineson
parents:
diff changeset
34 [2016-05-23 09:33:34,128] multiqc.modules.fastqc.fastqc [DEBUG ] Could not find any reports in ('multiqc_WDir',)
8f25feb85166 planemo upload for repository https://github.com/EnginesOn/galaxy_tools/tree/master/tools/multiqc commit 1110117e9b07da7913ea4480566a00d1bb373531-dirty
engineson
parents:
diff changeset
35 [2016-05-23 09:33:34,129] multiqc [INFO ] Report : multiqc_report.html
8f25feb85166 planemo upload for repository https://github.com/EnginesOn/galaxy_tools/tree/master/tools/multiqc commit 1110117e9b07da7913ea4480566a00d1bb373531-dirty
engineson
parents:
diff changeset
36 [2016-05-23 09:33:34,129] multiqc [INFO ] Data : multiqc_data
8f25feb85166 planemo upload for repository https://github.com/EnginesOn/galaxy_tools/tree/master/tools/multiqc commit 1110117e9b07da7913ea4480566a00d1bb373531-dirty
engineson
parents:
diff changeset
37 [2016-05-23 09:33:34,130] multiqc [DEBUG ] Moving data file from '/root/galaxy/database/tmp/tmp4Zyt3V/multiqc_data/multiqc_picard_dups.txt' to '/root/galaxy/database/jobs_directory/000/97/working/multiqc_data'
8f25feb85166 planemo upload for repository https://github.com/EnginesOn/galaxy_tools/tree/master/tools/multiqc commit 1110117e9b07da7913ea4480566a00d1bb373531-dirty
engineson
parents:
diff changeset
38 [2016-05-23 09:33:34,130] multiqc [DEBUG ] Moving data file from '/root/galaxy/database/tmp/tmp4Zyt3V/multiqc_data/multiqc_general_stats.txt' to '/root/galaxy/database/jobs_directory/000/97/working/multiqc_data'
8f25feb85166 planemo upload for repository https://github.com/EnginesOn/galaxy_tools/tree/master/tools/multiqc commit 1110117e9b07da7913ea4480566a00d1bb373531-dirty
engineson
parents:
diff changeset
39 [2016-05-23 09:33:34,130] multiqc [DEBUG ] Moving data file from '/root/galaxy/database/tmp/tmp4Zyt3V/multiqc_data/multiqc_picard_insertSize.txt' to '/root/galaxy/database/jobs_directory/000/97/working/multiqc_data'
8f25feb85166 planemo upload for repository https://github.com/EnginesOn/galaxy_tools/tree/master/tools/multiqc commit 1110117e9b07da7913ea4480566a00d1bb373531-dirty
engineson
parents:
diff changeset
40 [2016-05-23 09:33:34,130] multiqc [DEBUG ] Moving data file from '/root/galaxy/database/tmp/tmp4Zyt3V/multiqc_data/multiqc_sources.txt' to '/root/galaxy/database/jobs_directory/000/97/working/multiqc_data'
8f25feb85166 planemo upload for repository https://github.com/EnginesOn/galaxy_tools/tree/master/tools/multiqc commit 1110117e9b07da7913ea4480566a00d1bb373531-dirty
engineson
parents:
diff changeset
41 [2016-05-23 09:33:34,206] multiqc [INFO ] MultiQC complete