Mercurial > repos > engineson > multiqc
diff test-data/log_bismark.txt @ 0:8f25feb85166 draft
planemo upload for repository https://github.com/EnginesOn/galaxy_tools/tree/master/tools/multiqc commit 1110117e9b07da7913ea4480566a00d1bb373531-dirty
| author | engineson |
|---|---|
| date | Fri, 27 May 2016 06:22:43 -0400 |
| parents | |
| children |
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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/log_bismark.txt Fri May 27 06:22:43 2016 -0400 @@ -0,0 +1,44 @@ +[2016-05-23 09:52:41,602] multiqc [INFO ] This is MultiQC v0.6 +[2016-05-23 09:52:41,602] multiqc [DEBUG ] Command : /root/dependencies/multiqc/0.6/cmonjeau/package_multiqc_0_6/021c59fc29be/bin/multiqc multiqc_WDir +[2016-05-23 09:52:41,602] multiqc [DEBUG ] Working dir : /root/galaxy/database/jobs_directory/000/104/working +[2016-05-23 09:52:41,602] multiqc [DEBUG ] Template : default +[2016-05-23 09:52:41,602] 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 +[2016-05-23 09:52:41,602] multiqc [DEBUG ] No MultiQC config found: /root/.multiqc_config.yaml +[2016-05-23 09:52:41,603] multiqc [DEBUG ] No MultiQC config found: multiqc_config.yaml +[2016-05-23 09:52:41,732] multiqc [INFO ] Searching 'multiqc_WDir' +[2016-05-23 09:52:41,732] 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 +[2016-05-23 09:52:41,732] multiqc [DEBUG ] Using temporary directory for creating report: /root/galaxy/database/tmp/tmpJtZqxl +[2016-05-23 09:52:41,739] multiqc.modules.snpeff.snpeff [DEBUG ] Could not find any data in ('multiqc_WDir',) +[2016-05-23 09:52:41,743] multiqc.modules.qualimap.qualimap [DEBUG ] Could not find any reports in ('multiqc_WDir',) +[2016-05-23 09:52:41,746] multiqc.modules.featureCounts.feature_counts [DEBUG ] Could not find any reports in ('multiqc_WDir',) +[2016-05-23 09:52:41,748] multiqc.modules.methylQA.methylQA [DEBUG ] Could not find any reports in ('multiqc_WDir',) +[2016-05-23 09:52:41,756] multiqc.modules.rseqc.rseqc [DEBUG ] Could not find any reports in ('multiqc_WDir',) +[2016-05-23 09:52:41,760] multiqc.modules.picard.picard [DEBUG ] Could not find any reports in ('multiqc_WDir',) +[2016-05-23 09:52:41,762] multiqc.modules.preseq.preseq [DEBUG ] Could not find any preseq data in ('multiqc_WDir',) +[2016-05-23 09:52:41,765] multiqc.modules.samblaster.samblaster [DEBUG ] Could not find any data in ('multiqc_WDir',) +[2016-05-23 09:52:41,768] multiqc.modules.samtools.samtools [DEBUG ] Could not find any reports in ('multiqc_WDir',) +[2016-05-23 09:52:41,771] multiqc.modules.bamtools.bamtools [DEBUG ] Could not find any reports in ('multiqc_WDir',) +[2016-05-23 09:52:41,779] multiqc.modules.bismark.bismark [INFO ] Found 1 bismark alignment reports +[2016-05-23 09:52:41,783] multiqc.modules.hicup.hicup [DEBUG ] Could not find any HiCUP data in ('multiqc_WDir',) +[2016-05-23 09:52:41,786] multiqc.modules.salmon.salmon [DEBUG ] Could not find any Salmon data in ('multiqc_WDir',) +[2016-05-23 09:52:41,789] multiqc.modules.star.star [DEBUG ] Could not find any reports in ('multiqc_WDir',) +[2016-05-23 09:52:41,792] multiqc.modules.tophat.tophat [DEBUG ] Could not find any reports in ('multiqc_WDir',) +[2016-05-23 09:52:41,794] multiqc.modules.bowtie2.bowtie2 [DEBUG ] Could not find any reports in ('multiqc_WDir',) +[2016-05-23 09:52:41,797] multiqc.modules.bowtie1.bowtie1 [DEBUG ] Could not find any reports in ('multiqc_WDir',) +[2016-05-23 09:52:41,800] multiqc.modules.cutadapt.cutadapt [DEBUG ] Could not find any reports in ('multiqc_WDir',) +[2016-05-23 09:52:41,803] multiqc.modules.trimmomatic.trimmomatic [DEBUG ] Could not find any Trimmomatic data in ('multiqc_WDir',) +[2016-05-23 09:52:41,806] multiqc.modules.skewer.skewer [DEBUG ] Could not find any data in ('multiqc_WDir',) +[2016-05-23 09:52:41,809] multiqc.modules.fastq_screen.fastq_screen [DEBUG ] Could not find any reports in ('multiqc_WDir',) +[2016-05-23 09:52:41,812] multiqc.modules.fastqc.fastqc [DEBUG ] Could not find any reports in ('multiqc_WDir',) +[2016-05-23 09:52:41,812] multiqc.plots.table [DEBUG ] Removing header percent_cpg_meth from general stats table, as no data +[2016-05-23 09:52:41,812] multiqc.plots.table [DEBUG ] Removing header percent_chg_meth from general stats table, as no data +[2016-05-23 09:52:41,812] multiqc.plots.table [DEBUG ] Removing header percent_chh_meth from general stats table, as no data +[2016-05-23 09:52:41,813] multiqc.plots.table [DEBUG ] Removing header total_c from general stats table, as no data +[2016-05-23 09:52:41,813] multiqc.plots.table [DEBUG ] Removing header dup_reads_percent from general stats table, as no data +[2016-05-23 09:52:41,813] multiqc.plots.table [DEBUG ] Removing header dedup_reads from general stats table, as no data +[2016-05-23 09:52:41,813] multiqc [INFO ] Report : multiqc_report.html +[2016-05-23 09:52:41,813] multiqc [INFO ] Data : multiqc_data +[2016-05-23 09:52:41,814] multiqc [DEBUG ] Moving data file from '/root/galaxy/database/tmp/tmpJtZqxl/multiqc_data/multiqc_bismark_alignment.txt' to '/root/galaxy/database/jobs_directory/000/104/working/multiqc_data' +[2016-05-23 09:52:41,814] multiqc [DEBUG ] Moving data file from '/root/galaxy/database/tmp/tmpJtZqxl/multiqc_data/multiqc_general_stats.txt' to '/root/galaxy/database/jobs_directory/000/104/working/multiqc_data' +[2016-05-23 09:52:41,814] multiqc [DEBUG ] Moving data file from '/root/galaxy/database/tmp/tmpJtZqxl/multiqc_data/multiqc_sources.txt' to '/root/galaxy/database/jobs_directory/000/104/working/multiqc_data' +[2016-05-23 09:52:41,907] multiqc [INFO ] MultiQC complete