[2018-08-07 04:24:19,062] multiqc [DEBUG ] No MultiQC config found: /share/apps/multiqc/20170330/intel/lib/python2.7/site-packages/multiqc-1.0.dev0-py2.7.egg/multiqc_config.yaml [2018-08-07 04:24:19,084] multiqc [DEBUG ] No MultiQC config found: /home/mk5636/.multiqc_config.yaml [2018-08-07 04:24:19,084] multiqc [DEBUG ] No MultiQC config found: multiqc_config.yaml [2018-08-07 04:24:19,150] multiqc [DEBUG ] Loading config settings from: /beegfs/mk5636/scripts/mqc_config.yaml [2018-08-07 04:24:19,151] multiqc [DEBUG ] New config 'report_section_order': {'demux_report': {'after': 'run_stats'}} [2018-08-07 04:24:19,151] multiqc [DEBUG ] Command used: /share/apps/multiqc/20170330/intel/bin/multiqc -f -c /beegfs/mk5636/scripts/mqc_config.yaml /beegfs/mk5636/logs/html/HGKMWBGX7/merged [2018-08-07 04:24:19,151] multiqc [DEBUG ] Could not connect to multiqc.info for version check [2018-08-07 04:24:19,151] multiqc [INFO ] This is MultiQC v1.0.dev0 [2018-08-07 04:24:19,151] multiqc [DEBUG ] Command : /share/apps/multiqc/20170330/intel/bin/multiqc -f -c /beegfs/mk5636/scripts/mqc_config.yaml /beegfs/mk5636/logs/html/HGKMWBGX7/merged [2018-08-07 04:24:19,152] multiqc [DEBUG ] Working dir : /beegfs/mk5636/logs/html/HGKMWBGX7/merged [2018-08-07 04:24:19,152] multiqc [INFO ] Template : default [2018-08-07 04:24:19,152] multiqc [DEBUG ] Running in --force mode, will overwrite any existing reports. [2018-08-07 04:24:19,152] multiqc [INFO ] Searching '/beegfs/mk5636/logs/html/HGKMWBGX7/merged' [2018-08-07 04:24:19,152] multiqc [DEBUG ] Analysing modules: rna_seqc, custom_content, peddy, methylQA, qualimap, preseq, quast, rseqc, busco, goleft_indexcov, snpeff, gatk, htseq, bcftools, featureCounts, picard, prokka, samblaster, samtools, bamtools, bismark, hicup, salmon, kallisto, slamdunk, star, tophat, bowtie2, bowtie1, cutadapt, trimmomatic, skewer, fastq_screen, fastqc, clusterflow [2018-08-07 04:24:19,152] multiqc [DEBUG ] Using temporary directory for creating report: /state/partition1/job-8009959/tmpeBCU8f [2018-08-07 04:24:19,608] multiqc.modules.rna_seqc.rna_seqc [DEBUG ] Could not find any RNA-SeQC data in ('/beegfs/mk5636/logs/html/HGKMWBGX7/merged',) [2018-08-07 04:24:19,644] multiqc.modules.custom_content.custom_content [INFO ] demux_report: Found 11 samples (table) [2018-08-07 04:24:19,646] multiqc.modules.custom_content.custom_content [INFO ] run_stats: Found 1 samples (table) [2018-08-07 04:24:19,657] multiqc.modules.peddy.peddy [DEBUG ] Could not find any reports in ('/beegfs/mk5636/logs/html/HGKMWBGX7/merged',) [2018-08-07 04:24:19,664] multiqc.modules.methylQA.methylQA [DEBUG ] Could not find any reports in ('/beegfs/mk5636/logs/html/HGKMWBGX7/merged',) [2018-08-07 04:24:19,671] multiqc.modules.qualimap.QM_BamQC [DEBUG ] Using default Qualimap thresholds: 1, 5, 10, 30, 50 [2018-08-07 04:24:19,681] multiqc.modules.qualimap.qualimap [DEBUG ] Could not find any reports in ('/beegfs/mk5636/logs/html/HGKMWBGX7/merged',) [2018-08-07 04:24:19,809] multiqc.modules.preseq.preseq [DEBUG ] Could not find any preseq data in ('/beegfs/mk5636/logs/html/HGKMWBGX7/merged',) [2018-08-07 04:24:19,817] multiqc.modules.quast.quast [DEBUG ] Could not find any reports in ('/beegfs/mk5636/logs/html/HGKMWBGX7/merged',) [2018-08-07 04:24:20,046] multiqc.modules.rseqc.rseqc [DEBUG ] Could not find any reports in ('/beegfs/mk5636/logs/html/HGKMWBGX7/merged',) [2018-08-07 04:24:20,054] multiqc.modules.busco.busco [DEBUG ] Could not find any reports in ('/beegfs/mk5636/logs/html/HGKMWBGX7/merged',) [2018-08-07 04:24:20,062] multiqc.modules.goleft_indexcov.goleft_indexcov [DEBUG ] Did not find goleft indexcov outputs in ('/beegfs/mk5636/logs/html/HGKMWBGX7/merged',) [2018-08-07 04:24:20,121] multiqc.modules.snpeff.snpeff [DEBUG ] Could not find any data in ('/beegfs/mk5636/logs/html/HGKMWBGX7/merged',) [2018-08-07 04:24:20,181] multiqc.modules.gatk.gatk [DEBUG ] Could not find any reports in ('/beegfs/mk5636/logs/html/HGKMWBGX7/merged',) [2018-08-07 04:24:20,238] multiqc.modules.htseq.htseq [DEBUG ] Could not find any reports in ('/beegfs/mk5636/logs/html/HGKMWBGX7/merged',) [2018-08-07 04:24:20,299] multiqc.modules.bcftools.bcftools [DEBUG ] Could not find any reports in ('/beegfs/mk5636/logs/html/HGKMWBGX7/merged',) [2018-08-07 04:24:20,306] multiqc.modules.featureCounts.feature_counts [DEBUG ] Could not find any reports in ('/beegfs/mk5636/logs/html/HGKMWBGX7/merged',) [2018-08-07 04:24:20,843] multiqc.modules.picard.picard [DEBUG ] Could not find any reports in ('/beegfs/mk5636/logs/html/HGKMWBGX7/merged',) [2018-08-07 04:24:20,853] multiqc.modules.prokka.prokka [DEBUG ] Could not find any Prokka data in ('/beegfs/mk5636/logs/html/HGKMWBGX7/merged',) [2018-08-07 04:24:20,912] multiqc.modules.samblaster.samblaster [DEBUG ] Could not find any data in ('/beegfs/mk5636/logs/html/HGKMWBGX7/merged',) [2018-08-07 04:24:21,080] multiqc.modules.samtools.samtools [DEBUG ] Could not find any reports in ('/beegfs/mk5636/logs/html/HGKMWBGX7/merged',) [2018-08-07 04:24:21,140] multiqc.modules.bamtools.bamtools [DEBUG ] Could not find any reports in ('/beegfs/mk5636/logs/html/HGKMWBGX7/merged',) [2018-08-07 04:24:21,154] multiqc.modules.bismark.bismark [DEBUG ] Could not find any reports in ('/beegfs/mk5636/logs/html/HGKMWBGX7/merged',) [2018-08-07 04:24:21,162] multiqc.modules.hicup.hicup [DEBUG ] Could not find any HiCUP data in ('/beegfs/mk5636/logs/html/HGKMWBGX7/merged',) [2018-08-07 04:24:21,170] multiqc.modules.salmon.salmon [DEBUG ] Could not find any Salmon data in ('/beegfs/mk5636/logs/html/HGKMWBGX7/merged',) [2018-08-07 04:24:21,230] multiqc.modules.kallisto.kallisto [DEBUG ] Could not find any reports in ('/beegfs/mk5636/logs/html/HGKMWBGX7/merged',) [2018-08-07 04:24:21,551] multiqc.modules.slamdunk.slamdunk [DEBUG ] No slamdunk reports found. [2018-08-07 04:24:21,561] multiqc.modules.star.star [DEBUG ] Could not find any reports in ('/beegfs/mk5636/logs/html/HGKMWBGX7/merged',) [2018-08-07 04:24:21,569] multiqc.modules.tophat.tophat [DEBUG ] Could not find any reports in ('/beegfs/mk5636/logs/html/HGKMWBGX7/merged',) [2018-08-07 04:24:21,629] multiqc.modules.bowtie2.bowtie2 [DEBUG ] Could not find any reports in ('/beegfs/mk5636/logs/html/HGKMWBGX7/merged',) [2018-08-07 04:24:21,689] multiqc.modules.bowtie1.bowtie1 [DEBUG ] Could not find any reports in ('/beegfs/mk5636/logs/html/HGKMWBGX7/merged',) [2018-08-07 04:24:21,747] multiqc.modules.cutadapt.cutadapt [DEBUG ] Could not find any reports in ('/beegfs/mk5636/logs/html/HGKMWBGX7/merged',) [2018-08-07 04:24:21,806] multiqc.modules.trimmomatic.trimmomatic [DEBUG ] Could not find any Trimmomatic data in ('/beegfs/mk5636/logs/html/HGKMWBGX7/merged',) [2018-08-07 04:24:21,865] multiqc.modules.skewer.skewer [DEBUG ] Could not find any data in ('/beegfs/mk5636/logs/html/HGKMWBGX7/merged',) [2018-08-07 04:24:21,873] multiqc.modules.fastq_screen.fastq_screen [DEBUG ] Could not find any reports in ('/beegfs/mk5636/logs/html/HGKMWBGX7/merged',) [2018-08-07 04:24:24,288] multiqc.modules.fastqc.fastqc [INFO ] Found 11 reports [2018-08-07 04:24:24,990] multiqc.modules.clusterflow.clusterflow [DEBUG ] Could not find any reports in ('/beegfs/mk5636/logs/html/HGKMWBGX7/merged',) [2018-08-07 04:24:25,004] multiqc [INFO ] Report : multiqc_report.html [2018-08-07 04:24:25,006] multiqc [INFO ] Data : multiqc_data [2018-08-07 04:24:25,006] multiqc [DEBUG ] Moving data file from '/state/partition1/job-8009959/tmpeBCU8f/multiqc_data/multiqc_general_stats.txt' to '/beegfs/mk5636/logs/html/HGKMWBGX7/merged/multiqc_data' [2018-08-07 04:24:25,008] multiqc [DEBUG ] Moving data file from '/state/partition1/job-8009959/tmpeBCU8f/multiqc_data/multiqc_sources.txt' to '/beegfs/mk5636/logs/html/HGKMWBGX7/merged/multiqc_data' [2018-08-07 04:24:25,009] multiqc [DEBUG ] Moving data file from '/state/partition1/job-8009959/tmpeBCU8f/multiqc_data/multiqc_fastqc.txt' to '/beegfs/mk5636/logs/html/HGKMWBGX7/merged/multiqc_data' [2018-08-07 04:24:25,120] multiqc [INFO ] MultiQC complete