[2019-09-06 03:47:36,673] 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
[2019-09-06 03:47:36,673] multiqc [DEBUG ] No MultiQC config found: /home/mk5636/.multiqc_config.yaml
[2019-09-06 03:47:36,673] multiqc [DEBUG ] No MultiQC config found: multiqc_config.yaml
[2019-09-06 03:47:36,680] multiqc [DEBUG ] Loading config settings from: /home/mk5636/SCRIPTS/hpcpipe/mqc_config.yaml
[2019-09-06 03:47:36,680] multiqc [DEBUG ] New config 'report_section_order': {'demux_report': {'after': 'run_stats'}}
[2019-09-06 03:47:36,681] multiqc [DEBUG ] Command used: /share/apps/multiqc/20170330/intel/bin/multiqc -f -c /home/mk5636/SCRIPTS/hpcpipe/mqc_config.yaml /beegfs/mk5636/logs/html/HFHGMBGXC/merged
[2019-09-06 03:47:36,681] multiqc [DEBUG ] Could not connect to multiqc.info for version check
[2019-09-06 03:47:36,681] multiqc [INFO ] This is MultiQC v1.0.dev0
[2019-09-06 03:47:36,681] multiqc [DEBUG ] Command : /share/apps/multiqc/20170330/intel/bin/multiqc -f -c /home/mk5636/SCRIPTS/hpcpipe/mqc_config.yaml /beegfs/mk5636/logs/html/HFHGMBGXC/merged
[2019-09-06 03:47:36,681] multiqc [DEBUG ] Working dir : /beegfs/mk5636/logs/html/HFHGMBGXC/merged
[2019-09-06 03:47:36,681] multiqc [INFO ] Template : default
[2019-09-06 03:47:36,682] multiqc [DEBUG ] Running in --force mode, will overwrite any existing reports.
[2019-09-06 03:47:36,682] multiqc [INFO ] Searching '/beegfs/mk5636/logs/html/HFHGMBGXC/merged'
[2019-09-06 03:47:36,682] 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
[2019-09-06 03:47:36,682] multiqc [DEBUG ] Using temporary directory for creating report: /state/partition1/job-4158349/tmpe2K7Lg
[2019-09-06 03:47:37,270] multiqc.modules.rna_seqc.rna_seqc [DEBUG ] Could not find any RNA-SeQC data in ('/beegfs/mk5636/logs/html/HFHGMBGXC/merged',)
[2019-09-06 03:47:37,333] multiqc.modules.custom_content.custom_content [INFO ] demux_report: Found 28 samples (table)
[2019-09-06 03:47:37,347] multiqc.modules.custom_content.custom_content [INFO ] undetermined_barcodes: Found 20 samples (table)
[2019-09-06 03:47:37,350] multiqc.modules.custom_content.custom_content [INFO ] run_stats: Found 1 samples (table)
[2019-09-06 03:47:37,375] multiqc.modules.peddy.peddy [DEBUG ] Could not find any reports in ('/beegfs/mk5636/logs/html/HFHGMBGXC/merged',)
[2019-09-06 03:47:37,388] multiqc.modules.methylQA.methylQA [DEBUG ] Could not find any reports in ('/beegfs/mk5636/logs/html/HFHGMBGXC/merged',)
[2019-09-06 03:47:37,399] multiqc.modules.qualimap.QM_BamQC [DEBUG ] Using default Qualimap thresholds: 1, 5, 10, 30, 50
[2019-09-06 03:47:37,421] multiqc.modules.qualimap.qualimap [DEBUG ] Could not find any reports in ('/beegfs/mk5636/logs/html/HFHGMBGXC/merged',)
[2019-09-06 03:47:38,700] multiqc.modules.preseq.preseq [DEBUG ] Could not find any preseq data in ('/beegfs/mk5636/logs/html/HFHGMBGXC/merged',)
[2019-09-06 03:47:38,711] multiqc.modules.quast.quast [DEBUG ] Could not find any reports in ('/beegfs/mk5636/logs/html/HFHGMBGXC/merged',)
[2019-09-06 03:47:39,199] multiqc.modules.rseqc.rseqc [DEBUG ] Could not find any reports in ('/beegfs/mk5636/logs/html/HFHGMBGXC/merged',)
[2019-09-06 03:47:39,211] multiqc.modules.busco.busco [DEBUG ] Could not find any reports in ('/beegfs/mk5636/logs/html/HFHGMBGXC/merged',)
[2019-09-06 03:47:39,224] multiqc.modules.goleft_indexcov.goleft_indexcov [DEBUG ] Did not find goleft indexcov outputs in ('/beegfs/mk5636/logs/html/HFHGMBGXC/merged',)
[2019-09-06 03:47:39,331] multiqc.modules.snpeff.snpeff [DEBUG ] Could not find any data in ('/beegfs/mk5636/logs/html/HFHGMBGXC/merged',)
[2019-09-06 03:47:39,437] multiqc.modules.gatk.gatk [DEBUG ] Could not find any reports in ('/beegfs/mk5636/logs/html/HFHGMBGXC/merged',)
[2019-09-06 03:47:39,543] multiqc.modules.htseq.htseq [DEBUG ] Could not find any reports in ('/beegfs/mk5636/logs/html/HFHGMBGXC/merged',)
[2019-09-06 03:47:39,648] multiqc.modules.bcftools.bcftools [DEBUG ] Could not find any reports in ('/beegfs/mk5636/logs/html/HFHGMBGXC/merged',)
[2019-09-06 03:47:39,657] multiqc.modules.featureCounts.feature_counts [DEBUG ] Could not find any reports in ('/beegfs/mk5636/logs/html/HFHGMBGXC/merged',)
[2019-09-06 03:47:40,662] multiqc.modules.picard.picard [DEBUG ] Could not find any reports in ('/beegfs/mk5636/logs/html/HFHGMBGXC/merged',)
[2019-09-06 03:47:40,675] multiqc.modules.prokka.prokka [DEBUG ] Could not find any Prokka data in ('/beegfs/mk5636/logs/html/HFHGMBGXC/merged',)
[2019-09-06 03:47:40,780] multiqc.modules.samblaster.samblaster [DEBUG ] Could not find any data in ('/beegfs/mk5636/logs/html/HFHGMBGXC/merged',)
[2019-09-06 03:47:41,096] multiqc.modules.samtools.samtools [DEBUG ] Could not find any reports in ('/beegfs/mk5636/logs/html/HFHGMBGXC/merged',)
[2019-09-06 03:47:41,207] multiqc.modules.bamtools.bamtools [DEBUG ] Could not find any reports in ('/beegfs/mk5636/logs/html/HFHGMBGXC/merged',)
[2019-09-06 03:47:41,227] multiqc.modules.bismark.bismark [DEBUG ] Could not find any reports in ('/beegfs/mk5636/logs/html/HFHGMBGXC/merged',)
[2019-09-06 03:47:41,236] multiqc.modules.hicup.hicup [DEBUG ] Could not find any HiCUP data in ('/beegfs/mk5636/logs/html/HFHGMBGXC/merged',)
[2019-09-06 03:47:41,249] multiqc.modules.salmon.salmon [DEBUG ] Could not find any Salmon data in ('/beegfs/mk5636/logs/html/HFHGMBGXC/merged',)
[2019-09-06 03:47:41,352] multiqc.modules.kallisto.kallisto [DEBUG ] Could not find any reports in ('/beegfs/mk5636/logs/html/HFHGMBGXC/merged',)
[2019-09-06 03:47:41,953] multiqc.modules.slamdunk.slamdunk [DEBUG ] No slamdunk reports found.
[2019-09-06 03:47:41,967] multiqc.modules.star.star [DEBUG ] Could not find any reports in ('/beegfs/mk5636/logs/html/HFHGMBGXC/merged',)
[2019-09-06 03:47:41,977] multiqc.modules.tophat.tophat [DEBUG ] Could not find any reports in ('/beegfs/mk5636/logs/html/HFHGMBGXC/merged',)
[2019-09-06 03:47:42,081] multiqc.modules.bowtie2.bowtie2 [DEBUG ] Could not find any reports in ('/beegfs/mk5636/logs/html/HFHGMBGXC/merged',)
[2019-09-06 03:47:42,184] multiqc.modules.bowtie1.bowtie1 [DEBUG ] Could not find any reports in ('/beegfs/mk5636/logs/html/HFHGMBGXC/merged',)
[2019-09-06 03:47:42,288] multiqc.modules.cutadapt.cutadapt [DEBUG ] Could not find any reports in ('/beegfs/mk5636/logs/html/HFHGMBGXC/merged',)
[2019-09-06 03:47:42,393] multiqc.modules.trimmomatic.trimmomatic [DEBUG ] Could not find any Trimmomatic data in ('/beegfs/mk5636/logs/html/HFHGMBGXC/merged',)
[2019-09-06 03:47:42,512] multiqc.modules.skewer.skewer [DEBUG ] Could not find any data in ('/beegfs/mk5636/logs/html/HFHGMBGXC/merged',)
[2019-09-06 03:47:42,522] multiqc.modules.fastq_screen.fastq_screen [DEBUG ] Could not find any reports in ('/beegfs/mk5636/logs/html/HFHGMBGXC/merged',)
[2019-09-06 03:47:49,748] multiqc.modules.fastqc.fastqc [INFO ] Found 28 reports
[2019-09-06 03:47:51,494] multiqc.modules.clusterflow.clusterflow [DEBUG ] Could not find any reports in ('/beegfs/mk5636/logs/html/HFHGMBGXC/merged',)
[2019-09-06 03:47:51,525] multiqc [INFO ] Report : multiqc_report.html
[2019-09-06 03:47:51,527] multiqc [INFO ] Data : multiqc_data
[2019-09-06 03:47:51,527] multiqc [DEBUG ] Moving data file from '/state/partition1/job-4158349/tmpe2K7Lg/multiqc_data/multiqc_fastqc.txt' to '/beegfs/mk5636/logs/html/HFHGMBGXC/merged/multiqc_data'
[2019-09-06 03:47:51,536] multiqc [DEBUG ] Moving data file from '/state/partition1/job-4158349/tmpe2K7Lg/multiqc_data/multiqc_sources.txt' to '/beegfs/mk5636/logs/html/HFHGMBGXC/merged/multiqc_data'
[2019-09-06 03:47:51,538] multiqc [DEBUG ] Moving data file from '/state/partition1/job-4158349/tmpe2K7Lg/multiqc_data/multiqc_general_stats.txt' to '/beegfs/mk5636/logs/html/HFHGMBGXC/merged/multiqc_data'
[2019-09-06 03:47:51,739] multiqc [INFO ] MultiQC complete