[2020-11-13 02:42:36,659] 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 [2020-11-13 02:42:36,682] multiqc [DEBUG ] No MultiQC config found: /home/mk5636/.multiqc_config.yaml [2020-11-13 02:42:36,682] multiqc [DEBUG ] No MultiQC config found: multiqc_config.yaml [2020-11-13 02:42:36,691] multiqc [DEBUG ] Loading config settings from: /home/mk5636/SCRIPTS/hpcpipe/mqc_config.yaml [2020-11-13 02:42:36,691] multiqc [DEBUG ] New config 'report_section_order': {'demux_report': {'after': 'run_stats'}} [2020-11-13 02:42:36,691] multiqc [DEBUG ] Command used: /share/apps/multiqc/20170330/intel/bin/multiqc -f -c /home/mk5636/SCRIPTS/hpcpipe/mqc_config.yaml /beegfs/mk5636/logs/html/HWCTGDRXX/merged [2020-11-13 02:42:36,691] multiqc [DEBUG ] Could not connect to multiqc.info for version check [2020-11-13 02:42:36,691] multiqc [INFO ] This is MultiQC v1.0.dev0 [2020-11-13 02:42:36,691] multiqc [DEBUG ] Command : /share/apps/multiqc/20170330/intel/bin/multiqc -f -c /home/mk5636/SCRIPTS/hpcpipe/mqc_config.yaml /beegfs/mk5636/logs/html/HWCTGDRXX/merged [2020-11-13 02:42:36,691] multiqc [DEBUG ] Working dir : /beegfs/mk5636/logs/html/HWCTGDRXX/merged [2020-11-13 02:42:36,692] multiqc [INFO ] Template : default [2020-11-13 02:42:36,692] multiqc [DEBUG ] Running in --force mode, will overwrite any existing reports. [2020-11-13 02:42:36,692] multiqc [INFO ] Searching '/beegfs/mk5636/logs/html/HWCTGDRXX/merged' [2020-11-13 02:42:36,692] 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 [2020-11-13 02:42:36,692] multiqc [DEBUG ] Using temporary directory for creating report: /state/partition1/job-13654707/tmpIpFT_z [2020-11-13 02:42:37,295] multiqc.modules.rna_seqc.rna_seqc [DEBUG ] Could not find any RNA-SeQC data in ('/beegfs/mk5636/logs/html/HWCTGDRXX/merged',) [2020-11-13 02:42:37,404] multiqc.modules.custom_content.custom_content [INFO ] demux_report: Found 95 samples (table) [2020-11-13 02:42:37,416] multiqc.modules.custom_content.custom_content [INFO ] undetermined_barcodes: Found 20 samples (table) [2020-11-13 02:42:37,417] multiqc.modules.custom_content.custom_content [INFO ] run_stats: Found 1 samples (table) [2020-11-13 02:42:37,468] multiqc.modules.peddy.peddy [DEBUG ] Could not find any reports in ('/beegfs/mk5636/logs/html/HWCTGDRXX/merged',) [2020-11-13 02:42:37,487] multiqc.modules.methylQA.methylQA [DEBUG ] Could not find any reports in ('/beegfs/mk5636/logs/html/HWCTGDRXX/merged',) [2020-11-13 02:42:37,498] multiqc.modules.qualimap.QM_BamQC [DEBUG ] Using default Qualimap thresholds: 1, 5, 10, 30, 50 [2020-11-13 02:42:37,563] multiqc.modules.qualimap.qualimap [DEBUG ] Could not find any reports in ('/beegfs/mk5636/logs/html/HWCTGDRXX/merged',) [2020-11-13 02:42:42,345] multiqc.modules.preseq.preseq [DEBUG ] Could not find any preseq data in ('/beegfs/mk5636/logs/html/HWCTGDRXX/merged',) [2020-11-13 02:42:42,365] multiqc.modules.quast.quast [DEBUG ] Could not find any reports in ('/beegfs/mk5636/logs/html/HWCTGDRXX/merged',) [2020-11-13 02:42:44,904] multiqc.modules.rseqc.rseqc [DEBUG ] Could not find any reports in ('/beegfs/mk5636/logs/html/HWCTGDRXX/merged',) [2020-11-13 02:42:44,923] multiqc.modules.busco.busco [DEBUG ] Could not find any reports in ('/beegfs/mk5636/logs/html/HWCTGDRXX/merged',) [2020-11-13 02:42:44,952] multiqc.modules.goleft_indexcov.goleft_indexcov [DEBUG ] Did not find goleft indexcov outputs in ('/beegfs/mk5636/logs/html/HWCTGDRXX/merged',) [2020-11-13 02:42:45,492] multiqc.modules.snpeff.snpeff [DEBUG ] Could not find any data in ('/beegfs/mk5636/logs/html/HWCTGDRXX/merged',) [2020-11-13 02:42:46,044] multiqc.modules.gatk.gatk [DEBUG ] Could not find any reports in ('/beegfs/mk5636/logs/html/HWCTGDRXX/merged',) [2020-11-13 02:42:46,580] multiqc.modules.htseq.htseq [DEBUG ] Could not find any reports in ('/beegfs/mk5636/logs/html/HWCTGDRXX/merged',) [2020-11-13 02:42:47,114] multiqc.modules.bcftools.bcftools [DEBUG ] Could not find any reports in ('/beegfs/mk5636/logs/html/HWCTGDRXX/merged',) [2020-11-13 02:42:47,132] multiqc.modules.featureCounts.feature_counts [DEBUG ] Could not find any reports in ('/beegfs/mk5636/logs/html/HWCTGDRXX/merged',) [2020-11-13 02:42:52,940] multiqc.modules.picard.picard [DEBUG ] Could not find any reports in ('/beegfs/mk5636/logs/html/HWCTGDRXX/merged',) [2020-11-13 02:42:52,962] multiqc.modules.prokka.prokka [DEBUG ] Could not find any Prokka data in ('/beegfs/mk5636/logs/html/HWCTGDRXX/merged',) [2020-11-13 02:42:53,629] multiqc.modules.samblaster.samblaster [DEBUG ] Could not find any data in ('/beegfs/mk5636/logs/html/HWCTGDRXX/merged',) [2020-11-13 02:42:55,235] multiqc.modules.samtools.samtools [DEBUG ] Could not find any reports in ('/beegfs/mk5636/logs/html/HWCTGDRXX/merged',) [2020-11-13 02:42:55,772] multiqc.modules.bamtools.bamtools [DEBUG ] Could not find any reports in ('/beegfs/mk5636/logs/html/HWCTGDRXX/merged',) [2020-11-13 02:42:55,833] multiqc.modules.bismark.bismark [DEBUG ] Could not find any reports in ('/beegfs/mk5636/logs/html/HWCTGDRXX/merged',) [2020-11-13 02:42:55,852] multiqc.modules.hicup.hicup [DEBUG ] Could not find any HiCUP data in ('/beegfs/mk5636/logs/html/HWCTGDRXX/merged',) [2020-11-13 02:42:55,882] multiqc.modules.salmon.salmon [DEBUG ] Could not find any Salmon data in ('/beegfs/mk5636/logs/html/HWCTGDRXX/merged',) [2020-11-13 02:42:56,415] multiqc.modules.kallisto.kallisto [DEBUG ] Could not find any reports in ('/beegfs/mk5636/logs/html/HWCTGDRXX/merged',) [2020-11-13 02:42:59,746] multiqc.modules.slamdunk.slamdunk [DEBUG ] No slamdunk reports found. [2020-11-13 02:42:59,776] multiqc.modules.star.star [DEBUG ] Could not find any reports in ('/beegfs/mk5636/logs/html/HWCTGDRXX/merged',) [2020-11-13 02:42:59,796] multiqc.modules.tophat.tophat [DEBUG ] Could not find any reports in ('/beegfs/mk5636/logs/html/HWCTGDRXX/merged',) [2020-11-13 02:43:00,331] multiqc.modules.bowtie2.bowtie2 [DEBUG ] Could not find any reports in ('/beegfs/mk5636/logs/html/HWCTGDRXX/merged',) [2020-11-13 02:43:00,862] multiqc.modules.bowtie1.bowtie1 [DEBUG ] Could not find any reports in ('/beegfs/mk5636/logs/html/HWCTGDRXX/merged',) [2020-11-13 02:43:01,398] multiqc.modules.cutadapt.cutadapt [DEBUG ] Could not find any reports in ('/beegfs/mk5636/logs/html/HWCTGDRXX/merged',) [2020-11-13 02:43:01,955] multiqc.modules.trimmomatic.trimmomatic [DEBUG ] Could not find any Trimmomatic data in ('/beegfs/mk5636/logs/html/HWCTGDRXX/merged',) [2020-11-13 02:43:02,671] multiqc.modules.skewer.skewer [DEBUG ] Could not find any data in ('/beegfs/mk5636/logs/html/HWCTGDRXX/merged',) [2020-11-13 02:43:02,689] multiqc.modules.fastq_screen.fastq_screen [DEBUG ] Could not find any reports in ('/beegfs/mk5636/logs/html/HWCTGDRXX/merged',) [2020-11-13 02:43:35,238] multiqc.modules.fastqc.fastqc [INFO ] Found 95 reports [2020-11-13 02:43:45,153] multiqc.modules.clusterflow.clusterflow [DEBUG ] Could not find any reports in ('/beegfs/mk5636/logs/html/HWCTGDRXX/merged',) [2020-11-13 02:43:45,289] multiqc [INFO ] Report : multiqc_report.html [2020-11-13 02:43:45,291] multiqc [INFO ] Data : multiqc_data [2020-11-13 02:43:45,291] multiqc [DEBUG ] Moving data file from '/state/partition1/job-13654707/tmpIpFT_z/multiqc_data/multiqc_fastqc.txt' to '/beegfs/mk5636/logs/html/HWCTGDRXX/merged/multiqc_data' [2020-11-13 02:43:45,293] multiqc [DEBUG ] Moving data file from '/state/partition1/job-13654707/tmpIpFT_z/multiqc_data/multiqc_sources.txt' to '/beegfs/mk5636/logs/html/HWCTGDRXX/merged/multiqc_data' [2020-11-13 02:43:45,296] multiqc [DEBUG ] Moving data file from '/state/partition1/job-13654707/tmpIpFT_z/multiqc_data/multiqc_general_stats.txt' to '/beegfs/mk5636/logs/html/HWCTGDRXX/merged/multiqc_data' [2020-11-13 02:43:45,459] multiqc [INFO ] MultiQC complete