[2019-04-05 15:58:30,153] 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 [2019-04-05 15:58:30,154] multiqc [DEBUG ] No MultiQC config found: /home/mk5636/.multiqc_config.yaml [2019-04-05 15:58:30,154] multiqc [DEBUG ] No MultiQC config found: multiqc_config.yaml [2019-04-05 15:58:30,154] multiqc [DEBUG ] Command used: /share/apps/multiqc/20170330/intel/bin/multiqc -f . [2019-04-05 15:58:30,154] multiqc [DEBUG ] Could not connect to multiqc.info for version check [2019-04-05 15:58:30,154] multiqc [INFO ] This is MultiQC v1.0.dev0 [2019-04-05 15:58:30,154] multiqc [DEBUG ] Command : /share/apps/multiqc/20170330/intel/bin/multiqc -f . [2019-04-05 15:58:30,154] multiqc [DEBUG ] Working dir : /beegfs/mk5636/logs/html/HJTFLAFXY/merged [2019-04-05 15:58:30,154] multiqc [INFO ] Template : default [2019-04-05 15:58:30,155] multiqc [DEBUG ] Running in --force mode, will overwrite any existing reports. [2019-04-05 15:58:30,155] multiqc [INFO ] Searching '.' [2019-04-05 15:58:30,155] 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 [2019-04-05 15:58:30,155] multiqc [DEBUG ] Using temporary directory for creating report: /state/partition1/job-581864/tmpK1yz2o [2019-04-05 15:58:30,172] multiqc [DEBUG ] Ignoring directory as matched fn_ignore_dirs: ./multiqc_data [2019-04-05 15:58:30,195] multiqc [DEBUG ] Ignoring file as too large: undetermined_barcodes.txt [2019-04-05 15:58:30,794] multiqc.modules.rna_seqc.rna_seqc [DEBUG ] Could not find any RNA-SeQC data in ('.',) [2019-04-05 15:58:31,030] multiqc.modules.custom_content.custom_content [INFO ] demux_report: Found 35 samples (table) [2019-04-05 15:58:31,046] multiqc.modules.custom_content.custom_content [INFO ] undetermined_barcodes: Found 20 samples (table) [2019-04-05 15:58:31,048] multiqc.modules.custom_content.custom_content [INFO ] run_stats: Found 1 samples (table) [2019-04-05 15:58:31,096] multiqc.modules.peddy.peddy [DEBUG ] Could not find any reports in ('.',) [2019-04-05 15:58:31,114] multiqc.modules.methylQA.methylQA [DEBUG ] Could not find any reports in ('.',) [2019-04-05 15:58:31,125] multiqc.modules.qualimap.QM_BamQC [DEBUG ] Using default Qualimap thresholds: 1, 5, 10, 30, 50 [2019-04-05 15:58:31,170] multiqc.modules.qualimap.qualimap [DEBUG ] Could not find any reports in ('.',) [2019-04-05 15:58:34,907] multiqc.modules.preseq.preseq [DEBUG ] Could not find any preseq data in ('.',) [2019-04-05 15:58:34,923] multiqc.modules.quast.quast [DEBUG ] Could not find any reports in ('.',) [2019-04-05 15:58:36,150] multiqc.modules.rseqc.rseqc [DEBUG ] Could not find any reports in ('.',) [2019-04-05 15:58:36,166] multiqc.modules.busco.busco [DEBUG ] Could not find any reports in ('.',) [2019-04-05 15:58:36,188] multiqc.modules.goleft_indexcov.goleft_indexcov [DEBUG ] Did not find goleft indexcov outputs in ('.',) [2019-04-05 15:58:36,556] multiqc.modules.snpeff.snpeff [DEBUG ] Could not find any data in ('.',) [2019-04-05 15:58:36,839] multiqc.modules.gatk.gatk [DEBUG ] Could not find any reports in ('.',) [2019-04-05 15:58:37,127] multiqc.modules.htseq.htseq [DEBUG ] Could not find any reports in ('.',) [2019-04-05 15:58:37,404] multiqc.modules.bcftools.bcftools [DEBUG ] Could not find any reports in ('.',) [2019-04-05 15:58:37,418] multiqc.modules.featureCounts.feature_counts [DEBUG ] Could not find any reports in ('.',) [2019-04-05 15:58:40,165] multiqc.modules.picard.picard [DEBUG ] Could not find any reports in ('.',) [2019-04-05 15:58:40,183] multiqc.modules.prokka.prokka [DEBUG ] Could not find any Prokka data in ('.',) [2019-04-05 15:58:40,466] multiqc.modules.samblaster.samblaster [DEBUG ] Could not find any data in ('.',) [2019-04-05 15:58:41,297] multiqc.modules.samtools.samtools [DEBUG ] Could not find any reports in ('.',) [2019-04-05 15:58:41,720] multiqc.modules.bamtools.bamtools [DEBUG ] Could not find any reports in ('.',) [2019-04-05 15:58:41,760] multiqc.modules.bismark.bismark [DEBUG ] Could not find any reports in ('.',) [2019-04-05 15:58:41,774] multiqc.modules.hicup.hicup [DEBUG ] Could not find any HiCUP data in ('.',) [2019-04-05 15:58:41,793] multiqc.modules.salmon.salmon [DEBUG ] Could not find any Salmon data in ('.',) [2019-04-05 15:58:42,064] multiqc.modules.kallisto.kallisto [DEBUG ] Could not find any reports in ('.',) [2019-04-05 15:58:43,694] multiqc.modules.slamdunk.slamdunk [DEBUG ] No slamdunk reports found. [2019-04-05 15:58:43,716] multiqc.modules.star.star [DEBUG ] Could not find any reports in ('.',) [2019-04-05 15:58:43,730] multiqc.modules.tophat.tophat [DEBUG ] Could not find any reports in ('.',) [2019-04-05 15:58:44,005] multiqc.modules.bowtie2.bowtie2 [DEBUG ] Could not find any reports in ('.',) [2019-04-05 15:58:44,278] multiqc.modules.bowtie1.bowtie1 [DEBUG ] Could not find any reports in ('.',) [2019-04-05 15:58:44,555] multiqc.modules.cutadapt.cutadapt [DEBUG ] Could not find any reports in ('.',) [2019-04-05 15:58:44,834] multiqc.modules.trimmomatic.trimmomatic [DEBUG ] Could not find any Trimmomatic data in ('.',) [2019-04-05 15:58:45,111] multiqc.modules.skewer.skewer [DEBUG ] Could not find any data in ('.',) [2019-04-05 15:58:45,125] multiqc.modules.fastq_screen.fastq_screen [DEBUG ] Could not find any reports in ('.',) [2019-04-05 15:58:51,298] multiqc.modules.fastqc.fastqc [INFO ] Found 70 reports [2019-04-05 15:58:55,719] multiqc.modules.clusterflow.clusterflow [DEBUG ] Could not find any reports in ('.',) [2019-04-05 15:58:55,797] multiqc [INFO ] Report : multiqc_report.html [2019-04-05 15:58:55,797] multiqc [WARNING] Deleting : multiqc_data (-f was specified) [2019-04-05 15:58:55,870] multiqc [INFO ] Data : multiqc_data [2019-04-05 15:58:55,871] multiqc [DEBUG ] Moving data file from '/state/partition1/job-581864/tmpK1yz2o/multiqc_data/multiqc_fastqc.txt' to '/beegfs/mk5636/logs/html/HJTFLAFXY/merged/multiqc_data' [2019-04-05 15:58:55,873] multiqc [DEBUG ] Moving data file from '/state/partition1/job-581864/tmpK1yz2o/multiqc_data/multiqc_sources.txt' to '/beegfs/mk5636/logs/html/HJTFLAFXY/merged/multiqc_data' [2019-04-05 15:58:55,888] multiqc [DEBUG ] Moving data file from '/state/partition1/job-581864/tmpK1yz2o/multiqc_data/multiqc_general_stats.txt' to '/beegfs/mk5636/logs/html/HJTFLAFXY/merged/multiqc_data' [2019-04-05 15:58:56,047] multiqc [INFO ] MultiQC complete