[2020-03-13 18:38:33,220] multiqc [DEBUG ] No MultiQC config found: /gscratch/srlab/strigg/bin/anaconda3/lib/python3.7/site-packages/multiqc_config.yaml [2020-03-13 18:38:33,220] multiqc [DEBUG ] No MultiQC config found: /usr/lusers/strigg/.multiqc_config.yaml [2020-03-13 18:38:33,220] multiqc [DEBUG ] No MultiQC config found: multiqc_config.yaml [2020-03-13 18:38:33,220] multiqc [DEBUG ] Command used: /gscratch/srlab/strigg/bin/anaconda3/bin/multiqc /gscratch/scrubbed/strigg/analyses/20200311/WGBS_MBD/FASTQC/. [2020-03-13 18:38:38,490] multiqc [DEBUG ] Could not connect to multiqc.info for version check: [2020-03-13 18:38:38,490] multiqc [INFO ] This is MultiQC v1.8 [2020-03-13 18:38:38,491] multiqc [DEBUG ] Command : /gscratch/srlab/strigg/bin/anaconda3/bin/multiqc /gscratch/scrubbed/strigg/analyses/20200311/WGBS_MBD/FASTQC/. [2020-03-13 18:38:38,491] multiqc [DEBUG ] Working dir : /gscratch/scrubbed/strigg/analyses/20200311 [2020-03-13 18:38:38,491] multiqc [INFO ] Template : default [2020-03-13 18:38:38,491] multiqc [DEBUG ] Running Python 3.7.3 (default, Mar 27 2019, 22:11:17) [GCC 7.3.0] [2020-03-13 18:38:38,491] multiqc [INFO ] Searching : /gscratch/scrubbed/strigg/analyses/20200311/WGBS_MBD/FASTQC [2020-03-13 18:38:38,492] multiqc [DEBUG ] Analysing modules: custom_content, conpair, peddy, methylQA, phantompeakqualtools, qualimap, preseq, quast, qorts, rna_seqc, rsem, rseqc, busco, goleft_indexcov, disambiguate, supernova, deeptools, sargasso, verifybamid, mirtrace, happy, homer, macs2, theta2, snpeff, gatk, htseq, bcftools, featureCounts, fgbio, dedup, damageprofiler, biobambam2, mtnucratio, picard, prokka, samblaster, samtools, sexdeterrmine, bamtools, jellyfish, vcftools, longranger, stacks, bbmap, bismark, biscuit, hicexplorer, hicup, hicpro, salmon, kallisto, slamdunk, star, hisat2, tophat, bowtie2, bowtie1, kat, leehom, adapterRemoval, clipandmerge, cutadapt, flexbar, trimmomatic, skewer, sortmerna, biobloomtools, fastq_screen, afterqc, fastp, fastqc, minionqc, mosdepth, clusterflow, bcl2fastq, interop, flash, seqyclean [2020-03-13 18:38:38,492] multiqc [DEBUG ] Using temporary directory for creating report: /tmp/tmp8ftb5ubf [2020-03-13 18:38:39,129] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: Meth9_R1_001_val_1_fastqc.html [2020-03-13 18:38:39,176] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: Meth8_R1_001_val_1_fastqc.html [2020-03-13 18:38:39,212] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: Meth11_R1_001_val_1_fastqc.html [2020-03-13 18:38:39,212] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: Meth2_R1_001_val_1_fastqc.html [2020-03-13 18:38:39,214] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: Meth1_R2_001_val_2_fastqc.html [2020-03-13 18:38:39,215] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: Meth2_R2_001_val_2_fastqc.html [2020-03-13 18:38:39,216] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: Meth10_R2_001_val_2_fastqc.html [2020-03-13 18:38:39,216] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: Meth16_R1_001_val_1_fastqc.html [2020-03-13 18:38:39,295] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: Meth18_R1_001_val_1_fastqc.html [2020-03-13 18:38:39,296] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: Meth3_R1_001_val_1_fastqc.html [2020-03-13 18:38:39,296] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: Meth7_R2_001_val_2_fastqc.html [2020-03-13 18:38:39,297] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: Meth8_R2_001_val_2_fastqc.html [2020-03-13 18:38:39,299] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: Meth17_R1_001_val_1_fastqc.html [2020-03-13 18:38:39,300] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: Meth12_R2_001_val_2_fastqc.html [2020-03-13 18:38:39,300] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: Meth11_R2_001_val_2_fastqc.html [2020-03-13 18:38:39,302] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: Meth16_R2_001_val_2_fastqc.html [2020-03-13 18:38:39,302] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: Meth18_R2_001_val_2_fastqc.html [2020-03-13 18:38:39,302] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: Meth17_R2_001_val_2_fastqc.html [2020-03-13 18:38:39,303] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: Meth3_R2_001_val_2_fastqc.html [2020-03-13 18:38:39,315] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: Meth7_R1_001_val_1_fastqc.html [2020-03-13 18:38:39,316] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: Meth10_R1_001_val_1_fastqc.html [2020-03-13 18:38:39,316] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: Meth9_R2_001_val_2_fastqc.html [2020-03-13 18:38:39,317] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: Meth12_R1_001_val_1_fastqc.html [2020-03-13 18:38:39,318] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: Meth1_R1_001_val_1_fastqc.html [2020-03-13 18:38:46,935] multiqc.plots.bargraph [DEBUG ] Using matplotlib version 3.1.0 [2020-03-13 18:38:46,998] multiqc.plots.linegraph [DEBUG ] Using matplotlib version 3.1.0 [2020-03-13 18:38:47,069] multiqc [DEBUG ] No samples found: custom_content [2020-03-13 18:38:47,102] multiqc [DEBUG ] No samples found: conpair [2020-03-13 18:38:47,192] multiqc [DEBUG ] No samples found: peddy [2020-03-13 18:38:47,276] multiqc [DEBUG ] No samples found: methylQA [2020-03-13 18:38:47,327] multiqc [DEBUG ] No samples found: phantompeakqualtools [2020-03-13 18:38:47,467] multiqc [DEBUG ] No samples found: qualimap [2020-03-13 18:38:47,530] multiqc [DEBUG ] No samples found: preseq [2020-03-13 18:38:47,575] multiqc [DEBUG ] No samples found: quast [2020-03-13 18:38:47,602] multiqc [DEBUG ] No samples found: qorts [2020-03-13 18:38:47,645] multiqc [DEBUG ] No samples found: rna_seqc [2020-03-13 18:38:47,720] multiqc [DEBUG ] No samples found: rsem [2020-03-13 18:38:47,832] multiqc [DEBUG ] No samples found: rseqc [2020-03-13 18:38:47,852] multiqc [DEBUG ] No samples found: busco [2020-03-13 18:38:47,960] multiqc [DEBUG ] No samples found: goleft_indexcov [2020-03-13 18:38:47,987] multiqc [DEBUG ] No samples found: disambiguate [2020-03-13 18:38:48,014] multiqc [DEBUG ] No samples found: supernova [2020-03-13 18:38:48,182] multiqc [DEBUG ] No samples found: deeptools [2020-03-13 18:38:48,238] multiqc [DEBUG ] No samples found: sargasso [2020-03-13 18:38:48,285] multiqc [DEBUG ] No samples found: verifybamid [2020-03-13 18:38:48,386] multiqc [DEBUG ] No samples found: mirtrace [2020-03-13 18:38:48,446] multiqc [DEBUG ] No samples found: happy [2020-03-13 18:38:48,512] multiqc [DEBUG ] No samples found: homer [2020-03-13 18:38:48,533] multiqc [DEBUG ] No samples found: macs2 [2020-03-13 18:38:48,541] multiqc [DEBUG ] No samples found: theta2 [2020-03-13 18:38:48,555] multiqc [DEBUG ] No samples found: snpeff [2020-03-13 18:38:48,624] multiqc [DEBUG ] No samples found: gatk [2020-03-13 18:38:48,634] multiqc [DEBUG ] No samples found: htseq [2020-03-13 18:38:48,695] multiqc [DEBUG ] No samples found: bcftools [2020-03-13 18:38:48,717] multiqc [DEBUG ] No samples found: featureCounts [2020-03-13 18:38:48,728] multiqc [DEBUG ] No samples found: fgbio [2020-03-13 18:38:48,737] multiqc [DEBUG ] No samples found: dedup [2020-03-13 18:38:48,765] multiqc [DEBUG ] No samples found: damageprofiler [2020-03-13 18:38:48,954] multiqc [DEBUG ] No samples found: biobambam2 [2020-03-13 18:38:48,973] multiqc [DEBUG ] No samples found: mtnucratio [2020-03-13 18:38:48,978] multiqc [DEBUG ] No samples found: picard [2020-03-13 18:38:49,002] multiqc [DEBUG ] No samples found: prokka [2020-03-13 18:38:49,010] multiqc [DEBUG ] No samples found: samblaster [2020-03-13 18:38:49,086] multiqc [DEBUG ] No samples found: samtools [2020-03-13 18:38:49,108] multiqc [DEBUG ] No samples found: sexdeterrmine [2020-03-13 18:38:49,115] multiqc [DEBUG ] No samples found: bamtools [2020-03-13 18:38:49,122] multiqc [DEBUG ] No samples found: jellyfish [2020-03-13 18:38:49,135] multiqc [DEBUG ] No samples found: vcftools [2020-03-13 18:38:49,156] multiqc [DEBUG ] No samples found: longranger [2020-03-13 18:38:49,186] multiqc [DEBUG ] No samples found: stacks [2020-03-13 18:38:49,245] multiqc [DEBUG ] No samples found: bbmap [2020-03-13 18:38:49,292] multiqc [DEBUG ] No samples found: bismark [2020-03-13 18:38:49,313] multiqc [DEBUG ] No samples found: biscuit [2020-03-13 18:38:49,328] multiqc [DEBUG ] No samples found: hicexplorer [2020-03-13 18:38:49,353] multiqc [DEBUG ] No samples found: hicup [2020-03-13 18:38:49,391] multiqc [DEBUG ] No samples found: hicpro [2020-03-13 18:38:49,398] multiqc [DEBUG ] No samples found: salmon [2020-03-13 18:38:49,427] multiqc [DEBUG ] No samples found: kallisto [2020-03-13 18:38:49,538] multiqc [DEBUG ] No samples found: slamdunk [2020-03-13 18:38:49,580] multiqc [DEBUG ] No samples found: star [2020-03-13 18:38:49,622] multiqc [DEBUG ] No samples found: hisat2 [2020-03-13 18:38:49,663] multiqc [DEBUG ] No samples found: tophat [2020-03-13 18:38:49,695] multiqc [DEBUG ] No samples found: bowtie2 [2020-03-13 18:38:49,736] multiqc [DEBUG ] No samples found: bowtie1 [2020-03-13 18:38:49,745] multiqc [DEBUG ] No samples found: kat [2020-03-13 18:38:49,755] multiqc [DEBUG ] No samples found: leehom [2020-03-13 18:38:49,775] multiqc [DEBUG ] No samples found: adapterRemoval [2020-03-13 18:38:49,784] multiqc [DEBUG ] No samples found: clipandmerge [2020-03-13 18:38:49,808] multiqc [DEBUG ] No samples found: cutadapt [2020-03-13 18:38:49,816] multiqc [DEBUG ] No samples found: flexbar [2020-03-13 18:38:49,842] multiqc [DEBUG ] No samples found: trimmomatic [2020-03-13 18:38:49,859] multiqc [DEBUG ] No samples found: skewer [2020-03-13 18:38:49,866] multiqc [DEBUG ] No samples found: sortmerna [2020-03-13 18:38:49,873] multiqc [DEBUG ] No samples found: biobloomtools [2020-03-13 18:38:49,894] multiqc [DEBUG ] No samples found: fastq_screen [2020-03-13 18:38:49,923] multiqc [DEBUG ] No samples found: afterqc [2020-03-13 18:38:49,949] multiqc [DEBUG ] No samples found: fastp [2020-03-13 18:38:58,934] multiqc.modules.fastqc.fastqc [INFO ] Found 24 reports [2020-03-13 18:38:59,612] multiqc [DEBUG ] No samples found: minionqc [2020-03-13 18:38:59,650] multiqc [DEBUG ] No samples found: mosdepth [2020-03-13 18:38:59,704] multiqc [DEBUG ] No samples found: clusterflow [2020-03-13 18:38:59,741] multiqc [DEBUG ] No samples found: bcl2fastq [2020-03-13 18:38:59,795] multiqc [DEBUG ] No samples found: interop [2020-03-13 18:38:59,813] multiqc [DEBUG ] No samples found: flash [2020-03-13 18:38:59,895] multiqc [DEBUG ] No samples found: seqyclean [2020-03-13 18:38:59,955] multiqc [INFO ] Compressing plot data [2020-03-13 18:39:00,382] multiqc [INFO ] Report : multiqc_report.html [2020-03-13 18:39:00,382] multiqc [INFO ] Data : multiqc_data [2020-03-13 18:39:00,383] multiqc [DEBUG ] Moving data file from '/tmp/tmp8ftb5ubf/multiqc_data/multiqc_qualimap_bamqc_genome_results.txt' to '/gscratch/scrubbed/strigg/analyses/20200311/multiqc_data' [2020-03-13 18:39:00,385] multiqc [DEBUG ] Moving data file from '/tmp/tmp8ftb5ubf/multiqc_data/multiqc_fastqc.txt' to '/gscratch/scrubbed/strigg/analyses/20200311/multiqc_data' [2020-03-13 18:39:00,386] multiqc [DEBUG ] Moving data file from '/tmp/tmp8ftb5ubf/multiqc_data/multiqc_general_stats.txt' to '/gscratch/scrubbed/strigg/analyses/20200311/multiqc_data' [2020-03-13 18:39:00,387] multiqc [DEBUG ] Moving data file from '/tmp/tmp8ftb5ubf/multiqc_data/multiqc_sources.txt' to '/gscratch/scrubbed/strigg/analyses/20200311/multiqc_data' [2020-03-13 18:39:00,388] multiqc [DEBUG ] Moving data file from '/tmp/tmp8ftb5ubf/multiqc_data/multiqc_data.json' to '/gscratch/scrubbed/strigg/analyses/20200311/multiqc_data' [2020-03-13 18:39:01,847] multiqc [INFO ] MultiQC complete