[2018-10-15 13:50:23,326] multiqc [DEBUG ] No MultiQC config found: /home/sam/.local/lib/python3.5/site-packages/multiqc-1.6-py3.5.egg/multiqc_config.yaml [2018-10-15 13:50:23,326] multiqc [DEBUG ] No MultiQC config found: /home/sam/.multiqc_config.yaml [2018-10-15 13:50:23,327] multiqc [DEBUG ] No MultiQC config found: multiqc_config.yaml [2018-10-15 13:50:23,327] multiqc [DEBUG ] Command used: /usr/local/bin/multiqc . [2018-10-15 13:50:24,624] multiqc [DEBUG ] Latest MultiQC version is v1.6 [2018-10-15 13:50:24,624] multiqc [INFO ] This is MultiQC v1.6 [2018-10-15 13:50:24,624] multiqc [DEBUG ] Command : /usr/local/bin/multiqc . [2018-10-15 13:50:24,625] multiqc [DEBUG ] Working dir : /home/sam/Downloads/20181015_Cbairdi_fastqc [2018-10-15 13:50:24,625] multiqc [INFO ] Template : default [2018-10-15 13:50:24,625] multiqc [INFO ] Searching '.' [2018-10-15 13:50:24,625] multiqc [DEBUG ] Analysing modules: custom_content, conpair, peddy, methylQA, 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, dedup, picard, prokka, samblaster, samtools, bamtools, jellyfish, vcftools, longranger, bbmap, bismark, 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, clusterflow, bcl2fastq, interop [2018-10-15 13:50:24,625] multiqc [DEBUG ] Using temporary directory for creating report: /tmp/tmpdi1v7sm_ [2018-10-15 13:50:24,673] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: 304428_S1_L002_R2_001_fastqc.html [2018-10-15 13:50:24,679] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: 304428_S1_L001_R2_001_fastqc.html [2018-10-15 13:50:24,679] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: 304428_S1_L002_R1_001_fastqc.html [2018-10-15 13:50:24,680] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: 304428_S1_L001_R1_001_fastqc.html [2018-10-15 13:50:28,479] multiqc [DEBUG ] No samples found: custom_content [2018-10-15 13:50:28,483] multiqc [DEBUG ] No samples found: conpair [2018-10-15 13:50:28,487] multiqc [DEBUG ] No samples found: peddy [2018-10-15 13:50:28,491] multiqc [DEBUG ] No samples found: methylQA [2018-10-15 13:50:28,495] multiqc [DEBUG ] No samples found: qualimap [2018-10-15 13:50:28,499] multiqc [DEBUG ] No samples found: preseq [2018-10-15 13:50:28,503] multiqc [DEBUG ] No samples found: quast [2018-10-15 13:50:28,506] multiqc [DEBUG ] No samples found: qorts [2018-10-15 13:50:28,510] multiqc [DEBUG ] No samples found: rna_seqc [2018-10-15 13:50:28,514] multiqc [DEBUG ] No samples found: rsem [2018-10-15 13:50:28,520] multiqc [DEBUG ] No samples found: rseqc [2018-10-15 13:50:28,523] multiqc [DEBUG ] No samples found: busco [2018-10-15 13:50:28,527] multiqc [DEBUG ] No samples found: goleft_indexcov [2018-10-15 13:50:28,530] multiqc [DEBUG ] No samples found: disambiguate [2018-10-15 13:50:28,534] multiqc [DEBUG ] No samples found: supernova [2018-10-15 13:50:28,539] multiqc [DEBUG ] No samples found: deeptools [2018-10-15 13:50:28,543] multiqc [DEBUG ] No samples found: sargasso [2018-10-15 13:50:28,547] multiqc [DEBUG ] No samples found: verifybamid [2018-10-15 13:50:28,550] multiqc [DEBUG ] No samples found: mirtrace [2018-10-15 13:50:28,554] multiqc [DEBUG ] No samples found: happy [2018-10-15 13:50:28,558] multiqc [DEBUG ] No samples found: homer [2018-10-15 13:50:28,562] multiqc [DEBUG ] No samples found: macs2 [2018-10-15 13:50:28,566] multiqc [DEBUG ] No samples found: theta2 [2018-10-15 13:50:28,569] multiqc [DEBUG ] No samples found: snpeff [2018-10-15 13:50:28,574] multiqc [DEBUG ] No samples found: gatk [2018-10-15 13:50:28,578] multiqc [DEBUG ] No samples found: htseq [2018-10-15 13:50:28,582] multiqc [DEBUG ] No samples found: bcftools [2018-10-15 13:50:28,585] multiqc [DEBUG ] No samples found: featureCounts [2018-10-15 13:50:28,589] multiqc [DEBUG ] No samples found: dedup [2018-10-15 13:50:28,596] multiqc [DEBUG ] No samples found: picard [2018-10-15 13:50:28,599] multiqc [DEBUG ] No samples found: prokka [2018-10-15 13:50:28,603] multiqc [DEBUG ] No samples found: samblaster [2018-10-15 13:50:28,608] multiqc [DEBUG ] No samples found: samtools [2018-10-15 13:50:28,612] multiqc [DEBUG ] No samples found: bamtools [2018-10-15 13:50:28,615] multiqc [DEBUG ] No samples found: jellyfish [2018-10-15 13:50:28,620] multiqc [DEBUG ] No samples found: vcftools [2018-10-15 13:50:28,624] multiqc [DEBUG ] No samples found: longranger [2018-10-15 13:50:28,630] multiqc [DEBUG ] No samples found: bbmap [2018-10-15 13:50:28,634] multiqc [DEBUG ] No samples found: bismark [2018-10-15 13:50:28,637] multiqc [DEBUG ] No samples found: hicexplorer [2018-10-15 13:50:28,641] multiqc [DEBUG ] No samples found: hicup [2018-10-15 13:50:28,645] multiqc [DEBUG ] No samples found: hicpro [2018-10-15 13:50:28,648] multiqc [DEBUG ] No samples found: salmon [2018-10-15 13:50:28,652] multiqc [DEBUG ] No samples found: kallisto [2018-10-15 13:50:28,656] multiqc [DEBUG ] No samples found: slamdunk [2018-10-15 13:50:28,660] multiqc [DEBUG ] No samples found: star [2018-10-15 13:50:28,663] multiqc [DEBUG ] No samples found: hisat2 [2018-10-15 13:50:28,667] multiqc [DEBUG ] No samples found: tophat [2018-10-15 13:50:28,671] multiqc [DEBUG ] No samples found: bowtie2 [2018-10-15 13:50:28,674] multiqc [DEBUG ] No samples found: bowtie1 [2018-10-15 13:50:28,678] multiqc [DEBUG ] No samples found: kat [2018-10-15 13:50:28,682] multiqc [DEBUG ] No samples found: leehom [2018-10-15 13:50:28,685] multiqc [DEBUG ] No samples found: adapterRemoval [2018-10-15 13:50:28,689] multiqc [DEBUG ] No samples found: clipandmerge [2018-10-15 13:50:28,693] multiqc [DEBUG ] No samples found: cutadapt [2018-10-15 13:50:28,697] multiqc [DEBUG ] No samples found: flexbar [2018-10-15 13:50:28,701] multiqc [DEBUG ] No samples found: trimmomatic [2018-10-15 13:50:28,704] multiqc [DEBUG ] No samples found: skewer [2018-10-15 13:50:28,708] multiqc [DEBUG ] No samples found: sortmerna [2018-10-15 13:50:28,712] multiqc [DEBUG ] No samples found: biobloomtools [2018-10-15 13:50:28,715] multiqc [DEBUG ] No samples found: fastq_screen [2018-10-15 13:50:28,719] multiqc [DEBUG ] No samples found: afterqc [2018-10-15 13:50:28,723] multiqc [DEBUG ] No samples found: fastp [2018-10-15 13:50:29,691] multiqc.modules.fastqc.fastqc [INFO ] Found 4 reports [2018-10-15 13:50:29,799] multiqc [DEBUG ] No samples found: clusterflow [2018-10-15 13:50:29,803] multiqc [DEBUG ] No samples found: bcl2fastq [2018-10-15 13:50:29,806] multiqc [DEBUG ] No samples found: interop [2018-10-15 13:50:29,815] multiqc [INFO ] Compressing plot data [2018-10-15 13:50:29,918] multiqc [INFO ] Report : multiqc_report.html [2018-10-15 13:50:29,918] multiqc [INFO ] Data : multiqc_data [2018-10-15 13:50:29,918] multiqc [DEBUG ] Moving data file from '/tmp/tmpdi1v7sm_/multiqc_data/multiqc_general_stats.txt' to '/home/sam/Downloads/20181015_Cbairdi_fastqc/multiqc_data' [2018-10-15 13:50:29,918] multiqc [DEBUG ] Moving data file from '/tmp/tmpdi1v7sm_/multiqc_data/multiqc_fastqc.txt' to '/home/sam/Downloads/20181015_Cbairdi_fastqc/multiqc_data' [2018-10-15 13:50:29,919] multiqc [DEBUG ] Moving data file from '/tmp/tmpdi1v7sm_/multiqc_data/multiqc_sources.txt' to '/home/sam/Downloads/20181015_Cbairdi_fastqc/multiqc_data' [2018-10-15 13:50:29,919] multiqc [DEBUG ] Moving data file from '/tmp/tmpdi1v7sm_/multiqc_data/multiqc_data.json' to '/home/sam/Downloads/20181015_Cbairdi_fastqc/multiqc_data' [2018-10-15 13:50:30,067] multiqc [INFO ] MultiQC complete