[2018-04-11 13:17:43,382] multiqc [DEBUG ] No MultiQC config found: /usr/local/lib/python2.7/dist-packages/multiqc-1.6.dev0-py2.7.egg/multiqc_config.yaml [2018-04-11 13:17:43,382] multiqc [DEBUG ] No MultiQC config found: /home/sam/.multiqc_config.yaml [2018-04-11 13:17:43,382] multiqc [DEBUG ] No MultiQC config found: multiqc_config.yaml [2018-04-11 13:17:43,382] multiqc [DEBUG ] Command used: /usr/local/bin/multiqc . [2018-04-11 13:17:44,324] multiqc [DEBUG ] Latest MultiQC version is v1.5 [2018-04-11 13:17:44,324] multiqc [INFO ] This is MultiQC v1.6.dev0 [2018-04-11 13:17:44,324] multiqc [DEBUG ] Command : /usr/local/bin/multiqc . [2018-04-11 13:17:44,325] multiqc [DEBUG ] Working dir : /home/sam/Downloads/20180411_trimgalore_10bp_Cvirginica_MBD/20180411_fastqc_trim_10bp_Cvirginica_MBD [2018-04-11 13:17:44,325] multiqc [INFO ] Template : default [2018-04-11 13:17:44,325] multiqc [INFO ] Searching '.' [2018-04-11 13:17:44,325] 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, homer, macs2, theta2, snpeff, gatk, htseq, bcftools, featureCounts, dedup, picard, prokka, samblaster, samtools, bamtools, jellyfish, vcftools, bbmap, bismark, hicexplorer, hicup, salmon, kallisto, slamdunk, star, hisat2, tophat, bowtie2, bowtie1, leehom, adapterRemoval, clipandmerge, cutadapt, flexbar, trimmomatic, skewer, sortmerna, biobloomtools, fastq_screen, afterqc, fastqc, clusterflow, bcl2fastq, interop [2018-04-11 13:17:44,325] multiqc [DEBUG ] Using temporary directory for creating report: /tmp/tmpWxeZuU [2018-04-11 13:17:44,371] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr2096_9_s1_R1_val_1_fastqc.html [2018-04-11 13:17:44,381] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr2096_6_s1_R1_val_1_fastqc.html [2018-04-11 13:17:44,382] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr2096_6_s1_R2_val_2_fastqc.html [2018-04-11 13:17:44,383] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr2096_10_s1_R1_val_1_fastqc.html [2018-04-11 13:17:44,383] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr2096_7_s1_R2_val_2_fastqc.html [2018-04-11 13:17:44,384] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr2096_3_s1_R2_val_2_fastqc.html [2018-04-11 13:17:44,385] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr2096_9_s1_R2_val_2_fastqc.html [2018-04-11 13:17:44,385] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr2096_5_s1_R1_val_1_fastqc.html [2018-04-11 13:17:44,387] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr2096_4_s1_R2_val_2_fastqc.html [2018-04-11 13:17:44,387] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr2096_4_s1_R1_val_1_fastqc.html [2018-04-11 13:17:44,388] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr2096_10_s1_R2_val_2_fastqc.html [2018-04-11 13:17:44,388] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr2096_2_s1_R2_val_2_fastqc.html [2018-04-11 13:17:44,390] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr2096_1_s1_R1_val_1_fastqc.html [2018-04-11 13:17:44,390] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr2096_5_s1_R2_val_2_fastqc.html [2018-04-11 13:17:44,391] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr2096_3_s1_R1_val_1_fastqc.html [2018-04-11 13:17:44,391] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr2096_2_s1_R1_val_1_fastqc.html [2018-04-11 13:17:44,392] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr2096_8_s1_R1_val_1_fastqc.html [2018-04-11 13:17:44,393] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr2096_8_s1_R2_val_2_fastqc.html [2018-04-11 13:17:44,394] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr2096_1_s1_R2_val_2_fastqc.html [2018-04-11 13:17:44,394] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr2096_7_s1_R1_val_1_fastqc.html [2018-04-11 13:17:44,803] multiqc [DEBUG ] No samples found: custom_content [2018-04-11 13:17:44,807] multiqc [DEBUG ] No samples found: conpair [2018-04-11 13:17:44,811] multiqc [DEBUG ] No samples found: peddy [2018-04-11 13:17:44,816] multiqc [DEBUG ] No samples found: methylQA [2018-04-11 13:17:44,820] multiqc [DEBUG ] No samples found: qualimap [2018-04-11 13:17:44,824] multiqc [DEBUG ] No samples found: preseq [2018-04-11 13:17:44,828] multiqc [DEBUG ] No samples found: quast [2018-04-11 13:17:44,833] multiqc [DEBUG ] No samples found: qorts [2018-04-11 13:17:44,838] multiqc [DEBUG ] No samples found: rna_seqc [2018-04-11 13:17:44,842] multiqc [DEBUG ] No samples found: rsem [2018-04-11 13:17:44,847] multiqc [DEBUG ] No samples found: rseqc [2018-04-11 13:17:44,851] multiqc [DEBUG ] No samples found: busco [2018-04-11 13:17:44,855] multiqc [DEBUG ] No samples found: goleft_indexcov [2018-04-11 13:17:44,859] multiqc [DEBUG ] No samples found: disambiguate [2018-04-11 13:17:44,864] multiqc [DEBUG ] No samples found: supernova [2018-04-11 13:17:44,869] multiqc [DEBUG ] No samples found: deeptools [2018-04-11 13:17:44,873] multiqc [DEBUG ] No samples found: sargasso [2018-04-11 13:17:44,877] multiqc [DEBUG ] No samples found: verifybamid [2018-04-11 13:17:44,882] multiqc [DEBUG ] No samples found: homer [2018-04-11 13:17:44,886] multiqc [DEBUG ] No samples found: macs2 [2018-04-11 13:17:44,890] multiqc [DEBUG ] No samples found: theta2 [2018-04-11 13:17:44,894] multiqc [DEBUG ] No samples found: snpeff [2018-04-11 13:17:44,899] multiqc [DEBUG ] No samples found: gatk [2018-04-11 13:17:44,903] multiqc [DEBUG ] No samples found: htseq [2018-04-11 13:17:44,907] multiqc [DEBUG ] No samples found: bcftools [2018-04-11 13:17:44,911] multiqc [DEBUG ] No samples found: featureCounts [2018-04-11 13:17:44,915] multiqc [DEBUG ] No samples found: dedup [2018-04-11 13:17:44,921] multiqc [DEBUG ] No samples found: picard [2018-04-11 13:17:44,925] multiqc [DEBUG ] No samples found: prokka [2018-04-11 13:17:44,929] multiqc [DEBUG ] No samples found: samblaster [2018-04-11 13:17:44,933] multiqc [DEBUG ] No samples found: samtools [2018-04-11 13:17:44,938] multiqc [DEBUG ] No samples found: bamtools [2018-04-11 13:17:44,942] multiqc [DEBUG ] No samples found: jellyfish [2018-04-11 13:17:44,946] multiqc [DEBUG ] No samples found: vcftools [2018-04-11 13:17:44,952] multiqc [DEBUG ] No samples found: bbmap [2018-04-11 13:17:44,956] multiqc [DEBUG ] No samples found: bismark [2018-04-11 13:17:44,960] multiqc [DEBUG ] No samples found: hicexplorer [2018-04-11 13:17:44,964] multiqc [DEBUG ] No samples found: hicup [2018-04-11 13:17:44,968] multiqc [DEBUG ] No samples found: salmon [2018-04-11 13:17:44,973] multiqc [DEBUG ] No samples found: kallisto [2018-04-11 13:17:44,977] multiqc [DEBUG ] No samples found: slamdunk [2018-04-11 13:17:44,981] multiqc [DEBUG ] No samples found: star [2018-04-11 13:17:44,985] multiqc [DEBUG ] No samples found: hisat2 [2018-04-11 13:17:44,989] multiqc [DEBUG ] No samples found: tophat [2018-04-11 13:17:44,993] multiqc [DEBUG ] No samples found: bowtie2 [2018-04-11 13:17:44,997] multiqc [DEBUG ] No samples found: bowtie1 [2018-04-11 13:17:45,002] multiqc [DEBUG ] No samples found: leehom [2018-04-11 13:17:45,006] multiqc [DEBUG ] No samples found: adapterRemoval [2018-04-11 13:17:45,010] multiqc [DEBUG ] No samples found: clipandmerge [2018-04-11 13:17:45,014] multiqc [DEBUG ] No samples found: cutadapt [2018-04-11 13:17:45,018] multiqc [DEBUG ] No samples found: flexbar [2018-04-11 13:17:45,022] multiqc [DEBUG ] No samples found: trimmomatic [2018-04-11 13:17:45,026] multiqc [DEBUG ] No samples found: skewer [2018-04-11 13:17:45,030] multiqc [DEBUG ] No samples found: sortmerna [2018-04-11 13:17:45,034] multiqc [DEBUG ] No samples found: biobloomtools [2018-04-11 13:17:45,039] multiqc [DEBUG ] No samples found: fastq_screen [2018-04-11 13:17:45,043] multiqc [DEBUG ] No samples found: afterqc [2018-04-11 13:17:46,817] multiqc.modules.fastqc.fastqc [INFO ] Found 20 reports [2018-04-11 13:17:48,805] multiqc [DEBUG ] No samples found: clusterflow [2018-04-11 13:17:48,810] multiqc [DEBUG ] No samples found: bcl2fastq [2018-04-11 13:17:48,814] multiqc [DEBUG ] No samples found: interop [2018-04-11 13:17:48,848] multiqc [INFO ] Compressing plot data [2018-04-11 13:17:50,668] multiqc [INFO ] Report : multiqc_report.html [2018-04-11 13:17:50,668] multiqc [INFO ] Data : multiqc_data [2018-04-11 13:17:50,668] multiqc [DEBUG ] Moving data file from '/tmp/tmpWxeZuU/multiqc_data/multiqc_general_stats.txt' to '/home/sam/Downloads/20180411_trimgalore_10bp_Cvirginica_MBD/20180411_fastqc_trim_10bp_Cvirginica_MBD/multiqc_data' [2018-04-11 13:17:50,668] multiqc [DEBUG ] Moving data file from '/tmp/tmpWxeZuU/multiqc_data/multiqc_fastqc.txt' to '/home/sam/Downloads/20180411_trimgalore_10bp_Cvirginica_MBD/20180411_fastqc_trim_10bp_Cvirginica_MBD/multiqc_data' [2018-04-11 13:17:50,668] multiqc [DEBUG ] Moving data file from '/tmp/tmpWxeZuU/multiqc_data/multiqc_sources.txt' to '/home/sam/Downloads/20180411_trimgalore_10bp_Cvirginica_MBD/20180411_fastqc_trim_10bp_Cvirginica_MBD/multiqc_data' [2018-04-11 13:17:50,669] multiqc [DEBUG ] Moving data file from '/tmp/tmpWxeZuU/multiqc_data/multiqc_data.json' to '/home/sam/Downloads/20180411_trimgalore_10bp_Cvirginica_MBD/20180411_fastqc_trim_10bp_Cvirginica_MBD/multiqc_data' [2018-04-11 13:17:50,853] multiqc [INFO ] MultiQC complete