[2018-04-09 12:07:29,884] multiqc [DEBUG ] No MultiQC config found: /usr/local/lib/python2.7/dist-packages/multiqc-1.6.dev0-py2.7.egg/multiqc_config.yaml [2018-04-09 12:07:29,884] multiqc [DEBUG ] No MultiQC config found: /home/sam/.multiqc_config.yaml [2018-04-09 12:07:29,884] multiqc [DEBUG ] No MultiQC config found: multiqc_config.yaml [2018-04-09 12:07:29,884] multiqc [DEBUG ] Command used: /usr/local/bin/multiqc . [2018-04-09 12:07:30,969] multiqc [DEBUG ] Latest MultiQC version is v1.5 [2018-04-09 12:07:30,970] multiqc [INFO ] This is MultiQC v1.6.dev0 [2018-04-09 12:07:30,970] multiqc [DEBUG ] Command : /usr/local/bin/multiqc . [2018-04-09 12:07:30,970] multiqc [DEBUG ] Working dir : /home/sam/20180409_fastqc_Cvirginica_MBD [2018-04-09 12:07:30,970] multiqc [INFO ] Template : default [2018-04-09 12:07:30,970] multiqc [INFO ] Searching '.' [2018-04-09 12:07:30,970] 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 [2018-04-09 12:07:30,971] multiqc [DEBUG ] Using temporary directory for creating report: /tmp/tmpTFtvFn [2018-04-09 12:07:31,032] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr2096_2_s1_R1_fastqc.html [2018-04-09 12:07:31,032] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr2096_10_s1_R2_fastqc.html [2018-04-09 12:07:31,032] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr2096_3_s1_R1_fastqc.html [2018-04-09 12:07:31,032] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr2096_8_s1_R2_fastqc.html [2018-04-09 12:07:31,032] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr2096_5_s1_R1_fastqc.html [2018-04-09 12:07:31,033] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr2096_7_s1_R2_fastqc.html [2018-04-09 12:07:31,043] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr2096_7_s1_R1_fastqc.html [2018-04-09 12:07:31,044] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr2096_6_s1_R1_fastqc.html [2018-04-09 12:07:31,045] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr2096_4_s1_R1_fastqc.html [2018-04-09 12:07:31,045] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr2096_10_s1_R1_fastqc.html [2018-04-09 12:07:31,046] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr2096_5_s1_R2_fastqc.html [2018-04-09 12:07:31,047] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr2096_4_s1_R2_fastqc.html [2018-04-09 12:07:31,048] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr2096_9_s1_R2_fastqc.html [2018-04-09 12:07:31,059] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr2096_8_s1_R1_fastqc.html [2018-04-09 12:07:31,062] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr2096_1_s1_R2_fastqc.html [2018-04-09 12:07:31,063] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr2096_1_s1_R1_fastqc.html [2018-04-09 12:07:31,063] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr2096_9_s1_R1_fastqc.html [2018-04-09 12:07:31,063] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr2096_6_s1_R2_fastqc.html [2018-04-09 12:07:31,065] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr2096_2_s1_R2_fastqc.html [2018-04-09 12:07:31,065] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr2096_3_s1_R2_fastqc.html [2018-04-09 12:07:32,275] multiqc [DEBUG ] No samples found: custom_content [2018-04-09 12:07:32,301] multiqc [DEBUG ] No samples found: conpair [2018-04-09 12:07:32,320] multiqc [DEBUG ] No samples found: peddy [2018-04-09 12:07:32,335] multiqc [DEBUG ] No samples found: methylQA [2018-04-09 12:07:32,346] multiqc [DEBUG ] No samples found: qualimap [2018-04-09 12:07:32,351] multiqc [DEBUG ] No samples found: preseq [2018-04-09 12:07:32,360] multiqc [DEBUG ] No samples found: quast [2018-04-09 12:07:32,376] multiqc [DEBUG ] No samples found: qorts [2018-04-09 12:07:32,395] multiqc [DEBUG ] No samples found: rna_seqc [2018-04-09 12:07:32,413] multiqc [DEBUG ] No samples found: rsem [2018-04-09 12:07:32,457] multiqc [DEBUG ] No samples found: rseqc [2018-04-09 12:07:32,471] multiqc [DEBUG ] No samples found: busco [2018-04-09 12:07:32,486] multiqc [DEBUG ] No samples found: goleft_indexcov [2018-04-09 12:07:32,491] multiqc [DEBUG ] No samples found: disambiguate [2018-04-09 12:07:32,497] multiqc [DEBUG ] No samples found: supernova [2018-04-09 12:07:32,522] multiqc [DEBUG ] No samples found: deeptools [2018-04-09 12:07:32,535] multiqc [DEBUG ] No samples found: sargasso [2018-04-09 12:07:32,555] multiqc [DEBUG ] No samples found: verifybamid [2018-04-09 12:07:32,580] multiqc [DEBUG ] No samples found: homer [2018-04-09 12:07:32,589] multiqc [DEBUG ] No samples found: macs2 [2018-04-09 12:07:32,594] multiqc [DEBUG ] No samples found: theta2 [2018-04-09 12:07:32,604] multiqc [DEBUG ] No samples found: snpeff [2018-04-09 12:07:32,618] multiqc [DEBUG ] No samples found: gatk [2018-04-09 12:07:32,627] multiqc [DEBUG ] No samples found: htseq [2018-04-09 12:07:32,643] multiqc [DEBUG ] No samples found: bcftools [2018-04-09 12:07:32,667] multiqc [DEBUG ] No samples found: featureCounts [2018-04-09 12:07:32,686] multiqc [DEBUG ] No samples found: dedup [2018-04-09 12:07:32,708] multiqc [DEBUG ] No samples found: picard [2018-04-09 12:07:32,713] multiqc [DEBUG ] No samples found: prokka [2018-04-09 12:07:32,728] multiqc [DEBUG ] No samples found: samblaster [2018-04-09 12:07:32,756] multiqc [DEBUG ] No samples found: samtools [2018-04-09 12:07:32,761] multiqc [DEBUG ] No samples found: bamtools [2018-04-09 12:07:32,780] multiqc [DEBUG ] No samples found: jellyfish [2018-04-09 12:07:32,786] multiqc [DEBUG ] No samples found: vcftools [2018-04-09 12:07:32,821] multiqc [DEBUG ] No samples found: bbmap [2018-04-09 12:07:32,830] multiqc [DEBUG ] No samples found: bismark [2018-04-09 12:07:32,835] multiqc [DEBUG ] No samples found: hicexplorer [2018-04-09 12:07:32,857] multiqc [DEBUG ] No samples found: hicup [2018-04-09 12:07:32,873] multiqc [DEBUG ] No samples found: salmon [2018-04-09 12:07:32,879] multiqc [DEBUG ] No samples found: kallisto [2018-04-09 12:07:32,884] multiqc [DEBUG ] No samples found: slamdunk [2018-04-09 12:07:32,889] multiqc [DEBUG ] No samples found: star [2018-04-09 12:07:32,894] multiqc [DEBUG ] No samples found: hisat2 [2018-04-09 12:07:32,906] multiqc [DEBUG ] No samples found: tophat [2018-04-09 12:07:32,921] multiqc [DEBUG ] No samples found: bowtie2 [2018-04-09 12:07:32,926] multiqc [DEBUG ] No samples found: bowtie1 [2018-04-09 12:07:32,931] multiqc [DEBUG ] No samples found: leehom [2018-04-09 12:07:32,943] multiqc [DEBUG ] No samples found: adapterRemoval [2018-04-09 12:07:32,953] multiqc [DEBUG ] No samples found: clipandmerge [2018-04-09 12:07:32,965] multiqc [DEBUG ] No samples found: cutadapt [2018-04-09 12:07:32,977] multiqc [DEBUG ] No samples found: flexbar [2018-04-09 12:07:32,987] multiqc [DEBUG ] No samples found: trimmomatic [2018-04-09 12:07:33,013] multiqc [DEBUG ] No samples found: skewer [2018-04-09 12:07:33,018] multiqc [DEBUG ] No samples found: sortmerna [2018-04-09 12:07:33,023] multiqc [DEBUG ] No samples found: biobloomtools [2018-04-09 12:07:33,028] multiqc [DEBUG ] No samples found: fastq_screen [2018-04-09 12:07:33,039] multiqc [DEBUG ] No samples found: afterqc [2018-04-09 12:07:35,142] multiqc.modules.fastqc.fastqc [INFO ] Found 20 reports [2018-04-09 12:07:36,218] multiqc [DEBUG ] No samples found: clusterflow [2018-04-09 12:07:36,223] multiqc [DEBUG ] No samples found: bcl2fastq [2018-04-09 12:07:36,229] multiqc [DEBUG ] No samples found: interop [2018-04-09 12:07:36,262] multiqc [INFO ] Compressing plot data [2018-04-09 12:07:38,332] multiqc [INFO ] Report : multiqc_report.html [2018-04-09 12:07:38,332] multiqc [INFO ] Data : multiqc_data [2018-04-09 12:07:38,332] multiqc [DEBUG ] Moving data file from '/tmp/tmpTFtvFn/multiqc_data/multiqc_general_stats.txt' to '/home/sam/20180409_fastqc_Cvirginica_MBD/multiqc_data' [2018-04-09 12:07:38,333] multiqc [DEBUG ] Moving data file from '/tmp/tmpTFtvFn/multiqc_data/multiqc_fastqc.txt' to '/home/sam/20180409_fastqc_Cvirginica_MBD/multiqc_data' [2018-04-09 12:07:38,333] multiqc [DEBUG ] Moving data file from '/tmp/tmpTFtvFn/multiqc_data/multiqc_sources.txt' to '/home/sam/20180409_fastqc_Cvirginica_MBD/multiqc_data' [2018-04-09 12:07:38,333] multiqc [DEBUG ] Moving data file from '/tmp/tmpTFtvFn/multiqc_data/multiqc_data.json' to '/home/sam/20180409_fastqc_Cvirginica_MBD/multiqc_data' [2018-04-09 12:07:38,594] multiqc [INFO ] MultiQC complete