[2018-04-11 06:28:31,008] 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 06:28:31,008] multiqc [DEBUG ] No MultiQC config found: /home/sam/.multiqc_config.yaml [2018-04-11 06:28:31,008] multiqc [DEBUG ] No MultiQC config found: multiqc_config.yaml [2018-04-11 06:28:31,008] multiqc [DEBUG ] Command used: /usr/local/bin/multiqc . [2018-04-11 06:28:31,950] multiqc [DEBUG ] Latest MultiQC version is v1.5 [2018-04-11 06:28:31,950] multiqc [INFO ] This is MultiQC v1.6.dev0 [2018-04-11 06:28:31,950] multiqc [DEBUG ] Command : /usr/local/bin/multiqc . [2018-04-11 06:28:31,950] multiqc [DEBUG ] Working dir : /home/sam/Downloads/20180410_trimgalore_trim14bp5prim_2bp3prime_Cvirginica_MBD/20180410_fastqc_trimgalore_14bp5prime_2bp3prime_Cvirginica_MBD [2018-04-11 06:28:31,950] multiqc [INFO ] Template : default [2018-04-11 06:28:31,950] multiqc [INFO ] Searching '.' [2018-04-11 06:28:31,951] 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 06:28:31,951] multiqc [DEBUG ] Using temporary directory for creating report: /tmp/tmpjQNBHq [2018-04-11 06:28:31,980] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr2096_1_s1_R2_val_2_val_2_fastqc.html [2018-04-11 06:28:32,005] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr2096_3_s1_R2_val_2_val_2_fastqc.html [2018-04-11 06:28:32,005] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr2096_7_s1_R2_val_2_val_2_fastqc.html [2018-04-11 06:28:32,005] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr2096_6_s1_R1_val_1_val_1_fastqc.html [2018-04-11 06:28:32,006] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr2096_10_s1_R2_val_2_val_2_fastqc.html [2018-04-11 06:28:32,006] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr2096_5_s1_R1_val_1_val_1_fastqc.html [2018-04-11 06:28:32,006] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr2096_10_s1_R1_val_1_val_1_fastqc.html [2018-04-11 06:28:32,007] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr2096_4_s1_R2_val_2_val_2_fastqc.html [2018-04-11 06:28:32,007] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr2096_3_s1_R1_val_1_val_1_fastqc.html [2018-04-11 06:28:32,007] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr2096_9_s1_R2_val_2_val_2_fastqc.html [2018-04-11 06:28:32,007] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr2096_1_s1_R1_val_1_val_1_fastqc.html [2018-04-11 06:28:32,008] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr2096_2_s1_R1_val_1_val_1_fastqc.html [2018-04-11 06:28:32,009] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr2096_2_s1_R2_val_2_val_2_fastqc.html [2018-04-11 06:28:32,009] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr2096_5_s1_R2_val_2_val_2_fastqc.html [2018-04-11 06:28:32,010] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr2096_4_s1_R1_val_1_val_1_fastqc.html [2018-04-11 06:28:32,010] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr2096_8_s1_R1_val_1_val_1_fastqc.html [2018-04-11 06:28:32,012] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr2096_7_s1_R1_val_1_val_1_fastqc.html [2018-04-11 06:28:32,013] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr2096_8_s1_R2_val_2_val_2_fastqc.html [2018-04-11 06:28:32,013] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr2096_6_s1_R2_val_2_val_2_fastqc.html [2018-04-11 06:28:32,016] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr2096_9_s1_R1_val_1_val_1_fastqc.html [2018-04-11 06:28:32,411] multiqc [DEBUG ] No samples found: custom_content [2018-04-11 06:28:32,416] multiqc [DEBUG ] No samples found: conpair [2018-04-11 06:28:32,420] multiqc [DEBUG ] No samples found: peddy [2018-04-11 06:28:32,425] multiqc [DEBUG ] No samples found: methylQA [2018-04-11 06:28:32,430] multiqc [DEBUG ] No samples found: qualimap [2018-04-11 06:28:32,434] multiqc [DEBUG ] No samples found: preseq [2018-04-11 06:28:32,439] multiqc [DEBUG ] No samples found: quast [2018-04-11 06:28:32,443] multiqc [DEBUG ] No samples found: qorts [2018-04-11 06:28:32,448] multiqc [DEBUG ] No samples found: rna_seqc [2018-04-11 06:28:32,453] multiqc [DEBUG ] No samples found: rsem [2018-04-11 06:28:32,458] multiqc [DEBUG ] No samples found: rseqc [2018-04-11 06:28:32,462] multiqc [DEBUG ] No samples found: busco [2018-04-11 06:28:32,467] multiqc [DEBUG ] No samples found: goleft_indexcov [2018-04-11 06:28:32,471] multiqc [DEBUG ] No samples found: disambiguate [2018-04-11 06:28:32,476] multiqc [DEBUG ] No samples found: supernova [2018-04-11 06:28:32,481] multiqc [DEBUG ] No samples found: deeptools [2018-04-11 06:28:32,486] multiqc [DEBUG ] No samples found: sargasso [2018-04-11 06:28:32,490] multiqc [DEBUG ] No samples found: verifybamid [2018-04-11 06:28:32,495] multiqc [DEBUG ] No samples found: homer [2018-04-11 06:28:32,499] multiqc [DEBUG ] No samples found: macs2 [2018-04-11 06:28:32,504] multiqc [DEBUG ] No samples found: theta2 [2018-04-11 06:28:32,508] multiqc [DEBUG ] No samples found: snpeff [2018-04-11 06:28:32,513] multiqc [DEBUG ] No samples found: gatk [2018-04-11 06:28:32,517] multiqc [DEBUG ] No samples found: htseq [2018-04-11 06:28:32,522] multiqc [DEBUG ] No samples found: bcftools [2018-04-11 06:28:32,526] multiqc [DEBUG ] No samples found: featureCounts [2018-04-11 06:28:32,530] multiqc [DEBUG ] No samples found: dedup [2018-04-11 06:28:32,536] multiqc [DEBUG ] No samples found: picard [2018-04-11 06:28:32,540] multiqc [DEBUG ] No samples found: prokka [2018-04-11 06:28:32,545] multiqc [DEBUG ] No samples found: samblaster [2018-04-11 06:28:32,549] multiqc [DEBUG ] No samples found: samtools [2018-04-11 06:28:32,554] multiqc [DEBUG ] No samples found: bamtools [2018-04-11 06:28:32,558] multiqc [DEBUG ] No samples found: jellyfish [2018-04-11 06:28:32,563] multiqc [DEBUG ] No samples found: vcftools [2018-04-11 06:28:32,569] multiqc [DEBUG ] No samples found: bbmap [2018-04-11 06:28:32,573] multiqc [DEBUG ] No samples found: bismark [2018-04-11 06:28:32,577] multiqc [DEBUG ] No samples found: hicexplorer [2018-04-11 06:28:32,582] multiqc [DEBUG ] No samples found: hicup [2018-04-11 06:28:32,586] multiqc [DEBUG ] No samples found: salmon [2018-04-11 06:28:32,591] multiqc [DEBUG ] No samples found: kallisto [2018-04-11 06:28:32,595] multiqc [DEBUG ] No samples found: slamdunk [2018-04-11 06:28:32,599] multiqc [DEBUG ] No samples found: star [2018-04-11 06:28:32,604] multiqc [DEBUG ] No samples found: hisat2 [2018-04-11 06:28:32,608] multiqc [DEBUG ] No samples found: tophat [2018-04-11 06:28:32,612] multiqc [DEBUG ] No samples found: bowtie2 [2018-04-11 06:28:32,617] multiqc [DEBUG ] No samples found: bowtie1 [2018-04-11 06:28:32,621] multiqc [DEBUG ] No samples found: leehom [2018-04-11 06:28:32,625] multiqc [DEBUG ] No samples found: adapterRemoval [2018-04-11 06:28:32,630] multiqc [DEBUG ] No samples found: clipandmerge [2018-04-11 06:28:32,634] multiqc [DEBUG ] No samples found: cutadapt [2018-04-11 06:28:32,639] multiqc [DEBUG ] No samples found: flexbar [2018-04-11 06:28:32,643] multiqc [DEBUG ] No samples found: trimmomatic [2018-04-11 06:28:32,647] multiqc [DEBUG ] No samples found: skewer [2018-04-11 06:28:32,652] multiqc [DEBUG ] No samples found: sortmerna [2018-04-11 06:28:32,656] multiqc [DEBUG ] No samples found: biobloomtools [2018-04-11 06:28:32,661] multiqc [DEBUG ] No samples found: fastq_screen [2018-04-11 06:28:32,665] multiqc [DEBUG ] No samples found: afterqc [2018-04-11 06:28:34,539] multiqc.modules.fastqc.fastqc [INFO ] Found 20 reports [2018-04-11 06:28:36,519] multiqc [DEBUG ] No samples found: clusterflow [2018-04-11 06:28:36,524] multiqc [DEBUG ] No samples found: bcl2fastq [2018-04-11 06:28:36,536] multiqc [DEBUG ] No samples found: interop [2018-04-11 06:28:36,569] multiqc [INFO ] Compressing plot data [2018-04-11 06:28:38,440] multiqc [INFO ] Report : multiqc_report.html [2018-04-11 06:28:38,440] multiqc [INFO ] Data : multiqc_data [2018-04-11 06:28:38,440] multiqc [DEBUG ] Moving data file from '/tmp/tmpjQNBHq/multiqc_data/multiqc_general_stats.txt' to '/home/sam/Downloads/20180410_trimgalore_trim14bp5prim_2bp3prime_Cvirginica_MBD/20180410_fastqc_trimgalore_14bp5prime_2bp3prime_Cvirginica_MBD/multiqc_data' [2018-04-11 06:28:38,440] multiqc [DEBUG ] Moving data file from '/tmp/tmpjQNBHq/multiqc_data/multiqc_fastqc.txt' to '/home/sam/Downloads/20180410_trimgalore_trim14bp5prim_2bp3prime_Cvirginica_MBD/20180410_fastqc_trimgalore_14bp5prime_2bp3prime_Cvirginica_MBD/multiqc_data' [2018-04-11 06:28:38,440] multiqc [DEBUG ] Moving data file from '/tmp/tmpjQNBHq/multiqc_data/multiqc_sources.txt' to '/home/sam/Downloads/20180410_trimgalore_trim14bp5prim_2bp3prime_Cvirginica_MBD/20180410_fastqc_trimgalore_14bp5prime_2bp3prime_Cvirginica_MBD/multiqc_data' [2018-04-11 06:28:38,441] multiqc [DEBUG ] Moving data file from '/tmp/tmpjQNBHq/multiqc_data/multiqc_data.json' to '/home/sam/Downloads/20180410_trimgalore_trim14bp5prim_2bp3prime_Cvirginica_MBD/20180410_fastqc_trimgalore_14bp5prime_2bp3prime_Cvirginica_MBD/multiqc_data' [2018-04-11 06:28:38,587] multiqc [INFO ] MultiQC complete