[2018-04-10 06:58:53,258] multiqc [DEBUG ] No MultiQC config found: /usr/local/lib/python2.7/dist-packages/multiqc-1.6.dev0-py2.7.egg/multiqc_config.yaml [2018-04-10 06:58:53,258] multiqc [DEBUG ] No MultiQC config found: /home/sam/.multiqc_config.yaml [2018-04-10 06:58:53,258] multiqc [DEBUG ] No MultiQC config found: multiqc_config.yaml [2018-04-10 06:58:53,258] multiqc [DEBUG ] Command used: /usr/local/bin/multiqc . [2018-04-10 06:58:53,808] multiqc [DEBUG ] Latest MultiQC version is v1.5 [2018-04-10 06:58:53,808] multiqc [INFO ] This is MultiQC v1.6.dev0 [2018-04-10 06:58:53,808] multiqc [DEBUG ] Command : /usr/local/bin/multiqc . [2018-04-10 06:58:53,808] multiqc [DEBUG ] Working dir : /home/sam/20180409_trimgalore_autotrim_Cvirginica_MBD/20180409_fastqc_trimgalore_autotrim_Cvirginica_MBD [2018-04-10 06:58:53,808] multiqc [INFO ] Template : default [2018-04-10 06:58:53,808] multiqc [INFO ] Searching '.' [2018-04-10 06:58:53,809] 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 [2018-04-10 06:58:53,809] multiqc [DEBUG ] Using temporary directory for creating report: /tmp/tmptOQSD_ [2018-04-10 06:58:53,818] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr2096_9_s1_R1_val_1_fastqc.html [2018-04-10 06:58:53,828] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr2096_6_s1_R1_val_1_fastqc.html [2018-04-10 06:58:53,829] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr2096_6_s1_R2_val_2_fastqc.html [2018-04-10 06:58:53,830] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr2096_10_s1_R1_val_1_fastqc.html [2018-04-10 06:58:53,830] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr2096_7_s1_R2_val_2_fastqc.html [2018-04-10 06:58:53,831] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr2096_3_s1_R2_val_2_fastqc.html [2018-04-10 06:58:53,832] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr2096_9_s1_R2_val_2_fastqc.html [2018-04-10 06:58:53,832] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr2096_5_s1_R1_val_1_fastqc.html [2018-04-10 06:58:53,834] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr2096_4_s1_R2_val_2_fastqc.html [2018-04-10 06:58:53,834] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr2096_4_s1_R1_val_1_fastqc.html [2018-04-10 06:58:53,835] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr2096_10_s1_R2_val_2_fastqc.html [2018-04-10 06:58:53,835] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr2096_2_s1_R2_val_2_fastqc.html [2018-04-10 06:58:53,837] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr2096_1_s1_R1_val_1_fastqc.html [2018-04-10 06:58:53,837] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr2096_5_s1_R2_val_2_fastqc.html [2018-04-10 06:58:53,838] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr2096_3_s1_R1_val_1_fastqc.html [2018-04-10 06:58:53,838] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr2096_2_s1_R1_val_1_fastqc.html [2018-04-10 06:58:53,839] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr2096_8_s1_R1_val_1_fastqc.html [2018-04-10 06:58:53,840] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr2096_8_s1_R2_val_2_fastqc.html [2018-04-10 06:58:53,841] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr2096_1_s1_R2_val_2_fastqc.html [2018-04-10 06:58:53,841] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr2096_7_s1_R1_val_1_fastqc.html [2018-04-10 06:58:54,031] multiqc [DEBUG ] No samples found: custom_content [2018-04-10 06:58:54,035] multiqc [DEBUG ] No samples found: conpair [2018-04-10 06:58:54,039] multiqc [DEBUG ] No samples found: peddy [2018-04-10 06:58:54,043] multiqc [DEBUG ] No samples found: methylQA [2018-04-10 06:58:54,048] multiqc [DEBUG ] No samples found: qualimap [2018-04-10 06:58:54,052] multiqc [DEBUG ] No samples found: preseq [2018-04-10 06:58:54,056] multiqc [DEBUG ] No samples found: quast [2018-04-10 06:58:54,060] multiqc [DEBUG ] No samples found: qorts [2018-04-10 06:58:54,065] multiqc [DEBUG ] No samples found: rna_seqc [2018-04-10 06:58:54,069] multiqc [DEBUG ] No samples found: rsem [2018-04-10 06:58:54,074] multiqc [DEBUG ] No samples found: rseqc [2018-04-10 06:58:54,078] multiqc [DEBUG ] No samples found: busco [2018-04-10 06:58:54,082] multiqc [DEBUG ] No samples found: goleft_indexcov [2018-04-10 06:58:54,086] multiqc [DEBUG ] No samples found: disambiguate [2018-04-10 06:58:54,090] multiqc [DEBUG ] No samples found: supernova [2018-04-10 06:58:54,096] multiqc [DEBUG ] No samples found: deeptools [2018-04-10 06:58:54,100] multiqc [DEBUG ] No samples found: sargasso [2018-04-10 06:58:54,104] multiqc [DEBUG ] No samples found: verifybamid [2018-04-10 06:58:54,108] multiqc [DEBUG ] No samples found: homer [2018-04-10 06:58:54,112] multiqc [DEBUG ] No samples found: macs2 [2018-04-10 06:58:54,116] multiqc [DEBUG ] No samples found: theta2 [2018-04-10 06:58:54,120] multiqc [DEBUG ] No samples found: snpeff [2018-04-10 06:58:54,125] multiqc [DEBUG ] No samples found: gatk [2018-04-10 06:58:54,129] multiqc [DEBUG ] No samples found: htseq [2018-04-10 06:58:54,133] multiqc [DEBUG ] No samples found: bcftools [2018-04-10 06:58:54,137] multiqc [DEBUG ] No samples found: featureCounts [2018-04-10 06:58:54,141] multiqc [DEBUG ] No samples found: dedup [2018-04-10 06:58:54,147] multiqc [DEBUG ] No samples found: picard [2018-04-10 06:58:54,151] multiqc [DEBUG ] No samples found: prokka [2018-04-10 06:58:54,155] multiqc [DEBUG ] No samples found: samblaster [2018-04-10 06:58:54,159] multiqc [DEBUG ] No samples found: samtools [2018-04-10 06:58:54,163] multiqc [DEBUG ] No samples found: bamtools [2018-04-10 06:58:54,167] multiqc [DEBUG ] No samples found: jellyfish [2018-04-10 06:58:54,172] multiqc [DEBUG ] No samples found: vcftools [2018-04-10 06:58:54,177] multiqc [DEBUG ] No samples found: bbmap [2018-04-10 06:58:54,181] multiqc [DEBUG ] No samples found: bismark [2018-04-10 06:58:54,185] multiqc [DEBUG ] No samples found: hicexplorer [2018-04-10 06:58:54,189] multiqc [DEBUG ] No samples found: hicup [2018-04-10 06:58:54,194] multiqc [DEBUG ] No samples found: salmon [2018-04-10 06:58:54,198] multiqc [DEBUG ] No samples found: kallisto [2018-04-10 06:58:54,202] multiqc [DEBUG ] No samples found: slamdunk [2018-04-10 06:58:54,206] multiqc [DEBUG ] No samples found: star [2018-04-10 06:58:54,210] multiqc [DEBUG ] No samples found: hisat2 [2018-04-10 06:58:54,214] multiqc [DEBUG ] No samples found: tophat [2018-04-10 06:58:54,218] multiqc [DEBUG ] No samples found: bowtie2 [2018-04-10 06:58:54,222] multiqc [DEBUG ] No samples found: bowtie1 [2018-04-10 06:58:54,226] multiqc [DEBUG ] No samples found: leehom [2018-04-10 06:58:54,230] multiqc [DEBUG ] No samples found: adapterRemoval [2018-04-10 06:58:54,234] multiqc [DEBUG ] No samples found: clipandmerge [2018-04-10 06:58:54,238] multiqc [DEBUG ] No samples found: cutadapt [2018-04-10 06:58:54,243] multiqc [DEBUG ] No samples found: flexbar [2018-04-10 06:58:54,248] multiqc [DEBUG ] No samples found: trimmomatic [2018-04-10 06:58:54,252] multiqc [DEBUG ] No samples found: skewer [2018-04-10 06:58:54,256] multiqc [DEBUG ] No samples found: sortmerna [2018-04-10 06:58:54,260] multiqc [DEBUG ] No samples found: biobloomtools [2018-04-10 06:58:54,265] multiqc [DEBUG ] No samples found: fastq_screen [2018-04-10 06:58:54,269] multiqc [DEBUG ] No samples found: afterqc [2018-04-10 06:58:56,350] multiqc.modules.fastqc.fastqc [INFO ] Found 20 reports [2018-04-10 06:58:57,378] multiqc [DEBUG ] No samples found: clusterflow [2018-04-10 06:58:57,382] multiqc [DEBUG ] No samples found: bcl2fastq [2018-04-10 06:58:57,386] multiqc [DEBUG ] No samples found: interop [2018-04-10 06:58:57,416] multiqc [INFO ] Compressing plot data [2018-04-10 06:58:59,276] multiqc [INFO ] Report : multiqc_report.html [2018-04-10 06:58:59,276] multiqc [INFO ] Data : multiqc_data [2018-04-10 06:58:59,292] multiqc [DEBUG ] Moving data file from '/tmp/tmptOQSD_/multiqc_data/multiqc_general_stats.txt' to '/home/sam/20180409_trimgalore_autotrim_Cvirginica_MBD/20180409_fastqc_trimgalore_autotrim_Cvirginica_MBD/multiqc_data' [2018-04-10 06:58:59,292] multiqc [DEBUG ] Moving data file from '/tmp/tmptOQSD_/multiqc_data/multiqc_fastqc.txt' to '/home/sam/20180409_trimgalore_autotrim_Cvirginica_MBD/20180409_fastqc_trimgalore_autotrim_Cvirginica_MBD/multiqc_data' [2018-04-10 06:58:59,293] multiqc [DEBUG ] Moving data file from '/tmp/tmptOQSD_/multiqc_data/multiqc_sources.txt' to '/home/sam/20180409_trimgalore_autotrim_Cvirginica_MBD/20180409_fastqc_trimgalore_autotrim_Cvirginica_MBD/multiqc_data' [2018-04-10 06:58:59,293] multiqc [DEBUG ] Moving data file from '/tmp/tmptOQSD_/multiqc_data/multiqc_data.json' to '/home/sam/20180409_trimgalore_autotrim_Cvirginica_MBD/20180409_fastqc_trimgalore_autotrim_Cvirginica_MBD/multiqc_data' [2018-04-10 06:58:59,422] multiqc [INFO ] MultiQC complete