[2021-01-05 11:25:13,461] multiqc [DEBUG ] No MultiQC config found: /opt/software/MultiQC/1.7-foss-2018b-Python-2.7.15/lib/python2.7/site-packages/multiqc_config.yaml [2021-01-05 11:25:13,461] multiqc [DEBUG ] No MultiQC config found: /home/danielle_becker/.multiqc_config.yaml [2021-01-05 11:25:13,462] multiqc [DEBUG ] No MultiQC config found: multiqc_config.yaml [2021-01-05 11:25:13,462] multiqc [DEBUG ] Command used: /opt/software/MultiQC/1.7-foss-2018b-Python-2.7.15/bin/multiqc /data/putnamlab/dbecks/Becker_E5/Becker_RNASeq/data/raw/qc [2021-01-05 11:25:14,126] multiqc [WARNING] MultiQC Version v1.9 now available! [2021-01-05 11:25:14,127] multiqc [INFO ] This is MultiQC v1.7 [2021-01-05 11:25:14,127] multiqc [DEBUG ] Command : /opt/software/MultiQC/1.7-foss-2018b-Python-2.7.15/bin/multiqc /data/putnamlab/dbecks/Becker_E5/Becker_RNASeq/data/raw/qc [2021-01-05 11:25:14,127] multiqc [DEBUG ] Working dir : /data/putnamlab/dbecks/Becker_E5/Becker_RNASeq/data/raw/qc [2021-01-05 11:25:14,127] multiqc [INFO ] Template : default [2021-01-05 11:25:14,128] multiqc [INFO ] Searching '/data/putnamlab/dbecks/Becker_E5/Becker_RNASeq/data/raw/qc' [2021-01-05 11:25:14,129] multiqc [DEBUG ] Analysing modules: custom_content, conpair, peddy, methylQA, phantompeakqualtools, 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, damageprofiler, picard, prokka, samblaster, samtools, bamtools, jellyfish, vcftools, longranger, stacks, bbmap, bismark, biscuit, 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, minionqc, clusterflow, bcl2fastq, interop, flash [2021-01-05 11:25:14,130] multiqc [DEBUG ] Using temporary directory for creating report: /tmp/tmpRehLOc [2021-01-05 11:25:14,272] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: C20_R1_001_fastqc.html [2021-01-05 11:25:14,272] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: C23_R1_001_fastqc.html [2021-01-05 11:25:14,273] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: C24_R2_001_fastqc.html [2021-01-05 11:25:14,273] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: C25_R2_001_fastqc.html [2021-01-05 11:25:14,275] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: C26_R1_001_fastqc.html [2021-01-05 11:25:14,275] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: C27_R2_001_fastqc.html [2021-01-05 11:25:14,275] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: C28_R1_001_fastqc.html [2021-01-05 11:25:14,277] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: C30_R1_001_fastqc.html [2021-01-05 11:25:14,278] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: C32_R2_001_fastqc.html [2021-01-05 11:25:14,278] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: E12_R1_001_fastqc.html [2021-01-05 11:25:14,278] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: E14_R1_001_fastqc.html [2021-01-05 11:25:14,279] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: E2_R1_001_fastqc.html [2021-01-05 11:25:14,280] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: E3_R1_001_fastqc.html [2021-01-05 11:25:14,281] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: E6_R1_001_fastqc.html [2021-01-05 11:25:14,285] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: C17_R2_001_fastqc.html [2021-01-05 11:25:14,285] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: C19_R1_001_fastqc.html [2021-01-05 11:25:14,289] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: C22_R2_001_fastqc.html [2021-01-05 11:25:14,290] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: C24_R1_001_fastqc.html [2021-01-05 11:25:14,290] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: C25_R1_001_fastqc.html [2021-01-05 11:25:14,292] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: C27_R1_001_fastqc.html [2021-01-05 11:25:14,294] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: C31_R1_001_fastqc.html [2021-01-05 11:25:14,296] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: E13_R2_001_fastqc.html [2021-01-05 11:25:14,298] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: E15_R1_001_fastqc.html [2021-01-05 11:25:14,298] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: E16_R2_001_fastqc.html [2021-01-05 11:25:14,298] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: E1_R1_001_fastqc.html [2021-01-05 11:25:14,299] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: E1_R2_001_fastqc.html [2021-01-05 11:25:14,300] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: E4_R1_001_fastqc.html [2021-01-05 11:25:14,301] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: E5_R1_001_fastqc.html [2021-01-05 11:25:14,301] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: E7_R2_001_fastqc.html [2021-01-05 11:25:14,301] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: E9_R1_001_fastqc.html [2021-01-05 11:25:14,301] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: C17_R1_001_fastqc.html [2021-01-05 11:25:14,301] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: C18_R1_001_fastqc.html [2021-01-05 11:25:14,302] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: C19_R2_001_fastqc.html [2021-01-05 11:25:14,303] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: C21_R1_001_fastqc.html [2021-01-05 11:25:14,304] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: C21_R2_001_fastqc.html [2021-01-05 11:25:14,305] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: C22_R1_001_fastqc.html [2021-01-05 11:25:14,307] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: C28_R2_001_fastqc.html [2021-01-05 11:25:14,308] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: C30_R2_001_fastqc.html [2021-01-05 11:25:14,310] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: E10_R1_001_fastqc.html [2021-01-05 11:25:14,311] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: E10_R2_001_fastqc.html [2021-01-05 11:25:14,311] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: E12_R2_001_fastqc.html [2021-01-05 11:25:14,311] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: E13_R1_001_fastqc.html [2021-01-05 11:25:14,312] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: E14_R2_001_fastqc.html [2021-01-05 11:25:14,312] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: E16_R1_001_fastqc.html [2021-01-05 11:25:14,314] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: E4_R2_001_fastqc.html [2021-01-05 11:25:14,315] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: E5_R2_001_fastqc.html [2021-01-05 11:25:14,316] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: E7_R1_001_fastqc.html [2021-01-05 11:25:14,316] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: E8_R2_001_fastqc.html [2021-01-05 11:25:14,316] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: E9_R2_001_fastqc.html [2021-01-05 11:25:14,317] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: C18_R2_001_fastqc.html [2021-01-05 11:25:14,318] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: C20_R2_001_fastqc.html [2021-01-05 11:25:14,318] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: C23_R2_001_fastqc.html [2021-01-05 11:25:14,320] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: C26_R2_001_fastqc.html [2021-01-05 11:25:14,322] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: C29_R1_001_fastqc.html [2021-01-05 11:25:14,322] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: C29_R2_001_fastqc.html [2021-01-05 11:25:14,323] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: C31_R2_001_fastqc.html [2021-01-05 11:25:14,323] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: C32_R1_001_fastqc.html [2021-01-05 11:25:14,323] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: E11_R1_001_fastqc.html [2021-01-05 11:25:14,324] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: E11_R2_001_fastqc.html [2021-01-05 11:25:14,328] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: E15_R2_001_fastqc.html [2021-01-05 11:25:14,332] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: E2_R2_001_fastqc.html [2021-01-05 11:25:14,333] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: E3_R2_001_fastqc.html [2021-01-05 11:25:14,334] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: E6_R2_001_fastqc.html [2021-01-05 11:25:14,336] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: E8_R1_001_fastqc.html [2021-01-05 11:25:16,368] multiqc [DEBUG ] No samples found: custom_content [2021-01-05 11:25:16,373] multiqc [DEBUG ] No samples found: conpair [2021-01-05 11:25:16,377] multiqc [DEBUG ] No samples found: peddy [2021-01-05 11:25:16,382] multiqc [DEBUG ] No samples found: methylQA [2021-01-05 11:25:16,386] multiqc [DEBUG ] No samples found: phantompeakqualtools [2021-01-05 11:25:16,392] multiqc [DEBUG ] No samples found: qualimap [2021-01-05 11:25:16,397] multiqc [DEBUG ] No samples found: preseq [2021-01-05 11:25:16,401] multiqc [DEBUG ] No samples found: quast [2021-01-05 11:25:16,406] multiqc [DEBUG ] No samples found: qorts [2021-01-05 11:25:16,411] multiqc [DEBUG ] No samples found: rna_seqc [2021-01-05 11:25:16,415] multiqc [DEBUG ] No samples found: rsem [2021-01-05 11:25:16,422] multiqc [DEBUG ] No samples found: rseqc [2021-01-05 11:25:16,427] multiqc [DEBUG ] No samples found: busco [2021-01-05 11:25:16,431] multiqc [DEBUG ] No samples found: goleft_indexcov [2021-01-05 11:25:16,436] multiqc [DEBUG ] No samples found: disambiguate [2021-01-05 11:25:16,441] multiqc [DEBUG ] No samples found: supernova [2021-01-05 11:25:16,448] multiqc [DEBUG ] No samples found: deeptools [2021-01-05 11:25:16,453] multiqc [DEBUG ] No samples found: sargasso [2021-01-05 11:25:16,457] multiqc [DEBUG ] No samples found: verifybamid [2021-01-05 11:25:16,462] multiqc [DEBUG ] No samples found: mirtrace [2021-01-05 11:25:16,467] multiqc [DEBUG ] No samples found: happy [2021-01-05 11:25:16,472] multiqc [DEBUG ] No samples found: homer [2021-01-05 11:25:16,477] multiqc [DEBUG ] No samples found: macs2 [2021-01-05 11:25:16,481] multiqc [DEBUG ] No samples found: theta2 [2021-01-05 11:25:16,486] multiqc [DEBUG ] No samples found: snpeff [2021-01-05 11:25:16,492] multiqc [DEBUG ] No samples found: gatk [2021-01-05 11:25:16,496] multiqc [DEBUG ] No samples found: htseq [2021-01-05 11:25:16,501] multiqc [DEBUG ] No samples found: bcftools [2021-01-05 11:25:16,506] multiqc [DEBUG ] No samples found: featureCounts [2021-01-05 11:25:16,510] multiqc [DEBUG ] No samples found: dedup [2021-01-05 11:25:16,515] multiqc [DEBUG ] No samples found: damageprofiler [2021-01-05 11:25:16,524] multiqc [DEBUG ] No samples found: picard [2021-01-05 11:25:16,528] multiqc [DEBUG ] No samples found: prokka [2021-01-05 11:25:16,533] multiqc [DEBUG ] No samples found: samblaster [2021-01-05 11:25:16,538] multiqc [DEBUG ] No samples found: samtools [2021-01-05 11:25:16,543] multiqc [DEBUG ] No samples found: bamtools [2021-01-05 11:25:16,548] multiqc [DEBUG ] No samples found: jellyfish [2021-01-05 11:25:16,553] multiqc [DEBUG ] No samples found: vcftools [2021-01-05 11:25:16,558] multiqc [DEBUG ] No samples found: longranger [2021-01-05 11:25:16,563] multiqc [DEBUG ] No samples found: stacks [2021-01-05 11:25:16,570] multiqc [DEBUG ] No samples found: bbmap [2021-01-05 11:25:16,575] multiqc [DEBUG ] No samples found: bismark [2021-01-05 11:25:16,580] multiqc [DEBUG ] No samples found: biscuit [2021-01-05 11:25:16,585] multiqc [DEBUG ] No samples found: hicexplorer [2021-01-05 11:25:16,589] multiqc [DEBUG ] No samples found: hicup [2021-01-05 11:25:16,594] multiqc [DEBUG ] No samples found: hicpro [2021-01-05 11:25:16,598] multiqc [DEBUG ] No samples found: salmon [2021-01-05 11:25:16,603] multiqc [DEBUG ] No samples found: kallisto [2021-01-05 11:25:16,608] multiqc [DEBUG ] No samples found: slamdunk [2021-01-05 11:25:16,612] multiqc [DEBUG ] No samples found: star [2021-01-05 11:25:16,617] multiqc [DEBUG ] No samples found: hisat2 [2021-01-05 11:25:16,622] multiqc [DEBUG ] No samples found: tophat [2021-01-05 11:25:16,626] multiqc [DEBUG ] No samples found: bowtie2 [2021-01-05 11:25:16,630] multiqc [DEBUG ] No samples found: bowtie1 [2021-01-05 11:25:16,635] multiqc [DEBUG ] No samples found: kat [2021-01-05 11:25:16,639] multiqc [DEBUG ] No samples found: leehom [2021-01-05 11:25:16,644] multiqc [DEBUG ] No samples found: adapterRemoval [2021-01-05 11:25:16,649] multiqc [DEBUG ] No samples found: clipandmerge [2021-01-05 11:25:16,653] multiqc [DEBUG ] No samples found: cutadapt [2021-01-05 11:25:16,658] multiqc [DEBUG ] No samples found: flexbar [2021-01-05 11:25:16,662] multiqc [DEBUG ] No samples found: trimmomatic [2021-01-05 11:25:16,667] multiqc [DEBUG ] No samples found: skewer [2021-01-05 11:25:16,672] multiqc [DEBUG ] No samples found: sortmerna [2021-01-05 11:25:16,676] multiqc [DEBUG ] No samples found: biobloomtools [2021-01-05 11:25:16,681] multiqc [DEBUG ] No samples found: fastq_screen [2021-01-05 11:25:16,685] multiqc [DEBUG ] No samples found: afterqc [2021-01-05 11:25:16,690] multiqc [DEBUG ] No samples found: fastp [2021-01-05 11:26:05,464] multiqc.modules.fastqc.fastqc [INFO ] Found 64 reports [2021-01-05 11:26:14,178] multiqc [DEBUG ] No samples found: minionqc [2021-01-05 11:26:14,183] multiqc [DEBUG ] No samples found: clusterflow [2021-01-05 11:26:14,188] multiqc [DEBUG ] No samples found: bcl2fastq [2021-01-05 11:26:14,193] multiqc [DEBUG ] No samples found: interop [2021-01-05 11:26:14,198] multiqc [DEBUG ] No samples found: flash [2021-01-05 11:26:14,288] multiqc [INFO ] Compressing plot data [2021-01-05 11:26:17,429] multiqc [INFO ] Report : multiqc_report.html [2021-01-05 11:26:17,429] multiqc [INFO ] Data : multiqc_data [2021-01-05 11:26:17,630] multiqc [DEBUG ] Moving data file from '/tmp/tmpRehLOc/multiqc_data/multiqc_sources.txt' to '/data/putnamlab/dbecks/Becker_E5/Becker_RNASeq/data/raw/qc/multiqc_data' [2021-01-05 11:26:17,639] multiqc [DEBUG ] Moving data file from '/tmp/tmpRehLOc/multiqc_data/multiqc_general_stats.txt' to '/data/putnamlab/dbecks/Becker_E5/Becker_RNASeq/data/raw/qc/multiqc_data' [2021-01-05 11:26:17,646] multiqc [DEBUG ] Moving data file from '/tmp/tmpRehLOc/multiqc_data/multiqc_data.json' to '/data/putnamlab/dbecks/Becker_E5/Becker_RNASeq/data/raw/qc/multiqc_data' [2021-01-05 11:26:17,688] multiqc [DEBUG ] Moving data file from '/tmp/tmpRehLOc/multiqc_data/multiqc_fastqc.txt' to '/data/putnamlab/dbecks/Becker_E5/Becker_RNASeq/data/raw/qc/multiqc_data' [2021-01-05 11:26:17,962] multiqc [INFO ] MultiQC complete