[2021-01-18 11:13:11,826] multiqc [DEBUG ] No MultiQC config found: /gscratch/srlab/programs/anaconda3/lib/python3.7/site-packages/multiqc_config.yaml [2021-01-18 11:13:11,827] multiqc [DEBUG ] No MultiQC config found: /usr/lusers/yaaminiv/.multiqc_config.yaml [2021-01-18 11:13:11,827] multiqc [DEBUG ] No MultiQC config found: multiqc_config.yaml [2021-01-18 11:13:11,827] multiqc [DEBUG ] Command used: /gscratch/srlab/programs/anaconda3/bin/multiqc /gscratch/scrubbed/yaaminiv/Hawes/analyses/trimgalore-2/poly-G/. [2021-01-18 11:13:17,144] multiqc [DEBUG ] Could not connect to multiqc.info for version check: [2021-01-18 11:13:17,145] multiqc [INFO ] This is MultiQC v1.8 [2021-01-18 11:13:17,146] multiqc [DEBUG ] Command : /gscratch/srlab/programs/anaconda3/bin/multiqc /gscratch/scrubbed/yaaminiv/Hawes/analyses/trimgalore-2/poly-G/. [2021-01-18 11:13:17,146] multiqc [DEBUG ] Working dir : /gscratch/scrubbed/yaaminiv/Hawes/analyses/trimgalore-2 [2021-01-18 11:13:17,146] multiqc [INFO ] Template : default [2021-01-18 11:13:17,146] multiqc [DEBUG ] Running Python 3.7.3 (default, Mar 27 2019, 22:11:17) [GCC 7.3.0] [2021-01-18 11:13:17,146] multiqc [INFO ] Searching : /gscratch/scrubbed/yaaminiv/Hawes/analyses/trimgalore-2/poly-G [2021-01-18 11:13:17,147] 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, fgbio, dedup, damageprofiler, biobambam2, mtnucratio, picard, prokka, samblaster, samtools, sexdeterrmine, 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, mosdepth, clusterflow, bcl2fastq, interop, flash, seqyclean [2021-01-18 11:13:17,147] multiqc [DEBUG ] Using temporary directory for creating report: /tmp/tmpkebdg5qe [2021-01-18 11:13:17,821] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: zr3644_4_R1_val_1_val_1.fq.gz_trimming_report.txt [2021-01-18 11:13:17,825] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: zr3644_4_R1_val_1_val_1.fq.gz_trimming_report.txt [2021-01-18 11:13:17,852] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_18_R2_val_2_val_2_val_2_fastqc.html [2021-01-18 11:13:17,874] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: zr3644_19_R2_val_2_val_2.fq.gz_trimming_report.txt [2021-01-18 11:13:17,877] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: zr3644_19_R2_val_2_val_2.fq.gz_trimming_report.txt [2021-01-18 11:13:17,907] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: zr3644_23_R2_val_2_val_2.fq.gz_trimming_report.txt [2021-01-18 11:13:17,909] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: zr3644_23_R2_val_2_val_2.fq.gz_trimming_report.txt [2021-01-18 11:13:17,952] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: zr3644_2_R2_val_2_val_2.fq.gz_trimming_report.txt [2021-01-18 11:13:17,953] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: zr3644_2_R2_val_2_val_2.fq.gz_trimming_report.txt [2021-01-18 11:13:17,965] multiqc [DEBUG ] Ignoring file 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search pattern filesize limit: zr3644_23_R1_val_1_val_1.fq.gz_trimming_report.txt [2021-01-18 11:13:18,092] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: zr3644_23_R1_val_1_val_1.fq.gz_trimming_report.txt [2021-01-18 11:13:18,107] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_16_R1_val_1_val_1_val_1.fq.gz [2021-01-18 11:13:18,136] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: zr3644_18_R1_val_1_val_1.fq.gz_trimming_report.txt [2021-01-18 11:13:18,138] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: zr3644_18_R1_val_1_val_1.fq.gz_trimming_report.txt [2021-01-18 11:13:18,152] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_6_R2_val_2_val_2_val_2_fastqc.html [2021-01-18 11:13:18,152] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_23_R1_val_1_val_1_val_1_fastqc.html [2021-01-18 11:13:18,153] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_21_R2_val_2_val_2_val_2.fq.gz [2021-01-18 11:13:18,153] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_21_R2_val_2_val_2_val_2_fastqc.html [2021-01-18 11:13:18,153] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_24_R2_val_2_val_2_val_2.fq.gz [2021-01-18 11:13:18,153] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_12_R1_val_1_val_1_val_1_fastqc.html [2021-01-18 11:13:18,153] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_3_R1_val_1_val_1_val_1_fastqc.html [2021-01-18 11:13:18,206] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: zr3644_6_R2_val_2_val_2.fq.gz_trimming_report.txt [2021-01-18 11:13:18,209] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: zr3644_6_R2_val_2_val_2.fq.gz_trimming_report.txt [2021-01-18 11:13:18,228] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_14_R2_val_2_val_2_val_2.fq.gz [2021-01-18 11:13:18,234] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: zr3644_24_R2_val_2_val_2.fq.gz_trimming_report.txt [2021-01-18 11:13:18,236] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: zr3644_24_R2_val_2_val_2.fq.gz_trimming_report.txt [2021-01-18 11:13:18,252] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_21_R1_val_1_val_1_val_1_fastqc.html [2021-01-18 11:13:18,252] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_22_R2_val_2_val_2_val_2_fastqc.html [2021-01-18 11:13:18,253] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_23_R2_val_2_val_2_val_2.fq.gz [2021-01-18 11:13:18,253] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_3_R2_val_2_val_2_val_2.fq.gz [2021-01-18 11:13:18,254] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_5_R1_val_1_val_1_val_1.fq.gz [2021-01-18 11:13:18,315] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: zr3644_21_R1_val_1_val_1.fq.gz_trimming_report.txt [2021-01-18 11:13:18,318] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: zr3644_21_R1_val_1_val_1.fq.gz_trimming_report.txt [2021-01-18 11:13:18,336] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_9_R2_val_2_val_2_val_2_fastqc.html [2021-01-18 11:13:18,336] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_5_R2_val_2_val_2_val_2.fq.gz [2021-01-18 11:13:18,434] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: zr3644_3_R1_val_1_val_1.fq.gz_trimming_report.txt [2021-01-18 11:13:18,437] multiqc [DEBUG ] File ignored by 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11:13:18,502] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_18_R1_val_1_val_1_val_1_fastqc.html [2021-01-18 11:13:18,523] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: zr3644_17_R1_val_1_val_1.fq.gz_trimming_report.txt [2021-01-18 11:13:18,525] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: zr3644_17_R1_val_1_val_1.fq.gz_trimming_report.txt [2021-01-18 11:13:18,538] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_12_R1_val_1_val_1_val_1.fq.gz [2021-01-18 11:13:18,539] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_17_R1_val_1_val_1_val_1.fq.gz [2021-01-18 11:13:18,539] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_11_R2_val_2_val_2_val_2_fastqc.html [2021-01-18 11:13:18,572] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: zr3644_8_R2_val_2_val_2.fq.gz_trimming_report.txt [2021-01-18 11:13:18,574] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: zr3644_8_R2_val_2_val_2.fq.gz_trimming_report.txt [2021-01-18 11:13:18,608] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: zr3644_1_R2_val_2_val_2.fq.gz_trimming_report.txt [2021-01-18 11:13:18,610] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: zr3644_1_R2_val_2_val_2.fq.gz_trimming_report.txt [2021-01-18 11:13:18,661] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: zr3644_14_R1_val_1_val_1.fq.gz_trimming_report.txt [2021-01-18 11:13:18,663] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: zr3644_14_R1_val_1_val_1.fq.gz_trimming_report.txt [2021-01-18 11:13:18,681] multiqc [DEBUG ] Ignoring file 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ignored by longranger/invocation because it exceeded search pattern filesize limit: zr3644_5_R2_val_2_val_2.fq.gz_trimming_report.txt [2021-01-18 11:13:18,983] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: zr3644_7_R2_val_2_val_2.fq.gz_trimming_report.txt [2021-01-18 11:13:18,986] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: zr3644_7_R2_val_2_val_2.fq.gz_trimming_report.txt [2021-01-18 11:13:19,004] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_3_R1_val_1_val_1_val_1.fq.gz [2021-01-18 11:13:19,005] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_7_R1_val_1_val_1_val_1_fastqc.html [2021-01-18 11:13:19,035] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: zr3644_20_R2_val_2_val_2.fq.gz_trimming_report.txt [2021-01-18 11:13:19,038] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: zr3644_20_R2_val_2_val_2.fq.gz_trimming_report.txt [2021-01-18 11:13:19,057] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_11_R2_val_2_val_2_val_2.fq.gz [2021-01-18 11:13:19,075] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: zr3644_16_R1_val_1_val_1.fq.gz_trimming_report.txt [2021-01-18 11:13:19,077] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: zr3644_16_R1_val_1_val_1.fq.gz_trimming_report.txt [2021-01-18 11:13:19,093] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_20_R2_val_2_val_2_val_2.fq.gz [2021-01-18 11:13:19,093] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_13_R2_val_2_val_2_val_2_fastqc.html [2021-01-18 11:13:19,106] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: 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Ignoring file as matched an ignore pattern: zr3644_8_R2_val_2_val_2_val_2_fastqc.html [2021-01-18 11:13:19,246] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_17_R2_val_2_val_2_val_2_fastqc.html [2021-01-18 11:13:19,247] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_4_R1_val_1_val_1_val_1.fq.gz [2021-01-18 11:13:19,247] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_13_R1_val_1_val_1_val_1_fastqc.html [2021-01-18 11:13:19,247] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_18_R2_val_2_val_2_val_2.fq.gz [2021-01-18 11:13:19,287] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: zr3644_4_R2_val_2_val_2.fq.gz_trimming_report.txt [2021-01-18 11:13:19,290] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: zr3644_4_R2_val_2_val_2.fq.gz_trimming_report.txt [2021-01-18 11:13:19,336] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: zr3644_2_R1_val_1_val_1.fq.gz_trimming_report.txt [2021-01-18 11:13:19,338] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: zr3644_2_R1_val_1_val_1.fq.gz_trimming_report.txt [2021-01-18 11:13:19,355] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_11_R1_val_1_val_1_val_1.fq.gz [2021-01-18 11:13:19,355] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_2_R2_val_2_val_2_val_2.fq.gz [2021-01-18 11:13:19,379] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: zr3644_7_R1_val_1_val_1.fq.gz_trimming_report.txt [2021-01-18 11:13:19,381] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: zr3644_7_R1_val_1_val_1.fq.gz_trimming_report.txt [2021-01-18 11:13:19,454] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: zr3644_8_R1_val_1_val_1.fq.gz_trimming_report.txt [2021-01-18 11:13:19,456] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: zr3644_8_R1_val_1_val_1.fq.gz_trimming_report.txt [2021-01-18 11:13:19,493] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: zr3644_6_R1_val_1_val_1.fq.gz_trimming_report.txt [2021-01-18 11:13:19,494] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: zr3644_6_R1_val_1_val_1.fq.gz_trimming_report.txt [2021-01-18 11:13:19,506] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_18_R1_val_1_val_1_val_1.fq.gz [2021-01-18 11:13:19,507] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_22_R1_val_1_val_1_val_1_fastqc.html [2021-01-18 11:13:19,508] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_16_R1_val_1_val_1_val_1_fastqc.html [2021-01-18 11:13:19,508] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_8_R1_val_1_val_1_val_1.fq.gz [2021-01-18 11:13:19,522] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: zr3644_17_R2_val_2_val_2.fq.gz_trimming_report.txt [2021-01-18 11:13:19,524] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: zr3644_17_R2_val_2_val_2.fq.gz_trimming_report.txt [2021-01-18 11:13:19,535] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_20_R2_val_2_val_2_val_2_fastqc.html [2021-01-18 11:13:19,551] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: zr3644_13_R1_val_1_val_1.fq.gz_trimming_report.txt [2021-01-18 11:13:19,553] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: zr3644_13_R1_val_1_val_1.fq.gz_trimming_report.txt [2021-01-18 11:13:19,563] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_12_R2_val_2_val_2_val_2_fastqc.html [2021-01-18 11:13:19,564] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_16_R2_val_2_val_2_val_2.fq.gz [2021-01-18 11:13:19,564] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_12_R2_val_2_val_2_val_2.fq.gz [2021-01-18 11:13:19,564] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_8_R1_val_1_val_1_val_1_fastqc.html [2021-01-18 11:13:19,564] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_15_R1_val_1_val_1_val_1_fastqc.html [2021-01-18 11:13:19,565] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_2_R2_val_2_val_2_val_2_fastqc.html [2021-01-18 11:13:19,565] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_17_R2_val_2_val_2_val_2.fq.gz [2021-01-18 11:13:19,565] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_17_R1_val_1_val_1_val_1_fastqc.html [2021-01-18 11:13:19,565] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_16_R2_val_2_val_2_val_2_fastqc.html [2021-01-18 11:13:19,581] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: zr3644_21_R2_val_2_val_2.fq.gz_trimming_report.txt [2021-01-18 11:13:19,582] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: zr3644_21_R2_val_2_val_2.fq.gz_trimming_report.txt [2021-01-18 11:13:19,593] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_15_R1_val_1_val_1_val_1.fq.gz [2021-01-18 11:13:19,593] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_9_R2_val_2_val_2_val_2.fq.gz [2021-01-18 11:13:19,594] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_5_R1_val_1_val_1_val_1_fastqc.html [2021-01-18 11:13:19,594] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_14_R1_val_1_val_1_val_1.fq.gz [2021-01-18 11:13:19,594] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_10_R2_val_2_val_2_val_2.fq.gz [2021-01-18 11:13:19,616] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: zr3644_9_R2_val_2_val_2.fq.gz_trimming_report.txt [2021-01-18 11:13:19,618] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: zr3644_9_R2_val_2_val_2.fq.gz_trimming_report.txt [2021-01-18 11:13:19,628] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_7_R2_val_2_val_2_val_2.fq.gz [2021-01-18 11:13:19,628] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_4_R2_val_2_val_2_val_2.fq.gz [2021-01-18 11:13:19,756] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: zr3644_16_R2_val_2_val_2.fq.gz_trimming_report.txt [2021-01-18 11:13:19,759] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: zr3644_16_R2_val_2_val_2.fq.gz_trimming_report.txt [2021-01-18 11:13:19,777] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_11_R1_val_1_val_1_val_1_fastqc.html [2021-01-18 11:13:19,778] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_5_R2_val_2_val_2_val_2_fastqc.html [2021-01-18 11:13:19,778] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_9_R1_val_1_val_1_val_1.fq.gz [2021-01-18 11:13:19,778] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_10_R2_val_2_val_2_val_2_fastqc.html [2021-01-18 11:13:19,816] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: zr3644_24_R1_val_1_val_1.fq.gz_trimming_report.txt [2021-01-18 11:13:19,819] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: zr3644_24_R1_val_1_val_1.fq.gz_trimming_report.txt [2021-01-18 11:13:19,837] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_10_R1_val_1_val_1_val_1.fq.gz [2021-01-18 11:13:19,837] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_6_R1_val_1_val_1_val_1_fastqc.html [2021-01-18 11:13:19,857] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: zr3644_18_R2_val_2_val_2.fq.gz_trimming_report.txt [2021-01-18 11:13:19,860] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: zr3644_18_R2_val_2_val_2.fq.gz_trimming_report.txt [2021-01-18 11:13:19,906] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: zr3644_15_R2_val_2_val_2.fq.gz_trimming_report.txt [2021-01-18 11:13:19,908] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: zr3644_15_R2_val_2_val_2.fq.gz_trimming_report.txt [2021-01-18 11:13:19,922] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_15_R2_val_2_val_2_val_2_fastqc.html [2021-01-18 11:13:19,922] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_6_R1_val_1_val_1_val_1.fq.gz [2021-01-18 11:13:19,922] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_4_R1_val_1_val_1_val_1_fastqc.html [2021-01-18 11:13:19,934] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: zr3644_5_R1_val_1_val_1.fq.gz_trimming_report.txt [2021-01-18 11:13:19,936] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: zr3644_5_R1_val_1_val_1.fq.gz_trimming_report.txt [2021-01-18 11:13:19,989] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: zr3644_11_R1_val_1_val_1.fq.gz_trimming_report.txt [2021-01-18 11:13:19,991] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: zr3644_11_R1_val_1_val_1.fq.gz_trimming_report.txt [2021-01-18 11:13:20,009] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_7_R1_val_1_val_1_val_1.fq.gz [2021-01-18 11:13:20,047] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: zr3644_11_R2_val_2_val_2.fq.gz_trimming_report.txt [2021-01-18 11:13:20,049] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: zr3644_11_R2_val_2_val_2.fq.gz_trimming_report.txt [2021-01-18 11:13:20,068] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_1_R1_val_1_val_1_val_1_fastqc.html [2021-01-18 11:13:20,068] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_3_R2_val_2_val_2_val_2_fastqc.html [2021-01-18 11:13:20,106] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: zr3644_12_R1_val_1_val_1.fq.gz_trimming_report.txt [2021-01-18 11:13:20,108] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: zr3644_12_R1_val_1_val_1.fq.gz_trimming_report.txt [2021-01-18 11:13:20,127] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_19_R2_val_2_val_2_val_2_fastqc.html [2021-01-18 11:13:20,128] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_9_R1_val_1_val_1_val_1_fastqc.html [2021-01-18 11:13:20,191] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: zr3644_22_R1_val_1_val_1.fq.gz_trimming_report.txt [2021-01-18 11:13:20,194] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: zr3644_22_R1_val_1_val_1.fq.gz_trimming_report.txt [2021-01-18 11:13:20,212] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_19_R1_val_1_val_1_val_1.fq.gz [2021-01-18 11:13:20,212] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_22_R2_val_2_val_2_val_2.fq.gz [2021-01-18 11:13:20,212] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_2_R1_val_1_val_1_val_1_fastqc.html [2021-01-18 11:13:20,213] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_4_R2_val_2_val_2_val_2_fastqc.html [2021-01-18 11:13:20,213] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_20_R1_val_1_val_1_val_1.fq.gz [2021-01-18 11:13:20,213] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_1_R2_val_2_val_2_val_2_fastqc.html [2021-01-18 11:13:20,240] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: zr3644_10_R1_val_1_val_1.fq.gz_trimming_report.txt [2021-01-18 11:13:20,242] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: zr3644_10_R1_val_1_val_1.fq.gz_trimming_report.txt [2021-01-18 11:13:20,256] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_6_R2_val_2_val_2_val_2.fq.gz [2021-01-18 11:13:20,280] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: zr3644_22_R2_val_2_val_2.fq.gz_trimming_report.txt [2021-01-18 11:13:20,282] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: zr3644_22_R2_val_2_val_2.fq.gz_trimming_report.txt [2021-01-18 11:13:20,336] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: zr3644_14_R2_val_2_val_2.fq.gz_trimming_report.txt [2021-01-18 11:13:20,338] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: zr3644_14_R2_val_2_val_2.fq.gz_trimming_report.txt [2021-01-18 11:13:20,357] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_23_R1_val_1_val_1_val_1.fq.gz [2021-01-18 11:13:27,356] multiqc.plots.bargraph [DEBUG ] Using matplotlib version 2.2.4 [2021-01-18 11:13:27,377] multiqc.plots.linegraph [DEBUG ] Using matplotlib version 2.2.4 [2021-01-18 11:13:27,422] multiqc [DEBUG ] No samples found: custom_content [2021-01-18 11:13:27,520] multiqc [DEBUG ] No samples found: conpair [2021-01-18 11:13:27,657] multiqc [DEBUG ] No samples found: peddy [2021-01-18 11:13:27,734] multiqc [DEBUG ] No samples found: methylQA [2021-01-18 11:13:27,842] multiqc [DEBUG ] No samples found: phantompeakqualtools [2021-01-18 11:13:28,012] multiqc [DEBUG ] No samples found: qualimap [2021-01-18 11:13:28,058] multiqc [DEBUG ] No samples found: preseq [2021-01-18 11:13:28,152] multiqc [DEBUG ] No samples found: quast [2021-01-18 11:13:28,183] multiqc [DEBUG ] No samples found: qorts [2021-01-18 11:13:28,268] multiqc [DEBUG ] No samples found: rna_seqc [2021-01-18 11:13:28,348] multiqc [DEBUG ] No samples found: rsem [2021-01-18 11:13:28,615] multiqc [DEBUG ] No samples found: rseqc [2021-01-18 11:13:28,661] multiqc [DEBUG ] No samples found: busco [2021-01-18 11:13:29,037] multiqc [DEBUG ] No samples found: goleft_indexcov [2021-01-18 11:13:29,160] multiqc [DEBUG ] No samples found: disambiguate [2021-01-18 11:13:29,234] multiqc [DEBUG ] No samples found: supernova [2021-01-18 11:13:29,396] multiqc [DEBUG ] No samples found: deeptools [2021-01-18 11:13:29,470] multiqc [DEBUG ] No samples found: sargasso [2021-01-18 11:13:29,533] multiqc [DEBUG ] No samples found: verifybamid [2021-01-18 11:13:29,562] multiqc [DEBUG ] No samples found: mirtrace [2021-01-18 11:13:29,716] multiqc [DEBUG ] No samples found: happy [2021-01-18 11:13:29,766] multiqc [DEBUG ] No samples found: homer [2021-01-18 11:13:29,787] multiqc [DEBUG ] No samples found: macs2 [2021-01-18 11:13:29,796] multiqc [DEBUG ] No samples found: theta2 [2021-01-18 11:13:29,915] multiqc [DEBUG ] No samples found: snpeff [2021-01-18 11:13:30,120] multiqc [DEBUG ] No samples found: gatk [2021-01-18 11:13:30,137] multiqc [DEBUG ] No samples found: htseq [2021-01-18 11:13:30,183] multiqc [DEBUG ] No samples found: bcftools [2021-01-18 11:13:30,193] multiqc [DEBUG ] No samples found: featureCounts [2021-01-18 11:13:30,203] multiqc [DEBUG ] No samples found: fgbio [2021-01-18 11:13:30,233] multiqc [DEBUG ] No samples found: dedup [2021-01-18 11:13:30,252] multiqc [DEBUG ] No samples found: damageprofiler [2021-01-18 11:13:30,470] multiqc [DEBUG ] No samples found: biobambam2 [2021-01-18 11:13:30,494] multiqc [DEBUG ] No samples found: mtnucratio [2021-01-18 11:13:30,499] multiqc [DEBUG ] No samples found: picard [2021-01-18 11:13:30,530] multiqc [DEBUG ] No samples found: prokka [2021-01-18 11:13:30,541] multiqc [DEBUG ] No samples found: samblaster [2021-01-18 11:13:30,686] multiqc [DEBUG ] No samples found: samtools [2021-01-18 11:13:30,753] multiqc [DEBUG ] No samples found: sexdeterrmine [2021-01-18 11:13:30,963] multiqc [DEBUG ] No samples found: bamtools [2021-01-18 11:13:30,972] multiqc [DEBUG ] No samples found: jellyfish [2021-01-18 11:13:31,049] multiqc [DEBUG ] No samples found: vcftools [2021-01-18 11:13:31,125] multiqc [DEBUG ] No samples found: longranger [2021-01-18 11:13:31,293] multiqc [DEBUG ] No samples found: stacks [2021-01-18 11:13:31,453] multiqc [DEBUG ] No samples found: bbmap [2021-01-18 11:13:31,519] multiqc [DEBUG ] No samples found: bismark [2021-01-18 11:13:31,553] multiqc [DEBUG ] No samples found: biscuit [2021-01-18 11:13:31,589] multiqc [DEBUG ] No samples found: hicexplorer [2021-01-18 11:13:31,665] multiqc [DEBUG ] No samples found: hicup [2021-01-18 11:13:31,709] multiqc [DEBUG ] No samples found: hicpro [2021-01-18 11:13:31,718] multiqc [DEBUG ] No samples found: salmon [2021-01-18 11:13:31,734] multiqc [DEBUG ] No samples found: kallisto [2021-01-18 11:13:31,749] multiqc [DEBUG ] No samples found: slamdunk [2021-01-18 11:13:31,857] multiqc [DEBUG ] No samples found: star [2021-01-18 11:13:31,886] multiqc [DEBUG ] No samples found: hisat2 [2021-01-18 11:13:31,903] multiqc [DEBUG ] No samples found: tophat [2021-01-18 11:13:31,984] multiqc [DEBUG ] No samples found: bowtie2 [2021-01-18 11:13:32,048] multiqc [DEBUG ] No samples found: bowtie1 [2021-01-18 11:13:32,057] multiqc [DEBUG ] No samples found: kat [2021-01-18 11:13:32,066] multiqc [DEBUG ] No samples found: leehom [2021-01-18 11:13:32,117] multiqc [DEBUG ] No samples found: adapterRemoval [2021-01-18 11:13:32,125] multiqc [DEBUG ] No samples found: clipandmerge [2021-01-18 11:13:32,298] multiqc.modules.cutadapt.cutadapt [INFO ] Found 48 reports [2021-01-18 11:13:32,326] multiqc [DEBUG ] No samples found: flexbar [2021-01-18 11:13:32,363] multiqc [DEBUG ] No samples found: trimmomatic [2021-01-18 11:13:32,451] multiqc [DEBUG ] No samples found: skewer [2021-01-18 11:13:32,461] multiqc [DEBUG ] No samples found: sortmerna [2021-01-18 11:13:32,469] multiqc [DEBUG ] No samples found: biobloomtools [2021-01-18 11:13:32,530] multiqc [DEBUG ] No samples found: fastq_screen [2021-01-18 11:13:32,569] multiqc [DEBUG ] No samples found: afterqc [2021-01-18 11:13:32,617] multiqc [DEBUG ] No samples found: fastp [2021-01-18 11:13:48,957] multiqc.modules.fastqc.fastqc [INFO ] Found 48 reports [2021-01-18 11:13:49,767] multiqc [DEBUG ] No samples found: minionqc [2021-01-18 11:13:49,781] multiqc [DEBUG ] No samples found: mosdepth [2021-01-18 11:13:49,803] multiqc [DEBUG ] No samples found: clusterflow [2021-01-18 11:13:49,817] multiqc [DEBUG ] No samples found: bcl2fastq [2021-01-18 11:13:49,839] multiqc [DEBUG ] No samples found: interop [2021-01-18 11:13:49,870] multiqc [DEBUG ] No samples found: flash [2021-01-18 11:13:49,889] multiqc [DEBUG ] No samples found: seqyclean [2021-01-18 11:13:49,982] multiqc [INFO ] Compressing plot data [2021-01-18 11:13:50,855] multiqc [WARNING] Previous MultiQC output found! Adjusting filenames.. [2021-01-18 11:13:50,855] multiqc [WARNING] Use -f or --force to overwrite existing reports instead [2021-01-18 11:13:50,855] multiqc [INFO ] Report : multiqc_report_1.html [2021-01-18 11:13:50,855] multiqc [INFO ] Data : multiqc_data_1 [2021-01-18 11:13:50,857] multiqc [DEBUG ] Moving data file from '/tmp/tmpkebdg5qe/multiqc_data/multiqc_qualimap_bamqc_genome_results.txt' to '/gscratch/scrubbed/yaaminiv/Hawes/analyses/trimgalore-2/multiqc_data_1' [2021-01-18 11:13:50,858] multiqc [DEBUG ] Moving data file from '/tmp/tmpkebdg5qe/multiqc_data/multiqc_cutadapt.txt' to '/gscratch/scrubbed/yaaminiv/Hawes/analyses/trimgalore-2/multiqc_data_1' [2021-01-18 11:13:50,859] multiqc [DEBUG ] Moving data file from '/tmp/tmpkebdg5qe/multiqc_data/multiqc_fastqc.txt' to '/gscratch/scrubbed/yaaminiv/Hawes/analyses/trimgalore-2/multiqc_data_1' [2021-01-18 11:13:50,860] multiqc [DEBUG ] Moving data file from '/tmp/tmpkebdg5qe/multiqc_data/multiqc_general_stats.txt' to '/gscratch/scrubbed/yaaminiv/Hawes/analyses/trimgalore-2/multiqc_data_1' [2021-01-18 11:13:50,861] multiqc [DEBUG ] Moving data file from '/tmp/tmpkebdg5qe/multiqc_data/multiqc_sources.txt' to '/gscratch/scrubbed/yaaminiv/Hawes/analyses/trimgalore-2/multiqc_data_1' [2021-01-18 11:13:50,861] multiqc [DEBUG ] Moving data file from '/tmp/tmpkebdg5qe/multiqc_data/multiqc_data.json' to '/gscratch/scrubbed/yaaminiv/Hawes/analyses/trimgalore-2/multiqc_data_1' [2021-01-18 11:13:51,750] multiqc [INFO ] MultiQC complete