[2022-10-17 12:33:29,574] multiqc [DEBUG ] This is MultiQC v1.12 [2022-10-17 12:33:29,574] multiqc [DEBUG ] No MultiQC config found: /opt/anaconda/anaconda3/lib/python3.9/site-packages/multiqc_config.yaml [2022-10-17 12:33:29,574] multiqc [DEBUG ] No MultiQC config found: /home/shared/8TB_HDD_02/mattgeorgephd/.multiqc_config.yaml [2022-10-17 12:33:29,574] multiqc [DEBUG ] No MultiQC config found: multiqc_config.yaml [2022-10-17 12:33:29,574] multiqc [DEBUG ] Command used: /opt/anaconda/anaconda3/bin/multiqc . [2022-10-17 12:33:32,123] multiqc [WARNING] MultiQC Version v1.13 now available! [2022-10-17 12:33:32,123] multiqc [DEBUG ] Command : /opt/anaconda/anaconda3/bin/multiqc . [2022-10-17 12:33:32,123] multiqc [DEBUG ] Working dir : /home/shared/8TB_HDD_02/mattgeorgephd/berdahl-sockeye-salmon/fastqc-liver/untrimmed [2022-10-17 12:33:32,123] multiqc [DEBUG ] Template : default [2022-10-17 12:33:32,123] multiqc [DEBUG ] Running Python 3.9.7 (default, Sep 16 2021, 13:09:58) [GCC 7.5.0] [2022-10-17 12:33:32,124] multiqc [DEBUG ] Analysing modules: custom_content, ccs, ngsderive, purple, conpair, lima, peddy, somalier, methylQA, mosdepth, phantompeakqualtools, qualimap, preseq, quast, qorts, rna_seqc, rockhopper, rsem, rseqc, busco, bustools, goleft_indexcov, gffcompare, disambiguate, supernova, deeptools, sargasso, verifybamid, mirtrace, happy, mirtop, sambamba, homer, hops, macs2, theta2, snpeff, gatk, htseq, bcftools, featureCounts, fgbio, dragen, dedup, pbmarkdup, damageprofiler, biobambam2, jcvi, mtnucratio, picard, vep, sentieon, prokka, qc3C, nanostat, samblaster, samtools, sexdeterrmine, eigenstratdatabasetools, bamtools, jellyfish, vcftools, longranger, stacks, varscan2, snippy, bbmap, bismark, biscuit, hicexplorer, hicup, hicpro, salmon, kallisto, slamdunk, star, hisat2, tophat, bowtie2, bowtie1, snpsplit, odgi, pangolin, kat, leehom, adapterRemoval, clipandmerge, cutadapt, flexbar, kaiju, kraken, malt, trimmomatic, sickle, skewer, sortmerna, biobloomtools, fastq_screen, afterqc, fastp, fastqc, pychopper, pycoqc, minionqc, multivcfanalyzer, clusterflow, checkqc, bcl2fastq, bclconvert, interop, ivar, flash, seqyclean, optitype, whatshap [2022-10-17 12:33:32,124] multiqc [DEBUG ] Using temporary directory for creating report: /tmp/tmpfth9_6i7 [2022-10-17 12:33:33,961] multiqc [INFO ] Search path : /home/shared/8TB_HDD_02/mattgeorgephd/berdahl-sockeye-salmon/fastqc-liver/untrimmed [2022-10-17 12:33:34,229] multiqc [DEBUG ] File ignored by ccs/v4 because it exceeded search pattern filesize limit: 16B_S58_L002_R1_001_fastqc.html [2022-10-17 12:33:34,231] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern 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12:33:35,732] multiqc [DEBUG ] File ignored by lima/summary because it exceeded search pattern filesize limit: 02B_S44_L002_R1_001_fastqc.html [2022-10-17 12:33:35,733] multiqc [DEBUG ] File ignored by vep/vep_txt because it exceeded search pattern filesize limit: 02B_S44_L002_R1_001_fastqc.html [2022-10-17 12:33:35,733] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: 02B_S44_L002_R1_001_fastqc.html [2022-10-17 12:33:35,733] multiqc [DEBUG ] File ignored by rockhopper because it exceeded search pattern filesize limit: 02B_S44_L002_R1_001_fastqc.html [2022-10-17 12:33:35,733] multiqc [DEBUG ] File ignored by rseqc/bam_stat because it exceeded search pattern filesize limit: 02B_S44_L002_R1_001_fastqc.html [2022-10-17 12:33:35,733] multiqc [DEBUG ] File ignored by rseqc/junction_annotation because it exceeded search pattern filesize limit: 02B_S44_L002_R1_001_fastqc.html [2022-10-17 12:33:35,733] multiqc [DEBUG ] File ignored by 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limit: 11B_S53_L002_R1_001_fastqc.html [2022-10-17 12:33:35,785] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: 11B_S53_L002_R1_001_fastqc.html [2022-10-17 12:33:35,785] multiqc [DEBUG ] File ignored by rockhopper because it exceeded search pattern filesize limit: 11B_S53_L002_R1_001_fastqc.html [2022-10-17 12:33:35,785] multiqc [DEBUG ] File ignored by rseqc/bam_stat because it exceeded search pattern filesize limit: 11B_S53_L002_R1_001_fastqc.html [2022-10-17 12:33:35,785] multiqc [DEBUG ] File ignored by rseqc/junction_annotation because it exceeded search pattern filesize limit: 11B_S53_L002_R1_001_fastqc.html [2022-10-17 12:33:35,785] multiqc [DEBUG ] File ignored by rseqc/read_distribution because it exceeded search pattern filesize limit: 11B_S53_L002_R1_001_fastqc.html [2022-10-17 12:33:35,785] multiqc [DEBUG ] File ignored by rseqc/infer_experiment because it exceeded search pattern filesize limit: 11B_S53_L002_R1_001_fastqc.html [2022-10-17 12:33:35,828] multiqc [DEBUG ] File ignored by nanostat because it exceeded search pattern filesize limit: 11B_S53_L002_R1_001_fastqc.html [2022-10-17 12:33:35,835] multiqc [DEBUG ] File ignored by ccs/v4 because it exceeded search pattern filesize limit: 09B_S51_L002_R1_001_fastqc.html [2022-10-17 12:33:35,836] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: 09B_S51_L002_R1_001_fastqc.html [2022-10-17 12:33:35,836] multiqc [DEBUG ] File ignored by lima/summary because it exceeded search pattern filesize limit: 09B_S51_L002_R1_001_fastqc.html [2022-10-17 12:33:35,837] multiqc [DEBUG ] File ignored by vep/vep_txt because it exceeded search pattern filesize limit: 09B_S51_L002_R1_001_fastqc.html [2022-10-17 12:33:35,837] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: 09B_S51_L002_R1_001_fastqc.html [2022-10-17 12:33:35,837] multiqc [DEBUG ] File ignored by rockhopper because it exceeded search pattern filesize limit: 09B_S51_L002_R1_001_fastqc.html [2022-10-17 12:33:35,837] multiqc [DEBUG ] File ignored by rseqc/bam_stat because it exceeded search pattern filesize limit: 09B_S51_L002_R1_001_fastqc.html [2022-10-17 12:33:35,837] multiqc [DEBUG ] File ignored by rseqc/junction_annotation because it exceeded search pattern filesize limit: 09B_S51_L002_R1_001_fastqc.html [2022-10-17 12:33:35,837] multiqc [DEBUG ] File ignored by rseqc/read_distribution because it exceeded search pattern filesize limit: 09B_S51_L002_R1_001_fastqc.html [2022-10-17 12:33:35,837] multiqc [DEBUG ] File ignored by rseqc/infer_experiment because it exceeded search pattern filesize limit: 09B_S51_L002_R1_001_fastqc.html [2022-10-17 12:33:35,879] multiqc [DEBUG ] File ignored by nanostat because it exceeded search pattern filesize limit: 09B_S51_L002_R1_001_fastqc.html [2022-10-17 12:33:35,885] multiqc [DEBUG ] File ignored by ccs/v4 because it exceeded search pattern filesize limit: 28B_S70_L002_R1_001_fastqc.html [2022-10-17 12:33:35,886] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: 28B_S70_L002_R1_001_fastqc.html [2022-10-17 12:33:35,886] multiqc [DEBUG ] File ignored by lima/summary because it exceeded search pattern filesize limit: 28B_S70_L002_R1_001_fastqc.html [2022-10-17 12:33:35,887] multiqc [DEBUG ] File ignored by vep/vep_txt because it exceeded search pattern filesize limit: 28B_S70_L002_R1_001_fastqc.html [2022-10-17 12:33:35,887] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: 28B_S70_L002_R1_001_fastqc.html [2022-10-17 12:33:35,887] multiqc [DEBUG ] File ignored by rockhopper because it exceeded search pattern filesize limit: 28B_S70_L002_R1_001_fastqc.html [2022-10-17 12:33:35,887] multiqc [DEBUG ] File ignored by rseqc/bam_stat because it exceeded search pattern filesize limit: 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12:33:35,938] multiqc [DEBUG ] File ignored by lima/summary because it exceeded search pattern filesize limit: 25B_S67_L002_R1_001_fastqc.html [2022-10-17 12:33:35,939] multiqc [DEBUG ] File ignored by vep/vep_txt because it exceeded search pattern filesize limit: 25B_S67_L002_R1_001_fastqc.html [2022-10-17 12:33:35,939] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: 25B_S67_L002_R1_001_fastqc.html [2022-10-17 12:33:35,939] multiqc [DEBUG ] File ignored by rockhopper because it exceeded search pattern filesize limit: 25B_S67_L002_R1_001_fastqc.html [2022-10-17 12:33:35,939] multiqc [DEBUG ] File ignored by rseqc/bam_stat because it exceeded search pattern filesize limit: 25B_S67_L002_R1_001_fastqc.html [2022-10-17 12:33:35,939] multiqc [DEBUG ] File ignored by rseqc/junction_annotation because it exceeded search pattern filesize limit: 25B_S67_L002_R1_001_fastqc.html [2022-10-17 12:33:35,939] multiqc [DEBUG ] File ignored by 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limit: 10B_S52_L002_R1_001_fastqc.html [2022-10-17 12:33:35,990] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: 10B_S52_L002_R1_001_fastqc.html [2022-10-17 12:33:35,990] multiqc [DEBUG ] File ignored by rockhopper because it exceeded search pattern filesize limit: 10B_S52_L002_R1_001_fastqc.html [2022-10-17 12:33:35,990] multiqc [DEBUG ] File ignored by rseqc/bam_stat because it exceeded search pattern filesize limit: 10B_S52_L002_R1_001_fastqc.html [2022-10-17 12:33:35,990] multiqc [DEBUG ] File ignored by rseqc/junction_annotation because it exceeded search pattern filesize limit: 10B_S52_L002_R1_001_fastqc.html [2022-10-17 12:33:35,990] multiqc [DEBUG ] File ignored by rseqc/read_distribution because it exceeded search pattern filesize limit: 10B_S52_L002_R1_001_fastqc.html [2022-10-17 12:33:35,990] multiqc [DEBUG ] File ignored by rseqc/infer_experiment because it exceeded search pattern filesize limit: 10B_S52_L002_R1_001_fastqc.html [2022-10-17 12:33:36,032] multiqc [DEBUG ] File ignored by nanostat because it exceeded search pattern filesize limit: 10B_S52_L002_R1_001_fastqc.html [2022-10-17 12:33:44,399] multiqc.plots.linegraph [DEBUG ] Using matplotlib version 3.4.3 [2022-10-17 12:33:44,471] multiqc.plots.bargraph [DEBUG ] Using matplotlib version 3.4.3 [2022-10-17 12:33:46,064] multiqc.modules.fastqc.fastqc [INFO ] Found 30 reports [2022-10-17 12:33:46,549] multiqc [INFO ] Compressing plot data [2022-10-17 12:33:46,889] multiqc [INFO ] Report : multiqc_report.html [2022-10-17 12:33:46,889] multiqc [INFO ] Data : multiqc_data [2022-10-17 12:33:46,889] multiqc [DEBUG ] Moving data file from '/tmp/tmpfth9_6i7/multiqc_data' to '/home/shared/8TB_HDD_02/mattgeorgephd/berdahl-sockeye-salmon/fastqc-liver/untrimmed/multiqc_data' [2022-10-17 12:33:48,850] multiqc [INFO ] MultiQC complete