[2022-09-06 12:46:14,819] multiqc [DEBUG ] This is MultiQC v1.12 [2022-09-06 12:46:14,819] multiqc [DEBUG ] No MultiQC config found: /opt/anaconda/anaconda3/lib/python3.9/site-packages/multiqc_config.yaml [2022-09-06 12:46:14,819] multiqc [DEBUG ] No MultiQC config found: /home/shared/8TB_HDD_02/mattgeorgephd/.multiqc_config.yaml [2022-09-06 12:46:14,820] multiqc [DEBUG ] No MultiQC config found: multiqc_config.yaml [2022-09-06 12:46:14,820] multiqc [DEBUG ] Command used: /opt/anaconda/anaconda3/bin/multiqc . [2022-09-06 12:46:16,067] multiqc [DEBUG ] Latest MultiQC version is v1.12 [2022-09-06 12:46:16,067] multiqc [DEBUG ] Command : /opt/anaconda/anaconda3/bin/multiqc . [2022-09-06 12:46:16,067] multiqc [DEBUG ] Working dir : /home/shared/8TB_HDD_02/mattgeorgephd/NOPP-gigas-ploidy-temp/fastqc/trim-merge [2022-09-06 12:46:16,067] multiqc [DEBUG ] Template : default [2022-09-06 12:46:16,067] multiqc [DEBUG ] Running Python 3.9.7 (default, Sep 16 2021, 13:09:58) [GCC 7.5.0] [2022-09-06 12:46:16,068] 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 [2022-09-06 12:46:16,068] multiqc [DEBUG ] Using temporary directory for creating report: /tmp/tmpheuc7rr5 [2022-09-06 12:46:16,462] multiqc [INFO ] Search path : /home/shared/8TB_HDD_02/mattgeorgephd/NOPP-gigas-ploidy-temp/fastqc/trim-merge [2022-09-06 12:46:16,547] multiqc [DEBUG ] File ignored by ccs/v4 because it exceeded search pattern filesize limit: R58_S198_R1_fastqc.html [2022-09-06 12:46:16,548] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: 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] File ignored by lima/summary because it exceeded search pattern filesize limit: N58_S195_R1_fastqc.html [2022-09-06 12:46:18,541] multiqc [DEBUG ] File ignored by vep/vep_txt because it exceeded search pattern filesize limit: N58_S195_R1_fastqc.html [2022-09-06 12:46:18,541] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: N58_S195_R1_fastqc.html [2022-09-06 12:46:18,541] multiqc [DEBUG ] File ignored by rockhopper because it exceeded search pattern filesize limit: N58_S195_R1_fastqc.html [2022-09-06 12:46:18,541] multiqc [DEBUG ] File ignored by rseqc/bam_stat because it exceeded search pattern filesize limit: N58_S195_R1_fastqc.html [2022-09-06 12:46:18,541] multiqc [DEBUG ] File ignored by rseqc/junction_annotation because it exceeded search pattern filesize limit: N58_S195_R1_fastqc.html [2022-09-06 12:46:18,541] multiqc [DEBUG ] File ignored by rseqc/read_distribution because it exceeded search pattern filesize limit: 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] File ignored by lima/summary because it exceeded search pattern filesize limit: D56_S136_R1_fastqc.html [2022-09-06 12:46:20,341] multiqc [DEBUG ] File ignored by vep/vep_txt because it exceeded search pattern filesize limit: D56_S136_R1_fastqc.html [2022-09-06 12:46:20,341] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: D56_S136_R1_fastqc.html [2022-09-06 12:46:20,341] multiqc [DEBUG ] File ignored by rockhopper because it exceeded search pattern filesize limit: D56_S136_R1_fastqc.html [2022-09-06 12:46:20,341] multiqc [DEBUG ] File ignored by rseqc/bam_stat because it exceeded search pattern filesize limit: D56_S136_R1_fastqc.html [2022-09-06 12:46:20,341] multiqc [DEBUG ] File ignored by rseqc/junction_annotation because it exceeded search pattern filesize limit: D56_S136_R1_fastqc.html [2022-09-06 12:46:20,341] multiqc [DEBUG ] File ignored by rseqc/read_distribution because it exceeded search pattern filesize limit: 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exceeded search pattern filesize limit: X47_S150_R1_fastqc.html [2022-09-06 12:46:20,419] multiqc [DEBUG ] File ignored by rockhopper because it exceeded search pattern filesize limit: X47_S150_R1_fastqc.html [2022-09-06 12:46:20,419] multiqc [DEBUG ] File ignored by rseqc/bam_stat because it exceeded search pattern filesize limit: X47_S150_R1_fastqc.html [2022-09-06 12:46:20,419] multiqc [DEBUG ] File ignored by rseqc/junction_annotation because it exceeded search pattern filesize limit: X47_S150_R1_fastqc.html [2022-09-06 12:46:20,419] multiqc [DEBUG ] File ignored by rseqc/read_distribution because it exceeded search pattern filesize limit: X47_S150_R1_fastqc.html [2022-09-06 12:46:20,419] multiqc [DEBUG ] File ignored by rseqc/infer_experiment because it exceeded search pattern filesize limit: X47_S150_R1_fastqc.html [2022-09-06 12:46:20,478] multiqc [DEBUG ] File ignored by nanostat because it exceeded search pattern filesize limit: X47_S150_R1_fastqc.html [2022-09-06 12:46:20,487] multiqc [DEBUG ] File ignored by ccs/v4 because it exceeded search pattern filesize limit: D59_S142_R1_fastqc.html [2022-09-06 12:46:20,487] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: D59_S142_R1_fastqc.html [2022-09-06 12:46:20,487] multiqc [DEBUG ] File ignored by lima/summary because it exceeded search pattern filesize limit: D59_S142_R1_fastqc.html [2022-09-06 12:46:20,488] multiqc [DEBUG ] File ignored by vep/vep_txt because it exceeded search pattern filesize limit: D59_S142_R1_fastqc.html [2022-09-06 12:46:20,488] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: D59_S142_R1_fastqc.html [2022-09-06 12:46:20,488] multiqc [DEBUG ] File ignored by rockhopper because it exceeded search pattern filesize limit: D59_S142_R1_fastqc.html [2022-09-06 12:46:20,488] multiqc [DEBUG ] File ignored by rseqc/bam_stat because it exceeded search pattern filesize limit: D59_S142_R1_fastqc.html [2022-09-06 12:46:20,488] multiqc [DEBUG ] File ignored by rseqc/junction_annotation because it exceeded search pattern filesize limit: D59_S142_R1_fastqc.html [2022-09-06 12:46:20,488] multiqc [DEBUG ] File ignored by rseqc/read_distribution because it exceeded search pattern filesize limit: D59_S142_R1_fastqc.html [2022-09-06 12:46:20,489] multiqc [DEBUG ] File ignored by rseqc/infer_experiment because it exceeded search pattern filesize limit: D59_S142_R1_fastqc.html [2022-09-06 12:46:20,556] multiqc [DEBUG ] File ignored by nanostat because it exceeded search pattern filesize limit: D59_S142_R1_fastqc.html [2022-09-06 12:46:20,563] multiqc [DEBUG ] File ignored by ccs/v4 because it exceeded search pattern filesize limit: R42_S175_R1_fastqc.html [2022-09-06 12:46:20,564] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: R42_S175_R1_fastqc.html [2022-09-06 12:46:20,564] multiqc [DEBUG ] File ignored by lima/summary because it exceeded search pattern filesize limit: R42_S175_R1_fastqc.html [2022-09-06 12:46:20,565] multiqc [DEBUG ] File ignored by vep/vep_txt because it exceeded search pattern filesize limit: R42_S175_R1_fastqc.html [2022-09-06 12:46:20,565] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: R42_S175_R1_fastqc.html [2022-09-06 12:46:20,565] multiqc [DEBUG ] File ignored by rockhopper because it exceeded search pattern filesize limit: R42_S175_R1_fastqc.html [2022-09-06 12:46:20,565] multiqc [DEBUG ] File ignored by rseqc/bam_stat because it exceeded search pattern filesize limit: R42_S175_R1_fastqc.html [2022-09-06 12:46:20,565] multiqc [DEBUG ] File ignored by rseqc/junction_annotation because it exceeded search pattern filesize limit: R42_S175_R1_fastqc.html [2022-09-06 12:46:20,565] multiqc [DEBUG ] File ignored by rseqc/read_distribution because it exceeded search pattern filesize limit: R42_S175_R1_fastqc.html [2022-09-06 12:46:20,565] multiqc [DEBUG ] File ignored by rseqc/infer_experiment because it exceeded search pattern filesize limit: R42_S175_R1_fastqc.html [2022-09-06 12:46:20,629] multiqc [DEBUG ] File ignored by nanostat because it exceeded search pattern filesize limit: R42_S175_R1_fastqc.html [2022-09-06 12:46:20,636] multiqc [DEBUG ] File ignored by ccs/v4 because it exceeded search pattern filesize limit: D57_S143_R1_fastqc.html [2022-09-06 12:46:20,636] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: D57_S143_R1_fastqc.html [2022-09-06 12:46:20,636] multiqc [DEBUG ] File ignored by lima/summary because it exceeded search pattern filesize limit: D57_S143_R1_fastqc.html [2022-09-06 12:46:20,637] multiqc [DEBUG ] File ignored by vep/vep_txt because it exceeded search pattern filesize limit: D57_S143_R1_fastqc.html [2022-09-06 12:46:20,637] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: D57_S143_R1_fastqc.html [2022-09-06 12:46:20,637] multiqc [DEBUG ] File ignored by rockhopper because it exceeded search pattern filesize limit: D57_S143_R1_fastqc.html [2022-09-06 12:46:20,637] multiqc [DEBUG ] File ignored by rseqc/bam_stat because it exceeded search pattern filesize limit: D57_S143_R1_fastqc.html [2022-09-06 12:46:20,637] multiqc [DEBUG ] File ignored by rseqc/junction_annotation because it exceeded search pattern filesize limit: D57_S143_R1_fastqc.html [2022-09-06 12:46:20,638] multiqc [DEBUG ] File ignored by rseqc/read_distribution because it exceeded search pattern filesize limit: D57_S143_R1_fastqc.html [2022-09-06 12:46:20,638] multiqc [DEBUG ] File ignored by rseqc/infer_experiment because it exceeded search pattern filesize limit: D57_S143_R1_fastqc.html [2022-09-06 12:46:20,697] multiqc [DEBUG ] File ignored by nanostat because it exceeded search pattern filesize limit: D57_S143_R1_fastqc.html [2022-09-06 12:46:20,704] multiqc [DEBUG ] File ignored by ccs/v4 because it exceeded search pattern filesize limit: N44_S171_R1_fastqc.html [2022-09-06 12:46:20,704] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: N44_S171_R1_fastqc.html [2022-09-06 12:46:20,704] multiqc [DEBUG ] File ignored by lima/summary because it exceeded search pattern filesize limit: N44_S171_R1_fastqc.html [2022-09-06 12:46:20,705] multiqc [DEBUG ] File ignored by vep/vep_txt because it exceeded search pattern filesize limit: N44_S171_R1_fastqc.html [2022-09-06 12:46:20,705] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: N44_S171_R1_fastqc.html [2022-09-06 12:46:20,705] multiqc [DEBUG ] File ignored by rockhopper because it exceeded search pattern filesize limit: N44_S171_R1_fastqc.html [2022-09-06 12:46:20,705] multiqc [DEBUG ] File ignored by rseqc/bam_stat because it exceeded search pattern filesize limit: N44_S171_R1_fastqc.html [2022-09-06 12:46:20,706] multiqc [DEBUG ] File ignored by rseqc/junction_annotation because it exceeded search pattern filesize limit: N44_S171_R1_fastqc.html [2022-09-06 12:46:20,706] multiqc [DEBUG ] File ignored by rseqc/read_distribution because it exceeded search pattern filesize limit: N44_S171_R1_fastqc.html [2022-09-06 12:46:20,706] multiqc [DEBUG ] File ignored by rseqc/infer_experiment because it exceeded search pattern filesize limit: N44_S171_R1_fastqc.html [2022-09-06 12:46:20,772] multiqc [DEBUG ] File ignored by nanostat because it exceeded search pattern filesize limit: N44_S171_R1_fastqc.html [2022-09-06 12:46:20,780] multiqc [DEBUG ] File ignored by ccs/v4 because it exceeded search pattern filesize limit: R52_S204_R1_fastqc.html [2022-09-06 12:46:20,780] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: R52_S204_R1_fastqc.html [2022-09-06 12:46:20,780] multiqc [DEBUG ] File ignored by lima/summary because it exceeded search pattern filesize limit: R52_S204_R1_fastqc.html [2022-09-06 12:46:20,781] multiqc [DEBUG ] File ignored by vep/vep_txt because it exceeded search pattern filesize limit: R52_S204_R1_fastqc.html [2022-09-06 12:46:20,781] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: R52_S204_R1_fastqc.html [2022-09-06 12:46:20,781] multiqc [DEBUG ] File ignored by rockhopper because it exceeded search pattern filesize limit: R52_S204_R1_fastqc.html [2022-09-06 12:46:20,782] multiqc [DEBUG ] File ignored by rseqc/bam_stat because it exceeded search pattern filesize limit: R52_S204_R1_fastqc.html [2022-09-06 12:46:20,782] multiqc [DEBUG ] File ignored by rseqc/junction_annotation because it exceeded search pattern filesize limit: R52_S204_R1_fastqc.html [2022-09-06 12:46:20,782] multiqc [DEBUG ] File ignored by rseqc/read_distribution because it exceeded search pattern filesize limit: R52_S204_R1_fastqc.html [2022-09-06 12:46:20,782] multiqc [DEBUG ] File ignored by rseqc/infer_experiment because it exceeded search pattern filesize limit: R52_S204_R1_fastqc.html [2022-09-06 12:46:20,847] multiqc [DEBUG ] File ignored by nanostat because it exceeded search pattern filesize limit: R52_S204_R1_fastqc.html [2022-09-06 12:46:20,854] multiqc [DEBUG ] File ignored by ccs/v4 because it exceeded search pattern filesize limit: X45_S159_R1_fastqc.html [2022-09-06 12:46:20,854] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: X45_S159_R1_fastqc.html [2022-09-06 12:46:20,854] multiqc [DEBUG ] File ignored by lima/summary because it exceeded search pattern filesize limit: X45_S159_R1_fastqc.html [2022-09-06 12:46:20,855] multiqc [DEBUG ] File ignored by vep/vep_txt because it exceeded search pattern filesize limit: X45_S159_R1_fastqc.html [2022-09-06 12:46:20,855] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: X45_S159_R1_fastqc.html [2022-09-06 12:46:20,855] multiqc [DEBUG ] File ignored by rockhopper because it exceeded search pattern filesize limit: X45_S159_R1_fastqc.html [2022-09-06 12:46:20,855] multiqc [DEBUG ] File ignored by rseqc/bam_stat because it exceeded search pattern filesize limit: X45_S159_R1_fastqc.html [2022-09-06 12:46:20,855] multiqc [DEBUG ] File ignored by rseqc/junction_annotation because it exceeded search pattern filesize limit: X45_S159_R1_fastqc.html [2022-09-06 12:46:20,855] multiqc [DEBUG ] File ignored by rseqc/read_distribution because it exceeded search pattern filesize limit: X45_S159_R1_fastqc.html [2022-09-06 12:46:20,855] multiqc [DEBUG ] File ignored by rseqc/infer_experiment because it exceeded search pattern filesize limit: X45_S159_R1_fastqc.html [2022-09-06 12:46:20,922] multiqc [DEBUG ] File ignored by nanostat because it exceeded search pattern filesize limit: X45_S159_R1_fastqc.html [2022-09-06 12:46:21,996] multiqc.plots.linegraph [DEBUG ] Using matplotlib version 3.4.3 [2022-09-06 12:46:22,003] multiqc.plots.bargraph [DEBUG ] Using matplotlib version 3.4.3 [2022-09-06 12:46:24,386] multiqc.modules.fastqc.fastqc [INFO ] Found 72 reports [2022-09-06 12:46:25,572] multiqc [INFO ] Compressing plot data [2022-09-06 12:46:26,290] multiqc [INFO ] Report : multiqc_report.html [2022-09-06 12:46:26,290] multiqc [INFO ] Data : multiqc_data [2022-09-06 12:46:26,290] multiqc [DEBUG ] Moving data file from '/tmp/tmpheuc7rr5/multiqc_data' to '/home/shared/8TB_HDD_02/mattgeorgephd/NOPP-gigas-ploidy-temp/fastqc/trim-merge/multiqc_data' [2022-09-06 12:46:26,482] multiqc [INFO ] MultiQC complete