[2024-03-14 19:34:00,126] multiqc [DEBUG ] No MultiQC config found: /share/apps/multiqc/1.9/lib/python3.8/site-packages/multiqc_config.yaml [2024-03-14 19:34:00,127] multiqc [DEBUG ] No MultiQC config found: /home/gencore/.multiqc_config.yaml [2024-03-14 19:34:00,127] multiqc [DEBUG ] No MultiQC config found: multiqc_config.yaml [2024-03-14 19:34:00,127] multiqc [DEBUG ] Command used: /share/apps/multiqc/1.9/bin/multiqc qc_files/ -o qc_files/ [2024-03-14 19:34:00,490] multiqc [WARNING] MultiQC Version v1.21 now available! [2024-03-14 19:34:00,490] multiqc [INFO ] This is MultiQC v1.9 [2024-03-14 19:34:00,491] multiqc [DEBUG ] Command : /share/apps/multiqc/1.9/bin/multiqc qc_files/ -o qc_files/ [2024-03-14 19:34:00,491] multiqc [DEBUG ] Working dir : /vast/gencore/ONT/work/14/9efd968cbdec8ada673113d6cea039 [2024-03-14 19:34:00,491] multiqc [INFO ] Template : default [2024-03-14 19:34:00,491] multiqc [DEBUG ] Running Python 3.8.6 (default, Oct 11 2020, 20:34:31) [GCC Intel(R) C++ gcc 8.3.1 mode] [2024-03-14 19:34:00,491] multiqc [INFO ] Searching : /vast/gencore/ONT/work/14/9efd968cbdec8ada673113d6cea039/qc_files [2024-03-14 19:34:00,491] multiqc [DEBUG ] Analysing modules: custom_content, conpair, peddy, somalier, methylQA, mosdepth, phantompeakqualtools, qualimap, preseq, quast, qorts, rna_seqc, rockhopper, rsem, rseqc, busco, goleft_indexcov, disambiguate, supernova, deeptools, sargasso, verifybamid, mirtrace, happy, mirtop, homer, macs2, theta2, snpeff, gatk, htseq, bcftools, featureCounts, fgbio, dragen, dedup, damageprofiler, biobambam2, mtnucratio, picard, prokka, samblaster, samtools, sexdeterrmine, bamtools, jellyfish, vcftools, longranger, stacks, varscan2, bbmap, bismark, biscuit, hicexplorer, hicup, hicpro, salmon, kallisto, slamdunk, star, hisat2, tophat, bowtie2, bowtie1, snpsplit, kat, leehom, adapterRemoval, clipandmerge, cutadapt, flexbar, kaiju, kraken, malt, trimmomatic, sickle, skewer, sortmerna, biobloomtools, fastq_screen, afterqc, fastp, fastqc, pycoqc, minionqc, multivcfanalyzer, clusterflow, bcl2fastq, interop, ivar, flash, seqyclean [2024-03-14 19:34:00,491] multiqc [DEBUG ] Using temporary directory for creating report: /state/partition1/job-44097040/tmphfn_p931 [2024-03-14 19:34:00,620] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: AA02_2924_a_merged_fastqc.html [2024-03-14 19:34:00,630] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: AA02_2924_a_merged_fastqc.html [2024-03-14 19:34:00,724] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: AA02_2968_a_merged_fastqc.html [2024-03-14 19:34:00,733] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: AA02_2968_a_merged_fastqc.html [2024-03-14 19:34:00,898] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: AA02_2974_a_merged_fastqc.html [2024-03-14 19:34:00,936] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: AA02_2974_a_merged_fastqc.html [2024-03-14 19:34:01,136] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: AA02_2994_a_merged_fastqc.html [2024-03-14 19:34:01,199] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: AA02_2994_a_merged_fastqc.html [2024-03-14 19:34:01,365] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: AA02_3003_a_merged_fastqc.html [2024-03-14 19:34:01,381] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: AA02_3003_a_merged_fastqc.html [2024-03-14 19:34:01,468] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: AA02_3007_a_merged_fastqc.html [2024-03-14 19:34:01,477] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: AA02_3007_a_merged_fastqc.html [2024-03-14 19:34:01,556] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: AA02_3012_a_merged_fastqc.html [2024-03-14 19:34:01,568] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: AA02_3012_a_merged_fastqc.html [2024-03-14 19:34:01,644] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: AA02_3017_a_merged_fastqc.html [2024-03-14 19:34:01,654] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: AA02_3017_a_merged_fastqc.html [2024-03-14 19:34:01,788] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: AA02_3020_a_merged_fastqc.html [2024-03-14 19:34:01,796] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: AA02_3020_a_merged_fastqc.html [2024-03-14 19:34:01,875] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: AA02_3027_a_merged_fastqc.html [2024-03-14 19:34:01,883] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: AA02_3027_a_merged_fastqc.html [2024-03-14 19:34:02,013] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: AA02_3029_a_merged_fastqc.html [2024-03-14 19:34:02,024] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: AA02_3029_a_merged_fastqc.html [2024-03-14 19:34:02,110] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: AA02_3098_2a_merged_fastqc.html [2024-03-14 19:34:02,122] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: AA02_3098_2a_merged_fastqc.html [2024-03-14 19:34:02,230] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: AA02_3098_a_merged_fastqc.html [2024-03-14 19:34:02,239] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: AA02_3098_a_merged_fastqc.html [2024-03-14 19:34:02,312] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: AA02_3256_a_merged_fastqc.html [2024-03-14 19:34:02,323] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: AA02_3256_a_merged_fastqc.html [2024-03-14 19:34:02,395] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: AA02_3257_a_merged_fastqc.html [2024-03-14 19:34:02,400] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: AA02_3257_a_merged_fastqc.html [2024-03-14 19:34:02,476] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: AA02_3258_a_merged_fastqc.html [2024-03-14 19:34:02,489] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: AA02_3258_a_merged_fastqc.html [2024-03-14 19:34:02,558] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: AA02_3259_a_merged_fastqc.html [2024-03-14 19:34:02,570] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: AA02_3259_a_merged_fastqc.html [2024-03-14 19:34:02,646] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: AA02_3263_a_merged_fastqc.html [2024-03-14 19:34:02,654] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: AA02_3263_a_merged_fastqc.html [2024-03-14 19:34:02,731] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: AA02_3264_a_merged_fastqc.html [2024-03-14 19:34:02,739] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: AA02_3264_a_merged_fastqc.html [2024-03-14 19:34:02,831] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: AA02_3265_a_merged_fastqc.html [2024-03-14 19:34:02,840] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: AA02_3265_a_merged_fastqc.html [2024-03-14 19:34:02,920] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: AA02_3268_a_merged_fastqc.html [2024-03-14 19:34:02,931] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: AA02_3268_a_merged_fastqc.html [2024-03-14 19:34:03,018] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: AA02_3273_a_merged_fastqc.html [2024-03-14 19:34:03,031] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: AA02_3273_a_merged_fastqc.html [2024-03-14 19:34:03,113] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: AA02_3274_a_merged_fastqc.html [2024-03-14 19:34:03,119] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: AA02_3274_a_merged_fastqc.html [2024-03-14 19:34:03,188] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: AA02_3276_a_merged_fastqc.html [2024-03-14 19:34:03,198] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: AA02_3276_a_merged_fastqc.html [2024-03-14 19:34:03,297] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: AA02_pycoqc.html [2024-03-14 19:34:03,306] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: AA02_pycoqc.html [2024-03-14 19:34:03,306] multiqc [DEBUG ] File ignored by rockhopper because it exceeded search pattern filesize limit: AA02_pycoqc.html [2024-03-14 19:34:03,306] multiqc [DEBUG ] File ignored by rseqc/bam_stat because it exceeded search pattern filesize limit: AA02_pycoqc.html [2024-03-14 19:34:03,306] multiqc [DEBUG ] File ignored by rseqc/junction_annotation because it exceeded search pattern filesize limit: AA02_pycoqc.html [2024-03-14 19:34:03,306] multiqc [DEBUG ] File ignored by rseqc/read_distribution because it exceeded search pattern filesize limit: AA02_pycoqc.html [2024-03-14 19:34:03,306] multiqc [DEBUG ] File ignored by rseqc/infer_experiment because it exceeded search pattern filesize limit: AA02_pycoqc.html [2024-03-14 19:34:03,306] multiqc [DEBUG ] File ignored by snpeff because it exceeded search pattern filesize limit: AA02_pycoqc.html [2024-03-14 19:34:03,306] multiqc [DEBUG ] File ignored by stacks/sumstats because it exceeded search pattern filesize limit: AA02_pycoqc.html [2024-03-14 19:34:03,652] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: AA02_pycoqc.json [2024-03-14 19:34:03,677] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: AA02_undetermined_merged_fastqc.html [2024-03-14 19:34:03,685] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: AA02_undetermined_merged_fastqc.html [2024-03-14 19:34:04,678] multiqc.plots.bargraph [DEBUG ] Using matplotlib version 3.3.2 [2024-03-14 19:34:04,680] multiqc.plots.linegraph [DEBUG ] Using matplotlib version 3.3.2 [2024-03-14 19:34:04,681] multiqc [DEBUG ] No samples found: custom_content [2024-03-14 19:34:04,686] multiqc [DEBUG ] No samples found: conpair [2024-03-14 19:34:04,690] multiqc [DEBUG ] No samples found: peddy [2024-03-14 19:34:04,694] multiqc [DEBUG ] No samples found: somalier [2024-03-14 19:34:04,698] multiqc [DEBUG ] No samples found: methylQA [2024-03-14 19:34:04,706] multiqc [DEBUG ] No samples found: mosdepth [2024-03-14 19:34:04,710] multiqc [DEBUG ] No samples found: phantompeakqualtools [2024-03-14 19:34:04,713] multiqc [DEBUG ] No samples found: qualimap [2024-03-14 19:34:04,717] multiqc [DEBUG ] No samples found: preseq [2024-03-14 19:34:04,721] multiqc [DEBUG ] No samples found: quast [2024-03-14 19:34:04,726] multiqc [DEBUG ] No samples found: qorts [2024-03-14 19:34:04,730] multiqc [DEBUG ] No samples found: rna_seqc [2024-03-14 19:34:04,734] multiqc [DEBUG ] No samples found: rockhopper [2024-03-14 19:34:04,739] multiqc [DEBUG ] No samples found: rsem [2024-03-14 19:34:04,749] multiqc [DEBUG ] No samples found: rseqc [2024-03-14 19:34:04,753] multiqc [DEBUG ] No samples found: busco [2024-03-14 19:34:04,757] multiqc [DEBUG ] No samples found: goleft_indexcov [2024-03-14 19:34:04,761] multiqc [DEBUG ] No samples found: disambiguate [2024-03-14 19:34:04,766] multiqc [DEBUG ] No samples found: supernova [2024-03-14 19:34:04,776] multiqc [DEBUG ] No samples found: deeptools [2024-03-14 19:34:04,780] multiqc [DEBUG ] No samples found: sargasso [2024-03-14 19:34:04,784] multiqc [DEBUG ] No samples found: verifybamid [2024-03-14 19:34:04,788] multiqc [DEBUG ] No samples found: mirtrace [2024-03-14 19:34:04,792] multiqc [DEBUG ] No samples found: happy [2024-03-14 19:34:04,797] multiqc [DEBUG ] No samples found: mirtop [2024-03-14 19:34:04,802] multiqc [DEBUG ] No samples found: homer [2024-03-14 19:34:04,806] multiqc [DEBUG ] No samples found: macs2 [2024-03-14 19:34:04,811] multiqc [DEBUG ] No samples found: theta2 [2024-03-14 19:34:04,815] multiqc [DEBUG ] No samples found: snpeff [2024-03-14 19:34:04,821] multiqc [DEBUG ] No samples found: gatk [2024-03-14 19:34:04,824] multiqc [DEBUG ] No samples found: htseq [2024-03-14 19:34:04,830] multiqc [DEBUG ] No samples found: bcftools [2024-03-14 19:34:04,834] multiqc [DEBUG ] No samples found: featureCounts [2024-03-14 19:34:04,839] multiqc [DEBUG ] No samples found: fgbio [2024-03-14 19:34:04,851] multiqc [DEBUG ] No samples found: dragen [2024-03-14 19:34:04,855] multiqc [DEBUG ] No samples found: dedup [2024-03-14 19:34:04,860] multiqc [DEBUG ] No samples found: damageprofiler [2024-03-14 19:34:04,882] multiqc [DEBUG ] No samples found: biobambam2 [2024-03-14 19:34:04,887] multiqc [DEBUG ] No samples found: mtnucratio [2024-03-14 19:34:04,889] multiqc [DEBUG ] No samples found: picard [2024-03-14 19:34:04,893] multiqc [DEBUG ] No samples found: prokka [2024-03-14 19:34:04,897] multiqc [DEBUG ] No samples found: samblaster [2024-03-14 19:34:04,904] multiqc [DEBUG ] No samples found: samtools [2024-03-14 19:34:04,909] multiqc [DEBUG ] No samples found: sexdeterrmine [2024-03-14 19:34:04,913] multiqc [DEBUG ] No samples found: bamtools [2024-03-14 19:34:04,917] multiqc [DEBUG ] No samples found: jellyfish [2024-03-14 19:34:04,924] multiqc [DEBUG ] No samples found: vcftools [2024-03-14 19:34:04,928] multiqc [DEBUG ] No samples found: longranger [2024-03-14 19:34:04,934] multiqc [DEBUG ] No samples found: stacks [2024-03-14 19:34:04,938] multiqc [DEBUG ] No samples found: varscan2 [2024-03-14 19:34:04,951] multiqc [DEBUG ] No samples found: bbmap [2024-03-14 19:34:04,955] multiqc [DEBUG ] No samples found: bismark [2024-03-14 19:34:04,960] multiqc [DEBUG ] No samples found: biscuit [2024-03-14 19:34:04,964] multiqc [DEBUG ] No samples found: hicexplorer [2024-03-14 19:34:04,968] multiqc [DEBUG ] No samples found: hicup [2024-03-14 19:34:04,972] multiqc [DEBUG ] No samples found: hicpro [2024-03-14 19:34:04,976] multiqc [DEBUG ] No samples found: salmon [2024-03-14 19:34:04,980] multiqc [DEBUG ] No samples found: kallisto [2024-03-14 19:34:04,984] multiqc [DEBUG ] No samples found: slamdunk [2024-03-14 19:34:04,988] multiqc [DEBUG ] No samples found: star [2024-03-14 19:34:04,993] multiqc [DEBUG ] No samples found: hisat2 [2024-03-14 19:34:04,997] multiqc [DEBUG ] No samples found: tophat [2024-03-14 19:34:05,001] multiqc [DEBUG ] No samples found: bowtie2 [2024-03-14 19:34:05,005] multiqc [DEBUG ] No samples found: bowtie1 [2024-03-14 19:34:05,009] multiqc [DEBUG ] No samples found: snpsplit [2024-03-14 19:34:05,013] multiqc [DEBUG ] No samples found: kat [2024-03-14 19:34:05,017] multiqc [DEBUG ] No samples found: leehom [2024-03-14 19:34:05,020] multiqc [DEBUG ] No samples found: adapterRemoval [2024-03-14 19:34:05,024] multiqc [DEBUG ] No samples found: clipandmerge [2024-03-14 19:34:05,029] multiqc [DEBUG ] No samples found: cutadapt [2024-03-14 19:34:05,033] multiqc [DEBUG ] No samples found: flexbar [2024-03-14 19:34:05,037] multiqc [DEBUG ] No samples found: kaiju [2024-03-14 19:34:05,042] multiqc [DEBUG ] No samples found: kraken [2024-03-14 19:34:05,046] multiqc [DEBUG ] No samples found: malt [2024-03-14 19:34:05,050] multiqc [DEBUG ] No samples found: trimmomatic [2024-03-14 19:34:05,055] multiqc [DEBUG ] No samples found: sickle [2024-03-14 19:34:05,059] multiqc [DEBUG ] No samples found: skewer [2024-03-14 19:34:05,063] multiqc [DEBUG ] No samples found: sortmerna [2024-03-14 19:34:05,066] multiqc [DEBUG ] No samples found: biobloomtools [2024-03-14 19:34:05,071] multiqc [DEBUG ] No samples found: fastq_screen [2024-03-14 19:34:05,075] multiqc [DEBUG ] No samples found: afterqc [2024-03-14 19:34:05,079] multiqc [DEBUG ] No samples found: fastp [2024-03-14 19:34:05,161] multiqc.modules.fastqc.fastqc [INFO ] Found 25 reports [2024-03-14 19:34:05,694] multiqc.modules.pycoqc.pycoqc [INFO ] Found 1 reports [2024-03-14 19:34:05,704] multiqc [DEBUG ] No samples found: minionqc [2024-03-14 19:34:05,708] multiqc [DEBUG ] No samples found: multivcfanalyzer [2024-03-14 19:34:05,713] multiqc [DEBUG ] No samples found: clusterflow [2024-03-14 19:34:05,717] multiqc [DEBUG ] No samples found: bcl2fastq [2024-03-14 19:34:05,721] multiqc [DEBUG ] No samples found: interop [2024-03-14 19:34:05,726] multiqc [DEBUG ] No samples found: ivar [2024-03-14 19:34:05,730] multiqc [DEBUG ] No samples found: flash [2024-03-14 19:34:05,734] multiqc [DEBUG ] No samples found: seqyclean [2024-03-14 19:34:05,766] multiqc [INFO ] Compressing plot data [2024-03-14 19:34:06,181] multiqc [INFO ] Report : qc_files/multiqc_report.html [2024-03-14 19:34:06,181] multiqc [INFO ] Data : qc_files/multiqc_data [2024-03-14 19:34:06,181] multiqc [DEBUG ] Moving data file from '/state/partition1/job-44097040/tmphfn_p931/multiqc_data' to 'qc_files/multiqc_data' [2024-03-14 19:34:06,347] multiqc [INFO ] MultiQC complete