[2022-09-09 06:59:49,048] multiqc [DEBUG ] No MultiQC config found: /share/apps/multiqc/1.9/lib/python3.8/site-packages/multiqc_config.yaml [2022-09-09 06:59:49,049] multiqc [DEBUG ] No MultiQC config found: /home/gencore/.multiqc_config.yaml [2022-09-09 06:59:49,049] multiqc [DEBUG ] No MultiQC config found: multiqc_config.yaml [2022-09-09 06:59:49,050] multiqc [DEBUG ] Loading config settings from: /home/gencore/SCRIPTS/hpcpipe/mqc_config.yaml [2022-09-09 06:59:49,050] multiqc [DEBUG ] New config 'report_section_order': {'demux_report': {'after': 'run_stats'}} [2022-09-09 06:59:49,050] multiqc [DEBUG ] Command used: /share/apps/multiqc/1.9/bin/multiqc -f -c /home/gencore/SCRIPTS/hpcpipe/mqc_config.yaml /scratch/gencore/logs/html/HVTWYAFX3/merged [2022-09-09 06:59:49,552] multiqc [WARNING] MultiQC Version v1.13 now available! [2022-09-09 06:59:49,552] multiqc [INFO ] This is MultiQC v1.9 [2022-09-09 06:59:49,552] multiqc [DEBUG ] Command : /share/apps/multiqc/1.9/bin/multiqc -f -c /home/gencore/SCRIPTS/hpcpipe/mqc_config.yaml /scratch/gencore/logs/html/HVTWYAFX3/merged [2022-09-09 06:59:49,552] multiqc [DEBUG ] Working dir : /scratch/gencore/logs/html/HVTWYAFX3/merged [2022-09-09 06:59:49,552] multiqc [INFO ] Template : default [2022-09-09 06:59:49,552] multiqc [DEBUG ] Running Python 3.8.6 (default, Oct 11 2020, 20:34:31) [GCC Intel(R) C++ gcc 8.3.1 mode] [2022-09-09 06:59:49,552] multiqc [INFO ] Searching : /scratch/gencore/logs/html/HVTWYAFX3/merged [2022-09-09 06:59:49,553] 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 [2022-09-09 06:59:49,553] multiqc [DEBUG ] Using temporary directory for creating report: /state/partition1/job-24675214/tmp4hivxzr4 [2022-09-09 06:59:49,676] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: HVTWYAFX3_1_fastqc.html [2022-09-09 06:59:49,678] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: HVTWYAFX3_1_fastqc.html [2022-09-09 06:59:49,724] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: HVTWYAFX3_2_fastqc.html [2022-09-09 06:59:49,725] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: HVTWYAFX3_2_fastqc.html [2022-09-09 06:59:49,767] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: HVTWYAFX3_3_fastqc.html [2022-09-09 06:59:49,768] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: HVTWYAFX3_3_fastqc.html [2022-09-09 06:59:50,290] multiqc.plots.bargraph [DEBUG ] Using matplotlib version 3.3.2 [2022-09-09 06:59:50,292] multiqc.plots.linegraph [DEBUG ] Using matplotlib version 3.3.2 [2022-09-09 06:59:50,296] multiqc.modules.custom_content.custom_content [WARNING] Not able to parse custom data in undetermined_barcodes_mqc.txt [2022-09-09 06:59:50,298] multiqc.modules.custom_content.custom_content [INFO ] run_stats: Found 1 samples (table) [2022-09-09 06:59:50,307] multiqc [DEBUG ] No samples found: conpair [2022-09-09 06:59:50,312] multiqc [DEBUG ] No samples found: peddy [2022-09-09 06:59:50,318] multiqc [DEBUG ] No samples found: somalier [2022-09-09 06:59:50,323] multiqc [DEBUG ] No samples found: methylQA [2022-09-09 06:59:50,333] multiqc [DEBUG ] No samples found: mosdepth [2022-09-09 06:59:50,337] multiqc [DEBUG ] No samples found: phantompeakqualtools [2022-09-09 06:59:50,341] multiqc [DEBUG ] No samples found: qualimap [2022-09-09 06:59:50,346] multiqc [DEBUG ] No samples found: preseq [2022-09-09 06:59:50,352] multiqc [DEBUG ] No samples found: quast [2022-09-09 06:59:50,357] multiqc [DEBUG ] No samples found: qorts [2022-09-09 06:59:50,363] multiqc [DEBUG ] No samples found: rna_seqc [2022-09-09 06:59:50,368] multiqc [DEBUG ] No samples found: rockhopper [2022-09-09 06:59:50,374] multiqc [DEBUG ] No samples found: rsem [2022-09-09 06:59:50,386] multiqc [DEBUG ] No samples found: rseqc [2022-09-09 06:59:50,391] multiqc [DEBUG ] No samples found: busco [2022-09-09 06:59:50,397] multiqc [DEBUG ] No samples found: goleft_indexcov [2022-09-09 06:59:50,402] multiqc [DEBUG ] No samples found: disambiguate [2022-09-09 06:59:50,407] multiqc [DEBUG ] No samples found: supernova [2022-09-09 06:59:50,420] multiqc [DEBUG ] No samples found: deeptools [2022-09-09 06:59:50,426] multiqc [DEBUG ] No samples found: sargasso [2022-09-09 06:59:50,432] multiqc [DEBUG ] No samples found: verifybamid [2022-09-09 06:59:50,437] multiqc [DEBUG ] No samples found: mirtrace [2022-09-09 06:59:50,443] multiqc [DEBUG ] No samples found: happy [2022-09-09 06:59:50,448] multiqc [DEBUG ] No samples found: mirtop [2022-09-09 06:59:50,455] multiqc [DEBUG ] No samples found: homer [2022-09-09 06:59:50,461] multiqc [DEBUG ] No samples found: macs2 [2022-09-09 06:59:50,466] multiqc [DEBUG ] No samples found: theta2 [2022-09-09 06:59:50,472] multiqc [DEBUG ] No samples found: snpeff [2022-09-09 06:59:50,480] multiqc [DEBUG ] No samples found: gatk [2022-09-09 06:59:50,485] multiqc [DEBUG ] No samples found: htseq [2022-09-09 06:59:50,491] multiqc [DEBUG ] No samples found: bcftools [2022-09-09 06:59:50,496] multiqc [DEBUG ] No samples found: featureCounts [2022-09-09 06:59:50,504] multiqc [DEBUG ] No samples found: fgbio [2022-09-09 06:59:50,518] multiqc [DEBUG ] No samples found: dragen [2022-09-09 06:59:50,523] multiqc [DEBUG ] No samples found: dedup [2022-09-09 06:59:50,529] multiqc [DEBUG ] No samples found: damageprofiler [2022-09-09 06:59:50,555] multiqc [DEBUG ] No samples found: biobambam2 [2022-09-09 06:59:50,560] multiqc [DEBUG ] No samples found: mtnucratio [2022-09-09 06:59:50,562] multiqc [DEBUG ] No samples found: picard [2022-09-09 06:59:50,567] multiqc [DEBUG ] No samples found: prokka [2022-09-09 06:59:50,572] multiqc [DEBUG ] No samples found: samblaster [2022-09-09 06:59:50,580] multiqc [DEBUG ] No samples found: samtools [2022-09-09 06:59:50,586] multiqc [DEBUG ] No samples found: sexdeterrmine [2022-09-09 06:59:50,591] multiqc [DEBUG ] No samples found: bamtools [2022-09-09 06:59:50,596] multiqc [DEBUG ] No samples found: jellyfish [2022-09-09 06:59:50,604] multiqc [DEBUG ] No samples found: vcftools [2022-09-09 06:59:50,610] multiqc [DEBUG ] No samples found: longranger [2022-09-09 06:59:50,616] multiqc [DEBUG ] No samples found: stacks [2022-09-09 06:59:50,621] multiqc [DEBUG ] No samples found: varscan2 [2022-09-09 06:59:50,637] multiqc [DEBUG ] No samples found: bbmap [2022-09-09 06:59:50,642] multiqc [DEBUG ] No samples found: bismark [2022-09-09 06:59:50,648] multiqc [DEBUG ] No samples found: biscuit [2022-09-09 06:59:50,654] multiqc [DEBUG ] No samples found: hicexplorer [2022-09-09 06:59:50,659] multiqc [DEBUG ] No samples found: hicup [2022-09-09 06:59:50,665] multiqc [DEBUG ] No samples found: hicpro [2022-09-09 06:59:50,669] multiqc [DEBUG ] No samples found: salmon [2022-09-09 06:59:50,674] multiqc [DEBUG ] No samples found: kallisto [2022-09-09 06:59:50,680] multiqc [DEBUG ] No samples found: slamdunk [2022-09-09 06:59:50,685] multiqc [DEBUG ] No samples found: star [2022-09-09 06:59:50,690] multiqc [DEBUG ] No samples found: hisat2 [2022-09-09 06:59:50,695] multiqc [DEBUG ] No samples found: tophat [2022-09-09 06:59:50,700] multiqc [DEBUG ] No samples found: bowtie2 [2022-09-09 06:59:50,704] multiqc [DEBUG ] No samples found: bowtie1 [2022-09-09 06:59:50,709] multiqc [DEBUG ] No samples found: snpsplit [2022-09-09 06:59:50,715] multiqc [DEBUG ] No samples found: kat [2022-09-09 06:59:50,719] multiqc [DEBUG ] No samples found: leehom [2022-09-09 06:59:50,724] multiqc [DEBUG ] No samples found: adapterRemoval [2022-09-09 06:59:50,729] multiqc [DEBUG ] No samples found: clipandmerge [2022-09-09 06:59:50,734] multiqc [DEBUG ] No samples found: cutadapt [2022-09-09 06:59:50,739] multiqc [DEBUG ] No samples found: flexbar [2022-09-09 06:59:50,744] multiqc [DEBUG ] No samples found: kaiju [2022-09-09 06:59:50,749] multiqc [DEBUG ] No samples found: kraken [2022-09-09 06:59:50,755] multiqc [DEBUG ] No samples found: malt [2022-09-09 06:59:50,759] multiqc [DEBUG ] No samples found: trimmomatic [2022-09-09 06:59:50,764] multiqc [DEBUG ] No samples found: sickle [2022-09-09 06:59:50,769] multiqc [DEBUG ] No samples found: skewer [2022-09-09 06:59:50,774] multiqc [DEBUG ] No samples found: sortmerna [2022-09-09 06:59:50,778] multiqc [DEBUG ] No samples found: biobloomtools [2022-09-09 06:59:50,784] multiqc [DEBUG ] No samples found: fastq_screen [2022-09-09 06:59:50,789] multiqc [DEBUG ] No samples found: afterqc [2022-09-09 06:59:50,794] multiqc [DEBUG ] No samples found: fastp [2022-09-09 06:59:50,865] multiqc.modules.fastqc.fastqc [INFO ] Found 3 reports [2022-09-09 06:59:50,939] multiqc [DEBUG ] No samples found: pycoqc [2022-09-09 06:59:50,943] multiqc [DEBUG ] No samples found: minionqc [2022-09-09 06:59:50,948] multiqc [DEBUG ] No samples found: multivcfanalyzer [2022-09-09 06:59:50,954] multiqc [DEBUG ] No samples found: clusterflow [2022-09-09 06:59:50,959] multiqc [DEBUG ] No samples found: bcl2fastq [2022-09-09 06:59:50,964] multiqc [DEBUG ] No samples found: interop [2022-09-09 06:59:50,969] multiqc [DEBUG ] No samples found: ivar [2022-09-09 06:59:50,974] multiqc [DEBUG ] No samples found: flash [2022-09-09 06:59:50,979] multiqc [DEBUG ] No samples found: seqyclean [2022-09-09 06:59:50,979] multiqc [DEBUG ] Reordering sections: anchor 'demux_report' not found. [2022-09-09 06:59:50,979] multiqc [DEBUG ] Reordering sections: anchor 'demux_report' not found for module 'Run Statistics'. [2022-09-09 06:59:50,979] multiqc [DEBUG ] Reordering sections: anchor 'demux_report' not found for module 'FastQC'. [2022-09-09 06:59:50,984] multiqc [INFO ] Compressing plot data [2022-09-09 06:59:51,040] multiqc [INFO ] Report : multiqc_report.html [2022-09-09 06:59:51,040] multiqc [INFO ] Data : multiqc_data [2022-09-09 06:59:51,040] multiqc [DEBUG ] Moving data file from '/state/partition1/job-24675214/tmp4hivxzr4/multiqc_data' to '/scratch/gencore/logs/html/HVTWYAFX3/merged/multiqc_data' [2022-09-09 06:59:51,174] multiqc [INFO ] MultiQC complete