[2022-04-07 10:04:49,169] multiqc [DEBUG ] No MultiQC config found: /share/apps/multiqc/1.9/lib/python3.8/site-packages/multiqc_config.yaml [2022-04-07 10:04:49,169] multiqc [DEBUG ] No MultiQC config found: /home/gencore/.multiqc_config.yaml [2022-04-07 10:04:49,169] multiqc [DEBUG ] No MultiQC config found: multiqc_config.yaml [2022-04-07 10:04:49,170] multiqc [DEBUG ] Loading config settings from: /home/gencore/SCRIPTS/hpcpipe/mqc_config.yaml [2022-04-07 10:04:49,170] multiqc [DEBUG ] New config 'report_section_order': {'demux_report': {'after': 'run_stats'}} [2022-04-07 10:04:49,171] multiqc [DEBUG ] Command used: /share/apps/multiqc/1.9/bin/multiqc -f -c /home/gencore/SCRIPTS/hpcpipe/mqc_config.yaml /scratch/gencore/logs/html/H2WMTDRX2/merged [2022-04-07 10:04:49,769] multiqc [WARNING] MultiQC Version v1.12 now available! [2022-04-07 10:04:49,770] multiqc [INFO ] This is MultiQC v1.9 [2022-04-07 10:04:49,770] multiqc [DEBUG ] Command : /share/apps/multiqc/1.9/bin/multiqc -f -c /home/gencore/SCRIPTS/hpcpipe/mqc_config.yaml /scratch/gencore/logs/html/H2WMTDRX2/merged [2022-04-07 10:04:49,770] multiqc [DEBUG ] Working dir : /scratch/gencore/logs/html/H2WMTDRX2/merged [2022-04-07 10:04:49,770] multiqc [INFO ] Template : default [2022-04-07 10:04:49,770] multiqc [DEBUG ] Running Python 3.8.6 (default, Oct 11 2020, 20:34:31) [GCC Intel(R) C++ gcc 8.3.1 mode] [2022-04-07 10:04:49,770] multiqc [INFO ] Searching : /scratch/gencore/logs/html/H2WMTDRX2/merged [2022-04-07 10:04:49,770] 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 [2022-04-07 10:04:49,770] multiqc [DEBUG ] Using temporary directory for creating report: /state/partition1/job-17393161/tmpjkkqwn66 [2022-04-07 10:04:49,893] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: H2WMTDRX2_n01_HTO_A_220401_fastqc.html [2022-04-07 10:04:49,896] multiqc [DEBUG ] File ignored by longranger/invocation because it 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File ignored by longranger/invocation because it exceeded search pattern filesize limit: H2WMTDRX2_n01_cDNA_C1_220401_fastqc.html [2022-04-07 10:04:52,883] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: H2WMTDRX2_n01_cDNA_B2_220401_fastqc.html [2022-04-07 10:04:52,885] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: H2WMTDRX2_n01_cDNA_B2_220401_fastqc.html [2022-04-07 10:04:52,940] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: H2WMTDRX2_n01_ADT_C_220401_fastqc.html [2022-04-07 10:04:52,942] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: H2WMTDRX2_n01_ADT_C_220401_fastqc.html [2022-04-07 10:04:52,998] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: H2WMTDRX2_n02_cDNA_C4_220401_fastqc.html [2022-04-07 10:04:53,000] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: H2WMTDRX2_n02_cDNA_C4_220401_fastqc.html [2022-04-07 10:04:53,061] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: H2WMTDRX2_n02_cDNA_A3_220401_fastqc.html [2022-04-07 10:04:53,063] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: H2WMTDRX2_n02_cDNA_A3_220401_fastqc.html [2022-04-07 10:04:53,119] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: H2WMTDRX2_n02_HTO_B_220401_fastqc.html [2022-04-07 10:04:53,120] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: H2WMTDRX2_n02_HTO_B_220401_fastqc.html [2022-04-07 10:04:53,511] multiqc.plots.bargraph [DEBUG ] Using matplotlib version 3.3.2 [2022-04-07 10:04:53,512] multiqc.plots.linegraph [DEBUG ] Using matplotlib version 3.3.2 [2022-04-07 10:04:53,520] multiqc.modules.custom_content.custom_content [INFO ] run_stats: Found 1 samples (table) [2022-04-07 10:04:53,530] multiqc.modules.custom_content.custom_content [INFO ] undetermined_barcodes: Found 20 samples (table) [2022-04-07 10:04:53,541] multiqc.modules.custom_content.custom_content [INFO ] demux_report: Found 22 samples (table) [2022-04-07 10:04:53,545] multiqc [DEBUG ] No samples found: conpair [2022-04-07 10:04:53,549] multiqc [DEBUG ] No samples found: peddy [2022-04-07 10:04:53,552] multiqc [DEBUG ] No samples found: somalier [2022-04-07 10:04:53,556] multiqc [DEBUG ] No samples found: methylQA [2022-04-07 10:04:53,561] multiqc [DEBUG ] No samples found: mosdepth [2022-04-07 10:04:53,564] multiqc [DEBUG ] No samples found: phantompeakqualtools [2022-04-07 10:04:53,567] multiqc [DEBUG ] No samples found: qualimap [2022-04-07 10:04:53,571] multiqc [DEBUG ] No samples found: preseq [2022-04-07 10:04:53,574] multiqc [DEBUG ] No samples found: quast [2022-04-07 10:04:53,578] multiqc [DEBUG ] No samples found: qorts [2022-04-07 10:04:53,581] multiqc [DEBUG ] No samples found: rna_seqc [2022-04-07 10:04:53,585] multiqc [DEBUG ] No samples found: rockhopper [2022-04-07 10:04:53,589] multiqc [DEBUG ] No samples found: rsem [2022-04-07 10:04:53,595] multiqc [DEBUG ] No samples found: rseqc [2022-04-07 10:04:53,598] multiqc [DEBUG ] No samples found: busco [2022-04-07 10:04:53,602] multiqc [DEBUG ] No samples found: goleft_indexcov [2022-04-07 10:04:53,605] multiqc [DEBUG ] No samples found: disambiguate [2022-04-07 10:04:53,609] multiqc [DEBUG ] No samples found: supernova [2022-04-07 10:04:53,616] multiqc [DEBUG ] No samples found: deeptools [2022-04-07 10:04:53,619] multiqc [DEBUG ] No samples found: sargasso [2022-04-07 10:04:53,623] multiqc [DEBUG ] No samples found: verifybamid [2022-04-07 10:04:53,626] multiqc [DEBUG ] No samples found: mirtrace [2022-04-07 10:04:53,630] multiqc [DEBUG ] No samples found: happy [2022-04-07 10:04:53,633] multiqc [DEBUG ] No samples found: mirtop [2022-04-07 10:04:53,637] multiqc [DEBUG ] No samples found: homer [2022-04-07 10:04:53,641] multiqc [DEBUG ] No samples found: macs2 [2022-04-07 10:04:53,644] multiqc [DEBUG ] No samples found: theta2 [2022-04-07 10:04:53,648] multiqc [DEBUG ] No samples found: snpeff [2022-04-07 10:04:53,652] multiqc [DEBUG ] No samples found: gatk [2022-04-07 10:04:53,656] multiqc [DEBUG ] No samples found: htseq [2022-04-07 10:04:53,660] multiqc [DEBUG ] No samples found: bcftools [2022-04-07 10:04:53,663] multiqc [DEBUG ] No samples found: featureCounts [2022-04-07 10:04:53,667] multiqc [DEBUG ] No samples found: fgbio [2022-04-07 10:04:53,674] multiqc [DEBUG ] No samples found: dragen [2022-04-07 10:04:53,678] multiqc [DEBUG ] No samples found: dedup [2022-04-07 10:04:53,682] multiqc [DEBUG ] No samples found: damageprofiler [2022-04-07 10:04:53,692] multiqc [DEBUG ] No samples found: biobambam2 [2022-04-07 10:04:53,696] multiqc [DEBUG ] No samples found: mtnucratio [2022-04-07 10:04:53,699] multiqc [DEBUG ] No samples found: picard [2022-04-07 10:04:53,702] multiqc [DEBUG ] No samples found: prokka [2022-04-07 10:04:53,706] multiqc [DEBUG ] No samples found: samblaster [2022-04-07 10:04:53,711] multiqc [DEBUG ] No samples found: samtools [2022-04-07 10:04:53,715] multiqc [DEBUG ] No samples found: sexdeterrmine [2022-04-07 10:04:53,719] multiqc [DEBUG ] No samples found: bamtools [2022-04-07 10:04:53,722] multiqc [DEBUG ] No samples found: jellyfish [2022-04-07 10:04:53,727] multiqc [DEBUG ] No samples found: vcftools [2022-04-07 10:04:53,730] multiqc [DEBUG ] No samples found: longranger [2022-04-07 10:04:53,734] multiqc [DEBUG ] No samples found: stacks [2022-04-07 10:04:53,737] multiqc [DEBUG ] No samples found: varscan2 [2022-04-07 10:04:53,744] multiqc [DEBUG ] No samples found: bbmap [2022-04-07 10:04:53,748] multiqc [DEBUG ] No samples found: bismark [2022-04-07 10:04:53,752] multiqc [DEBUG ] No samples found: biscuit [2022-04-07 10:04:53,756] multiqc [DEBUG ] No samples found: hicexplorer [2022-04-07 10:04:53,759] multiqc [DEBUG ] No samples found: hicup [2022-04-07 10:04:53,763] multiqc [DEBUG ] No samples found: hicpro [2022-04-07 10:04:53,766] multiqc [DEBUG ] No samples found: salmon [2022-04-07 10:04:53,770] multiqc [DEBUG ] No samples found: kallisto [2022-04-07 10:04:53,773] multiqc [DEBUG ] No samples found: slamdunk [2022-04-07 10:04:53,777] multiqc [DEBUG ] No samples found: star [2022-04-07 10:04:53,781] multiqc [DEBUG ] No samples found: hisat2 [2022-04-07 10:04:53,784] multiqc [DEBUG ] No samples found: tophat [2022-04-07 10:04:53,788] multiqc [DEBUG ] No samples found: bowtie2 [2022-04-07 10:04:53,791] multiqc [DEBUG ] No samples found: bowtie1 [2022-04-07 10:04:53,795] multiqc [DEBUG ] No samples found: snpsplit [2022-04-07 10:04:53,798] multiqc [DEBUG ] No samples found: kat [2022-04-07 10:04:53,801] multiqc [DEBUG ] No samples found: leehom [2022-04-07 10:04:53,805] multiqc [DEBUG ] No samples found: adapterRemoval [2022-04-07 10:04:53,808] multiqc [DEBUG ] No samples found: clipandmerge [2022-04-07 10:04:53,812] multiqc [DEBUG ] No samples found: cutadapt [2022-04-07 10:04:53,816] multiqc [DEBUG ] No samples found: flexbar [2022-04-07 10:04:53,819] multiqc [DEBUG ] No samples found: kaiju [2022-04-07 10:04:53,823] multiqc [DEBUG ] No samples found: kraken [2022-04-07 10:04:53,826] multiqc [DEBUG ] No samples found: malt [2022-04-07 10:04:53,830] multiqc [DEBUG ] No samples found: trimmomatic [2022-04-07 10:04:53,833] multiqc [DEBUG ] No samples found: sickle [2022-04-07 10:04:53,837] multiqc [DEBUG ] No samples found: skewer [2022-04-07 10:04:53,840] multiqc [DEBUG ] No samples found: sortmerna [2022-04-07 10:04:53,843] multiqc [DEBUG ] No samples found: biobloomtools [2022-04-07 10:04:53,847] multiqc [DEBUG ] No samples found: fastq_screen [2022-04-07 10:04:53,850] multiqc [DEBUG ] No samples found: afterqc [2022-04-07 10:04:53,854] multiqc [DEBUG ] No samples found: fastp [2022-04-07 10:04:56,351] multiqc.modules.fastqc.fastqc [INFO ] Found 44 reports [2022-04-07 10:04:56,742] multiqc [DEBUG ] No samples found: pycoqc [2022-04-07 10:04:56,745] multiqc [DEBUG ] No samples found: minionqc [2022-04-07 10:04:56,748] multiqc [DEBUG ] No samples found: multivcfanalyzer [2022-04-07 10:04:56,751] multiqc [DEBUG ] No samples found: clusterflow [2022-04-07 10:04:56,754] multiqc [DEBUG ] No samples found: bcl2fastq [2022-04-07 10:04:56,757] multiqc [DEBUG ] No samples found: interop [2022-04-07 10:04:56,760] multiqc [DEBUG ] No samples found: ivar [2022-04-07 10:04:56,763] multiqc [DEBUG ] No samples found: flash [2022-04-07 10:04:56,766] multiqc [DEBUG ] No samples found: seqyclean [2022-04-07 10:04:56,766] multiqc [DEBUG ] Reordering sections: anchor 'demux_report' not found for module 'Demultiplexing Report'. [2022-04-07 10:04:56,766] multiqc [DEBUG ] Reordering sections: anchor 'demux_report' not found for module 'Run Statistics'. [2022-04-07 10:04:56,767] multiqc [DEBUG ] Reordering sections: anchor 'demux_report' not found for module ' Barcodes of Undetermined Reads'. [2022-04-07 10:04:56,767] multiqc [DEBUG ] Reordering sections: anchor 'demux_report' not found for module 'FastQC'. [2022-04-07 10:04:56,818] multiqc [INFO ] Compressing plot data [2022-04-07 10:04:57,546] multiqc [INFO ] Report : multiqc_report.html [2022-04-07 10:04:57,546] multiqc [INFO ] Data : multiqc_data [2022-04-07 10:04:57,546] multiqc [DEBUG ] Moving data file from '/state/partition1/job-17393161/tmpjkkqwn66/multiqc_data' to '/scratch/gencore/logs/html/H2WMTDRX2/merged/multiqc_data' [2022-04-07 10:04:57,655] multiqc [INFO ] MultiQC complete