[2022-10-14 16:34:39,827] multiqc [DEBUG ] No MultiQC config found: /share/apps/multiqc/1.9/lib/python3.8/site-packages/multiqc_config.yaml [2022-10-14 16:34:39,827] multiqc [DEBUG ] No MultiQC config found: /home/gencore/.multiqc_config.yaml [2022-10-14 16:34:39,827] multiqc [DEBUG ] No MultiQC config found: multiqc_config.yaml [2022-10-14 16:34:39,828] multiqc [DEBUG ] Loading config settings from: /home/gencore/SCRIPTS/hpcpipe/mqc_config.yaml [2022-10-14 16:34:39,828] multiqc [DEBUG ] New config 'report_section_order': {'demux_report': {'after': 'run_stats'}} [2022-10-14 16:34:39,829] multiqc [DEBUG ] Command used: /share/apps/multiqc/1.9/bin/multiqc -f -c /home/gencore/SCRIPTS/hpcpipe/mqc_config.yaml /scratch/gencore/logs/html/000000000-DJ385/1 [2022-10-14 16:34:40,323] multiqc [WARNING] MultiQC Version v1.13 now available! [2022-10-14 16:34:40,323] multiqc [INFO ] This is MultiQC v1.9 [2022-10-14 16:34:40,323] multiqc [DEBUG ] Command : /share/apps/multiqc/1.9/bin/multiqc -f -c /home/gencore/SCRIPTS/hpcpipe/mqc_config.yaml /scratch/gencore/logs/html/000000000-DJ385/1 [2022-10-14 16:34:40,323] multiqc [DEBUG ] Working dir : /scratch/gencore/logs/html/000000000-DJ385/1 [2022-10-14 16:34:40,323] multiqc [INFO ] Template : default [2022-10-14 16:34:40,323] multiqc [DEBUG ] Running Python 3.8.6 (default, Oct 11 2020, 20:34:31) [GCC Intel(R) C++ gcc 8.3.1 mode] [2022-10-14 16:34:40,323] multiqc [INFO ] Searching : /scratch/gencore/logs/html/000000000-DJ385/1 [2022-10-14 16:34:40,324] 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 [2022-10-14 16:34:40,324] multiqc [DEBUG ] Using temporary directory for creating report: /state/partition1/job-25926308/tmplylf99ko [2022-10-14 16:34:40,475] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: 000000000-DJ385_l01.3_fastqc.html [2022-10-14 16:34:40,477] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: 000000000-DJ385_l01.3_fastqc.html [2022-10-14 16:34:40,521] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: 000000000-DJ385_l01.4_fastqc.html [2022-10-14 16:34:40,523] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: 000000000-DJ385_l01.4_fastqc.html [2022-10-14 16:34:40,593] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: 000000000-DJ385_l01.1_fastqc.html [2022-10-14 16:34:40,594] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: 000000000-DJ385_l01.1_fastqc.html [2022-10-14 16:34:40,660] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: 000000000-DJ385_l01.2_fastqc.html [2022-10-14 16:34:40,661] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: 000000000-DJ385_l01.2_fastqc.html [2022-10-14 16:34:41,048] multiqc.plots.bargraph [DEBUG ] Using matplotlib version 3.3.2 [2022-10-14 16:34:41,053] multiqc.plots.linegraph [DEBUG ] Using matplotlib version 3.3.2 [2022-10-14 16:34:41,058] multiqc.modules.custom_content.custom_content [WARNING] Not able to parse custom data in undetermined_barcodes_mqc.txt [2022-10-14 16:34:41,060] multiqc.modules.custom_content.custom_content [INFO ] run_stats: Found 1 samples (table) [2022-10-14 16:34:41,068] multiqc [DEBUG ] No samples found: conpair [2022-10-14 16:34:41,077] multiqc [DEBUG ] No samples found: peddy [2022-10-14 16:34:41,085] multiqc [DEBUG ] No samples found: somalier [2022-10-14 16:34:41,096] multiqc [DEBUG ] No samples found: methylQA [2022-10-14 16:34:41,110] multiqc [DEBUG ] No samples found: mosdepth [2022-10-14 16:34:41,117] multiqc [DEBUG ] No samples found: phantompeakqualtools [2022-10-14 16:34:41,122] multiqc [DEBUG ] No samples found: qualimap [2022-10-14 16:34:41,129] multiqc [DEBUG ] No samples found: preseq [2022-10-14 16:34:41,137] multiqc [DEBUG ] No samples found: quast [2022-10-14 16:34:41,145] multiqc [DEBUG ] No samples found: qorts [2022-10-14 16:34:41,153] multiqc [DEBUG ] No samples found: rna_seqc [2022-10-14 16:34:41,161] multiqc [DEBUG ] No samples found: rockhopper [2022-10-14 16:34:41,170] multiqc [DEBUG ] No samples found: rsem [2022-10-14 16:34:41,188] multiqc [DEBUG ] No samples found: rseqc [2022-10-14 16:34:41,196] multiqc [DEBUG ] No samples found: busco [2022-10-14 16:34:41,206] multiqc [DEBUG ] No samples found: goleft_indexcov [2022-10-14 16:34:41,215] multiqc [DEBUG ] No samples found: disambiguate [2022-10-14 16:34:41,222] multiqc [DEBUG ] No samples found: supernova [2022-10-14 16:34:41,255] multiqc [DEBUG ] No samples found: deeptools [2022-10-14 16:34:41,267] multiqc [DEBUG ] No samples found: sargasso [2022-10-14 16:34:41,275] multiqc [DEBUG ] No samples found: verifybamid [2022-10-14 16:34:41,282] multiqc [DEBUG ] No samples found: mirtrace [2022-10-14 16:34:41,291] multiqc [DEBUG ] No samples found: happy [2022-10-14 16:34:41,300] multiqc [DEBUG ] No samples found: mirtop [2022-10-14 16:34:41,316] multiqc [DEBUG ] No samples found: homer [2022-10-14 16:34:41,325] multiqc [DEBUG ] No samples found: macs2 [2022-10-14 16:34:41,331] multiqc [DEBUG ] No samples found: theta2 [2022-10-14 16:34:41,339] multiqc [DEBUG ] No samples found: snpeff [2022-10-14 16:34:41,353] multiqc [DEBUG ] No samples found: gatk [2022-10-14 16:34:41,363] multiqc [DEBUG ] No samples found: htseq [2022-10-14 16:34:41,373] multiqc [DEBUG ] No samples found: bcftools [2022-10-14 16:34:41,383] multiqc [DEBUG ] No samples found: featureCounts [2022-10-14 16:34:41,397] multiqc [DEBUG ] No samples found: fgbio [2022-10-14 16:34:41,426] multiqc [DEBUG ] No samples found: dragen [2022-10-14 16:34:41,435] multiqc [DEBUG ] No samples found: dedup [2022-10-14 16:34:41,446] multiqc [DEBUG ] No samples found: damageprofiler [2022-10-14 16:34:41,506] multiqc [DEBUG ] No samples found: biobambam2 [2022-10-14 16:34:41,514] multiqc [DEBUG ] No samples found: mtnucratio [2022-10-14 16:34:41,516] multiqc [DEBUG ] No samples found: picard [2022-10-14 16:34:41,525] multiqc [DEBUG ] No samples found: prokka [2022-10-14 16:34:41,533] multiqc [DEBUG ] No samples found: samblaster [2022-10-14 16:34:41,557] multiqc [DEBUG ] No samples found: samtools [2022-10-14 16:34:41,566] multiqc [DEBUG ] No samples found: sexdeterrmine [2022-10-14 16:34:41,574] multiqc [DEBUG ] No samples found: bamtools [2022-10-14 16:34:41,580] multiqc [DEBUG ] No samples found: jellyfish [2022-10-14 16:34:41,592] multiqc [DEBUG ] No samples found: vcftools [2022-10-14 16:34:41,601] multiqc [DEBUG ] No samples found: longranger [2022-10-14 16:34:41,609] multiqc [DEBUG ] No samples found: stacks [2022-10-14 16:34:41,617] multiqc [DEBUG ] No samples found: varscan2 [2022-10-14 16:34:41,645] multiqc [DEBUG ] No samples found: bbmap [2022-10-14 16:34:41,656] multiqc [DEBUG ] No samples found: bismark [2022-10-14 16:34:41,665] multiqc [DEBUG ] No samples found: biscuit [2022-10-14 16:34:41,676] multiqc [DEBUG ] No samples found: hicexplorer [2022-10-14 16:34:41,686] multiqc [DEBUG ] No samples found: hicup [2022-10-14 16:34:41,694] multiqc [DEBUG ] No samples found: hicpro [2022-10-14 16:34:41,701] multiqc [DEBUG ] No samples found: salmon [2022-10-14 16:34:41,709] multiqc [DEBUG ] No samples found: kallisto [2022-10-14 16:34:41,716] multiqc [DEBUG ] No samples found: slamdunk [2022-10-14 16:34:41,726] multiqc [DEBUG ] No samples found: star [2022-10-14 16:34:41,733] multiqc [DEBUG ] No samples found: hisat2 [2022-10-14 16:34:41,744] multiqc [DEBUG ] No samples found: tophat [2022-10-14 16:34:41,755] multiqc [DEBUG ] No samples found: bowtie2 [2022-10-14 16:34:41,763] multiqc [DEBUG ] No samples found: bowtie1 [2022-10-14 16:34:41,772] multiqc [DEBUG ] No samples found: snpsplit [2022-10-14 16:34:41,779] multiqc [DEBUG ] No samples found: kat [2022-10-14 16:34:41,788] multiqc [DEBUG ] No samples found: leehom [2022-10-14 16:34:41,797] multiqc [DEBUG ] No samples found: adapterRemoval [2022-10-14 16:34:41,805] multiqc [DEBUG ] No samples found: clipandmerge [2022-10-14 16:34:41,816] multiqc [DEBUG ] No samples found: cutadapt [2022-10-14 16:34:41,826] multiqc [DEBUG ] No samples found: flexbar [2022-10-14 16:34:41,834] multiqc [DEBUG ] No samples found: kaiju [2022-10-14 16:34:41,844] multiqc [DEBUG ] No samples found: kraken [2022-10-14 16:34:41,853] multiqc [DEBUG ] No samples found: malt [2022-10-14 16:34:41,862] multiqc [DEBUG ] No samples found: trimmomatic [2022-10-14 16:34:41,872] multiqc [DEBUG ] No samples found: sickle [2022-10-14 16:34:41,884] multiqc [DEBUG ] No samples found: skewer [2022-10-14 16:34:41,892] multiqc [DEBUG ] No samples found: sortmerna [2022-10-14 16:34:41,900] multiqc [DEBUG ] No samples found: biobloomtools [2022-10-14 16:34:41,909] multiqc [DEBUG ] No samples found: fastq_screen [2022-10-14 16:34:41,919] multiqc [DEBUG ] No samples found: afterqc [2022-10-14 16:34:41,927] multiqc [DEBUG ] No samples found: fastp [2022-10-14 16:34:41,943] multiqc.modules.fastqc.fastqc [INFO ] Found 4 reports [2022-10-14 16:34:42,014] multiqc [DEBUG ] No samples found: pycoqc [2022-10-14 16:34:42,023] multiqc [DEBUG ] No samples found: minionqc [2022-10-14 16:34:42,034] multiqc [DEBUG ] No samples found: multivcfanalyzer [2022-10-14 16:34:42,042] multiqc [DEBUG ] No samples found: clusterflow [2022-10-14 16:34:42,051] multiqc [DEBUG ] No samples found: bcl2fastq [2022-10-14 16:34:42,061] multiqc [DEBUG ] No samples found: interop [2022-10-14 16:34:42,069] multiqc [DEBUG ] No samples found: ivar [2022-10-14 16:34:42,080] multiqc [DEBUG ] No samples found: flash [2022-10-14 16:34:42,091] multiqc [DEBUG ] No samples found: seqyclean [2022-10-14 16:34:42,091] multiqc [DEBUG ] Reordering sections: anchor 'demux_report' not found. [2022-10-14 16:34:42,091] multiqc [DEBUG ] Reordering sections: anchor 'demux_report' not found for module 'Run Statistics'. [2022-10-14 16:34:42,091] multiqc [DEBUG ] Reordering sections: anchor 'demux_report' not found for module 'FastQC'. [2022-10-14 16:34:42,097] multiqc [INFO ] Compressing plot data [2022-10-14 16:34:42,166] multiqc [INFO ] Report : multiqc_report.html [2022-10-14 16:34:42,166] multiqc [INFO ] Data : multiqc_data [2022-10-14 16:34:42,166] multiqc [DEBUG ] Moving data file from '/state/partition1/job-25926308/tmplylf99ko/multiqc_data' to '/scratch/gencore/logs/html/000000000-DJ385/1/multiqc_data' [2022-10-14 16:34:42,363] multiqc [INFO ] MultiQC complete