[2022-02-19 05:10:20,178] multiqc [DEBUG ] No MultiQC config found: /share/apps/multiqc/1.9/lib/python3.8/site-packages/multiqc_config.yaml [2022-02-19 05:10:20,178] multiqc [DEBUG ] No MultiQC config found: /home/gencore/.multiqc_config.yaml [2022-02-19 05:10:20,178] multiqc [DEBUG ] No MultiQC config found: multiqc_config.yaml [2022-02-19 05:10:20,179] multiqc [DEBUG ] Loading config settings from: /home/gencore/SCRIPTS/hpcpipe/mqc_config.yaml [2022-02-19 05:10:20,179] multiqc [DEBUG ] New config 'report_section_order': {'demux_report': {'after': 'run_stats'}} [2022-02-19 05:10:20,179] multiqc [DEBUG ] Command used: /share/apps/multiqc/1.9/bin/multiqc -f -c /home/gencore/SCRIPTS/hpcpipe/mqc_config.yaml /scratch/gencore/logs/html/HHJJYAFX3/merged [2022-02-19 05:10:20,888] multiqc [WARNING] MultiQC Version v1.12 now available! [2022-02-19 05:10:20,888] multiqc [INFO ] This is MultiQC v1.9 [2022-02-19 05:10:20,888] multiqc [DEBUG ] Command : /share/apps/multiqc/1.9/bin/multiqc -f -c /home/gencore/SCRIPTS/hpcpipe/mqc_config.yaml /scratch/gencore/logs/html/HHJJYAFX3/merged [2022-02-19 05:10:20,888] multiqc [DEBUG ] Working dir : /scratch/gencore/logs/html/HHJJYAFX3/merged [2022-02-19 05:10:20,888] multiqc [INFO ] Template : default [2022-02-19 05:10:20,889] multiqc [DEBUG ] Running Python 3.8.6 (default, Oct 11 2020, 20:34:31) [GCC Intel(R) C++ gcc 8.3.1 mode] [2022-02-19 05:10:20,889] multiqc [INFO ] Searching : /scratch/gencore/logs/html/HHJJYAFX3/merged [2022-02-19 05:10:20,889] 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 [2022-02-19 05:10:20,889] multiqc [DEBUG ] Using temporary directory for creating report: /state/partition1/job-15051314/tmpckqbvqly [2022-02-19 05:10:21,001] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: HHJJYAFX3_3_fastqc.html [2022-02-19 05:10:21,003] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: HHJJYAFX3_3_fastqc.html [2022-02-19 05:10:21,042] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: HHJJYAFX3_1_fastqc.html [2022-02-19 05:10:21,044] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: HHJJYAFX3_1_fastqc.html [2022-02-19 05:10:21,084] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: HHJJYAFX3_2_fastqc.html [2022-02-19 05:10:21,085] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: HHJJYAFX3_2_fastqc.html [2022-02-19 05:10:21,417] multiqc.plots.bargraph [DEBUG ] Using matplotlib version 3.3.2 [2022-02-19 05:10:21,418] multiqc.plots.linegraph [DEBUG ] Using matplotlib version 3.3.2 [2022-02-19 05:10:21,422] multiqc.modules.custom_content.custom_content [WARNING] Not able to parse custom data in undetermined_barcodes_mqc.txt [2022-02-19 05:10:21,424] multiqc.modules.custom_content.custom_content [INFO ] run_stats: Found 1 samples (table) [2022-02-19 05:10:21,431] multiqc [DEBUG ] No samples found: conpair [2022-02-19 05:10:21,436] multiqc [DEBUG ] No samples found: peddy [2022-02-19 05:10:21,443] multiqc [DEBUG ] No samples found: somalier [2022-02-19 05:10:21,447] multiqc [DEBUG ] No samples found: methylQA [2022-02-19 05:10:21,454] multiqc [DEBUG ] No samples found: mosdepth [2022-02-19 05:10:21,459] multiqc [DEBUG ] No samples found: phantompeakqualtools [2022-02-19 05:10:21,462] multiqc [DEBUG ] No samples found: qualimap [2022-02-19 05:10:21,466] multiqc [DEBUG ] No samples found: preseq [2022-02-19 05:10:21,470] multiqc [DEBUG ] No samples found: quast [2022-02-19 05:10:21,474] multiqc [DEBUG ] No samples found: qorts [2022-02-19 05:10:21,479] multiqc [DEBUG ] No samples found: rna_seqc [2022-02-19 05:10:21,483] multiqc [DEBUG ] No samples found: rockhopper [2022-02-19 05:10:21,487] multiqc [DEBUG ] No samples found: rsem [2022-02-19 05:10:21,497] multiqc [DEBUG ] No samples found: rseqc [2022-02-19 05:10:21,501] multiqc [DEBUG ] No samples found: busco [2022-02-19 05:10:21,505] multiqc [DEBUG ] No samples found: goleft_indexcov [2022-02-19 05:10:21,509] multiqc [DEBUG ] No samples found: disambiguate [2022-02-19 05:10:21,513] multiqc [DEBUG ] No samples found: supernova [2022-02-19 05:10:21,525] multiqc [DEBUG ] No samples found: deeptools [2022-02-19 05:10:21,529] multiqc [DEBUG ] No samples found: sargasso [2022-02-19 05:10:21,533] multiqc [DEBUG ] No samples found: verifybamid [2022-02-19 05:10:21,537] multiqc [DEBUG ] No samples found: mirtrace [2022-02-19 05:10:21,542] multiqc [DEBUG ] No samples found: happy [2022-02-19 05:10:21,546] multiqc [DEBUG ] No samples found: mirtop [2022-02-19 05:10:21,551] multiqc [DEBUG ] No samples found: homer [2022-02-19 05:10:21,555] multiqc [DEBUG ] No samples found: macs2 [2022-02-19 05:10:21,559] multiqc [DEBUG ] No samples found: theta2 [2022-02-19 05:10:21,564] multiqc [DEBUG ] No samples found: snpeff [2022-02-19 05:10:21,570] multiqc [DEBUG ] No samples found: gatk [2022-02-19 05:10:21,574] multiqc [DEBUG ] No samples found: htseq [2022-02-19 05:10:21,578] multiqc [DEBUG ] No samples found: bcftools [2022-02-19 05:10:21,582] multiqc [DEBUG ] No samples found: featureCounts [2022-02-19 05:10:21,588] multiqc [DEBUG ] No samples found: fgbio [2022-02-19 05:10:21,601] multiqc [DEBUG ] No samples found: dragen [2022-02-19 05:10:21,605] multiqc [DEBUG ] No samples found: dedup [2022-02-19 05:10:21,609] multiqc [DEBUG ] No samples found: damageprofiler [2022-02-19 05:10:21,629] multiqc [DEBUG ] No samples found: biobambam2 [2022-02-19 05:10:21,633] multiqc [DEBUG ] No samples found: mtnucratio [2022-02-19 05:10:21,636] multiqc [DEBUG ] No samples found: picard [2022-02-19 05:10:21,640] multiqc [DEBUG ] No samples found: prokka [2022-02-19 05:10:21,643] multiqc [DEBUG ] No samples found: samblaster [2022-02-19 05:10:21,652] multiqc [DEBUG ] No samples found: samtools [2022-02-19 05:10:21,656] multiqc [DEBUG ] No samples found: sexdeterrmine [2022-02-19 05:10:21,661] multiqc [DEBUG ] No samples found: bamtools [2022-02-19 05:10:21,665] multiqc [DEBUG ] No samples found: jellyfish [2022-02-19 05:10:21,672] multiqc [DEBUG ] No samples found: vcftools [2022-02-19 05:10:21,676] multiqc [DEBUG ] No samples found: longranger [2022-02-19 05:10:21,680] multiqc [DEBUG ] No samples found: stacks [2022-02-19 05:10:21,685] multiqc [DEBUG ] No samples found: varscan2 [2022-02-19 05:10:21,697] multiqc [DEBUG ] No samples found: bbmap [2022-02-19 05:10:21,701] multiqc [DEBUG ] No samples found: bismark [2022-02-19 05:10:21,705] multiqc [DEBUG ] No samples found: biscuit [2022-02-19 05:10:21,709] multiqc [DEBUG ] No samples found: hicexplorer [2022-02-19 05:10:21,714] multiqc [DEBUG ] No samples found: hicup [2022-02-19 05:10:21,718] multiqc [DEBUG ] No samples found: hicpro [2022-02-19 05:10:21,722] multiqc [DEBUG ] No samples found: salmon [2022-02-19 05:10:21,726] multiqc [DEBUG ] No samples found: kallisto [2022-02-19 05:10:21,730] multiqc [DEBUG ] No samples found: slamdunk [2022-02-19 05:10:21,734] multiqc [DEBUG ] No samples found: star [2022-02-19 05:10:21,738] multiqc [DEBUG ] No samples found: hisat2 [2022-02-19 05:10:21,742] multiqc [DEBUG ] No samples found: tophat [2022-02-19 05:10:21,746] multiqc [DEBUG ] No samples found: bowtie2 [2022-02-19 05:10:21,750] multiqc [DEBUG ] No samples found: bowtie1 [2022-02-19 05:10:21,754] multiqc [DEBUG ] No samples found: snpsplit [2022-02-19 05:10:21,758] multiqc [DEBUG ] No samples found: kat [2022-02-19 05:10:21,761] multiqc [DEBUG ] No samples found: leehom [2022-02-19 05:10:21,765] multiqc [DEBUG ] No samples found: adapterRemoval [2022-02-19 05:10:21,769] multiqc [DEBUG ] No samples found: clipandmerge [2022-02-19 05:10:21,773] multiqc [DEBUG ] No samples found: cutadapt [2022-02-19 05:10:21,777] multiqc [DEBUG ] No samples found: flexbar [2022-02-19 05:10:21,781] multiqc [DEBUG ] No samples found: kaiju [2022-02-19 05:10:21,785] multiqc [DEBUG ] No samples found: kraken [2022-02-19 05:10:21,789] multiqc [DEBUG ] No samples found: malt [2022-02-19 05:10:21,793] multiqc [DEBUG ] No samples found: trimmomatic [2022-02-19 05:10:21,797] multiqc [DEBUG ] No samples found: sickle [2022-02-19 05:10:21,801] multiqc [DEBUG ] No samples found: skewer [2022-02-19 05:10:21,804] multiqc [DEBUG ] No samples found: sortmerna [2022-02-19 05:10:21,808] multiqc [DEBUG ] No samples found: biobloomtools [2022-02-19 05:10:21,813] multiqc [DEBUG ] No samples found: fastq_screen [2022-02-19 05:10:21,816] multiqc [DEBUG ] No samples found: afterqc [2022-02-19 05:10:21,821] multiqc [DEBUG ] No samples found: fastp [2022-02-19 05:10:21,872] multiqc.modules.fastqc.fastqc [INFO ] Found 3 reports [2022-02-19 05:10:21,916] multiqc [DEBUG ] No samples found: pycoqc [2022-02-19 05:10:21,920] multiqc [DEBUG ] No samples found: minionqc [2022-02-19 05:10:21,924] multiqc [DEBUG ] No samples found: multivcfanalyzer [2022-02-19 05:10:21,928] multiqc [DEBUG ] No samples found: clusterflow [2022-02-19 05:10:21,931] multiqc [DEBUG ] No samples found: bcl2fastq [2022-02-19 05:10:21,936] multiqc [DEBUG ] No samples found: interop [2022-02-19 05:10:21,940] multiqc [DEBUG ] No samples found: ivar [2022-02-19 05:10:21,944] multiqc [DEBUG ] No samples found: flash [2022-02-19 05:10:21,948] multiqc [DEBUG ] No samples found: seqyclean [2022-02-19 05:10:21,948] multiqc [DEBUG ] Reordering sections: anchor 'demux_report' not found. [2022-02-19 05:10:21,948] multiqc [DEBUG ] Reordering sections: anchor 'demux_report' not found for module 'Run Statistics'. [2022-02-19 05:10:21,948] multiqc [DEBUG ] Reordering sections: anchor 'demux_report' not found for module 'FastQC'. [2022-02-19 05:10:21,952] multiqc [INFO ] Compressing plot data [2022-02-19 05:10:22,005] multiqc [INFO ] Report : multiqc_report.html [2022-02-19 05:10:22,005] multiqc [INFO ] Data : multiqc_data [2022-02-19 05:10:22,005] multiqc [DEBUG ] Moving data file from '/state/partition1/job-15051314/tmpckqbvqly/multiqc_data' to '/scratch/gencore/logs/html/HHJJYAFX3/merged/multiqc_data' [2022-02-19 05:10:22,132] multiqc [INFO ] MultiQC complete