[2021-07-16 06:12:25,642] multiqc [DEBUG ] No MultiQC config found: /share/apps/multiqc/1.9/lib/python3.8/site-packages/multiqc_config.yaml [2021-07-16 06:12:25,642] multiqc [DEBUG ] No MultiQC config found: /home/gencore/.multiqc_config.yaml [2021-07-16 06:12:25,642] multiqc [DEBUG ] No MultiQC config found: multiqc_config.yaml [2021-07-16 06:12:25,643] multiqc [DEBUG ] Loading config settings from: /home/gencore/SCRIPTS/hpcpipe/mqc_config.yaml [2021-07-16 06:12:25,643] multiqc [DEBUG ] New config 'report_section_order': {'demux_report': {'after': 'run_stats'}} [2021-07-16 06:12:25,643] multiqc [DEBUG ] Command used: /share/apps/multiqc/1.9/bin/multiqc -f -c /home/gencore/SCRIPTS/hpcpipe/mqc_config.yaml /scratch/gencore/logs/html/H2HN2AFX3/merged [2021-07-16 06:12:27,032] multiqc [WARNING] MultiQC Version v1.11 now available! [2021-07-16 06:12:27,032] multiqc [INFO ] This is MultiQC v1.9 [2021-07-16 06:12:27,032] multiqc [DEBUG ] Command : /share/apps/multiqc/1.9/bin/multiqc -f -c /home/gencore/SCRIPTS/hpcpipe/mqc_config.yaml /scratch/gencore/logs/html/H2HN2AFX3/merged [2021-07-16 06:12:27,032] multiqc [DEBUG ] Working dir : /scratch/gencore/logs/html/H2HN2AFX3/merged [2021-07-16 06:12:27,032] multiqc [INFO ] Template : default [2021-07-16 06:12:27,032] multiqc [DEBUG ] Running Python 3.8.6 (default, Oct 11 2020, 20:34:31) [GCC Intel(R) C++ gcc 8.3.1 mode] [2021-07-16 06:12:27,032] multiqc [INFO ] Searching : /scratch/gencore/logs/html/H2HN2AFX3/merged [2021-07-16 06:12:27,033] 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 [2021-07-16 06:12:27,033] multiqc [DEBUG ] Using temporary directory for creating report: /state/partition1/job-8708682/tmpj5f4gjc4 [2021-07-16 06:12:27,145] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: H2HN2AFX3_1_fastqc.html [2021-07-16 06:12:27,147] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: H2HN2AFX3_1_fastqc.html [2021-07-16 06:12:27,191] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: H2HN2AFX3_4_fastqc.html [2021-07-16 06:12:27,193] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: H2HN2AFX3_4_fastqc.html [2021-07-16 06:12:27,237] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: H2HN2AFX3_3_fastqc.html [2021-07-16 06:12:27,239] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: H2HN2AFX3_3_fastqc.html [2021-07-16 06:12:27,281] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: H2HN2AFX3_2_fastqc.html [2021-07-16 06:12:27,282] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: H2HN2AFX3_2_fastqc.html [2021-07-16 06:12:27,766] multiqc.plots.bargraph [DEBUG ] Using matplotlib version 3.3.2 [2021-07-16 06:12:27,767] multiqc.plots.linegraph [DEBUG ] Using matplotlib version 3.3.2 [2021-07-16 06:12:27,770] multiqc.modules.custom_content.custom_content [WARNING] Not able to parse custom data in undetermined_barcodes_mqc.txt [2021-07-16 06:12:27,773] multiqc.modules.custom_content.custom_content [INFO ] run_stats: Found 1 samples (table) [2021-07-16 06:12:27,776] multiqc [DEBUG ] No samples found: conpair [2021-07-16 06:12:27,780] multiqc [DEBUG ] No samples found: peddy [2021-07-16 06:12:27,785] multiqc [DEBUG ] No samples found: somalier [2021-07-16 06:12:27,789] multiqc [DEBUG ] No samples found: methylQA [2021-07-16 06:12:27,795] multiqc [DEBUG ] No samples found: mosdepth [2021-07-16 06:12:27,799] multiqc [DEBUG ] No samples found: phantompeakqualtools [2021-07-16 06:12:27,802] multiqc [DEBUG ] No samples found: qualimap [2021-07-16 06:12:27,806] multiqc [DEBUG ] No samples found: preseq [2021-07-16 06:12:27,810] multiqc [DEBUG ] No samples found: quast [2021-07-16 06:12:27,814] multiqc [DEBUG ] No samples found: qorts [2021-07-16 06:12:27,819] multiqc [DEBUG ] No samples found: rna_seqc [2021-07-16 06:12:27,824] multiqc [DEBUG ] No samples found: rockhopper [2021-07-16 06:12:27,828] multiqc [DEBUG ] No samples found: rsem [2021-07-16 06:12:27,836] multiqc [DEBUG ] No samples found: rseqc [2021-07-16 06:12:27,840] multiqc [DEBUG ] No samples found: busco [2021-07-16 06:12:27,844] multiqc [DEBUG ] No samples found: goleft_indexcov [2021-07-16 06:12:27,848] multiqc [DEBUG ] No samples found: disambiguate [2021-07-16 06:12:27,853] multiqc [DEBUG ] No samples found: supernova [2021-07-16 06:12:27,863] multiqc [DEBUG ] No samples found: deeptools [2021-07-16 06:12:27,867] multiqc [DEBUG ] No samples found: sargasso [2021-07-16 06:12:27,872] multiqc [DEBUG ] No samples found: verifybamid [2021-07-16 06:12:27,876] multiqc [DEBUG ] No samples found: mirtrace [2021-07-16 06:12:27,880] multiqc [DEBUG ] No samples found: happy [2021-07-16 06:12:27,884] multiqc [DEBUG ] No samples found: mirtop [2021-07-16 06:12:27,889] multiqc [DEBUG ] No samples found: homer [2021-07-16 06:12:27,893] multiqc [DEBUG ] No samples found: macs2 [2021-07-16 06:12:27,897] multiqc [DEBUG ] No samples found: theta2 [2021-07-16 06:12:27,901] multiqc [DEBUG ] No samples found: snpeff [2021-07-16 06:12:27,906] multiqc [DEBUG ] No samples found: gatk [2021-07-16 06:12:27,910] multiqc [DEBUG ] No samples found: htseq [2021-07-16 06:12:27,914] multiqc [DEBUG ] No samples found: bcftools [2021-07-16 06:12:27,918] multiqc [DEBUG ] No samples found: featureCounts [2021-07-16 06:12:27,923] multiqc [DEBUG ] No samples found: fgbio [2021-07-16 06:12:27,934] multiqc [DEBUG ] No samples found: dragen [2021-07-16 06:12:27,938] multiqc [DEBUG ] No samples found: dedup [2021-07-16 06:12:27,942] multiqc [DEBUG ] No samples found: damageprofiler [2021-07-16 06:12:27,960] multiqc [DEBUG ] No samples found: biobambam2 [2021-07-16 06:12:27,964] multiqc [DEBUG ] No samples found: mtnucratio [2021-07-16 06:12:27,966] multiqc [DEBUG ] No samples found: picard [2021-07-16 06:12:27,970] multiqc [DEBUG ] No samples found: prokka [2021-07-16 06:12:27,974] multiqc [DEBUG ] No samples found: samblaster [2021-07-16 06:12:27,981] multiqc [DEBUG ] No samples found: samtools [2021-07-16 06:12:27,985] multiqc [DEBUG ] No samples found: sexdeterrmine [2021-07-16 06:12:27,989] multiqc [DEBUG ] No samples found: bamtools [2021-07-16 06:12:27,992] multiqc [DEBUG ] No samples found: jellyfish [2021-07-16 06:12:27,998] multiqc [DEBUG ] No samples found: vcftools [2021-07-16 06:12:28,002] multiqc [DEBUG ] No samples found: longranger [2021-07-16 06:12:28,006] multiqc [DEBUG ] No samples found: stacks [2021-07-16 06:12:28,010] multiqc [DEBUG ] No samples found: varscan2 [2021-07-16 06:12:28,021] multiqc [DEBUG ] No samples found: bbmap [2021-07-16 06:12:28,025] multiqc [DEBUG ] No samples found: bismark [2021-07-16 06:12:28,030] multiqc [DEBUG ] No samples found: biscuit [2021-07-16 06:12:28,034] multiqc [DEBUG ] No samples found: hicexplorer [2021-07-16 06:12:28,038] multiqc [DEBUG ] No samples found: hicup [2021-07-16 06:12:28,042] multiqc [DEBUG ] No samples found: hicpro [2021-07-16 06:12:28,046] multiqc [DEBUG ] No samples found: salmon [2021-07-16 06:12:28,050] multiqc [DEBUG ] No samples found: kallisto [2021-07-16 06:12:28,054] multiqc [DEBUG ] No samples found: slamdunk [2021-07-16 06:12:28,058] multiqc [DEBUG ] No samples found: star [2021-07-16 06:12:28,062] multiqc [DEBUG ] No samples found: hisat2 [2021-07-16 06:12:28,066] multiqc [DEBUG ] No samples found: tophat [2021-07-16 06:12:28,070] multiqc [DEBUG ] No samples found: bowtie2 [2021-07-16 06:12:28,074] multiqc [DEBUG ] No samples found: bowtie1 [2021-07-16 06:12:28,078] multiqc [DEBUG ] No samples found: snpsplit [2021-07-16 06:12:28,081] multiqc [DEBUG ] No samples found: kat [2021-07-16 06:12:28,085] multiqc [DEBUG ] No samples found: leehom [2021-07-16 06:12:28,089] multiqc [DEBUG ] No samples found: adapterRemoval [2021-07-16 06:12:28,092] multiqc [DEBUG ] No samples found: clipandmerge [2021-07-16 06:12:28,096] multiqc [DEBUG ] No samples found: cutadapt [2021-07-16 06:12:28,099] multiqc [DEBUG ] No samples found: flexbar [2021-07-16 06:12:28,104] multiqc [DEBUG ] No samples found: kaiju [2021-07-16 06:12:28,108] multiqc [DEBUG ] No samples found: kraken [2021-07-16 06:12:28,112] multiqc [DEBUG ] No samples found: malt [2021-07-16 06:12:28,115] multiqc [DEBUG ] No samples found: trimmomatic [2021-07-16 06:12:28,119] multiqc [DEBUG ] No samples found: sickle [2021-07-16 06:12:28,123] multiqc [DEBUG ] No samples found: skewer [2021-07-16 06:12:28,127] multiqc [DEBUG ] No samples found: sortmerna [2021-07-16 06:12:28,130] multiqc [DEBUG ] No samples found: biobloomtools [2021-07-16 06:12:28,134] multiqc [DEBUG ] No samples found: fastq_screen [2021-07-16 06:12:28,138] multiqc [DEBUG ] No samples found: afterqc [2021-07-16 06:12:28,142] multiqc [DEBUG ] No samples found: fastp [2021-07-16 06:12:28,199] multiqc.modules.fastqc.fastqc [INFO ] Found 4 reports [2021-07-16 06:12:28,242] multiqc [DEBUG ] No samples found: pycoqc [2021-07-16 06:12:28,247] multiqc [DEBUG ] No samples found: minionqc [2021-07-16 06:12:28,252] multiqc [DEBUG ] No samples found: multivcfanalyzer [2021-07-16 06:12:28,256] multiqc [DEBUG ] No samples found: clusterflow [2021-07-16 06:12:28,261] multiqc [DEBUG ] No samples found: bcl2fastq [2021-07-16 06:12:28,266] multiqc [DEBUG ] No samples found: interop [2021-07-16 06:12:28,270] multiqc [DEBUG ] No samples found: ivar [2021-07-16 06:12:28,274] multiqc [DEBUG ] No samples found: flash [2021-07-16 06:12:28,278] multiqc [DEBUG ] No samples found: seqyclean [2021-07-16 06:12:28,278] multiqc [DEBUG ] Reordering sections: anchor 'demux_report' not found. [2021-07-16 06:12:28,278] multiqc [DEBUG ] Reordering sections: anchor 'demux_report' not found for module 'Run Statistics'. [2021-07-16 06:12:28,278] multiqc [DEBUG ] Reordering sections: anchor 'demux_report' not found for module 'FastQC'. [2021-07-16 06:12:28,284] multiqc [INFO ] Compressing plot data [2021-07-16 06:12:28,351] multiqc [INFO ] Report : multiqc_report.html [2021-07-16 06:12:28,351] multiqc [INFO ] Data : multiqc_data [2021-07-16 06:12:28,351] multiqc [DEBUG ] Moving data file from '/state/partition1/job-8708682/tmpj5f4gjc4/multiqc_data' to '/scratch/gencore/logs/html/H2HN2AFX3/merged/multiqc_data' [2021-07-16 06:12:28,471] multiqc [INFO ] MultiQC complete