[2021-03-25 04:50:19,173] multiqc [DEBUG ] No MultiQC config found: /share/apps/multiqc/1.9/lib/python3.8/site-packages/multiqc_config.yaml [2021-03-25 04:50:19,173] multiqc [DEBUG ] No MultiQC config found: /home/gencore/.multiqc_config.yaml [2021-03-25 04:50:19,173] multiqc [DEBUG ] No MultiQC config found: multiqc_config.yaml [2021-03-25 04:50:19,174] multiqc [DEBUG ] Loading config settings from: /home/gencore/SCRIPTS/hpcpipe/mqc_config.yaml [2021-03-25 04:50:19,174] multiqc [DEBUG ] New config 'report_section_order': {'demux_report': {'after': 'run_stats'}} [2021-03-25 04:50:19,174] multiqc [DEBUG ] Command used: /share/apps/multiqc/1.9/bin/multiqc -f -c /home/gencore/SCRIPTS/hpcpipe/mqc_config.yaml /scratch/gencore/logs/html/H3LNLDRXY/merged [2021-03-25 04:50:20,539] multiqc [WARNING] MultiQC Version v1.10 now available! [2021-03-25 04:50:20,539] multiqc [INFO ] This is MultiQC v1.9 [2021-03-25 04:50:20,539] multiqc [DEBUG ] Command : /share/apps/multiqc/1.9/bin/multiqc -f -c /home/gencore/SCRIPTS/hpcpipe/mqc_config.yaml /scratch/gencore/logs/html/H3LNLDRXY/merged [2021-03-25 04:50:20,539] multiqc [DEBUG ] Working dir : /scratch/gencore/logs/html/H3LNLDRXY/merged [2021-03-25 04:50:20,539] multiqc [INFO ] Template : default [2021-03-25 04:50:20,539] multiqc [DEBUG ] Running Python 3.8.6 (default, Oct 11 2020, 20:34:31) [GCC Intel(R) C++ gcc 8.3.1 mode] [2021-03-25 04:50:20,539] multiqc [INFO ] Searching : /scratch/gencore/logs/html/H3LNLDRXY/merged [2021-03-25 04:50:20,539] 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 [2021-03-25 04:50:20,539] multiqc [DEBUG ] Using temporary directory for creating report: /state/partition1/job-4198783/tmp5d28dxzm [2021-03-25 04:50:20,664] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: H3LNLDRXY_2_fastqc.html [2021-03-25 04:50:20,666] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: H3LNLDRXY_2_fastqc.html [2021-03-25 04:50:20,712] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: H3LNLDRXY_1_fastqc.html [2021-03-25 04:50:20,714] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: H3LNLDRXY_1_fastqc.html [2021-03-25 04:50:20,752] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: H3LNLDRXY_3_fastqc.html [2021-03-25 04:50:20,754] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: H3LNLDRXY_3_fastqc.html [2021-03-25 04:50:21,203] multiqc.plots.bargraph [DEBUG ] Using matplotlib version 3.3.2 [2021-03-25 04:50:21,204] multiqc.plots.linegraph [DEBUG ] Using matplotlib version 3.3.2 [2021-03-25 04:50:21,207] multiqc.modules.custom_content.custom_content [WARNING] Not able to parse custom data in undetermined_barcodes_mqc.txt [2021-03-25 04:50:21,209] multiqc.modules.custom_content.custom_content [INFO ] run_stats: Found 1 samples (table) [2021-03-25 04:50:21,213] multiqc [DEBUG ] No samples found: conpair [2021-03-25 04:50:21,218] multiqc [DEBUG ] No samples found: peddy [2021-03-25 04:50:21,222] multiqc [DEBUG ] No samples found: somalier [2021-03-25 04:50:21,227] multiqc [DEBUG ] No samples found: methylQA [2021-03-25 04:50:21,234] multiqc [DEBUG ] No samples found: mosdepth [2021-03-25 04:50:21,238] multiqc [DEBUG ] No samples found: phantompeakqualtools [2021-03-25 04:50:21,241] multiqc [DEBUG ] No samples found: qualimap [2021-03-25 04:50:21,246] multiqc [DEBUG ] No samples found: preseq [2021-03-25 04:50:21,250] multiqc [DEBUG ] No samples found: quast [2021-03-25 04:50:21,254] multiqc [DEBUG ] No samples found: qorts [2021-03-25 04:50:21,259] multiqc [DEBUG ] No samples found: rna_seqc [2021-03-25 04:50:21,263] multiqc [DEBUG ] No samples found: rockhopper [2021-03-25 04:50:21,267] multiqc [DEBUG ] No samples found: rsem [2021-03-25 04:50:21,276] multiqc [DEBUG ] No samples found: rseqc [2021-03-25 04:50:21,279] multiqc [DEBUG ] No samples found: busco [2021-03-25 04:50:21,284] multiqc [DEBUG ] No samples found: goleft_indexcov [2021-03-25 04:50:21,288] multiqc [DEBUG ] No samples found: disambiguate [2021-03-25 04:50:21,292] multiqc [DEBUG ] No samples found: supernova [2021-03-25 04:50:21,303] multiqc [DEBUG ] No samples found: deeptools [2021-03-25 04:50:21,307] multiqc [DEBUG ] No samples found: sargasso [2021-03-25 04:50:21,311] multiqc [DEBUG ] No samples found: verifybamid [2021-03-25 04:50:21,315] multiqc [DEBUG ] No samples found: mirtrace [2021-03-25 04:50:21,319] multiqc [DEBUG ] No samples found: happy [2021-03-25 04:50:21,324] multiqc [DEBUG ] No samples found: mirtop [2021-03-25 04:50:21,329] multiqc [DEBUG ] No samples found: homer [2021-03-25 04:50:21,333] multiqc [DEBUG ] No samples found: macs2 [2021-03-25 04:50:21,337] multiqc [DEBUG ] No samples found: theta2 [2021-03-25 04:50:21,341] multiqc [DEBUG ] No samples found: snpeff [2021-03-25 04:50:21,347] multiqc [DEBUG ] No samples found: gatk [2021-03-25 04:50:21,351] multiqc [DEBUG ] No samples found: htseq [2021-03-25 04:50:21,356] multiqc [DEBUG ] No samples found: bcftools [2021-03-25 04:50:21,360] multiqc [DEBUG ] No samples found: featureCounts [2021-03-25 04:50:21,366] multiqc [DEBUG ] No samples found: fgbio [2021-03-25 04:50:21,378] multiqc [DEBUG ] No samples found: dragen [2021-03-25 04:50:21,383] multiqc [DEBUG ] No samples found: dedup [2021-03-25 04:50:21,387] multiqc [DEBUG ] No samples found: damageprofiler [2021-03-25 04:50:21,406] multiqc [DEBUG ] No samples found: biobambam2 [2021-03-25 04:50:21,410] multiqc [DEBUG ] No samples found: mtnucratio [2021-03-25 04:50:21,412] multiqc [DEBUG ] No samples found: picard [2021-03-25 04:50:21,416] multiqc [DEBUG ] No samples found: prokka [2021-03-25 04:50:21,420] multiqc [DEBUG ] No samples found: samblaster [2021-03-25 04:50:21,427] multiqc [DEBUG ] No samples found: samtools [2021-03-25 04:50:21,432] multiqc [DEBUG ] No samples found: sexdeterrmine [2021-03-25 04:50:21,436] multiqc [DEBUG ] No samples found: bamtools [2021-03-25 04:50:21,440] multiqc [DEBUG ] No samples found: jellyfish [2021-03-25 04:50:21,446] multiqc [DEBUG ] No samples found: vcftools [2021-03-25 04:50:21,450] multiqc [DEBUG ] No samples found: longranger [2021-03-25 04:50:21,454] multiqc [DEBUG ] No samples found: stacks [2021-03-25 04:50:21,458] multiqc [DEBUG ] No samples found: varscan2 [2021-03-25 04:50:21,470] multiqc [DEBUG ] No samples found: bbmap [2021-03-25 04:50:21,474] multiqc [DEBUG ] No samples found: bismark [2021-03-25 04:50:21,479] multiqc [DEBUG ] No samples found: biscuit [2021-03-25 04:50:21,483] multiqc [DEBUG ] No samples found: hicexplorer [2021-03-25 04:50:21,487] multiqc [DEBUG ] No samples found: hicup [2021-03-25 04:50:21,491] multiqc [DEBUG ] No samples found: hicpro [2021-03-25 04:50:21,495] multiqc [DEBUG ] No samples found: salmon [2021-03-25 04:50:21,499] multiqc [DEBUG ] No samples found: kallisto [2021-03-25 04:50:21,504] multiqc [DEBUG ] No samples found: slamdunk [2021-03-25 04:50:21,508] multiqc [DEBUG ] No samples found: star [2021-03-25 04:50:21,512] multiqc [DEBUG ] No samples found: hisat2 [2021-03-25 04:50:21,516] multiqc [DEBUG ] No samples found: tophat [2021-03-25 04:50:21,520] multiqc [DEBUG ] No samples found: bowtie2 [2021-03-25 04:50:21,524] multiqc [DEBUG ] No samples found: bowtie1 [2021-03-25 04:50:21,529] multiqc [DEBUG ] No samples found: snpsplit [2021-03-25 04:50:21,532] multiqc [DEBUG ] No samples found: kat [2021-03-25 04:50:21,536] multiqc [DEBUG ] No samples found: leehom [2021-03-25 04:50:21,540] multiqc [DEBUG ] No samples found: adapterRemoval [2021-03-25 04:50:21,544] multiqc [DEBUG ] No samples found: clipandmerge [2021-03-25 04:50:21,548] multiqc [DEBUG ] No samples found: cutadapt [2021-03-25 04:50:21,552] multiqc [DEBUG ] No samples found: flexbar [2021-03-25 04:50:21,556] multiqc [DEBUG ] No samples found: kaiju [2021-03-25 04:50:21,561] multiqc [DEBUG ] No samples found: kraken [2021-03-25 04:50:21,565] multiqc [DEBUG ] No samples found: malt [2021-03-25 04:50:21,569] multiqc [DEBUG ] No samples found: trimmomatic [2021-03-25 04:50:21,573] multiqc [DEBUG ] No samples found: sickle [2021-03-25 04:50:21,577] multiqc [DEBUG ] No samples found: skewer [2021-03-25 04:50:21,581] multiqc [DEBUG ] No samples found: sortmerna [2021-03-25 04:50:21,584] multiqc [DEBUG ] No samples found: biobloomtools [2021-03-25 04:50:21,589] multiqc [DEBUG ] No samples found: fastq_screen [2021-03-25 04:50:21,593] multiqc [DEBUG ] No samples found: afterqc [2021-03-25 04:50:21,597] multiqc [DEBUG ] No samples found: fastp [2021-03-25 04:50:21,728] multiqc.modules.fastqc.fastqc [INFO ] Found 3 reports [2021-03-25 04:50:21,773] multiqc [DEBUG ] No samples found: pycoqc [2021-03-25 04:50:21,778] multiqc [DEBUG ] No samples found: minionqc [2021-03-25 04:50:21,782] multiqc [DEBUG ] No samples found: multivcfanalyzer [2021-03-25 04:50:21,786] multiqc [DEBUG ] No samples found: clusterflow [2021-03-25 04:50:21,791] multiqc [DEBUG ] No samples found: bcl2fastq [2021-03-25 04:50:21,795] multiqc [DEBUG ] No samples found: interop [2021-03-25 04:50:21,799] multiqc [DEBUG ] No samples found: ivar [2021-03-25 04:50:21,803] multiqc [DEBUG ] No samples found: flash [2021-03-25 04:50:21,807] multiqc [DEBUG ] No samples found: seqyclean [2021-03-25 04:50:21,807] multiqc [DEBUG ] Reordering sections: anchor 'demux_report' not found. [2021-03-25 04:50:21,807] multiqc [DEBUG ] Reordering sections: anchor 'demux_report' not found for module 'Run Statistics'. [2021-03-25 04:50:21,807] multiqc [DEBUG ] Reordering sections: anchor 'demux_report' not found for module 'FastQC'. [2021-03-25 04:50:21,812] multiqc [INFO ] Compressing plot data [2021-03-25 04:50:21,863] multiqc [INFO ] Report : multiqc_report.html [2021-03-25 04:50:21,863] multiqc [INFO ] Data : multiqc_data [2021-03-25 04:50:21,863] multiqc [DEBUG ] Moving data file from '/state/partition1/job-4198783/tmp5d28dxzm/multiqc_data' to '/scratch/gencore/logs/html/H3LNLDRXY/merged/multiqc_data' [2021-03-25 04:50:21,983] multiqc [INFO ] MultiQC complete