[2022-07-28 19:59:06,916] multiqc [DEBUG ] No MultiQC config found: /share/apps/multiqc/1.9/lib/python3.8/site-packages/multiqc_config.yaml [2022-07-28 19:59:06,916] multiqc [DEBUG ] No MultiQC config found: /home/gencore/.multiqc_config.yaml [2022-07-28 19:59:06,916] multiqc [DEBUG ] No MultiQC config found: multiqc_config.yaml [2022-07-28 19:59:06,917] multiqc [DEBUG ] Loading config settings from: /home/gencore/SCRIPTS/hpcpipe/mqc_config.yaml [2022-07-28 19:59:06,917] multiqc [DEBUG ] New config 'report_section_order': {'demux_report': {'after': 'run_stats'}} [2022-07-28 19:59:06,917] multiqc [DEBUG ] Command used: /share/apps/multiqc/1.9/bin/multiqc -f -c /home/gencore/SCRIPTS/hpcpipe/mqc_config.yaml /scratch/gencore/logs/html/HF5FTDRX2/merged [2022-07-28 19:59:07,695] multiqc [WARNING] MultiQC Version v1.12 now available! [2022-07-28 19:59:07,695] multiqc [INFO ] This is MultiQC v1.9 [2022-07-28 19:59:07,695] multiqc [DEBUG ] Command : /share/apps/multiqc/1.9/bin/multiqc -f -c /home/gencore/SCRIPTS/hpcpipe/mqc_config.yaml /scratch/gencore/logs/html/HF5FTDRX2/merged [2022-07-28 19:59:07,695] multiqc [DEBUG ] Working dir : /scratch/gencore/logs/html/HF5FTDRX2/merged [2022-07-28 19:59:07,695] multiqc [INFO ] Template : default [2022-07-28 19:59:07,695] multiqc [DEBUG ] Running Python 3.8.6 (default, Oct 11 2020, 20:34:31) [GCC Intel(R) C++ gcc 8.3.1 mode] [2022-07-28 19:59:07,695] multiqc [INFO ] Searching : /scratch/gencore/logs/html/HF5FTDRX2/merged [2022-07-28 19:59:07,695] 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 [2022-07-28 19:59:07,696] multiqc [DEBUG ] Using temporary directory for creating report: /state/partition1/job-22910833/tmpvjyo2o57 [2022-07-28 19:59:07,798] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: HF5FTDRX2_4_fastqc.html [2022-07-28 19:59:07,800] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: HF5FTDRX2_4_fastqc.html [2022-07-28 19:59:07,841] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: HF5FTDRX2_2_fastqc.html [2022-07-28 19:59:07,843] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: HF5FTDRX2_2_fastqc.html [2022-07-28 19:59:07,888] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: HF5FTDRX2_1_fastqc.html [2022-07-28 19:59:07,889] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: HF5FTDRX2_1_fastqc.html [2022-07-28 19:59:07,928] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: HF5FTDRX2_3_fastqc.html [2022-07-28 19:59:07,930] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: HF5FTDRX2_3_fastqc.html [2022-07-28 19:59:08,244] multiqc.plots.bargraph [DEBUG ] Using matplotlib version 3.3.2 [2022-07-28 19:59:08,245] multiqc.plots.linegraph [DEBUG ] Using matplotlib version 3.3.2 [2022-07-28 19:59:08,248] multiqc.modules.custom_content.custom_content [WARNING] Not able to parse custom data in undetermined_barcodes_mqc.txt [2022-07-28 19:59:08,250] multiqc.modules.custom_content.custom_content [INFO ] run_stats: Found 1 samples (table) [2022-07-28 19:59:08,253] multiqc [DEBUG ] No samples found: conpair [2022-07-28 19:59:08,256] multiqc [DEBUG ] No samples found: peddy [2022-07-28 19:59:08,259] multiqc [DEBUG ] No samples found: somalier [2022-07-28 19:59:08,262] multiqc [DEBUG ] No samples found: methylQA [2022-07-28 19:59:08,266] multiqc [DEBUG ] No samples found: mosdepth [2022-07-28 19:59:08,269] multiqc [DEBUG ] No samples found: phantompeakqualtools [2022-07-28 19:59:08,272] multiqc [DEBUG ] No samples found: qualimap [2022-07-28 19:59:08,275] multiqc [DEBUG ] No samples found: preseq [2022-07-28 19:59:08,278] multiqc [DEBUG ] No samples found: quast [2022-07-28 19:59:08,281] multiqc [DEBUG ] No samples found: qorts [2022-07-28 19:59:08,284] multiqc [DEBUG ] No samples found: rna_seqc [2022-07-28 19:59:08,287] multiqc [DEBUG ] No samples found: rockhopper [2022-07-28 19:59:08,290] multiqc [DEBUG ] No samples found: rsem [2022-07-28 19:59:08,296] multiqc [DEBUG ] No samples found: rseqc [2022-07-28 19:59:08,299] multiqc [DEBUG ] No samples found: busco [2022-07-28 19:59:08,302] multiqc [DEBUG ] No samples found: goleft_indexcov [2022-07-28 19:59:08,305] multiqc [DEBUG ] No samples found: disambiguate [2022-07-28 19:59:08,308] multiqc [DEBUG ] No samples found: supernova [2022-07-28 19:59:08,313] multiqc [DEBUG ] No samples found: deeptools [2022-07-28 19:59:08,316] multiqc [DEBUG ] No samples found: sargasso [2022-07-28 19:59:08,319] multiqc [DEBUG ] No samples found: verifybamid [2022-07-28 19:59:08,322] multiqc [DEBUG ] No samples found: mirtrace [2022-07-28 19:59:08,325] multiqc [DEBUG ] No samples found: happy [2022-07-28 19:59:08,328] multiqc [DEBUG ] No samples found: mirtop [2022-07-28 19:59:08,332] multiqc [DEBUG ] No samples found: homer [2022-07-28 19:59:08,335] multiqc [DEBUG ] No samples found: macs2 [2022-07-28 19:59:08,338] multiqc [DEBUG ] No samples found: theta2 [2022-07-28 19:59:08,341] multiqc [DEBUG ] No samples found: snpeff [2022-07-28 19:59:08,345] multiqc [DEBUG ] No samples found: gatk [2022-07-28 19:59:08,347] multiqc [DEBUG ] No samples found: htseq [2022-07-28 19:59:08,351] multiqc [DEBUG ] No samples found: bcftools [2022-07-28 19:59:08,354] multiqc [DEBUG ] No samples found: featureCounts [2022-07-28 19:59:08,357] multiqc [DEBUG ] No samples found: fgbio [2022-07-28 19:59:08,363] multiqc [DEBUG ] No samples found: dragen [2022-07-28 19:59:08,366] multiqc [DEBUG ] No samples found: dedup [2022-07-28 19:59:08,369] multiqc [DEBUG ] No samples found: damageprofiler [2022-07-28 19:59:08,378] multiqc [DEBUG ] No samples found: biobambam2 [2022-07-28 19:59:08,381] multiqc [DEBUG ] No samples found: mtnucratio [2022-07-28 19:59:08,383] multiqc [DEBUG ] No samples found: picard [2022-07-28 19:59:08,386] multiqc [DEBUG ] No samples found: prokka [2022-07-28 19:59:08,389] multiqc [DEBUG ] No samples found: samblaster [2022-07-28 19:59:08,393] multiqc [DEBUG ] No samples found: samtools [2022-07-28 19:59:08,396] multiqc [DEBUG ] No samples found: sexdeterrmine [2022-07-28 19:59:08,400] multiqc [DEBUG ] No samples found: bamtools [2022-07-28 19:59:08,403] multiqc [DEBUG ] No samples found: jellyfish [2022-07-28 19:59:08,407] multiqc [DEBUG ] No samples found: vcftools [2022-07-28 19:59:08,410] multiqc [DEBUG ] No samples found: longranger [2022-07-28 19:59:08,413] multiqc [DEBUG ] No samples found: stacks [2022-07-28 19:59:08,416] multiqc [DEBUG ] No samples found: varscan2 [2022-07-28 19:59:08,422] multiqc [DEBUG ] No samples found: bbmap [2022-07-28 19:59:08,425] multiqc [DEBUG ] No samples found: bismark [2022-07-28 19:59:08,428] multiqc [DEBUG ] No samples found: biscuit [2022-07-28 19:59:08,431] multiqc [DEBUG ] No samples found: hicexplorer [2022-07-28 19:59:08,434] multiqc [DEBUG ] No samples found: hicup [2022-07-28 19:59:08,437] multiqc [DEBUG ] No samples found: hicpro [2022-07-28 19:59:08,440] multiqc [DEBUG ] No samples found: salmon [2022-07-28 19:59:08,443] multiqc [DEBUG ] No samples found: kallisto [2022-07-28 19:59:08,446] multiqc [DEBUG ] No samples found: slamdunk [2022-07-28 19:59:08,449] multiqc [DEBUG ] No samples found: star [2022-07-28 19:59:08,452] multiqc [DEBUG ] No samples found: hisat2 [2022-07-28 19:59:08,455] multiqc [DEBUG ] No samples found: tophat [2022-07-28 19:59:08,458] multiqc [DEBUG ] No samples found: bowtie2 [2022-07-28 19:59:08,461] multiqc [DEBUG ] No samples found: bowtie1 [2022-07-28 19:59:08,464] multiqc [DEBUG ] No samples found: snpsplit [2022-07-28 19:59:08,467] multiqc [DEBUG ] No samples found: kat [2022-07-28 19:59:08,470] multiqc [DEBUG ] No samples found: leehom [2022-07-28 19:59:08,473] multiqc [DEBUG ] No samples found: adapterRemoval [2022-07-28 19:59:08,476] multiqc [DEBUG ] No samples found: clipandmerge [2022-07-28 19:59:08,479] multiqc [DEBUG ] No samples found: cutadapt [2022-07-28 19:59:08,482] multiqc [DEBUG ] No samples found: flexbar [2022-07-28 19:59:08,485] multiqc [DEBUG ] No samples found: kaiju [2022-07-28 19:59:08,488] multiqc [DEBUG ] No samples found: kraken [2022-07-28 19:59:08,491] multiqc [DEBUG ] No samples found: malt [2022-07-28 19:59:08,494] multiqc [DEBUG ] No samples found: trimmomatic [2022-07-28 19:59:08,497] multiqc [DEBUG ] No samples found: sickle [2022-07-28 19:59:08,500] multiqc [DEBUG ] No samples found: skewer [2022-07-28 19:59:08,503] multiqc [DEBUG ] No samples found: sortmerna [2022-07-28 19:59:08,505] multiqc [DEBUG ] No samples found: biobloomtools [2022-07-28 19:59:08,508] multiqc [DEBUG ] No samples found: fastq_screen [2022-07-28 19:59:08,511] multiqc [DEBUG ] No samples found: afterqc [2022-07-28 19:59:08,514] multiqc [DEBUG ] No samples found: fastp [2022-07-28 19:59:08,624] multiqc.modules.fastqc.fastqc [INFO ] Found 4 reports [2022-07-28 19:59:08,664] multiqc [DEBUG ] No samples found: pycoqc [2022-07-28 19:59:08,667] multiqc [DEBUG ] No samples found: minionqc [2022-07-28 19:59:08,670] multiqc [DEBUG ] No samples found: multivcfanalyzer [2022-07-28 19:59:08,673] multiqc [DEBUG ] No samples found: clusterflow [2022-07-28 19:59:08,676] multiqc [DEBUG ] No samples found: bcl2fastq [2022-07-28 19:59:08,678] multiqc [DEBUG ] No samples found: interop [2022-07-28 19:59:08,682] multiqc [DEBUG ] No samples found: ivar [2022-07-28 19:59:08,684] multiqc [DEBUG ] No samples found: flash [2022-07-28 19:59:08,687] multiqc [DEBUG ] No samples found: seqyclean [2022-07-28 19:59:08,688] multiqc [DEBUG ] Reordering sections: anchor 'demux_report' not found. [2022-07-28 19:59:08,688] multiqc [DEBUG ] Reordering sections: anchor 'demux_report' not found for module 'Run Statistics'. [2022-07-28 19:59:08,688] multiqc [DEBUG ] Reordering sections: anchor 'demux_report' not found for module 'FastQC'. [2022-07-28 19:59:08,693] multiqc [INFO ] Compressing plot data [2022-07-28 19:59:08,759] multiqc [INFO ] Report : multiqc_report.html [2022-07-28 19:59:08,759] multiqc [INFO ] Data : multiqc_data [2022-07-28 19:59:08,759] multiqc [DEBUG ] Moving data file from '/state/partition1/job-22910833/tmpvjyo2o57/multiqc_data' to '/scratch/gencore/logs/html/HF5FTDRX2/merged/multiqc_data' [2022-07-28 19:59:13,480] multiqc [INFO ] MultiQC complete