[2022-06-11 08:44:24,135] multiqc [DEBUG ] No MultiQC config found: /share/apps/multiqc/1.9/lib/python3.8/site-packages/multiqc_config.yaml [2022-06-11 08:44:24,135] multiqc [DEBUG ] No MultiQC config found: /home/gencore/.multiqc_config.yaml [2022-06-11 08:44:24,136] multiqc [DEBUG ] No MultiQC config found: multiqc_config.yaml [2022-06-11 08:44:24,136] multiqc [DEBUG ] Loading config settings from: /home/gencore/SCRIPTS/hpcpipe/mqc_config.yaml [2022-06-11 08:44:24,137] multiqc [DEBUG ] New config 'report_section_order': {'demux_report': {'after': 'run_stats'}} [2022-06-11 08:44:24,137] multiqc [DEBUG ] Command used: /share/apps/multiqc/1.9/bin/multiqc -f -c /home/gencore/SCRIPTS/hpcpipe/mqc_config.yaml /scratch/gencore/logs/html/HC5JHDRX2/merged [2022-06-11 08:44:24,533] multiqc [WARNING] MultiQC Version v1.12 now available! [2022-06-11 08:44:24,533] multiqc [INFO ] This is MultiQC v1.9 [2022-06-11 08:44:24,534] multiqc [DEBUG ] Command : /share/apps/multiqc/1.9/bin/multiqc -f -c /home/gencore/SCRIPTS/hpcpipe/mqc_config.yaml /scratch/gencore/logs/html/HC5JHDRX2/merged [2022-06-11 08:44:24,534] multiqc [DEBUG ] Working dir : /scratch/gencore/logs/html/HC5JHDRX2/merged [2022-06-11 08:44:24,534] multiqc [INFO ] Template : default [2022-06-11 08:44:24,534] multiqc [DEBUG ] Running Python 3.8.6 (default, Oct 11 2020, 20:34:31) [GCC Intel(R) C++ gcc 8.3.1 mode] [2022-06-11 08:44:24,534] multiqc [INFO ] Searching : /scratch/gencore/logs/html/HC5JHDRX2/merged [2022-06-11 08:44:24,534] 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 [2022-06-11 08:44:24,534] multiqc [DEBUG ] Using temporary directory for creating report: /state/partition1/job-20744832/tmpqkjvyz1m [2022-06-11 08:44:24,645] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: HC5JHDRX2_2_fastqc.html [2022-06-11 08:44:24,648] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: HC5JHDRX2_2_fastqc.html [2022-06-11 08:44:24,703] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: HC5JHDRX2_1_fastqc.html [2022-06-11 08:44:24,705] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: HC5JHDRX2_1_fastqc.html [2022-06-11 08:44:24,749] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: HC5JHDRX2_4_fastqc.html [2022-06-11 08:44:24,751] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: HC5JHDRX2_4_fastqc.html [2022-06-11 08:44:24,793] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: HC5JHDRX2_3_fastqc.html [2022-06-11 08:44:24,795] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: HC5JHDRX2_3_fastqc.html [2022-06-11 08:44:25,161] multiqc.plots.bargraph [DEBUG ] Using matplotlib version 3.3.2 [2022-06-11 08:44:25,163] multiqc.plots.linegraph [DEBUG ] Using matplotlib version 3.3.2 [2022-06-11 08:44:25,167] multiqc.modules.custom_content.custom_content [WARNING] Not able to parse custom data in undetermined_barcodes_mqc.txt [2022-06-11 08:44:25,169] multiqc.modules.custom_content.custom_content [INFO ] run_stats: Found 1 samples (table) [2022-06-11 08:44:25,174] multiqc [DEBUG ] No samples found: conpair [2022-06-11 08:44:25,180] multiqc [DEBUG ] No samples found: peddy [2022-06-11 08:44:25,186] multiqc [DEBUG ] No samples found: somalier [2022-06-11 08:44:25,191] multiqc [DEBUG ] No samples found: methylQA [2022-06-11 08:44:25,200] multiqc [DEBUG ] No samples found: mosdepth [2022-06-11 08:44:25,205] multiqc [DEBUG ] No samples found: phantompeakqualtools [2022-06-11 08:44:25,208] multiqc [DEBUG ] No samples found: qualimap [2022-06-11 08:44:25,213] multiqc [DEBUG ] No samples found: preseq [2022-06-11 08:44:25,219] multiqc [DEBUG ] No samples found: quast [2022-06-11 08:44:25,223] multiqc [DEBUG ] No samples found: qorts [2022-06-11 08:44:25,228] multiqc [DEBUG ] No samples found: rna_seqc [2022-06-11 08:44:25,233] multiqc [DEBUG ] No samples found: rockhopper [2022-06-11 08:44:25,239] multiqc [DEBUG ] No samples found: rsem [2022-06-11 08:44:25,250] multiqc [DEBUG ] No samples found: rseqc [2022-06-11 08:44:25,255] multiqc [DEBUG ] No samples found: busco [2022-06-11 08:44:25,260] multiqc [DEBUG ] No samples found: goleft_indexcov [2022-06-11 08:44:25,265] multiqc [DEBUG ] No samples found: disambiguate [2022-06-11 08:44:25,270] multiqc [DEBUG ] No samples found: supernova [2022-06-11 08:44:25,283] multiqc [DEBUG ] No samples found: deeptools [2022-06-11 08:44:25,288] multiqc [DEBUG ] No samples found: sargasso [2022-06-11 08:44:25,293] multiqc [DEBUG ] No samples found: verifybamid [2022-06-11 08:44:25,299] multiqc [DEBUG ] No samples found: mirtrace [2022-06-11 08:44:25,304] multiqc [DEBUG ] No samples found: happy [2022-06-11 08:44:25,309] multiqc [DEBUG ] No samples found: mirtop [2022-06-11 08:44:25,316] multiqc [DEBUG ] No samples found: homer [2022-06-11 08:44:25,321] multiqc [DEBUG ] No samples found: macs2 [2022-06-11 08:44:25,326] multiqc [DEBUG ] No samples found: theta2 [2022-06-11 08:44:25,332] multiqc [DEBUG ] No samples found: snpeff [2022-06-11 08:44:25,338] multiqc [DEBUG ] No samples found: gatk [2022-06-11 08:44:25,344] multiqc [DEBUG ] No samples found: htseq [2022-06-11 08:44:25,350] multiqc [DEBUG ] No samples found: bcftools [2022-06-11 08:44:25,355] multiqc [DEBUG ] No samples found: featureCounts [2022-06-11 08:44:25,362] multiqc [DEBUG ] No samples found: fgbio [2022-06-11 08:44:25,375] multiqc [DEBUG ] No samples found: dragen [2022-06-11 08:44:25,380] multiqc [DEBUG ] No samples found: dedup [2022-06-11 08:44:25,385] multiqc [DEBUG ] No samples found: damageprofiler [2022-06-11 08:44:25,410] multiqc [DEBUG ] No samples found: biobambam2 [2022-06-11 08:44:25,416] multiqc [DEBUG ] No samples found: mtnucratio [2022-06-11 08:44:25,418] multiqc [DEBUG ] No samples found: picard [2022-06-11 08:44:25,424] multiqc [DEBUG ] No samples found: prokka [2022-06-11 08:44:25,429] multiqc [DEBUG ] No samples found: samblaster [2022-06-11 08:44:25,437] multiqc [DEBUG ] No samples found: samtools [2022-06-11 08:44:25,441] multiqc [DEBUG ] No samples found: sexdeterrmine [2022-06-11 08:44:25,447] multiqc [DEBUG ] No samples found: bamtools [2022-06-11 08:44:25,451] multiqc [DEBUG ] No samples found: jellyfish [2022-06-11 08:44:25,460] multiqc [DEBUG ] No samples found: vcftools [2022-06-11 08:44:25,466] multiqc [DEBUG ] No samples found: longranger [2022-06-11 08:44:25,470] multiqc [DEBUG ] No samples found: stacks [2022-06-11 08:44:25,476] multiqc [DEBUG ] No samples found: varscan2 [2022-06-11 08:44:25,491] multiqc [DEBUG ] No samples found: bbmap [2022-06-11 08:44:25,497] multiqc [DEBUG ] No samples found: bismark [2022-06-11 08:44:25,502] multiqc [DEBUG ] No samples found: biscuit [2022-06-11 08:44:25,507] multiqc [DEBUG ] No samples found: hicexplorer [2022-06-11 08:44:25,512] multiqc [DEBUG ] No samples found: hicup [2022-06-11 08:44:25,517] multiqc [DEBUG ] No samples found: hicpro [2022-06-11 08:44:25,522] multiqc [DEBUG ] No samples found: salmon [2022-06-11 08:44:25,526] multiqc [DEBUG ] No samples found: kallisto [2022-06-11 08:44:25,531] multiqc [DEBUG ] No samples found: slamdunk [2022-06-11 08:44:25,537] multiqc [DEBUG ] No samples found: star [2022-06-11 08:44:25,542] multiqc [DEBUG ] No samples found: hisat2 [2022-06-11 08:44:25,548] multiqc [DEBUG ] No samples found: tophat [2022-06-11 08:44:25,553] multiqc [DEBUG ] No samples found: bowtie2 [2022-06-11 08:44:25,559] multiqc [DEBUG ] No samples found: bowtie1 [2022-06-11 08:44:25,565] multiqc [DEBUG ] No samples found: snpsplit [2022-06-11 08:44:25,570] multiqc [DEBUG ] No samples found: kat [2022-06-11 08:44:25,575] multiqc [DEBUG ] No samples found: leehom [2022-06-11 08:44:25,580] multiqc [DEBUG ] No samples found: adapterRemoval [2022-06-11 08:44:25,585] multiqc [DEBUG ] No samples found: clipandmerge [2022-06-11 08:44:25,591] multiqc [DEBUG ] No samples found: cutadapt [2022-06-11 08:44:25,595] multiqc [DEBUG ] No samples found: flexbar [2022-06-11 08:44:25,601] multiqc [DEBUG ] No samples found: kaiju [2022-06-11 08:44:25,606] multiqc [DEBUG ] No samples found: kraken [2022-06-11 08:44:25,611] multiqc [DEBUG ] No samples found: malt [2022-06-11 08:44:25,616] multiqc [DEBUG ] No samples found: trimmomatic [2022-06-11 08:44:25,621] multiqc [DEBUG ] No samples found: sickle [2022-06-11 08:44:25,628] multiqc [DEBUG ] No samples found: skewer [2022-06-11 08:44:25,633] multiqc [DEBUG ] No samples found: sortmerna [2022-06-11 08:44:25,637] multiqc [DEBUG ] No samples found: biobloomtools [2022-06-11 08:44:25,642] multiqc [DEBUG ] No samples found: fastq_screen [2022-06-11 08:44:25,648] multiqc [DEBUG ] No samples found: afterqc [2022-06-11 08:44:25,653] multiqc [DEBUG ] No samples found: fastp [2022-06-11 08:44:25,717] multiqc.modules.fastqc.fastqc [INFO ] Found 4 reports [2022-06-11 08:44:25,762] multiqc [DEBUG ] No samples found: pycoqc [2022-06-11 08:44:25,768] multiqc [DEBUG ] No samples found: minionqc [2022-06-11 08:44:25,773] multiqc [DEBUG ] No samples found: multivcfanalyzer [2022-06-11 08:44:25,779] multiqc [DEBUG ] No samples found: clusterflow [2022-06-11 08:44:25,786] multiqc [DEBUG ] No samples found: bcl2fastq [2022-06-11 08:44:25,791] multiqc [DEBUG ] No samples found: interop [2022-06-11 08:44:25,796] multiqc [DEBUG ] No samples found: ivar [2022-06-11 08:44:25,801] multiqc [DEBUG ] No samples found: flash [2022-06-11 08:44:25,806] multiqc [DEBUG ] No samples found: seqyclean [2022-06-11 08:44:25,807] multiqc [DEBUG ] Reordering sections: anchor 'demux_report' not found. [2022-06-11 08:44:25,807] multiqc [DEBUG ] Reordering sections: anchor 'demux_report' not found for module 'Run Statistics'. [2022-06-11 08:44:25,807] multiqc [DEBUG ] Reordering sections: anchor 'demux_report' not found for module 'FastQC'. [2022-06-11 08:44:25,813] multiqc [INFO ] Compressing plot data [2022-06-11 08:44:25,882] multiqc [INFO ] Report : multiqc_report.html [2022-06-11 08:44:25,882] multiqc [INFO ] Data : multiqc_data [2022-06-11 08:44:25,882] multiqc [DEBUG ] Moving data file from '/state/partition1/job-20744832/tmpqkjvyz1m/multiqc_data' to '/scratch/gencore/logs/html/HC5JHDRX2/merged/multiqc_data' [2022-06-11 08:44:26,009] multiqc [INFO ] MultiQC complete