[2022-03-25 17:02:30,297] multiqc [DEBUG ] No MultiQC config found: /share/apps/multiqc/1.9/lib/python3.8/site-packages/multiqc_config.yaml [2022-03-25 17:02:30,298] multiqc [DEBUG ] No MultiQC config found: /home/gencore/.multiqc_config.yaml [2022-03-25 17:02:30,298] multiqc [DEBUG ] No MultiQC config found: multiqc_config.yaml [2022-03-25 17:02:30,298] multiqc [DEBUG ] Loading config settings from: /home/gencore/SCRIPTS/hpcpipe/mqc_config.yaml [2022-03-25 17:02:30,299] multiqc [DEBUG ] New config 'report_section_order': {'demux_report': {'after': 'run_stats'}} [2022-03-25 17:02:30,299] multiqc [DEBUG ] Command used: /share/apps/multiqc/1.9/bin/multiqc -f -c /home/gencore/SCRIPTS/hpcpipe/mqc_config.yaml /scratch/gencore/logs/html/000000000-K6NDM/1 [2022-03-25 17:02:30,776] multiqc [WARNING] MultiQC Version v1.12 now available! [2022-03-25 17:02:30,776] multiqc [INFO ] This is MultiQC v1.9 [2022-03-25 17:02:30,776] multiqc [DEBUG ] Command : /share/apps/multiqc/1.9/bin/multiqc -f -c /home/gencore/SCRIPTS/hpcpipe/mqc_config.yaml /scratch/gencore/logs/html/000000000-K6NDM/1 [2022-03-25 17:02:30,776] multiqc [DEBUG ] Working dir : /scratch/gencore/logs/html/000000000-K6NDM/1 [2022-03-25 17:02:30,776] multiqc [INFO ] Template : default [2022-03-25 17:02:30,776] multiqc [DEBUG ] Running Python 3.8.6 (default, Oct 11 2020, 20:34:31) [GCC Intel(R) C++ gcc 8.3.1 mode] [2022-03-25 17:02:30,776] multiqc [INFO ] Searching : /scratch/gencore/logs/html/000000000-K6NDM/1 [2022-03-25 17:02:30,776] 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 [2022-03-25 17:02:30,776] multiqc [DEBUG ] Using temporary directory for creating report: /state/partition1/job-16671959/tmpxskg01dj [2022-03-25 17:02:30,891] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: 000000000-K6NDM_l01.1_fastqc.html [2022-03-25 17:02:30,894] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: 000000000-K6NDM_l01.1_fastqc.html [2022-03-25 17:02:30,955] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: 000000000-K6NDM_l01.2_fastqc.html [2022-03-25 17:02:30,957] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: 000000000-K6NDM_l01.2_fastqc.html [2022-03-25 17:02:31,384] multiqc.plots.bargraph [DEBUG ] Using matplotlib version 3.3.2 [2022-03-25 17:02:31,385] multiqc.plots.linegraph [DEBUG ] Using matplotlib version 3.3.2 [2022-03-25 17:02:31,389] multiqc.modules.custom_content.custom_content [WARNING] Not able to parse custom data in undetermined_barcodes_mqc.txt [2022-03-25 17:02:31,391] multiqc.modules.custom_content.custom_content [INFO ] run_stats: Found 1 samples (table) [2022-03-25 17:02:31,396] multiqc [DEBUG ] No samples found: conpair [2022-03-25 17:02:31,400] multiqc [DEBUG ] No samples found: peddy [2022-03-25 17:02:31,407] multiqc [DEBUG ] No samples found: somalier [2022-03-25 17:02:31,412] multiqc [DEBUG ] No samples found: methylQA [2022-03-25 17:02:31,430] multiqc [DEBUG ] No samples found: mosdepth [2022-03-25 17:02:31,434] multiqc [DEBUG ] No samples found: phantompeakqualtools [2022-03-25 17:02:31,437] multiqc [DEBUG ] No samples found: qualimap [2022-03-25 17:02:31,442] multiqc [DEBUG ] No samples found: preseq [2022-03-25 17:02:31,446] multiqc [DEBUG ] No samples found: quast [2022-03-25 17:02:31,451] multiqc [DEBUG ] No samples found: qorts [2022-03-25 17:02:31,455] multiqc [DEBUG ] No samples found: rna_seqc [2022-03-25 17:02:31,460] multiqc [DEBUG ] No samples found: rockhopper [2022-03-25 17:02:31,464] multiqc [DEBUG ] No samples found: rsem [2022-03-25 17:02:31,475] multiqc [DEBUG ] No samples found: rseqc [2022-03-25 17:02:31,479] multiqc [DEBUG ] No samples found: busco [2022-03-25 17:02:31,484] multiqc [DEBUG ] No samples found: goleft_indexcov [2022-03-25 17:02:31,488] multiqc [DEBUG ] No samples found: disambiguate [2022-03-25 17:02:31,492] multiqc [DEBUG ] No samples found: supernova [2022-03-25 17:02:31,505] multiqc [DEBUG ] No samples found: deeptools [2022-03-25 17:02:31,509] multiqc [DEBUG ] No samples found: sargasso [2022-03-25 17:02:31,514] multiqc [DEBUG ] No samples found: verifybamid [2022-03-25 17:02:31,518] multiqc [DEBUG ] No samples found: mirtrace [2022-03-25 17:02:31,523] multiqc [DEBUG ] No samples found: happy [2022-03-25 17:02:31,527] multiqc [DEBUG ] No samples found: mirtop [2022-03-25 17:02:31,533] multiqc [DEBUG ] No samples found: homer [2022-03-25 17:02:31,537] multiqc [DEBUG ] No samples found: macs2 [2022-03-25 17:02:31,541] multiqc [DEBUG ] No samples found: theta2 [2022-03-25 17:02:31,546] multiqc [DEBUG ] No samples found: snpeff [2022-03-25 17:02:31,552] multiqc [DEBUG ] No samples found: gatk [2022-03-25 17:02:31,556] multiqc [DEBUG ] No samples found: htseq [2022-03-25 17:02:31,561] multiqc [DEBUG ] No samples found: bcftools [2022-03-25 17:02:31,566] multiqc [DEBUG ] No samples found: featureCounts [2022-03-25 17:02:31,572] multiqc [DEBUG ] No samples found: fgbio [2022-03-25 17:02:31,586] multiqc [DEBUG ] No samples found: dragen [2022-03-25 17:02:31,591] multiqc [DEBUG ] No samples found: dedup [2022-03-25 17:02:31,595] multiqc [DEBUG ] No samples found: damageprofiler [2022-03-25 17:02:31,619] multiqc [DEBUG ] No samples found: biobambam2 [2022-03-25 17:02:31,624] multiqc [DEBUG ] No samples found: mtnucratio [2022-03-25 17:02:31,626] multiqc [DEBUG ] No samples found: picard [2022-03-25 17:02:31,631] multiqc [DEBUG ] No samples found: prokka [2022-03-25 17:02:31,635] multiqc [DEBUG ] No samples found: samblaster [2022-03-25 17:02:31,646] multiqc [DEBUG ] No samples found: samtools [2022-03-25 17:02:31,650] multiqc [DEBUG ] No samples found: sexdeterrmine [2022-03-25 17:02:31,655] multiqc [DEBUG ] No samples found: bamtools [2022-03-25 17:02:31,659] multiqc [DEBUG ] No samples found: jellyfish [2022-03-25 17:02:31,668] multiqc [DEBUG ] No samples found: vcftools [2022-03-25 17:02:31,672] multiqc [DEBUG ] No samples found: longranger [2022-03-25 17:02:31,677] multiqc [DEBUG ] No samples found: stacks [2022-03-25 17:02:31,681] multiqc [DEBUG ] No samples found: varscan2 [2022-03-25 17:02:31,695] multiqc [DEBUG ] No samples found: bbmap [2022-03-25 17:02:31,699] multiqc [DEBUG ] No samples found: bismark [2022-03-25 17:02:31,704] multiqc [DEBUG ] No samples found: biscuit [2022-03-25 17:02:31,708] multiqc [DEBUG ] No samples found: hicexplorer [2022-03-25 17:02:31,713] multiqc [DEBUG ] No samples found: hicup [2022-03-25 17:02:31,718] multiqc [DEBUG ] No samples found: hicpro [2022-03-25 17:02:31,722] multiqc [DEBUG ] No samples found: salmon [2022-03-25 17:02:31,726] multiqc [DEBUG ] No samples found: kallisto [2022-03-25 17:02:31,731] multiqc [DEBUG ] No samples found: slamdunk [2022-03-25 17:02:31,735] multiqc [DEBUG ] No samples found: star [2022-03-25 17:02:31,740] multiqc [DEBUG ] No samples found: hisat2 [2022-03-25 17:02:31,744] multiqc [DEBUG ] No samples found: tophat [2022-03-25 17:02:31,749] multiqc [DEBUG ] No samples found: bowtie2 [2022-03-25 17:02:31,753] multiqc [DEBUG ] No samples found: bowtie1 [2022-03-25 17:02:31,757] multiqc [DEBUG ] No samples found: snpsplit [2022-03-25 17:02:31,761] multiqc [DEBUG ] No samples found: kat [2022-03-25 17:02:31,766] multiqc [DEBUG ] No samples found: leehom [2022-03-25 17:02:31,771] multiqc [DEBUG ] No samples found: adapterRemoval [2022-03-25 17:02:31,774] multiqc [DEBUG ] No samples found: clipandmerge [2022-03-25 17:02:31,779] multiqc [DEBUG ] No samples found: cutadapt [2022-03-25 17:02:31,783] multiqc [DEBUG ] No samples found: flexbar [2022-03-25 17:02:31,787] multiqc [DEBUG ] No samples found: kaiju [2022-03-25 17:02:31,791] multiqc [DEBUG ] No samples found: kraken [2022-03-25 17:02:31,796] multiqc [DEBUG ] No samples found: malt [2022-03-25 17:02:31,800] multiqc [DEBUG ] No samples found: trimmomatic [2022-03-25 17:02:31,804] multiqc [DEBUG ] No samples found: sickle [2022-03-25 17:02:31,809] multiqc [DEBUG ] No samples found: skewer [2022-03-25 17:02:31,812] multiqc [DEBUG ] No samples found: sortmerna [2022-03-25 17:02:31,816] multiqc [DEBUG ] No samples found: biobloomtools [2022-03-25 17:02:31,821] multiqc [DEBUG ] No samples found: fastq_screen [2022-03-25 17:02:31,825] multiqc [DEBUG ] No samples found: afterqc [2022-03-25 17:02:31,830] multiqc [DEBUG ] No samples found: fastp [2022-03-25 17:02:31,846] multiqc.modules.fastqc.fastqc [INFO ] Found 2 reports [2022-03-25 17:02:31,898] multiqc [DEBUG ] No samples found: pycoqc [2022-03-25 17:02:31,903] multiqc [DEBUG ] No samples found: minionqc [2022-03-25 17:02:31,907] multiqc [DEBUG ] No samples found: multivcfanalyzer [2022-03-25 17:02:31,912] multiqc [DEBUG ] No samples found: clusterflow [2022-03-25 17:02:31,916] multiqc [DEBUG ] No samples found: bcl2fastq [2022-03-25 17:02:31,921] multiqc [DEBUG ] No samples found: interop [2022-03-25 17:02:31,925] multiqc [DEBUG ] No samples found: ivar [2022-03-25 17:02:31,929] multiqc [DEBUG ] No samples found: flash [2022-03-25 17:02:31,933] multiqc [DEBUG ] No samples found: seqyclean [2022-03-25 17:02:31,933] multiqc [DEBUG ] Reordering sections: anchor 'demux_report' not found. [2022-03-25 17:02:31,934] multiqc [DEBUG ] Reordering sections: anchor 'demux_report' not found for module 'Run Statistics'. [2022-03-25 17:02:31,934] multiqc [DEBUG ] Reordering sections: anchor 'demux_report' not found for module 'FastQC'. [2022-03-25 17:02:31,937] multiqc [INFO ] Compressing plot data [2022-03-25 17:02:31,985] multiqc [INFO ] Report : multiqc_report.html [2022-03-25 17:02:31,985] multiqc [INFO ] Data : multiqc_data [2022-03-25 17:02:31,985] multiqc [DEBUG ] Moving data file from '/state/partition1/job-16671959/tmpxskg01dj/multiqc_data' to '/scratch/gencore/logs/html/000000000-K6NDM/1/multiqc_data' [2022-03-25 17:02:32,122] multiqc [INFO ] MultiQC complete