[2021-06-30 14:34:53,454] multiqc [DEBUG ] No MultiQC config found: /share/apps/multiqc/1.9/lib/python3.8/site-packages/multiqc_config.yaml [2021-06-30 14:34:53,455] multiqc [DEBUG ] No MultiQC config found: /home/gencore/.multiqc_config.yaml [2021-06-30 14:34:53,455] multiqc [DEBUG ] No MultiQC config found: multiqc_config.yaml [2021-06-30 14:34:53,455] multiqc [DEBUG ] Loading config settings from: /home/gencore/SCRIPTS/hpcpipe/mqc_config.yaml [2021-06-30 14:34:53,456] multiqc [DEBUG ] New config 'report_section_order': {'demux_report': {'after': 'run_stats'}} [2021-06-30 14:34:53,456] multiqc [DEBUG ] Command used: /share/apps/multiqc/1.9/bin/multiqc -f -c /home/gencore/SCRIPTS/hpcpipe/mqc_config.yaml /scratch/gencore/logs/html/HGW2MDRXY/merged [2021-06-30 14:34:54,728] multiqc [WARNING] MultiQC Version v1.10.1 now available! [2021-06-30 14:34:54,728] multiqc [INFO ] This is MultiQC v1.9 [2021-06-30 14:34:54,728] multiqc [DEBUG ] Command : /share/apps/multiqc/1.9/bin/multiqc -f -c /home/gencore/SCRIPTS/hpcpipe/mqc_config.yaml /scratch/gencore/logs/html/HGW2MDRXY/merged [2021-06-30 14:34:54,728] multiqc [DEBUG ] Working dir : /scratch/gencore/logs/html/HGW2MDRXY/merged [2021-06-30 14:34:54,728] multiqc [INFO ] Template : default [2021-06-30 14:34:54,728] multiqc [DEBUG ] Running Python 3.8.6 (default, Oct 11 2020, 20:34:31) [GCC Intel(R) C++ gcc 8.3.1 mode] [2021-06-30 14:34:54,728] multiqc [INFO ] Searching : /scratch/gencore/logs/html/HGW2MDRXY/merged [2021-06-30 14:34:54,729] 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 [2021-06-30 14:34:54,729] multiqc [DEBUG ] Using temporary directory for creating report: /state/partition1/job-8219645/tmp3ehs81jr [2021-06-30 14:34:54,948] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: HGW2MDRXY_1_fastqc.html [2021-06-30 14:34:54,950] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: HGW2MDRXY_1_fastqc.html [2021-06-30 14:34:54,988] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: HGW2MDRXY_4_fastqc.html [2021-06-30 14:34:54,989] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: HGW2MDRXY_4_fastqc.html [2021-06-30 14:34:55,048] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: HGW2MDRXY_3_fastqc.html [2021-06-30 14:34:55,050] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: HGW2MDRXY_3_fastqc.html [2021-06-30 14:34:55,132] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: HGW2MDRXY_2_fastqc.html [2021-06-30 14:34:55,134] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: HGW2MDRXY_2_fastqc.html [2021-06-30 14:34:55,991] multiqc.plots.bargraph [DEBUG ] Using matplotlib version 3.3.2 [2021-06-30 14:34:55,996] multiqc.plots.linegraph [DEBUG ] Using matplotlib version 3.3.2 [2021-06-30 14:34:56,005] multiqc.modules.custom_content.custom_content [WARNING] Not able to parse custom data in undetermined_barcodes_mqc.txt [2021-06-30 14:34:56,006] multiqc.modules.custom_content.custom_content [INFO ] run_stats: Found 1 samples (table) [2021-06-30 14:34:56,020] multiqc [DEBUG ] No samples found: conpair [2021-06-30 14:34:56,039] multiqc [DEBUG ] No samples found: peddy [2021-06-30 14:34:56,058] multiqc [DEBUG ] No samples found: somalier [2021-06-30 14:34:56,074] multiqc [DEBUG ] No samples found: methylQA [2021-06-30 14:34:56,103] multiqc [DEBUG ] No samples found: mosdepth [2021-06-30 14:34:56,119] multiqc [DEBUG ] No samples found: phantompeakqualtools [2021-06-30 14:34:56,124] multiqc [DEBUG ] No samples found: qualimap [2021-06-30 14:34:56,137] multiqc [DEBUG ] No samples found: preseq [2021-06-30 14:34:56,151] multiqc [DEBUG ] No samples found: quast [2021-06-30 14:34:56,166] multiqc [DEBUG ] No samples found: qorts [2021-06-30 14:34:56,181] multiqc [DEBUG ] No samples found: rna_seqc [2021-06-30 14:34:56,196] multiqc [DEBUG ] No samples found: rockhopper [2021-06-30 14:34:56,209] multiqc [DEBUG ] No samples found: rsem [2021-06-30 14:34:56,252] multiqc [DEBUG ] No samples found: rseqc [2021-06-30 14:34:56,265] multiqc [DEBUG ] No samples found: busco [2021-06-30 14:34:56,283] multiqc [DEBUG ] No samples found: goleft_indexcov [2021-06-30 14:34:56,301] multiqc [DEBUG ] No samples found: disambiguate [2021-06-30 14:34:56,318] multiqc [DEBUG ] No samples found: supernova [2021-06-30 14:34:56,396] multiqc [DEBUG ] No samples found: deeptools [2021-06-30 14:34:56,411] multiqc [DEBUG ] No samples found: sargasso [2021-06-30 14:34:56,427] multiqc [DEBUG ] No samples found: verifybamid [2021-06-30 14:34:56,440] multiqc [DEBUG ] No samples found: mirtrace [2021-06-30 14:34:56,457] multiqc [DEBUG ] No samples found: happy [2021-06-30 14:34:56,476] multiqc [DEBUG ] No samples found: mirtop [2021-06-30 14:34:56,506] multiqc [DEBUG ] No samples found: homer [2021-06-30 14:34:56,522] multiqc [DEBUG ] No samples found: macs2 [2021-06-30 14:34:56,536] multiqc [DEBUG ] No samples found: theta2 [2021-06-30 14:34:56,551] multiqc [DEBUG ] No samples found: snpeff [2021-06-30 14:34:56,583] multiqc [DEBUG ] No samples found: gatk [2021-06-30 14:34:56,595] multiqc [DEBUG ] No samples found: htseq [2021-06-30 14:34:56,614] multiqc [DEBUG ] No samples found: bcftools [2021-06-30 14:34:56,632] multiqc [DEBUG ] No samples found: featureCounts [2021-06-30 14:34:56,654] multiqc [DEBUG ] No samples found: fgbio [2021-06-30 14:34:56,743] multiqc [DEBUG ] No samples found: dragen [2021-06-30 14:34:56,759] multiqc [DEBUG ] No samples found: dedup [2021-06-30 14:34:56,776] multiqc [DEBUG ] No samples found: damageprofiler [2021-06-30 14:34:56,920] multiqc [DEBUG ] No samples found: biobambam2 [2021-06-30 14:34:56,939] multiqc [DEBUG ] No samples found: mtnucratio [2021-06-30 14:34:56,941] multiqc [DEBUG ] No samples found: picard [2021-06-30 14:34:56,959] multiqc [DEBUG ] No samples found: prokka [2021-06-30 14:34:56,975] multiqc [DEBUG ] No samples found: samblaster [2021-06-30 14:34:57,020] multiqc [DEBUG ] No samples found: samtools [2021-06-30 14:34:57,036] multiqc [DEBUG ] No samples found: sexdeterrmine [2021-06-30 14:34:57,056] multiqc [DEBUG ] No samples found: bamtools [2021-06-30 14:34:57,074] multiqc [DEBUG ] No samples found: jellyfish [2021-06-30 14:34:57,127] multiqc [DEBUG ] No samples found: vcftools [2021-06-30 14:34:57,155] multiqc [DEBUG ] No samples found: longranger [2021-06-30 14:34:57,178] multiqc [DEBUG ] No samples found: stacks [2021-06-30 14:34:57,201] multiqc [DEBUG ] No samples found: varscan2 [2021-06-30 14:34:57,302] multiqc [DEBUG ] No samples found: bbmap [2021-06-30 14:34:57,325] multiqc [DEBUG ] No samples found: bismark [2021-06-30 14:34:57,343] multiqc [DEBUG ] No samples found: biscuit [2021-06-30 14:34:57,359] multiqc [DEBUG ] No samples found: hicexplorer [2021-06-30 14:34:57,372] multiqc [DEBUG ] No samples found: hicup [2021-06-30 14:34:57,388] multiqc [DEBUG ] No samples found: hicpro [2021-06-30 14:34:57,406] multiqc [DEBUG ] No samples found: salmon [2021-06-30 14:34:57,426] multiqc [DEBUG ] No samples found: kallisto [2021-06-30 14:34:57,442] multiqc [DEBUG ] No samples found: slamdunk [2021-06-30 14:34:57,465] multiqc [DEBUG ] No samples found: star [2021-06-30 14:34:57,485] multiqc [DEBUG ] No samples found: hisat2 [2021-06-30 14:34:57,507] multiqc [DEBUG ] No samples found: tophat [2021-06-30 14:34:57,529] multiqc [DEBUG ] No samples found: bowtie2 [2021-06-30 14:34:57,559] multiqc [DEBUG ] No samples found: bowtie1 [2021-06-30 14:34:57,576] multiqc [DEBUG ] No samples found: snpsplit [2021-06-30 14:34:57,600] multiqc [DEBUG ] No samples found: kat [2021-06-30 14:34:57,618] multiqc [DEBUG ] No samples found: leehom [2021-06-30 14:34:57,647] multiqc [DEBUG ] No samples found: adapterRemoval [2021-06-30 14:34:57,661] multiqc [DEBUG ] No samples found: clipandmerge [2021-06-30 14:34:57,675] multiqc [DEBUG ] No samples found: cutadapt [2021-06-30 14:34:57,688] multiqc [DEBUG ] No samples found: flexbar [2021-06-30 14:34:57,708] multiqc [DEBUG ] No samples found: kaiju [2021-06-30 14:34:57,728] multiqc [DEBUG ] No samples found: kraken [2021-06-30 14:34:57,748] multiqc [DEBUG ] No samples found: malt [2021-06-30 14:34:57,763] multiqc [DEBUG ] No samples found: trimmomatic [2021-06-30 14:34:57,782] multiqc [DEBUG ] No samples found: sickle [2021-06-30 14:34:57,793] multiqc [DEBUG ] No samples found: skewer [2021-06-30 14:34:57,811] multiqc [DEBUG ] No samples found: sortmerna [2021-06-30 14:34:57,826] multiqc [DEBUG ] No samples found: biobloomtools [2021-06-30 14:34:57,847] multiqc [DEBUG ] No samples found: fastq_screen [2021-06-30 14:34:57,864] multiqc [DEBUG ] No samples found: afterqc [2021-06-30 14:34:57,883] multiqc [DEBUG ] No samples found: fastp [2021-06-30 14:34:58,087] multiqc.modules.fastqc.fastqc [INFO ] Found 4 reports [2021-06-30 14:34:58,158] multiqc [DEBUG ] No samples found: pycoqc [2021-06-30 14:34:58,171] multiqc [DEBUG ] No samples found: minionqc [2021-06-30 14:34:58,186] multiqc [DEBUG ] No samples found: multivcfanalyzer [2021-06-30 14:34:58,206] multiqc [DEBUG ] No samples found: clusterflow [2021-06-30 14:34:58,222] multiqc [DEBUG ] No samples found: bcl2fastq [2021-06-30 14:34:58,241] multiqc [DEBUG ] No samples found: interop [2021-06-30 14:34:58,253] multiqc [DEBUG ] No samples found: ivar [2021-06-30 14:34:58,269] multiqc [DEBUG ] No samples found: flash [2021-06-30 14:34:58,294] multiqc [DEBUG ] No samples found: seqyclean [2021-06-30 14:34:58,294] multiqc [DEBUG ] Reordering sections: anchor 'demux_report' not found. [2021-06-30 14:34:58,294] multiqc [DEBUG ] Reordering sections: anchor 'demux_report' not found for module 'Run Statistics'. [2021-06-30 14:34:58,295] multiqc [DEBUG ] Reordering sections: anchor 'demux_report' not found for module 'FastQC'. [2021-06-30 14:34:58,300] multiqc [INFO ] Compressing plot data [2021-06-30 14:34:58,365] multiqc [INFO ] Report : multiqc_report.html [2021-06-30 14:34:58,366] multiqc [INFO ] Data : multiqc_data [2021-06-30 14:34:58,366] multiqc [DEBUG ] Moving data file from '/state/partition1/job-8219645/tmp3ehs81jr/multiqc_data' to '/scratch/gencore/logs/html/HGW2MDRXY/merged/multiqc_data' [2021-06-30 14:34:59,167] multiqc [INFO ] MultiQC complete