[2021-05-28 10:23:24,817] multiqc [DEBUG ] No MultiQC config found: /share/apps/multiqc/1.9/lib/python3.8/site-packages/multiqc_config.yaml [2021-05-28 10:23:24,817] multiqc [DEBUG ] No MultiQC config found: /home/gencore/.multiqc_config.yaml [2021-05-28 10:23:24,817] multiqc [DEBUG ] No MultiQC config found: multiqc_config.yaml [2021-05-28 10:23:24,818] multiqc [DEBUG ] Loading config settings from: /home/gencore/SCRIPTS/hpcpipe/mqc_config.yaml [2021-05-28 10:23:24,818] multiqc [DEBUG ] New config 'report_section_order': {'demux_report': {'after': 'run_stats'}} [2021-05-28 10:23:24,818] multiqc [DEBUG ] Command used: /share/apps/multiqc/1.9/bin/multiqc -f -c /home/gencore/SCRIPTS/hpcpipe/mqc_config.yaml /scratch/gencore/logs/html/H5WGHDRXY/merged [2021-05-28 10:23:26,081] multiqc [WARNING] MultiQC Version v1.10.1 now available! [2021-05-28 10:23:26,081] multiqc [INFO ] This is MultiQC v1.9 [2021-05-28 10:23:26,082] multiqc [DEBUG ] Command : /share/apps/multiqc/1.9/bin/multiqc -f -c /home/gencore/SCRIPTS/hpcpipe/mqc_config.yaml /scratch/gencore/logs/html/H5WGHDRXY/merged [2021-05-28 10:23:26,082] multiqc [DEBUG ] Working dir : /scratch/gencore/logs/html/H5WGHDRXY/merged [2021-05-28 10:23:26,082] multiqc [INFO ] Template : default [2021-05-28 10:23:26,082] multiqc [DEBUG ] Running Python 3.8.6 (default, Oct 11 2020, 20:34:31) [GCC Intel(R) C++ gcc 8.3.1 mode] [2021-05-28 10:23:26,082] multiqc [INFO ] Searching : /scratch/gencore/logs/html/H5WGHDRXY/merged [2021-05-28 10:23:26,082] 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 [2021-05-28 10:23:26,082] multiqc [DEBUG ] Using temporary directory for creating report: /state/partition1/job-7205414/tmpqxkjl7yl [2021-05-28 10:23:26,221] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: H5WGHDRXY_1_fastqc.html [2021-05-28 10:23:26,223] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: H5WGHDRXY_1_fastqc.html [2021-05-28 10:23:26,284] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: H5WGHDRXY_2_fastqc.html [2021-05-28 10:23:26,286] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: H5WGHDRXY_2_fastqc.html [2021-05-28 10:23:26,325] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: H5WGHDRXY_3_fastqc.html [2021-05-28 10:23:26,327] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: H5WGHDRXY_3_fastqc.html [2021-05-28 10:23:26,810] multiqc.plots.bargraph [DEBUG ] Using matplotlib version 3.3.2 [2021-05-28 10:23:26,812] multiqc.plots.linegraph [DEBUG ] Using matplotlib version 3.3.2 [2021-05-28 10:23:26,816] multiqc.modules.custom_content.custom_content [WARNING] Not able to parse custom data in undetermined_barcodes_mqc.txt [2021-05-28 10:23:26,818] multiqc.modules.custom_content.custom_content [INFO ] run_stats: Found 1 samples (table) [2021-05-28 10:23:26,822] multiqc [DEBUG ] No samples found: conpair [2021-05-28 10:23:26,827] multiqc [DEBUG ] No samples found: peddy [2021-05-28 10:23:26,831] multiqc [DEBUG ] No samples found: somalier [2021-05-28 10:23:26,835] multiqc [DEBUG ] No samples found: methylQA [2021-05-28 10:23:26,843] multiqc [DEBUG ] No samples found: mosdepth [2021-05-28 10:23:26,847] multiqc [DEBUG ] No samples found: phantompeakqualtools [2021-05-28 10:23:26,850] multiqc [DEBUG ] No samples found: qualimap [2021-05-28 10:23:26,854] multiqc [DEBUG ] No samples found: preseq [2021-05-28 10:23:26,859] multiqc [DEBUG ] No samples found: quast [2021-05-28 10:23:26,864] multiqc [DEBUG ] No samples found: qorts [2021-05-28 10:23:26,868] multiqc [DEBUG ] No samples found: rna_seqc [2021-05-28 10:23:26,873] multiqc [DEBUG ] No samples found: rockhopper [2021-05-28 10:23:26,877] multiqc [DEBUG ] No samples found: rsem [2021-05-28 10:23:26,888] multiqc [DEBUG ] No samples found: rseqc [2021-05-28 10:23:26,892] multiqc [DEBUG ] No samples found: busco [2021-05-28 10:23:26,896] multiqc [DEBUG ] No samples found: goleft_indexcov [2021-05-28 10:23:26,901] multiqc [DEBUG ] No samples found: disambiguate [2021-05-28 10:23:26,905] multiqc [DEBUG ] No samples found: supernova [2021-05-28 10:23:26,915] multiqc [DEBUG ] No samples found: deeptools [2021-05-28 10:23:26,920] multiqc [DEBUG ] No samples found: sargasso [2021-05-28 10:23:26,924] multiqc [DEBUG ] No samples found: verifybamid [2021-05-28 10:23:26,929] multiqc [DEBUG ] No samples found: mirtrace [2021-05-28 10:23:26,933] multiqc [DEBUG ] No samples found: happy [2021-05-28 10:23:26,937] multiqc [DEBUG ] No samples found: mirtop [2021-05-28 10:23:26,943] multiqc [DEBUG ] No samples found: homer [2021-05-28 10:23:26,947] multiqc [DEBUG ] No samples found: macs2 [2021-05-28 10:23:26,952] multiqc [DEBUG ] No samples found: theta2 [2021-05-28 10:23:26,957] multiqc [DEBUG ] No samples found: snpeff [2021-05-28 10:23:26,964] multiqc [DEBUG ] No samples found: gatk [2021-05-28 10:23:26,968] multiqc [DEBUG ] No samples found: htseq [2021-05-28 10:23:26,973] multiqc [DEBUG ] No samples found: bcftools [2021-05-28 10:23:26,977] multiqc [DEBUG ] No samples found: featureCounts [2021-05-28 10:23:26,985] multiqc [DEBUG ] No samples found: fgbio [2021-05-28 10:23:26,996] multiqc [DEBUG ] No samples found: dragen [2021-05-28 10:23:27,000] multiqc [DEBUG ] No samples found: dedup [2021-05-28 10:23:27,004] multiqc [DEBUG ] No samples found: damageprofiler [2021-05-28 10:23:27,024] multiqc [DEBUG ] No samples found: biobambam2 [2021-05-28 10:23:27,030] multiqc [DEBUG ] No samples found: mtnucratio [2021-05-28 10:23:27,032] multiqc [DEBUG ] No samples found: picard [2021-05-28 10:23:27,036] multiqc [DEBUG ] No samples found: prokka [2021-05-28 10:23:27,040] multiqc [DEBUG ] No samples found: samblaster [2021-05-28 10:23:27,047] multiqc [DEBUG ] No samples found: samtools [2021-05-28 10:23:27,052] multiqc [DEBUG ] No samples found: sexdeterrmine [2021-05-28 10:23:27,056] multiqc [DEBUG ] No samples found: bamtools [2021-05-28 10:23:27,060] multiqc [DEBUG ] No samples found: jellyfish [2021-05-28 10:23:27,068] multiqc [DEBUG ] No samples found: vcftools [2021-05-28 10:23:27,072] multiqc [DEBUG ] No samples found: longranger [2021-05-28 10:23:27,076] multiqc [DEBUG ] No samples found: stacks [2021-05-28 10:23:27,080] multiqc [DEBUG ] No samples found: varscan2 [2021-05-28 10:23:27,093] multiqc [DEBUG ] No samples found: bbmap [2021-05-28 10:23:27,097] multiqc [DEBUG ] No samples found: bismark [2021-05-28 10:23:27,102] multiqc [DEBUG ] No samples found: biscuit [2021-05-28 10:23:27,106] multiqc [DEBUG ] No samples found: hicexplorer [2021-05-28 10:23:27,111] multiqc [DEBUG ] No samples found: hicup [2021-05-28 10:23:27,115] multiqc [DEBUG ] No samples found: hicpro [2021-05-28 10:23:27,119] multiqc [DEBUG ] No samples found: salmon [2021-05-28 10:23:27,123] multiqc [DEBUG ] No samples found: kallisto [2021-05-28 10:23:27,127] multiqc [DEBUG ] No samples found: slamdunk [2021-05-28 10:23:27,131] multiqc [DEBUG ] No samples found: star [2021-05-28 10:23:27,136] multiqc [DEBUG ] No samples found: hisat2 [2021-05-28 10:23:27,140] multiqc [DEBUG ] No samples found: tophat [2021-05-28 10:23:27,144] multiqc [DEBUG ] No samples found: bowtie2 [2021-05-28 10:23:27,149] multiqc [DEBUG ] No samples found: bowtie1 [2021-05-28 10:23:27,153] multiqc [DEBUG ] No samples found: snpsplit [2021-05-28 10:23:27,157] multiqc [DEBUG ] No samples found: kat [2021-05-28 10:23:27,161] multiqc [DEBUG ] No samples found: leehom [2021-05-28 10:23:27,165] multiqc [DEBUG ] No samples found: adapterRemoval [2021-05-28 10:23:27,171] multiqc [DEBUG ] No samples found: clipandmerge [2021-05-28 10:23:27,175] multiqc [DEBUG ] No samples found: cutadapt [2021-05-28 10:23:27,180] multiqc [DEBUG ] No samples found: flexbar [2021-05-28 10:23:27,184] multiqc [DEBUG ] No samples found: kaiju [2021-05-28 10:23:27,188] multiqc [DEBUG ] No samples found: kraken [2021-05-28 10:23:27,193] multiqc [DEBUG ] No samples found: malt [2021-05-28 10:23:27,197] multiqc [DEBUG ] No samples found: trimmomatic [2021-05-28 10:23:27,201] multiqc [DEBUG ] No samples found: sickle [2021-05-28 10:23:27,205] multiqc [DEBUG ] No samples found: skewer [2021-05-28 10:23:27,209] multiqc [DEBUG ] No samples found: sortmerna [2021-05-28 10:23:27,213] multiqc [DEBUG ] No samples found: biobloomtools [2021-05-28 10:23:27,218] multiqc [DEBUG ] No samples found: fastq_screen [2021-05-28 10:23:27,222] multiqc [DEBUG ] No samples found: afterqc [2021-05-28 10:23:27,227] multiqc [DEBUG ] No samples found: fastp [2021-05-28 10:23:27,338] multiqc.modules.fastqc.fastqc [INFO ] Found 3 reports [2021-05-28 10:23:27,386] multiqc [DEBUG ] No samples found: pycoqc [2021-05-28 10:23:27,391] multiqc [DEBUG ] No samples found: minionqc [2021-05-28 10:23:27,395] multiqc [DEBUG ] No samples found: multivcfanalyzer [2021-05-28 10:23:27,400] multiqc [DEBUG ] No samples found: clusterflow [2021-05-28 10:23:27,406] multiqc [DEBUG ] No samples found: bcl2fastq [2021-05-28 10:23:27,410] multiqc [DEBUG ] No samples found: interop [2021-05-28 10:23:27,416] multiqc [DEBUG ] No samples found: ivar [2021-05-28 10:23:27,420] multiqc [DEBUG ] No samples found: flash [2021-05-28 10:23:27,425] multiqc [DEBUG ] No samples found: seqyclean [2021-05-28 10:23:27,425] multiqc [DEBUG ] Reordering sections: anchor 'demux_report' not found. [2021-05-28 10:23:27,425] multiqc [DEBUG ] Reordering sections: anchor 'demux_report' not found for module 'Run Statistics'. [2021-05-28 10:23:27,425] multiqc [DEBUG ] Reordering sections: anchor 'demux_report' not found for module 'FastQC'. [2021-05-28 10:23:27,430] multiqc [INFO ] Compressing plot data [2021-05-28 10:23:27,484] multiqc [INFO ] Report : multiqc_report.html [2021-05-28 10:23:27,484] multiqc [INFO ] Data : multiqc_data [2021-05-28 10:23:27,484] multiqc [DEBUG ] Moving data file from '/state/partition1/job-7205414/tmpqxkjl7yl/multiqc_data' to '/scratch/gencore/logs/html/H5WGHDRXY/merged/multiqc_data' [2021-05-28 10:23:27,604] multiqc [INFO ] MultiQC complete