[2021-06-04 05:02:46,080] multiqc [DEBUG ] No MultiQC config found: /share/apps/multiqc/1.9/lib/python3.8/site-packages/multiqc_config.yaml [2021-06-04 05:02:46,080] multiqc [DEBUG ] No MultiQC config found: /home/gencore/.multiqc_config.yaml [2021-06-04 05:02:46,080] multiqc [DEBUG ] No MultiQC config found: multiqc_config.yaml [2021-06-04 05:02:46,081] multiqc [DEBUG ] Loading config settings from: /home/gencore/SCRIPTS/hpcpipe/mqc_config.yaml [2021-06-04 05:02:46,081] multiqc [DEBUG ] New config 'report_section_order': {'demux_report': {'after': 'run_stats'}} [2021-06-04 05:02:46,082] multiqc [DEBUG ] Command used: /share/apps/multiqc/1.9/bin/multiqc -f -c /home/gencore/SCRIPTS/hpcpipe/mqc_config.yaml /scratch/gencore/logs/html/H5W5JDRXY/merged [2021-06-04 05:02:47,652] multiqc [WARNING] MultiQC Version v1.10.1 now available! [2021-06-04 05:02:47,653] multiqc [INFO ] This is MultiQC v1.9 [2021-06-04 05:02:47,653] multiqc [DEBUG ] Command : /share/apps/multiqc/1.9/bin/multiqc -f -c /home/gencore/SCRIPTS/hpcpipe/mqc_config.yaml /scratch/gencore/logs/html/H5W5JDRXY/merged [2021-06-04 05:02:47,653] multiqc [DEBUG ] Working dir : /scratch/gencore/logs/html/H5W5JDRXY/merged [2021-06-04 05:02:47,653] multiqc [INFO ] Template : default [2021-06-04 05:02:47,653] multiqc [DEBUG ] Running Python 3.8.6 (default, Oct 11 2020, 20:34:31) [GCC Intel(R) C++ gcc 8.3.1 mode] [2021-06-04 05:02:47,653] multiqc [INFO ] Searching : /scratch/gencore/logs/html/H5W5JDRXY/merged [2021-06-04 05:02:47,653] 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 [2021-06-04 05:02:47,653] multiqc [DEBUG ] Using temporary directory for creating report: /tmp/tmpmaq_3cig [2021-06-04 05:02:47,783] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: H5W5JDRXY_2_fastqc.html [2021-06-04 05:02:47,785] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: H5W5JDRXY_2_fastqc.html [2021-06-04 05:02:47,824] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: H5W5JDRXY_3_fastqc.html [2021-06-04 05:02:47,826] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: H5W5JDRXY_3_fastqc.html [2021-06-04 05:02:47,881] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: H5W5JDRXY_1_fastqc.html [2021-06-04 05:02:47,883] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: H5W5JDRXY_1_fastqc.html [2021-06-04 05:02:48,421] multiqc.plots.bargraph [DEBUG ] Using matplotlib version 3.3.2 [2021-06-04 05:02:48,423] multiqc.plots.linegraph [DEBUG ] Using matplotlib version 3.3.2 [2021-06-04 05:02:48,428] multiqc.modules.custom_content.custom_content [WARNING] Not able to parse custom data in undetermined_barcodes_mqc.txt [2021-06-04 05:02:48,429] multiqc.modules.custom_content.custom_content [INFO ] run_stats: Found 1 samples (table) [2021-06-04 05:02:48,434] multiqc [DEBUG ] No samples found: conpair [2021-06-04 05:02:48,439] multiqc [DEBUG ] No samples found: peddy [2021-06-04 05:02:48,444] multiqc [DEBUG ] No samples found: somalier [2021-06-04 05:02:48,448] multiqc [DEBUG ] No samples found: methylQA [2021-06-04 05:02:48,456] multiqc [DEBUG ] No samples found: mosdepth [2021-06-04 05:02:48,460] multiqc [DEBUG ] No samples found: phantompeakqualtools [2021-06-04 05:02:48,464] multiqc [DEBUG ] No samples found: qualimap [2021-06-04 05:02:48,468] multiqc [DEBUG ] No samples found: preseq [2021-06-04 05:02:48,474] multiqc [DEBUG ] No samples found: quast [2021-06-04 05:02:48,479] multiqc [DEBUG ] No samples found: qorts [2021-06-04 05:02:48,484] multiqc [DEBUG ] No samples found: rna_seqc [2021-06-04 05:02:48,488] multiqc [DEBUG ] No samples found: rockhopper [2021-06-04 05:02:48,493] multiqc [DEBUG ] No samples found: rsem [2021-06-04 05:02:48,505] multiqc [DEBUG ] No samples found: rseqc [2021-06-04 05:02:48,509] multiqc [DEBUG ] No samples found: busco [2021-06-04 05:02:48,514] multiqc [DEBUG ] No samples found: goleft_indexcov [2021-06-04 05:02:48,519] multiqc [DEBUG ] No samples found: disambiguate [2021-06-04 05:02:48,524] multiqc [DEBUG ] No samples found: supernova [2021-06-04 05:02:48,537] multiqc [DEBUG ] No samples found: deeptools [2021-06-04 05:02:48,541] multiqc [DEBUG ] No samples found: sargasso [2021-06-04 05:02:48,547] multiqc [DEBUG ] No samples found: verifybamid [2021-06-04 05:02:48,552] multiqc [DEBUG ] No samples found: mirtrace [2021-06-04 05:02:48,556] multiqc [DEBUG ] No samples found: happy [2021-06-04 05:02:48,561] multiqc [DEBUG ] No samples found: mirtop [2021-06-04 05:02:48,567] multiqc [DEBUG ] No samples found: homer [2021-06-04 05:02:48,572] multiqc [DEBUG ] No samples found: macs2 [2021-06-04 05:02:48,577] multiqc [DEBUG ] No samples found: theta2 [2021-06-04 05:02:48,581] multiqc [DEBUG ] No samples found: snpeff [2021-06-04 05:02:48,588] multiqc [DEBUG ] No samples found: gatk [2021-06-04 05:02:48,593] multiqc [DEBUG ] No samples found: htseq [2021-06-04 05:02:48,598] multiqc [DEBUG ] No samples found: bcftools [2021-06-04 05:02:48,603] multiqc [DEBUG ] No samples found: featureCounts [2021-06-04 05:02:48,609] multiqc [DEBUG ] No samples found: fgbio [2021-06-04 05:02:48,621] multiqc [DEBUG ] No samples found: dragen [2021-06-04 05:02:48,626] multiqc [DEBUG ] No samples found: dedup [2021-06-04 05:02:48,631] multiqc [DEBUG ] No samples found: damageprofiler [2021-06-04 05:02:48,652] multiqc [DEBUG ] No samples found: biobambam2 [2021-06-04 05:02:48,658] multiqc [DEBUG ] No samples found: mtnucratio [2021-06-04 05:02:48,660] multiqc [DEBUG ] No samples found: picard [2021-06-04 05:02:48,665] multiqc [DEBUG ] No samples found: prokka [2021-06-04 05:02:48,670] multiqc [DEBUG ] No samples found: samblaster [2021-06-04 05:02:48,679] multiqc [DEBUG ] No samples found: samtools [2021-06-04 05:02:48,683] multiqc [DEBUG ] No samples found: sexdeterrmine [2021-06-04 05:02:48,688] multiqc [DEBUG ] No samples found: bamtools [2021-06-04 05:02:48,693] multiqc [DEBUG ] No samples found: jellyfish [2021-06-04 05:02:48,700] multiqc [DEBUG ] No samples found: vcftools [2021-06-04 05:02:48,705] multiqc [DEBUG ] No samples found: longranger [2021-06-04 05:02:48,709] multiqc [DEBUG ] No samples found: stacks [2021-06-04 05:02:48,714] multiqc [DEBUG ] No samples found: varscan2 [2021-06-04 05:02:48,727] multiqc [DEBUG ] No samples found: bbmap [2021-06-04 05:02:48,732] multiqc [DEBUG ] No samples found: bismark [2021-06-04 05:02:48,737] multiqc [DEBUG ] No samples found: biscuit [2021-06-04 05:02:48,742] multiqc [DEBUG ] No samples found: hicexplorer [2021-06-04 05:02:48,747] multiqc [DEBUG ] No samples found: hicup [2021-06-04 05:02:48,752] multiqc [DEBUG ] No samples found: hicpro [2021-06-04 05:02:48,756] multiqc [DEBUG ] No samples found: salmon [2021-06-04 05:02:48,760] multiqc [DEBUG ] No samples found: kallisto [2021-06-04 05:02:48,765] multiqc [DEBUG ] No samples found: slamdunk [2021-06-04 05:02:48,770] multiqc [DEBUG ] No samples found: star [2021-06-04 05:02:48,774] multiqc [DEBUG ] No samples found: hisat2 [2021-06-04 05:02:48,779] multiqc [DEBUG ] No samples found: tophat [2021-06-04 05:02:48,784] multiqc [DEBUG ] No samples found: bowtie2 [2021-06-04 05:02:48,789] multiqc [DEBUG ] No samples found: bowtie1 [2021-06-04 05:02:48,794] multiqc [DEBUG ] No samples found: snpsplit [2021-06-04 05:02:48,798] multiqc [DEBUG ] No samples found: kat [2021-06-04 05:02:48,803] multiqc [DEBUG ] No samples found: leehom [2021-06-04 05:02:48,807] multiqc [DEBUG ] No samples found: adapterRemoval [2021-06-04 05:02:48,812] multiqc [DEBUG ] No samples found: clipandmerge [2021-06-04 05:02:48,816] multiqc [DEBUG ] No samples found: cutadapt [2021-06-04 05:02:48,821] multiqc [DEBUG ] No samples found: flexbar [2021-06-04 05:02:48,825] multiqc [DEBUG ] No samples found: kaiju [2021-06-04 05:02:48,829] multiqc [DEBUG ] No samples found: kraken [2021-06-04 05:02:48,834] multiqc [DEBUG ] No samples found: malt [2021-06-04 05:02:48,839] multiqc [DEBUG ] No samples found: trimmomatic [2021-06-04 05:02:48,844] multiqc [DEBUG ] No samples found: sickle [2021-06-04 05:02:48,849] multiqc [DEBUG ] No samples found: skewer [2021-06-04 05:02:48,853] multiqc [DEBUG ] No samples found: sortmerna [2021-06-04 05:02:48,857] multiqc [DEBUG ] No samples found: biobloomtools [2021-06-04 05:02:48,862] multiqc [DEBUG ] No samples found: fastq_screen [2021-06-04 05:02:48,867] multiqc [DEBUG ] No samples found: afterqc [2021-06-04 05:02:48,872] multiqc [DEBUG ] No samples found: fastp [2021-06-04 05:02:48,987] multiqc.modules.fastqc.fastqc [INFO ] Found 3 reports [2021-06-04 05:02:49,034] multiqc [DEBUG ] No samples found: pycoqc [2021-06-04 05:02:49,039] multiqc [DEBUG ] No samples found: minionqc [2021-06-04 05:02:49,044] multiqc [DEBUG ] No samples found: multivcfanalyzer [2021-06-04 05:02:49,049] multiqc [DEBUG ] No samples found: clusterflow [2021-06-04 05:02:49,053] multiqc [DEBUG ] No samples found: bcl2fastq [2021-06-04 05:02:49,058] multiqc [DEBUG ] No samples found: interop [2021-06-04 05:02:49,063] multiqc [DEBUG ] No samples found: ivar [2021-06-04 05:02:49,068] multiqc [DEBUG ] No samples found: flash [2021-06-04 05:02:49,072] multiqc [DEBUG ] No samples found: seqyclean [2021-06-04 05:02:49,072] multiqc [DEBUG ] Reordering sections: anchor 'demux_report' not found. [2021-06-04 05:02:49,072] multiqc [DEBUG ] Reordering sections: anchor 'demux_report' not found for module 'Run Statistics'. [2021-06-04 05:02:49,072] multiqc [DEBUG ] Reordering sections: anchor 'demux_report' not found for module 'FastQC'. [2021-06-04 05:02:49,077] multiqc [INFO ] Compressing plot data [2021-06-04 05:02:49,129] multiqc [INFO ] Report : multiqc_report.html [2021-06-04 05:02:49,130] multiqc [INFO ] Data : multiqc_data [2021-06-04 05:02:49,130] multiqc [DEBUG ] Moving data file from '/tmp/tmpmaq_3cig/multiqc_data' to '/scratch/gencore/logs/html/H5W5JDRXY/merged/multiqc_data' [2021-06-04 05:02:49,251] multiqc [INFO ] MultiQC complete