[2022-11-18 04:42:30,955] multiqc [DEBUG ] No MultiQC config found: /share/apps/multiqc/1.9/lib/python3.8/site-packages/multiqc_config.yaml
[2022-11-18 04:42:30,955] multiqc [DEBUG ] No MultiQC config found: /home/gencore/.multiqc_config.yaml
[2022-11-18 04:42:30,955] multiqc [DEBUG ] No MultiQC config found: multiqc_config.yaml
[2022-11-18 04:42:30,957] multiqc [DEBUG ] Loading config settings from: /home/gencore/SCRIPTS/hpcpipe/mqc_config.yaml
[2022-11-18 04:42:30,957] multiqc [DEBUG ] New config 'report_section_order': {'demux_report': {'after': 'run_stats'}}
[2022-11-18 04:42:30,957] multiqc [DEBUG ] Command used: /share/apps/multiqc/1.9/bin/multiqc -f -c /home/gencore/SCRIPTS/hpcpipe/mqc_config.yaml /scratch/gencore/logs/html/H3THJBGXN/merged
[2022-11-18 04:42:31,538] multiqc [WARNING] MultiQC Version v1.13 now available!
[2022-11-18 04:42:31,538] multiqc [INFO ] This is MultiQC v1.9
[2022-11-18 04:42:31,538] multiqc [DEBUG ] Command : /share/apps/multiqc/1.9/bin/multiqc -f -c /home/gencore/SCRIPTS/hpcpipe/mqc_config.yaml /scratch/gencore/logs/html/H3THJBGXN/merged
[2022-11-18 04:42:31,538] multiqc [DEBUG ] Working dir : /scratch/gencore/logs/html/H3THJBGXN/merged
[2022-11-18 04:42:31,539] multiqc [INFO ] Template : default
[2022-11-18 04:42:31,539] multiqc [DEBUG ] Running Python 3.8.6 (default, Oct 11 2020, 20:34:31) [GCC Intel(R) C++ gcc 8.3.1 mode]
[2022-11-18 04:42:31,539] multiqc [INFO ] Searching : /scratch/gencore/logs/html/H3THJBGXN/merged
[2022-11-18 04:42:31,540] 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
[2022-11-18 04:42:31,540] multiqc [DEBUG ] Using temporary directory for creating report: /state/partition1/job-27112103/tmpbb81e94p
[2022-11-18 04:42:31,659] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: undetermined_barcodes.txt
[2022-11-18 04:42:31,662] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: undetermined_barcodes.txt
[2022-11-18 04:42:32,129] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: H3THJBGXN_n01_YP21_fastqc.html
[2022-11-18 04:42:32,131] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: H3THJBGXN_n01_YP21_fastqc.html
[2022-11-18 04:42:32,183] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: H3THJBGXN_n01_YP13_fastqc.html
[2022-11-18 04:42:32,185] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: H3THJBGXN_n01_YP13_fastqc.html
[2022-11-18 04:42:32,239] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: H3THJBGXN_n01_YP16_fastqc.html
[2022-11-18 04:42:32,241] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: H3THJBGXN_n01_YP16_fastqc.html
[2022-11-18 04:42:32,293] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: H3THJBGXN_n01_YP20_fastqc.html
[2022-11-18 04:42:32,294] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: H3THJBGXN_n01_YP20_fastqc.html
[2022-11-18 04:42:32,346] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: H3THJBGXN_n01_YP15_fastqc.html
[2022-11-18 04:42:32,348] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: H3THJBGXN_n01_YP15_fastqc.html
[2022-11-18 04:42:32,399] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: H3THJBGXN_n01_YP23_fastqc.html
[2022-11-18 04:42:32,400] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: H3THJBGXN_n01_YP23_fastqc.html
[2022-11-18 04:42:32,452] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: H3THJBGXN_n01_YP24_fastqc.html
[2022-11-18 04:42:32,454] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: H3THJBGXN_n01_YP24_fastqc.html
[2022-11-18 04:42:32,506] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: H3THJBGXN_n01_YP19_fastqc.html
[2022-11-18 04:42:32,508] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: H3THJBGXN_n01_YP19_fastqc.html
[2022-11-18 04:42:32,560] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: H3THJBGXN_n01_undetermined_fastqc.html
[2022-11-18 04:42:32,562] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: H3THJBGXN_n01_undetermined_fastqc.html
[2022-11-18 04:42:32,607] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: H3THJBGXN_n01_YP22_fastqc.html
[2022-11-18 04:42:32,608] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: H3THJBGXN_n01_YP22_fastqc.html
[2022-11-18 04:42:32,661] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: H3THJBGXN_n01_YP17_fastqc.html
[2022-11-18 04:42:32,662] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: H3THJBGXN_n01_YP17_fastqc.html
[2022-11-18 04:42:32,714] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: H3THJBGXN_n01_YP14_fastqc.html
[2022-11-18 04:42:32,716] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: H3THJBGXN_n01_YP14_fastqc.html
[2022-11-18 04:42:32,768] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: H3THJBGXN_n01_YP18_fastqc.html
[2022-11-18 04:42:32,770] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: H3THJBGXN_n01_YP18_fastqc.html
[2022-11-18 04:42:33,429] multiqc.plots.bargraph [DEBUG ] Using matplotlib version 3.3.2
[2022-11-18 04:42:33,431] multiqc.plots.linegraph [DEBUG ] Using matplotlib version 3.3.2
[2022-11-18 04:42:33,439] multiqc.modules.custom_content.custom_content [INFO ] run_stats: Found 1 samples (table)
[2022-11-18 04:42:33,449] multiqc.modules.custom_content.custom_content [INFO ] undetermined_barcodes: Found 20 samples (table)
[2022-11-18 04:42:33,455] multiqc.modules.custom_content.custom_content [INFO ] demux_report: Found 13 samples (table)
[2022-11-18 04:42:33,461] multiqc [DEBUG ] No samples found: conpair
[2022-11-18 04:42:33,466] multiqc [DEBUG ] No samples found: peddy
[2022-11-18 04:42:33,472] multiqc [DEBUG ] No samples found: somalier
[2022-11-18 04:42:33,478] multiqc [DEBUG ] No samples found: methylQA
[2022-11-18 04:42:33,488] multiqc [DEBUG ] No samples found: mosdepth
[2022-11-18 04:42:33,493] multiqc [DEBUG ] No samples found: phantompeakqualtools
[2022-11-18 04:42:33,497] multiqc [DEBUG ] No samples found: qualimap
[2022-11-18 04:42:33,502] multiqc [DEBUG ] No samples found: preseq
[2022-11-18 04:42:33,508] multiqc [DEBUG ] No samples found: quast
[2022-11-18 04:42:33,513] multiqc [DEBUG ] No samples found: qorts
[2022-11-18 04:42:33,519] multiqc [DEBUG ] No samples found: rna_seqc
[2022-11-18 04:42:33,524] multiqc [DEBUG ] No samples found: rockhopper
[2022-11-18 04:42:33,530] multiqc [DEBUG ] No samples found: rsem
[2022-11-18 04:42:33,542] multiqc [DEBUG ] No samples found: rseqc
[2022-11-18 04:42:33,547] multiqc [DEBUG ] No samples found: busco
[2022-11-18 04:42:33,552] multiqc [DEBUG ] No samples found: goleft_indexcov
[2022-11-18 04:42:33,557] multiqc [DEBUG ] No samples found: disambiguate
[2022-11-18 04:42:33,563] multiqc [DEBUG ] No samples found: supernova
[2022-11-18 04:42:33,577] multiqc [DEBUG ] No samples found: deeptools
[2022-11-18 04:42:33,582] multiqc [DEBUG ] No samples found: sargasso
[2022-11-18 04:42:33,588] multiqc [DEBUG ] No samples found: verifybamid
[2022-11-18 04:42:33,593] multiqc [DEBUG ] No samples found: mirtrace
[2022-11-18 04:42:33,599] multiqc [DEBUG ] No samples found: happy
[2022-11-18 04:42:33,604] multiqc [DEBUG ] No samples found: mirtop
[2022-11-18 04:42:33,612] multiqc [DEBUG ] No samples found: homer
[2022-11-18 04:42:33,617] multiqc [DEBUG ] No samples found: macs2
[2022-11-18 04:42:33,622] multiqc [DEBUG ] No samples found: theta2
[2022-11-18 04:42:33,627] multiqc [DEBUG ] No samples found: snpeff
[2022-11-18 04:42:33,635] multiqc [DEBUG ] No samples found: gatk
[2022-11-18 04:42:33,640] multiqc [DEBUG ] No samples found: htseq
[2022-11-18 04:42:33,647] multiqc [DEBUG ] No samples found: bcftools
[2022-11-18 04:42:33,652] multiqc [DEBUG ] No samples found: featureCounts
[2022-11-18 04:42:33,659] multiqc [DEBUG ] No samples found: fgbio
[2022-11-18 04:42:33,673] multiqc [DEBUG ] No samples found: dragen
[2022-11-18 04:42:33,679] multiqc [DEBUG ] No samples found: dedup
[2022-11-18 04:42:33,684] multiqc [DEBUG ] No samples found: damageprofiler
[2022-11-18 04:42:33,709] multiqc [DEBUG ] No samples found: biobambam2
[2022-11-18 04:42:33,715] multiqc [DEBUG ] No samples found: mtnucratio
[2022-11-18 04:42:33,717] multiqc [DEBUG ] No samples found: picard
[2022-11-18 04:42:33,722] multiqc [DEBUG ] No samples found: prokka
[2022-11-18 04:42:33,727] multiqc [DEBUG ] No samples found: samblaster
[2022-11-18 04:42:33,739] multiqc [DEBUG ] No samples found: samtools
[2022-11-18 04:42:33,749] multiqc [DEBUG ] No samples found: sexdeterrmine
[2022-11-18 04:42:33,758] multiqc [DEBUG ] No samples found: bamtools
[2022-11-18 04:42:33,763] multiqc [DEBUG ] No samples found: jellyfish
[2022-11-18 04:42:33,771] multiqc [DEBUG ] No samples found: vcftools
[2022-11-18 04:42:33,777] multiqc [DEBUG ] No samples found: longranger
[2022-11-18 04:42:33,782] multiqc [DEBUG ] No samples found: stacks
[2022-11-18 04:42:33,787] multiqc [DEBUG ] No samples found: varscan2
[2022-11-18 04:42:33,802] multiqc [DEBUG ] No samples found: bbmap
[2022-11-18 04:42:33,807] multiqc [DEBUG ] No samples found: bismark
[2022-11-18 04:42:33,813] multiqc [DEBUG ] No samples found: biscuit
[2022-11-18 04:42:33,819] multiqc [DEBUG ] No samples found: hicexplorer
[2022-11-18 04:42:33,824] multiqc [DEBUG ] No samples found: hicup
[2022-11-18 04:42:33,829] multiqc [DEBUG ] No samples found: hicpro
[2022-11-18 04:42:33,835] multiqc [DEBUG ] No samples found: salmon
[2022-11-18 04:42:33,840] multiqc [DEBUG ] No samples found: kallisto
[2022-11-18 04:42:33,845] multiqc [DEBUG ] No samples found: slamdunk
[2022-11-18 04:42:33,851] multiqc [DEBUG ] No samples found: star
[2022-11-18 04:42:33,856] multiqc [DEBUG ] No samples found: hisat2
[2022-11-18 04:42:33,862] multiqc [DEBUG ] No samples found: tophat
[2022-11-18 04:42:33,868] multiqc [DEBUG ] No samples found: bowtie2
[2022-11-18 04:42:33,875] multiqc [DEBUG ] No samples found: bowtie1
[2022-11-18 04:42:33,882] multiqc [DEBUG ] No samples found: snpsplit
[2022-11-18 04:42:33,887] multiqc [DEBUG ] No samples found: kat
[2022-11-18 04:42:33,894] multiqc [DEBUG ] No samples found: leehom
[2022-11-18 04:42:33,902] multiqc [DEBUG ] No samples found: adapterRemoval
[2022-11-18 04:42:33,907] multiqc [DEBUG ] No samples found: clipandmerge
[2022-11-18 04:42:33,915] multiqc [DEBUG ] No samples found: cutadapt
[2022-11-18 04:42:33,920] multiqc [DEBUG ] No samples found: flexbar
[2022-11-18 04:42:33,930] multiqc [DEBUG ] No samples found: kaiju
[2022-11-18 04:42:33,943] multiqc [DEBUG ] No samples found: kraken
[2022-11-18 04:42:33,953] multiqc [DEBUG ] No samples found: malt
[2022-11-18 04:42:33,962] multiqc [DEBUG ] No samples found: trimmomatic
[2022-11-18 04:42:33,970] multiqc [DEBUG ] No samples found: sickle
[2022-11-18 04:42:33,978] multiqc [DEBUG ] No samples found: skewer
[2022-11-18 04:42:33,984] multiqc [DEBUG ] No samples found: sortmerna
[2022-11-18 04:42:33,990] multiqc [DEBUG ] No samples found: biobloomtools
[2022-11-18 04:42:33,999] multiqc [DEBUG ] No samples found: fastq_screen
[2022-11-18 04:42:34,007] multiqc [DEBUG ] No samples found: afterqc
[2022-11-18 04:42:34,014] multiqc [DEBUG ] No samples found: fastp
[2022-11-18 04:42:34,800] multiqc.modules.fastqc.fastqc [INFO ] Found 13 reports
[2022-11-18 04:42:34,970] multiqc [DEBUG ] No samples found: pycoqc
[2022-11-18 04:42:34,978] multiqc [DEBUG ] No samples found: minionqc
[2022-11-18 04:42:34,984] multiqc [DEBUG ] No samples found: multivcfanalyzer
[2022-11-18 04:42:34,990] multiqc [DEBUG ] No samples found: clusterflow
[2022-11-18 04:42:34,996] multiqc [DEBUG ] No samples found: bcl2fastq
[2022-11-18 04:42:35,002] multiqc [DEBUG ] No samples found: interop
[2022-11-18 04:42:35,008] multiqc [DEBUG ] No samples found: ivar
[2022-11-18 04:42:35,014] multiqc [DEBUG ] No samples found: flash
[2022-11-18 04:42:35,019] multiqc [DEBUG ] No samples found: seqyclean
[2022-11-18 04:42:35,020] multiqc [DEBUG ] Reordering sections: anchor 'demux_report' not found for module 'Demultiplexing Report'.
[2022-11-18 04:42:35,020] multiqc [DEBUG ] Reordering sections: anchor 'demux_report' not found for module 'Run Statistics'.
[2022-11-18 04:42:35,020] multiqc [DEBUG ] Reordering sections: anchor 'demux_report' not found for module ' Barcodes of Undetermined Reads'.
[2022-11-18 04:42:35,020] multiqc [DEBUG ] Reordering sections: anchor 'demux_report' not found for module 'FastQC'.
[2022-11-18 04:42:35,035] multiqc [INFO ] Compressing plot data
[2022-11-18 04:42:35,229] multiqc [INFO ] Report : multiqc_report.html
[2022-11-18 04:42:35,230] multiqc [INFO ] Data : multiqc_data
[2022-11-18 04:42:35,230] multiqc [DEBUG ] Moving data file from '/state/partition1/job-27112103/tmpbb81e94p/multiqc_data' to '/scratch/gencore/logs/html/H3THJBGXN/merged/multiqc_data'
[2022-11-18 04:42:35,405] multiqc [INFO ] MultiQC complete