[2021-12-13 23:39:26,519] multiqc [DEBUG ] No MultiQC config found: /share/apps/multiqc/1.9/lib/python3.8/site-packages/multiqc_config.yaml [2021-12-13 23:39:26,519] multiqc [DEBUG ] No MultiQC config found: /home/gencore/.multiqc_config.yaml [2021-12-13 23:39:26,519] multiqc [DEBUG ] No MultiQC config found: multiqc_config.yaml [2021-12-13 23:39:26,520] multiqc [DEBUG ] Loading config settings from: /home/gencore/SCRIPTS/hpcpipe/mqc_config.yaml [2021-12-13 23:39:26,520] multiqc [DEBUG ] New config 'report_section_order': {'demux_report': {'after': 'run_stats'}} [2021-12-13 23:39:26,520] multiqc [DEBUG ] Command used: /share/apps/multiqc/1.9/bin/multiqc -f -c /home/gencore/SCRIPTS/hpcpipe/mqc_config.yaml /scratch/gencore/logs/html/HNWTNBGXK/merged [2021-12-13 23:39:28,047] multiqc [WARNING] MultiQC Version v1.11 now available! [2021-12-13 23:39:28,047] multiqc [INFO ] This is MultiQC v1.9 [2021-12-13 23:39:28,047] multiqc [DEBUG ] Command : /share/apps/multiqc/1.9/bin/multiqc -f -c /home/gencore/SCRIPTS/hpcpipe/mqc_config.yaml /scratch/gencore/logs/html/HNWTNBGXK/merged [2021-12-13 23:39:28,047] multiqc [DEBUG ] Working dir : /scratch/gencore/logs/html/HNWTNBGXK/merged [2021-12-13 23:39:28,047] multiqc [INFO ] Template : default [2021-12-13 23:39:28,047] multiqc [DEBUG ] Running Python 3.8.6 (default, Oct 11 2020, 20:34:31) [GCC Intel(R) C++ gcc 8.3.1 mode] [2021-12-13 23:39:28,047] multiqc [INFO ] Searching : /scratch/gencore/logs/html/HNWTNBGXK/merged [2021-12-13 23:39:28,047] 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 [2021-12-13 23:39:28,047] multiqc [DEBUG ] Using temporary directory for creating report: /state/partition1/job-13036448/tmp9jchdtxi [2021-12-13 23:39:28,152] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: HNWTNBGXK_n01_DecB3_5_fastqc.html [2021-12-13 23:39:28,155] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded 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HNWTNBGXK_n01_DecB1_6_fastqc.html [2021-12-13 23:39:31,109] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: HNWTNBGXK_n01_DecB1_6_fastqc.html [2021-12-13 23:39:31,153] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: HNWTNBGXK_n01_DecB2_6_fastqc.html [2021-12-13 23:39:31,155] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: HNWTNBGXK_n01_DecB2_6_fastqc.html [2021-12-13 23:39:31,199] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: HNWTNBGXK_n01_DecB3_7_fastqc.html [2021-12-13 23:39:31,201] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: HNWTNBGXK_n01_DecB3_7_fastqc.html [2021-12-13 23:39:31,247] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: HNWTNBGXK_n01_DecB2_11_fastqc.html [2021-12-13 23:39:31,248] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: HNWTNBGXK_n01_DecB2_11_fastqc.html [2021-12-13 23:39:31,293] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: HNWTNBGXK_n01_DecB1_4_fastqc.html [2021-12-13 23:39:31,294] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: HNWTNBGXK_n01_DecB1_4_fastqc.html [2021-12-13 23:39:31,339] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: HNWTNBGXK_n01_DecB1_10_fastqc.html [2021-12-13 23:39:31,341] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: HNWTNBGXK_n01_DecB1_10_fastqc.html [2021-12-13 23:39:31,801] multiqc.plots.bargraph [DEBUG ] Using matplotlib version 3.3.2 [2021-12-13 23:39:31,802] multiqc.plots.linegraph [DEBUG ] Using matplotlib version 3.3.2 [2021-12-13 23:39:31,810] multiqc.modules.custom_content.custom_content [INFO ] run_stats: Found 1 samples (table) [2021-12-13 23:39:31,820] multiqc.modules.custom_content.custom_content [INFO ] undetermined_barcodes: Found 20 samples (table) [2021-12-13 23:39:31,850] multiqc.modules.custom_content.custom_content [INFO ] demux_report: Found 66 samples (table) [2021-12-13 23:39:31,855] multiqc [DEBUG ] No samples found: conpair [2021-12-13 23:39:31,859] multiqc [DEBUG ] No samples found: peddy [2021-12-13 23:39:31,864] multiqc [DEBUG ] No samples found: somalier [2021-12-13 23:39:31,869] multiqc [DEBUG ] No samples found: methylQA [2021-12-13 23:39:31,878] multiqc [DEBUG ] No samples found: mosdepth [2021-12-13 23:39:31,883] multiqc [DEBUG ] No samples found: phantompeakqualtools [2021-12-13 23:39:31,886] multiqc [DEBUG ] No samples found: qualimap [2021-12-13 23:39:31,891] multiqc [DEBUG ] No samples found: preseq [2021-12-13 23:39:31,896] multiqc [DEBUG ] No samples found: quast [2021-12-13 23:39:31,901] multiqc [DEBUG ] No samples found: qorts [2021-12-13 23:39:31,906] multiqc [DEBUG ] No samples found: rna_seqc [2021-12-13 23:39:31,910] multiqc [DEBUG ] No samples found: rockhopper [2021-12-13 23:39:31,915] multiqc [DEBUG ] No samples found: rsem [2021-12-13 23:39:31,927] multiqc [DEBUG ] No samples found: rseqc [2021-12-13 23:39:31,932] multiqc [DEBUG ] No samples found: busco [2021-12-13 23:39:31,937] multiqc [DEBUG ] No samples found: goleft_indexcov [2021-12-13 23:39:31,941] multiqc [DEBUG ] No samples found: disambiguate [2021-12-13 23:39:31,946] multiqc [DEBUG ] No samples found: supernova [2021-12-13 23:39:31,961] multiqc [DEBUG ] No samples found: deeptools [2021-12-13 23:39:31,966] multiqc [DEBUG ] No samples found: sargasso [2021-12-13 23:39:31,970] multiqc [DEBUG ] No samples found: verifybamid [2021-12-13 23:39:31,975] multiqc [DEBUG ] No samples found: mirtrace [2021-12-13 23:39:31,980] multiqc [DEBUG ] No samples found: happy [2021-12-13 23:39:31,985] multiqc [DEBUG ] No samples found: mirtop [2021-12-13 23:39:31,992] multiqc [DEBUG ] No samples found: homer [2021-12-13 23:39:31,997] multiqc [DEBUG ] No samples found: macs2 [2021-12-13 23:39:32,002] multiqc [DEBUG ] No samples found: theta2 [2021-12-13 23:39:32,007] multiqc [DEBUG ] No samples found: snpeff [2021-12-13 23:39:32,014] multiqc [DEBUG ] No samples found: gatk [2021-12-13 23:39:32,020] multiqc [DEBUG ] No samples found: htseq [2021-12-13 23:39:32,026] multiqc [DEBUG ] No samples found: bcftools [2021-12-13 23:39:32,031] multiqc [DEBUG ] No samples found: featureCounts [2021-12-13 23:39:32,037] multiqc [DEBUG ] No samples found: fgbio [2021-12-13 23:39:32,049] multiqc [DEBUG ] No samples found: dragen [2021-12-13 23:39:32,054] multiqc [DEBUG ] No samples found: dedup [2021-12-13 23:39:32,058] multiqc [DEBUG ] No samples found: damageprofiler [2021-12-13 23:39:32,078] multiqc [DEBUG ] No samples found: biobambam2 [2021-12-13 23:39:32,083] multiqc [DEBUG ] No samples found: mtnucratio [2021-12-13 23:39:32,085] multiqc [DEBUG ] No samples found: picard [2021-12-13 23:39:32,091] multiqc [DEBUG ] No samples found: prokka [2021-12-13 23:39:32,095] multiqc [DEBUG ] No samples found: samblaster [2021-12-13 23:39:32,103] multiqc [DEBUG ] No samples found: samtools [2021-12-13 23:39:32,108] multiqc [DEBUG ] No samples found: sexdeterrmine [2021-12-13 23:39:32,113] multiqc [DEBUG ] No samples found: bamtools [2021-12-13 23:39:32,119] multiqc [DEBUG ] No samples found: jellyfish [2021-12-13 23:39:32,127] multiqc [DEBUG ] No samples found: vcftools [2021-12-13 23:39:32,132] multiqc [DEBUG ] No samples found: longranger [2021-12-13 23:39:32,136] multiqc [DEBUG ] No samples found: stacks [2021-12-13 23:39:32,143] multiqc [DEBUG ] No samples found: varscan2 [2021-12-13 23:39:32,158] multiqc [DEBUG ] No samples found: bbmap [2021-12-13 23:39:32,165] multiqc [DEBUG ] No samples found: bismark [2021-12-13 23:39:32,169] multiqc [DEBUG ] No samples found: biscuit [2021-12-13 23:39:32,175] multiqc [DEBUG ] No samples found: hicexplorer [2021-12-13 23:39:32,180] multiqc [DEBUG ] No samples found: hicup [2021-12-13 23:39:32,185] multiqc [DEBUG ] No samples found: hicpro [2021-12-13 23:39:32,189] multiqc [DEBUG ] No samples found: salmon [2021-12-13 23:39:32,194] multiqc [DEBUG ] No samples found: kallisto [2021-12-13 23:39:32,199] multiqc [DEBUG ] No samples found: slamdunk [2021-12-13 23:39:32,204] multiqc [DEBUG ] No samples found: star [2021-12-13 23:39:32,208] multiqc [DEBUG ] No samples found: hisat2 [2021-12-13 23:39:32,212] multiqc [DEBUG ] No samples found: tophat [2021-12-13 23:39:32,219] multiqc [DEBUG ] No samples found: bowtie2 [2021-12-13 23:39:32,223] multiqc [DEBUG ] No samples found: bowtie1 [2021-12-13 23:39:32,229] multiqc [DEBUG ] No samples found: snpsplit [2021-12-13 23:39:32,233] multiqc [DEBUG ] No samples found: kat [2021-12-13 23:39:32,238] multiqc [DEBUG ] No samples found: leehom [2021-12-13 23:39:32,243] multiqc [DEBUG ] No samples found: adapterRemoval [2021-12-13 23:39:32,248] multiqc [DEBUG ] No samples found: clipandmerge [2021-12-13 23:39:32,255] multiqc [DEBUG ] No samples found: cutadapt [2021-12-13 23:39:32,259] multiqc [DEBUG ] No samples found: flexbar [2021-12-13 23:39:32,263] multiqc [DEBUG ] No samples found: kaiju [2021-12-13 23:39:32,268] multiqc [DEBUG ] No samples found: kraken [2021-12-13 23:39:32,274] multiqc [DEBUG ] No samples found: malt [2021-12-13 23:39:32,279] multiqc [DEBUG ] No samples found: trimmomatic [2021-12-13 23:39:32,285] multiqc [DEBUG ] No samples found: sickle [2021-12-13 23:39:32,290] multiqc [DEBUG ] No samples found: skewer [2021-12-13 23:39:32,294] multiqc [DEBUG ] No samples found: sortmerna [2021-12-13 23:39:32,300] multiqc [DEBUG ] No samples found: biobloomtools [2021-12-13 23:39:32,305] multiqc [DEBUG ] No samples found: fastq_screen [2021-12-13 23:39:32,309] multiqc [DEBUG ] No samples found: afterqc [2021-12-13 23:39:32,314] multiqc [DEBUG ] No samples found: fastp [2021-12-13 23:39:36,859] multiqc.modules.fastqc.fastqc [INFO ] Found 66 reports [2021-12-13 23:39:38,202] multiqc [DEBUG ] No samples found: pycoqc [2021-12-13 23:39:38,206] multiqc [DEBUG ] No samples found: minionqc [2021-12-13 23:39:38,212] multiqc [DEBUG ] No samples found: multivcfanalyzer [2021-12-13 23:39:38,218] multiqc [DEBUG ] No samples found: clusterflow [2021-12-13 23:39:38,224] multiqc [DEBUG ] No samples found: bcl2fastq [2021-12-13 23:39:38,229] multiqc [DEBUG ] No samples found: interop [2021-12-13 23:39:38,233] multiqc [DEBUG ] No samples found: ivar [2021-12-13 23:39:38,238] multiqc [DEBUG ] No samples found: flash [2021-12-13 23:39:38,242] multiqc [DEBUG ] No samples found: seqyclean [2021-12-13 23:39:38,242] multiqc [DEBUG ] Reordering sections: anchor 'demux_report' not found for module 'Demultiplexing Report'. [2021-12-13 23:39:38,242] multiqc [DEBUG ] Reordering sections: anchor 'demux_report' not found for module 'Run Statistics'. [2021-12-13 23:39:38,242] multiqc [DEBUG ] Reordering sections: anchor 'demux_report' not found for module ' Barcodes of Undetermined Reads'. [2021-12-13 23:39:38,242] multiqc [DEBUG ] Reordering sections: anchor 'demux_report' not found for module 'FastQC'. [2021-12-13 23:39:38,319] multiqc [INFO ] Compressing plot data [2021-12-13 23:39:39,467] multiqc [INFO ] Report : multiqc_report.html [2021-12-13 23:39:39,468] multiqc [INFO ] Data : multiqc_data [2021-12-13 23:39:39,468] multiqc [DEBUG ] Moving data file from '/state/partition1/job-13036448/tmp9jchdtxi/multiqc_data' to '/scratch/gencore/logs/html/HNWTNBGXK/merged/multiqc_data' [2021-12-13 23:39:39,589] multiqc [INFO ] MultiQC complete