[2022-07-12 01:18:14,801] multiqc [DEBUG ] No MultiQC config found: /share/apps/multiqc/1.9/lib/python3.8/site-packages/multiqc_config.yaml [2022-07-12 01:18:14,801] multiqc [DEBUG ] No MultiQC config found: /home/gencore/.multiqc_config.yaml [2022-07-12 01:18:14,801] multiqc [DEBUG ] No MultiQC config found: multiqc_config.yaml [2022-07-12 01:18:14,802] multiqc [DEBUG ] Loading config settings from: /home/gencore/SCRIPTS/hpcpipe/mqc_config.yaml [2022-07-12 01:18:14,802] multiqc [DEBUG ] New config 'report_section_order': {'demux_report': {'after': 'run_stats'}} [2022-07-12 01:18:14,802] multiqc [DEBUG ] Command used: /share/apps/multiqc/1.9/bin/multiqc -f -c /home/gencore/SCRIPTS/hpcpipe/mqc_config.yaml /scratch/gencore/logs/html/HT35NAFX3/merged [2022-07-12 01:18:15,648] multiqc [WARNING] MultiQC Version v1.12 now available! [2022-07-12 01:18:15,648] multiqc [INFO ] This is MultiQC v1.9 [2022-07-12 01:18:15,648] multiqc [DEBUG ] Command : /share/apps/multiqc/1.9/bin/multiqc -f -c /home/gencore/SCRIPTS/hpcpipe/mqc_config.yaml /scratch/gencore/logs/html/HT35NAFX3/merged [2022-07-12 01:18:15,648] multiqc [DEBUG ] Working dir : /scratch/gencore/logs/html/HT35NAFX3/merged [2022-07-12 01:18:15,648] multiqc [INFO ] Template : default [2022-07-12 01:18:15,648] multiqc [DEBUG ] Running Python 3.8.6 (default, Oct 11 2020, 20:34:31) [GCC Intel(R) C++ gcc 8.3.1 mode] [2022-07-12 01:18:15,648] multiqc [INFO ] Searching : /scratch/gencore/logs/html/HT35NAFX3/merged [2022-07-12 01:18:15,649] 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 [2022-07-12 01:18:15,649] multiqc [DEBUG ] Using temporary directory for creating report: /state/partition1/job-22051306/tmpu29r8p65 [2022-07-12 01:18:15,796] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: HT35NAFX3_3_fastqc.html [2022-07-12 01:18:15,797] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: HT35NAFX3_3_fastqc.html [2022-07-12 01:18:15,859] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: HT35NAFX3_1_fastqc.html [2022-07-12 01:18:15,861] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: HT35NAFX3_1_fastqc.html [2022-07-12 01:18:15,917] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: HT35NAFX3_2_fastqc.html [2022-07-12 01:18:15,919] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: HT35NAFX3_2_fastqc.html [2022-07-12 01:18:15,962] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: HT35NAFX3_4_fastqc.html [2022-07-12 01:18:15,964] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: HT35NAFX3_4_fastqc.html [2022-07-12 01:18:16,296] multiqc.plots.bargraph [DEBUG ] Using matplotlib version 3.3.2 [2022-07-12 01:18:16,300] multiqc.plots.linegraph [DEBUG ] Using matplotlib version 3.3.2 [2022-07-12 01:18:16,305] multiqc.modules.custom_content.custom_content [WARNING] Not able to parse custom data in undetermined_barcodes_mqc.txt [2022-07-12 01:18:16,306] multiqc.modules.custom_content.custom_content [INFO ] run_stats: Found 1 samples (table) [2022-07-12 01:18:16,311] multiqc [DEBUG ] No samples found: conpair [2022-07-12 01:18:16,316] multiqc [DEBUG ] No samples found: peddy [2022-07-12 01:18:16,321] multiqc [DEBUG ] No samples found: somalier [2022-07-12 01:18:16,326] multiqc [DEBUG ] No samples found: methylQA [2022-07-12 01:18:16,335] multiqc [DEBUG ] No samples found: mosdepth [2022-07-12 01:18:16,339] multiqc [DEBUG ] No samples found: phantompeakqualtools [2022-07-12 01:18:16,343] multiqc [DEBUG ] No samples found: qualimap [2022-07-12 01:18:16,348] multiqc [DEBUG ] No samples found: preseq [2022-07-12 01:18:16,353] multiqc [DEBUG ] No samples found: quast [2022-07-12 01:18:16,358] multiqc [DEBUG ] No samples found: qorts [2022-07-12 01:18:16,363] multiqc [DEBUG ] No samples found: rna_seqc [2022-07-12 01:18:16,368] multiqc [DEBUG ] No samples found: rockhopper [2022-07-12 01:18:16,373] multiqc [DEBUG ] No samples found: rsem [2022-07-12 01:18:16,384] multiqc [DEBUG ] No samples found: rseqc [2022-07-12 01:18:16,388] multiqc [DEBUG ] No samples found: busco [2022-07-12 01:18:16,393] multiqc [DEBUG ] No samples found: goleft_indexcov [2022-07-12 01:18:16,398] multiqc [DEBUG ] No samples found: disambiguate [2022-07-12 01:18:16,403] multiqc [DEBUG ] No samples found: supernova [2022-07-12 01:18:16,415] multiqc [DEBUG ] No samples found: deeptools [2022-07-12 01:18:16,420] multiqc [DEBUG ] No samples found: sargasso [2022-07-12 01:18:16,425] multiqc [DEBUG ] No samples found: verifybamid [2022-07-12 01:18:16,430] multiqc [DEBUG ] No samples found: mirtrace [2022-07-12 01:18:16,435] multiqc [DEBUG ] No samples found: happy [2022-07-12 01:18:16,440] multiqc [DEBUG ] No samples found: mirtop [2022-07-12 01:18:16,446] multiqc [DEBUG ] No samples found: homer [2022-07-12 01:18:16,451] multiqc [DEBUG ] No samples found: macs2 [2022-07-12 01:18:16,456] multiqc [DEBUG ] No samples found: theta2 [2022-07-12 01:18:16,460] multiqc [DEBUG ] No samples found: snpeff [2022-07-12 01:18:16,467] multiqc [DEBUG ] No samples found: gatk [2022-07-12 01:18:16,472] multiqc [DEBUG ] No samples found: htseq [2022-07-12 01:18:16,477] multiqc [DEBUG ] No samples found: bcftools [2022-07-12 01:18:16,482] multiqc [DEBUG ] No samples found: featureCounts [2022-07-12 01:18:16,489] multiqc [DEBUG ] No samples found: fgbio [2022-07-12 01:18:16,502] multiqc [DEBUG ] No samples found: dragen [2022-07-12 01:18:16,506] multiqc [DEBUG ] No samples found: dedup [2022-07-12 01:18:16,511] multiqc [DEBUG ] No samples found: damageprofiler [2022-07-12 01:18:16,535] multiqc [DEBUG ] No samples found: biobambam2 [2022-07-12 01:18:16,539] multiqc [DEBUG ] No samples found: mtnucratio [2022-07-12 01:18:16,542] multiqc [DEBUG ] No samples found: picard [2022-07-12 01:18:16,547] multiqc [DEBUG ] No samples found: prokka [2022-07-12 01:18:16,551] multiqc [DEBUG ] No samples found: samblaster [2022-07-12 01:18:16,559] multiqc [DEBUG ] No samples found: samtools [2022-07-12 01:18:16,564] multiqc [DEBUG ] No samples found: sexdeterrmine [2022-07-12 01:18:16,569] multiqc [DEBUG ] No samples found: bamtools [2022-07-12 01:18:16,574] multiqc [DEBUG ] No samples found: jellyfish [2022-07-12 01:18:16,581] multiqc [DEBUG ] No samples found: vcftools [2022-07-12 01:18:16,586] multiqc [DEBUG ] No samples found: longranger [2022-07-12 01:18:16,591] multiqc [DEBUG ] No samples found: stacks [2022-07-12 01:18:16,596] multiqc [DEBUG ] No samples found: varscan2 [2022-07-12 01:18:16,609] multiqc [DEBUG ] No samples found: bbmap [2022-07-12 01:18:16,614] multiqc [DEBUG ] No samples found: bismark [2022-07-12 01:18:16,619] multiqc [DEBUG ] No samples found: biscuit [2022-07-12 01:18:16,624] multiqc [DEBUG ] No samples found: hicexplorer [2022-07-12 01:18:16,629] multiqc [DEBUG ] No samples found: hicup [2022-07-12 01:18:16,634] multiqc [DEBUG ] No samples found: hicpro [2022-07-12 01:18:16,639] multiqc [DEBUG ] No samples found: salmon [2022-07-12 01:18:16,644] multiqc [DEBUG ] No samples found: kallisto [2022-07-12 01:18:16,649] multiqc [DEBUG ] No samples found: slamdunk [2022-07-12 01:18:16,653] multiqc [DEBUG ] No samples found: star [2022-07-12 01:18:16,658] multiqc [DEBUG ] No samples found: hisat2 [2022-07-12 01:18:16,663] multiqc [DEBUG ] No samples found: tophat [2022-07-12 01:18:16,668] multiqc [DEBUG ] No samples found: bowtie2 [2022-07-12 01:18:16,673] multiqc [DEBUG ] No samples found: bowtie1 [2022-07-12 01:18:16,677] multiqc [DEBUG ] No samples found: snpsplit [2022-07-12 01:18:16,682] multiqc [DEBUG ] No samples found: kat [2022-07-12 01:18:16,686] multiqc [DEBUG ] No samples found: leehom [2022-07-12 01:18:16,691] multiqc [DEBUG ] No samples found: adapterRemoval [2022-07-12 01:18:16,696] multiqc [DEBUG ] No samples found: clipandmerge [2022-07-12 01:18:16,700] multiqc [DEBUG ] No samples found: cutadapt [2022-07-12 01:18:16,705] multiqc [DEBUG ] No samples found: flexbar [2022-07-12 01:18:16,710] multiqc [DEBUG ] No samples found: kaiju [2022-07-12 01:18:16,715] multiqc [DEBUG ] No samples found: kraken [2022-07-12 01:18:16,720] multiqc [DEBUG ] No samples found: malt [2022-07-12 01:18:16,724] multiqc [DEBUG ] No samples found: trimmomatic [2022-07-12 01:18:16,729] multiqc [DEBUG ] No samples found: sickle [2022-07-12 01:18:16,734] multiqc [DEBUG ] No samples found: skewer [2022-07-12 01:18:16,738] multiqc [DEBUG ] No samples found: sortmerna [2022-07-12 01:18:16,742] multiqc [DEBUG ] No samples found: biobloomtools [2022-07-12 01:18:16,747] multiqc [DEBUG ] No samples found: fastq_screen [2022-07-12 01:18:16,752] multiqc [DEBUG ] No samples found: afterqc [2022-07-12 01:18:16,757] multiqc [DEBUG ] No samples found: fastp [2022-07-12 01:18:16,953] multiqc.modules.fastqc.fastqc [INFO ] Found 4 reports [2022-07-12 01:18:16,998] multiqc [DEBUG ] No samples found: pycoqc [2022-07-12 01:18:17,003] multiqc [DEBUG ] No samples found: minionqc [2022-07-12 01:18:17,007] multiqc [DEBUG ] No samples found: multivcfanalyzer [2022-07-12 01:18:17,015] multiqc [DEBUG ] No samples found: clusterflow [2022-07-12 01:18:17,020] multiqc [DEBUG ] No samples found: bcl2fastq [2022-07-12 01:18:17,025] multiqc [DEBUG ] No samples found: interop [2022-07-12 01:18:17,030] multiqc [DEBUG ] No samples found: ivar [2022-07-12 01:18:17,035] multiqc [DEBUG ] No samples found: flash [2022-07-12 01:18:17,040] multiqc [DEBUG ] No samples found: seqyclean [2022-07-12 01:18:17,040] multiqc [DEBUG ] Reordering sections: anchor 'demux_report' not found. [2022-07-12 01:18:17,040] multiqc [DEBUG ] Reordering sections: anchor 'demux_report' not found for module 'Run Statistics'. [2022-07-12 01:18:17,040] multiqc [DEBUG ] Reordering sections: anchor 'demux_report' not found for module 'FastQC'. [2022-07-12 01:18:17,045] multiqc [INFO ] Compressing plot data [2022-07-12 01:18:17,109] multiqc [INFO ] Report : multiqc_report.html [2022-07-12 01:18:17,109] multiqc [INFO ] Data : multiqc_data [2022-07-12 01:18:17,110] multiqc [DEBUG ] Moving data file from '/state/partition1/job-22051306/tmpu29r8p65/multiqc_data' to '/scratch/gencore/logs/html/HT35NAFX3/merged/multiqc_data' [2022-07-12 01:18:35,557] multiqc [INFO ] MultiQC complete