[2022-06-07 09:34:19,569] multiqc [DEBUG ] No MultiQC config found: /share/apps/multiqc/1.9/lib/python3.8/site-packages/multiqc_config.yaml [2022-06-07 09:34:19,570] multiqc [DEBUG ] No MultiQC config found: /home/gencore/.multiqc_config.yaml [2022-06-07 09:34:19,570] multiqc [DEBUG ] No MultiQC config found: multiqc_config.yaml [2022-06-07 09:34:19,570] multiqc [DEBUG ] Loading config settings from: /home/gencore/SCRIPTS/hpcpipe/mqc_config.yaml [2022-06-07 09:34:19,571] multiqc [DEBUG ] New config 'report_section_order': {'demux_report': {'after': 'run_stats'}} [2022-06-07 09:34:19,571] multiqc [DEBUG ] Command used: /share/apps/multiqc/1.9/bin/multiqc -f -c /home/gencore/SCRIPTS/hpcpipe/mqc_config.yaml /scratch/gencore/logs/html/HC5HJDRX2/merged [2022-06-07 09:34:20,171] multiqc [WARNING] MultiQC Version v1.12 now available! [2022-06-07 09:34:20,171] multiqc [INFO ] This is MultiQC v1.9 [2022-06-07 09:34:20,171] multiqc [DEBUG ] Command : /share/apps/multiqc/1.9/bin/multiqc -f -c /home/gencore/SCRIPTS/hpcpipe/mqc_config.yaml /scratch/gencore/logs/html/HC5HJDRX2/merged [2022-06-07 09:34:20,171] multiqc [DEBUG ] Working dir : /scratch/gencore/logs/html/HC5HJDRX2/merged [2022-06-07 09:34:20,171] multiqc [INFO ] Template : default [2022-06-07 09:34:20,171] multiqc [DEBUG ] Running Python 3.8.6 (default, Oct 11 2020, 20:34:31) [GCC Intel(R) C++ gcc 8.3.1 mode] [2022-06-07 09:34:20,172] multiqc [INFO ] Searching : /scratch/gencore/logs/html/HC5HJDRX2/merged [2022-06-07 09:34:20,172] 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 [2022-06-07 09:34:20,172] multiqc [DEBUG ] Using temporary directory for creating report: /state/partition1/job-20599445/tmpkxx_m7h2 [2022-06-07 09:34:20,293] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: HC5HJDRX2_3_fastqc.html [2022-06-07 09:34:20,295] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: HC5HJDRX2_3_fastqc.html [2022-06-07 09:34:20,342] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: HC5HJDRX2_1_fastqc.html [2022-06-07 09:34:20,344] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: HC5HJDRX2_1_fastqc.html [2022-06-07 09:34:20,385] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: HC5HJDRX2_4_fastqc.html [2022-06-07 09:34:20,387] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: HC5HJDRX2_4_fastqc.html [2022-06-07 09:34:20,429] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: HC5HJDRX2_2_fastqc.html [2022-06-07 09:34:20,431] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: HC5HJDRX2_2_fastqc.html [2022-06-07 09:34:20,938] multiqc.plots.bargraph [DEBUG ] Using matplotlib version 3.3.2 [2022-06-07 09:34:20,940] multiqc.plots.linegraph [DEBUG ] Using matplotlib version 3.3.2 [2022-06-07 09:34:20,944] multiqc.modules.custom_content.custom_content [WARNING] Not able to parse custom data in undetermined_barcodes_mqc.txt [2022-06-07 09:34:20,946] multiqc.modules.custom_content.custom_content [INFO ] run_stats: Found 1 samples (table) [2022-06-07 09:34:20,951] multiqc [DEBUG ] No samples found: conpair [2022-06-07 09:34:20,955] multiqc [DEBUG ] No samples found: peddy [2022-06-07 09:34:20,961] multiqc [DEBUG ] No samples found: somalier [2022-06-07 09:34:20,966] multiqc [DEBUG ] No samples found: methylQA [2022-06-07 09:34:20,981] multiqc [DEBUG ] No samples found: mosdepth [2022-06-07 09:34:20,985] multiqc [DEBUG ] No samples found: phantompeakqualtools [2022-06-07 09:34:20,989] multiqc [DEBUG ] No samples found: qualimap [2022-06-07 09:34:20,994] multiqc [DEBUG ] No samples found: preseq [2022-06-07 09:34:20,999] multiqc [DEBUG ] No samples found: quast [2022-06-07 09:34:21,003] multiqc [DEBUG ] No samples found: qorts [2022-06-07 09:34:21,009] multiqc [DEBUG ] No samples found: rna_seqc [2022-06-07 09:34:21,013] multiqc [DEBUG ] No samples found: rockhopper [2022-06-07 09:34:21,018] multiqc [DEBUG ] No samples found: rsem [2022-06-07 09:34:21,031] multiqc [DEBUG ] No samples found: rseqc [2022-06-07 09:34:21,035] multiqc [DEBUG ] No samples found: busco [2022-06-07 09:34:21,040] multiqc [DEBUG ] No samples found: goleft_indexcov [2022-06-07 09:34:21,044] multiqc [DEBUG ] No samples found: disambiguate [2022-06-07 09:34:21,049] multiqc [DEBUG ] No samples found: supernova [2022-06-07 09:34:21,062] multiqc [DEBUG ] No samples found: deeptools [2022-06-07 09:34:21,066] multiqc [DEBUG ] No samples found: sargasso [2022-06-07 09:34:21,071] multiqc [DEBUG ] No samples found: verifybamid [2022-06-07 09:34:21,076] multiqc [DEBUG ] No samples found: mirtrace [2022-06-07 09:34:21,080] multiqc [DEBUG ] No samples found: happy [2022-06-07 09:34:21,086] multiqc [DEBUG ] No samples found: mirtop [2022-06-07 09:34:21,093] multiqc [DEBUG ] No samples found: homer [2022-06-07 09:34:21,098] multiqc [DEBUG ] No samples found: macs2 [2022-06-07 09:34:21,102] multiqc [DEBUG ] No samples found: theta2 [2022-06-07 09:34:21,106] multiqc [DEBUG ] No samples found: snpeff [2022-06-07 09:34:21,113] multiqc [DEBUG ] No samples found: gatk [2022-06-07 09:34:21,118] multiqc [DEBUG ] No samples found: htseq [2022-06-07 09:34:21,123] multiqc [DEBUG ] No samples found: bcftools [2022-06-07 09:34:21,129] multiqc [DEBUG ] No samples found: featureCounts [2022-06-07 09:34:21,136] multiqc [DEBUG ] No samples found: fgbio [2022-06-07 09:34:21,149] multiqc [DEBUG ] No samples found: dragen [2022-06-07 09:34:21,153] multiqc [DEBUG ] No samples found: dedup [2022-06-07 09:34:21,158] multiqc [DEBUG ] No samples found: damageprofiler [2022-06-07 09:34:21,182] multiqc [DEBUG ] No samples found: biobambam2 [2022-06-07 09:34:21,187] multiqc [DEBUG ] No samples found: mtnucratio [2022-06-07 09:34:21,189] multiqc [DEBUG ] No samples found: picard [2022-06-07 09:34:21,194] multiqc [DEBUG ] No samples found: prokka [2022-06-07 09:34:21,198] multiqc [DEBUG ] No samples found: samblaster [2022-06-07 09:34:21,207] multiqc [DEBUG ] No samples found: samtools [2022-06-07 09:34:21,211] multiqc [DEBUG ] No samples found: sexdeterrmine [2022-06-07 09:34:21,217] multiqc [DEBUG ] No samples found: bamtools [2022-06-07 09:34:21,222] multiqc [DEBUG ] No samples found: jellyfish [2022-06-07 09:34:21,230] multiqc [DEBUG ] No samples found: vcftools [2022-06-07 09:34:21,235] multiqc [DEBUG ] No samples found: longranger [2022-06-07 09:34:21,240] multiqc [DEBUG ] No samples found: stacks [2022-06-07 09:34:21,244] multiqc [DEBUG ] No samples found: varscan2 [2022-06-07 09:34:21,259] multiqc [DEBUG ] No samples found: bbmap [2022-06-07 09:34:21,263] multiqc [DEBUG ] No samples found: bismark [2022-06-07 09:34:21,270] multiqc [DEBUG ] No samples found: biscuit [2022-06-07 09:34:21,277] multiqc [DEBUG ] No samples found: hicexplorer [2022-06-07 09:34:21,281] multiqc [DEBUG ] No samples found: hicup [2022-06-07 09:34:21,286] multiqc [DEBUG ] No samples found: hicpro [2022-06-07 09:34:21,290] multiqc [DEBUG ] No samples found: salmon [2022-06-07 09:34:21,295] multiqc [DEBUG ] No samples found: kallisto [2022-06-07 09:34:21,300] multiqc [DEBUG ] No samples found: slamdunk [2022-06-07 09:34:21,304] multiqc [DEBUG ] No samples found: star [2022-06-07 09:34:21,309] multiqc [DEBUG ] No samples found: hisat2 [2022-06-07 09:34:21,313] multiqc [DEBUG ] No samples found: tophat [2022-06-07 09:34:21,319] multiqc [DEBUG ] No samples found: bowtie2 [2022-06-07 09:34:21,323] multiqc [DEBUG ] No samples found: bowtie1 [2022-06-07 09:34:21,328] multiqc [DEBUG ] No samples found: snpsplit [2022-06-07 09:34:21,333] multiqc [DEBUG ] No samples found: kat [2022-06-07 09:34:21,337] multiqc [DEBUG ] No samples found: leehom [2022-06-07 09:34:21,342] multiqc [DEBUG ] No samples found: adapterRemoval [2022-06-07 09:34:21,346] multiqc [DEBUG ] No samples found: clipandmerge [2022-06-07 09:34:21,350] multiqc [DEBUG ] No samples found: cutadapt [2022-06-07 09:34:21,355] multiqc [DEBUG ] No samples found: flexbar [2022-06-07 09:34:21,359] multiqc [DEBUG ] No samples found: kaiju [2022-06-07 09:34:21,364] multiqc [DEBUG ] No samples found: kraken [2022-06-07 09:34:21,369] multiqc [DEBUG ] No samples found: malt [2022-06-07 09:34:21,373] multiqc [DEBUG ] No samples found: trimmomatic [2022-06-07 09:34:21,377] multiqc [DEBUG ] No samples found: sickle [2022-06-07 09:34:21,382] multiqc [DEBUG ] No samples found: skewer [2022-06-07 09:34:21,386] multiqc [DEBUG ] No samples found: sortmerna [2022-06-07 09:34:21,390] multiqc [DEBUG ] No samples found: biobloomtools [2022-06-07 09:34:21,395] multiqc [DEBUG ] No samples found: fastq_screen [2022-06-07 09:34:21,399] multiqc [DEBUG ] No samples found: afterqc [2022-06-07 09:34:21,403] multiqc [DEBUG ] No samples found: fastp [2022-06-07 09:34:21,478] multiqc.modules.fastqc.fastqc [INFO ] Found 4 reports [2022-06-07 09:34:21,525] multiqc [DEBUG ] No samples found: pycoqc [2022-06-07 09:34:21,531] multiqc [DEBUG ] No samples found: minionqc [2022-06-07 09:34:21,536] multiqc [DEBUG ] No samples found: multivcfanalyzer [2022-06-07 09:34:21,540] multiqc [DEBUG ] No samples found: clusterflow [2022-06-07 09:34:21,544] multiqc [DEBUG ] No samples found: bcl2fastq [2022-06-07 09:34:21,550] multiqc [DEBUG ] No samples found: interop [2022-06-07 09:34:21,555] multiqc [DEBUG ] No samples found: ivar [2022-06-07 09:34:21,559] multiqc [DEBUG ] No samples found: flash [2022-06-07 09:34:21,563] multiqc [DEBUG ] No samples found: seqyclean [2022-06-07 09:34:21,563] multiqc [DEBUG ] Reordering sections: anchor 'demux_report' not found. [2022-06-07 09:34:21,563] multiqc [DEBUG ] Reordering sections: anchor 'demux_report' not found for module 'Run Statistics'. [2022-06-07 09:34:21,563] multiqc [DEBUG ] Reordering sections: anchor 'demux_report' not found for module 'FastQC'. [2022-06-07 09:34:21,569] multiqc [INFO ] Compressing plot data [2022-06-07 09:34:21,643] multiqc [INFO ] Report : multiqc_report.html [2022-06-07 09:34:21,643] multiqc [INFO ] Data : multiqc_data [2022-06-07 09:34:21,643] multiqc [DEBUG ] Moving data file from '/state/partition1/job-20599445/tmpkxx_m7h2/multiqc_data' to '/scratch/gencore/logs/html/HC5HJDRX2/merged/multiqc_data' [2022-06-07 09:34:21,772] multiqc [INFO ] MultiQC complete