[2022-06-11 08:29:38,662] multiqc [DEBUG ] No MultiQC config found: /share/apps/multiqc/1.9/lib/python3.8/site-packages/multiqc_config.yaml [2022-06-11 08:29:38,662] multiqc [DEBUG ] No MultiQC config found: /home/gencore/.multiqc_config.yaml [2022-06-11 08:29:38,663] multiqc [DEBUG ] No MultiQC config found: multiqc_config.yaml [2022-06-11 08:29:38,663] multiqc [DEBUG ] Loading config settings from: /home/gencore/SCRIPTS/hpcpipe/mqc_config.yaml [2022-06-11 08:29:38,664] multiqc [DEBUG ] New config 'report_section_order': {'demux_report': {'after': 'run_stats'}} [2022-06-11 08:29:38,664] multiqc [DEBUG ] Command used: /share/apps/multiqc/1.9/bin/multiqc -f -c /home/gencore/SCRIPTS/hpcpipe/mqc_config.yaml /scratch/gencore/logs/html/HC5NHDRX2/merged [2022-06-11 08:29:39,345] multiqc [WARNING] MultiQC Version v1.12 now available! [2022-06-11 08:29:39,345] multiqc [INFO ] This is MultiQC v1.9 [2022-06-11 08:29:39,345] multiqc [DEBUG ] Command : /share/apps/multiqc/1.9/bin/multiqc -f -c /home/gencore/SCRIPTS/hpcpipe/mqc_config.yaml /scratch/gencore/logs/html/HC5NHDRX2/merged [2022-06-11 08:29:39,345] multiqc [DEBUG ] Working dir : /scratch/gencore/logs/html/HC5NHDRX2/merged [2022-06-11 08:29:39,345] multiqc [INFO ] Template : default [2022-06-11 08:29:39,345] multiqc [DEBUG ] Running Python 3.8.6 (default, Oct 11 2020, 20:34:31) [GCC Intel(R) C++ gcc 8.3.1 mode] [2022-06-11 08:29:39,345] multiqc [INFO ] Searching : /scratch/gencore/logs/html/HC5NHDRX2/merged [2022-06-11 08:29:39,346] 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 [2022-06-11 08:29:39,346] multiqc [DEBUG ] Using temporary directory for creating report: /state/partition1/job-20744850/tmp2a06jnu1 [2022-06-11 08:29:39,477] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: HC5NHDRX2_1_fastqc.html [2022-06-11 08:29:39,479] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: HC5NHDRX2_1_fastqc.html [2022-06-11 08:29:39,521] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: HC5NHDRX2_2_fastqc.html [2022-06-11 08:29:39,522] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: HC5NHDRX2_2_fastqc.html [2022-06-11 08:29:39,565] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: HC5NHDRX2_3_fastqc.html [2022-06-11 08:29:39,567] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: HC5NHDRX2_3_fastqc.html [2022-06-11 08:29:39,622] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: HC5NHDRX2_4_fastqc.html [2022-06-11 08:29:39,624] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: HC5NHDRX2_4_fastqc.html [2022-06-11 08:29:39,996] multiqc.plots.bargraph [DEBUG ] Using matplotlib version 3.3.2 [2022-06-11 08:29:39,997] multiqc.plots.linegraph [DEBUG ] Using matplotlib version 3.3.2 [2022-06-11 08:29:40,001] multiqc.modules.custom_content.custom_content [WARNING] Not able to parse custom data in undetermined_barcodes_mqc.txt [2022-06-11 08:29:40,004] multiqc.modules.custom_content.custom_content [INFO ] run_stats: Found 1 samples (table) [2022-06-11 08:29:40,009] multiqc [DEBUG ] No samples found: conpair [2022-06-11 08:29:40,014] multiqc [DEBUG ] No samples found: peddy [2022-06-11 08:29:40,024] multiqc [DEBUG ] No samples found: somalier [2022-06-11 08:29:40,028] multiqc [DEBUG ] No samples found: methylQA [2022-06-11 08:29:40,038] multiqc [DEBUG ] No samples found: mosdepth [2022-06-11 08:29:40,042] multiqc [DEBUG ] No samples found: phantompeakqualtools [2022-06-11 08:29:40,046] multiqc [DEBUG ] No samples found: qualimap [2022-06-11 08:29:40,050] multiqc [DEBUG ] No samples found: preseq [2022-06-11 08:29:40,055] multiqc [DEBUG ] No samples found: quast [2022-06-11 08:29:40,060] multiqc [DEBUG ] No samples found: qorts [2022-06-11 08:29:40,065] multiqc [DEBUG ] No samples found: rna_seqc [2022-06-11 08:29:40,070] multiqc [DEBUG ] No samples found: rockhopper [2022-06-11 08:29:40,074] multiqc [DEBUG ] No samples found: rsem [2022-06-11 08:29:40,087] multiqc [DEBUG ] No samples found: rseqc [2022-06-11 08:29:40,091] multiqc [DEBUG ] No samples found: busco [2022-06-11 08:29:40,096] multiqc [DEBUG ] No samples found: goleft_indexcov [2022-06-11 08:29:40,101] multiqc [DEBUG ] No samples found: disambiguate [2022-06-11 08:29:40,105] multiqc [DEBUG ] No samples found: supernova [2022-06-11 08:29:40,120] multiqc [DEBUG ] No samples found: deeptools [2022-06-11 08:29:40,126] multiqc [DEBUG ] No samples found: sargasso [2022-06-11 08:29:40,131] multiqc [DEBUG ] No samples found: verifybamid [2022-06-11 08:29:40,136] multiqc [DEBUG ] No samples found: mirtrace [2022-06-11 08:29:40,141] multiqc [DEBUG ] No samples found: happy [2022-06-11 08:29:40,146] multiqc [DEBUG ] No samples found: mirtop [2022-06-11 08:29:40,153] multiqc [DEBUG ] No samples found: homer [2022-06-11 08:29:40,158] multiqc [DEBUG ] No samples found: macs2 [2022-06-11 08:29:40,163] multiqc [DEBUG ] No samples found: theta2 [2022-06-11 08:29:40,168] multiqc [DEBUG ] No samples found: snpeff [2022-06-11 08:29:40,175] multiqc [DEBUG ] No samples found: gatk [2022-06-11 08:29:40,180] multiqc [DEBUG ] No samples found: htseq [2022-06-11 08:29:40,186] multiqc [DEBUG ] No samples found: bcftools [2022-06-11 08:29:40,190] multiqc [DEBUG ] No samples found: featureCounts [2022-06-11 08:29:40,198] multiqc [DEBUG ] No samples found: fgbio [2022-06-11 08:29:40,215] multiqc [DEBUG ] No samples found: dragen [2022-06-11 08:29:40,220] multiqc [DEBUG ] No samples found: dedup [2022-06-11 08:29:40,225] multiqc [DEBUG ] No samples found: damageprofiler [2022-06-11 08:29:40,250] multiqc [DEBUG ] No samples found: biobambam2 [2022-06-11 08:29:40,255] multiqc [DEBUG ] No samples found: mtnucratio [2022-06-11 08:29:40,258] multiqc [DEBUG ] No samples found: picard [2022-06-11 08:29:40,263] multiqc [DEBUG ] No samples found: prokka [2022-06-11 08:29:40,267] multiqc [DEBUG ] No samples found: samblaster [2022-06-11 08:29:40,277] multiqc [DEBUG ] No samples found: samtools [2022-06-11 08:29:40,282] multiqc [DEBUG ] No samples found: sexdeterrmine [2022-06-11 08:29:40,288] multiqc [DEBUG ] No samples found: bamtools [2022-06-11 08:29:40,292] multiqc [DEBUG ] No samples found: jellyfish [2022-06-11 08:29:40,301] multiqc [DEBUG ] No samples found: vcftools [2022-06-11 08:29:40,306] multiqc [DEBUG ] No samples found: longranger [2022-06-11 08:29:40,312] multiqc [DEBUG ] No samples found: stacks [2022-06-11 08:29:40,316] multiqc [DEBUG ] No samples found: varscan2 [2022-06-11 08:29:40,333] multiqc [DEBUG ] No samples found: bbmap [2022-06-11 08:29:40,338] multiqc [DEBUG ] No samples found: bismark [2022-06-11 08:29:40,343] multiqc [DEBUG ] No samples found: biscuit [2022-06-11 08:29:40,348] multiqc [DEBUG ] No samples found: hicexplorer [2022-06-11 08:29:40,354] multiqc [DEBUG ] No samples found: hicup [2022-06-11 08:29:40,359] multiqc [DEBUG ] No samples found: hicpro [2022-06-11 08:29:40,363] multiqc [DEBUG ] No samples found: salmon [2022-06-11 08:29:40,368] multiqc [DEBUG ] No samples found: kallisto [2022-06-11 08:29:40,373] multiqc [DEBUG ] No samples found: slamdunk [2022-06-11 08:29:40,378] multiqc [DEBUG ] No samples found: star [2022-06-11 08:29:40,382] multiqc [DEBUG ] No samples found: hisat2 [2022-06-11 08:29:40,387] multiqc [DEBUG ] No samples found: tophat [2022-06-11 08:29:40,392] multiqc [DEBUG ] No samples found: bowtie2 [2022-06-11 08:29:40,397] multiqc [DEBUG ] No samples found: bowtie1 [2022-06-11 08:29:40,404] multiqc [DEBUG ] No samples found: snpsplit [2022-06-11 08:29:40,408] multiqc [DEBUG ] No samples found: kat [2022-06-11 08:29:40,412] multiqc [DEBUG ] No samples found: leehom [2022-06-11 08:29:40,418] multiqc [DEBUG ] No samples found: adapterRemoval [2022-06-11 08:29:40,423] multiqc [DEBUG ] No samples found: clipandmerge [2022-06-11 08:29:40,428] multiqc [DEBUG ] No samples found: cutadapt [2022-06-11 08:29:40,432] multiqc [DEBUG ] No samples found: flexbar [2022-06-11 08:29:40,437] multiqc [DEBUG ] No samples found: kaiju [2022-06-11 08:29:40,442] multiqc [DEBUG ] No samples found: kraken [2022-06-11 08:29:40,447] multiqc [DEBUG ] No samples found: malt [2022-06-11 08:29:40,452] multiqc [DEBUG ] No samples found: trimmomatic [2022-06-11 08:29:40,456] multiqc [DEBUG ] No samples found: sickle [2022-06-11 08:29:40,462] multiqc [DEBUG ] No samples found: skewer [2022-06-11 08:29:40,467] multiqc [DEBUG ] No samples found: sortmerna [2022-06-11 08:29:40,471] multiqc [DEBUG ] No samples found: biobloomtools [2022-06-11 08:29:40,476] multiqc [DEBUG ] No samples found: fastq_screen [2022-06-11 08:29:40,481] multiqc [DEBUG ] No samples found: afterqc [2022-06-11 08:29:40,486] multiqc [DEBUG ] No samples found: fastp [2022-06-11 08:29:40,564] multiqc.modules.fastqc.fastqc [INFO ] Found 4 reports [2022-06-11 08:29:40,614] multiqc [DEBUG ] No samples found: pycoqc [2022-06-11 08:29:40,618] multiqc [DEBUG ] No samples found: minionqc [2022-06-11 08:29:40,623] multiqc [DEBUG ] No samples found: multivcfanalyzer [2022-06-11 08:29:40,628] multiqc [DEBUG ] No samples found: clusterflow [2022-06-11 08:29:40,633] multiqc [DEBUG ] No samples found: bcl2fastq [2022-06-11 08:29:40,638] multiqc [DEBUG ] No samples found: interop [2022-06-11 08:29:40,644] multiqc [DEBUG ] No samples found: ivar [2022-06-11 08:29:40,649] multiqc [DEBUG ] No samples found: flash [2022-06-11 08:29:40,654] multiqc [DEBUG ] No samples found: seqyclean [2022-06-11 08:29:40,654] multiqc [DEBUG ] Reordering sections: anchor 'demux_report' not found. [2022-06-11 08:29:40,654] multiqc [DEBUG ] Reordering sections: anchor 'demux_report' not found for module 'Run Statistics'. [2022-06-11 08:29:40,654] multiqc [DEBUG ] Reordering sections: anchor 'demux_report' not found for module 'FastQC'. [2022-06-11 08:29:40,660] multiqc [INFO ] Compressing plot data [2022-06-11 08:29:40,735] multiqc [INFO ] Report : multiqc_report.html [2022-06-11 08:29:40,735] multiqc [INFO ] Data : multiqc_data [2022-06-11 08:29:40,736] multiqc [DEBUG ] Moving data file from '/state/partition1/job-20744850/tmp2a06jnu1/multiqc_data' to '/scratch/gencore/logs/html/HC5NHDRX2/merged/multiqc_data' [2022-06-11 08:29:40,876] multiqc [INFO ] MultiQC complete