[2022-07-09 02:27:38,576] multiqc [DEBUG ] No MultiQC config found: /share/apps/multiqc/1.9/lib/python3.8/site-packages/multiqc_config.yaml [2022-07-09 02:27:38,576] multiqc [DEBUG ] No MultiQC config found: /home/gencore/.multiqc_config.yaml [2022-07-09 02:27:38,576] multiqc [DEBUG ] No MultiQC config found: multiqc_config.yaml [2022-07-09 02:27:38,577] multiqc [DEBUG ] Loading config settings from: /home/gencore/SCRIPTS/hpcpipe/mqc_config.yaml [2022-07-09 02:27:38,577] multiqc [DEBUG ] New config 'report_section_order': {'demux_report': {'after': 'run_stats'}} [2022-07-09 02:27:38,577] multiqc [DEBUG ] Command used: /share/apps/multiqc/1.9/bin/multiqc -f -c /home/gencore/SCRIPTS/hpcpipe/mqc_config.yaml /scratch/gencore/logs/html/HCJCVDRX2/merged [2022-07-09 02:27:39,145] multiqc [WARNING] MultiQC Version v1.12 now available! [2022-07-09 02:27:39,145] multiqc [INFO ] This is MultiQC v1.9 [2022-07-09 02:27:39,145] multiqc [DEBUG ] Command : /share/apps/multiqc/1.9/bin/multiqc -f -c /home/gencore/SCRIPTS/hpcpipe/mqc_config.yaml /scratch/gencore/logs/html/HCJCVDRX2/merged [2022-07-09 02:27:39,145] multiqc [DEBUG ] Working dir : /scratch/gencore/logs/html/HCJCVDRX2/merged [2022-07-09 02:27:39,145] multiqc [INFO ] Template : default [2022-07-09 02:27:39,145] multiqc [DEBUG ] Running Python 3.8.6 (default, Oct 11 2020, 20:34:31) [GCC Intel(R) C++ gcc 8.3.1 mode] [2022-07-09 02:27:39,145] multiqc [INFO ] Searching : /scratch/gencore/logs/html/HCJCVDRX2/merged [2022-07-09 02:27:39,145] 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 [2022-07-09 02:27:39,145] multiqc [DEBUG ] Using temporary directory for creating report: /state/partition1/job-21991782/tmp6l9x2jqm [2022-07-09 02:27:39,263] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: HCJCVDRX2_2_fastqc.html [2022-07-09 02:27:39,265] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: HCJCVDRX2_2_fastqc.html [2022-07-09 02:27:39,304] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: HCJCVDRX2_3_fastqc.html [2022-07-09 02:27:39,306] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: HCJCVDRX2_3_fastqc.html [2022-07-09 02:27:39,348] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: HCJCVDRX2_1_fastqc.html [2022-07-09 02:27:39,350] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: HCJCVDRX2_1_fastqc.html [2022-07-09 02:27:39,681] multiqc.plots.bargraph [DEBUG ] Using matplotlib version 3.3.2 [2022-07-09 02:27:39,683] multiqc.plots.linegraph [DEBUG ] Using matplotlib version 3.3.2 [2022-07-09 02:27:39,687] multiqc.modules.custom_content.custom_content [WARNING] Not able to parse custom data in undetermined_barcodes_mqc.txt [2022-07-09 02:27:39,689] multiqc.modules.custom_content.custom_content [INFO ] run_stats: Found 1 samples (table) [2022-07-09 02:27:39,697] multiqc [DEBUG ] No samples found: conpair [2022-07-09 02:27:39,702] multiqc [DEBUG ] No samples found: peddy [2022-07-09 02:27:39,707] multiqc [DEBUG ] No samples found: somalier [2022-07-09 02:27:39,712] multiqc [DEBUG ] No samples found: methylQA [2022-07-09 02:27:39,720] multiqc [DEBUG ] No samples found: mosdepth [2022-07-09 02:27:39,724] multiqc [DEBUG ] No samples found: phantompeakqualtools [2022-07-09 02:27:39,728] multiqc [DEBUG ] No samples found: qualimap [2022-07-09 02:27:39,732] multiqc [DEBUG ] No samples found: preseq [2022-07-09 02:27:39,737] multiqc [DEBUG ] No samples found: quast [2022-07-09 02:27:39,742] multiqc [DEBUG ] No samples found: qorts [2022-07-09 02:27:39,747] multiqc [DEBUG ] No samples found: rna_seqc [2022-07-09 02:27:39,751] multiqc [DEBUG ] No samples found: rockhopper [2022-07-09 02:27:39,756] multiqc [DEBUG ] No samples found: rsem [2022-07-09 02:27:39,766] multiqc [DEBUG ] No samples found: rseqc [2022-07-09 02:27:39,771] multiqc [DEBUG ] No samples found: busco [2022-07-09 02:27:39,775] multiqc [DEBUG ] No samples found: goleft_indexcov [2022-07-09 02:27:39,779] multiqc [DEBUG ] No samples found: disambiguate [2022-07-09 02:27:39,784] multiqc [DEBUG ] No samples found: supernova [2022-07-09 02:27:39,796] multiqc [DEBUG ] No samples found: deeptools [2022-07-09 02:27:39,801] multiqc [DEBUG ] No samples found: sargasso [2022-07-09 02:27:39,805] multiqc [DEBUG ] No samples found: verifybamid [2022-07-09 02:27:39,810] multiqc [DEBUG ] No samples found: mirtrace [2022-07-09 02:27:39,815] multiqc [DEBUG ] No samples found: happy [2022-07-09 02:27:39,819] multiqc [DEBUG ] No samples found: mirtop [2022-07-09 02:27:39,825] multiqc [DEBUG ] No samples found: homer [2022-07-09 02:27:39,830] multiqc [DEBUG ] No samples found: macs2 [2022-07-09 02:27:39,834] multiqc [DEBUG ] No samples found: theta2 [2022-07-09 02:27:39,840] multiqc [DEBUG ] No samples found: snpeff [2022-07-09 02:27:39,847] multiqc [DEBUG ] No samples found: gatk [2022-07-09 02:27:39,851] multiqc [DEBUG ] No samples found: htseq [2022-07-09 02:27:39,857] multiqc [DEBUG ] No samples found: bcftools [2022-07-09 02:27:39,862] multiqc [DEBUG ] No samples found: featureCounts [2022-07-09 02:27:39,868] multiqc [DEBUG ] No samples found: fgbio [2022-07-09 02:27:39,884] multiqc [DEBUG ] No samples found: dragen [2022-07-09 02:27:39,888] multiqc [DEBUG ] No samples found: dedup [2022-07-09 02:27:39,893] multiqc [DEBUG ] No samples found: damageprofiler [2022-07-09 02:27:39,914] multiqc [DEBUG ] No samples found: biobambam2 [2022-07-09 02:27:39,919] multiqc [DEBUG ] No samples found: mtnucratio [2022-07-09 02:27:39,921] multiqc [DEBUG ] No samples found: picard [2022-07-09 02:27:39,926] multiqc [DEBUG ] No samples found: prokka [2022-07-09 02:27:39,930] multiqc [DEBUG ] No samples found: samblaster [2022-07-09 02:27:39,937] multiqc [DEBUG ] No samples found: samtools [2022-07-09 02:27:39,942] multiqc [DEBUG ] No samples found: sexdeterrmine [2022-07-09 02:27:39,947] multiqc [DEBUG ] No samples found: bamtools [2022-07-09 02:27:39,951] multiqc [DEBUG ] No samples found: jellyfish [2022-07-09 02:27:39,960] multiqc [DEBUG ] No samples found: vcftools [2022-07-09 02:27:39,964] multiqc [DEBUG ] No samples found: longranger [2022-07-09 02:27:39,969] multiqc [DEBUG ] No samples found: stacks [2022-07-09 02:27:39,975] multiqc [DEBUG ] No samples found: varscan2 [2022-07-09 02:27:39,988] multiqc [DEBUG ] No samples found: bbmap [2022-07-09 02:27:39,992] multiqc [DEBUG ] No samples found: bismark [2022-07-09 02:27:39,997] multiqc [DEBUG ] No samples found: biscuit [2022-07-09 02:27:40,002] multiqc [DEBUG ] No samples found: hicexplorer [2022-07-09 02:27:40,006] multiqc [DEBUG ] No samples found: hicup [2022-07-09 02:27:40,011] multiqc [DEBUG ] No samples found: hicpro [2022-07-09 02:27:40,015] multiqc [DEBUG ] No samples found: salmon [2022-07-09 02:27:40,020] multiqc [DEBUG ] No samples found: kallisto [2022-07-09 02:27:40,024] multiqc [DEBUG ] No samples found: slamdunk [2022-07-09 02:27:40,029] multiqc [DEBUG ] No samples found: star [2022-07-09 02:27:40,033] multiqc [DEBUG ] No samples found: hisat2 [2022-07-09 02:27:40,038] multiqc [DEBUG ] No samples found: tophat [2022-07-09 02:27:40,043] multiqc [DEBUG ] No samples found: bowtie2 [2022-07-09 02:27:40,047] multiqc [DEBUG ] No samples found: bowtie1 [2022-07-09 02:27:40,052] multiqc [DEBUG ] No samples found: snpsplit [2022-07-09 02:27:40,056] multiqc [DEBUG ] No samples found: kat [2022-07-09 02:27:40,060] multiqc [DEBUG ] No samples found: leehom [2022-07-09 02:27:40,065] multiqc [DEBUG ] No samples found: adapterRemoval [2022-07-09 02:27:40,069] multiqc [DEBUG ] No samples found: clipandmerge [2022-07-09 02:27:40,074] multiqc [DEBUG ] No samples found: cutadapt [2022-07-09 02:27:40,078] multiqc [DEBUG ] No samples found: flexbar [2022-07-09 02:27:40,082] multiqc [DEBUG ] No samples found: kaiju [2022-07-09 02:27:40,087] multiqc [DEBUG ] No samples found: kraken [2022-07-09 02:27:40,092] multiqc [DEBUG ] No samples found: malt [2022-07-09 02:27:40,096] multiqc [DEBUG ] No samples found: trimmomatic [2022-07-09 02:27:40,101] multiqc [DEBUG ] No samples found: sickle [2022-07-09 02:27:40,105] multiqc [DEBUG ] No samples found: skewer [2022-07-09 02:27:40,110] multiqc [DEBUG ] No samples found: sortmerna [2022-07-09 02:27:40,114] multiqc [DEBUG ] No samples found: biobloomtools [2022-07-09 02:27:40,118] multiqc [DEBUG ] No samples found: fastq_screen [2022-07-09 02:27:40,123] multiqc [DEBUG ] No samples found: afterqc [2022-07-09 02:27:40,127] multiqc [DEBUG ] No samples found: fastp [2022-07-09 02:27:40,227] multiqc.modules.fastqc.fastqc [INFO ] Found 3 reports [2022-07-09 02:27:40,271] multiqc [DEBUG ] No samples found: pycoqc [2022-07-09 02:27:40,275] multiqc [DEBUG ] No samples found: minionqc [2022-07-09 02:27:40,280] multiqc [DEBUG ] No samples found: multivcfanalyzer [2022-07-09 02:27:40,284] multiqc [DEBUG ] No samples found: clusterflow [2022-07-09 02:27:40,289] multiqc [DEBUG ] No samples found: bcl2fastq [2022-07-09 02:27:40,294] multiqc [DEBUG ] No samples found: interop [2022-07-09 02:27:40,299] multiqc [DEBUG ] No samples found: ivar [2022-07-09 02:27:40,303] multiqc [DEBUG ] No samples found: flash [2022-07-09 02:27:40,308] multiqc [DEBUG ] No samples found: seqyclean [2022-07-09 02:27:40,308] multiqc [DEBUG ] Reordering sections: anchor 'demux_report' not found. [2022-07-09 02:27:40,308] multiqc [DEBUG ] Reordering sections: anchor 'demux_report' not found for module 'Run Statistics'. [2022-07-09 02:27:40,308] multiqc [DEBUG ] Reordering sections: anchor 'demux_report' not found for module 'FastQC'. [2022-07-09 02:27:40,312] multiqc [INFO ] Compressing plot data [2022-07-09 02:27:40,366] multiqc [INFO ] Report : multiqc_report.html [2022-07-09 02:27:40,366] multiqc [INFO ] Data : multiqc_data [2022-07-09 02:27:40,366] multiqc [DEBUG ] Moving data file from '/state/partition1/job-21991782/tmp6l9x2jqm/multiqc_data' to '/scratch/gencore/logs/html/HCJCVDRX2/merged/multiqc_data' [2022-07-09 02:27:40,490] multiqc [INFO ] MultiQC complete