[2022-06-17 04:10:10,338] multiqc [DEBUG ] No MultiQC config found: /share/apps/multiqc/1.9/lib/python3.8/site-packages/multiqc_config.yaml [2022-06-17 04:10:10,338] multiqc [DEBUG ] No MultiQC config found: /home/gencore/.multiqc_config.yaml [2022-06-17 04:10:10,338] multiqc [DEBUG ] No MultiQC config found: multiqc_config.yaml [2022-06-17 04:10:10,339] multiqc [DEBUG ] Loading config settings from: /home/gencore/SCRIPTS/hpcpipe/mqc_config.yaml [2022-06-17 04:10:10,339] multiqc [DEBUG ] New config 'report_section_order': {'demux_report': {'after': 'run_stats'}} [2022-06-17 04:10:10,339] multiqc [DEBUG ] Command used: /share/apps/multiqc/1.9/bin/multiqc -f -c /home/gencore/SCRIPTS/hpcpipe/mqc_config.yaml /scratch/gencore/logs/html/HN7V7AFX3/merged [2022-06-17 04:10:10,921] multiqc [WARNING] MultiQC Version v1.12 now available! [2022-06-17 04:10:10,922] multiqc [INFO ] This is MultiQC v1.9 [2022-06-17 04:10:10,922] multiqc [DEBUG ] Command : /share/apps/multiqc/1.9/bin/multiqc -f -c /home/gencore/SCRIPTS/hpcpipe/mqc_config.yaml /scratch/gencore/logs/html/HN7V7AFX3/merged [2022-06-17 04:10:10,922] multiqc [DEBUG ] Working dir : /scratch/gencore/logs/html/HN7V7AFX3/merged [2022-06-17 04:10:10,922] multiqc [INFO ] Template : default [2022-06-17 04:10:10,922] multiqc [DEBUG ] Running Python 3.8.6 (default, Oct 11 2020, 20:34:31) [GCC Intel(R) C++ gcc 8.3.1 mode] [2022-06-17 04:10:10,922] multiqc [INFO ] Searching : /scratch/gencore/logs/html/HN7V7AFX3/merged [2022-06-17 04:10:10,922] 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 [2022-06-17 04:10:10,922] multiqc [DEBUG ] Using temporary directory for creating report: /state/partition1/job-21052149/tmpd9p7dz1n [2022-06-17 04:10:11,039] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: HN7V7AFX3_2_fastqc.html [2022-06-17 04:10:11,041] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: HN7V7AFX3_2_fastqc.html [2022-06-17 04:10:11,088] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: HN7V7AFX3_3_fastqc.html [2022-06-17 04:10:11,090] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: HN7V7AFX3_3_fastqc.html [2022-06-17 04:10:11,138] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: HN7V7AFX3_1_fastqc.html [2022-06-17 04:10:11,139] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: HN7V7AFX3_1_fastqc.html [2022-06-17 04:10:11,179] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: HN7V7AFX3_4_fastqc.html [2022-06-17 04:10:11,180] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: HN7V7AFX3_4_fastqc.html [2022-06-17 04:10:11,725] multiqc.plots.bargraph [DEBUG ] Using matplotlib version 3.3.2 [2022-06-17 04:10:11,727] multiqc.plots.linegraph [DEBUG ] Using matplotlib version 3.3.2 [2022-06-17 04:10:11,731] multiqc.modules.custom_content.custom_content [WARNING] Not able to parse custom data in undetermined_barcodes_mqc.txt [2022-06-17 04:10:11,733] multiqc.modules.custom_content.custom_content [INFO ] run_stats: Found 1 samples (table) [2022-06-17 04:10:11,738] multiqc [DEBUG ] No samples found: conpair [2022-06-17 04:10:11,743] multiqc [DEBUG ] No samples found: peddy [2022-06-17 04:10:11,748] multiqc [DEBUG ] No samples found: somalier [2022-06-17 04:10:11,755] multiqc [DEBUG ] No samples found: methylQA [2022-06-17 04:10:11,764] multiqc [DEBUG ] No samples found: mosdepth [2022-06-17 04:10:11,768] multiqc [DEBUG ] No samples found: phantompeakqualtools [2022-06-17 04:10:11,772] multiqc [DEBUG ] No samples found: qualimap [2022-06-17 04:10:11,776] multiqc [DEBUG ] No samples found: preseq [2022-06-17 04:10:11,781] multiqc [DEBUG ] No samples found: quast [2022-06-17 04:10:11,787] multiqc [DEBUG ] No samples found: qorts [2022-06-17 04:10:11,791] multiqc [DEBUG ] No samples found: rna_seqc [2022-06-17 04:10:11,797] multiqc [DEBUG ] No samples found: rockhopper [2022-06-17 04:10:11,802] multiqc [DEBUG ] No samples found: rsem [2022-06-17 04:10:11,814] multiqc [DEBUG ] No samples found: rseqc [2022-06-17 04:10:11,818] multiqc [DEBUG ] No samples found: busco [2022-06-17 04:10:11,823] multiqc [DEBUG ] No samples found: goleft_indexcov [2022-06-17 04:10:11,827] multiqc [DEBUG ] No samples found: disambiguate [2022-06-17 04:10:11,833] multiqc [DEBUG ] No samples found: supernova [2022-06-17 04:10:11,846] multiqc [DEBUG ] No samples found: deeptools [2022-06-17 04:10:11,851] multiqc [DEBUG ] No samples found: sargasso [2022-06-17 04:10:11,857] multiqc [DEBUG ] No samples found: verifybamid [2022-06-17 04:10:11,861] multiqc [DEBUG ] No samples found: mirtrace [2022-06-17 04:10:11,866] multiqc [DEBUG ] No samples found: happy [2022-06-17 04:10:11,871] multiqc [DEBUG ] No samples found: mirtop [2022-06-17 04:10:11,878] multiqc [DEBUG ] No samples found: homer [2022-06-17 04:10:11,883] multiqc [DEBUG ] No samples found: macs2 [2022-06-17 04:10:11,889] multiqc [DEBUG ] No samples found: theta2 [2022-06-17 04:10:11,894] multiqc [DEBUG ] No samples found: snpeff [2022-06-17 04:10:11,902] multiqc [DEBUG ] No samples found: gatk [2022-06-17 04:10:11,907] multiqc [DEBUG ] No samples found: htseq [2022-06-17 04:10:11,913] multiqc [DEBUG ] No samples found: bcftools [2022-06-17 04:10:11,918] multiqc [DEBUG ] No samples found: featureCounts [2022-06-17 04:10:11,924] multiqc [DEBUG ] No samples found: fgbio [2022-06-17 04:10:11,938] multiqc [DEBUG ] No samples found: dragen [2022-06-17 04:10:11,943] multiqc [DEBUG ] No samples found: dedup [2022-06-17 04:10:11,947] multiqc [DEBUG ] No samples found: damageprofiler [2022-06-17 04:10:11,971] multiqc [DEBUG ] No samples found: biobambam2 [2022-06-17 04:10:11,976] multiqc [DEBUG ] No samples found: mtnucratio [2022-06-17 04:10:11,978] multiqc [DEBUG ] No samples found: picard [2022-06-17 04:10:11,983] multiqc [DEBUG ] No samples found: prokka [2022-06-17 04:10:11,988] multiqc [DEBUG ] No samples found: samblaster [2022-06-17 04:10:11,998] multiqc [DEBUG ] No samples found: samtools [2022-06-17 04:10:12,003] multiqc [DEBUG ] No samples found: sexdeterrmine [2022-06-17 04:10:12,008] multiqc [DEBUG ] No samples found: bamtools [2022-06-17 04:10:12,012] multiqc [DEBUG ] No samples found: jellyfish [2022-06-17 04:10:12,020] multiqc [DEBUG ] No samples found: vcftools [2022-06-17 04:10:12,026] multiqc [DEBUG ] No samples found: longranger [2022-06-17 04:10:12,031] multiqc [DEBUG ] No samples found: stacks [2022-06-17 04:10:12,037] multiqc [DEBUG ] No samples found: varscan2 [2022-06-17 04:10:12,051] multiqc [DEBUG ] No samples found: bbmap [2022-06-17 04:10:12,056] multiqc [DEBUG ] No samples found: bismark [2022-06-17 04:10:12,061] multiqc [DEBUG ] No samples found: biscuit [2022-06-17 04:10:12,066] multiqc [DEBUG ] No samples found: hicexplorer [2022-06-17 04:10:12,072] multiqc [DEBUG ] No samples found: hicup [2022-06-17 04:10:12,077] multiqc [DEBUG ] No samples found: hicpro [2022-06-17 04:10:12,081] multiqc [DEBUG ] No samples found: salmon [2022-06-17 04:10:12,086] multiqc [DEBUG ] No samples found: kallisto [2022-06-17 04:10:12,091] multiqc [DEBUG ] No samples found: slamdunk [2022-06-17 04:10:12,096] multiqc [DEBUG ] No samples found: star [2022-06-17 04:10:12,101] multiqc [DEBUG ] No samples found: hisat2 [2022-06-17 04:10:12,107] multiqc [DEBUG ] No samples found: tophat [2022-06-17 04:10:12,111] multiqc [DEBUG ] No samples found: bowtie2 [2022-06-17 04:10:12,116] multiqc [DEBUG ] No samples found: bowtie1 [2022-06-17 04:10:12,121] multiqc [DEBUG ] No samples found: snpsplit [2022-06-17 04:10:12,125] multiqc [DEBUG ] No samples found: kat [2022-06-17 04:10:12,130] multiqc [DEBUG ] No samples found: leehom [2022-06-17 04:10:12,135] multiqc [DEBUG ] No samples found: adapterRemoval [2022-06-17 04:10:12,139] multiqc [DEBUG ] No samples found: clipandmerge [2022-06-17 04:10:12,144] multiqc [DEBUG ] No samples found: cutadapt [2022-06-17 04:10:12,148] multiqc [DEBUG ] No samples found: flexbar [2022-06-17 04:10:12,153] multiqc [DEBUG ] No samples found: kaiju [2022-06-17 04:10:12,158] multiqc [DEBUG ] No samples found: kraken [2022-06-17 04:10:12,163] multiqc [DEBUG ] No samples found: malt [2022-06-17 04:10:12,167] multiqc [DEBUG ] No samples found: trimmomatic [2022-06-17 04:10:12,172] multiqc [DEBUG ] No samples found: sickle [2022-06-17 04:10:12,177] multiqc [DEBUG ] No samples found: skewer [2022-06-17 04:10:12,182] multiqc [DEBUG ] No samples found: sortmerna [2022-06-17 04:10:12,186] multiqc [DEBUG ] No samples found: biobloomtools [2022-06-17 04:10:12,191] multiqc [DEBUG ] No samples found: fastq_screen [2022-06-17 04:10:12,195] multiqc [DEBUG ] No samples found: afterqc [2022-06-17 04:10:12,200] multiqc [DEBUG ] No samples found: fastp [2022-06-17 04:10:12,259] multiqc.modules.fastqc.fastqc [INFO ] Found 4 reports [2022-06-17 04:10:12,302] multiqc [DEBUG ] No samples found: pycoqc [2022-06-17 04:10:12,307] multiqc [DEBUG ] No samples found: minionqc [2022-06-17 04:10:12,312] multiqc [DEBUG ] No samples found: multivcfanalyzer [2022-06-17 04:10:12,317] multiqc [DEBUG ] No samples found: clusterflow [2022-06-17 04:10:12,321] multiqc [DEBUG ] No samples found: bcl2fastq [2022-06-17 04:10:12,327] multiqc [DEBUG ] No samples found: interop [2022-06-17 04:10:12,331] multiqc [DEBUG ] No samples found: ivar [2022-06-17 04:10:12,336] multiqc [DEBUG ] No samples found: flash [2022-06-17 04:10:12,341] multiqc [DEBUG ] No samples found: seqyclean [2022-06-17 04:10:12,341] multiqc [DEBUG ] Reordering sections: anchor 'demux_report' not found. [2022-06-17 04:10:12,341] multiqc [DEBUG ] Reordering sections: anchor 'demux_report' not found for module 'Run Statistics'. [2022-06-17 04:10:12,341] multiqc [DEBUG ] Reordering sections: anchor 'demux_report' not found for module 'FastQC'. [2022-06-17 04:10:12,347] multiqc [INFO ] Compressing plot data [2022-06-17 04:10:12,410] multiqc [INFO ] Report : multiqc_report.html [2022-06-17 04:10:12,410] multiqc [INFO ] Data : multiqc_data [2022-06-17 04:10:12,410] multiqc [DEBUG ] Moving data file from '/state/partition1/job-21052149/tmpd9p7dz1n/multiqc_data' to '/scratch/gencore/logs/html/HN7V7AFX3/merged/multiqc_data' [2022-06-17 04:10:12,540] multiqc [INFO ] MultiQC complete