[2022-08-03 04:46:55,920] multiqc [DEBUG ] No MultiQC config found: /share/apps/multiqc/1.9/lib/python3.8/site-packages/multiqc_config.yaml [2022-08-03 04:46:55,920] multiqc [DEBUG ] No MultiQC config found: /home/gencore/.multiqc_config.yaml [2022-08-03 04:46:55,920] multiqc [DEBUG ] No MultiQC config found: multiqc_config.yaml [2022-08-03 04:46:55,921] multiqc [DEBUG ] Loading config settings from: /home/gencore/SCRIPTS/hpcpipe/mqc_config.yaml [2022-08-03 04:46:55,921] multiqc [DEBUG ] New config 'report_section_order': {'demux_report': {'after': 'run_stats'}} [2022-08-03 04:46:55,921] multiqc [DEBUG ] Command used: /share/apps/multiqc/1.9/bin/multiqc -f -c /home/gencore/SCRIPTS/hpcpipe/mqc_config.yaml /scratch/gencore/logs/html/HVV25AFX3/merged [2022-08-03 04:46:56,512] multiqc [WARNING] MultiQC Version v1.12 now available! [2022-08-03 04:46:56,513] multiqc [INFO ] This is MultiQC v1.9 [2022-08-03 04:46:56,513] multiqc [DEBUG ] Command : /share/apps/multiqc/1.9/bin/multiqc -f -c /home/gencore/SCRIPTS/hpcpipe/mqc_config.yaml /scratch/gencore/logs/html/HVV25AFX3/merged [2022-08-03 04:46:56,513] multiqc [DEBUG ] Working dir : /scratch/gencore/logs/html/HVV25AFX3/merged [2022-08-03 04:46:56,513] multiqc [INFO ] Template : default [2022-08-03 04:46:56,513] multiqc [DEBUG ] Running Python 3.8.6 (default, Oct 11 2020, 20:34:31) [GCC Intel(R) C++ gcc 8.3.1 mode] [2022-08-03 04:46:56,513] multiqc [INFO ] Searching : /scratch/gencore/logs/html/HVV25AFX3/merged [2022-08-03 04:46:56,513] 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 [2022-08-03 04:46:56,513] multiqc [DEBUG ] Using temporary directory for creating report: /state/partition1/job-23175311/tmp6to_137m [2022-08-03 04:46:56,637] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: HVV25AFX3_2_fastqc.html [2022-08-03 04:46:56,638] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: HVV25AFX3_2_fastqc.html [2022-08-03 04:46:56,678] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: HVV25AFX3_4_fastqc.html [2022-08-03 04:46:56,680] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: HVV25AFX3_4_fastqc.html [2022-08-03 04:46:56,721] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: HVV25AFX3_3_fastqc.html [2022-08-03 04:46:56,723] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: HVV25AFX3_3_fastqc.html [2022-08-03 04:46:56,763] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: HVV25AFX3_1_fastqc.html [2022-08-03 04:46:56,765] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: HVV25AFX3_1_fastqc.html [2022-08-03 04:46:57,275] multiqc.plots.bargraph [DEBUG ] Using matplotlib version 3.3.2 [2022-08-03 04:46:57,277] multiqc.plots.linegraph [DEBUG ] Using matplotlib version 3.3.2 [2022-08-03 04:46:57,281] multiqc.modules.custom_content.custom_content [WARNING] Not able to parse custom data in undetermined_barcodes_mqc.txt [2022-08-03 04:46:57,283] multiqc.modules.custom_content.custom_content [INFO ] run_stats: Found 1 samples (table) [2022-08-03 04:46:57,287] multiqc [DEBUG ] No samples found: conpair [2022-08-03 04:46:57,292] multiqc [DEBUG ] No samples found: peddy [2022-08-03 04:46:57,299] multiqc [DEBUG ] No samples found: somalier [2022-08-03 04:46:57,303] multiqc [DEBUG ] No samples found: methylQA [2022-08-03 04:46:57,311] multiqc [DEBUG ] No samples found: mosdepth [2022-08-03 04:46:57,315] multiqc [DEBUG ] No samples found: phantompeakqualtools [2022-08-03 04:46:57,318] multiqc [DEBUG ] No samples found: qualimap [2022-08-03 04:46:57,323] multiqc [DEBUG ] No samples found: preseq [2022-08-03 04:46:57,327] multiqc [DEBUG ] No samples found: quast [2022-08-03 04:46:57,332] multiqc [DEBUG ] No samples found: qorts [2022-08-03 04:46:57,336] multiqc [DEBUG ] No samples found: rna_seqc [2022-08-03 04:46:57,341] multiqc [DEBUG ] No samples found: rockhopper [2022-08-03 04:46:57,345] multiqc [DEBUG ] No samples found: rsem [2022-08-03 04:46:57,356] multiqc [DEBUG ] No samples found: rseqc [2022-08-03 04:46:57,360] multiqc [DEBUG ] No samples found: busco [2022-08-03 04:46:57,365] multiqc [DEBUG ] No samples found: goleft_indexcov [2022-08-03 04:46:57,369] multiqc [DEBUG ] No samples found: disambiguate [2022-08-03 04:46:57,373] multiqc [DEBUG ] No samples found: supernova [2022-08-03 04:46:57,387] multiqc [DEBUG ] No samples found: deeptools [2022-08-03 04:46:57,391] multiqc [DEBUG ] No samples found: sargasso [2022-08-03 04:46:57,396] multiqc [DEBUG ] No samples found: verifybamid [2022-08-03 04:46:57,400] multiqc [DEBUG ] No samples found: mirtrace [2022-08-03 04:46:57,404] multiqc [DEBUG ] No samples found: happy [2022-08-03 04:46:57,409] multiqc [DEBUG ] No samples found: mirtop [2022-08-03 04:46:57,415] multiqc [DEBUG ] No samples found: homer [2022-08-03 04:46:57,419] multiqc [DEBUG ] No samples found: macs2 [2022-08-03 04:46:57,423] multiqc [DEBUG ] No samples found: theta2 [2022-08-03 04:46:57,428] multiqc [DEBUG ] No samples found: snpeff [2022-08-03 04:46:57,434] multiqc [DEBUG ] No samples found: gatk [2022-08-03 04:46:57,438] multiqc [DEBUG ] No samples found: htseq [2022-08-03 04:46:57,444] multiqc [DEBUG ] No samples found: bcftools [2022-08-03 04:46:57,448] multiqc [DEBUG ] No samples found: featureCounts [2022-08-03 04:46:57,454] multiqc [DEBUG ] No samples found: fgbio [2022-08-03 04:46:57,469] multiqc [DEBUG ] No samples found: dragen [2022-08-03 04:46:57,473] multiqc [DEBUG ] No samples found: dedup [2022-08-03 04:46:57,478] multiqc [DEBUG ] No samples found: damageprofiler [2022-08-03 04:46:57,500] multiqc [DEBUG ] No samples found: biobambam2 [2022-08-03 04:46:57,505] multiqc [DEBUG ] No samples found: mtnucratio [2022-08-03 04:46:57,508] multiqc [DEBUG ] No samples found: picard [2022-08-03 04:46:57,512] multiqc [DEBUG ] No samples found: prokka [2022-08-03 04:46:57,516] multiqc [DEBUG ] No samples found: samblaster [2022-08-03 04:46:57,526] multiqc [DEBUG ] No samples found: samtools [2022-08-03 04:46:57,531] multiqc [DEBUG ] No samples found: sexdeterrmine [2022-08-03 04:46:57,536] multiqc [DEBUG ] No samples found: bamtools [2022-08-03 04:46:57,540] multiqc [DEBUG ] No samples found: jellyfish [2022-08-03 04:46:57,549] multiqc [DEBUG ] No samples found: vcftools [2022-08-03 04:46:57,554] multiqc [DEBUG ] No samples found: longranger [2022-08-03 04:46:57,559] multiqc [DEBUG ] No samples found: stacks [2022-08-03 04:46:57,563] multiqc [DEBUG ] No samples found: varscan2 [2022-08-03 04:46:57,577] multiqc [DEBUG ] No samples found: bbmap [2022-08-03 04:46:57,581] multiqc [DEBUG ] No samples found: bismark [2022-08-03 04:46:57,586] multiqc [DEBUG ] No samples found: biscuit [2022-08-03 04:46:57,590] multiqc [DEBUG ] No samples found: hicexplorer [2022-08-03 04:46:57,595] multiqc [DEBUG ] No samples found: hicup [2022-08-03 04:46:57,599] multiqc [DEBUG ] No samples found: hicpro [2022-08-03 04:46:57,603] multiqc [DEBUG ] No samples found: salmon [2022-08-03 04:46:57,608] multiqc [DEBUG ] No samples found: kallisto [2022-08-03 04:46:57,612] multiqc [DEBUG ] No samples found: slamdunk [2022-08-03 04:46:57,616] multiqc [DEBUG ] No samples found: star [2022-08-03 04:46:57,621] multiqc [DEBUG ] No samples found: hisat2 [2022-08-03 04:46:57,625] multiqc [DEBUG ] No samples found: tophat [2022-08-03 04:46:57,629] multiqc [DEBUG ] No samples found: bowtie2 [2022-08-03 04:46:57,634] multiqc [DEBUG ] No samples found: bowtie1 [2022-08-03 04:46:57,638] multiqc [DEBUG ] No samples found: snpsplit [2022-08-03 04:46:57,642] multiqc [DEBUG ] No samples found: kat [2022-08-03 04:46:57,646] multiqc [DEBUG ] No samples found: leehom [2022-08-03 04:46:57,650] multiqc [DEBUG ] No samples found: adapterRemoval [2022-08-03 04:46:57,654] multiqc [DEBUG ] No samples found: clipandmerge [2022-08-03 04:46:57,658] multiqc [DEBUG ] No samples found: cutadapt [2022-08-03 04:46:57,662] multiqc [DEBUG ] No samples found: flexbar [2022-08-03 04:46:57,666] multiqc [DEBUG ] No samples found: kaiju [2022-08-03 04:46:57,671] multiqc [DEBUG ] No samples found: kraken [2022-08-03 04:46:57,675] multiqc [DEBUG ] No samples found: malt [2022-08-03 04:46:57,679] multiqc [DEBUG ] No samples found: trimmomatic [2022-08-03 04:46:57,684] multiqc [DEBUG ] No samples found: sickle [2022-08-03 04:46:57,688] multiqc [DEBUG ] No samples found: skewer [2022-08-03 04:46:57,692] multiqc [DEBUG ] No samples found: sortmerna [2022-08-03 04:46:57,696] multiqc [DEBUG ] No samples found: biobloomtools [2022-08-03 04:46:57,700] multiqc [DEBUG ] No samples found: fastq_screen [2022-08-03 04:46:57,704] multiqc [DEBUG ] No samples found: afterqc [2022-08-03 04:46:57,709] multiqc [DEBUG ] No samples found: fastp [2022-08-03 04:46:57,774] multiqc.modules.fastqc.fastqc [INFO ] Found 4 reports [2022-08-03 04:46:57,821] multiqc [DEBUG ] No samples found: pycoqc [2022-08-03 04:46:57,826] multiqc [DEBUG ] No samples found: minionqc [2022-08-03 04:46:57,830] multiqc [DEBUG ] No samples found: multivcfanalyzer [2022-08-03 04:46:57,834] multiqc [DEBUG ] No samples found: clusterflow [2022-08-03 04:46:57,838] multiqc [DEBUG ] No samples found: bcl2fastq [2022-08-03 04:46:57,843] multiqc [DEBUG ] No samples found: interop [2022-08-03 04:46:57,847] multiqc [DEBUG ] No samples found: ivar [2022-08-03 04:46:57,852] multiqc [DEBUG ] No samples found: flash [2022-08-03 04:46:57,856] multiqc [DEBUG ] No samples found: seqyclean [2022-08-03 04:46:57,856] multiqc [DEBUG ] Reordering sections: anchor 'demux_report' not found. [2022-08-03 04:46:57,856] multiqc [DEBUG ] Reordering sections: anchor 'demux_report' not found for module 'Run Statistics'. [2022-08-03 04:46:57,856] multiqc [DEBUG ] Reordering sections: anchor 'demux_report' not found for module 'FastQC'. [2022-08-03 04:46:57,862] multiqc [INFO ] Compressing plot data [2022-08-03 04:46:57,935] multiqc [INFO ] Report : multiqc_report.html [2022-08-03 04:46:57,935] multiqc [INFO ] Data : multiqc_data [2022-08-03 04:46:57,935] multiqc [DEBUG ] Moving data file from '/state/partition1/job-23175311/tmp6to_137m/multiqc_data' to '/scratch/gencore/logs/html/HVV25AFX3/merged/multiqc_data' [2022-08-03 04:46:58,066] multiqc [INFO ] MultiQC complete