[2022-08-10 16:51:01,866] multiqc [DEBUG ] No MultiQC config found: /share/apps/multiqc/1.9/lib/python3.8/site-packages/multiqc_config.yaml [2022-08-10 16:51:01,866] multiqc [DEBUG ] No MultiQC config found: /home/gencore/.multiqc_config.yaml [2022-08-10 16:51:01,867] multiqc [DEBUG ] No MultiQC config found: multiqc_config.yaml [2022-08-10 16:51:01,868] multiqc [DEBUG ] Loading config settings from: /home/gencore/SCRIPTS/hpcpipe/mqc_config.yaml [2022-08-10 16:51:01,868] multiqc [DEBUG ] New config 'report_section_order': {'demux_report': {'after': 'run_stats'}} [2022-08-10 16:51:01,868] multiqc [DEBUG ] Command used: /share/apps/multiqc/1.9/bin/multiqc -f -c /home/gencore/SCRIPTS/hpcpipe/mqc_config.yaml /scratch/gencore/logs/html/HJVL2DRX2/merged [2022-08-10 16:51:02,302] multiqc [WARNING] MultiQC Version v1.12 now available! [2022-08-10 16:51:02,302] multiqc [INFO ] This is MultiQC v1.9 [2022-08-10 16:51:02,302] multiqc [DEBUG ] Command : /share/apps/multiqc/1.9/bin/multiqc -f -c /home/gencore/SCRIPTS/hpcpipe/mqc_config.yaml /scratch/gencore/logs/html/HJVL2DRX2/merged [2022-08-10 16:51:02,302] multiqc [DEBUG ] Working dir : /scratch/gencore/logs/html/HJVL2DRX2/merged [2022-08-10 16:51:02,302] multiqc [INFO ] Template : default [2022-08-10 16:51:02,302] multiqc [DEBUG ] Running Python 3.8.6 (default, Oct 11 2020, 20:34:31) [GCC Intel(R) C++ gcc 8.3.1 mode] [2022-08-10 16:51:02,302] multiqc [INFO ] Searching : /scratch/gencore/logs/html/HJVL2DRX2/merged [2022-08-10 16:51:02,302] 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 [2022-08-10 16:51:02,303] multiqc [DEBUG ] Using temporary directory for creating report: /state/partition1/job-23439048/tmpk6351lt5 [2022-08-10 16:51:02,437] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: HJVL2DRX2_2_fastqc.html [2022-08-10 16:51:02,439] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: HJVL2DRX2_2_fastqc.html [2022-08-10 16:51:02,479] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: HJVL2DRX2_3_fastqc.html [2022-08-10 16:51:02,481] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: HJVL2DRX2_3_fastqc.html [2022-08-10 16:51:02,533] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: HJVL2DRX2_1_fastqc.html [2022-08-10 16:51:02,535] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: HJVL2DRX2_1_fastqc.html [2022-08-10 16:51:02,580] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: HJVL2DRX2_4_fastqc.html [2022-08-10 16:51:02,582] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: HJVL2DRX2_4_fastqc.html [2022-08-10 16:51:02,962] multiqc.plots.bargraph [DEBUG ] Using matplotlib version 3.3.2 [2022-08-10 16:51:02,964] multiqc.plots.linegraph [DEBUG ] Using matplotlib version 3.3.2 [2022-08-10 16:51:02,968] multiqc.modules.custom_content.custom_content [WARNING] Not able to parse custom data in undetermined_barcodes_mqc.txt [2022-08-10 16:51:02,970] multiqc.modules.custom_content.custom_content [INFO ] run_stats: Found 1 samples (table) [2022-08-10 16:51:02,974] multiqc [DEBUG ] No samples found: conpair [2022-08-10 16:51:02,979] multiqc [DEBUG ] No samples found: peddy [2022-08-10 16:51:02,984] multiqc [DEBUG ] No samples found: somalier [2022-08-10 16:51:02,988] multiqc [DEBUG ] No samples found: methylQA [2022-08-10 16:51:02,996] multiqc [DEBUG ] No samples found: mosdepth [2022-08-10 16:51:03,000] multiqc [DEBUG ] No samples found: phantompeakqualtools [2022-08-10 16:51:03,003] multiqc [DEBUG ] No samples found: qualimap [2022-08-10 16:51:03,008] multiqc [DEBUG ] No samples found: preseq [2022-08-10 16:51:03,012] multiqc [DEBUG ] No samples found: quast [2022-08-10 16:51:03,017] multiqc [DEBUG ] No samples found: qorts [2022-08-10 16:51:03,021] multiqc [DEBUG ] No samples found: rna_seqc [2022-08-10 16:51:03,026] multiqc [DEBUG ] No samples found: rockhopper [2022-08-10 16:51:03,031] multiqc [DEBUG ] No samples found: rsem [2022-08-10 16:51:03,041] multiqc [DEBUG ] No samples found: rseqc [2022-08-10 16:51:03,045] multiqc [DEBUG ] No samples found: busco [2022-08-10 16:51:03,050] multiqc [DEBUG ] No samples found: goleft_indexcov [2022-08-10 16:51:03,054] multiqc [DEBUG ] No samples found: disambiguate [2022-08-10 16:51:03,058] multiqc [DEBUG ] No samples found: supernova [2022-08-10 16:51:03,070] multiqc [DEBUG ] No samples found: deeptools [2022-08-10 16:51:03,075] multiqc [DEBUG ] No samples found: sargasso [2022-08-10 16:51:03,079] multiqc [DEBUG ] No samples found: verifybamid [2022-08-10 16:51:03,084] multiqc [DEBUG ] No samples found: mirtrace [2022-08-10 16:51:03,088] multiqc [DEBUG ] No samples found: happy [2022-08-10 16:51:03,093] multiqc [DEBUG ] No samples found: mirtop [2022-08-10 16:51:03,099] multiqc [DEBUG ] No samples found: homer [2022-08-10 16:51:03,103] multiqc [DEBUG ] No samples found: macs2 [2022-08-10 16:51:03,108] multiqc [DEBUG ] No samples found: theta2 [2022-08-10 16:51:03,112] multiqc [DEBUG ] No samples found: snpeff [2022-08-10 16:51:03,119] multiqc [DEBUG ] No samples found: gatk [2022-08-10 16:51:03,123] multiqc [DEBUG ] No samples found: htseq [2022-08-10 16:51:03,128] multiqc [DEBUG ] No samples found: bcftools [2022-08-10 16:51:03,132] multiqc [DEBUG ] No samples found: featureCounts [2022-08-10 16:51:03,138] multiqc [DEBUG ] No samples found: fgbio [2022-08-10 16:51:03,150] multiqc [DEBUG ] No samples found: dragen [2022-08-10 16:51:03,154] multiqc [DEBUG ] No samples found: dedup [2022-08-10 16:51:03,159] multiqc [DEBUG ] No samples found: damageprofiler [2022-08-10 16:51:03,180] multiqc [DEBUG ] No samples found: biobambam2 [2022-08-10 16:51:03,184] multiqc [DEBUG ] No samples found: mtnucratio [2022-08-10 16:51:03,186] multiqc [DEBUG ] No samples found: picard [2022-08-10 16:51:03,191] multiqc [DEBUG ] No samples found: prokka [2022-08-10 16:51:03,195] multiqc [DEBUG ] No samples found: samblaster [2022-08-10 16:51:03,203] multiqc [DEBUG ] No samples found: samtools [2022-08-10 16:51:03,207] multiqc [DEBUG ] No samples found: sexdeterrmine [2022-08-10 16:51:03,212] multiqc [DEBUG ] No samples found: bamtools [2022-08-10 16:51:03,217] multiqc [DEBUG ] No samples found: jellyfish [2022-08-10 16:51:03,224] multiqc [DEBUG ] No samples found: vcftools [2022-08-10 16:51:03,229] multiqc [DEBUG ] No samples found: longranger [2022-08-10 16:51:03,233] multiqc [DEBUG ] No samples found: stacks [2022-08-10 16:51:03,237] multiqc [DEBUG ] No samples found: varscan2 [2022-08-10 16:51:03,250] multiqc [DEBUG ] No samples found: bbmap [2022-08-10 16:51:03,255] multiqc [DEBUG ] No samples found: bismark [2022-08-10 16:51:03,260] multiqc [DEBUG ] No samples found: biscuit [2022-08-10 16:51:03,264] multiqc [DEBUG ] No samples found: hicexplorer [2022-08-10 16:51:03,268] multiqc [DEBUG ] No samples found: hicup [2022-08-10 16:51:03,273] multiqc [DEBUG ] No samples found: hicpro [2022-08-10 16:51:03,277] multiqc [DEBUG ] No samples found: salmon [2022-08-10 16:51:03,281] multiqc [DEBUG ] No samples found: kallisto [2022-08-10 16:51:03,286] multiqc [DEBUG ] No samples found: slamdunk [2022-08-10 16:51:03,290] multiqc [DEBUG ] No samples found: star [2022-08-10 16:51:03,294] multiqc [DEBUG ] No samples found: hisat2 [2022-08-10 16:51:03,299] multiqc [DEBUG ] No samples found: tophat [2022-08-10 16:51:03,303] multiqc [DEBUG ] No samples found: bowtie2 [2022-08-10 16:51:03,308] multiqc [DEBUG ] No samples found: bowtie1 [2022-08-10 16:51:03,312] multiqc [DEBUG ] No samples found: snpsplit [2022-08-10 16:51:03,316] multiqc [DEBUG ] No samples found: kat [2022-08-10 16:51:03,320] multiqc [DEBUG ] No samples found: leehom [2022-08-10 16:51:03,325] multiqc [DEBUG ] No samples found: adapterRemoval [2022-08-10 16:51:03,329] multiqc [DEBUG ] No samples found: clipandmerge [2022-08-10 16:51:03,333] multiqc [DEBUG ] No samples found: cutadapt [2022-08-10 16:51:03,337] multiqc [DEBUG ] No samples found: flexbar [2022-08-10 16:51:03,342] multiqc [DEBUG ] No samples found: kaiju [2022-08-10 16:51:03,346] multiqc [DEBUG ] No samples found: kraken [2022-08-10 16:51:03,351] multiqc [DEBUG ] No samples found: malt [2022-08-10 16:51:03,355] multiqc [DEBUG ] No samples found: trimmomatic [2022-08-10 16:51:03,360] multiqc [DEBUG ] No samples found: sickle [2022-08-10 16:51:03,364] multiqc [DEBUG ] No samples found: skewer [2022-08-10 16:51:03,368] multiqc [DEBUG ] No samples found: sortmerna [2022-08-10 16:51:03,372] multiqc [DEBUG ] No samples found: biobloomtools [2022-08-10 16:51:03,376] multiqc [DEBUG ] No samples found: fastq_screen [2022-08-10 16:51:03,381] multiqc [DEBUG ] No samples found: afterqc [2022-08-10 16:51:03,386] multiqc [DEBUG ] No samples found: fastp [2022-08-10 16:51:03,520] multiqc.modules.fastqc.fastqc [INFO ] Found 4 reports [2022-08-10 16:51:03,567] multiqc [DEBUG ] No samples found: pycoqc [2022-08-10 16:51:03,572] multiqc [DEBUG ] No samples found: minionqc [2022-08-10 16:51:03,576] multiqc [DEBUG ] No samples found: multivcfanalyzer [2022-08-10 16:51:03,582] multiqc [DEBUG ] No samples found: clusterflow [2022-08-10 16:51:03,587] multiqc [DEBUG ] No samples found: bcl2fastq [2022-08-10 16:51:03,592] multiqc [DEBUG ] No samples found: interop [2022-08-10 16:51:03,597] multiqc [DEBUG ] No samples found: ivar [2022-08-10 16:51:03,602] multiqc [DEBUG ] No samples found: flash [2022-08-10 16:51:03,606] multiqc [DEBUG ] No samples found: seqyclean [2022-08-10 16:51:03,607] multiqc [DEBUG ] Reordering sections: anchor 'demux_report' not found. [2022-08-10 16:51:03,607] multiqc [DEBUG ] Reordering sections: anchor 'demux_report' not found for module 'Run Statistics'. [2022-08-10 16:51:03,607] multiqc [DEBUG ] Reordering sections: anchor 'demux_report' not found for module 'FastQC'. [2022-08-10 16:51:03,612] multiqc [INFO ] Compressing plot data [2022-08-10 16:51:03,687] multiqc [INFO ] Report : multiqc_report.html [2022-08-10 16:51:03,687] multiqc [INFO ] Data : multiqc_data [2022-08-10 16:51:03,687] multiqc [DEBUG ] Moving data file from '/state/partition1/job-23439048/tmpk6351lt5/multiqc_data' to '/scratch/gencore/logs/html/HJVL2DRX2/merged/multiqc_data' [2022-08-10 16:51:03,808] multiqc [INFO ] MultiQC complete