[2021-08-19 04:34:15,626] multiqc [DEBUG ] No MultiQC config found: /share/apps/multiqc/1.9/lib/python3.8/site-packages/multiqc_config.yaml [2021-08-19 04:34:15,626] multiqc [DEBUG ] No MultiQC config found: /home/gencore/.multiqc_config.yaml [2021-08-19 04:34:15,626] multiqc [DEBUG ] No MultiQC config found: multiqc_config.yaml [2021-08-19 04:34:15,627] multiqc [DEBUG ] Loading config settings from: /home/gencore/SCRIPTS/hpcpipe/mqc_config.yaml [2021-08-19 04:34:15,627] multiqc [DEBUG ] New config 'report_section_order': {'demux_report': {'after': 'run_stats'}} [2021-08-19 04:34:15,627] multiqc [DEBUG ] Command used: /share/apps/multiqc/1.9/bin/multiqc -f -c /home/gencore/SCRIPTS/hpcpipe/mqc_config.yaml /scratch/gencore/logs/html/HGCGHDRXY/merged [2021-08-19 04:34:16,975] multiqc [WARNING] MultiQC Version v1.11 now available! [2021-08-19 04:34:16,975] multiqc [INFO ] This is MultiQC v1.9 [2021-08-19 04:34:16,975] multiqc [DEBUG ] Command : /share/apps/multiqc/1.9/bin/multiqc -f -c /home/gencore/SCRIPTS/hpcpipe/mqc_config.yaml /scratch/gencore/logs/html/HGCGHDRXY/merged [2021-08-19 04:34:16,975] multiqc [DEBUG ] Working dir : /scratch/gencore/logs/html/HGCGHDRXY/merged [2021-08-19 04:34:16,975] multiqc [INFO ] Template : default [2021-08-19 04:34:16,975] multiqc [DEBUG ] Running Python 3.8.6 (default, Oct 11 2020, 20:34:31) [GCC Intel(R) C++ gcc 8.3.1 mode] [2021-08-19 04:34:16,975] multiqc [INFO ] Searching : /scratch/gencore/logs/html/HGCGHDRXY/merged [2021-08-19 04:34:16,976] 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 [2021-08-19 04:34:16,976] multiqc [DEBUG ] Using temporary directory for creating report: /state/partition1/job-9452794/tmprytv3zap [2021-08-19 04:34:17,081] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: HGCGHDRXY_3_fastqc.html [2021-08-19 04:34:17,084] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: HGCGHDRXY_3_fastqc.html [2021-08-19 04:34:17,155] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: HGCGHDRXY_2_fastqc.html [2021-08-19 04:34:17,156] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: HGCGHDRXY_2_fastqc.html [2021-08-19 04:34:17,196] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: HGCGHDRXY_1_fastqc.html [2021-08-19 04:34:17,198] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: HGCGHDRXY_1_fastqc.html [2021-08-19 04:34:17,685] multiqc.plots.bargraph [DEBUG ] Using matplotlib version 3.3.2 [2021-08-19 04:34:17,687] multiqc.plots.linegraph [DEBUG ] Using matplotlib version 3.3.2 [2021-08-19 04:34:17,690] multiqc.modules.custom_content.custom_content [WARNING] Not able to parse custom data in undetermined_barcodes_mqc.txt [2021-08-19 04:34:17,692] multiqc.modules.custom_content.custom_content [INFO ] run_stats: Found 1 samples (table) [2021-08-19 04:34:17,697] multiqc [DEBUG ] No samples found: conpair [2021-08-19 04:34:17,701] multiqc [DEBUG ] No samples found: peddy [2021-08-19 04:34:17,706] multiqc [DEBUG ] No samples found: somalier [2021-08-19 04:34:17,712] multiqc [DEBUG ] No samples found: methylQA [2021-08-19 04:34:17,720] multiqc [DEBUG ] No samples found: mosdepth [2021-08-19 04:34:17,724] multiqc [DEBUG ] No samples found: phantompeakqualtools [2021-08-19 04:34:17,727] multiqc [DEBUG ] No samples found: qualimap [2021-08-19 04:34:17,732] multiqc [DEBUG ] No samples found: preseq [2021-08-19 04:34:17,737] multiqc [DEBUG ] No samples found: quast [2021-08-19 04:34:17,742] multiqc [DEBUG ] No samples found: qorts [2021-08-19 04:34:17,747] multiqc [DEBUG ] No samples found: rna_seqc [2021-08-19 04:34:17,752] multiqc [DEBUG ] No samples found: rockhopper [2021-08-19 04:34:17,756] multiqc [DEBUG ] No samples found: rsem [2021-08-19 04:34:17,767] multiqc [DEBUG ] No samples found: rseqc [2021-08-19 04:34:17,772] multiqc [DEBUG ] No samples found: busco [2021-08-19 04:34:17,776] multiqc [DEBUG ] No samples found: goleft_indexcov [2021-08-19 04:34:17,782] multiqc [DEBUG ] No samples found: disambiguate [2021-08-19 04:34:17,787] multiqc [DEBUG ] No samples found: supernova [2021-08-19 04:34:17,798] multiqc [DEBUG ] No samples found: deeptools [2021-08-19 04:34:17,803] multiqc [DEBUG ] No samples found: sargasso [2021-08-19 04:34:17,807] multiqc [DEBUG ] No samples found: verifybamid [2021-08-19 04:34:17,812] multiqc [DEBUG ] No samples found: mirtrace [2021-08-19 04:34:17,816] multiqc [DEBUG ] No samples found: happy [2021-08-19 04:34:17,821] multiqc [DEBUG ] No samples found: mirtop [2021-08-19 04:34:17,828] multiqc [DEBUG ] No samples found: homer [2021-08-19 04:34:17,832] multiqc [DEBUG ] No samples found: macs2 [2021-08-19 04:34:17,837] multiqc [DEBUG ] No samples found: theta2 [2021-08-19 04:34:17,842] multiqc [DEBUG ] No samples found: snpeff [2021-08-19 04:34:17,848] multiqc [DEBUG ] No samples found: gatk [2021-08-19 04:34:17,852] multiqc [DEBUG ] No samples found: htseq [2021-08-19 04:34:17,858] multiqc [DEBUG ] No samples found: bcftools [2021-08-19 04:34:17,863] multiqc [DEBUG ] No samples found: featureCounts [2021-08-19 04:34:17,869] multiqc [DEBUG ] No samples found: fgbio [2021-08-19 04:34:17,881] multiqc [DEBUG ] No samples found: dragen [2021-08-19 04:34:17,886] multiqc [DEBUG ] No samples found: dedup [2021-08-19 04:34:17,891] multiqc [DEBUG ] No samples found: damageprofiler [2021-08-19 04:34:17,912] multiqc [DEBUG ] No samples found: biobambam2 [2021-08-19 04:34:17,917] multiqc [DEBUG ] No samples found: mtnucratio [2021-08-19 04:34:17,919] multiqc [DEBUG ] No samples found: picard [2021-08-19 04:34:17,923] multiqc [DEBUG ] No samples found: prokka [2021-08-19 04:34:17,927] multiqc [DEBUG ] No samples found: samblaster [2021-08-19 04:34:17,935] multiqc [DEBUG ] No samples found: samtools [2021-08-19 04:34:17,940] multiqc [DEBUG ] No samples found: sexdeterrmine [2021-08-19 04:34:17,945] multiqc [DEBUG ] No samples found: bamtools [2021-08-19 04:34:17,949] multiqc [DEBUG ] No samples found: jellyfish [2021-08-19 04:34:17,956] multiqc [DEBUG ] No samples found: vcftools [2021-08-19 04:34:17,960] multiqc [DEBUG ] No samples found: longranger [2021-08-19 04:34:17,965] multiqc [DEBUG ] No samples found: stacks [2021-08-19 04:34:17,969] multiqc [DEBUG ] No samples found: varscan2 [2021-08-19 04:34:17,982] multiqc [DEBUG ] No samples found: bbmap [2021-08-19 04:34:17,988] multiqc [DEBUG ] No samples found: bismark [2021-08-19 04:34:17,993] multiqc [DEBUG ] No samples found: biscuit [2021-08-19 04:34:17,998] multiqc [DEBUG ] No samples found: hicexplorer [2021-08-19 04:34:18,003] multiqc [DEBUG ] No samples found: hicup [2021-08-19 04:34:18,007] multiqc [DEBUG ] No samples found: hicpro [2021-08-19 04:34:18,011] multiqc [DEBUG ] No samples found: salmon [2021-08-19 04:34:18,016] multiqc [DEBUG ] No samples found: kallisto [2021-08-19 04:34:18,023] multiqc [DEBUG ] No samples found: slamdunk [2021-08-19 04:34:18,028] multiqc [DEBUG ] No samples found: star [2021-08-19 04:34:18,034] multiqc [DEBUG ] No samples found: hisat2 [2021-08-19 04:34:18,039] multiqc [DEBUG ] No samples found: tophat [2021-08-19 04:34:18,043] multiqc [DEBUG ] No samples found: bowtie2 [2021-08-19 04:34:18,048] multiqc [DEBUG ] No samples found: bowtie1 [2021-08-19 04:34:18,053] multiqc [DEBUG ] No samples found: snpsplit [2021-08-19 04:34:18,057] multiqc [DEBUG ] No samples found: kat [2021-08-19 04:34:18,061] multiqc [DEBUG ] No samples found: leehom [2021-08-19 04:34:18,065] multiqc [DEBUG ] No samples found: adapterRemoval [2021-08-19 04:34:18,069] multiqc [DEBUG ] No samples found: clipandmerge [2021-08-19 04:34:18,074] multiqc [DEBUG ] No samples found: cutadapt [2021-08-19 04:34:18,078] multiqc [DEBUG ] No samples found: flexbar [2021-08-19 04:34:18,083] multiqc [DEBUG ] No samples found: kaiju [2021-08-19 04:34:18,088] multiqc [DEBUG ] No samples found: kraken [2021-08-19 04:34:18,093] multiqc [DEBUG ] No samples found: malt [2021-08-19 04:34:18,097] multiqc [DEBUG ] No samples found: trimmomatic [2021-08-19 04:34:18,101] multiqc [DEBUG ] No samples found: sickle [2021-08-19 04:34:18,106] multiqc [DEBUG ] No samples found: skewer [2021-08-19 04:34:18,110] multiqc [DEBUG ] No samples found: sortmerna [2021-08-19 04:34:18,115] multiqc [DEBUG ] No samples found: biobloomtools [2021-08-19 04:34:18,119] multiqc [DEBUG ] No samples found: fastq_screen [2021-08-19 04:34:18,123] multiqc [DEBUG ] No samples found: afterqc [2021-08-19 04:34:18,128] multiqc [DEBUG ] No samples found: fastp [2021-08-19 04:34:18,221] multiqc.modules.fastqc.fastqc [INFO ] Found 3 reports [2021-08-19 04:34:18,269] multiqc [DEBUG ] No samples found: pycoqc [2021-08-19 04:34:18,273] multiqc [DEBUG ] No samples found: minionqc [2021-08-19 04:34:18,278] multiqc [DEBUG ] No samples found: multivcfanalyzer [2021-08-19 04:34:18,282] multiqc [DEBUG ] No samples found: clusterflow [2021-08-19 04:34:18,287] multiqc [DEBUG ] No samples found: bcl2fastq [2021-08-19 04:34:18,292] multiqc [DEBUG ] No samples found: interop [2021-08-19 04:34:18,297] multiqc [DEBUG ] No samples found: ivar [2021-08-19 04:34:18,303] multiqc [DEBUG ] No samples found: flash [2021-08-19 04:34:18,311] multiqc [DEBUG ] No samples found: seqyclean [2021-08-19 04:34:18,311] multiqc [DEBUG ] Reordering sections: anchor 'demux_report' not found. [2021-08-19 04:34:18,311] multiqc [DEBUG ] Reordering sections: anchor 'demux_report' not found for module 'Run Statistics'. [2021-08-19 04:34:18,311] multiqc [DEBUG ] Reordering sections: anchor 'demux_report' not found for module 'FastQC'. [2021-08-19 04:34:18,315] multiqc [INFO ] Compressing plot data [2021-08-19 04:34:18,368] multiqc [INFO ] Report : multiqc_report.html [2021-08-19 04:34:18,368] multiqc [INFO ] Data : multiqc_data [2021-08-19 04:34:18,368] multiqc [DEBUG ] Moving data file from '/state/partition1/job-9452794/tmprytv3zap/multiqc_data' to '/scratch/gencore/logs/html/HGCGHDRXY/merged/multiqc_data' [2021-08-19 04:34:18,490] multiqc [INFO ] MultiQC complete