[2022-04-26 15:54:27,195] multiqc [DEBUG ] No MultiQC config found: /share/apps/multiqc/1.9/lib/python3.8/site-packages/multiqc_config.yaml [2022-04-26 15:54:27,195] multiqc [DEBUG ] No MultiQC config found: /home/gencore/.multiqc_config.yaml [2022-04-26 15:54:27,195] multiqc [DEBUG ] No MultiQC config found: multiqc_config.yaml [2022-04-26 15:54:27,196] multiqc [DEBUG ] Loading config settings from: /home/gencore/SCRIPTS/hpcpipe/mqc_config.yaml [2022-04-26 15:54:27,196] multiqc [DEBUG ] New config 'report_section_order': {'demux_report': {'after': 'run_stats'}} [2022-04-26 15:54:27,196] multiqc [DEBUG ] Command used: /share/apps/multiqc/1.9/bin/multiqc -f -c /home/gencore/SCRIPTS/hpcpipe/mqc_config.yaml /scratch/gencore/logs/html/H5NLHDRX2/merged [2022-04-26 15:54:27,952] multiqc [WARNING] MultiQC Version v1.12 now available! [2022-04-26 15:54:27,953] multiqc [INFO ] This is MultiQC v1.9 [2022-04-26 15:54:27,953] multiqc [DEBUG ] Command : /share/apps/multiqc/1.9/bin/multiqc -f -c /home/gencore/SCRIPTS/hpcpipe/mqc_config.yaml /scratch/gencore/logs/html/H5NLHDRX2/merged [2022-04-26 15:54:27,953] multiqc [DEBUG ] Working dir : /scratch/gencore/logs/html/H5NLHDRX2/merged [2022-04-26 15:54:27,953] multiqc [INFO ] Template : default [2022-04-26 15:54:27,953] multiqc [DEBUG ] Running Python 3.8.6 (default, Oct 11 2020, 20:34:31) [GCC Intel(R) C++ gcc 8.3.1 mode] [2022-04-26 15:54:27,953] multiqc [INFO ] Searching : /scratch/gencore/logs/html/H5NLHDRX2/merged [2022-04-26 15:54:27,954] 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 [2022-04-26 15:54:27,954] multiqc [DEBUG ] Using temporary directory for creating report: /state/partition1/job-18615821/tmpr74k3u6b [2022-04-26 15:54:28,086] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: H5NLHDRX2_3_fastqc.html [2022-04-26 15:54:28,088] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: H5NLHDRX2_3_fastqc.html [2022-04-26 15:54:28,159] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: H5NLHDRX2_1_fastqc.html [2022-04-26 15:54:28,161] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: H5NLHDRX2_1_fastqc.html [2022-04-26 15:54:28,223] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: H5NLHDRX2_2_fastqc.html [2022-04-26 15:54:28,225] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: H5NLHDRX2_2_fastqc.html [2022-04-26 15:54:28,865] multiqc.plots.bargraph [DEBUG ] Using matplotlib version 3.3.2 [2022-04-26 15:54:28,866] multiqc.plots.linegraph [DEBUG ] Using matplotlib version 3.3.2 [2022-04-26 15:54:28,871] multiqc.modules.custom_content.custom_content [WARNING] Not able to parse custom data in undetermined_barcodes_mqc.txt [2022-04-26 15:54:28,873] multiqc.modules.custom_content.custom_content [INFO ] run_stats: Found 1 samples (table) [2022-04-26 15:54:28,884] multiqc [DEBUG ] No samples found: conpair [2022-04-26 15:54:28,889] multiqc [DEBUG ] No samples found: peddy [2022-04-26 15:54:28,895] multiqc [DEBUG ] No samples found: somalier [2022-04-26 15:54:28,901] multiqc [DEBUG ] No samples found: methylQA [2022-04-26 15:54:28,911] multiqc [DEBUG ] No samples found: mosdepth [2022-04-26 15:54:28,916] multiqc [DEBUG ] No samples found: phantompeakqualtools [2022-04-26 15:54:28,920] multiqc [DEBUG ] No samples found: qualimap [2022-04-26 15:54:28,927] multiqc [DEBUG ] No samples found: preseq [2022-04-26 15:54:28,932] multiqc [DEBUG ] No samples found: quast [2022-04-26 15:54:28,938] multiqc [DEBUG ] No samples found: qorts [2022-04-26 15:54:28,944] multiqc [DEBUG ] No samples found: rna_seqc [2022-04-26 15:54:28,950] multiqc [DEBUG ] No samples found: rockhopper [2022-04-26 15:54:28,955] multiqc [DEBUG ] No samples found: rsem [2022-04-26 15:54:28,970] multiqc [DEBUG ] No samples found: rseqc [2022-04-26 15:54:28,975] multiqc [DEBUG ] No samples found: busco [2022-04-26 15:54:28,980] multiqc [DEBUG ] No samples found: goleft_indexcov [2022-04-26 15:54:28,987] multiqc [DEBUG ] No samples found: disambiguate [2022-04-26 15:54:28,992] multiqc [DEBUG ] No samples found: supernova [2022-04-26 15:54:29,010] multiqc [DEBUG ] No samples found: deeptools [2022-04-26 15:54:29,015] multiqc [DEBUG ] No samples found: sargasso [2022-04-26 15:54:29,023] multiqc [DEBUG ] No samples found: verifybamid [2022-04-26 15:54:29,030] multiqc [DEBUG ] No samples found: mirtrace [2022-04-26 15:54:29,036] multiqc [DEBUG ] No samples found: happy [2022-04-26 15:54:29,042] multiqc [DEBUG ] No samples found: mirtop [2022-04-26 15:54:29,049] multiqc [DEBUG ] No samples found: homer [2022-04-26 15:54:29,054] multiqc [DEBUG ] No samples found: macs2 [2022-04-26 15:54:29,058] multiqc [DEBUG ] No samples found: theta2 [2022-04-26 15:54:29,064] multiqc [DEBUG ] No samples found: snpeff [2022-04-26 15:54:29,072] multiqc [DEBUG ] No samples found: gatk [2022-04-26 15:54:29,077] multiqc [DEBUG ] No samples found: htseq [2022-04-26 15:54:29,083] multiqc [DEBUG ] No samples found: bcftools [2022-04-26 15:54:29,088] multiqc [DEBUG ] No samples found: featureCounts [2022-04-26 15:54:29,096] multiqc [DEBUG ] No samples found: fgbio [2022-04-26 15:54:29,111] multiqc [DEBUG ] No samples found: dragen [2022-04-26 15:54:29,118] multiqc [DEBUG ] No samples found: dedup [2022-04-26 15:54:29,125] multiqc [DEBUG ] No samples found: damageprofiler [2022-04-26 15:54:29,154] multiqc [DEBUG ] No samples found: biobambam2 [2022-04-26 15:54:29,161] multiqc [DEBUG ] No samples found: mtnucratio [2022-04-26 15:54:29,163] multiqc [DEBUG ] No samples found: picard [2022-04-26 15:54:29,168] multiqc [DEBUG ] No samples found: prokka [2022-04-26 15:54:29,174] multiqc [DEBUG ] No samples found: samblaster [2022-04-26 15:54:29,183] multiqc [DEBUG ] No samples found: samtools [2022-04-26 15:54:29,188] multiqc [DEBUG ] No samples found: sexdeterrmine [2022-04-26 15:54:29,194] multiqc [DEBUG ] No samples found: bamtools [2022-04-26 15:54:29,199] multiqc [DEBUG ] No samples found: jellyfish [2022-04-26 15:54:29,207] multiqc [DEBUG ] No samples found: vcftools [2022-04-26 15:54:29,214] multiqc [DEBUG ] No samples found: longranger [2022-04-26 15:54:29,219] multiqc [DEBUG ] No samples found: stacks [2022-04-26 15:54:29,225] multiqc [DEBUG ] No samples found: varscan2 [2022-04-26 15:54:29,243] multiqc [DEBUG ] No samples found: bbmap [2022-04-26 15:54:29,248] multiqc [DEBUG ] No samples found: bismark [2022-04-26 15:54:29,254] multiqc [DEBUG ] No samples found: biscuit [2022-04-26 15:54:29,259] multiqc [DEBUG ] No samples found: hicexplorer [2022-04-26 15:54:29,264] multiqc [DEBUG ] No samples found: hicup [2022-04-26 15:54:29,269] multiqc [DEBUG ] No samples found: hicpro [2022-04-26 15:54:29,273] multiqc [DEBUG ] No samples found: salmon [2022-04-26 15:54:29,278] multiqc [DEBUG ] No samples found: kallisto [2022-04-26 15:54:29,284] multiqc [DEBUG ] No samples found: slamdunk [2022-04-26 15:54:29,290] multiqc [DEBUG ] No samples found: star [2022-04-26 15:54:29,295] multiqc [DEBUG ] No samples found: hisat2 [2022-04-26 15:54:29,300] multiqc [DEBUG ] No samples found: tophat [2022-04-26 15:54:29,305] multiqc [DEBUG ] No samples found: bowtie2 [2022-04-26 15:54:29,310] multiqc [DEBUG ] No samples found: bowtie1 [2022-04-26 15:54:29,315] multiqc [DEBUG ] No samples found: snpsplit [2022-04-26 15:54:29,320] multiqc [DEBUG ] No samples found: kat [2022-04-26 15:54:29,326] multiqc [DEBUG ] No samples found: leehom [2022-04-26 15:54:29,331] multiqc [DEBUG ] No samples found: adapterRemoval [2022-04-26 15:54:29,336] multiqc [DEBUG ] No samples found: clipandmerge [2022-04-26 15:54:29,341] multiqc [DEBUG ] No samples found: cutadapt [2022-04-26 15:54:29,347] multiqc [DEBUG ] No samples found: flexbar [2022-04-26 15:54:29,352] multiqc [DEBUG ] No samples found: kaiju [2022-04-26 15:54:29,359] multiqc [DEBUG ] No samples found: kraken [2022-04-26 15:54:29,364] multiqc [DEBUG ] No samples found: malt [2022-04-26 15:54:29,368] multiqc [DEBUG ] No samples found: trimmomatic [2022-04-26 15:54:29,374] multiqc [DEBUG ] No samples found: sickle [2022-04-26 15:54:29,379] multiqc [DEBUG ] No samples found: skewer [2022-04-26 15:54:29,383] multiqc [DEBUG ] No samples found: sortmerna [2022-04-26 15:54:29,389] multiqc [DEBUG ] No samples found: biobloomtools [2022-04-26 15:54:29,394] multiqc [DEBUG ] No samples found: fastq_screen [2022-04-26 15:54:29,399] multiqc [DEBUG ] No samples found: afterqc [2022-04-26 15:54:29,404] multiqc [DEBUG ] No samples found: fastp [2022-04-26 15:54:30,577] multiqc.modules.fastqc.fastqc [INFO ] Found 3 reports [2022-04-26 15:54:30,623] multiqc [DEBUG ] No samples found: pycoqc [2022-04-26 15:54:30,628] multiqc [DEBUG ] No samples found: minionqc [2022-04-26 15:54:30,634] multiqc [DEBUG ] No samples found: multivcfanalyzer [2022-04-26 15:54:30,639] multiqc [DEBUG ] No samples found: clusterflow [2022-04-26 15:54:30,644] multiqc [DEBUG ] No samples found: bcl2fastq [2022-04-26 15:54:30,650] multiqc [DEBUG ] No samples found: interop [2022-04-26 15:54:30,655] multiqc [DEBUG ] No samples found: ivar [2022-04-26 15:54:30,661] multiqc [DEBUG ] No samples found: flash [2022-04-26 15:54:30,667] multiqc [DEBUG ] No samples found: seqyclean [2022-04-26 15:54:30,667] multiqc [DEBUG ] Reordering sections: anchor 'demux_report' not found. [2022-04-26 15:54:30,667] multiqc [DEBUG ] Reordering sections: anchor 'demux_report' not found for module 'Run Statistics'. [2022-04-26 15:54:30,667] multiqc [DEBUG ] Reordering sections: anchor 'demux_report' not found for module 'FastQC'. [2022-04-26 15:54:30,672] multiqc [INFO ] Compressing plot data [2022-04-26 15:54:30,728] multiqc [INFO ] Report : multiqc_report.html [2022-04-26 15:54:30,728] multiqc [INFO ] Data : multiqc_data [2022-04-26 15:54:30,728] multiqc [DEBUG ] Moving data file from '/state/partition1/job-18615821/tmpr74k3u6b/multiqc_data' to '/scratch/gencore/logs/html/H5NLHDRX2/merged/multiqc_data' [2022-04-26 15:54:30,869] multiqc [INFO ] MultiQC complete