[2022-12-20 02:11:11,919] multiqc [DEBUG ] No MultiQC config found: /share/apps/multiqc/1.9/lib/python3.8/site-packages/multiqc_config.yaml [2022-12-20 02:11:11,919] multiqc [DEBUG ] No MultiQC config found: /home/gencore/.multiqc_config.yaml [2022-12-20 02:11:11,920] multiqc [DEBUG ] No MultiQC config found: multiqc_config.yaml [2022-12-20 02:11:11,920] multiqc [DEBUG ] Loading config settings from: /home/gencore/SCRIPTS/hpcpipe/mqc_config.yaml [2022-12-20 02:11:11,920] multiqc [DEBUG ] New config 'report_section_order': {'demux_report': {'after': 'run_stats'}} [2022-12-20 02:11:11,921] multiqc [DEBUG ] Command used: /share/apps/multiqc/1.9/bin/multiqc -f -c /home/gencore/SCRIPTS/hpcpipe/mqc_config.yaml /scratch/gencore/logs/html/H2Y7MAFX5/merged [2022-12-20 02:11:12,439] multiqc [WARNING] MultiQC Version v1.13 now available! [2022-12-20 02:11:12,439] multiqc [INFO ] This is MultiQC v1.9 [2022-12-20 02:11:12,439] multiqc [DEBUG ] Command : /share/apps/multiqc/1.9/bin/multiqc -f -c /home/gencore/SCRIPTS/hpcpipe/mqc_config.yaml /scratch/gencore/logs/html/H2Y7MAFX5/merged [2022-12-20 02:11:12,439] multiqc [DEBUG ] Working dir : /scratch/gencore/logs/html/H2Y7MAFX5/merged [2022-12-20 02:11:12,439] multiqc [INFO ] Template : default [2022-12-20 02:11:12,440] multiqc [DEBUG ] Running Python 3.8.6 (default, Oct 11 2020, 20:34:31) [GCC Intel(R) C++ gcc 8.3.1 mode] [2022-12-20 02:11:12,440] multiqc [INFO ] Searching : /scratch/gencore/logs/html/H2Y7MAFX5/merged [2022-12-20 02:11:12,440] 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 [2022-12-20 02:11:12,440] multiqc [DEBUG ] Using temporary directory for creating report: /state/partition1/job-28448400/tmp6r5nsmso [2022-12-20 02:11:12,556] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: H2Y7MAFX5_3_fastqc.html [2022-12-20 02:11:12,558] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: H2Y7MAFX5_3_fastqc.html [2022-12-20 02:11:12,601] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: H2Y7MAFX5_4_fastqc.html [2022-12-20 02:11:12,603] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: H2Y7MAFX5_4_fastqc.html [2022-12-20 02:11:12,644] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: H2Y7MAFX5_2_fastqc.html [2022-12-20 02:11:12,646] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: H2Y7MAFX5_2_fastqc.html [2022-12-20 02:11:12,689] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: H2Y7MAFX5_1_fastqc.html [2022-12-20 02:11:12,691] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: H2Y7MAFX5_1_fastqc.html [2022-12-20 02:11:13,018] multiqc.plots.bargraph [DEBUG ] Using matplotlib version 3.3.2 [2022-12-20 02:11:13,019] multiqc.plots.linegraph [DEBUG ] Using matplotlib version 3.3.2 [2022-12-20 02:11:13,025] multiqc.modules.custom_content.custom_content [WARNING] Not able to parse custom data in undetermined_barcodes_mqc.txt [2022-12-20 02:11:13,026] multiqc.modules.custom_content.custom_content [INFO ] run_stats: Found 1 samples (table) [2022-12-20 02:11:13,031] multiqc [DEBUG ] No samples found: conpair [2022-12-20 02:11:13,037] multiqc [DEBUG ] No samples found: peddy [2022-12-20 02:11:13,044] multiqc [DEBUG ] No samples found: somalier [2022-12-20 02:11:13,049] multiqc [DEBUG ] No samples found: methylQA [2022-12-20 02:11:13,060] multiqc [DEBUG ] No samples found: mosdepth [2022-12-20 02:11:13,064] multiqc [DEBUG ] No samples found: phantompeakqualtools [2022-12-20 02:11:13,068] multiqc [DEBUG ] No samples found: qualimap [2022-12-20 02:11:13,073] multiqc [DEBUG ] No samples found: preseq [2022-12-20 02:11:13,078] multiqc [DEBUG ] No samples found: quast [2022-12-20 02:11:13,083] multiqc [DEBUG ] No samples found: qorts [2022-12-20 02:11:13,089] multiqc [DEBUG ] No samples found: rna_seqc [2022-12-20 02:11:13,093] multiqc [DEBUG ] No samples found: rockhopper [2022-12-20 02:11:13,098] multiqc [DEBUG ] No samples found: rsem [2022-12-20 02:11:13,110] multiqc [DEBUG ] No samples found: rseqc [2022-12-20 02:11:13,114] multiqc [DEBUG ] No samples found: busco [2022-12-20 02:11:13,119] multiqc [DEBUG ] No samples found: goleft_indexcov [2022-12-20 02:11:13,124] multiqc [DEBUG ] No samples found: disambiguate [2022-12-20 02:11:13,129] multiqc [DEBUG ] No samples found: supernova [2022-12-20 02:11:13,143] multiqc [DEBUG ] No samples found: deeptools [2022-12-20 02:11:13,148] multiqc [DEBUG ] No samples found: sargasso [2022-12-20 02:11:13,153] multiqc [DEBUG ] No samples found: verifybamid [2022-12-20 02:11:13,159] multiqc [DEBUG ] No samples found: mirtrace [2022-12-20 02:11:13,163] multiqc [DEBUG ] No samples found: happy [2022-12-20 02:11:13,168] multiqc [DEBUG ] No samples found: mirtop [2022-12-20 02:11:13,175] multiqc [DEBUG ] No samples found: homer [2022-12-20 02:11:13,180] multiqc [DEBUG ] No samples found: macs2 [2022-12-20 02:11:13,184] multiqc [DEBUG ] No samples found: theta2 [2022-12-20 02:11:13,190] multiqc [DEBUG ] No samples found: snpeff [2022-12-20 02:11:13,198] multiqc [DEBUG ] No samples found: gatk [2022-12-20 02:11:13,202] multiqc [DEBUG ] No samples found: htseq [2022-12-20 02:11:13,208] multiqc [DEBUG ] No samples found: bcftools [2022-12-20 02:11:13,213] multiqc [DEBUG ] No samples found: featureCounts [2022-12-20 02:11:13,220] multiqc [DEBUG ] No samples found: fgbio [2022-12-20 02:11:13,234] multiqc [DEBUG ] No samples found: dragen [2022-12-20 02:11:13,239] multiqc [DEBUG ] No samples found: dedup [2022-12-20 02:11:13,246] multiqc [DEBUG ] No samples found: damageprofiler [2022-12-20 02:11:13,269] multiqc [DEBUG ] No samples found: biobambam2 [2022-12-20 02:11:13,274] multiqc [DEBUG ] No samples found: mtnucratio [2022-12-20 02:11:13,277] multiqc [DEBUG ] No samples found: picard [2022-12-20 02:11:13,281] multiqc [DEBUG ] No samples found: prokka [2022-12-20 02:11:13,286] multiqc [DEBUG ] No samples found: samblaster [2022-12-20 02:11:13,295] multiqc [DEBUG ] No samples found: samtools [2022-12-20 02:11:13,301] multiqc [DEBUG ] No samples found: sexdeterrmine [2022-12-20 02:11:13,307] multiqc [DEBUG ] No samples found: bamtools [2022-12-20 02:11:13,311] multiqc [DEBUG ] No samples found: jellyfish [2022-12-20 02:11:13,319] multiqc [DEBUG ] No samples found: vcftools [2022-12-20 02:11:13,324] multiqc [DEBUG ] No samples found: longranger [2022-12-20 02:11:13,328] multiqc [DEBUG ] No samples found: stacks [2022-12-20 02:11:13,333] multiqc [DEBUG ] No samples found: varscan2 [2022-12-20 02:11:13,349] multiqc [DEBUG ] No samples found: bbmap [2022-12-20 02:11:13,355] multiqc [DEBUG ] No samples found: bismark [2022-12-20 02:11:13,363] multiqc [DEBUG ] No samples found: biscuit [2022-12-20 02:11:13,368] multiqc [DEBUG ] No samples found: hicexplorer [2022-12-20 02:11:13,373] multiqc [DEBUG ] No samples found: hicup [2022-12-20 02:11:13,378] multiqc [DEBUG ] No samples found: hicpro [2022-12-20 02:11:13,383] multiqc [DEBUG ] No samples found: salmon [2022-12-20 02:11:13,387] multiqc [DEBUG ] No samples found: kallisto [2022-12-20 02:11:13,392] multiqc [DEBUG ] No samples found: slamdunk [2022-12-20 02:11:13,397] multiqc [DEBUG ] No samples found: star [2022-12-20 02:11:13,402] multiqc [DEBUG ] No samples found: hisat2 [2022-12-20 02:11:13,407] multiqc [DEBUG ] No samples found: tophat [2022-12-20 02:11:13,412] multiqc [DEBUG ] No samples found: bowtie2 [2022-12-20 02:11:13,417] multiqc [DEBUG ] No samples found: bowtie1 [2022-12-20 02:11:13,422] multiqc [DEBUG ] No samples found: snpsplit [2022-12-20 02:11:13,427] multiqc [DEBUG ] No samples found: kat [2022-12-20 02:11:13,431] multiqc [DEBUG ] No samples found: leehom [2022-12-20 02:11:13,438] multiqc [DEBUG ] No samples found: adapterRemoval [2022-12-20 02:11:13,442] multiqc [DEBUG ] No samples found: clipandmerge [2022-12-20 02:11:13,446] multiqc [DEBUG ] No samples found: cutadapt [2022-12-20 02:11:13,451] multiqc [DEBUG ] No samples found: flexbar [2022-12-20 02:11:13,457] multiqc [DEBUG ] No samples found: kaiju [2022-12-20 02:11:13,462] multiqc [DEBUG ] No samples found: kraken [2022-12-20 02:11:13,467] multiqc [DEBUG ] No samples found: malt [2022-12-20 02:11:13,472] multiqc [DEBUG ] No samples found: trimmomatic [2022-12-20 02:11:13,477] multiqc [DEBUG ] No samples found: sickle [2022-12-20 02:11:13,482] multiqc [DEBUG ] No samples found: skewer [2022-12-20 02:11:13,486] multiqc [DEBUG ] No samples found: sortmerna [2022-12-20 02:11:13,491] multiqc [DEBUG ] No samples found: biobloomtools [2022-12-20 02:11:13,497] multiqc [DEBUG ] No samples found: fastq_screen [2022-12-20 02:11:13,501] multiqc [DEBUG ] No samples found: afterqc [2022-12-20 02:11:13,506] multiqc [DEBUG ] No samples found: fastp [2022-12-20 02:11:13,565] multiqc.modules.fastqc.fastqc [INFO ] Found 4 reports [2022-12-20 02:11:13,610] multiqc [DEBUG ] No samples found: pycoqc [2022-12-20 02:11:13,614] multiqc [DEBUG ] No samples found: minionqc [2022-12-20 02:11:13,619] multiqc [DEBUG ] No samples found: multivcfanalyzer [2022-12-20 02:11:13,624] multiqc [DEBUG ] No samples found: clusterflow [2022-12-20 02:11:13,629] multiqc [DEBUG ] No samples found: bcl2fastq [2022-12-20 02:11:13,634] multiqc [DEBUG ] No samples found: interop [2022-12-20 02:11:13,639] multiqc [DEBUG ] No samples found: ivar [2022-12-20 02:11:13,644] multiqc [DEBUG ] No samples found: flash [2022-12-20 02:11:13,649] multiqc [DEBUG ] No samples found: seqyclean [2022-12-20 02:11:13,649] multiqc [DEBUG ] Reordering sections: anchor 'demux_report' not found. [2022-12-20 02:11:13,649] multiqc [DEBUG ] Reordering sections: anchor 'demux_report' not found for module 'Run Statistics'. [2022-12-20 02:11:13,649] multiqc [DEBUG ] Reordering sections: anchor 'demux_report' not found for module 'FastQC'. [2022-12-20 02:11:13,655] multiqc [INFO ] Compressing plot data [2022-12-20 02:11:13,722] multiqc [INFO ] Report : multiqc_report.html [2022-12-20 02:11:13,722] multiqc [INFO ] Data : multiqc_data [2022-12-20 02:11:13,722] multiqc [DEBUG ] Moving data file from '/state/partition1/job-28448400/tmp6r5nsmso/multiqc_data' to '/scratch/gencore/logs/html/H2Y7MAFX5/merged/multiqc_data' [2022-12-20 02:11:13,849] multiqc [INFO ] MultiQC complete