[2021-09-24 01:53:19,648] multiqc [DEBUG ] No MultiQC config found: /share/apps/multiqc/1.9/lib/python3.8/site-packages/multiqc_config.yaml [2021-09-24 01:53:19,648] multiqc [DEBUG ] No MultiQC config found: /home/gencore/.multiqc_config.yaml [2021-09-24 01:53:19,649] multiqc [DEBUG ] No MultiQC config found: multiqc_config.yaml [2021-09-24 01:53:19,649] multiqc [DEBUG ] Loading config settings from: /home/gencore/SCRIPTS/hpcpipe/mqc_config.yaml [2021-09-24 01:53:19,649] multiqc [DEBUG ] New config 'report_section_order': {'demux_report': {'after': 'run_stats'}} [2021-09-24 01:53:19,650] multiqc [DEBUG ] Command used: /share/apps/multiqc/1.9/bin/multiqc -f -c /home/gencore/SCRIPTS/hpcpipe/mqc_config.yaml /scratch/gencore/logs/html/H3YFLDMXY/merged [2021-09-24 01:53:21,003] multiqc [WARNING] MultiQC Version v1.11 now available! [2021-09-24 01:53:21,003] multiqc [INFO ] This is MultiQC v1.9 [2021-09-24 01:53:21,003] multiqc [DEBUG ] Command : /share/apps/multiqc/1.9/bin/multiqc -f -c /home/gencore/SCRIPTS/hpcpipe/mqc_config.yaml /scratch/gencore/logs/html/H3YFLDMXY/merged [2021-09-24 01:53:21,003] multiqc [DEBUG ] Working dir : /scratch/gencore/logs/html/H3YFLDMXY/merged [2021-09-24 01:53:21,003] multiqc [INFO ] Template : default [2021-09-24 01:53:21,003] multiqc [DEBUG ] Running Python 3.8.6 (default, Oct 11 2020, 20:34:31) [GCC Intel(R) C++ gcc 8.3.1 mode] [2021-09-24 01:53:21,003] multiqc [INFO ] Searching : /scratch/gencore/logs/html/H3YFLDMXY/merged [2021-09-24 01:53:21,003] 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 [2021-09-24 01:53:21,003] multiqc [DEBUG ] Using temporary directory for creating report: /state/partition1/job-10231896/tmps95ltmsn [2021-09-24 01:53:21,129] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: H3YFLDMXY_n02_HTO_C_210910_fastqc.html [2021-09-24 01:53:21,132] multiqc [DEBUG ] File ignored by longranger/invocation because it 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by hicexplorer because it exceeded search pattern filesize limit: H3YFLDMXY_n02_cDNA_B4_210910_fastqc.html [2021-09-24 01:53:24,240] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: H3YFLDMXY_n02_cDNA_B4_210910_fastqc.html [2021-09-24 01:53:24,296] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: H3YFLDMXY_n02_HTO_B_210910_fastqc.html [2021-09-24 01:53:24,298] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: H3YFLDMXY_n02_HTO_B_210910_fastqc.html [2021-09-24 01:53:24,379] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: H3YFLDMXY_n02_cDNA_C4_210910_fastqc.html [2021-09-24 01:53:24,382] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: H3YFLDMXY_n02_cDNA_C4_210910_fastqc.html [2021-09-24 01:53:24,436] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: H3YFLDMXY_n01_cDNA_D1_210910_fastqc.html [2021-09-24 01:53:24,438] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: H3YFLDMXY_n01_cDNA_D1_210910_fastqc.html [2021-09-24 01:53:24,503] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: H3YFLDMXY_n01_HTO_C_210910_fastqc.html [2021-09-24 01:53:24,505] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: H3YFLDMXY_n01_HTO_C_210910_fastqc.html [2021-09-24 01:53:24,564] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: H3YFLDMXY_n02_cDNA_C2_210910_fastqc.html [2021-09-24 01:53:24,566] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: H3YFLDMXY_n02_cDNA_C2_210910_fastqc.html [2021-09-24 01:53:24,874] multiqc.plots.bargraph [DEBUG ] Using matplotlib version 3.3.2 [2021-09-24 01:53:24,875] multiqc.plots.linegraph [DEBUG ] Using matplotlib version 3.3.2 [2021-09-24 01:53:24,891] multiqc.modules.custom_content.custom_content [INFO ] demux_report: Found 21 samples (table) [2021-09-24 01:53:24,901] multiqc.modules.custom_content.custom_content [INFO ] undetermined_barcodes: Found 20 samples (table) [2021-09-24 01:53:24,902] multiqc.modules.custom_content.custom_content [INFO ] run_stats: Found 1 samples (table) [2021-09-24 01:53:24,906] multiqc [DEBUG ] No samples found: conpair [2021-09-24 01:53:24,910] multiqc [DEBUG ] No samples found: peddy [2021-09-24 01:53:24,916] multiqc [DEBUG ] No samples found: somalier [2021-09-24 01:53:24,920] multiqc [DEBUG ] No samples found: methylQA [2021-09-24 01:53:24,926] multiqc [DEBUG ] No samples found: mosdepth [2021-09-24 01:53:24,931] multiqc [DEBUG ] No samples found: phantompeakqualtools [2021-09-24 01:53:24,934] multiqc [DEBUG ] No samples found: qualimap [2021-09-24 01:53:24,938] multiqc [DEBUG ] No samples found: preseq [2021-09-24 01:53:24,942] multiqc [DEBUG ] No samples found: quast [2021-09-24 01:53:24,945] multiqc [DEBUG ] No samples found: qorts [2021-09-24 01:53:24,949] multiqc [DEBUG ] No samples found: rna_seqc [2021-09-24 01:53:24,953] multiqc [DEBUG ] No samples found: rockhopper [2021-09-24 01:53:24,957] multiqc [DEBUG ] No samples found: rsem [2021-09-24 01:53:24,968] multiqc [DEBUG ] No samples found: rseqc [2021-09-24 01:53:24,971] multiqc [DEBUG ] No samples found: busco [2021-09-24 01:53:24,975] multiqc [DEBUG ] No samples found: goleft_indexcov [2021-09-24 01:53:24,979] multiqc [DEBUG ] No samples found: disambiguate [2021-09-24 01:53:24,983] multiqc [DEBUG ] No samples found: supernova [2021-09-24 01:53:24,994] multiqc [DEBUG ] No samples found: deeptools [2021-09-24 01:53:24,997] multiqc [DEBUG ] No samples found: sargasso [2021-09-24 01:53:25,001] multiqc [DEBUG ] No samples found: verifybamid [2021-09-24 01:53:25,005] multiqc [DEBUG ] No samples found: mirtrace [2021-09-24 01:53:25,009] multiqc [DEBUG ] No samples found: happy [2021-09-24 01:53:25,013] multiqc [DEBUG ] No samples found: mirtop [2021-09-24 01:53:25,018] multiqc [DEBUG ] No samples found: homer [2021-09-24 01:53:25,022] multiqc [DEBUG ] No samples found: macs2 [2021-09-24 01:53:25,025] multiqc [DEBUG ] No samples found: theta2 [2021-09-24 01:53:25,029] multiqc [DEBUG ] No samples found: snpeff [2021-09-24 01:53:25,035] multiqc [DEBUG ] No samples found: gatk [2021-09-24 01:53:25,039] multiqc [DEBUG ] No samples found: htseq [2021-09-24 01:53:25,043] multiqc [DEBUG ] No samples found: bcftools [2021-09-24 01:53:25,047] multiqc [DEBUG ] No samples found: featureCounts [2021-09-24 01:53:25,052] multiqc [DEBUG ] No samples found: fgbio [2021-09-24 01:53:25,064] multiqc [DEBUG ] No samples found: dragen [2021-09-24 01:53:25,068] multiqc [DEBUG ] No samples found: dedup [2021-09-24 01:53:25,072] multiqc [DEBUG ] No samples found: damageprofiler [2021-09-24 01:53:25,091] multiqc [DEBUG ] No samples found: biobambam2 [2021-09-24 01:53:25,095] multiqc [DEBUG ] No samples found: mtnucratio [2021-09-24 01:53:25,097] multiqc [DEBUG ] No samples found: picard [2021-09-24 01:53:25,101] multiqc [DEBUG ] No samples found: prokka [2021-09-24 01:53:25,105] multiqc [DEBUG ] No samples found: samblaster [2021-09-24 01:53:25,114] multiqc [DEBUG ] No samples found: samtools [2021-09-24 01:53:25,118] multiqc [DEBUG ] No samples found: sexdeterrmine [2021-09-24 01:53:25,122] multiqc [DEBUG ] No samples found: bamtools [2021-09-24 01:53:25,126] multiqc [DEBUG ] No samples found: jellyfish [2021-09-24 01:53:25,134] multiqc [DEBUG ] No samples found: vcftools [2021-09-24 01:53:25,138] multiqc [DEBUG ] No samples found: longranger [2021-09-24 01:53:25,142] multiqc [DEBUG ] No samples found: stacks [2021-09-24 01:53:25,146] multiqc [DEBUG ] No samples found: varscan2 [2021-09-24 01:53:25,158] multiqc [DEBUG ] No samples found: bbmap [2021-09-24 01:53:25,162] multiqc [DEBUG ] No samples found: bismark [2021-09-24 01:53:25,166] multiqc [DEBUG ] No samples found: biscuit [2021-09-24 01:53:25,170] multiqc [DEBUG ] No samples found: hicexplorer [2021-09-24 01:53:25,174] multiqc [DEBUG ] No samples found: hicup [2021-09-24 01:53:25,178] multiqc [DEBUG ] No samples found: hicpro [2021-09-24 01:53:25,181] multiqc [DEBUG ] No samples found: salmon [2021-09-24 01:53:25,185] multiqc [DEBUG ] No samples found: kallisto [2021-09-24 01:53:25,189] multiqc [DEBUG ] No samples found: slamdunk [2021-09-24 01:53:25,194] multiqc [DEBUG ] No samples found: star [2021-09-24 01:53:25,198] multiqc [DEBUG ] No samples found: hisat2 [2021-09-24 01:53:25,201] multiqc [DEBUG ] No samples found: tophat [2021-09-24 01:53:25,205] multiqc [DEBUG ] No samples found: bowtie2 [2021-09-24 01:53:25,209] multiqc [DEBUG ] No samples found: bowtie1 [2021-09-24 01:53:25,213] multiqc [DEBUG ] No samples found: snpsplit [2021-09-24 01:53:25,217] multiqc [DEBUG ] No samples found: kat [2021-09-24 01:53:25,220] multiqc [DEBUG ] No samples found: leehom [2021-09-24 01:53:25,224] multiqc [DEBUG ] No samples found: adapterRemoval [2021-09-24 01:53:25,228] multiqc [DEBUG ] No samples found: clipandmerge [2021-09-24 01:53:25,232] multiqc [DEBUG ] No samples found: cutadapt [2021-09-24 01:53:25,235] multiqc [DEBUG ] No samples found: flexbar [2021-09-24 01:53:25,239] multiqc [DEBUG ] No samples found: kaiju [2021-09-24 01:53:25,243] multiqc [DEBUG ] No samples found: kraken [2021-09-24 01:53:25,247] multiqc [DEBUG ] No samples found: malt [2021-09-24 01:53:25,251] multiqc [DEBUG ] No samples found: trimmomatic [2021-09-24 01:53:25,255] multiqc [DEBUG ] No samples found: sickle [2021-09-24 01:53:25,259] multiqc [DEBUG ] No samples found: skewer [2021-09-24 01:53:25,262] multiqc [DEBUG ] No samples found: sortmerna [2021-09-24 01:53:25,266] multiqc [DEBUG ] No samples found: biobloomtools [2021-09-24 01:53:25,270] multiqc [DEBUG ] No samples found: fastq_screen [2021-09-24 01:53:25,274] multiqc [DEBUG ] No samples found: afterqc [2021-09-24 01:53:25,278] multiqc [DEBUG ] No samples found: fastp [2021-09-24 01:53:30,655] multiqc.modules.fastqc.fastqc [INFO ] Found 42 reports [2021-09-24 01:53:31,069] multiqc [DEBUG ] No samples found: pycoqc [2021-09-24 01:53:31,073] multiqc [DEBUG ] No samples found: minionqc [2021-09-24 01:53:31,077] multiqc [DEBUG ] No samples found: multivcfanalyzer [2021-09-24 01:53:31,082] multiqc [DEBUG ] No samples found: clusterflow [2021-09-24 01:53:31,086] multiqc [DEBUG ] No samples found: bcl2fastq [2021-09-24 01:53:31,090] multiqc [DEBUG ] No samples found: interop [2021-09-24 01:53:31,094] multiqc [DEBUG ] No samples found: ivar [2021-09-24 01:53:31,098] multiqc [DEBUG ] No samples found: flash [2021-09-24 01:53:31,102] multiqc [DEBUG ] No samples found: seqyclean [2021-09-24 01:53:31,102] multiqc [DEBUG ] Reordering sections: anchor 'demux_report' not found for module ' Barcodes of Undetermined Reads'. [2021-09-24 01:53:31,102] multiqc [DEBUG ] Reordering sections: anchor 'demux_report' not found for module 'Demultiplexing Report'. [2021-09-24 01:53:31,102] multiqc [DEBUG ] Reordering sections: anchor 'demux_report' not found for module 'Run Statistics'. [2021-09-24 01:53:31,103] multiqc [DEBUG ] Reordering sections: anchor 'demux_report' not found for module 'FastQC'. [2021-09-24 01:53:31,152] multiqc [INFO ] Compressing plot data [2021-09-24 01:53:31,834] multiqc [INFO ] Report : multiqc_report.html [2021-09-24 01:53:31,834] multiqc [INFO ] Data : multiqc_data [2021-09-24 01:53:31,834] multiqc [DEBUG ] Moving data file from '/state/partition1/job-10231896/tmps95ltmsn/multiqc_data' to '/scratch/gencore/logs/html/H3YFLDMXY/merged/multiqc_data' [2021-09-24 01:53:31,956] multiqc [INFO ] MultiQC complete