[2021-06-29 02:16:16,086] multiqc [DEBUG ] No MultiQC config found: /share/apps/multiqc/1.9/lib/python3.8/site-packages/multiqc_config.yaml [2021-06-29 02:16:16,086] multiqc [DEBUG ] No MultiQC config found: /home/gencore/.multiqc_config.yaml [2021-06-29 02:16:16,086] multiqc [DEBUG ] No MultiQC config found: multiqc_config.yaml [2021-06-29 02:16:16,087] multiqc [DEBUG ] Loading config settings from: /home/gencore/SCRIPTS/hpcpipe/mqc_config.yaml [2021-06-29 02:16:16,087] multiqc [DEBUG ] New config 'report_section_order': {'demux_report': {'after': 'run_stats'}} [2021-06-29 02:16:16,088] multiqc [DEBUG ] Command used: /share/apps/multiqc/1.9/bin/multiqc -f -c /home/gencore/SCRIPTS/hpcpipe/mqc_config.yaml /scratch/gencore/logs/html/HTLWKAFX2/merged [2021-06-29 02:16:17,442] multiqc [WARNING] MultiQC Version v1.10.1 now available! [2021-06-29 02:16:17,443] multiqc [INFO ] This is MultiQC v1.9 [2021-06-29 02:16:17,443] multiqc [DEBUG ] Command : /share/apps/multiqc/1.9/bin/multiqc -f -c /home/gencore/SCRIPTS/hpcpipe/mqc_config.yaml /scratch/gencore/logs/html/HTLWKAFX2/merged [2021-06-29 02:16:17,443] multiqc [DEBUG ] Working dir : /scratch/gencore/logs/html/HTLWKAFX2/merged [2021-06-29 02:16:17,443] multiqc [INFO ] Template : default [2021-06-29 02:16:17,443] multiqc [DEBUG ] Running Python 3.8.6 (default, Oct 11 2020, 20:34:31) [GCC Intel(R) C++ gcc 8.3.1 mode] [2021-06-29 02:16:17,443] multiqc [INFO ] Searching : /scratch/gencore/logs/html/HTLWKAFX2/merged [2021-06-29 02:16:17,443] 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 [2021-06-29 02:16:17,443] multiqc [DEBUG ] Using temporary directory for creating report: /state/partition1/job-8180791/tmpk0362nqz [2021-06-29 02:16:17,546] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: HTLWKAFX2_n01_ChIP-zmm16-GR.rep2input_fastqc.html [2021-06-29 02:16:17,549] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: HTLWKAFX2_n01_ChIP-zmm16-GR.rep2input_fastqc.html [2021-06-29 02:16:17,592] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: HTLWKAFX2_n01_ChIP-zmm16-GR.rep1input_fastqc.html [2021-06-29 02:16:17,594] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: HTLWKAFX2_n01_ChIP-zmm16-GR.rep1input_fastqc.html [2021-06-29 02:16:17,633] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: undetermined_barcodes.txt [2021-06-29 02:16:17,634] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: undetermined_barcodes.txt [2021-06-29 02:16:17,708] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: HTLWKAFX2_n01_ChIP-zmm16-GR.rep6input_fastqc.html [2021-06-29 02:16:17,710] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: HTLWKAFX2_n01_ChIP-zmm16-GR.rep6input_fastqc.html [2021-06-29 02:16:17,752] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: HTLWKAFX2_n01_ChIP-zmm16-GR.rep3_fastqc.html [2021-06-29 02:16:17,754] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: HTLWKAFX2_n01_ChIP-zmm16-GR.rep3_fastqc.html [2021-06-29 02:16:17,795] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: HTLWKAFX2_n01_ChIP-zmm16-GR.rep6_fastqc.html [2021-06-29 02:16:17,797] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: HTLWKAFX2_n01_ChIP-zmm16-GR.rep6_fastqc.html [2021-06-29 02:16:17,837] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: HTLWKAFX2_n01_ChIP-zmm16-GR.rep1_fastqc.html [2021-06-29 02:16:17,839] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: HTLWKAFX2_n01_ChIP-zmm16-GR.rep1_fastqc.html [2021-06-29 02:16:17,881] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: HTLWKAFX2_n01_ChIP-zmm16-GR.rep4input_fastqc.html [2021-06-29 02:16:17,883] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: HTLWKAFX2_n01_ChIP-zmm16-GR.rep4input_fastqc.html [2021-06-29 02:16:17,924] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: HTLWKAFX2_n01_ChIP-zmm16-GR.rep5input_fastqc.html [2021-06-29 02:16:17,926] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: HTLWKAFX2_n01_ChIP-zmm16-GR.rep5input_fastqc.html [2021-06-29 02:16:17,967] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: HTLWKAFX2_n01_ChIP-zmm16-GR.rep4_fastqc.html [2021-06-29 02:16:17,969] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: HTLWKAFX2_n01_ChIP-zmm16-GR.rep4_fastqc.html [2021-06-29 02:16:18,012] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: HTLWKAFX2_n01_undetermined_fastqc.html [2021-06-29 02:16:18,014] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: HTLWKAFX2_n01_undetermined_fastqc.html [2021-06-29 02:16:18,057] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: HTLWKAFX2_n01_ChIP-zmm16-GR.rep2_fastqc.html [2021-06-29 02:16:18,058] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: HTLWKAFX2_n01_ChIP-zmm16-GR.rep2_fastqc.html [2021-06-29 02:16:18,105] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: HTLWKAFX2_n01_ChIP-zmm16-GR.rep3input_fastqc.html [2021-06-29 02:16:18,107] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: HTLWKAFX2_n01_ChIP-zmm16-GR.rep3input_fastqc.html [2021-06-29 02:16:18,147] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: HTLWKAFX2_n01_ChIP-zmm16-GR.rep5_fastqc.html [2021-06-29 02:16:18,149] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: HTLWKAFX2_n01_ChIP-zmm16-GR.rep5_fastqc.html [2021-06-29 02:16:18,681] multiqc.plots.bargraph [DEBUG ] Using matplotlib version 3.3.2 [2021-06-29 02:16:18,682] multiqc.plots.linegraph [DEBUG ] Using matplotlib version 3.3.2 [2021-06-29 02:16:18,695] multiqc.modules.custom_content.custom_content [INFO ] demux_report: Found 13 samples (table) [2021-06-29 02:16:18,705] multiqc.modules.custom_content.custom_content [INFO ] undetermined_barcodes: Found 20 samples (table) [2021-06-29 02:16:18,706] multiqc.modules.custom_content.custom_content [INFO ] run_stats: Found 1 samples (table) [2021-06-29 02:16:18,710] multiqc [DEBUG ] No samples found: conpair [2021-06-29 02:16:18,715] multiqc [DEBUG ] No samples found: peddy [2021-06-29 02:16:18,719] multiqc [DEBUG ] No samples found: somalier [2021-06-29 02:16:18,723] multiqc [DEBUG ] No samples found: methylQA [2021-06-29 02:16:18,730] multiqc [DEBUG ] No samples found: mosdepth [2021-06-29 02:16:18,735] multiqc [DEBUG ] No samples found: phantompeakqualtools [2021-06-29 02:16:18,738] multiqc [DEBUG ] No samples found: qualimap [2021-06-29 02:16:18,742] multiqc [DEBUG ] No samples found: preseq [2021-06-29 02:16:18,747] multiqc [DEBUG ] No samples found: quast [2021-06-29 02:16:18,752] multiqc [DEBUG ] No samples found: qorts [2021-06-29 02:16:18,756] multiqc [DEBUG ] No samples found: rna_seqc [2021-06-29 02:16:18,760] multiqc [DEBUG ] No samples found: rockhopper [2021-06-29 02:16:18,765] multiqc [DEBUG ] No samples found: rsem [2021-06-29 02:16:18,774] multiqc [DEBUG ] No samples found: rseqc [2021-06-29 02:16:18,778] multiqc [DEBUG ] No samples found: busco [2021-06-29 02:16:18,783] multiqc [DEBUG ] No samples found: goleft_indexcov [2021-06-29 02:16:18,787] multiqc [DEBUG ] No samples found: disambiguate [2021-06-29 02:16:18,791] multiqc [DEBUG ] No samples found: supernova [2021-06-29 02:16:18,802] multiqc [DEBUG ] No samples found: deeptools [2021-06-29 02:16:18,807] multiqc [DEBUG ] No samples found: sargasso [2021-06-29 02:16:18,811] multiqc [DEBUG ] No samples found: verifybamid [2021-06-29 02:16:18,816] multiqc [DEBUG ] No samples found: mirtrace [2021-06-29 02:16:18,821] multiqc [DEBUG ] No samples found: happy [2021-06-29 02:16:18,825] multiqc [DEBUG ] No samples found: mirtop [2021-06-29 02:16:18,831] multiqc [DEBUG ] No samples found: homer [2021-06-29 02:16:18,835] multiqc [DEBUG ] No samples found: macs2 [2021-06-29 02:16:18,839] multiqc [DEBUG ] No samples found: theta2 [2021-06-29 02:16:18,844] multiqc [DEBUG ] No samples found: snpeff [2021-06-29 02:16:18,850] multiqc [DEBUG ] No samples found: gatk [2021-06-29 02:16:18,854] multiqc [DEBUG ] No samples found: htseq [2021-06-29 02:16:18,859] multiqc [DEBUG ] No samples found: bcftools [2021-06-29 02:16:18,863] multiqc [DEBUG ] No samples found: featureCounts [2021-06-29 02:16:18,869] multiqc [DEBUG ] No samples found: fgbio [2021-06-29 02:16:18,881] multiqc [DEBUG ] No samples found: dragen [2021-06-29 02:16:18,886] multiqc [DEBUG ] No samples found: dedup [2021-06-29 02:16:18,890] multiqc [DEBUG ] No samples found: damageprofiler [2021-06-29 02:16:18,911] multiqc [DEBUG ] No samples found: biobambam2 [2021-06-29 02:16:18,915] multiqc [DEBUG ] No samples found: mtnucratio [2021-06-29 02:16:18,917] multiqc [DEBUG ] No samples found: picard [2021-06-29 02:16:18,921] multiqc [DEBUG ] No samples found: prokka [2021-06-29 02:16:18,925] multiqc [DEBUG ] No samples found: samblaster [2021-06-29 02:16:18,933] multiqc [DEBUG ] No samples found: samtools [2021-06-29 02:16:18,938] multiqc [DEBUG ] No samples found: sexdeterrmine [2021-06-29 02:16:18,942] multiqc [DEBUG ] No samples found: bamtools [2021-06-29 02:16:18,946] multiqc [DEBUG ] No samples found: jellyfish [2021-06-29 02:16:18,952] multiqc [DEBUG ] No samples found: vcftools [2021-06-29 02:16:18,957] multiqc [DEBUG ] No samples found: longranger [2021-06-29 02:16:18,962] multiqc [DEBUG ] No samples found: stacks [2021-06-29 02:16:18,967] multiqc [DEBUG ] No samples found: varscan2 [2021-06-29 02:16:18,983] multiqc [DEBUG ] No samples found: bbmap [2021-06-29 02:16:18,987] multiqc [DEBUG ] No samples found: bismark [2021-06-29 02:16:18,992] multiqc [DEBUG ] No samples found: biscuit [2021-06-29 02:16:18,996] multiqc [DEBUG ] No samples found: hicexplorer [2021-06-29 02:16:19,001] multiqc [DEBUG ] No samples found: hicup [2021-06-29 02:16:19,005] multiqc [DEBUG ] No samples found: hicpro [2021-06-29 02:16:19,010] multiqc [DEBUG ] No samples found: salmon [2021-06-29 02:16:19,014] multiqc [DEBUG ] No samples found: kallisto [2021-06-29 02:16:19,018] multiqc [DEBUG ] No samples found: slamdunk [2021-06-29 02:16:19,022] multiqc [DEBUG ] No samples found: star [2021-06-29 02:16:19,027] multiqc [DEBUG ] No samples found: hisat2 [2021-06-29 02:16:19,031] multiqc [DEBUG ] No samples found: tophat [2021-06-29 02:16:19,035] multiqc [DEBUG ] No samples found: bowtie2 [2021-06-29 02:16:19,039] multiqc [DEBUG ] No samples found: bowtie1 [2021-06-29 02:16:19,044] multiqc [DEBUG ] No samples found: snpsplit [2021-06-29 02:16:19,048] multiqc [DEBUG ] No samples found: kat [2021-06-29 02:16:19,052] multiqc [DEBUG ] No samples found: leehom [2021-06-29 02:16:19,056] multiqc [DEBUG ] No samples found: adapterRemoval [2021-06-29 02:16:19,060] multiqc [DEBUG ] No samples found: clipandmerge [2021-06-29 02:16:19,064] multiqc [DEBUG ] No samples found: cutadapt [2021-06-29 02:16:19,069] multiqc [DEBUG ] No samples found: flexbar [2021-06-29 02:16:19,073] multiqc [DEBUG ] No samples found: kaiju [2021-06-29 02:16:19,078] multiqc [DEBUG ] No samples found: kraken [2021-06-29 02:16:19,082] multiqc [DEBUG ] No samples found: malt [2021-06-29 02:16:19,086] multiqc [DEBUG ] No samples found: trimmomatic [2021-06-29 02:16:19,091] multiqc [DEBUG ] No samples found: sickle [2021-06-29 02:16:19,095] multiqc [DEBUG ] No samples found: skewer [2021-06-29 02:16:19,099] multiqc [DEBUG ] No samples found: sortmerna [2021-06-29 02:16:19,103] multiqc [DEBUG ] No samples found: biobloomtools [2021-06-29 02:16:19,108] multiqc [DEBUG ] No samples found: fastq_screen [2021-06-29 02:16:19,112] multiqc [DEBUG ] No samples found: afterqc [2021-06-29 02:16:19,116] multiqc [DEBUG ] No samples found: fastp [2021-06-29 02:16:19,401] multiqc.modules.fastqc.fastqc [INFO ] Found 13 reports [2021-06-29 02:16:19,542] multiqc [DEBUG ] No samples found: pycoqc [2021-06-29 02:16:19,546] multiqc [DEBUG ] No samples found: minionqc [2021-06-29 02:16:19,550] multiqc [DEBUG ] No samples found: multivcfanalyzer [2021-06-29 02:16:19,555] multiqc [DEBUG ] No samples found: clusterflow [2021-06-29 02:16:19,559] multiqc [DEBUG ] No samples found: bcl2fastq [2021-06-29 02:16:19,563] multiqc [DEBUG ] No samples found: interop [2021-06-29 02:16:19,568] multiqc [DEBUG ] No samples found: ivar [2021-06-29 02:16:19,572] multiqc [DEBUG ] No samples found: flash [2021-06-29 02:16:19,576] multiqc [DEBUG ] No samples found: seqyclean [2021-06-29 02:16:19,576] multiqc [DEBUG ] Reordering sections: anchor 'demux_report' not found for module ' Barcodes of Undetermined Reads'. [2021-06-29 02:16:19,576] multiqc [DEBUG ] Reordering sections: anchor 'demux_report' not found for module 'Demultiplexing Report'. [2021-06-29 02:16:19,576] multiqc [DEBUG ] Reordering sections: anchor 'demux_report' not found for module 'Run Statistics'. [2021-06-29 02:16:19,576] multiqc [DEBUG ] Reordering sections: anchor 'demux_report' not found for module 'FastQC'. [2021-06-29 02:16:19,592] multiqc [INFO ] Compressing plot data [2021-06-29 02:16:19,816] multiqc [INFO ] Report : multiqc_report.html [2021-06-29 02:16:19,816] multiqc [INFO ] Data : multiqc_data [2021-06-29 02:16:19,816] multiqc [DEBUG ] Moving data file from '/state/partition1/job-8180791/tmpk0362nqz/multiqc_data' to '/scratch/gencore/logs/html/HTLWKAFX2/merged/multiqc_data' [2021-06-29 02:16:19,925] multiqc [INFO ] MultiQC complete