[2022-01-15 01:16:31,744] multiqc [DEBUG ] No MultiQC config found: /share/apps/multiqc/1.9/lib/python3.8/site-packages/multiqc_config.yaml [2022-01-15 01:16:31,744] multiqc [DEBUG ] No MultiQC config found: /home/gencore/.multiqc_config.yaml [2022-01-15 01:16:31,744] multiqc [DEBUG ] No MultiQC config found: multiqc_config.yaml [2022-01-15 01:16:31,745] multiqc [DEBUG ] Loading config settings from: /home/gencore/SCRIPTS/hpcpipe/mqc_config.yaml [2022-01-15 01:16:31,745] multiqc [DEBUG ] New config 'report_section_order': {'demux_report': {'after': 'run_stats'}} [2022-01-15 01:16:31,746] multiqc [DEBUG ] Command used: /share/apps/multiqc/1.9/bin/multiqc -f -c /home/gencore/SCRIPTS/hpcpipe/mqc_config.yaml /scratch/gencore/logs/html/HVHLHBGXK/merged [2022-01-15 01:16:33,330] multiqc [WARNING] MultiQC Version v1.11 now available! [2022-01-15 01:16:33,330] multiqc [INFO ] This is MultiQC v1.9 [2022-01-15 01:16:33,330] multiqc [DEBUG ] Command : /share/apps/multiqc/1.9/bin/multiqc -f -c /home/gencore/SCRIPTS/hpcpipe/mqc_config.yaml /scratch/gencore/logs/html/HVHLHBGXK/merged [2022-01-15 01:16:33,330] multiqc [DEBUG ] Working dir : /scratch/gencore/logs/html/HVHLHBGXK/merged [2022-01-15 01:16:33,330] multiqc [INFO ] Template : default [2022-01-15 01:16:33,330] multiqc [DEBUG ] Running Python 3.8.6 (default, Oct 11 2020, 20:34:31) [GCC Intel(R) C++ gcc 8.3.1 mode] [2022-01-15 01:16:33,330] multiqc [INFO ] Searching : /scratch/gencore/logs/html/HVHLHBGXK/merged [2022-01-15 01:16:33,330] 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 [2022-01-15 01:16:33,331] multiqc [DEBUG ] Using temporary directory for creating report: /state/partition1/job-13876376/tmp7146__wy [2022-01-15 01:16:33,429] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: undetermined_barcodes.txt [2022-01-15 01:16:33,432] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: undetermined_barcodes.txt [2022-01-15 01:16:33,988] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: HVHLHBGXK_n01_Bulk_ATAC_18hpf_1_YB_fastqc.html [2022-01-15 01:16:33,990] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: HVHLHBGXK_n01_Bulk_ATAC_18hpf_1_YB_fastqc.html [2022-01-15 01:16:34,031] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: HVHLHBGXK_n01_Bulk_ATAC_14hpf_1_MB_fastqc.html [2022-01-15 01:16:34,033] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: HVHLHBGXK_n01_Bulk_ATAC_14hpf_1_MB_fastqc.html [2022-01-15 01:16:34,074] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: HVHLHBGXK_n01_undetermined_fastqc.html [2022-01-15 01:16:34,076] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: HVHLHBGXK_n01_undetermined_fastqc.html [2022-01-15 01:16:34,117] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: HVHLHBGXK_n01_Bulk_ATAC_16hpf_1_MB_fastqc.html [2022-01-15 01:16:34,119] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: HVHLHBGXK_n01_Bulk_ATAC_16hpf_1_MB_fastqc.html [2022-01-15 01:16:34,160] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: HVHLHBGXK_n01_Bulk_ATAC_18hpf_1_MB_fastqc.html [2022-01-15 01:16:34,162] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: HVHLHBGXK_n01_Bulk_ATAC_18hpf_1_MB_fastqc.html [2022-01-15 01:16:34,203] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: HVHLHBGXK_n01_Bulk_ATAC_18hpf_2_YB_fastqc.html [2022-01-15 01:16:34,204] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: HVHLHBGXK_n01_Bulk_ATAC_18hpf_2_YB_fastqc.html [2022-01-15 01:16:34,246] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: HVHLHBGXK_n01_Bulk_ATAC_18hpf_1_UD_YB_fastqc.html [2022-01-15 01:16:34,248] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: HVHLHBGXK_n01_Bulk_ATAC_18hpf_1_UD_YB_fastqc.html [2022-01-15 01:16:34,288] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: HVHLHBGXK_n01_Bulk_ATAC_12hpf_1_MB_fastqc.html [2022-01-15 01:16:34,290] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: HVHLHBGXK_n01_Bulk_ATAC_12hpf_1_MB_fastqc.html [2022-01-15 01:16:34,631] multiqc.plots.bargraph [DEBUG ] Using matplotlib version 3.3.2 [2022-01-15 01:16:34,633] multiqc.plots.linegraph [DEBUG ] Using matplotlib version 3.3.2 [2022-01-15 01:16:34,650] multiqc.modules.custom_content.custom_content [INFO ] undetermined_barcodes: Found 20 samples (table) [2022-01-15 01:16:34,652] multiqc.modules.custom_content.custom_content [INFO ] run_stats: Found 1 samples (table) [2022-01-15 01:16:34,656] multiqc.modules.custom_content.custom_content [INFO ] demux_report: Found 8 samples (table) [2022-01-15 01:16:34,663] multiqc [DEBUG ] No samples found: conpair [2022-01-15 01:16:34,670] multiqc [DEBUG ] No samples found: peddy [2022-01-15 01:16:34,676] multiqc [DEBUG ] No samples found: somalier [2022-01-15 01:16:34,683] multiqc [DEBUG ] No samples found: methylQA [2022-01-15 01:16:34,694] multiqc [DEBUG ] No samples found: mosdepth [2022-01-15 01:16:34,701] multiqc [DEBUG ] No samples found: phantompeakqualtools [2022-01-15 01:16:34,705] multiqc [DEBUG ] No samples found: qualimap [2022-01-15 01:16:34,711] multiqc [DEBUG ] No samples found: preseq [2022-01-15 01:16:34,717] multiqc [DEBUG ] No samples found: quast [2022-01-15 01:16:34,722] multiqc [DEBUG ] No samples found: qorts [2022-01-15 01:16:34,727] multiqc [DEBUG ] No samples found: rna_seqc [2022-01-15 01:16:34,732] multiqc [DEBUG ] No samples found: rockhopper [2022-01-15 01:16:34,737] multiqc [DEBUG ] No samples found: rsem [2022-01-15 01:16:34,749] multiqc [DEBUG ] No samples found: rseqc [2022-01-15 01:16:34,754] multiqc [DEBUG ] No samples found: busco [2022-01-15 01:16:34,759] multiqc [DEBUG ] No samples found: goleft_indexcov [2022-01-15 01:16:34,764] multiqc [DEBUG ] No samples found: disambiguate [2022-01-15 01:16:34,769] multiqc [DEBUG ] No samples found: supernova [2022-01-15 01:16:34,781] multiqc [DEBUG ] No samples found: deeptools [2022-01-15 01:16:34,786] multiqc [DEBUG ] No samples found: sargasso [2022-01-15 01:16:34,790] multiqc [DEBUG ] No samples found: verifybamid [2022-01-15 01:16:34,795] multiqc [DEBUG ] No samples found: mirtrace [2022-01-15 01:16:34,800] multiqc [DEBUG ] No samples found: happy [2022-01-15 01:16:34,805] multiqc [DEBUG ] No samples found: mirtop [2022-01-15 01:16:34,811] multiqc [DEBUG ] No samples found: homer [2022-01-15 01:16:34,816] multiqc [DEBUG ] No samples found: macs2 [2022-01-15 01:16:34,820] multiqc [DEBUG ] No samples found: theta2 [2022-01-15 01:16:34,825] multiqc [DEBUG ] No samples found: snpeff [2022-01-15 01:16:34,832] multiqc [DEBUG ] No samples found: gatk [2022-01-15 01:16:34,837] multiqc [DEBUG ] No samples found: htseq [2022-01-15 01:16:34,842] multiqc [DEBUG ] No samples found: bcftools [2022-01-15 01:16:34,846] multiqc [DEBUG ] No samples found: featureCounts [2022-01-15 01:16:34,852] multiqc [DEBUG ] No samples found: fgbio [2022-01-15 01:16:34,865] multiqc [DEBUG ] No samples found: dragen [2022-01-15 01:16:34,870] multiqc [DEBUG ] No samples found: dedup [2022-01-15 01:16:34,875] multiqc [DEBUG ] No samples found: damageprofiler [2022-01-15 01:16:34,897] multiqc [DEBUG ] No samples found: biobambam2 [2022-01-15 01:16:34,902] multiqc [DEBUG ] No samples found: mtnucratio [2022-01-15 01:16:34,904] multiqc [DEBUG ] No samples found: picard [2022-01-15 01:16:34,909] multiqc [DEBUG ] No samples found: prokka [2022-01-15 01:16:34,913] multiqc [DEBUG ] No samples found: samblaster [2022-01-15 01:16:34,921] multiqc [DEBUG ] No samples found: samtools [2022-01-15 01:16:34,926] multiqc [DEBUG ] No samples found: sexdeterrmine [2022-01-15 01:16:34,930] multiqc [DEBUG ] No samples found: bamtools [2022-01-15 01:16:34,935] multiqc [DEBUG ] No samples found: jellyfish [2022-01-15 01:16:34,942] multiqc [DEBUG ] No samples found: vcftools [2022-01-15 01:16:34,947] multiqc [DEBUG ] No samples found: longranger [2022-01-15 01:16:34,951] multiqc [DEBUG ] No samples found: stacks [2022-01-15 01:16:34,956] multiqc [DEBUG ] No samples found: varscan2 [2022-01-15 01:16:34,968] multiqc [DEBUG ] No samples found: bbmap [2022-01-15 01:16:34,973] multiqc [DEBUG ] No samples found: bismark [2022-01-15 01:16:34,978] multiqc [DEBUG ] No samples found: biscuit [2022-01-15 01:16:34,983] multiqc [DEBUG ] No samples found: hicexplorer [2022-01-15 01:16:34,987] multiqc [DEBUG ] No samples found: hicup [2022-01-15 01:16:34,992] multiqc [DEBUG ] No samples found: hicpro [2022-01-15 01:16:34,996] multiqc [DEBUG ] No samples found: salmon [2022-01-15 01:16:35,001] multiqc [DEBUG ] No samples found: kallisto [2022-01-15 01:16:35,006] multiqc [DEBUG ] No samples found: slamdunk [2022-01-15 01:16:35,010] multiqc [DEBUG ] No samples found: star [2022-01-15 01:16:35,015] multiqc [DEBUG ] No samples found: hisat2 [2022-01-15 01:16:35,020] multiqc [DEBUG ] No samples found: tophat [2022-01-15 01:16:35,024] multiqc [DEBUG ] No samples found: bowtie2 [2022-01-15 01:16:35,029] multiqc [DEBUG ] No samples found: bowtie1 [2022-01-15 01:16:35,033] multiqc [DEBUG ] No samples found: snpsplit [2022-01-15 01:16:35,038] multiqc [DEBUG ] No samples found: kat [2022-01-15 01:16:35,042] multiqc [DEBUG ] No samples found: leehom [2022-01-15 01:16:35,046] multiqc [DEBUG ] No samples found: adapterRemoval [2022-01-15 01:16:35,051] multiqc [DEBUG ] No samples found: clipandmerge [2022-01-15 01:16:35,055] multiqc [DEBUG ] No samples found: cutadapt [2022-01-15 01:16:35,060] multiqc [DEBUG ] No samples found: flexbar [2022-01-15 01:16:35,066] multiqc [DEBUG ] No samples found: kaiju [2022-01-15 01:16:35,072] multiqc [DEBUG ] No samples found: kraken [2022-01-15 01:16:35,079] multiqc [DEBUG ] No samples found: malt [2022-01-15 01:16:35,085] multiqc [DEBUG ] No samples found: trimmomatic [2022-01-15 01:16:35,093] multiqc [DEBUG ] No samples found: sickle [2022-01-15 01:16:35,099] multiqc [DEBUG ] No samples found: skewer [2022-01-15 01:16:35,105] multiqc [DEBUG ] No samples found: sortmerna [2022-01-15 01:16:35,111] multiqc [DEBUG ] No samples found: biobloomtools [2022-01-15 01:16:35,116] multiqc [DEBUG ] No samples found: fastq_screen [2022-01-15 01:16:35,121] multiqc [DEBUG ] No samples found: afterqc [2022-01-15 01:16:35,126] multiqc [DEBUG ] No samples found: fastp [2022-01-15 01:16:35,677] multiqc.modules.fastqc.fastqc [INFO ] Found 8 reports [2022-01-15 01:16:35,856] multiqc [DEBUG ] No samples found: pycoqc [2022-01-15 01:16:35,861] multiqc [DEBUG ] No samples found: minionqc [2022-01-15 01:16:35,867] multiqc [DEBUG ] No samples found: multivcfanalyzer [2022-01-15 01:16:35,873] multiqc [DEBUG ] No samples found: clusterflow [2022-01-15 01:16:35,878] multiqc [DEBUG ] No samples found: bcl2fastq [2022-01-15 01:16:35,882] multiqc [DEBUG ] No samples found: interop [2022-01-15 01:16:35,887] multiqc [DEBUG ] No samples found: ivar [2022-01-15 01:16:35,892] multiqc [DEBUG ] No samples found: flash [2022-01-15 01:16:35,897] multiqc [DEBUG ] No samples found: seqyclean [2022-01-15 01:16:35,897] multiqc [DEBUG ] Reordering sections: anchor 'demux_report' not found for module ' Barcodes of Undetermined Reads'. [2022-01-15 01:16:35,897] multiqc [DEBUG ] Reordering sections: anchor 'demux_report' not found for module 'Demultiplexing Report'. [2022-01-15 01:16:35,897] multiqc [DEBUG ] Reordering sections: anchor 'demux_report' not found for module 'Run Statistics'. [2022-01-15 01:16:35,897] multiqc [DEBUG ] Reordering sections: anchor 'demux_report' not found for module 'FastQC'. [2022-01-15 01:16:35,907] multiqc [INFO ] Compressing plot data [2022-01-15 01:16:36,067] multiqc [INFO ] Report : multiqc_report.html [2022-01-15 01:16:36,067] multiqc [INFO ] Data : multiqc_data [2022-01-15 01:16:36,067] multiqc [DEBUG ] Moving data file from '/state/partition1/job-13876376/tmp7146__wy/multiqc_data' to '/scratch/gencore/logs/html/HVHLHBGXK/merged/multiqc_data' [2022-01-15 01:16:36,210] multiqc [INFO ] MultiQC complete