[2022-11-23 03:56:09,306] multiqc [DEBUG ] No MultiQC config found: /share/apps/multiqc/1.9/lib/python3.8/site-packages/multiqc_config.yaml [2022-11-23 03:56:09,306] multiqc [DEBUG ] No MultiQC config found: /home/gencore/.multiqc_config.yaml [2022-11-23 03:56:09,306] multiqc [DEBUG ] No MultiQC config found: multiqc_config.yaml [2022-11-23 03:56:09,307] multiqc [DEBUG ] Loading config settings from: /home/gencore/SCRIPTS/hpcpipe/mqc_config.yaml [2022-11-23 03:56:09,307] multiqc [DEBUG ] New config 'report_section_order': {'demux_report': {'after': 'run_stats'}} [2022-11-23 03:56:09,308] multiqc [DEBUG ] Command used: /share/apps/multiqc/1.9/bin/multiqc -f -c /home/gencore/SCRIPTS/hpcpipe/mqc_config.yaml /scratch/gencore/logs/html/HCJ5FBGXN/merged [2022-11-23 03:56:09,823] multiqc [WARNING] MultiQC Version v1.13 now available! [2022-11-23 03:56:09,823] multiqc [INFO ] This is MultiQC v1.9 [2022-11-23 03:56:09,823] multiqc [DEBUG ] Command : /share/apps/multiqc/1.9/bin/multiqc -f -c /home/gencore/SCRIPTS/hpcpipe/mqc_config.yaml /scratch/gencore/logs/html/HCJ5FBGXN/merged [2022-11-23 03:56:09,823] multiqc [DEBUG ] Working dir : /scratch/gencore/logs/html/HCJ5FBGXN/merged [2022-11-23 03:56:09,823] multiqc [INFO ] Template : default [2022-11-23 03:56:09,823] multiqc [DEBUG ] Running Python 3.8.6 (default, Oct 11 2020, 20:34:31) [GCC Intel(R) C++ gcc 8.3.1 mode] [2022-11-23 03:56:09,823] multiqc [INFO ] Searching : /scratch/gencore/logs/html/HCJ5FBGXN/merged [2022-11-23 03:56:09,824] 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 [2022-11-23 03:56:09,824] multiqc [DEBUG ] Using temporary directory for creating report: /state/partition1/job-27266094/tmp178mlfcl [2022-11-23 03:56:09,955] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: HCJ5FBGXN_2_fastqc.html [2022-11-23 03:56:09,956] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: HCJ5FBGXN_2_fastqc.html [2022-11-23 03:56:09,998] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: HCJ5FBGXN_1_fastqc.html [2022-11-23 03:56:09,999] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: HCJ5FBGXN_1_fastqc.html [2022-11-23 03:56:10,380] multiqc.plots.bargraph [DEBUG ] Using matplotlib version 3.3.2 [2022-11-23 03:56:10,382] multiqc.plots.linegraph [DEBUG ] Using matplotlib version 3.3.2 [2022-11-23 03:56:10,386] multiqc.modules.custom_content.custom_content [WARNING] Not able to parse custom data in undetermined_barcodes_mqc.txt [2022-11-23 03:56:10,388] multiqc.modules.custom_content.custom_content [INFO ] run_stats: Found 1 samples (table) [2022-11-23 03:56:10,394] multiqc [DEBUG ] No samples found: conpair [2022-11-23 03:56:10,399] multiqc [DEBUG ] No samples found: peddy [2022-11-23 03:56:10,408] multiqc [DEBUG ] No samples found: somalier [2022-11-23 03:56:10,413] multiqc [DEBUG ] No samples found: methylQA [2022-11-23 03:56:10,421] multiqc [DEBUG ] No samples found: mosdepth [2022-11-23 03:56:10,427] multiqc [DEBUG ] No samples found: phantompeakqualtools [2022-11-23 03:56:10,433] multiqc [DEBUG ] No samples found: qualimap [2022-11-23 03:56:10,439] multiqc [DEBUG ] No samples found: preseq [2022-11-23 03:56:10,444] multiqc [DEBUG ] No samples found: quast [2022-11-23 03:56:10,449] multiqc [DEBUG ] No samples found: qorts [2022-11-23 03:56:10,455] multiqc [DEBUG ] No samples found: rna_seqc [2022-11-23 03:56:10,460] multiqc [DEBUG ] No samples found: rockhopper [2022-11-23 03:56:10,464] multiqc [DEBUG ] No samples found: rsem [2022-11-23 03:56:10,479] multiqc [DEBUG ] No samples found: rseqc [2022-11-23 03:56:10,484] multiqc [DEBUG ] No samples found: busco [2022-11-23 03:56:10,490] multiqc [DEBUG ] No samples found: goleft_indexcov [2022-11-23 03:56:10,495] multiqc [DEBUG ] No samples found: disambiguate [2022-11-23 03:56:10,500] multiqc [DEBUG ] No samples found: supernova [2022-11-23 03:56:10,513] multiqc [DEBUG ] No samples found: deeptools [2022-11-23 03:56:10,518] multiqc [DEBUG ] No samples found: sargasso [2022-11-23 03:56:10,528] multiqc [DEBUG ] No samples found: verifybamid [2022-11-23 03:56:10,534] multiqc [DEBUG ] No samples found: mirtrace [2022-11-23 03:56:10,539] multiqc [DEBUG ] No samples found: happy [2022-11-23 03:56:10,544] multiqc [DEBUG ] No samples found: mirtop [2022-11-23 03:56:10,552] multiqc [DEBUG ] No samples found: homer [2022-11-23 03:56:10,561] multiqc [DEBUG ] No samples found: macs2 [2022-11-23 03:56:10,566] multiqc [DEBUG ] No samples found: theta2 [2022-11-23 03:56:10,572] multiqc [DEBUG ] No samples found: snpeff [2022-11-23 03:56:10,580] multiqc [DEBUG ] No samples found: gatk [2022-11-23 03:56:10,585] multiqc [DEBUG ] No samples found: htseq [2022-11-23 03:56:10,591] multiqc [DEBUG ] No samples found: bcftools [2022-11-23 03:56:10,596] multiqc [DEBUG ] No samples found: featureCounts [2022-11-23 03:56:10,603] multiqc [DEBUG ] No samples found: fgbio [2022-11-23 03:56:10,620] multiqc [DEBUG ] No samples found: dragen [2022-11-23 03:56:10,625] multiqc [DEBUG ] No samples found: dedup [2022-11-23 03:56:10,631] multiqc [DEBUG ] No samples found: damageprofiler [2022-11-23 03:56:10,658] multiqc [DEBUG ] No samples found: biobambam2 [2022-11-23 03:56:10,664] multiqc [DEBUG ] No samples found: mtnucratio [2022-11-23 03:56:10,666] multiqc [DEBUG ] No samples found: picard [2022-11-23 03:56:10,671] multiqc [DEBUG ] No samples found: prokka [2022-11-23 03:56:10,675] multiqc [DEBUG ] No samples found: samblaster [2022-11-23 03:56:10,684] multiqc [DEBUG ] No samples found: samtools [2022-11-23 03:56:10,691] multiqc [DEBUG ] No samples found: sexdeterrmine [2022-11-23 03:56:10,699] multiqc [DEBUG ] No samples found: bamtools [2022-11-23 03:56:10,703] multiqc [DEBUG ] No samples found: jellyfish [2022-11-23 03:56:10,721] multiqc [DEBUG ] No samples found: vcftools [2022-11-23 03:56:10,726] multiqc [DEBUG ] No samples found: longranger [2022-11-23 03:56:10,732] multiqc [DEBUG ] No samples found: stacks [2022-11-23 03:56:10,739] multiqc [DEBUG ] No samples found: varscan2 [2022-11-23 03:56:10,752] multiqc [DEBUG ] No samples found: bbmap [2022-11-23 03:56:10,761] multiqc [DEBUG ] No samples found: bismark [2022-11-23 03:56:10,766] multiqc [DEBUG ] No samples found: biscuit [2022-11-23 03:56:10,771] multiqc [DEBUG ] No samples found: hicexplorer [2022-11-23 03:56:10,776] multiqc [DEBUG ] No samples found: hicup [2022-11-23 03:56:10,781] multiqc [DEBUG ] No samples found: hicpro [2022-11-23 03:56:10,785] multiqc [DEBUG ] No samples found: salmon [2022-11-23 03:56:10,790] multiqc [DEBUG ] No samples found: kallisto [2022-11-23 03:56:10,796] multiqc [DEBUG ] No samples found: slamdunk [2022-11-23 03:56:10,802] multiqc [DEBUG ] No samples found: star [2022-11-23 03:56:10,807] multiqc [DEBUG ] No samples found: hisat2 [2022-11-23 03:56:10,812] multiqc [DEBUG ] No samples found: tophat [2022-11-23 03:56:10,816] multiqc [DEBUG ] No samples found: bowtie2 [2022-11-23 03:56:10,821] multiqc [DEBUG ] No samples found: bowtie1 [2022-11-23 03:56:10,825] multiqc [DEBUG ] No samples found: snpsplit [2022-11-23 03:56:10,830] multiqc [DEBUG ] No samples found: kat [2022-11-23 03:56:10,834] multiqc [DEBUG ] No samples found: leehom [2022-11-23 03:56:10,839] multiqc [DEBUG ] No samples found: adapterRemoval [2022-11-23 03:56:10,844] multiqc [DEBUG ] No samples found: clipandmerge [2022-11-23 03:56:10,849] multiqc [DEBUG ] No samples found: cutadapt [2022-11-23 03:56:10,853] multiqc [DEBUG ] No samples found: flexbar [2022-11-23 03:56:10,858] multiqc [DEBUG ] No samples found: kaiju [2022-11-23 03:56:10,862] multiqc [DEBUG ] No samples found: kraken [2022-11-23 03:56:10,867] multiqc [DEBUG ] No samples found: malt [2022-11-23 03:56:10,872] multiqc [DEBUG ] No samples found: trimmomatic [2022-11-23 03:56:10,876] multiqc [DEBUG ] No samples found: sickle [2022-11-23 03:56:10,881] multiqc [DEBUG ] No samples found: skewer [2022-11-23 03:56:10,885] multiqc [DEBUG ] No samples found: sortmerna [2022-11-23 03:56:10,897] multiqc [DEBUG ] No samples found: biobloomtools [2022-11-23 03:56:10,902] multiqc [DEBUG ] No samples found: fastq_screen [2022-11-23 03:56:10,907] multiqc [DEBUG ] No samples found: afterqc [2022-11-23 03:56:10,912] multiqc [DEBUG ] No samples found: fastp [2022-11-23 03:56:11,019] multiqc.modules.fastqc.fastqc [INFO ] Found 2 reports [2022-11-23 03:56:11,071] multiqc [DEBUG ] No samples found: pycoqc [2022-11-23 03:56:11,083] multiqc [DEBUG ] No samples found: minionqc [2022-11-23 03:56:11,088] multiqc [DEBUG ] No samples found: multivcfanalyzer [2022-11-23 03:56:11,093] multiqc [DEBUG ] No samples found: clusterflow [2022-11-23 03:56:11,098] multiqc [DEBUG ] No samples found: bcl2fastq [2022-11-23 03:56:11,103] multiqc [DEBUG ] No samples found: interop [2022-11-23 03:56:11,107] multiqc [DEBUG ] No samples found: ivar [2022-11-23 03:56:11,112] multiqc [DEBUG ] No samples found: flash [2022-11-23 03:56:11,117] multiqc [DEBUG ] No samples found: seqyclean [2022-11-23 03:56:11,117] multiqc [DEBUG ] Reordering sections: anchor 'demux_report' not found. [2022-11-23 03:56:11,117] multiqc [DEBUG ] Reordering sections: anchor 'demux_report' not found for module 'Run Statistics'. [2022-11-23 03:56:11,117] multiqc [DEBUG ] Reordering sections: anchor 'demux_report' not found for module 'FastQC'. [2022-11-23 03:56:11,120] multiqc [INFO ] Compressing plot data [2022-11-23 03:56:11,160] multiqc [INFO ] Report : multiqc_report.html [2022-11-23 03:56:11,160] multiqc [INFO ] Data : multiqc_data [2022-11-23 03:56:11,160] multiqc [DEBUG ] Moving data file from '/state/partition1/job-27266094/tmp178mlfcl/multiqc_data' to '/scratch/gencore/logs/html/HCJ5FBGXN/merged/multiqc_data' [2022-11-23 03:57:52,612] multiqc [INFO ] MultiQC complete