[2023-04-01 11:32:39,863] multiqc [DEBUG ] No MultiQC config found: /share/apps/multiqc/1.9/lib/python3.8/site-packages/multiqc_config.yaml
[2023-04-01 11:32:39,863] multiqc [DEBUG ] No MultiQC config found: /home/gencore/.multiqc_config.yaml
[2023-04-01 11:32:39,863] multiqc [DEBUG ] No MultiQC config found: multiqc_config.yaml
[2023-04-01 11:32:39,865] multiqc [DEBUG ] Loading config settings from: /home/gencore/SCRIPTS/hpcpipe/mqc_config.yaml
[2023-04-01 11:32:39,865] multiqc [DEBUG ] New config 'report_section_order': {'general_stats': {'order': 1000}, 'demux_report': {'order': 900}, 'demux_report-1': {'order': 900}, 'demux_report-2': {'order': 900}, 'undetermined_barcodes': {'order': 800}, 'run_stats': {'order': 700}, 'fastqc': {'order': 500}}
[2023-04-01 11:32:39,866] multiqc [DEBUG ] Command used: /share/apps/multiqc/1.9/bin/multiqc -f -c /home/gencore/SCRIPTS/hpcpipe/mqc_config.yaml /scratch/gencore/logs/html/HWW3NDRX2/merged
[2023-04-01 11:32:40,405] multiqc [WARNING] MultiQC Version v1.14 now available!
[2023-04-01 11:32:40,405] multiqc [INFO ] This is MultiQC v1.9
[2023-04-01 11:32:40,405] multiqc [DEBUG ] Command : /share/apps/multiqc/1.9/bin/multiqc -f -c /home/gencore/SCRIPTS/hpcpipe/mqc_config.yaml /scratch/gencore/logs/html/HWW3NDRX2/merged
[2023-04-01 11:32:40,405] multiqc [DEBUG ] Working dir : /scratch/gencore/logs/html/HWW3NDRX2/merged
[2023-04-01 11:32:40,405] multiqc [INFO ] Template : default
[2023-04-01 11:32:40,405] multiqc [DEBUG ] Running Python 3.8.6 (default, Oct 11 2020, 20:34:31) [GCC Intel(R) C++ gcc 8.3.1 mode]
[2023-04-01 11:32:40,405] multiqc [INFO ] Searching : /scratch/gencore/logs/html/HWW3NDRX2/merged
[2023-04-01 11:32:40,405] 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
[2023-04-01 11:32:40,406] multiqc [DEBUG ] Using temporary directory for creating report: /state/partition1/job-31513577/tmp2cplz7bh
[2023-04-01 11:32:40,524] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: HWW3NDRX2_1_fastqc.html
[2023-04-01 11:32:40,525] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: HWW3NDRX2_1_fastqc.html
[2023-04-01 11:32:40,566] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: HWW3NDRX2_3_fastqc.html
[2023-04-01 11:32:40,567] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: HWW3NDRX2_3_fastqc.html
[2023-04-01 11:32:40,612] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: HWW3NDRX2_2_fastqc.html
[2023-04-01 11:32:40,613] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: HWW3NDRX2_2_fastqc.html
[2023-04-01 11:32:40,658] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: HWW3NDRX2_4_fastqc.html
[2023-04-01 11:32:40,660] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: HWW3NDRX2_4_fastqc.html
[2023-04-01 11:32:41,070] multiqc.plots.bargraph [DEBUG ] Using matplotlib version 3.3.2
[2023-04-01 11:32:41,073] multiqc.plots.linegraph [DEBUG ] Using matplotlib version 3.3.2
[2023-04-01 11:32:41,098] multiqc.modules.custom_content.custom_content [WARNING] Not able to parse custom data in undetermined_barcodes_mqc.txt
[2023-04-01 11:32:41,100] multiqc.modules.custom_content.custom_content [INFO ] run_stats: Found 1 samples (table)
[2023-04-01 11:32:41,117] multiqc [DEBUG ] No samples found: conpair
[2023-04-01 11:32:41,153] multiqc [DEBUG ] No samples found: peddy
[2023-04-01 11:32:41,174] multiqc [DEBUG ] No samples found: somalier
[2023-04-01 11:32:41,208] multiqc [DEBUG ] No samples found: methylQA
[2023-04-01 11:32:41,255] multiqc [DEBUG ] No samples found: mosdepth
[2023-04-01 11:32:41,277] multiqc [DEBUG ] No samples found: phantompeakqualtools
[2023-04-01 11:32:41,290] multiqc [DEBUG ] No samples found: qualimap
[2023-04-01 11:32:41,315] multiqc [DEBUG ] No samples found: preseq
[2023-04-01 11:32:41,339] multiqc [DEBUG ] No samples found: quast
[2023-04-01 11:32:41,359] multiqc [DEBUG ] No samples found: qorts
[2023-04-01 11:32:41,396] multiqc [DEBUG ] No samples found: rna_seqc
[2023-04-01 11:32:41,412] multiqc [DEBUG ] No samples found: rockhopper
[2023-04-01 11:32:41,438] multiqc [DEBUG ] No samples found: rsem
[2023-04-01 11:32:41,507] multiqc [DEBUG ] No samples found: rseqc
[2023-04-01 11:32:41,528] multiqc [DEBUG ] No samples found: busco
[2023-04-01 11:32:41,550] multiqc [DEBUG ] No samples found: goleft_indexcov
[2023-04-01 11:32:41,571] multiqc [DEBUG ] No samples found: disambiguate
[2023-04-01 11:32:41,594] multiqc [DEBUG ] No samples found: supernova
[2023-04-01 11:32:41,672] multiqc [DEBUG ] No samples found: deeptools
[2023-04-01 11:32:41,695] multiqc [DEBUG ] No samples found: sargasso
[2023-04-01 11:32:41,722] multiqc [DEBUG ] No samples found: verifybamid
[2023-04-01 11:32:41,738] multiqc [DEBUG ] No samples found: mirtrace
[2023-04-01 11:32:41,759] multiqc [DEBUG ] No samples found: happy
[2023-04-01 11:32:41,782] multiqc [DEBUG ] No samples found: mirtop
[2023-04-01 11:32:41,826] multiqc [DEBUG ] No samples found: homer
[2023-04-01 11:32:41,859] multiqc [DEBUG ] No samples found: macs2
[2023-04-01 11:32:41,874] multiqc [DEBUG ] No samples found: theta2
[2023-04-01 11:32:41,897] multiqc [DEBUG ] No samples found: snpeff
[2023-04-01 11:32:41,936] multiqc [DEBUG ] No samples found: gatk
[2023-04-01 11:32:41,957] multiqc [DEBUG ] No samples found: htseq
[2023-04-01 11:32:41,991] multiqc [DEBUG ] No samples found: bcftools
[2023-04-01 11:32:42,013] multiqc [DEBUG ] No samples found: featureCounts
[2023-04-01 11:32:42,047] multiqc [DEBUG ] No samples found: fgbio
[2023-04-01 11:32:42,118] multiqc [DEBUG ] No samples found: dragen
[2023-04-01 11:32:42,137] multiqc [DEBUG ] No samples found: dedup
[2023-04-01 11:32:42,158] multiqc [DEBUG ] No samples found: damageprofiler
[2023-04-01 11:32:42,269] multiqc [DEBUG ] No samples found: biobambam2
[2023-04-01 11:32:42,294] multiqc [DEBUG ] No samples found: mtnucratio
[2023-04-01 11:32:42,296] multiqc [DEBUG ] No samples found: picard
[2023-04-01 11:32:42,317] multiqc [DEBUG ] No samples found: prokka
[2023-04-01 11:32:42,322] multiqc [DEBUG ] No samples found: samblaster
[2023-04-01 11:32:42,384] multiqc [DEBUG ] No samples found: samtools
[2023-04-01 11:32:42,410] multiqc [DEBUG ] No samples found: sexdeterrmine
[2023-04-01 11:32:42,441] multiqc [DEBUG ] No samples found: bamtools
[2023-04-01 11:32:42,460] multiqc [DEBUG ] No samples found: jellyfish
[2023-04-01 11:32:42,538] multiqc [DEBUG ] No samples found: vcftools
[2023-04-01 11:32:42,570] multiqc [DEBUG ] No samples found: longranger
[2023-04-01 11:32:42,586] multiqc [DEBUG ] No samples found: stacks
[2023-04-01 11:32:42,608] multiqc [DEBUG ] No samples found: varscan2
[2023-04-01 11:32:42,677] multiqc [DEBUG ] No samples found: bbmap
[2023-04-01 11:32:42,696] multiqc [DEBUG ] No samples found: bismark
[2023-04-01 11:32:42,709] multiqc [DEBUG ] No samples found: biscuit
[2023-04-01 11:32:42,734] multiqc [DEBUG ] No samples found: hicexplorer
[2023-04-01 11:32:42,756] multiqc [DEBUG ] No samples found: hicup
[2023-04-01 11:32:42,793] multiqc [DEBUG ] No samples found: hicpro
[2023-04-01 11:32:42,811] multiqc [DEBUG ] No samples found: salmon
[2023-04-01 11:32:42,845] multiqc [DEBUG ] No samples found: kallisto
[2023-04-01 11:32:42,868] multiqc [DEBUG ] No samples found: slamdunk
[2023-04-01 11:32:42,897] multiqc [DEBUG ] No samples found: star
[2023-04-01 11:32:42,914] multiqc [DEBUG ] No samples found: hisat2
[2023-04-01 11:32:42,939] multiqc [DEBUG ] No samples found: tophat
[2023-04-01 11:32:42,972] multiqc [DEBUG ] No samples found: bowtie2
[2023-04-01 11:32:42,992] multiqc [DEBUG ] No samples found: bowtie1
[2023-04-01 11:32:43,014] multiqc [DEBUG ] No samples found: snpsplit
[2023-04-01 11:32:43,019] multiqc [DEBUG ] No samples found: kat
[2023-04-01 11:32:43,056] multiqc [DEBUG ] No samples found: leehom
[2023-04-01 11:32:43,076] multiqc [DEBUG ] No samples found: adapterRemoval
[2023-04-01 11:32:43,091] multiqc [DEBUG ] No samples found: clipandmerge
[2023-04-01 11:32:43,114] multiqc [DEBUG ] No samples found: cutadapt
[2023-04-01 11:32:43,137] multiqc [DEBUG ] No samples found: flexbar
[2023-04-01 11:32:43,184] multiqc [DEBUG ] No samples found: kaiju
[2023-04-01 11:32:43,200] multiqc [DEBUG ] No samples found: kraken
[2023-04-01 11:32:43,216] multiqc [DEBUG ] No samples found: malt
[2023-04-01 11:32:43,232] multiqc [DEBUG ] No samples found: trimmomatic
[2023-04-01 11:32:43,255] multiqc [DEBUG ] No samples found: sickle
[2023-04-01 11:32:43,282] multiqc [DEBUG ] No samples found: skewer
[2023-04-01 11:32:43,298] multiqc [DEBUG ] No samples found: sortmerna
[2023-04-01 11:32:43,342] multiqc [DEBUG ] No samples found: biobloomtools
[2023-04-01 11:32:43,358] multiqc [DEBUG ] No samples found: fastq_screen
[2023-04-01 11:32:43,390] multiqc [DEBUG ] No samples found: afterqc
[2023-04-01 11:32:43,424] multiqc [DEBUG ] No samples found: fastp
[2023-04-01 11:32:43,497] multiqc.modules.fastqc.fastqc [INFO ] Found 4 reports
[2023-04-01 11:32:43,554] multiqc [DEBUG ] No samples found: pycoqc
[2023-04-01 11:32:43,568] multiqc [DEBUG ] No samples found: minionqc
[2023-04-01 11:32:43,590] multiqc [DEBUG ] No samples found: multivcfanalyzer
[2023-04-01 11:32:43,616] multiqc [DEBUG ] No samples found: clusterflow
[2023-04-01 11:32:43,641] multiqc [DEBUG ] No samples found: bcl2fastq
[2023-04-01 11:32:43,666] multiqc [DEBUG ] No samples found: interop
[2023-04-01 11:32:43,700] multiqc [DEBUG ] No samples found: ivar
[2023-04-01 11:32:43,718] multiqc [DEBUG ] No samples found: flash
[2023-04-01 11:32:43,749] multiqc [DEBUG ] No samples found: seqyclean
[2023-04-01 11:32:43,749] multiqc [DEBUG ] Reordering sections: anchor 'general_stats' not found.
[2023-04-01 11:32:43,750] multiqc [DEBUG ] Reordering sections: anchor 'demux_report' not found.
[2023-04-01 11:32:43,750] multiqc [DEBUG ] Reordering sections: anchor 'demux_report-1' not found.
[2023-04-01 11:32:43,750] multiqc [DEBUG ] Reordering sections: anchor 'demux_report-2' not found.
[2023-04-01 11:32:43,750] multiqc [DEBUG ] Reordering sections: anchor 'undetermined_barcodes' not found.
[2023-04-01 11:32:43,750] multiqc [DEBUG ] Reordering sections: anchor 'general_stats' not found for module 'Run Statistics'.
[2023-04-01 11:32:43,750] multiqc [DEBUG ] Reordering sections: anchor 'demux_report' not found for module 'Run Statistics'.
[2023-04-01 11:32:43,750] multiqc [DEBUG ] Reordering sections: anchor 'demux_report-1' not found for module 'Run Statistics'.
[2023-04-01 11:32:43,750] multiqc [DEBUG ] Reordering sections: anchor 'demux_report-2' not found for module 'Run Statistics'.
[2023-04-01 11:32:43,750] multiqc [DEBUG ] Reordering sections: anchor 'undetermined_barcodes' not found for module 'Run Statistics'.
[2023-04-01 11:32:43,750] multiqc [DEBUG ] Reordering sections: anchor 'run_stats' not found for module 'Run Statistics'.
[2023-04-01 11:32:43,750] multiqc [DEBUG ] Reordering sections: anchor 'fastqc' not found for module 'Run Statistics'.
[2023-04-01 11:32:43,750] multiqc [DEBUG ] Reordering sections: anchor 'general_stats' not found for module 'FastQC'.
[2023-04-01 11:32:43,750] multiqc [DEBUG ] Reordering sections: anchor 'demux_report' not found for module 'FastQC'.
[2023-04-01 11:32:43,750] multiqc [DEBUG ] Reordering sections: anchor 'demux_report-1' not found for module 'FastQC'.
[2023-04-01 11:32:43,750] multiqc [DEBUG ] Reordering sections: anchor 'demux_report-2' not found for module 'FastQC'.
[2023-04-01 11:32:43,750] multiqc [DEBUG ] Reordering sections: anchor 'undetermined_barcodes' not found for module 'FastQC'.
[2023-04-01 11:32:43,750] multiqc [DEBUG ] Reordering sections: anchor 'run_stats' not found for module 'FastQC'.
[2023-04-01 11:32:43,750] multiqc [DEBUG ] Reordering sections: anchor 'fastqc' not found for module 'FastQC'.
[2023-04-01 11:32:43,756] multiqc [INFO ] Compressing plot data
[2023-04-01 11:32:43,820] multiqc [INFO ] Report : multiqc_report.html
[2023-04-01 11:32:43,820] multiqc [INFO ] Data : multiqc_data
[2023-04-01 11:32:43,820] multiqc [DEBUG ] Moving data file from '/state/partition1/job-31513577/tmp2cplz7bh/multiqc_data' to '/scratch/gencore/logs/html/HWW3NDRX2/merged/multiqc_data'
[2023-04-01 11:32:43,949] multiqc [INFO ] MultiQC complete