[2024-02-01 18:32:51,150] multiqc [DEBUG ] No MultiQC config found: /share/apps/multiqc/1.9/lib/python3.8/site-packages/multiqc_config.yaml [2024-02-01 18:32:51,150] multiqc [DEBUG ] No MultiQC config found: /home/mk5636/.multiqc_config.yaml [2024-02-01 18:32:51,150] multiqc [DEBUG ] No MultiQC config found: multiqc_config.yaml [2024-02-01 18:32:51,150] multiqc [DEBUG ] Command used: /share/apps/multiqc/1.9/bin/multiqc qc_files/ -o qc_files/ [2024-02-01 18:32:51,364] multiqc [WARNING] MultiQC Version v1.19 now available! [2024-02-01 18:32:51,364] multiqc [INFO ] This is MultiQC v1.9 [2024-02-01 18:32:51,364] multiqc [DEBUG ] Command : /share/apps/multiqc/1.9/bin/multiqc qc_files/ -o qc_files/ [2024-02-01 18:32:51,364] multiqc [DEBUG ] Working dir : /scratch/mk5636/nf-pipeline-test/work/ed/8cc93d3373ad8b675f38ac441baa92 [2024-02-01 18:32:51,364] multiqc [INFO ] Template : default [2024-02-01 18:32:51,364] multiqc [DEBUG ] Running Python 3.8.6 (default, Oct 11 2020, 20:34:31) [GCC Intel(R) C++ gcc 8.3.1 mode] [2024-02-01 18:32:51,365] multiqc [INFO ] Searching : /scratch/mk5636/nf-pipeline-test/work/ed/8cc93d3373ad8b675f38ac441baa92/qc_files [2024-02-01 18:32:51,365] 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 [2024-02-01 18:32:51,365] multiqc [DEBUG ] Using temporary directory for creating report: /state/partition1/job-42497638/tmpemnkjd73 [2024-02-01 18:32:51,480] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: 101023_JaneSample_pycoqc.json [2024-02-01 18:32:51,494] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: 101023_JaneSample_pycoqc.html [2024-02-01 18:32:51,496] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: 101023_JaneSample_pycoqc.html [2024-02-01 18:32:51,496] multiqc [DEBUG ] File ignored by rockhopper because it exceeded search pattern filesize limit: 101023_JaneSample_pycoqc.html [2024-02-01 18:32:51,496] multiqc [DEBUG ] File ignored by rseqc/bam_stat because it exceeded search pattern filesize limit: 101023_JaneSample_pycoqc.html [2024-02-01 18:32:51,496] multiqc [DEBUG ] File ignored by rseqc/junction_annotation because it exceeded search pattern filesize limit: 101023_JaneSample_pycoqc.html [2024-02-01 18:32:51,496] multiqc [DEBUG ] File ignored by rseqc/read_distribution because it exceeded search pattern filesize limit: 101023_JaneSample_pycoqc.html [2024-02-01 18:32:51,497] multiqc [DEBUG ] File ignored by rseqc/infer_experiment because it exceeded search pattern filesize limit: 101023_JaneSample_pycoqc.html [2024-02-01 18:32:51,497] multiqc [DEBUG ] File ignored by snpeff because it exceeded search pattern filesize limit: 101023_JaneSample_pycoqc.html [2024-02-01 18:32:51,497] multiqc [DEBUG ] File ignored by stacks/sumstats because it exceeded search pattern filesize limit: 101023_JaneSample_pycoqc.html [2024-02-01 18:32:51,754] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: 101023_JaneSample_merged_fastqc.html [2024-02-01 18:32:51,755] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: 101023_JaneSample_merged_fastqc.html [2024-02-01 18:32:52,308] multiqc.plots.bargraph [DEBUG ] Using matplotlib version 3.3.2 [2024-02-01 18:32:52,311] multiqc.plots.linegraph [DEBUG ] Using matplotlib version 3.3.2 [2024-02-01 18:32:52,314] multiqc [DEBUG ] No samples found: custom_content [2024-02-01 18:32:52,321] multiqc [DEBUG ] No samples found: conpair [2024-02-01 18:32:52,329] multiqc [DEBUG ] No samples found: peddy [2024-02-01 18:32:52,337] multiqc [DEBUG ] No samples found: somalier [2024-02-01 18:32:52,345] multiqc [DEBUG ] No samples found: methylQA [2024-02-01 18:32:52,357] multiqc [DEBUG ] No samples found: mosdepth [2024-02-01 18:32:52,364] multiqc [DEBUG ] No samples found: phantompeakqualtools [2024-02-01 18:32:52,369] multiqc [DEBUG ] No samples found: qualimap [2024-02-01 18:32:52,377] multiqc [DEBUG ] No samples found: preseq [2024-02-01 18:32:52,388] multiqc [DEBUG ] No samples found: quast [2024-02-01 18:32:52,397] multiqc [DEBUG ] No samples found: qorts [2024-02-01 18:32:52,407] multiqc [DEBUG ] No samples found: rna_seqc [2024-02-01 18:32:52,416] multiqc [DEBUG ] No samples found: rockhopper [2024-02-01 18:32:52,423] multiqc [DEBUG ] No samples found: rsem [2024-02-01 18:32:52,441] multiqc [DEBUG ] No samples found: rseqc [2024-02-01 18:32:52,448] multiqc [DEBUG ] No samples found: busco [2024-02-01 18:32:52,455] multiqc [DEBUG ] No samples found: goleft_indexcov [2024-02-01 18:32:52,462] multiqc [DEBUG ] No samples found: disambiguate [2024-02-01 18:32:52,469] multiqc [DEBUG ] No samples found: supernova [2024-02-01 18:32:52,494] multiqc [DEBUG ] No samples found: deeptools [2024-02-01 18:32:52,501] multiqc [DEBUG ] No samples found: sargasso [2024-02-01 18:32:52,508] multiqc [DEBUG ] No samples found: verifybamid [2024-02-01 18:32:52,515] multiqc [DEBUG ] No samples found: mirtrace [2024-02-01 18:32:52,522] multiqc [DEBUG ] No samples found: happy [2024-02-01 18:32:52,530] multiqc [DEBUG ] No samples found: mirtop [2024-02-01 18:32:52,540] multiqc [DEBUG ] No samples found: homer [2024-02-01 18:32:52,546] multiqc [DEBUG ] No samples found: macs2 [2024-02-01 18:32:52,551] multiqc [DEBUG ] No samples found: theta2 [2024-02-01 18:32:52,557] multiqc [DEBUG ] No samples found: snpeff [2024-02-01 18:32:52,565] multiqc [DEBUG ] No samples found: gatk [2024-02-01 18:32:52,570] multiqc [DEBUG ] No samples found: htseq [2024-02-01 18:32:52,576] multiqc [DEBUG ] No samples found: bcftools [2024-02-01 18:32:52,581] multiqc [DEBUG ] No samples found: featureCounts [2024-02-01 18:32:52,589] multiqc [DEBUG ] No samples found: fgbio [2024-02-01 18:32:52,605] multiqc [DEBUG ] No samples found: dragen [2024-02-01 18:32:52,610] multiqc [DEBUG ] No samples found: dedup [2024-02-01 18:32:52,619] multiqc [DEBUG ] No samples found: damageprofiler [2024-02-01 18:32:52,648] multiqc [DEBUG ] No samples found: biobambam2 [2024-02-01 18:32:52,653] multiqc [DEBUG ] No samples found: mtnucratio [2024-02-01 18:32:52,656] multiqc [DEBUG ] No samples found: picard [2024-02-01 18:32:52,663] multiqc [DEBUG ] No samples found: prokka [2024-02-01 18:32:52,668] multiqc [DEBUG ] No samples found: samblaster [2024-02-01 18:32:52,678] multiqc [DEBUG ] No samples found: samtools [2024-02-01 18:32:52,685] multiqc [DEBUG ] No samples found: sexdeterrmine [2024-02-01 18:32:52,690] multiqc [DEBUG ] No samples found: bamtools [2024-02-01 18:32:52,696] multiqc [DEBUG ] No samples found: jellyfish [2024-02-01 18:32:52,706] multiqc [DEBUG ] No samples found: vcftools [2024-02-01 18:32:52,712] multiqc [DEBUG ] No samples found: longranger [2024-02-01 18:32:52,718] multiqc [DEBUG ] No samples found: stacks [2024-02-01 18:32:52,723] multiqc [DEBUG ] No samples found: varscan2 [2024-02-01 18:32:52,739] multiqc [DEBUG ] No samples found: bbmap [2024-02-01 18:32:52,745] multiqc [DEBUG ] No samples found: bismark [2024-02-01 18:32:52,753] multiqc [DEBUG ] No samples found: biscuit [2024-02-01 18:32:52,758] multiqc [DEBUG ] No samples found: hicexplorer [2024-02-01 18:32:52,764] multiqc [DEBUG ] No samples found: hicup [2024-02-01 18:32:52,770] multiqc [DEBUG ] No samples found: hicpro [2024-02-01 18:32:52,776] multiqc [DEBUG ] No samples found: salmon [2024-02-01 18:32:52,782] multiqc [DEBUG ] No samples found: kallisto [2024-02-01 18:32:52,788] multiqc [DEBUG ] No samples found: slamdunk [2024-02-01 18:32:52,793] multiqc [DEBUG ] No samples found: star [2024-02-01 18:32:52,800] multiqc [DEBUG ] No samples found: hisat2 [2024-02-01 18:32:52,805] multiqc [DEBUG ] No samples found: tophat [2024-02-01 18:32:52,810] multiqc [DEBUG ] No samples found: bowtie2 [2024-02-01 18:32:52,816] multiqc [DEBUG ] No samples found: bowtie1 [2024-02-01 18:32:52,821] multiqc [DEBUG ] No samples found: snpsplit [2024-02-01 18:32:52,826] multiqc [DEBUG ] No samples found: kat [2024-02-01 18:32:52,831] multiqc [DEBUG ] No samples found: leehom [2024-02-01 18:32:52,836] multiqc [DEBUG ] No samples found: adapterRemoval [2024-02-01 18:32:52,841] multiqc [DEBUG ] No samples found: clipandmerge [2024-02-01 18:32:52,848] multiqc [DEBUG ] No samples found: cutadapt [2024-02-01 18:32:52,852] multiqc [DEBUG ] No samples found: flexbar [2024-02-01 18:32:52,858] multiqc [DEBUG ] No samples found: kaiju [2024-02-01 18:32:52,863] multiqc [DEBUG ] No samples found: kraken [2024-02-01 18:32:52,868] multiqc [DEBUG ] No samples found: malt [2024-02-01 18:32:52,873] multiqc [DEBUG ] No samples found: trimmomatic [2024-02-01 18:32:52,879] multiqc [DEBUG ] No samples found: sickle [2024-02-01 18:32:52,884] multiqc [DEBUG ] No samples found: skewer [2024-02-01 18:32:52,890] multiqc [DEBUG ] No samples found: sortmerna [2024-02-01 18:32:52,896] multiqc [DEBUG ] No samples found: biobloomtools [2024-02-01 18:32:52,901] multiqc [DEBUG ] No samples found: fastq_screen [2024-02-01 18:32:52,906] multiqc [DEBUG ] No samples found: afterqc [2024-02-01 18:32:52,911] multiqc [DEBUG ] No samples found: fastp [2024-02-01 18:32:52,921] multiqc.modules.fastqc.fastqc [INFO ] Found 1 reports [2024-02-01 18:32:53,079] multiqc.modules.pycoqc.pycoqc [INFO ] Found 1 reports [2024-02-01 18:32:53,089] multiqc [DEBUG ] No samples found: minionqc [2024-02-01 18:32:53,095] multiqc [DEBUG ] No samples found: multivcfanalyzer [2024-02-01 18:32:53,100] multiqc [DEBUG ] No samples found: clusterflow [2024-02-01 18:32:53,106] multiqc [DEBUG ] No samples found: bcl2fastq [2024-02-01 18:32:53,114] multiqc [DEBUG ] No samples found: interop [2024-02-01 18:32:53,120] multiqc [DEBUG ] No samples found: ivar [2024-02-01 18:32:53,125] multiqc [DEBUG ] No samples found: flash [2024-02-01 18:32:53,131] multiqc [DEBUG ] No samples found: seqyclean [2024-02-01 18:32:53,135] multiqc [INFO ] Compressing plot data [2024-02-01 18:32:53,192] multiqc [INFO ] Report : qc_files/multiqc_report.html [2024-02-01 18:32:53,192] multiqc [INFO ] Data : qc_files/multiqc_data [2024-02-01 18:32:53,192] multiqc [DEBUG ] Moving data file from '/state/partition1/job-42497638/tmpemnkjd73/multiqc_data' to 'qc_files/multiqc_data' [2024-02-01 18:32:53,329] multiqc [INFO ] MultiQC complete