[2021-02-15 10:36:22,131] multiqc [DEBUG ] No MultiQC config found: /data/Bioinformatics_Softwere/Miniconda/.conda/envs/multiqc/lib/python3.6/site-packages/multiqc_config.yaml [2021-02-15 10:36:22,131] multiqc [DEBUG ] No MultiQC config found: /home/hatim/.multiqc_config.yaml [2021-02-15 10:36:22,132] multiqc [DEBUG ] No MultiQC config found: multiqc_config.yaml [2021-02-15 10:36:22,132] multiqc [DEBUG ] Command used: /home/hatim/data/Bioinformatics_Softwere/Miniconda/.conda/envs/multiqc/bin/multiqc . [2021-02-15 10:36:22,239] multiqc [DEBUG ] Latest MultiQC version is v1.9 [2021-02-15 10:36:22,239] multiqc [INFO ] This is MultiQC v1.9 [2021-02-15 10:36:22,239] multiqc [DEBUG ] Command : /home/hatim/data/Bioinformatics_Softwere/Miniconda/.conda/envs/multiqc/bin/multiqc . [2021-02-15 10:36:22,239] multiqc [DEBUG ] Working dir : /data/Experments/E_37_SRA_Submission/Reads/CM4 [2021-02-15 10:36:22,239] multiqc [INFO ] Template : default [2021-02-15 10:36:22,239] multiqc [DEBUG ] Running Python 3.6.12 | packaged by conda-forge | (default, Dec 9 2020, 00:36:02) [GCC 9.3.0] [2021-02-15 10:36:22,239] multiqc [INFO ] Searching : /data/Experments/E_37_SRA_Submission/Reads/CM4 [2021-02-15 10:36:22,239] 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 [2021-02-15 10:36:22,240] multiqc [DEBUG ] Using temporary directory for creating report: /tmp/tmpdq9jd_is [2021-02-15 10:36:22,452] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: CM4_111219.fastq [2021-02-15 10:36:22,453] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: CM4_BGI15_5A_170_2.fq [2021-02-15 10:36:22,453] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: CM4_BGI15_5A_500_2.fq [2021-02-15 10:36:22,453] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: CM4_BGI15_DA_500_1.fq [2021-02-15 10:36:22,554] multiqc [DEBUG ] File ignored by hicexplorer because it 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10:36:28,356] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: CM4_MinION_111219_sequencing_summary.json [2021-02-15 10:36:28,375] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: CM4_BGI19_270_1.fq [2021-02-15 10:36:28,467] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: CM4_BGI15_5A_170_2_fastqc.html [2021-02-15 10:36:28,515] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: CM4_BGI15_5A_170_2_fastqc.html [2021-02-15 10:36:28,515] multiqc [DEBUG ] File ignored by rockhopper because it exceeded search pattern filesize limit: CM4_BGI15_5A_170_2_fastqc.html [2021-02-15 10:36:28,515] multiqc [DEBUG ] File ignored by rseqc/bam_stat because it exceeded search pattern filesize limit: CM4_BGI15_5A_170_2_fastqc.html [2021-02-15 10:36:28,515] multiqc [DEBUG ] File ignored by rseqc/junction_annotation because it exceeded search pattern filesize limit: CM4_BGI15_5A_170_2_fastqc.html [2021-02-15 10:36:28,515] multiqc [DEBUG ] File ignored by rseqc/read_distribution because it exceeded search pattern filesize limit: CM4_BGI15_5A_170_2_fastqc.html [2021-02-15 10:36:28,515] multiqc [DEBUG ] File ignored by rseqc/infer_experiment because it exceeded search pattern filesize limit: CM4_BGI15_5A_170_2_fastqc.html [2021-02-15 10:36:28,776] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: CM4_BGI15_5A_170_1_fastqc.html [2021-02-15 10:36:28,825] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: CM4_BGI15_5A_170_1_fastqc.html [2021-02-15 10:36:28,825] multiqc [DEBUG ] File ignored by rockhopper because it exceeded search pattern filesize limit: CM4_BGI15_5A_170_1_fastqc.html [2021-02-15 10:36:28,825] multiqc [DEBUG ] File ignored by rseqc/bam_stat because it exceeded search pattern filesize limit: CM4_BGI15_5A_170_1_fastqc.html [2021-02-15 10:36:28,825] multiqc [DEBUG ] File ignored by rseqc/junction_annotation because it exceeded search pattern filesize limit: CM4_BGI15_5A_170_1_fastqc.html [2021-02-15 10:36:28,825] multiqc [DEBUG ] File ignored by rseqc/read_distribution because it exceeded search pattern filesize limit: CM4_BGI15_5A_170_1_fastqc.html [2021-02-15 10:36:28,825] multiqc [DEBUG ] File ignored by rseqc/infer_experiment because it exceeded search pattern filesize limit: CM4_BGI15_5A_170_1_fastqc.html [2021-02-15 10:36:30,037] multiqc.plots.bargraph [DEBUG ] Using matplotlib version 3.3.4 [2021-02-15 10:36:30,042] multiqc.plots.linegraph [DEBUG ] Using matplotlib version 3.3.4 [2021-02-15 10:36:30,049] multiqc [DEBUG ] No samples found: custom_content [2021-02-15 10:36:30,065] multiqc [DEBUG ] No samples found: conpair [2021-02-15 10:36:30,079] multiqc [DEBUG ] No samples found: peddy [2021-02-15 10:36:30,094] multiqc [DEBUG ] No samples found: somalier [2021-02-15 10:36:30,107] multiqc [DEBUG ] No samples found: methylQA [2021-02-15 10:36:30,139] multiqc [DEBUG ] No samples found: mosdepth [2021-02-15 10:36:30,155] multiqc [DEBUG ] No samples found: phantompeakqualtools [2021-02-15 10:36:30,164] multiqc [DEBUG ] No samples found: qualimap [2021-02-15 10:36:30,177] multiqc [DEBUG ] No samples found: preseq [2021-02-15 10:36:30,193] multiqc [DEBUG ] No samples found: quast [2021-02-15 10:36:30,206] multiqc [DEBUG ] No samples found: qorts [2021-02-15 10:36:30,222] multiqc [DEBUG ] No samples found: rna_seqc [2021-02-15 10:36:30,234] multiqc [DEBUG ] No samples found: rockhopper [2021-02-15 10:36:30,247] multiqc [DEBUG ] No samples found: rsem [2021-02-15 10:36:30,300] multiqc [DEBUG ] No samples found: rseqc [2021-02-15 10:36:30,314] multiqc [DEBUG ] No samples found: busco [2021-02-15 10:36:30,334] multiqc [DEBUG ] No samples found: goleft_indexcov [2021-02-15 10:36:30,348] multiqc [DEBUG ] No samples found: disambiguate [2021-02-15 10:36:30,367] multiqc [DEBUG ] No samples found: supernova [2021-02-15 10:36:30,416] multiqc [DEBUG ] No samples found: deeptools [2021-02-15 10:36:30,433] multiqc [DEBUG ] No samples found: sargasso [2021-02-15 10:36:30,446] multiqc [DEBUG ] No samples found: verifybamid [2021-02-15 10:36:30,459] multiqc [DEBUG ] No samples found: mirtrace [2021-02-15 10:36:30,471] multiqc [DEBUG ] No samples found: happy [2021-02-15 10:36:30,484] multiqc [DEBUG ] No samples found: mirtop [2021-02-15 10:36:30,505] multiqc [DEBUG ] No samples found: homer [2021-02-15 10:36:30,517] multiqc [DEBUG ] No samples found: macs2 [2021-02-15 10:36:30,530] multiqc [DEBUG ] No samples found: theta2 [2021-02-15 10:36:30,546] multiqc [DEBUG ] No samples found: snpeff [2021-02-15 10:36:30,568] multiqc [DEBUG ] No samples found: gatk [2021-02-15 10:36:30,581] multiqc [DEBUG ] No samples found: htseq [2021-02-15 10:36:30,600] multiqc [DEBUG ] No samples found: bcftools [2021-02-15 10:36:30,613] multiqc [DEBUG ] No samples found: featureCounts [2021-02-15 10:36:30,635] multiqc [DEBUG ] No samples found: fgbio [2021-02-15 10:36:30,682] multiqc [DEBUG ] No samples found: dragen [2021-02-15 10:36:30,695] multiqc [DEBUG ] No samples found: dedup [2021-02-15 10:36:30,709] multiqc [DEBUG ] No samples found: damageprofiler [2021-02-15 10:36:30,800] multiqc [DEBUG ] No samples found: biobambam2 [2021-02-15 10:36:30,814] multiqc [DEBUG ] No samples found: mtnucratio [2021-02-15 10:36:30,818] multiqc [DEBUG ] No samples found: picard [2021-02-15 10:36:30,830] multiqc [DEBUG ] No samples found: prokka [2021-02-15 10:36:30,844] multiqc [DEBUG ] No samples found: samblaster [2021-02-15 10:36:30,878] multiqc [DEBUG ] No samples found: samtools [2021-02-15 10:36:30,893] multiqc [DEBUG ] No samples found: sexdeterrmine [2021-02-15 10:36:30,912] multiqc [DEBUG ] No samples found: bamtools [2021-02-15 10:36:30,925] multiqc [DEBUG ] No samples found: jellyfish [2021-02-15 10:36:30,955] multiqc [DEBUG ] No samples found: vcftools [2021-02-15 10:36:30,971] multiqc [DEBUG ] No samples found: longranger [2021-02-15 10:36:30,985] multiqc [DEBUG ] No samples found: stacks [2021-02-15 10:36:31,000] multiqc [DEBUG ] No samples found: varscan2 [2021-02-15 10:36:31,072] multiqc [DEBUG ] No samples found: bbmap [2021-02-15 10:36:31,101] multiqc [DEBUG ] No samples found: bismark [2021-02-15 10:36:31,116] multiqc [DEBUG ] No samples found: biscuit [2021-02-15 10:36:31,133] multiqc [DEBUG ] No samples found: hicexplorer [2021-02-15 10:36:31,149] multiqc [DEBUG ] No samples found: hicup [2021-02-15 10:36:31,191] multiqc [DEBUG ] No samples found: hicpro [2021-02-15 10:36:31,211] multiqc [DEBUG ] No samples found: salmon [2021-02-15 10:36:31,234] multiqc [DEBUG ] No samples found: kallisto [2021-02-15 10:36:31,251] multiqc [DEBUG ] No samples found: slamdunk [2021-02-15 10:36:31,266] multiqc [DEBUG ] No samples found: star [2021-02-15 10:36:31,281] multiqc [DEBUG ] No samples found: hisat2 [2021-02-15 10:36:31,296] multiqc [DEBUG ] No samples found: tophat [2021-02-15 10:36:31,310] multiqc [DEBUG ] No samples found: bowtie2 [2021-02-15 10:36:31,323] multiqc [DEBUG ] No samples found: bowtie1 [2021-02-15 10:36:31,338] multiqc [DEBUG ] No samples found: snpsplit [2021-02-15 10:36:31,350] multiqc [DEBUG ] No samples found: kat [2021-02-15 10:36:31,362] multiqc [DEBUG ] No samples found: leehom [2021-02-15 10:36:31,374] multiqc [DEBUG ] No samples found: adapterRemoval [2021-02-15 10:36:31,385] multiqc [DEBUG ] No samples found: clipandmerge [2021-02-15 10:36:31,399] multiqc [DEBUG ] No samples found: cutadapt [2021-02-15 10:36:31,413] multiqc [DEBUG ] No samples found: flexbar [2021-02-15 10:36:31,425] multiqc [DEBUG ] No samples found: kaiju [2021-02-15 10:36:31,437] multiqc [DEBUG ] No samples found: kraken [2021-02-15 10:36:31,449] multiqc [DEBUG ] No samples found: malt [2021-02-15 10:36:31,461] multiqc [DEBUG ] No samples found: trimmomatic [2021-02-15 10:36:31,473] multiqc [DEBUG ] No samples found: sickle [2021-02-15 10:36:31,486] multiqc [DEBUG ] No samples found: skewer [2021-02-15 10:36:31,498] multiqc [DEBUG ] No samples found: sortmerna [2021-02-15 10:36:31,510] multiqc [DEBUG ] No samples found: biobloomtools [2021-02-15 10:36:31,521] multiqc [DEBUG ] No samples found: fastq_screen [2021-02-15 10:36:31,533] multiqc [DEBUG ] No samples found: afterqc [2021-02-15 10:36:31,544] multiqc [DEBUG ] No samples found: fastp [2021-02-15 10:36:32,098] multiqc.modules.fastqc.fastqc [INFO ] Found 16 reports [2021-02-15 10:36:33,146] multiqc.modules.pycoqc.pycoqc [INFO ] Found 1 reports [2021-02-15 10:36:33,164] multiqc [DEBUG ] No samples found: minionqc [2021-02-15 10:36:33,182] multiqc [DEBUG ] No samples found: multivcfanalyzer [2021-02-15 10:36:33,196] multiqc [DEBUG ] No samples found: clusterflow [2021-02-15 10:36:33,209] multiqc [DEBUG ] No samples found: bcl2fastq [2021-02-15 10:36:33,222] multiqc [DEBUG ] No samples found: interop [2021-02-15 10:36:33,236] multiqc [DEBUG ] No samples found: ivar [2021-02-15 10:36:33,247] multiqc [DEBUG ] No samples found: flash [2021-02-15 10:36:33,262] multiqc [DEBUG ] No samples found: seqyclean [2021-02-15 10:36:33,283] multiqc [INFO ] Compressing plot data [2021-02-15 10:36:33,603] multiqc [INFO ] Report : multiqc_report.html [2021-02-15 10:36:33,603] multiqc [INFO ] Data : multiqc_data [2021-02-15 10:36:33,603] multiqc [DEBUG ] Moving data file from '/tmp/tmpdq9jd_is/multiqc_data' to '/data/Experments/E_37_SRA_Submission/Reads/CM4/multiqc_data' [2021-02-15 10:36:33,927] multiqc [INFO ] MultiQC complete