[2023-01-22 14:53:42,970] multiqc [DEBUG ] No MultiQC config found: /gscratch/srlab/programs/anaconda3/lib/python3.7/site-packages/multiqc_config.yaml [2023-01-22 14:53:42,994] multiqc [DEBUG ] Loading config settings from: /usr/lusers/samwhite/.multiqc_config.yaml [2023-01-22 14:53:42,995] multiqc [DEBUG ] New config 'star': {'fn': '*Log.final.out'} [2023-01-22 14:53:42,995] multiqc [DEBUG ] New config 'star/genecounts': {'fn': '*ReadsPerGene.out.tab'} [2023-01-22 14:53:42,995] multiqc [DEBUG ] Added to filename patterns: {'fastp': {'fn': '*report.json'}} [2023-01-22 14:53:42,995] multiqc [DEBUG ] New config 'hisat2': {'contents': 'HISAT2 summary stats:', 'shared': True} [2023-01-22 14:53:42,996] multiqc [DEBUG ] No MultiQC config found: multiqc_config.yaml [2023-01-22 14:53:42,996] multiqc [DEBUG ] Command used: /gscratch/srlab/programs/anaconda3/bin/multiqc . [2023-01-22 14:53:48,241] multiqc [DEBUG ] Could not connect to multiqc.info for version check: [2023-01-22 14:53:48,241] multiqc [INFO ] This is MultiQC v1.8 [2023-01-22 14:53:48,242] multiqc [DEBUG ] Command : /gscratch/srlab/programs/anaconda3/bin/multiqc . [2023-01-22 14:53:48,242] multiqc [DEBUG ] Working dir : /gscratch/scrubbed/samwhite/outputs/20230119-coral-fastqc-fastp-multiqc-PRJNA744403/data/P_meandrina/BS-seq/trimmed [2023-01-22 14:53:48,242] multiqc [INFO ] Template : default [2023-01-22 14:53:48,242] multiqc [DEBUG ] Running Python 3.7.3 (default, Mar 27 2019, 22:11:17) [GCC 7.3.0] [2023-01-22 14:53:48,242] multiqc [INFO ] Searching : /gscratch/scrubbed/samwhite/outputs/20230119-coral-fastqc-fastp-multiqc-PRJNA744403/data/P_meandrina/BS-seq/trimmed [2023-01-22 14:53:48,243] multiqc [DEBUG ] Analysing modules: custom_content, conpair, peddy, methylQA, phantompeakqualtools, qualimap, preseq, quast, qorts, rna_seqc, rsem, rseqc, busco, goleft_indexcov, disambiguate, supernova, deeptools, sargasso, verifybamid, mirtrace, happy, homer, macs2, theta2, snpeff, gatk, htseq, bcftools, featureCounts, fgbio, dedup, damageprofiler, biobambam2, mtnucratio, picard, prokka, samblaster, samtools, sexdeterrmine, bamtools, jellyfish, vcftools, longranger, stacks, bbmap, bismark, biscuit, hicexplorer, hicup, hicpro, salmon, kallisto, slamdunk, star, hisat2, tophat, bowtie2, bowtie1, kat, leehom, adapterRemoval, clipandmerge, cutadapt, flexbar, trimmomatic, skewer, sortmerna, biobloomtools, fastq_screen, afterqc, fastp, fastqc, minionqc, mosdepth, clusterflow, bcl2fastq, interop, flash, seqyclean [2023-01-22 14:53:48,244] multiqc [DEBUG ] Using temporary directory for creating report: /tmp/tmpout7ufjy [2023-01-22 14:53:48,851] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: SRA-SRR15101740_1.P_meandrina.fastp-trim.20230122_fastqc.html [2023-01-22 14:53:48,852] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: SRA-SRR15101748_2.P_meandrina.fastp-trim.20230122_fastqc.html [2023-01-22 14:53:48,852] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: SRA-SRR15101741_2.P_meandrina.fastp-trim.20230122.fq.gz [2023-01-22 14:53:48,852] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: SRA-SRR15101714_2.P_meandrina.fastp-trim.20230122.fq.gz [2023-01-22 14:53:48,852] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: SRA-SRR15101733_1.P_meandrina.fastp-trim.20230122.fq.gz [2023-01-22 14:53:48,854] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: SRA-SRR15101687_2.P_meandrina.fastp-trim.20230122_fastqc.html [2023-01-22 14:53:48,854] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: SRA-SRR15101726.P_meandrina.fastp-trim.20230122.report.html [2023-01-22 14:53:48,855] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: SRA-SRR15101741_1.P_meandrina.fastp-trim.20230122_fastqc.html [2023-01-22 14:53:48,855] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: SRA-SRR15101738_2.P_meandrina.fastp-trim.20230122.fq.gz [2023-01-22 14:53:48,856] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: SRA-SRR15101735_1.P_meandrina.fastp-trim.20230122_fastqc.html [2023-01-22 14:53:48,856] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: SRA-SRR15101737_1.P_meandrina.fastp-trim.20230122.fq.gz [2023-01-22 14:53:48,856] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: SRA-SRR15101729_2.P_meandrina.fastp-trim.20230122_fastqc.html [2023-01-22 14:53:48,857] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: SRA-SRR15101716.P_meandrina.fastp-trim.20230122.report.html [2023-01-22 14:53:48,858] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: SRA-SRR15101717.P_meandrina.fastp-trim.20230122.report.html [2023-01-22 14:53:48,859] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: SRA-SRR15101734_2.P_meandrina.fastp-trim.20230122_fastqc.html [2023-01-22 14:53:48,859] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: SRA-SRR15101746.P_meandrina.fastp-trim.20230122.report.html [2023-01-22 14:53:48,859] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: SRA-SRR15101716_1.P_meandrina.fastp-trim.20230122_fastqc.html [2023-01-22 14:53:48,859] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: SRA-SRR15101731.P_meandrina.fastp-trim.20230122.report.html [2023-01-22 14:53:48,860] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: SRA-SRR15101731_1.P_meandrina.fastp-trim.20230122.fq.gz [2023-01-22 14:53:48,861] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: SRA-SRR15101748.P_meandrina.fastp-trim.20230122.report.html [2023-01-22 14:53:48,861] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: SRA-SRR15101739_2.P_meandrina.fastp-trim.20230122_fastqc.html [2023-01-22 14:53:48,861] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: SRA-SRR15101717_2.P_meandrina.fastp-trim.20230122.fq.gz [2023-01-22 14:53:48,861] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: SRA-SRR15101748_1.P_meandrina.fastp-trim.20230122.fq.gz [2023-01-22 14:53:48,862] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: SRA-SRR15101730.P_meandrina.fastp-trim.20230122.report.html [2023-01-22 14:53:48,862] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: SRA-SRR15101748_1.P_meandrina.fastp-trim.20230122_fastqc.html [2023-01-22 14:53:48,862] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: SRA-SRR15101740_1.P_meandrina.fastp-trim.20230122.fq.gz [2023-01-22 14:53:48,862] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: SRA-SRR15101746_2.P_meandrina.fastp-trim.20230122.fq.gz [2023-01-22 14:53:48,862] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: SRA-SRR15101740_2.P_meandrina.fastp-trim.20230122.fq.gz [2023-01-22 14:53:48,863] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: SRA-SRR15101739_2.P_meandrina.fastp-trim.20230122.fq.gz [2023-01-22 14:53:48,864] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: SRA-SRR15101734_2.P_meandrina.fastp-trim.20230122.fq.gz [2023-01-22 14:53:48,864] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: SRA-SRR15101734_1.P_meandrina.fastp-trim.20230122.fq.gz [2023-01-22 14:53:48,864] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: SRA-SRR15101725_1.P_meandrina.fastp-trim.20230122_fastqc.html [2023-01-22 14:53:48,865] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: SRA-SRR15101730_1.P_meandrina.fastp-trim.20230122.fq.gz [2023-01-22 14:53:48,865] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: SRA-SRR15101726_2.P_meandrina.fastp-trim.20230122_fastqc.html [2023-01-22 14:53:48,865] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: SRA-SRR15101725_2.P_meandrina.fastp-trim.20230122.fq.gz [2023-01-22 14:53:48,865] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: SRA-SRR15101698.P_meandrina.fastp-trim.20230122.report.html [2023-01-22 14:53:48,866] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: SRA-SRR15101735_2.P_meandrina.fastp-trim.20230122_fastqc.html [2023-01-22 14:53:48,866] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: SRA-SRR15101717_2.P_meandrina.fastp-trim.20230122_fastqc.html [2023-01-22 14:53:48,866] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: SRA-SRR15101687_1.P_meandrina.fastp-trim.20230122.fq.gz [2023-01-22 14:53:48,866] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: SRA-SRR15101739_1.P_meandrina.fastp-trim.20230122.fq.gz [2023-01-22 14:53:48,867] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: SRA-SRR15101714_1.P_meandrina.fastp-trim.20230122.fq.gz [2023-01-22 14:53:48,867] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: SRA-SRR15101746_1.P_meandrina.fastp-trim.20230122.fq.gz [2023-01-22 14:53:48,867] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: SRA-SRR15101714_2.P_meandrina.fastp-trim.20230122_fastqc.html [2023-01-22 14:53:48,868] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: SRA-SRR15101725_2.P_meandrina.fastp-trim.20230122_fastqc.html [2023-01-22 14:53:48,868] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: SRA-SRR15101729_2.P_meandrina.fastp-trim.20230122.fq.gz [2023-01-22 14:53:48,869] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: SRA-SRR15101740.P_meandrina.fastp-trim.20230122.report.html [2023-01-22 14:53:48,869] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: SRA-SRR15101737_2.P_meandrina.fastp-trim.20230122_fastqc.html [2023-01-22 14:53:48,870] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: SRA-SRR15101709_1.P_meandrina.fastp-trim.20230122_fastqc.html [2023-01-22 14:53:48,870] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: SRA-SRR15101731_2.P_meandrina.fastp-trim.20230122.fq.gz [2023-01-22 14:53:48,870] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: SRA-SRR15101743_1.P_meandrina.fastp-trim.20230122.fq.gz [2023-01-22 14:53:48,871] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: SRA-SRR15101747_2.P_meandrina.fastp-trim.20230122.fq.gz [2023-01-22 14:53:48,871] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: SRA-SRR15101726_1.P_meandrina.fastp-trim.20230122.fq.gz [2023-01-22 14:53:48,872] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: SRA-SRR15101709_2.P_meandrina.fastp-trim.20230122_fastqc.html [2023-01-22 14:53:48,873] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: SRA-SRR15101698_2.P_meandrina.fastp-trim.20230122_fastqc.html [2023-01-22 14:53:48,873] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: SRA-SRR15101735_1.P_meandrina.fastp-trim.20230122.fq.gz [2023-01-22 14:53:48,873] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: SRA-SRR15101733_2.P_meandrina.fastp-trim.20230122_fastqc.html [2023-01-22 14:53:48,875] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: SRA-SRR15101736.P_meandrina.fastp-trim.20230122.report.html [2023-01-22 14:53:48,875] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: SRA-SRR15101741_1.P_meandrina.fastp-trim.20230122.fq.gz [2023-01-22 14:53:48,875] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: SRA-SRR15101747.P_meandrina.fastp-trim.20230122.report.html [2023-01-22 14:53:48,875] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: trimmed_fastq_checksums.md5 [2023-01-22 14:53:48,875] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: SRA-SRR15101745_1.P_meandrina.fastp-trim.20230122_fastqc.html [2023-01-22 14:53:48,875] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: SRA-SRR15101738_1.P_meandrina.fastp-trim.20230122.fq.gz [2023-01-22 14:53:48,876] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: SRA-SRR15101746_1.P_meandrina.fastp-trim.20230122_fastqc.html [2023-01-22 14:53:48,876] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: SRA-SRR15101736_2.P_meandrina.fastp-trim.20230122.fq.gz [2023-01-22 14:53:48,876] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: SRA-SRR15101726_2.P_meandrina.fastp-trim.20230122.fq.gz [2023-01-22 14:53:48,876] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: SRA-SRR15101687.P_meandrina.fastp-trim.20230122.report.html [2023-01-22 14:53:48,876] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: SRA-SRR15101725.P_meandrina.fastp-trim.20230122.report.html [2023-01-22 14:53:48,877] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: SRA-SRR15101687_1.P_meandrina.fastp-trim.20230122_fastqc.html [2023-01-22 14:53:48,877] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: SRA-SRR15101747_1.P_meandrina.fastp-trim.20230122.fq.gz [2023-01-22 14:53:48,878] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: SRA-SRR15101736_1.P_meandrina.fastp-trim.20230122.fq.gz [2023-01-22 14:53:48,878] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: SRA-SRR15101698_2.P_meandrina.fastp-trim.20230122.fq.gz [2023-01-22 14:53:48,879] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: SRA-SRR15101742.P_meandrina.fastp-trim.20230122.report.html [2023-01-22 14:53:48,879] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: SRA-SRR15101745_2.P_meandrina.fastp-trim.20230122_fastqc.html [2023-01-22 14:53:48,880] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: SRA-SRR15101735.P_meandrina.fastp-trim.20230122.report.html [2023-01-22 14:53:48,880] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: SRA-SRR15101698_1.P_meandrina.fastp-trim.20230122_fastqc.html [2023-01-22 14:53:48,881] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: SRA-SRR15101709_1.P_meandrina.fastp-trim.20230122.fq.gz [2023-01-22 14:53:48,881] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: SRA-SRR15101750_1.P_meandrina.fastp-trim.20230122.fq.gz [2023-01-22 14:53:48,881] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: SRA-SRR15101709.P_meandrina.fastp-trim.20230122.report.html [2023-01-22 14:53:48,882] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: SRA-SRR15101742_1.P_meandrina.fastp-trim.20230122_fastqc.html [2023-01-22 14:53:48,882] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: SRA-SRR15101741.P_meandrina.fastp-trim.20230122.report.html [2023-01-22 14:53:48,882] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: SRA-SRR15101739_1.P_meandrina.fastp-trim.20230122_fastqc.html [2023-01-22 14:53:48,882] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: SRA-SRR15101742_1.P_meandrina.fastp-trim.20230122.fq.gz [2023-01-22 14:53:48,883] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: SRA-SRR15101729_1.P_meandrina.fastp-trim.20230122.fq.gz [2023-01-22 14:53:48,883] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: SRA-SRR15101714.P_meandrina.fastp-trim.20230122.report.html [2023-01-22 14:53:48,883] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: SRA-SRR15101743_2.P_meandrina.fastp-trim.20230122_fastqc.html [2023-01-22 14:53:48,884] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: SRA-SRR15101745_1.P_meandrina.fastp-trim.20230122.fq.gz [2023-01-22 14:53:48,885] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: SRA-SRR15101716_1.P_meandrina.fastp-trim.20230122.fq.gz [2023-01-22 14:53:48,885] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: SRA-SRR15101733_1.P_meandrina.fastp-trim.20230122_fastqc.html [2023-01-22 14:53:48,886] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: SRA-SRR15101745.P_meandrina.fastp-trim.20230122.report.html [2023-01-22 14:53:48,886] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: SRA-SRR15101750_2.P_meandrina.fastp-trim.20230122_fastqc.html [2023-01-22 14:53:48,886] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: SRA-SRR15101743.P_meandrina.fastp-trim.20230122.report.html [2023-01-22 14:53:48,886] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: SRA-SRR15101716_2.P_meandrina.fastp-trim.20230122.fq.gz [2023-01-22 14:53:48,887] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: SRA-SRR15101733_2.P_meandrina.fastp-trim.20230122.fq.gz [2023-01-22 14:53:48,887] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: SRA-SRR15101717_1.P_meandrina.fastp-trim.20230122_fastqc.html [2023-01-22 14:53:48,887] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: SRA-SRR15101733.P_meandrina.fastp-trim.20230122.report.html [2023-01-22 14:53:48,888] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: SRA-SRR15101729.P_meandrina.fastp-trim.20230122.report.html [2023-01-22 14:53:48,888] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: SRA-SRR15101750.P_meandrina.fastp-trim.20230122.report.html [2023-01-22 14:53:48,888] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: SRA-SRR15101739.P_meandrina.fastp-trim.20230122.report.html [2023-01-22 14:53:48,889] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: SRA-SRR15101730_2.P_meandrina.fastp-trim.20230122.fq.gz [2023-01-22 14:53:48,890] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: SRA-SRR15101741_2.P_meandrina.fastp-trim.20230122_fastqc.html [2023-01-22 14:53:48,890] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: SRA-SRR15101736_1.P_meandrina.fastp-trim.20230122_fastqc.html [2023-01-22 14:53:48,890] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: SRA-SRR15101747_1.P_meandrina.fastp-trim.20230122_fastqc.html [2023-01-22 14:53:48,891] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: SRA-SRR15101743_2.P_meandrina.fastp-trim.20230122.fq.gz [2023-01-22 14:53:48,892] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: SRA-SRR15101730_1.P_meandrina.fastp-trim.20230122_fastqc.html [2023-01-22 14:53:48,892] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: SRA-SRR15101746_2.P_meandrina.fastp-trim.20230122_fastqc.html [2023-01-22 14:53:48,893] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: SRA-SRR15101742_2.P_meandrina.fastp-trim.20230122.fq.gz [2023-01-22 14:53:48,894] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: SRA-SRR15101750_1.P_meandrina.fastp-trim.20230122_fastqc.html [2023-01-22 14:53:48,894] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: SRA-SRR15101748_2.P_meandrina.fastp-trim.20230122.fq.gz [2023-01-22 14:53:48,894] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: SRA-SRR15101738.P_meandrina.fastp-trim.20230122.report.html [2023-01-22 14:53:48,894] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: SRA-SRR15101747_2.P_meandrina.fastp-trim.20230122_fastqc.html [2023-01-22 14:53:48,894] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: SRA-SRR15101750_2.P_meandrina.fastp-trim.20230122.fq.gz [2023-01-22 14:53:48,895] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: SRA-SRR15101709_2.P_meandrina.fastp-trim.20230122.fq.gz [2023-01-22 14:53:48,895] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: SRA-SRR15101714_1.P_meandrina.fastp-trim.20230122_fastqc.html [2023-01-22 14:53:48,897] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: SRA-SRR15101737_2.P_meandrina.fastp-trim.20230122.fq.gz [2023-01-22 14:53:48,897] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: SRA-SRR15101737.P_meandrina.fastp-trim.20230122.report.html [2023-01-22 14:53:48,897] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: SRA-SRR15101734_1.P_meandrina.fastp-trim.20230122_fastqc.html [2023-01-22 14:53:48,897] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: SRA-SRR15101698_1.P_meandrina.fastp-trim.20230122.fq.gz [2023-01-22 14:53:48,897] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: SRA-SRR15101735_2.P_meandrina.fastp-trim.20230122.fq.gz [2023-01-22 14:53:48,898] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: SRA-SRR15101738_2.P_meandrina.fastp-trim.20230122_fastqc.html [2023-01-22 14:53:48,899] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: SRA-SRR15101726_1.P_meandrina.fastp-trim.20230122_fastqc.html [2023-01-22 14:53:48,899] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: SRA-SRR15101737_1.P_meandrina.fastp-trim.20230122_fastqc.html [2023-01-22 14:53:48,900] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: SRA-SRR15101743_1.P_meandrina.fastp-trim.20230122_fastqc.html [2023-01-22 14:53:48,900] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: SRA-SRR15101740_2.P_meandrina.fastp-trim.20230122_fastqc.html [2023-01-22 14:53:48,901] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: SRA-SRR15101731_1.P_meandrina.fastp-trim.20230122_fastqc.html [2023-01-22 14:53:48,901] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: SRA-SRR15101734.P_meandrina.fastp-trim.20230122.report.html [2023-01-22 14:53:48,901] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: SRA-SRR15101729_1.P_meandrina.fastp-trim.20230122_fastqc.html [2023-01-22 14:53:48,901] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: SRA-SRR15101730_2.P_meandrina.fastp-trim.20230122_fastqc.html [2023-01-22 14:53:48,901] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: SRA-SRR15101725_1.P_meandrina.fastp-trim.20230122.fq.gz [2023-01-22 14:53:48,902] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: SRA-SRR15101731_2.P_meandrina.fastp-trim.20230122_fastqc.html [2023-01-22 14:53:48,903] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: SRA-SRR15101716_2.P_meandrina.fastp-trim.20230122_fastqc.html [2023-01-22 14:53:48,903] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: SRA-SRR15101745_2.P_meandrina.fastp-trim.20230122.fq.gz [2023-01-22 14:53:48,903] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: SRA-SRR15101717_1.P_meandrina.fastp-trim.20230122.fq.gz [2023-01-22 14:53:48,903] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: SRA-SRR15101742_2.P_meandrina.fastp-trim.20230122_fastqc.html [2023-01-22 14:53:48,904] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: SRA-SRR15101738_1.P_meandrina.fastp-trim.20230122_fastqc.html [2023-01-22 14:53:48,904] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: SRA-SRR15101687_2.P_meandrina.fastp-trim.20230122.fq.gz [2023-01-22 14:53:48,904] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: SRA-SRR15101736_2.P_meandrina.fastp-trim.20230122_fastqc.html [2023-01-22 14:53:52,511] multiqc.plots.bargraph [DEBUG ] Using matplotlib version 2.2.4 [2023-01-22 14:53:52,512] multiqc.plots.linegraph [DEBUG ] Using matplotlib version 2.2.4 [2023-01-22 14:53:52,529] multiqc [DEBUG ] No samples found: custom_content [2023-01-22 14:53:52,576] multiqc [DEBUG ] No samples found: conpair [2023-01-22 14:53:52,630] multiqc [DEBUG ] No samples found: peddy [2023-01-22 14:53:52,683] multiqc [DEBUG ] No samples found: methylQA [2023-01-22 14:53:52,734] multiqc [DEBUG ] No samples found: phantompeakqualtools [2023-01-22 14:53:52,866] multiqc [DEBUG ] No samples found: qualimap [2023-01-22 14:53:52,912] multiqc [DEBUG ] No samples found: preseq [2023-01-22 14:53:52,972] multiqc [DEBUG ] No samples found: quast [2023-01-22 14:53:52,996] multiqc [DEBUG ] No samples found: qorts [2023-01-22 14:53:53,039] multiqc [DEBUG ] No samples found: rna_seqc [2023-01-22 14:53:53,070] multiqc [DEBUG ] No samples found: rsem [2023-01-22 14:53:53,139] multiqc [DEBUG ] No samples found: rseqc [2023-01-22 14:53:53,158] multiqc [DEBUG ] No samples found: busco [2023-01-22 14:53:53,196] multiqc [DEBUG ] No samples found: goleft_indexcov [2023-01-22 14:53:53,208] multiqc [DEBUG ] No samples found: disambiguate [2023-01-22 14:53:53,246] multiqc [DEBUG ] No samples found: supernova [2023-01-22 14:53:53,354] multiqc [DEBUG ] No samples found: deeptools [2023-01-22 14:53:53,389] multiqc [DEBUG ] No samples found: sargasso [2023-01-22 14:53:53,446] multiqc [DEBUG ] No samples found: verifybamid [2023-01-22 14:53:53,468] multiqc [DEBUG ] No samples found: mirtrace [2023-01-22 14:53:53,476] multiqc [DEBUG ] No samples found: happy [2023-01-22 14:53:53,486] multiqc [DEBUG ] No samples found: homer [2023-01-22 14:53:53,531] multiqc [DEBUG ] No samples found: macs2 [2023-01-22 14:53:53,536] multiqc [DEBUG ] No samples found: theta2 [2023-01-22 14:53:53,542] multiqc [DEBUG ] No samples found: snpeff [2023-01-22 14:53:53,604] multiqc [DEBUG ] No samples found: gatk [2023-01-22 14:53:53,614] multiqc [DEBUG ] No samples found: htseq [2023-01-22 14:53:53,650] multiqc [DEBUG ] No samples found: bcftools [2023-01-22 14:53:53,658] multiqc [DEBUG ] No samples found: featureCounts [2023-01-22 14:53:53,669] multiqc [DEBUG ] No samples found: fgbio [2023-01-22 14:53:53,677] multiqc [DEBUG ] No samples found: dedup [2023-01-22 14:53:53,694] multiqc [DEBUG ] No samples found: damageprofiler [2023-01-22 14:53:53,748] multiqc [DEBUG ] No samples found: biobambam2 [2023-01-22 14:53:53,761] multiqc [DEBUG ] No samples found: mtnucratio [2023-01-22 14:53:53,765] multiqc [DEBUG ] No samples found: picard [2023-01-22 14:53:53,773] multiqc [DEBUG ] No samples found: prokka [2023-01-22 14:53:53,781] multiqc [DEBUG ] No samples found: samblaster [2023-01-22 14:53:53,875] multiqc [DEBUG ] No samples found: samtools [2023-01-22 14:53:53,906] multiqc [DEBUG ] No samples found: sexdeterrmine [2023-01-22 14:53:53,934] multiqc [DEBUG ] No samples found: bamtools [2023-01-22 14:53:53,943] multiqc [DEBUG ] No samples found: jellyfish [2023-01-22 14:53:53,952] multiqc [DEBUG ] No samples found: vcftools [2023-01-22 14:53:53,959] multiqc [DEBUG ] No samples found: longranger [2023-01-22 14:53:53,993] multiqc [DEBUG ] No samples found: stacks [2023-01-22 14:53:54,035] multiqc [DEBUG ] No samples found: bbmap [2023-01-22 14:53:54,046] multiqc [DEBUG ] No samples found: bismark [2023-01-22 14:53:54,080] multiqc [DEBUG ] No samples found: biscuit [2023-01-22 14:53:54,087] multiqc [DEBUG ] No samples found: hicexplorer [2023-01-22 14:53:54,095] multiqc [DEBUG ] No samples found: hicup [2023-01-22 14:53:54,109] multiqc [DEBUG ] No samples found: hicpro [2023-01-22 14:53:54,116] multiqc [DEBUG ] No samples found: salmon [2023-01-22 14:53:54,123] multiqc [DEBUG ] No samples found: kallisto [2023-01-22 14:53:54,155] multiqc [DEBUG ] No samples found: slamdunk [2023-01-22 14:53:54,178] multiqc [DEBUG ] No samples found: star [2023-01-22 14:53:54,216] multiqc [DEBUG ] No samples found: hisat2 [2023-01-22 14:53:54,227] multiqc [DEBUG ] No samples found: tophat [2023-01-22 14:53:54,236] multiqc [DEBUG ] No samples found: bowtie2 [2023-01-22 14:53:54,245] multiqc [DEBUG ] No samples found: bowtie1 [2023-01-22 14:53:54,254] multiqc [DEBUG ] No samples found: kat [2023-01-22 14:53:54,262] multiqc [DEBUG ] No samples found: leehom [2023-01-22 14:53:54,284] multiqc [DEBUG ] No samples found: adapterRemoval [2023-01-22 14:53:54,293] multiqc [DEBUG ] No samples found: clipandmerge [2023-01-22 14:53:54,314] multiqc [DEBUG ] No samples found: cutadapt [2023-01-22 14:53:54,322] multiqc [DEBUG ] No samples found: flexbar [2023-01-22 14:53:54,330] multiqc [DEBUG ] No samples found: trimmomatic [2023-01-22 14:53:54,347] multiqc [DEBUG ] No samples found: skewer [2023-01-22 14:53:54,355] multiqc [DEBUG ] No samples found: sortmerna [2023-01-22 14:53:54,362] multiqc [DEBUG ] No samples found: biobloomtools [2023-01-22 14:53:54,382] multiqc [DEBUG ] No samples found: fastq_screen [2023-01-22 14:53:54,417] multiqc [DEBUG ] No samples found: afterqc [2023-01-22 14:53:54,466] multiqc.modules.fastp.fastp [DEBUG ] No duplication rate plot data: SRA-SRR15101745.P_meandrina.fastp-trim.20230122.report.json [2023-01-22 14:53:54,497] multiqc.modules.fastp.fastp [DEBUG ] No duplication rate plot data: SRA-SRR15101746.P_meandrina.fastp-trim.20230122.report.json [2023-01-22 14:53:54,503] multiqc.modules.fastp.fastp [DEBUG ] No duplication rate plot data: SRA-SRR15101750.P_meandrina.fastp-trim.20230122.report.json [2023-01-22 14:53:54,508] multiqc.modules.fastp.fastp [DEBUG ] No duplication rate plot data: SRA-SRR15101714.P_meandrina.fastp-trim.20230122.report.json [2023-01-22 14:53:54,514] multiqc.modules.fastp.fastp [DEBUG ] No duplication rate plot data: SRA-SRR15101726.P_meandrina.fastp-trim.20230122.report.json [2023-01-22 14:53:54,520] multiqc.modules.fastp.fastp [DEBUG ] No duplication rate plot data: SRA-SRR15101734.P_meandrina.fastp-trim.20230122.report.json [2023-01-22 14:53:54,554] multiqc.modules.fastp.fastp [DEBUG ] No duplication rate plot data: SRA-SRR15101740.P_meandrina.fastp-trim.20230122.report.json [2023-01-22 14:53:54,575] multiqc.modules.fastp.fastp [DEBUG ] No duplication rate plot data: SRA-SRR15101716.P_meandrina.fastp-trim.20230122.report.json [2023-01-22 14:53:54,600] multiqc.modules.fastp.fastp [DEBUG ] No duplication rate plot data: SRA-SRR15101741.P_meandrina.fastp-trim.20230122.report.json [2023-01-22 14:53:54,606] multiqc.modules.fastp.fastp [DEBUG ] No duplication rate plot data: SRA-SRR15101725.P_meandrina.fastp-trim.20230122.report.json [2023-01-22 14:53:54,612] multiqc.modules.fastp.fastp [DEBUG ] No duplication rate plot data: SRA-SRR15101730.P_meandrina.fastp-trim.20230122.report.json [2023-01-22 14:53:54,650] multiqc.modules.fastp.fastp [DEBUG ] No duplication rate plot data: SRA-SRR15101698.P_meandrina.fastp-trim.20230122.report.json [2023-01-22 14:53:54,672] multiqc.modules.fastp.fastp [DEBUG ] No duplication rate plot data: SRA-SRR15101737.P_meandrina.fastp-trim.20230122.report.json [2023-01-22 14:53:54,697] multiqc.modules.fastp.fastp [DEBUG ] No duplication rate plot data: SRA-SRR15101709.P_meandrina.fastp-trim.20230122.report.json [2023-01-22 14:53:54,705] multiqc.modules.fastp.fastp [DEBUG ] No duplication rate plot data: SRA-SRR15101738.P_meandrina.fastp-trim.20230122.report.json [2023-01-22 14:53:54,712] multiqc.modules.fastp.fastp [DEBUG ] No duplication rate plot data: SRA-SRR15101748.P_meandrina.fastp-trim.20230122.report.json [2023-01-22 14:53:54,719] multiqc.modules.fastp.fastp [DEBUG ] No duplication rate plot data: SRA-SRR15101735.P_meandrina.fastp-trim.20230122.report.json [2023-01-22 14:53:54,726] multiqc.modules.fastp.fastp [DEBUG ] No duplication rate plot data: SRA-SRR15101687.P_meandrina.fastp-trim.20230122.report.json [2023-01-22 14:53:54,733] multiqc.modules.fastp.fastp [DEBUG ] No duplication rate plot data: SRA-SRR15101747.P_meandrina.fastp-trim.20230122.report.json [2023-01-22 14:53:54,739] multiqc.modules.fastp.fastp [DEBUG ] No duplication rate plot data: SRA-SRR15101733.P_meandrina.fastp-trim.20230122.report.json [2023-01-22 14:53:54,753] multiqc.modules.fastp.fastp [DEBUG ] No duplication rate plot data: SRA-SRR15101743.P_meandrina.fastp-trim.20230122.report.json [2023-01-22 14:53:54,759] multiqc.modules.fastp.fastp [DEBUG ] No duplication rate plot data: SRA-SRR15101717.P_meandrina.fastp-trim.20230122.report.json [2023-01-22 14:53:54,781] multiqc.modules.fastp.fastp [DEBUG ] No duplication rate plot data: SRA-SRR15101739.P_meandrina.fastp-trim.20230122.report.json [2023-01-22 14:53:54,787] multiqc.modules.fastp.fastp [DEBUG ] No duplication rate plot data: SRA-SRR15101731.P_meandrina.fastp-trim.20230122.report.json [2023-01-22 14:53:54,825] multiqc.modules.fastp.fastp [DEBUG ] No duplication rate plot data: SRA-SRR15101736.P_meandrina.fastp-trim.20230122.report.json [2023-01-22 14:53:54,860] multiqc.modules.fastp.fastp [DEBUG ] No duplication rate plot data: SRA-SRR15101742.P_meandrina.fastp-trim.20230122.report.json [2023-01-22 14:53:54,867] multiqc.modules.fastp.fastp [DEBUG ] No duplication rate plot data: SRA-SRR15101729.P_meandrina.fastp-trim.20230122.report.json [2023-01-22 14:53:54,869] multiqc.modules.fastp.fastp [INFO ] Found 27 reports [2023-01-22 14:53:55,812] multiqc.modules.fastqc.fastqc [INFO ] Found 54 reports [2023-01-22 14:53:56,800] multiqc [DEBUG ] No samples found: minionqc [2023-01-22 14:53:56,835] multiqc [DEBUG ] No samples found: mosdepth [2023-01-22 14:53:56,857] multiqc [DEBUG ] No samples found: clusterflow [2023-01-22 14:53:56,928] multiqc [DEBUG ] No samples found: bcl2fastq [2023-01-22 14:53:56,956] multiqc [DEBUG ] No samples found: interop [2023-01-22 14:53:56,980] multiqc [DEBUG ] No samples found: flash [2023-01-22 14:53:57,015] multiqc [DEBUG ] No samples found: seqyclean [2023-01-22 14:53:57,146] multiqc [INFO ] Compressing plot data [2023-01-22 14:53:59,804] multiqc [INFO ] Report : multiqc_report.html [2023-01-22 14:53:59,804] multiqc [INFO ] Data : multiqc_data [2023-01-22 14:53:59,806] multiqc [DEBUG ] Moving data file from '/tmp/tmpout7ufjy/multiqc_data/multiqc_qualimap_bamqc_genome_results.txt' to '/gscratch/scrubbed/samwhite/outputs/20230119-coral-fastqc-fastp-multiqc-PRJNA744403/data/P_meandrina/BS-seq/trimmed/multiqc_data' [2023-01-22 14:53:59,807] multiqc [DEBUG ] Moving data file from '/tmp/tmpout7ufjy/multiqc_data/multiqc_fastp.txt' to '/gscratch/scrubbed/samwhite/outputs/20230119-coral-fastqc-fastp-multiqc-PRJNA744403/data/P_meandrina/BS-seq/trimmed/multiqc_data' [2023-01-22 14:53:59,808] multiqc [DEBUG ] Moving data file from '/tmp/tmpout7ufjy/multiqc_data/multiqc_fastqc.txt' to '/gscratch/scrubbed/samwhite/outputs/20230119-coral-fastqc-fastp-multiqc-PRJNA744403/data/P_meandrina/BS-seq/trimmed/multiqc_data' [2023-01-22 14:53:59,809] multiqc [DEBUG ] Moving data file from '/tmp/tmpout7ufjy/multiqc_data/multiqc_general_stats.txt' to '/gscratch/scrubbed/samwhite/outputs/20230119-coral-fastqc-fastp-multiqc-PRJNA744403/data/P_meandrina/BS-seq/trimmed/multiqc_data' [2023-01-22 14:53:59,810] multiqc [DEBUG ] Moving data file from '/tmp/tmpout7ufjy/multiqc_data/multiqc_sources.txt' to '/gscratch/scrubbed/samwhite/outputs/20230119-coral-fastqc-fastp-multiqc-PRJNA744403/data/P_meandrina/BS-seq/trimmed/multiqc_data' [2023-01-22 14:53:59,811] multiqc [DEBUG ] Moving data file from '/tmp/tmpout7ufjy/multiqc_data/multiqc_data.json' to '/gscratch/scrubbed/samwhite/outputs/20230119-coral-fastqc-fastp-multiqc-PRJNA744403/data/P_meandrina/BS-seq/trimmed/multiqc_data' [2023-01-22 14:54:00,429] multiqc [INFO ] MultiQC complete