[2021-02-27 09:48:45,008] multiqc [DEBUG ] No MultiQC config found: /gscratch/srlab/programs/anaconda3/lib/python3.7/site-packages/multiqc_config.yaml [2021-02-27 09:48:45,009] multiqc [DEBUG ] No MultiQC config found: /usr/lusers/sr320/.multiqc_config.yaml [2021-02-27 09:48:45,009] multiqc [DEBUG ] No MultiQC config found: multiqc_config.yaml [2021-02-27 09:48:45,009] multiqc [DEBUG ] Command used: /gscratch/srlab/programs/anaconda3/bin/multiqc . [2021-02-27 09:48:46,360] multiqc [WARNING] MultiQC Version v1.9 now available! [2021-02-27 09:48:46,361] multiqc [INFO ] This is MultiQC v1.8 [2021-02-27 09:48:46,361] multiqc [DEBUG ] Command : /gscratch/srlab/programs/anaconda3/bin/multiqc . [2021-02-27 09:48:46,361] multiqc [DEBUG ] Working dir : /gscratch/scrubbed/sr320/021321-hw-bs [2021-02-27 09:48:46,361] multiqc [INFO ] Template : default [2021-02-27 09:48:46,361] multiqc [DEBUG ] Running Python 3.7.3 (default, Mar 27 2019, 22:11:17) [GCC 7.3.0] [2021-02-27 09:48:46,361] multiqc [INFO ] Searching : /gscratch/scrubbed/sr320/021321-hw-bs [2021-02-27 09:48:46,362] 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 [2021-02-27 09:48:46,362] multiqc [DEBUG ] Using temporary directory for creating report: /tmp/tmp8dct6lrk [2021-02-27 09:48:46,963] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_11_R1.fastp-trim.20201206_bismark_bt2_PE_report.html [2021-02-27 09:48:46,988] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_4_R1.fastp-trim.20201206_bismark_bt2_pe.deduplicated.sorted.bam.bai [2021-02-27 09:48:46,988] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_18_R1.fastp-trim.20201206_bismark_bt2_pe.bam [2021-02-27 09:48:47,006] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_6_R1.fastp-trim.20201206_bismark_bt2_pe.bam [2021-02-27 09:48:47,046] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_4_R1.fastp-trim.20201206_bismark_bt2_pe.deduplicated.bam [2021-02-27 09:48:47,053] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_10_R1.fastp-trim.20201206_bismark_bt2_pe.deduplicated.sorted.bam.bai [2021-02-27 09:48:47,072] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_18_R1.fastp-trim.20201206_bismark_bt2_pe.deduplicated.sorted.bam [2021-02-27 09:48:47,073] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_19_R1.fastp-trim.20201206_bismark_bt2_PE_report.html [2021-02-27 09:48:47,079] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_5_R1.fastp-trim.20201206_bismark_bt2_pe.deduplicated.sorted.bam.bai [2021-02-27 09:48:47,081] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_9_R1.fastp-trim.20201206_bismark_bt2_pe.deduplicated.sorted.bam [2021-02-27 09:48:47,081] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_16_R1.fastp-trim.20201206_bismark_bt2_pe.deduplicated.sorted.bam [2021-02-27 09:48:47,082] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_19_R1.fastp-trim.20201206_bismark_bt2_pe.deduplicated.sorted.bam [2021-02-27 09:48:47,083] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_7_R1.fastp-trim.20201206_bismark_bt2_pe.deduplicated.sorted.bam.bai [2021-02-27 09:48:47,085] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_8_R1.fastp-trim.20201206_bismark_bt2_PE_report.html [2021-02-27 09:48:47,087] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_1_R1.fastp-trim.20201206_bismark_bt2_pe.deduplicated.bam [2021-02-27 09:48:47,118] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: bismark_summary_report.txt [2021-02-27 09:48:47,122] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: bismark_summary_report.txt [2021-02-27 09:48:47,145] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_19_R1.fastp-trim.20201206_bismark_bt2_pe.bam [2021-02-27 09:48:47,146] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_2_R1.fastp-trim.20201206_bismark_bt2_pe.deduplicated.bam [2021-02-27 09:48:47,146] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_12_R1.fastp-trim.20201206_bismark_bt2_pe.deduplicated.bam [2021-02-27 09:48:47,148] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_24_R1.fastp-trim.20201206_bismark_bt2_pe.deduplicated.sorted.bam [2021-02-27 09:48:47,150] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_9_R1.fastp-trim.20201206_bismark_bt2_pe.deduplicated.sorted.bam.bai [2021-02-27 09:48:47,151] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_12_R1.fastp-trim.20201206_bismark_bt2_PE_report.html [2021-02-27 09:48:47,151] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_6_R1.fastp-trim.20201206_bismark_bt2_PE_report.html [2021-02-27 09:48:47,152] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_9_R1.fastp-trim.20201206_bismark_bt2_pe.bam [2021-02-27 09:48:47,152] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_9_R1.fastp-trim.20201206_bismark_bt2_pe.deduplicated.bam [2021-02-27 09:48:47,153] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_21_R1.fastp-trim.20201206_bismark_bt2_pe.deduplicated.sorted.bam [2021-02-27 09:48:47,155] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_6_R1.fastp-trim.20201206_bismark_bt2_pe.deduplicated.sorted.bam [2021-02-27 09:48:47,156] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_21_R1.fastp-trim.20201206_bismark_bt2_pe.deduplicated.bam [2021-02-27 09:48:47,156] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_20_R1.fastp-trim.20201206_bismark_bt2_pe.bam [2021-02-27 09:48:47,158] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_23_R1.fastp-trim.20201206_bismark_bt2_pe.bam [2021-02-27 09:48:47,158] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_1_R1.fastp-trim.20201206_bismark_bt2_pe.deduplicated.sorted.bam.bai [2021-02-27 09:48:47,158] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_23_R1.fastp-trim.20201206_bismark_bt2_PE_report.html [2021-02-27 09:48:47,160] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_21_R1.fastp-trim.20201206_bismark_bt2_PE_report.html [2021-02-27 09:48:47,161] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_6_R1.fastp-trim.20201206_bismark_bt2_pe.deduplicated.bam [2021-02-27 09:48:47,161] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_10_R1.fastp-trim.20201206_bismark_bt2_PE_report.html [2021-02-27 09:48:47,163] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_21_R1.fastp-trim.20201206_bismark_bt2_pe.bam [2021-02-27 09:48:47,163] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_20_R1.fastp-trim.20201206_bismark_bt2_pe.deduplicated.sorted.bam [2021-02-27 09:48:47,164] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_1_R1.fastp-trim.20201206_bismark_bt2_pe.deduplicated.sorted.bam [2021-02-27 09:48:47,165] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_23_R1.fastp-trim.20201206_bismark_bt2_pe.deduplicated.sorted.bam [2021-02-27 09:48:47,167] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_23_R1.fastp-trim.20201206_bismark_bt2_pe.deduplicated.bam [2021-02-27 09:48:47,168] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_14_R1.fastp-trim.20201206_bismark_bt2_PE_report.html [2021-02-27 09:48:47,168] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_16_R1.fastp-trim.20201206_bismark_bt2_pe.deduplicated.bam [2021-02-27 09:48:47,169] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_17_R1.fastp-trim.20201206_bismark_bt2_pe.deduplicated.sorted.bam.bai [2021-02-27 09:48:47,170] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_24_R1.fastp-trim.20201206_bismark_bt2_PE_report.html [2021-02-27 09:48:47,170] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_22_R1.fastp-trim.20201206_bismark_bt2_PE_report.html [2021-02-27 09:48:47,171] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_12_R1.fastp-trim.20201206_bismark_bt2_pe.deduplicated.sorted.bam [2021-02-27 09:48:47,173] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_7_R1.fastp-trim.20201206_bismark_bt2_pe.deduplicated.sorted.bam [2021-02-27 09:48:47,173] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_15_R1.fastp-trim.20201206_bismark_bt2_pe.deduplicated.bam [2021-02-27 09:48:47,173] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_20_R1.fastp-trim.20201206_bismark_bt2_pe.deduplicated.sorted.bam.bai [2021-02-27 09:48:47,174] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_12_R1.fastp-trim.20201206_bismark_bt2_pe.deduplicated.sorted.bam.bai [2021-02-27 09:48:47,174] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_22_R1.fastp-trim.20201206_bismark_bt2_pe.deduplicated.sorted.bam.bai [2021-02-27 09:48:47,174] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_18_R1.fastp-trim.20201206_bismark_bt2_PE_report.html [2021-02-27 09:48:47,175] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_15_R1.fastp-trim.20201206_bismark_bt2_PE_report.html [2021-02-27 09:48:47,175] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_24_R1.fastp-trim.20201206_bismark_bt2_pe.bam [2021-02-27 09:48:47,176] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_19_R1.fastp-trim.20201206_bismark_bt2_pe.deduplicated.sorted.bam.bai [2021-02-27 09:48:47,177] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_6_R1.fastp-trim.20201206_bismark_bt2_pe.deduplicated.sorted.bam.bai [2021-02-27 09:48:47,178] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_11_R1.fastp-trim.20201206_bismark_bt2_pe.bam [2021-02-27 09:48:47,180] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_7_R1.fastp-trim.20201206_bismark_bt2_pe.bam [2021-02-27 09:48:47,180] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_13_R1.fastp-trim.20201206_bismark_bt2_pe.deduplicated.sorted.bam.bai [2021-02-27 09:48:47,180] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_21_R1.fastp-trim.20201206_bismark_bt2_pe.deduplicated.sorted.bam.bai [2021-02-27 09:48:47,181] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_14_R1.fastp-trim.20201206_bismark_bt2_pe.deduplicated.sorted.bam [2021-02-27 09:48:47,181] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_17_R1.fastp-trim.20201206_bismark_bt2_pe.deduplicated.bam [2021-02-27 09:48:47,182] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: bismark_summary_report.html [2021-02-27 09:48:47,183] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_12_R1.fastp-trim.20201206_bismark_bt2_pe.bam [2021-02-27 09:48:47,184] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_22_R1.fastp-trim.20201206_bismark_bt2_pe.deduplicated.bam [2021-02-27 09:48:47,184] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_16_R1.fastp-trim.20201206_bismark_bt2_pe.bam [2021-02-27 09:48:47,185] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_24_R1.fastp-trim.20201206_bismark_bt2_pe.deduplicated.bam [2021-02-27 09:48:47,186] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_3_R1.fastp-trim.20201206_bismark_bt2_pe.deduplicated.bam [2021-02-27 09:48:47,186] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_9_R1.fastp-trim.20201206_bismark_bt2_PE_report.html [2021-02-27 09:48:47,188] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_8_R1.fastp-trim.20201206_bismark_bt2_pe.deduplicated.sorted.bam.bai [2021-02-27 09:48:47,189] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_2_R1.fastp-trim.20201206_bismark_bt2_pe.bam [2021-02-27 09:48:47,190] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_3_R1.fastp-trim.20201206_bismark_bt2_pe.bam [2021-02-27 09:48:47,191] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_14_R1.fastp-trim.20201206_bismark_bt2_pe.bam [2021-02-27 09:48:47,192] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_2_R1.fastp-trim.20201206_bismark_bt2_PE_report.html [2021-02-27 09:48:47,192] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_11_R1.fastp-trim.20201206_bismark_bt2_pe.deduplicated.bam [2021-02-27 09:48:47,193] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_5_R1.fastp-trim.20201206_bismark_bt2_pe.deduplicated.bam [2021-02-27 09:48:47,194] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_11_R1.fastp-trim.20201206_bismark_bt2_pe.deduplicated.sorted.bam.bai [2021-02-27 09:48:47,195] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_10_R1.fastp-trim.20201206_bismark_bt2_pe.deduplicated.bam [2021-02-27 09:48:47,195] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_5_R1.fastp-trim.20201206_bismark_bt2_pe.bam [2021-02-27 09:48:47,197] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_11_R1.fastp-trim.20201206_bismark_bt2_pe.deduplicated.sorted.bam [2021-02-27 09:48:47,199] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_8_R1.fastp-trim.20201206_bismark_bt2_pe.deduplicated.sorted.bam [2021-02-27 09:48:47,200] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_7_R1.fastp-trim.20201206_bismark_bt2_PE_report.html [2021-02-27 09:48:47,201] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_13_R1.fastp-trim.20201206_bismark_bt2_PE_report.html [2021-02-27 09:48:47,204] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_22_R1.fastp-trim.20201206_bismark_bt2_pe.bam [2021-02-27 09:48:47,204] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_3_R1.fastp-trim.20201206_bismark_bt2_pe.deduplicated.sorted.bam [2021-02-27 09:48:47,205] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_2_R1.fastp-trim.20201206_bismark_bt2_pe.deduplicated.sorted.bam [2021-02-27 09:48:47,205] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_10_R1.fastp-trim.20201206_bismark_bt2_pe.deduplicated.sorted.bam [2021-02-27 09:48:47,205] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_13_R1.fastp-trim.20201206_bismark_bt2_pe.deduplicated.sorted.bam [2021-02-27 09:48:47,207] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_18_R1.fastp-trim.20201206_bismark_bt2_pe.deduplicated.sorted.bam.bai [2021-02-27 09:48:47,207] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_4_R1.fastp-trim.20201206_bismark_bt2_pe.deduplicated.sorted.bam [2021-02-27 09:48:47,208] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_20_R1.fastp-trim.20201206_bismark_bt2_pe.deduplicated.bam [2021-02-27 09:48:47,209] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_16_R1.fastp-trim.20201206_bismark_bt2_pe.deduplicated.sorted.bam.bai [2021-02-27 09:48:47,210] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_5_R1.fastp-trim.20201206_bismark_bt2_PE_report.html [2021-02-27 09:48:47,211] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_22_R1.fastp-trim.20201206_bismark_bt2_pe.deduplicated.sorted.bam [2021-02-27 09:48:47,212] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_15_R1.fastp-trim.20201206_bismark_bt2_pe.deduplicated.sorted.bam [2021-02-27 09:48:47,212] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_4_R1.fastp-trim.20201206_bismark_bt2_pe.bam [2021-02-27 09:48:47,213] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_1_R1.fastp-trim.20201206_bismark_bt2_pe.bam [2021-02-27 09:48:47,214] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_2_R1.fastp-trim.20201206_bismark_bt2_pe.deduplicated.sorted.bam.bai [2021-02-27 09:48:47,214] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_8_R1.fastp-trim.20201206_bismark_bt2_pe.bam [2021-02-27 09:48:47,215] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_24_R1.fastp-trim.20201206_bismark_bt2_pe.deduplicated.sorted.bam.bai [2021-02-27 09:48:47,216] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_8_R1.fastp-trim.20201206_bismark_bt2_pe.deduplicated.bam [2021-02-27 09:48:47,216] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_7_R1.fastp-trim.20201206_bismark_bt2_pe.deduplicated.bam [2021-02-27 09:48:47,216] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_18_R1.fastp-trim.20201206_bismark_bt2_pe.deduplicated.bam [2021-02-27 09:48:47,218] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_15_R1.fastp-trim.20201206_bismark_bt2_pe.bam [2021-02-27 09:48:47,218] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_14_R1.fastp-trim.20201206_bismark_bt2_pe.deduplicated.sorted.bam.bai [2021-02-27 09:48:47,219] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_17_R1.fastp-trim.20201206_bismark_bt2_pe.deduplicated.sorted.bam [2021-02-27 09:48:47,220] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_5_R1.fastp-trim.20201206_bismark_bt2_pe.deduplicated.sorted.bam [2021-02-27 09:48:47,220] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_10_R1.fastp-trim.20201206_bismark_bt2_pe.bam [2021-02-27 09:48:47,220] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_16_R1.fastp-trim.20201206_bismark_bt2_PE_report.html [2021-02-27 09:48:47,226] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: job.sh [2021-02-27 09:48:47,236] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_3_R1.fastp-trim.20201206_bismark_bt2_PE_report.html [2021-02-27 09:48:47,236] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_19_R1.fastp-trim.20201206_bismark_bt2_pe.deduplicated.bam [2021-02-27 09:48:47,236] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_3_R1.fastp-trim.20201206_bismark_bt2_pe.deduplicated.sorted.bam.bai [2021-02-27 09:48:47,238] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_1_R1.fastp-trim.20201206_bismark_bt2_PE_report.html [2021-02-27 09:48:47,239] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_14_R1.fastp-trim.20201206_bismark_bt2_pe.deduplicated.bam [2021-02-27 09:48:47,240] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_13_R1.fastp-trim.20201206_bismark_bt2_pe.deduplicated.bam [2021-02-27 09:48:47,241] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_13_R1.fastp-trim.20201206_bismark_bt2_pe.bam [2021-02-27 09:48:47,242] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_4_R1.fastp-trim.20201206_bismark_bt2_PE_report.html [2021-02-27 09:48:47,242] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_17_R1.fastp-trim.20201206_bismark_bt2_pe.bam [2021-02-27 09:48:47,243] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_17_R1.fastp-trim.20201206_bismark_bt2_PE_report.html [2021-02-27 09:48:47,243] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_23_R1.fastp-trim.20201206_bismark_bt2_pe.deduplicated.sorted.bam.bai [2021-02-27 09:48:47,245] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_20_R1.fastp-trim.20201206_bismark_bt2_PE_report.html [2021-02-27 09:48:47,246] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: zr3644_15_R1.fastp-trim.20201206_bismark_bt2_pe.deduplicated.sorted.bam.bai [2021-02-27 09:48:52,634] multiqc.plots.bargraph [DEBUG ] Using matplotlib version 2.2.4 [2021-02-27 09:48:52,647] multiqc.plots.linegraph [DEBUG ] Using matplotlib version 2.2.4 [2021-02-27 09:48:52,672] multiqc [DEBUG ] No samples found: custom_content [2021-02-27 09:48:52,707] multiqc [DEBUG ] No samples found: conpair [2021-02-27 09:48:52,766] multiqc [DEBUG ] No samples found: peddy [2021-02-27 09:48:52,846] multiqc [DEBUG ] No samples found: methylQA [2021-02-27 09:48:52,863] multiqc [DEBUG ] No samples found: phantompeakqualtools [2021-02-27 09:48:52,966] multiqc [DEBUG ] No samples found: qualimap [2021-02-27 09:48:53,035] multiqc [DEBUG ] No samples found: preseq [2021-02-27 09:48:53,073] multiqc [DEBUG ] No samples found: quast [2021-02-27 09:48:53,098] multiqc [DEBUG ] No samples found: qorts [2021-02-27 09:48:53,188] multiqc [DEBUG ] No samples found: rna_seqc [2021-02-27 09:48:53,233] multiqc [DEBUG ] No samples found: rsem [2021-02-27 09:48:53,367] multiqc [DEBUG ] No samples found: rseqc [2021-02-27 09:48:53,396] multiqc [DEBUG ] No samples found: busco [2021-02-27 09:48:53,431] multiqc [DEBUG ] No samples found: goleft_indexcov [2021-02-27 09:48:53,463] multiqc [DEBUG ] No samples found: disambiguate [2021-02-27 09:48:53,488] multiqc [DEBUG ] No samples found: supernova [2021-02-27 09:48:53,602] multiqc [DEBUG ] No samples found: deeptools [2021-02-27 09:48:53,642] multiqc [DEBUG ] No samples found: sargasso [2021-02-27 09:48:53,682] multiqc [DEBUG ] No samples found: verifybamid [2021-02-27 09:48:53,703] multiqc [DEBUG ] No samples found: mirtrace [2021-02-27 09:48:53,737] multiqc [DEBUG ] No samples found: happy [2021-02-27 09:48:53,785] multiqc [DEBUG ] No samples found: homer [2021-02-27 09:48:53,807] multiqc [DEBUG ] No samples found: macs2 [2021-02-27 09:48:53,818] multiqc [DEBUG ] No samples found: theta2 [2021-02-27 09:48:53,835] multiqc [DEBUG ] No samples found: snpeff [2021-02-27 09:48:53,897] multiqc [DEBUG ] No samples found: gatk [2021-02-27 09:48:53,921] multiqc [DEBUG ] No samples found: htseq [2021-02-27 09:48:53,965] multiqc [DEBUG ] No samples found: bcftools [2021-02-27 09:48:53,977] multiqc [DEBUG ] No samples found: featureCounts [2021-02-27 09:48:53,991] multiqc [DEBUG ] No samples found: fgbio [2021-02-27 09:48:54,002] multiqc [DEBUG ] No samples found: dedup [2021-02-27 09:48:54,029] multiqc [DEBUG ] No samples found: damageprofiler [2021-02-27 09:48:54,225] multiqc [DEBUG ] No samples found: biobambam2 [2021-02-27 09:48:54,237] multiqc [DEBUG ] No samples found: mtnucratio [2021-02-27 09:48:54,243] multiqc [DEBUG ] No samples found: picard [2021-02-27 09:48:54,268] multiqc [DEBUG ] No samples found: prokka [2021-02-27 09:48:54,280] multiqc [DEBUG ] No samples found: samblaster [2021-02-27 09:48:54,382] multiqc [DEBUG ] No samples found: samtools [2021-02-27 09:48:54,446] multiqc [DEBUG ] No samples found: sexdeterrmine [2021-02-27 09:48:54,493] multiqc [DEBUG ] No samples found: bamtools [2021-02-27 09:48:54,505] multiqc [DEBUG ] No samples found: jellyfish [2021-02-27 09:48:54,524] multiqc [DEBUG ] No samples found: vcftools [2021-02-27 09:48:54,547] multiqc [DEBUG ] No samples found: longranger [2021-02-27 09:48:54,635] multiqc [DEBUG ] No samples found: stacks [2021-02-27 09:48:54,717] multiqc [DEBUG ] No samples found: bbmap [2021-02-27 09:48:55,427] multiqc.modules.bismark.bismark [INFO ] Found 24 bismark alignment reports [2021-02-27 09:48:55,434] multiqc.modules.bismark.bismark [INFO ] Found 24 bismark dedup reports [2021-02-27 09:48:55,435] multiqc.modules.bismark.bismark [INFO ] Found 24 bismark methextract reports [2021-02-27 09:48:55,532] multiqc [DEBUG ] No samples found: biscuit [2021-02-27 09:48:55,569] multiqc [DEBUG ] No samples found: hicexplorer [2021-02-27 09:48:55,593] multiqc [DEBUG ] No samples found: hicup [2021-02-27 09:48:55,611] multiqc [DEBUG ] No samples found: hicpro [2021-02-27 09:48:55,624] multiqc [DEBUG ] No samples found: salmon [2021-02-27 09:48:55,714] multiqc [DEBUG ] No samples found: kallisto [2021-02-27 09:48:55,741] multiqc [DEBUG ] No samples found: slamdunk [2021-02-27 09:48:55,809] multiqc [DEBUG ] No samples found: star [2021-02-27 09:48:55,839] multiqc [DEBUG ] No samples found: hisat2 [2021-02-27 09:48:55,866] multiqc [DEBUG ] No samples found: tophat [2021-02-27 09:48:55,885] multiqc [DEBUG ] No samples found: bowtie2 [2021-02-27 09:48:55,907] multiqc [DEBUG ] No samples found: bowtie1 [2021-02-27 09:48:55,920] multiqc [DEBUG ] No samples found: kat [2021-02-27 09:48:55,931] multiqc [DEBUG ] No samples found: leehom [2021-02-27 09:48:55,977] multiqc [DEBUG ] No samples found: adapterRemoval [2021-02-27 09:48:55,989] multiqc [DEBUG ] No samples found: clipandmerge [2021-02-27 09:48:56,023] multiqc [DEBUG ] No samples found: cutadapt [2021-02-27 09:48:56,035] multiqc [DEBUG ] No samples found: flexbar [2021-02-27 09:48:56,061] multiqc [DEBUG ] No samples found: trimmomatic [2021-02-27 09:48:56,122] multiqc [DEBUG ] No samples found: skewer [2021-02-27 09:48:56,134] multiqc [DEBUG ] No samples found: sortmerna [2021-02-27 09:48:56,151] multiqc [DEBUG ] No samples found: biobloomtools [2021-02-27 09:48:56,173] multiqc [DEBUG ] No samples found: fastq_screen [2021-02-27 09:48:56,202] multiqc [DEBUG ] No samples found: afterqc [2021-02-27 09:48:56,230] multiqc [DEBUG ] No samples found: fastp [2021-02-27 09:48:56,259] multiqc [DEBUG ] No samples found: fastqc [2021-02-27 09:48:56,281] multiqc [DEBUG ] No samples found: minionqc [2021-02-27 09:48:56,310] multiqc [DEBUG ] No samples found: mosdepth [2021-02-27 09:48:56,333] multiqc [DEBUG ] No samples found: clusterflow [2021-02-27 09:48:56,429] multiqc [DEBUG ] No samples found: bcl2fastq [2021-02-27 09:48:56,455] multiqc [DEBUG ] No samples found: interop [2021-02-27 09:48:56,482] multiqc [DEBUG ] No samples found: flash [2021-02-27 09:48:56,498] multiqc [DEBUG ] No samples found: seqyclean [2021-02-27 09:48:56,602] multiqc [INFO ] Compressing plot data [2021-02-27 09:48:56,936] multiqc [INFO ] Report : multiqc_report.html [2021-02-27 09:48:56,936] multiqc [INFO ] Data : multiqc_data [2021-02-27 09:48:56,937] multiqc [DEBUG ] Moving data file from '/tmp/tmp8dct6lrk/multiqc_data/multiqc_qualimap_bamqc_genome_results.txt' to '/gscratch/scrubbed/sr320/021321-hw-bs/multiqc_data' [2021-02-27 09:48:56,939] multiqc [DEBUG ] Moving data file from '/tmp/tmp8dct6lrk/multiqc_data/multiqc_bismark_alignment.txt' to '/gscratch/scrubbed/sr320/021321-hw-bs/multiqc_data' [2021-02-27 09:48:56,940] multiqc [DEBUG ] Moving data file from '/tmp/tmp8dct6lrk/multiqc_data/multiqc_bismark_dedup.txt' to '/gscratch/scrubbed/sr320/021321-hw-bs/multiqc_data' [2021-02-27 09:48:56,942] multiqc [DEBUG ] Moving data file from '/tmp/tmp8dct6lrk/multiqc_data/multiqc_bismark_methextract.txt' to '/gscratch/scrubbed/sr320/021321-hw-bs/multiqc_data' [2021-02-27 09:48:56,943] multiqc [DEBUG ] Moving data file from '/tmp/tmp8dct6lrk/multiqc_data/multiqc_general_stats.txt' to '/gscratch/scrubbed/sr320/021321-hw-bs/multiqc_data' [2021-02-27 09:48:56,944] multiqc [DEBUG ] Moving data file from '/tmp/tmp8dct6lrk/multiqc_data/multiqc_sources.txt' to '/gscratch/scrubbed/sr320/021321-hw-bs/multiqc_data' [2021-02-27 09:48:56,945] multiqc [DEBUG ] Moving data file from '/tmp/tmp8dct6lrk/multiqc_data/multiqc_data.json' to '/gscratch/scrubbed/sr320/021321-hw-bs/multiqc_data' [2021-02-27 09:48:58,078] multiqc [INFO ] MultiQC complete