[2023-04-25 14:09:44,235] multiqc [DEBUG ] This is MultiQC v1.11 [2023-04-25 14:09:44,235] multiqc [DEBUG ] No MultiQC config found: /home/lspencer/venv/lib/python3.6/site-packages/multiqc_config.yaml [2023-04-25 14:09:44,235] multiqc [DEBUG ] No MultiQC config found: /home/lspencer/.multiqc_config.yaml [2023-04-25 14:09:44,236] multiqc [DEBUG ] No MultiQC config found: multiqc_config.yaml [2023-04-25 14:09:44,236] multiqc [DEBUG ] Command used: /home/lspencer/venv/bin/multiqc . . [2023-04-25 14:09:44,953] multiqc [WARNING] MultiQC Version v1.14 now available! [2023-04-25 14:09:44,953] multiqc [DEBUG ] Command : /home/lspencer/venv/bin/multiqc . . [2023-04-25 14:09:44,953] multiqc [DEBUG ] Working dir : /scratch/lspencer/DuMOAR/aligned/trim-before-concat [2023-04-25 14:09:44,953] multiqc [DEBUG ] Template : default [2023-04-25 14:09:44,953] multiqc [DEBUG ] Running Python 3.6.8 (default, Apr 16 2020, 01:36:27) [GCC 8.3.1 20191121 (Red Hat 8.3.1-5)] [2023-04-25 14:09:44,953] multiqc [DEBUG ] Analysing modules: custom_content, ccs, ngsderive, purple, conpair, lima, peddy, somalier, methylQA, mosdepth, phantompeakqualtools, qualimap, preseq, quast, qorts, rna_seqc, rockhopper, rsem, rseqc, busco, bustools, goleft_indexcov, gffcompare, disambiguate, supernova, deeptools, sargasso, verifybamid, mirtrace, happy, mirtop, sambamba, homer, hops, macs2, theta2, snpeff, gatk, htseq, bcftools, featureCounts, fgbio, dragen, dedup, damageprofiler, biobambam2, jcvi, mtnucratio, picard, vep, sentieon, prokka, qc3C, nanostat, samblaster, samtools, sexdeterrmine, eigenstratdatabasetools, bamtools, jellyfish, vcftools, longranger, stacks, varscan2, snippy, bbmap, bismark, biscuit, hicexplorer, hicup, hicpro, salmon, kallisto, slamdunk, star, hisat2, tophat, bowtie2, bowtie1, snpsplit, odgi, pangolin, kat, leehom, adapterRemoval, clipandmerge, cutadapt, flexbar, kaiju, kraken, malt, trimmomatic, sickle, skewer, sortmerna, biobloomtools, fastq_screen, afterqc, fastp, fastqc, pychopper, pycoqc, minionqc, multivcfanalyzer, clusterflow, bcl2fastq, bclconvert, interop, ivar, flash, seqyclean, optitype [2023-04-25 14:09:44,954] multiqc [DEBUG ] Using temporary directory for creating report: /tmp/tmppbnxyz84 [2023-04-25 14:09:45,536] multiqc [INFO ] Search path : /scratch/lspencer/DuMOAR/aligned/trim-before-concat [2023-04-25 14:09:45,537] multiqc [INFO ] Search path : /scratch/lspencer/DuMOAR/aligned/trim-before-concat [2023-04-25 14:09:45,559] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: CH05_21_S10_R1_bismark_bt2_pe.bam [2023-04-25 14:09:45,560] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: CH10_08_S19_R1_bismark_bt2_pe.bam [2023-04-25 14:09:45,583] multiqc [DEBUG ] File ignored by ccs/v4 because it exceeded search pattern filesize limit: CH05_01_S8_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:45,586] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: CH05_01_S8_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:45,586] multiqc [DEBUG ] File ignored by nanostat because it exceeded search pattern filesize limit: CH05_01_S8_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:45,586] multiqc [DEBUG ] File ignored by lima/summary because it exceeded search pattern filesize limit: CH05_01_S8_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:45,591] multiqc [DEBUG ] File ignored by vep/vep_html because it exceeded search pattern filesize limit: CH05_01_S8_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:45,591] multiqc [DEBUG ] File ignored by vep/vep_txt because it exceeded search pattern filesize limit: CH05_01_S8_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:45,591] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: CH05_01_S8_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:45,591] multiqc [DEBUG ] File ignored by rockhopper because it exceeded search pattern filesize limit: CH05_01_S8_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:45,591] multiqc [DEBUG ] File ignored by rseqc/bam_stat because it exceeded search pattern filesize limit: CH05_01_S8_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:45,591] multiqc [DEBUG ] File ignored by rseqc/junction_annotation because it exceeded search pattern filesize limit: CH05_01_S8_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:45,591] multiqc [DEBUG ] File ignored by rseqc/read_distribution because it exceeded search pattern filesize limit: CH05_01_S8_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:45,591] multiqc [DEBUG ] File ignored by rseqc/infer_experiment because it exceeded search pattern filesize limit: CH05_01_S8_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:45,597] multiqc [DEBUG ] File ignored by stacks/sumstats because it exceeded search pattern filesize limit: CH05_01_S8_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:45,884] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: CH10_01_S18_R1_bismark_bt2_pe.deduplicated.bam [2023-04-25 14:09:45,894] multiqc [DEBUG ] File ignored by ccs/v4 because it exceeded search pattern filesize limit: CH05_21_S10_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:45,896] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: CH05_21_S10_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:45,897] multiqc [DEBUG ] File ignored by nanostat because it exceeded search pattern filesize limit: CH05_21_S10_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:45,897] multiqc [DEBUG ] File ignored by lima/summary because it exceeded search pattern filesize limit: CH05_21_S10_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:45,900] multiqc [DEBUG ] File ignored by vep/vep_html because it exceeded search pattern filesize limit: CH05_21_S10_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:45,900] multiqc [DEBUG ] File ignored by vep/vep_txt because it exceeded search pattern filesize limit: CH05_21_S10_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:45,900] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: CH05_21_S10_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:45,900] multiqc [DEBUG ] File ignored by rockhopper because it exceeded search pattern filesize limit: CH05_21_S10_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:45,900] multiqc [DEBUG ] File ignored by rseqc/bam_stat because it exceeded search pattern filesize limit: CH05_21_S10_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:45,900] multiqc [DEBUG ] File ignored by rseqc/junction_annotation because it exceeded search pattern filesize limit: CH05_21_S10_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:45,900] multiqc [DEBUG ] File ignored by rseqc/read_distribution because it exceeded search pattern filesize limit: CH05_21_S10_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:45,900] multiqc [DEBUG ] File ignored by rseqc/infer_experiment because it exceeded search pattern filesize limit: CH05_21_S10_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:45,906] multiqc [DEBUG ] File ignored by stacks/sumstats because it exceeded search pattern filesize limit: CH05_21_S10_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:46,189] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: CH09_28_S17_R1_bismark_bt2_pe.deduplicated.bam [2023-04-25 14:09:46,189] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: CH07_06_S12_R1_bismark_bt2_pe.bam [2023-04-25 14:09:46,189] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: CH01_14_S2_R1_bismark_bt2_pe.bam [2023-04-25 14:09:46,190] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: CH10_01_S18_R1_bismark_bt2_pe.bam [2023-04-25 14:09:46,191] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: CH01_38_S4_R1_bismark_bt2_pe.deduplicated.bam [2023-04-25 14:09:46,201] multiqc [DEBUG ] File ignored by ccs/v4 because it exceeded search pattern filesize limit: CH01_38_S4_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:46,203] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: CH01_38_S4_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:46,203] multiqc [DEBUG ] File ignored by nanostat because it exceeded search pattern filesize limit: CH01_38_S4_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:46,203] multiqc [DEBUG ] File ignored by lima/summary because it exceeded search pattern filesize limit: CH01_38_S4_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:46,207] multiqc [DEBUG ] File ignored by vep/vep_html because it exceeded search pattern filesize limit: CH01_38_S4_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:46,207] multiqc [DEBUG ] File ignored by vep/vep_txt because it exceeded search pattern filesize limit: CH01_38_S4_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:46,207] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: CH01_38_S4_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:46,207] multiqc [DEBUG ] File ignored by rockhopper because it exceeded search pattern filesize limit: CH01_38_S4_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:46,207] multiqc [DEBUG ] File ignored by rseqc/bam_stat because it exceeded search pattern filesize limit: CH01_38_S4_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:46,207] multiqc [DEBUG ] File ignored by rseqc/junction_annotation because it exceeded search pattern filesize limit: CH01_38_S4_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:46,207] multiqc [DEBUG ] File ignored by rseqc/read_distribution because it exceeded search pattern filesize limit: CH01_38_S4_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:46,207] multiqc [DEBUG ] File ignored by rseqc/infer_experiment because it exceeded search pattern filesize limit: CH01_38_S4_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:46,213] multiqc [DEBUG ] File ignored by stacks/sumstats because it exceeded search pattern filesize limit: CH01_38_S4_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:46,496] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: CH05_01_S8_R1_bismark_bt2_pe.deduplicated.bam [2023-04-25 14:09:46,506] multiqc [DEBUG ] File ignored by ccs/v4 because it exceeded search pattern filesize limit: CH09_28_S17_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:46,508] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: CH09_28_S17_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:46,508] multiqc [DEBUG ] File ignored by nanostat because it exceeded search pattern filesize limit: CH09_28_S17_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:46,508] multiqc [DEBUG ] File ignored by lima/summary because it exceeded search pattern filesize limit: CH09_28_S17_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:46,512] multiqc [DEBUG ] File ignored by vep/vep_html because it exceeded search pattern filesize limit: CH09_28_S17_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:46,512] multiqc [DEBUG ] File ignored by vep/vep_txt because it exceeded search pattern filesize limit: CH09_28_S17_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:46,512] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: CH09_28_S17_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:46,512] multiqc [DEBUG ] File ignored by rockhopper because it exceeded search pattern filesize limit: CH09_28_S17_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:46,512] multiqc [DEBUG ] File ignored by rseqc/bam_stat because it exceeded search pattern filesize limit: CH09_28_S17_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:46,512] multiqc [DEBUG ] File ignored by rseqc/junction_annotation because it exceeded search pattern filesize limit: CH09_28_S17_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:46,512] multiqc [DEBUG ] File ignored by rseqc/read_distribution because it exceeded search pattern filesize limit: CH09_28_S17_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:46,512] multiqc [DEBUG ] File ignored by rseqc/infer_experiment because it exceeded search pattern filesize limit: CH09_28_S17_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:46,518] multiqc [DEBUG ] File ignored by stacks/sumstats because it exceeded search pattern filesize limit: CH09_28_S17_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:46,801] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: CH05_24_S11_R1_bismark_bt2_pe.deduplicated.bam [2023-04-25 14:09:46,812] multiqc [DEBUG ] File ignored by ccs/v4 because it exceeded search pattern filesize limit: CH05_24_S11_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:46,814] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: CH05_24_S11_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:46,814] multiqc [DEBUG ] File ignored by nanostat because it exceeded search pattern filesize limit: CH05_24_S11_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:46,814] multiqc [DEBUG ] File ignored by lima/summary because it exceeded search pattern filesize limit: CH05_24_S11_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:46,818] multiqc [DEBUG ] File ignored by vep/vep_html because it exceeded search pattern filesize limit: CH05_24_S11_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:46,818] multiqc [DEBUG ] File ignored by vep/vep_txt because it exceeded search pattern filesize limit: CH05_24_S11_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:46,818] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: CH05_24_S11_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:46,818] multiqc [DEBUG ] File ignored by rockhopper because it exceeded search pattern filesize limit: CH05_24_S11_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:46,818] multiqc [DEBUG ] File ignored by rseqc/bam_stat because it exceeded search pattern filesize limit: CH05_24_S11_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:46,818] multiqc [DEBUG ] File ignored by rseqc/junction_annotation because it exceeded search pattern filesize limit: CH05_24_S11_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:46,818] multiqc [DEBUG ] File ignored by rseqc/read_distribution because it exceeded search pattern filesize limit: CH05_24_S11_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:46,818] multiqc [DEBUG ] File ignored by rseqc/infer_experiment because it exceeded search pattern filesize limit: CH05_24_S11_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:46,824] multiqc [DEBUG ] File ignored by stacks/sumstats because it exceeded search pattern filesize limit: CH05_24_S11_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:47,108] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: CH03_04_S5_R1_bismark_bt2_pe.deduplicated.bam [2023-04-25 14:09:47,108] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: CH01_06_S1_R1_bismark_bt2_pe.bam [2023-04-25 14:09:47,120] multiqc [DEBUG ] File ignored by ccs/v4 because it exceeded search pattern filesize limit: CH01_22_S3_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:47,121] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: CH01_22_S3_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:47,122] multiqc [DEBUG ] File ignored by nanostat because it exceeded search pattern filesize limit: CH01_22_S3_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:47,122] multiqc [DEBUG ] File ignored by lima/summary because it exceeded search pattern filesize limit: CH01_22_S3_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:47,125] multiqc [DEBUG ] File ignored by vep/vep_html because it exceeded search pattern filesize limit: CH01_22_S3_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:47,125] multiqc [DEBUG ] File ignored by vep/vep_txt because it exceeded search pattern filesize limit: CH01_22_S3_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:47,125] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: CH01_22_S3_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:47,125] multiqc [DEBUG ] File ignored by rockhopper because it exceeded search pattern filesize limit: CH01_22_S3_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:47,125] multiqc [DEBUG ] File ignored by rseqc/bam_stat because it exceeded search pattern filesize limit: CH01_22_S3_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:47,125] multiqc [DEBUG ] File ignored by rseqc/junction_annotation because it exceeded search pattern filesize limit: CH01_22_S3_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:47,125] multiqc [DEBUG ] File ignored by rseqc/read_distribution because it exceeded search pattern filesize limit: CH01_22_S3_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:47,125] multiqc [DEBUG ] File ignored by rseqc/infer_experiment because it exceeded search pattern filesize limit: CH01_22_S3_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:47,132] multiqc [DEBUG ] File ignored by stacks/sumstats because it exceeded search pattern filesize limit: CH01_22_S3_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:47,413] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: CH10_11_S20_R1_bismark_bt2_pe.deduplicated.bam [2023-04-25 14:09:47,425] multiqc [DEBUG ] File ignored by ccs/v4 because it exceeded search pattern filesize limit: CH09_02_S15_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:47,427] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: CH09_02_S15_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:47,427] multiqc [DEBUG ] File ignored by nanostat because it exceeded search pattern filesize limit: CH09_02_S15_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:47,427] multiqc [DEBUG ] File ignored by lima/summary because it exceeded search pattern filesize limit: CH09_02_S15_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:47,430] multiqc [DEBUG ] File ignored by vep/vep_html because it exceeded search pattern filesize limit: CH09_02_S15_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:47,430] multiqc [DEBUG ] File ignored by vep/vep_txt because it exceeded search pattern filesize limit: CH09_02_S15_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:47,430] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: CH09_02_S15_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:47,431] multiqc [DEBUG ] File ignored by rockhopper because it exceeded search pattern filesize limit: CH09_02_S15_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:47,431] multiqc [DEBUG ] File ignored by rseqc/bam_stat because it exceeded search pattern filesize limit: CH09_02_S15_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:47,431] multiqc [DEBUG ] File ignored by rseqc/junction_annotation because it exceeded search pattern filesize limit: CH09_02_S15_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:47,431] multiqc [DEBUG ] File ignored by rseqc/read_distribution because it exceeded search pattern filesize limit: CH09_02_S15_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:47,431] multiqc [DEBUG ] File ignored by rseqc/infer_experiment because it exceeded search pattern filesize limit: CH09_02_S15_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:47,437] multiqc [DEBUG ] File ignored by stacks/sumstats because it exceeded search pattern filesize limit: CH09_02_S15_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:47,729] multiqc [DEBUG ] File ignored by ccs/v4 because it exceeded search pattern filesize limit: CH10_11_S20_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:47,731] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: CH10_11_S20_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:47,731] multiqc [DEBUG ] File ignored by nanostat because it exceeded search pattern filesize limit: CH10_11_S20_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:47,731] multiqc [DEBUG ] File ignored by lima/summary because it exceeded search pattern filesize limit: CH10_11_S20_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:47,734] multiqc [DEBUG ] File ignored by vep/vep_html because it exceeded search pattern filesize limit: CH10_11_S20_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:47,735] multiqc [DEBUG ] File ignored by vep/vep_txt because it exceeded search pattern filesize limit: CH10_11_S20_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:47,735] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: CH10_11_S20_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:47,735] multiqc [DEBUG ] File ignored by rockhopper because it exceeded search pattern filesize limit: CH10_11_S20_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:47,735] multiqc [DEBUG ] File ignored by rseqc/bam_stat because it exceeded search pattern filesize limit: CH10_11_S20_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:47,735] multiqc [DEBUG ] File ignored by rseqc/junction_annotation because it exceeded search pattern filesize limit: CH10_11_S20_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:47,735] multiqc [DEBUG ] File ignored by rseqc/read_distribution because it exceeded search pattern filesize limit: CH10_11_S20_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:47,735] multiqc [DEBUG ] File ignored by rseqc/infer_experiment because it exceeded search pattern filesize limit: CH10_11_S20_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:47,741] multiqc [DEBUG ] File ignored by stacks/sumstats because it exceeded search pattern filesize limit: CH10_11_S20_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:48,023] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: CH03_33_S7_R1_bismark_bt2_pe.deduplicated.bam [2023-04-25 14:09:48,024] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: CH01_22_S3_R1_bismark_bt2_pe.bam [2023-04-25 14:09:48,034] multiqc [DEBUG ] File ignored by ccs/v4 because it exceeded search pattern filesize limit: CH01_06_S1_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:48,035] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: CH01_06_S1_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:48,036] multiqc [DEBUG ] File ignored by nanostat because it exceeded search pattern filesize limit: CH01_06_S1_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:48,036] multiqc [DEBUG ] File ignored by lima/summary because it exceeded search pattern filesize limit: CH01_06_S1_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:48,039] multiqc [DEBUG ] File ignored by vep/vep_html because it exceeded search pattern filesize limit: CH01_06_S1_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:48,039] multiqc [DEBUG ] File ignored by vep/vep_txt because it exceeded search pattern filesize limit: CH01_06_S1_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:48,039] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: CH01_06_S1_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:48,039] multiqc [DEBUG ] File ignored by rockhopper because it exceeded search pattern filesize limit: CH01_06_S1_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:48,039] multiqc [DEBUG ] File ignored by rseqc/bam_stat because it exceeded search pattern filesize limit: CH01_06_S1_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:48,039] multiqc [DEBUG ] File ignored by rseqc/junction_annotation because it exceeded search pattern filesize limit: CH01_06_S1_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:48,039] multiqc [DEBUG ] File ignored by rseqc/read_distribution because it exceeded search pattern filesize limit: CH01_06_S1_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:48,039] multiqc [DEBUG ] File ignored by rseqc/infer_experiment because it exceeded search pattern filesize limit: CH01_06_S1_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:48,046] multiqc [DEBUG ] File ignored by stacks/sumstats because it exceeded search pattern filesize limit: CH01_06_S1_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:48,328] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: CH07_24_S14_R1_bismark_bt2_pe.deduplicated.bam [2023-04-25 14:09:48,328] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: CH03_33_S7_R1_bismark_bt2_pe.bam [2023-04-25 14:09:48,328] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: CH03_15_S6_R1_bismark_bt2_pe.deduplicated.bam [2023-04-25 14:09:48,328] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: CH09_28_S17_R1_bismark_bt2_pe.bam [2023-04-25 14:09:48,331] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: CH05_24_S11_R1_bismark_bt2_pe.bam [2023-04-25 14:09:48,333] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: CH07_11_S13_R1_bismark_bt2_pe.deduplicated.bam [2023-04-25 14:09:48,333] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: CH01_14_S2_R1_bismark_bt2_pe.deduplicated.bam [2023-04-25 14:09:48,334] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: CH09_13_S16_R1_bismark_bt2_pe.bam [2023-04-25 14:09:48,344] multiqc [DEBUG ] File ignored by ccs/v4 because it exceeded search pattern filesize limit: bismark_summary_report.html [2023-04-25 14:09:48,346] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: bismark_summary_report.html [2023-04-25 14:09:48,346] multiqc [DEBUG ] File ignored by nanostat because it exceeded search pattern filesize limit: bismark_summary_report.html [2023-04-25 14:09:48,346] multiqc [DEBUG ] File ignored by lima/summary because it exceeded search pattern filesize limit: bismark_summary_report.html [2023-04-25 14:09:48,355] multiqc [DEBUG ] File ignored by vep/vep_html because it exceeded search pattern filesize limit: bismark_summary_report.html [2023-04-25 14:09:48,355] multiqc [DEBUG ] File ignored by vep/vep_txt because it exceeded search pattern filesize limit: bismark_summary_report.html [2023-04-25 14:09:48,355] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: bismark_summary_report.html [2023-04-25 14:09:48,355] multiqc [DEBUG ] File ignored by rockhopper because it exceeded search pattern filesize limit: bismark_summary_report.html [2023-04-25 14:09:48,355] multiqc [DEBUG ] File ignored by rseqc/bam_stat because it exceeded search pattern filesize limit: bismark_summary_report.html [2023-04-25 14:09:48,355] multiqc [DEBUG ] File ignored by rseqc/junction_annotation because it exceeded search pattern filesize limit: bismark_summary_report.html [2023-04-25 14:09:48,355] multiqc [DEBUG ] File ignored by rseqc/read_distribution because it exceeded search pattern filesize limit: bismark_summary_report.html [2023-04-25 14:09:48,355] multiqc [DEBUG ] File ignored by rseqc/infer_experiment because it exceeded search pattern filesize limit: bismark_summary_report.html [2023-04-25 14:09:48,361] multiqc [DEBUG ] File ignored by stacks/sumstats because it exceeded search pattern filesize limit: bismark_summary_report.html [2023-04-25 14:09:48,639] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: CH09_02_S15_R1_bismark_bt2_pe.deduplicated.bam [2023-04-25 14:09:48,649] multiqc [DEBUG ] File ignored by ccs/v4 because it exceeded search pattern filesize limit: CH09_13_S16_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:48,651] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: CH09_13_S16_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:48,651] multiqc [DEBUG ] File ignored by nanostat because it exceeded search pattern filesize limit: CH09_13_S16_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:48,651] multiqc [DEBUG ] File ignored by lima/summary because it exceeded search pattern filesize limit: CH09_13_S16_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:48,655] multiqc [DEBUG ] File ignored by vep/vep_html because it exceeded search pattern filesize limit: CH09_13_S16_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:48,655] multiqc [DEBUG ] File ignored by vep/vep_txt because it exceeded search pattern filesize limit: CH09_13_S16_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:48,655] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: CH09_13_S16_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:48,655] multiqc [DEBUG ] File ignored by rockhopper because it exceeded search pattern filesize limit: CH09_13_S16_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:48,655] multiqc [DEBUG ] File ignored by rseqc/bam_stat because it exceeded search pattern filesize limit: CH09_13_S16_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:48,655] multiqc [DEBUG ] File ignored by rseqc/junction_annotation because it exceeded search pattern filesize limit: CH09_13_S16_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:48,655] multiqc [DEBUG ] File ignored by rseqc/read_distribution because it exceeded search pattern filesize limit: CH09_13_S16_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:48,655] multiqc [DEBUG ] File ignored by rseqc/infer_experiment because it exceeded search pattern filesize limit: CH09_13_S16_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:48,661] multiqc [DEBUG ] File ignored by stacks/sumstats because it exceeded search pattern filesize limit: CH09_13_S16_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:48,945] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: CH03_15_S6_R1_bismark_bt2_pe.bam [2023-04-25 14:09:48,946] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: CH01_06_S1_R1_bismark_bt2_pe.deduplicated.bam [2023-04-25 14:09:48,948] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: CH10_08_S19_R1_bismark_bt2_pe.deduplicated.bam [2023-04-25 14:09:48,958] multiqc [DEBUG ] File ignored by ccs/v4 because it exceeded search pattern filesize limit: CH10_08_S19_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:48,960] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: CH10_08_S19_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:48,960] multiqc [DEBUG ] File ignored by nanostat because it exceeded search pattern filesize limit: CH10_08_S19_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:48,960] multiqc [DEBUG ] File ignored by lima/summary because it exceeded search pattern filesize limit: CH10_08_S19_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:48,964] multiqc [DEBUG ] File ignored by vep/vep_html because it exceeded search pattern filesize limit: CH10_08_S19_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:48,964] multiqc [DEBUG ] File ignored by vep/vep_txt because it exceeded search pattern filesize limit: CH10_08_S19_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:48,964] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: CH10_08_S19_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:48,964] multiqc [DEBUG ] File ignored by rockhopper because it exceeded search pattern filesize limit: CH10_08_S19_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:48,964] multiqc [DEBUG ] File ignored by rseqc/bam_stat because it exceeded search pattern filesize limit: CH10_08_S19_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:48,964] multiqc [DEBUG ] File ignored by rseqc/junction_annotation because it exceeded search pattern filesize limit: CH10_08_S19_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:48,964] multiqc [DEBUG ] File ignored by rseqc/read_distribution because it exceeded search pattern filesize limit: CH10_08_S19_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:48,964] multiqc [DEBUG ] File ignored by rseqc/infer_experiment because it exceeded search pattern filesize limit: CH10_08_S19_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:48,970] multiqc [DEBUG ] File ignored by stacks/sumstats because it exceeded search pattern filesize limit: CH10_08_S19_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:49,256] multiqc [DEBUG ] File ignored by ccs/v4 because it exceeded search pattern filesize limit: bismark_summary_report.txt [2023-04-25 14:09:49,258] multiqc [DEBUG ] File ignored by lima/summary because it exceeded search pattern filesize limit: bismark_summary_report.txt [2023-04-25 14:09:49,262] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: bismark_summary_report.txt [2023-04-25 14:09:49,280] multiqc [DEBUG ] File ignored by ccs/v4 because it exceeded search pattern filesize limit: CH07_06_S12_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:49,282] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: CH07_06_S12_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:49,282] multiqc [DEBUG ] File ignored by nanostat because it exceeded search pattern filesize limit: CH07_06_S12_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:49,282] multiqc [DEBUG ] File ignored by lima/summary because it exceeded search pattern filesize limit: CH07_06_S12_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:49,285] multiqc [DEBUG ] File ignored by vep/vep_html because it exceeded search pattern filesize limit: CH07_06_S12_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:49,285] multiqc [DEBUG ] File ignored by vep/vep_txt because it exceeded search pattern filesize limit: CH07_06_S12_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:49,285] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: CH07_06_S12_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:49,285] multiqc [DEBUG ] File ignored by rockhopper because it exceeded search pattern filesize limit: CH07_06_S12_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:49,286] multiqc [DEBUG ] File ignored by rseqc/bam_stat because it exceeded search pattern filesize limit: CH07_06_S12_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:49,286] multiqc [DEBUG ] File ignored by rseqc/junction_annotation because it exceeded search pattern filesize limit: CH07_06_S12_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:49,286] multiqc [DEBUG ] File ignored by rseqc/read_distribution because it exceeded search pattern filesize limit: CH07_06_S12_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:49,286] multiqc [DEBUG ] File ignored by rseqc/infer_experiment because it exceeded search pattern filesize limit: CH07_06_S12_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:49,292] multiqc [DEBUG ] File ignored by stacks/sumstats because it exceeded search pattern filesize limit: CH07_06_S12_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:49,576] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: CH05_01_S8_R1_bismark_bt2_pe.bam [2023-04-25 14:09:49,586] multiqc [DEBUG ] File ignored by ccs/v4 because it exceeded search pattern filesize limit: CH03_15_S6_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:49,588] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: CH03_15_S6_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:49,588] multiqc [DEBUG ] File ignored by nanostat because it exceeded search pattern filesize limit: CH03_15_S6_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:49,588] multiqc [DEBUG ] File ignored by lima/summary because it exceeded search pattern filesize limit: CH03_15_S6_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:49,591] multiqc [DEBUG ] File ignored by vep/vep_html because it exceeded search pattern filesize limit: CH03_15_S6_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:49,591] multiqc [DEBUG ] File ignored by vep/vep_txt because it exceeded search pattern filesize limit: CH03_15_S6_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:49,591] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: CH03_15_S6_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:49,592] multiqc [DEBUG ] File ignored by rockhopper because it exceeded search pattern filesize limit: CH03_15_S6_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:49,592] multiqc [DEBUG ] File ignored by rseqc/bam_stat because it exceeded search pattern filesize limit: CH03_15_S6_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:49,592] multiqc [DEBUG ] File ignored by rseqc/junction_annotation because it exceeded search pattern filesize limit: CH03_15_S6_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:49,592] multiqc [DEBUG ] File ignored by rseqc/read_distribution because it exceeded search pattern filesize limit: CH03_15_S6_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:49,592] multiqc [DEBUG ] File ignored by rseqc/infer_experiment because it exceeded search pattern filesize limit: CH03_15_S6_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:49,598] multiqc [DEBUG ] File ignored by stacks/sumstats because it exceeded search pattern filesize limit: CH03_15_S6_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:49,883] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: CH07_11_S13_R1_bismark_bt2_pe.bam [2023-04-25 14:09:49,893] multiqc [DEBUG ] File ignored by ccs/v4 because it exceeded search pattern filesize limit: CH05_06_S9_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:49,894] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: CH05_06_S9_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:49,895] multiqc [DEBUG ] File ignored by nanostat because it exceeded search pattern filesize limit: CH05_06_S9_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:49,895] multiqc [DEBUG ] File ignored by lima/summary because it exceeded search pattern filesize limit: CH05_06_S9_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:49,898] multiqc [DEBUG ] File ignored by vep/vep_html because it exceeded search pattern filesize limit: CH05_06_S9_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:49,898] multiqc [DEBUG ] File ignored by vep/vep_txt because it exceeded search pattern filesize limit: CH05_06_S9_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:49,898] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: CH05_06_S9_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:49,898] multiqc [DEBUG ] File ignored by rockhopper because it exceeded search pattern filesize limit: CH05_06_S9_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:49,898] multiqc [DEBUG ] File ignored by rseqc/bam_stat because it exceeded search pattern filesize limit: CH05_06_S9_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:49,898] multiqc [DEBUG ] File ignored by rseqc/junction_annotation because it exceeded search pattern filesize limit: CH05_06_S9_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:49,898] multiqc [DEBUG ] File ignored by rseqc/read_distribution because it exceeded search pattern filesize limit: CH05_06_S9_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:49,898] multiqc [DEBUG ] File ignored by rseqc/infer_experiment because it exceeded search pattern filesize limit: CH05_06_S9_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:49,904] multiqc [DEBUG ] File ignored by stacks/sumstats because it exceeded search pattern filesize limit: CH05_06_S9_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:50,187] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: CH10_11_S20_R1_bismark_bt2_pe.bam [2023-04-25 14:09:50,197] multiqc [DEBUG ] File ignored by ccs/v4 because it exceeded search pattern filesize limit: CH07_24_S14_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:50,198] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: CH07_24_S14_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:50,199] multiqc [DEBUG ] File ignored by nanostat because it exceeded search pattern filesize limit: CH07_24_S14_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:50,199] multiqc [DEBUG ] File ignored by lima/summary because it exceeded search pattern filesize limit: CH07_24_S14_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:50,202] multiqc [DEBUG ] File ignored by vep/vep_html because it exceeded search pattern filesize limit: CH07_24_S14_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:50,202] multiqc [DEBUG ] File ignored by vep/vep_txt because it exceeded search pattern filesize limit: CH07_24_S14_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:50,202] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: CH07_24_S14_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:50,202] multiqc [DEBUG ] File ignored by rockhopper because it exceeded search pattern filesize limit: CH07_24_S14_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:50,202] multiqc [DEBUG ] File ignored by rseqc/bam_stat because it exceeded search pattern filesize limit: CH07_24_S14_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:50,202] multiqc [DEBUG ] File ignored by rseqc/junction_annotation because it exceeded search pattern filesize limit: CH07_24_S14_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:50,202] multiqc [DEBUG ] File ignored by rseqc/read_distribution because it exceeded search pattern filesize limit: CH07_24_S14_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:50,202] multiqc [DEBUG ] File ignored by rseqc/infer_experiment because it exceeded search pattern filesize limit: CH07_24_S14_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:50,208] multiqc [DEBUG ] File ignored by stacks/sumstats because it exceeded search pattern filesize limit: CH07_24_S14_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:50,502] multiqc [DEBUG ] File ignored by ccs/v4 because it exceeded search pattern filesize limit: CH10_01_S18_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:50,504] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: CH10_01_S18_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:50,504] multiqc [DEBUG ] File ignored by nanostat because it exceeded search pattern filesize limit: CH10_01_S18_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:50,504] multiqc [DEBUG ] File ignored by lima/summary because it exceeded search pattern filesize limit: CH10_01_S18_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:50,508] multiqc [DEBUG ] File ignored by vep/vep_html because it exceeded search pattern filesize limit: CH10_01_S18_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:50,508] multiqc [DEBUG ] File ignored by vep/vep_txt because it exceeded search pattern filesize limit: CH10_01_S18_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:50,508] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: CH10_01_S18_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:50,508] multiqc [DEBUG ] File ignored by rockhopper because it exceeded search pattern filesize limit: CH10_01_S18_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:50,508] multiqc [DEBUG ] File ignored by rseqc/bam_stat because it exceeded search pattern filesize limit: CH10_01_S18_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:50,508] multiqc [DEBUG ] File ignored by rseqc/junction_annotation because it exceeded search pattern filesize limit: CH10_01_S18_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:50,508] multiqc [DEBUG ] File ignored by rseqc/read_distribution because it exceeded search pattern filesize limit: CH10_01_S18_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:50,508] multiqc [DEBUG ] File ignored by rseqc/infer_experiment because it exceeded search pattern filesize limit: CH10_01_S18_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:50,514] multiqc [DEBUG ] File ignored by stacks/sumstats because it exceeded search pattern filesize limit: CH10_01_S18_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:50,796] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: CH09_13_S16_R1_bismark_bt2_pe.deduplicated.bam [2023-04-25 14:09:50,796] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: CH07_06_S12_R1_bismark_bt2_pe.deduplicated.bam [2023-04-25 14:09:50,806] multiqc [DEBUG ] File ignored by ccs/v4 because it exceeded search pattern filesize limit: CH07_11_S13_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:50,808] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: CH07_11_S13_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:50,808] multiqc [DEBUG ] File ignored by nanostat because it exceeded search pattern filesize limit: CH07_11_S13_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:50,808] multiqc [DEBUG ] File ignored by lima/summary because it exceeded search pattern filesize limit: CH07_11_S13_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:50,811] multiqc [DEBUG ] File ignored by vep/vep_html because it exceeded search pattern filesize limit: CH07_11_S13_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:50,811] multiqc [DEBUG ] File ignored by vep/vep_txt because it exceeded search pattern filesize limit: CH07_11_S13_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:50,811] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: CH07_11_S13_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:50,811] multiqc [DEBUG ] File ignored by rockhopper because it exceeded search pattern filesize limit: CH07_11_S13_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:50,811] multiqc [DEBUG ] File ignored by rseqc/bam_stat because it exceeded search pattern filesize limit: CH07_11_S13_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:50,811] multiqc [DEBUG ] File ignored by rseqc/junction_annotation because it exceeded search pattern filesize limit: CH07_11_S13_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:50,811] multiqc [DEBUG ] File ignored by rseqc/read_distribution because it exceeded search pattern filesize limit: CH07_11_S13_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:50,811] multiqc [DEBUG ] File ignored by rseqc/infer_experiment because it exceeded search pattern filesize limit: CH07_11_S13_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:50,817] multiqc [DEBUG ] File ignored by stacks/sumstats because it exceeded search pattern filesize limit: CH07_11_S13_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:51,099] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: CH03_04_S5_R1_bismark_bt2_pe.bam [2023-04-25 14:09:51,100] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: CH01_38_S4_R1_bismark_bt2_pe.bam [2023-04-25 14:09:51,100] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: CH05_21_S10_R1_bismark_bt2_pe.deduplicated.bam [2023-04-25 14:09:51,101] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: CH05_06_S9_R1_bismark_bt2_pe.bam [2023-04-25 14:09:51,110] multiqc [DEBUG ] File ignored by ccs/v4 because it exceeded search pattern filesize limit: CH03_33_S7_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:51,112] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: CH03_33_S7_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:51,112] multiqc [DEBUG ] File ignored by nanostat because it exceeded search pattern filesize limit: CH03_33_S7_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:51,112] multiqc [DEBUG ] File ignored by lima/summary because it exceeded search pattern filesize limit: CH03_33_S7_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:51,116] multiqc [DEBUG ] File ignored by vep/vep_html because it exceeded search pattern filesize limit: CH03_33_S7_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:51,116] multiqc [DEBUG ] File ignored by vep/vep_txt because it exceeded search pattern filesize limit: CH03_33_S7_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:51,116] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: CH03_33_S7_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:51,116] multiqc [DEBUG ] File ignored by rockhopper because it exceeded search pattern filesize limit: CH03_33_S7_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:51,116] multiqc [DEBUG ] File ignored by rseqc/bam_stat because it exceeded search pattern filesize limit: CH03_33_S7_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:51,116] multiqc [DEBUG ] File ignored by rseqc/junction_annotation because it exceeded search pattern filesize limit: CH03_33_S7_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:51,116] multiqc [DEBUG ] File ignored by rseqc/read_distribution because it exceeded search pattern filesize limit: CH03_33_S7_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:51,116] multiqc [DEBUG ] File ignored by rseqc/infer_experiment because it exceeded search pattern filesize limit: CH03_33_S7_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:51,122] multiqc [DEBUG ] File ignored by stacks/sumstats because it exceeded search pattern filesize limit: CH03_33_S7_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:51,414] multiqc [DEBUG ] File ignored by ccs/v4 because it exceeded search pattern filesize limit: CH03_04_S5_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:51,416] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: CH03_04_S5_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:51,416] multiqc [DEBUG ] File ignored by nanostat because it exceeded search pattern filesize limit: CH03_04_S5_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:51,416] multiqc [DEBUG ] File ignored by lima/summary because it exceeded search pattern filesize limit: CH03_04_S5_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:51,419] multiqc [DEBUG ] File ignored by vep/vep_html because it exceeded search pattern filesize limit: CH03_04_S5_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:51,419] multiqc [DEBUG ] File ignored by vep/vep_txt because it exceeded search pattern filesize limit: CH03_04_S5_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:51,419] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: CH03_04_S5_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:51,419] multiqc [DEBUG ] File ignored by rockhopper because it exceeded search pattern filesize limit: CH03_04_S5_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:51,419] multiqc [DEBUG ] File ignored by rseqc/bam_stat because it exceeded search pattern filesize limit: CH03_04_S5_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:51,419] multiqc [DEBUG ] File ignored by rseqc/junction_annotation because it exceeded search pattern filesize limit: CH03_04_S5_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:51,419] multiqc [DEBUG ] File ignored by rseqc/read_distribution because it exceeded search pattern filesize limit: CH03_04_S5_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:51,419] multiqc [DEBUG ] File ignored by rseqc/infer_experiment because it exceeded search pattern filesize limit: CH03_04_S5_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:51,426] multiqc [DEBUG ] File ignored by stacks/sumstats because it exceeded search pattern filesize limit: CH03_04_S5_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:51,707] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: CH07_24_S14_R1_bismark_bt2_pe.bam [2023-04-25 14:09:51,707] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: CH01_22_S3_R1_bismark_bt2_pe.deduplicated.bam [2023-04-25 14:09:51,709] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: CH05_06_S9_R1_bismark_bt2_pe.deduplicated.bam [2023-04-25 14:09:51,720] multiqc [DEBUG ] File ignored by ccs/v4 because it exceeded search pattern filesize limit: CH01_14_S2_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:51,722] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: CH01_14_S2_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:51,722] multiqc [DEBUG ] File ignored by nanostat because it exceeded search pattern filesize limit: CH01_14_S2_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:51,722] multiqc [DEBUG ] File ignored by lima/summary because it exceeded search pattern filesize limit: CH01_14_S2_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:51,726] multiqc [DEBUG ] File ignored by vep/vep_html because it exceeded search pattern filesize limit: CH01_14_S2_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:51,726] multiqc [DEBUG ] File ignored by vep/vep_txt because it exceeded search pattern filesize limit: CH01_14_S2_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:51,726] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: CH01_14_S2_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:51,726] multiqc [DEBUG ] File ignored by rockhopper because it exceeded search pattern filesize limit: CH01_14_S2_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:51,726] multiqc [DEBUG ] File ignored by rseqc/bam_stat because it exceeded search pattern filesize limit: CH01_14_S2_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:51,726] multiqc [DEBUG ] File ignored by rseqc/junction_annotation because it exceeded search pattern filesize limit: CH01_14_S2_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:51,726] multiqc [DEBUG ] File ignored by rseqc/read_distribution because it exceeded search pattern filesize limit: CH01_14_S2_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:51,726] multiqc [DEBUG ] File ignored by rseqc/infer_experiment because it exceeded search pattern filesize limit: CH01_14_S2_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:51,732] multiqc [DEBUG ] File ignored by stacks/sumstats because it exceeded search pattern filesize limit: CH01_14_S2_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:52,015] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: CH09_02_S15_R1_bismark_bt2_pe.bam [2023-04-25 14:09:52,016] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: CH05_21_S10_R1_bismark_bt2_pe.bam [2023-04-25 14:09:52,017] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: CH10_08_S19_R1_bismark_bt2_pe.bam [2023-04-25 14:09:52,027] multiqc [DEBUG ] File ignored by ccs/v4 because it exceeded search pattern filesize limit: CH05_01_S8_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:52,028] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: CH05_01_S8_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:52,029] multiqc [DEBUG ] File ignored by nanostat because it exceeded search pattern filesize limit: CH05_01_S8_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:52,029] multiqc [DEBUG ] File ignored by lima/summary because it exceeded search pattern filesize limit: CH05_01_S8_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:52,032] multiqc [DEBUG ] File ignored by vep/vep_html because it exceeded search pattern filesize limit: CH05_01_S8_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:52,032] multiqc [DEBUG ] File ignored by vep/vep_txt because it exceeded search pattern filesize limit: CH05_01_S8_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:52,032] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: CH05_01_S8_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:52,032] multiqc [DEBUG ] File ignored by rockhopper because it exceeded search pattern filesize limit: CH05_01_S8_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:52,032] multiqc [DEBUG ] File ignored by rseqc/bam_stat because it exceeded search pattern filesize limit: CH05_01_S8_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:52,032] multiqc [DEBUG ] File ignored by rseqc/junction_annotation because it exceeded search pattern filesize limit: CH05_01_S8_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:52,032] multiqc [DEBUG ] File ignored by rseqc/read_distribution because it exceeded search pattern filesize limit: CH05_01_S8_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:52,032] multiqc [DEBUG ] File ignored by rseqc/infer_experiment because it exceeded search pattern filesize limit: CH05_01_S8_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:52,038] multiqc [DEBUG ] File ignored by stacks/sumstats because it exceeded search pattern filesize limit: CH05_01_S8_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:52,319] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: CH10_01_S18_R1_bismark_bt2_pe.deduplicated.bam [2023-04-25 14:09:52,329] multiqc [DEBUG ] File ignored by ccs/v4 because it exceeded search pattern filesize limit: CH05_21_S10_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:52,331] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: CH05_21_S10_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:52,331] multiqc [DEBUG ] File ignored by nanostat because it exceeded search pattern filesize limit: CH05_21_S10_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:52,331] multiqc [DEBUG ] File ignored by lima/summary because it exceeded search pattern filesize limit: CH05_21_S10_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:52,335] multiqc [DEBUG ] File ignored by vep/vep_html because it exceeded search pattern filesize limit: CH05_21_S10_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:52,335] multiqc [DEBUG ] File ignored by vep/vep_txt because it exceeded search pattern filesize limit: CH05_21_S10_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:52,335] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: CH05_21_S10_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:52,335] multiqc [DEBUG ] File ignored by rockhopper because it exceeded search pattern filesize limit: CH05_21_S10_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:52,335] multiqc [DEBUG ] File ignored by rseqc/bam_stat because it exceeded search pattern filesize limit: CH05_21_S10_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:52,335] multiqc [DEBUG ] File ignored by rseqc/junction_annotation because it exceeded search pattern filesize limit: CH05_21_S10_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:52,335] multiqc [DEBUG ] File ignored by rseqc/read_distribution because it exceeded search pattern filesize limit: CH05_21_S10_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:52,335] multiqc [DEBUG ] File ignored by rseqc/infer_experiment because it exceeded search pattern filesize limit: CH05_21_S10_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:52,341] multiqc [DEBUG ] File ignored by stacks/sumstats because it exceeded search pattern filesize limit: CH05_21_S10_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:52,620] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: CH09_28_S17_R1_bismark_bt2_pe.deduplicated.bam [2023-04-25 14:09:52,620] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: CH07_06_S12_R1_bismark_bt2_pe.bam [2023-04-25 14:09:52,621] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: CH01_14_S2_R1_bismark_bt2_pe.bam [2023-04-25 14:09:52,622] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: CH10_01_S18_R1_bismark_bt2_pe.bam [2023-04-25 14:09:52,623] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: CH01_38_S4_R1_bismark_bt2_pe.deduplicated.bam [2023-04-25 14:09:52,633] multiqc [DEBUG ] File ignored by ccs/v4 because it exceeded search pattern filesize limit: CH01_38_S4_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:52,634] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: CH01_38_S4_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:52,635] multiqc [DEBUG ] File ignored by nanostat because it exceeded search pattern filesize limit: CH01_38_S4_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:52,635] multiqc [DEBUG ] File ignored by lima/summary because it exceeded search pattern filesize limit: CH01_38_S4_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:52,638] multiqc [DEBUG ] File ignored by vep/vep_html because it exceeded search pattern filesize limit: CH01_38_S4_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:52,639] multiqc [DEBUG ] File ignored by vep/vep_txt because it exceeded search pattern filesize limit: CH01_38_S4_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:52,639] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: CH01_38_S4_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:52,639] multiqc [DEBUG ] File ignored by rockhopper because it exceeded search pattern filesize limit: CH01_38_S4_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:52,639] multiqc [DEBUG ] File ignored by rseqc/bam_stat because it exceeded search pattern filesize limit: CH01_38_S4_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:52,639] multiqc [DEBUG ] File ignored by rseqc/junction_annotation because it exceeded search pattern filesize limit: CH01_38_S4_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:52,639] multiqc [DEBUG ] File ignored by rseqc/read_distribution because it exceeded search pattern filesize limit: CH01_38_S4_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:52,639] multiqc [DEBUG ] File ignored by rseqc/infer_experiment because it exceeded search pattern filesize limit: CH01_38_S4_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:52,645] multiqc [DEBUG ] File ignored by stacks/sumstats because it exceeded search pattern filesize limit: CH01_38_S4_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:52,925] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: CH05_01_S8_R1_bismark_bt2_pe.deduplicated.bam [2023-04-25 14:09:52,935] multiqc [DEBUG ] File ignored by ccs/v4 because it exceeded search pattern filesize limit: CH09_28_S17_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:52,937] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: CH09_28_S17_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:52,937] multiqc [DEBUG ] File ignored by nanostat because it exceeded search pattern filesize limit: CH09_28_S17_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:52,937] multiqc [DEBUG ] File ignored by lima/summary because it exceeded search pattern filesize limit: CH09_28_S17_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:52,940] multiqc [DEBUG ] File ignored by vep/vep_html because it exceeded search pattern filesize limit: CH09_28_S17_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:52,941] multiqc [DEBUG ] File ignored by vep/vep_txt because it exceeded search pattern filesize limit: CH09_28_S17_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:52,941] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: CH09_28_S17_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:52,941] multiqc [DEBUG ] File ignored by rockhopper because it exceeded search pattern filesize limit: CH09_28_S17_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:52,941] multiqc [DEBUG ] File ignored by rseqc/bam_stat because it exceeded search pattern filesize limit: CH09_28_S17_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:52,941] multiqc [DEBUG ] File ignored by rseqc/junction_annotation because it exceeded search pattern filesize limit: CH09_28_S17_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:52,941] multiqc [DEBUG ] File ignored by rseqc/read_distribution because it exceeded search pattern filesize limit: CH09_28_S17_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:52,941] multiqc [DEBUG ] File ignored by rseqc/infer_experiment because it exceeded search pattern filesize limit: CH09_28_S17_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:52,947] multiqc [DEBUG ] File ignored by stacks/sumstats because it exceeded search pattern filesize limit: CH09_28_S17_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:53,227] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: CH05_24_S11_R1_bismark_bt2_pe.deduplicated.bam [2023-04-25 14:09:53,238] multiqc [DEBUG ] File ignored by ccs/v4 because it exceeded search pattern filesize limit: CH05_24_S11_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:53,240] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: CH05_24_S11_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:53,240] multiqc [DEBUG ] File ignored by nanostat because it exceeded search pattern filesize limit: CH05_24_S11_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:53,240] multiqc [DEBUG ] File ignored by lima/summary because it exceeded search pattern filesize limit: CH05_24_S11_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:53,244] multiqc [DEBUG ] File ignored by vep/vep_html because it exceeded search pattern filesize limit: CH05_24_S11_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:53,244] multiqc [DEBUG ] File ignored by vep/vep_txt because it exceeded search pattern filesize limit: CH05_24_S11_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:53,244] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: CH05_24_S11_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:53,244] multiqc [DEBUG ] File ignored by rockhopper because it exceeded search pattern filesize limit: CH05_24_S11_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:53,244] multiqc [DEBUG ] File ignored by rseqc/bam_stat because it exceeded search pattern filesize limit: CH05_24_S11_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:53,244] multiqc [DEBUG ] File ignored by rseqc/junction_annotation because it exceeded search pattern filesize limit: CH05_24_S11_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:53,244] multiqc [DEBUG ] File ignored by rseqc/read_distribution because it exceeded search pattern filesize limit: CH05_24_S11_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:53,244] multiqc [DEBUG ] File ignored by rseqc/infer_experiment because it exceeded search pattern filesize limit: CH05_24_S11_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:53,250] multiqc [DEBUG ] File ignored by stacks/sumstats because it exceeded search pattern filesize limit: CH05_24_S11_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:53,530] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: CH03_04_S5_R1_bismark_bt2_pe.deduplicated.bam [2023-04-25 14:09:53,530] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: CH01_06_S1_R1_bismark_bt2_pe.bam [2023-04-25 14:09:53,542] multiqc [DEBUG ] File ignored by ccs/v4 because it exceeded search pattern filesize limit: CH01_22_S3_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:53,543] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: CH01_22_S3_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:53,544] multiqc [DEBUG ] File ignored by nanostat because it exceeded search pattern filesize limit: CH01_22_S3_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:53,544] multiqc [DEBUG ] File ignored by lima/summary because it exceeded search pattern filesize limit: CH01_22_S3_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:53,547] multiqc [DEBUG ] File ignored by vep/vep_html because it exceeded search pattern filesize limit: CH01_22_S3_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:53,547] multiqc [DEBUG ] File ignored by vep/vep_txt because it exceeded search pattern filesize limit: CH01_22_S3_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:53,547] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: CH01_22_S3_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:53,547] multiqc [DEBUG ] File ignored by rockhopper because it exceeded search pattern filesize limit: CH01_22_S3_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:53,547] multiqc [DEBUG ] File ignored by rseqc/bam_stat because it exceeded search pattern filesize limit: CH01_22_S3_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:53,547] multiqc [DEBUG ] File ignored by rseqc/junction_annotation because it exceeded search pattern filesize limit: CH01_22_S3_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:53,547] multiqc [DEBUG ] File ignored by rseqc/read_distribution because it exceeded search pattern filesize limit: CH01_22_S3_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:53,547] multiqc [DEBUG ] File ignored by rseqc/infer_experiment because it exceeded search pattern filesize limit: CH01_22_S3_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:53,553] multiqc [DEBUG ] File ignored by stacks/sumstats because it exceeded search pattern filesize limit: CH01_22_S3_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:53,832] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: CH10_11_S20_R1_bismark_bt2_pe.deduplicated.bam [2023-04-25 14:09:53,845] multiqc [DEBUG ] File ignored by ccs/v4 because it exceeded search pattern filesize limit: CH09_02_S15_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:53,846] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: CH09_02_S15_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:53,847] multiqc [DEBUG ] File ignored by nanostat because it exceeded search pattern filesize limit: CH09_02_S15_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:53,847] multiqc [DEBUG ] File ignored by lima/summary because it exceeded search pattern filesize limit: CH09_02_S15_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:53,850] multiqc [DEBUG ] File ignored by vep/vep_html because it exceeded search pattern filesize limit: CH09_02_S15_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:53,850] multiqc [DEBUG ] File ignored by vep/vep_txt because it exceeded search pattern filesize limit: CH09_02_S15_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:53,850] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: CH09_02_S15_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:53,850] multiqc [DEBUG ] File ignored by rockhopper because it exceeded search pattern filesize limit: CH09_02_S15_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:53,850] multiqc [DEBUG ] File ignored by rseqc/bam_stat because it exceeded search pattern filesize limit: CH09_02_S15_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:53,850] multiqc [DEBUG ] File ignored by rseqc/junction_annotation because it exceeded search pattern filesize limit: CH09_02_S15_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:53,850] multiqc [DEBUG ] File ignored by rseqc/read_distribution because it exceeded search pattern filesize limit: CH09_02_S15_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:53,850] multiqc [DEBUG ] File ignored by rseqc/infer_experiment because it exceeded search pattern filesize limit: CH09_02_S15_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:53,856] multiqc [DEBUG ] File ignored by stacks/sumstats because it exceeded search pattern filesize limit: CH09_02_S15_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:54,144] multiqc [DEBUG ] File ignored by ccs/v4 because it exceeded search pattern filesize limit: CH10_11_S20_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:54,146] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: CH10_11_S20_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:54,146] multiqc [DEBUG ] File ignored by nanostat because it exceeded search pattern filesize limit: CH10_11_S20_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:54,147] multiqc [DEBUG ] File ignored by lima/summary because it exceeded search pattern filesize limit: CH10_11_S20_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:54,150] multiqc [DEBUG ] File ignored by vep/vep_html because it exceeded search pattern filesize limit: CH10_11_S20_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:54,150] multiqc [DEBUG ] File ignored by vep/vep_txt because it exceeded search pattern filesize limit: CH10_11_S20_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:54,150] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: CH10_11_S20_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:54,150] multiqc [DEBUG ] File ignored by rockhopper because it exceeded search pattern filesize limit: CH10_11_S20_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:54,150] multiqc [DEBUG ] File ignored by rseqc/bam_stat because it exceeded search pattern filesize limit: CH10_11_S20_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:54,150] multiqc [DEBUG ] File ignored by rseqc/junction_annotation because it exceeded search pattern filesize limit: CH10_11_S20_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:54,150] multiqc [DEBUG ] File ignored by rseqc/read_distribution because it exceeded search pattern filesize limit: CH10_11_S20_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:54,150] multiqc [DEBUG ] File ignored by rseqc/infer_experiment because it exceeded search pattern filesize limit: CH10_11_S20_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:54,156] multiqc [DEBUG ] File ignored by stacks/sumstats because it exceeded search pattern filesize limit: CH10_11_S20_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:54,437] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: CH03_33_S7_R1_bismark_bt2_pe.deduplicated.bam [2023-04-25 14:09:54,438] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: CH01_22_S3_R1_bismark_bt2_pe.bam [2023-04-25 14:09:54,448] multiqc [DEBUG ] File ignored by ccs/v4 because it exceeded search pattern filesize limit: CH01_06_S1_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:54,450] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: CH01_06_S1_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:54,451] multiqc [DEBUG ] File ignored by nanostat because it exceeded search pattern filesize limit: CH01_06_S1_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:54,451] multiqc [DEBUG ] File ignored by lima/summary because it exceeded search pattern filesize limit: CH01_06_S1_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:54,454] multiqc [DEBUG ] File ignored by vep/vep_html because it exceeded search pattern filesize limit: CH01_06_S1_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:54,454] multiqc [DEBUG ] File ignored by vep/vep_txt because it exceeded search pattern filesize limit: CH01_06_S1_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:54,454] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: CH01_06_S1_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:54,455] multiqc [DEBUG ] File ignored by rockhopper because it exceeded search pattern filesize limit: CH01_06_S1_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:54,455] multiqc [DEBUG ] File ignored by rseqc/bam_stat because it exceeded search pattern filesize limit: CH01_06_S1_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:54,455] multiqc [DEBUG ] File ignored by rseqc/junction_annotation because it exceeded search pattern filesize limit: CH01_06_S1_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:54,455] multiqc [DEBUG ] File ignored by rseqc/read_distribution because it exceeded search pattern filesize limit: CH01_06_S1_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:54,455] multiqc [DEBUG ] File ignored by rseqc/infer_experiment because it exceeded search pattern filesize limit: CH01_06_S1_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:54,461] multiqc [DEBUG ] File ignored by stacks/sumstats because it exceeded search pattern filesize limit: CH01_06_S1_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:54,740] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: CH07_24_S14_R1_bismark_bt2_pe.deduplicated.bam [2023-04-25 14:09:54,741] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: CH03_33_S7_R1_bismark_bt2_pe.bam [2023-04-25 14:09:54,741] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: CH03_15_S6_R1_bismark_bt2_pe.deduplicated.bam [2023-04-25 14:09:54,741] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: CH09_28_S17_R1_bismark_bt2_pe.bam [2023-04-25 14:09:54,744] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: CH05_24_S11_R1_bismark_bt2_pe.bam [2023-04-25 14:09:54,745] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: CH07_11_S13_R1_bismark_bt2_pe.deduplicated.bam [2023-04-25 14:09:54,745] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: CH01_14_S2_R1_bismark_bt2_pe.deduplicated.bam [2023-04-25 14:09:54,746] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: CH09_13_S16_R1_bismark_bt2_pe.bam [2023-04-25 14:09:54,757] multiqc [DEBUG ] File ignored by ccs/v4 because it exceeded search pattern filesize limit: bismark_summary_report.html [2023-04-25 14:09:54,759] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: bismark_summary_report.html [2023-04-25 14:09:54,759] multiqc [DEBUG ] File ignored by nanostat because it exceeded search pattern filesize limit: bismark_summary_report.html [2023-04-25 14:09:54,759] multiqc [DEBUG ] File ignored by lima/summary because it exceeded search pattern filesize limit: bismark_summary_report.html [2023-04-25 14:09:54,767] multiqc [DEBUG ] File ignored by vep/vep_html because it exceeded search pattern filesize limit: bismark_summary_report.html [2023-04-25 14:09:54,767] multiqc [DEBUG ] File ignored by vep/vep_txt because it exceeded search pattern filesize limit: bismark_summary_report.html [2023-04-25 14:09:54,767] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: bismark_summary_report.html [2023-04-25 14:09:54,767] multiqc [DEBUG ] File ignored by rockhopper because it exceeded search pattern filesize limit: bismark_summary_report.html [2023-04-25 14:09:54,768] multiqc [DEBUG ] File ignored by rseqc/bam_stat because it exceeded search pattern filesize limit: bismark_summary_report.html [2023-04-25 14:09:54,768] multiqc [DEBUG ] File ignored by rseqc/junction_annotation because it exceeded search pattern filesize limit: bismark_summary_report.html [2023-04-25 14:09:54,768] multiqc [DEBUG ] File ignored by rseqc/read_distribution because it exceeded search pattern filesize limit: bismark_summary_report.html [2023-04-25 14:09:54,768] multiqc [DEBUG ] File ignored by rseqc/infer_experiment because it exceeded search pattern filesize limit: bismark_summary_report.html [2023-04-25 14:09:54,773] multiqc [DEBUG ] File ignored by stacks/sumstats because it exceeded search pattern filesize limit: bismark_summary_report.html [2023-04-25 14:09:55,048] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: CH09_02_S15_R1_bismark_bt2_pe.deduplicated.bam [2023-04-25 14:09:55,059] multiqc [DEBUG ] File ignored by ccs/v4 because it exceeded search pattern filesize limit: CH09_13_S16_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:55,061] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: CH09_13_S16_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:55,061] multiqc [DEBUG ] File ignored by nanostat because it exceeded search pattern filesize limit: CH09_13_S16_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:55,061] multiqc [DEBUG ] File ignored by lima/summary because it exceeded search pattern filesize limit: CH09_13_S16_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:55,064] multiqc [DEBUG ] File ignored by vep/vep_html because it exceeded search pattern filesize limit: CH09_13_S16_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:55,064] multiqc [DEBUG ] File ignored by vep/vep_txt because it exceeded search pattern filesize limit: CH09_13_S16_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:55,065] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: CH09_13_S16_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:55,065] multiqc [DEBUG ] File ignored by rockhopper because it exceeded search pattern filesize limit: CH09_13_S16_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:55,065] multiqc [DEBUG ] File ignored by rseqc/bam_stat because it exceeded search pattern filesize limit: CH09_13_S16_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:55,065] multiqc [DEBUG ] File ignored by rseqc/junction_annotation because it exceeded search pattern filesize limit: CH09_13_S16_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:55,065] multiqc [DEBUG ] File ignored by rseqc/read_distribution because it exceeded search pattern filesize limit: CH09_13_S16_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:55,065] multiqc [DEBUG ] File ignored by rseqc/infer_experiment because it exceeded search pattern filesize limit: CH09_13_S16_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:55,071] multiqc [DEBUG ] File ignored by stacks/sumstats because it exceeded search pattern filesize limit: CH09_13_S16_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:55,350] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: CH03_15_S6_R1_bismark_bt2_pe.bam [2023-04-25 14:09:55,351] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: CH01_06_S1_R1_bismark_bt2_pe.deduplicated.bam [2023-04-25 14:09:55,353] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: CH10_08_S19_R1_bismark_bt2_pe.deduplicated.bam [2023-04-25 14:09:55,363] multiqc [DEBUG ] File ignored by ccs/v4 because it exceeded search pattern filesize limit: CH10_08_S19_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:55,365] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: CH10_08_S19_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:55,365] multiqc [DEBUG ] File ignored by nanostat because it exceeded search pattern filesize limit: CH10_08_S19_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:55,365] multiqc [DEBUG ] File ignored by lima/summary because it exceeded search pattern filesize limit: CH10_08_S19_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:55,368] multiqc [DEBUG ] File ignored by vep/vep_html because it exceeded search pattern filesize limit: CH10_08_S19_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:55,368] multiqc [DEBUG ] File ignored by vep/vep_txt because it exceeded search pattern filesize limit: CH10_08_S19_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:55,368] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: CH10_08_S19_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:55,368] multiqc [DEBUG ] File ignored by rockhopper because it exceeded search pattern filesize limit: CH10_08_S19_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:55,368] multiqc [DEBUG ] File ignored by rseqc/bam_stat because it exceeded search pattern filesize limit: CH10_08_S19_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:55,368] multiqc [DEBUG ] File ignored by rseqc/junction_annotation because it exceeded search pattern filesize limit: CH10_08_S19_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:55,368] multiqc [DEBUG ] File ignored by rseqc/read_distribution because it exceeded search pattern filesize limit: CH10_08_S19_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:55,368] multiqc [DEBUG ] File ignored by rseqc/infer_experiment because it exceeded search pattern filesize limit: CH10_08_S19_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:55,374] multiqc [DEBUG ] File ignored by stacks/sumstats because it exceeded search pattern filesize limit: CH10_08_S19_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:55,659] multiqc [DEBUG ] File ignored by ccs/v4 because it exceeded search pattern filesize limit: bismark_summary_report.txt [2023-04-25 14:09:55,662] multiqc [DEBUG ] File ignored by lima/summary because it exceeded search pattern filesize limit: bismark_summary_report.txt [2023-04-25 14:09:55,666] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: bismark_summary_report.txt [2023-04-25 14:09:55,685] multiqc [DEBUG ] File ignored by ccs/v4 because it exceeded search pattern filesize limit: CH07_06_S12_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:55,687] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: CH07_06_S12_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:55,688] multiqc [DEBUG ] File ignored by nanostat because it exceeded search pattern filesize limit: CH07_06_S12_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:55,688] multiqc [DEBUG ] File ignored by lima/summary because it exceeded search pattern filesize limit: CH07_06_S12_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:55,691] multiqc [DEBUG ] File ignored by vep/vep_html because it exceeded search pattern filesize limit: CH07_06_S12_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:55,691] multiqc [DEBUG ] File ignored by vep/vep_txt because it exceeded search pattern filesize limit: CH07_06_S12_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:55,691] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: CH07_06_S12_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:55,691] multiqc [DEBUG ] File ignored by rockhopper because it exceeded search pattern filesize limit: CH07_06_S12_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:55,691] multiqc [DEBUG ] File ignored by rseqc/bam_stat because it exceeded search pattern filesize limit: CH07_06_S12_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:55,691] multiqc [DEBUG ] File ignored by rseqc/junction_annotation because it exceeded search pattern filesize limit: CH07_06_S12_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:55,691] multiqc [DEBUG ] File ignored by rseqc/read_distribution because it exceeded search pattern filesize limit: CH07_06_S12_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:55,691] multiqc [DEBUG ] File ignored by rseqc/infer_experiment because it exceeded search pattern filesize limit: CH07_06_S12_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:55,697] multiqc [DEBUG ] File ignored by stacks/sumstats because it exceeded search pattern filesize limit: CH07_06_S12_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:55,978] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: CH05_01_S8_R1_bismark_bt2_pe.bam [2023-04-25 14:09:55,987] multiqc [DEBUG ] File ignored by ccs/v4 because it exceeded search pattern filesize limit: CH03_15_S6_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:55,989] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: CH03_15_S6_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:55,989] multiqc [DEBUG ] File ignored by nanostat because it exceeded search pattern filesize limit: CH03_15_S6_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:55,989] multiqc [DEBUG ] File ignored by lima/summary because it exceeded search pattern filesize limit: CH03_15_S6_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:55,993] multiqc [DEBUG ] File ignored by vep/vep_html because it exceeded search pattern filesize limit: CH03_15_S6_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:55,993] multiqc [DEBUG ] File ignored by vep/vep_txt because it exceeded search pattern filesize limit: CH03_15_S6_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:55,993] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: CH03_15_S6_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:55,993] multiqc [DEBUG ] File ignored by rockhopper because it exceeded search pattern filesize limit: CH03_15_S6_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:55,993] multiqc [DEBUG ] File ignored by rseqc/bam_stat because it exceeded search pattern filesize limit: CH03_15_S6_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:55,993] multiqc [DEBUG ] File ignored by rseqc/junction_annotation because it exceeded search pattern filesize limit: CH03_15_S6_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:55,993] multiqc [DEBUG ] File ignored by rseqc/read_distribution because it exceeded search pattern filesize limit: CH03_15_S6_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:55,993] multiqc [DEBUG ] File ignored by rseqc/infer_experiment because it exceeded search pattern filesize limit: CH03_15_S6_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:55,999] multiqc [DEBUG ] File ignored by stacks/sumstats because it exceeded search pattern filesize limit: CH03_15_S6_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:56,279] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: CH07_11_S13_R1_bismark_bt2_pe.bam [2023-04-25 14:09:56,289] multiqc [DEBUG ] File ignored by ccs/v4 because it exceeded search pattern filesize limit: CH05_06_S9_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:56,291] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: CH05_06_S9_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:56,291] multiqc [DEBUG ] File ignored by nanostat because it exceeded search pattern filesize limit: CH05_06_S9_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:56,291] multiqc [DEBUG ] File ignored by lima/summary because it exceeded search pattern filesize limit: CH05_06_S9_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:56,294] multiqc [DEBUG ] File ignored by vep/vep_html because it exceeded search pattern filesize limit: CH05_06_S9_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:56,295] multiqc [DEBUG ] File ignored by vep/vep_txt because it exceeded search pattern filesize limit: CH05_06_S9_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:56,295] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: CH05_06_S9_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:56,295] multiqc [DEBUG ] File ignored by rockhopper because it exceeded search pattern filesize limit: CH05_06_S9_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:56,295] multiqc [DEBUG ] File ignored by rseqc/bam_stat because it exceeded search pattern filesize limit: CH05_06_S9_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:56,295] multiqc [DEBUG ] File ignored by rseqc/junction_annotation because it exceeded search pattern filesize limit: CH05_06_S9_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:56,295] multiqc [DEBUG ] File ignored by rseqc/read_distribution because it exceeded search pattern filesize limit: CH05_06_S9_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:56,295] multiqc [DEBUG ] File ignored by rseqc/infer_experiment because it exceeded search pattern filesize limit: CH05_06_S9_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:56,301] multiqc [DEBUG ] File ignored by stacks/sumstats because it exceeded search pattern filesize limit: CH05_06_S9_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:56,579] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: CH10_11_S20_R1_bismark_bt2_pe.bam [2023-04-25 14:09:56,590] multiqc [DEBUG ] File ignored by ccs/v4 because it exceeded search pattern filesize limit: CH07_24_S14_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:56,592] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: CH07_24_S14_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:56,592] multiqc [DEBUG ] File ignored by nanostat because it exceeded search pattern filesize limit: CH07_24_S14_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:56,592] multiqc [DEBUG ] File ignored by lima/summary because it exceeded search pattern filesize limit: CH07_24_S14_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:56,596] multiqc [DEBUG ] File ignored by vep/vep_html because it exceeded search pattern filesize limit: CH07_24_S14_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:56,596] multiqc [DEBUG ] File ignored by vep/vep_txt because it exceeded search pattern filesize limit: CH07_24_S14_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:56,596] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: CH07_24_S14_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:56,596] multiqc [DEBUG ] File ignored by rockhopper because it exceeded search pattern filesize limit: CH07_24_S14_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:56,596] multiqc [DEBUG ] File ignored by rseqc/bam_stat because it exceeded search pattern filesize limit: CH07_24_S14_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:56,596] multiqc [DEBUG ] File ignored by rseqc/junction_annotation because it exceeded search pattern filesize limit: CH07_24_S14_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:56,596] multiqc [DEBUG ] File ignored by rseqc/read_distribution because it exceeded search pattern filesize limit: CH07_24_S14_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:56,596] multiqc [DEBUG ] File ignored by rseqc/infer_experiment because it exceeded search pattern filesize limit: CH07_24_S14_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:56,602] multiqc [DEBUG ] File ignored by stacks/sumstats because it exceeded search pattern filesize limit: CH07_24_S14_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:56,892] multiqc [DEBUG ] File ignored by ccs/v4 because it exceeded search pattern filesize limit: CH10_01_S18_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:56,894] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: CH10_01_S18_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:56,895] multiqc [DEBUG ] File ignored by nanostat because it exceeded search pattern filesize limit: CH10_01_S18_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:56,895] multiqc [DEBUG ] File ignored by lima/summary because it exceeded search pattern filesize limit: CH10_01_S18_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:56,898] multiqc [DEBUG ] File ignored by vep/vep_html because it exceeded search pattern filesize limit: CH10_01_S18_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:56,898] multiqc [DEBUG ] File ignored by vep/vep_txt because it exceeded search pattern filesize limit: CH10_01_S18_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:56,898] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: CH10_01_S18_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:56,898] multiqc [DEBUG ] File ignored by rockhopper because it exceeded search pattern filesize limit: CH10_01_S18_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:56,898] multiqc [DEBUG ] File ignored by rseqc/bam_stat because it exceeded search pattern filesize limit: CH10_01_S18_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:56,898] multiqc [DEBUG ] File ignored by rseqc/junction_annotation because it exceeded search pattern filesize limit: CH10_01_S18_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:56,898] multiqc [DEBUG ] File ignored by rseqc/read_distribution because it exceeded search pattern filesize limit: CH10_01_S18_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:56,898] multiqc [DEBUG ] File ignored by rseqc/infer_experiment because it exceeded search pattern filesize limit: CH10_01_S18_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:56,904] multiqc [DEBUG ] File ignored by stacks/sumstats because it exceeded search pattern filesize limit: CH10_01_S18_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:57,183] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: CH09_13_S16_R1_bismark_bt2_pe.deduplicated.bam [2023-04-25 14:09:57,183] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: CH07_06_S12_R1_bismark_bt2_pe.deduplicated.bam [2023-04-25 14:09:57,193] multiqc [DEBUG ] File ignored by ccs/v4 because it exceeded search pattern filesize limit: CH07_11_S13_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:57,195] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: CH07_11_S13_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:57,196] multiqc [DEBUG ] File ignored by nanostat because it exceeded search pattern filesize limit: CH07_11_S13_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:57,196] multiqc [DEBUG ] File ignored by lima/summary because it exceeded search pattern filesize limit: CH07_11_S13_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:57,199] multiqc [DEBUG ] File ignored by vep/vep_html because it exceeded search pattern filesize limit: CH07_11_S13_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:57,199] multiqc [DEBUG ] File ignored by vep/vep_txt because it exceeded search pattern filesize limit: CH07_11_S13_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:57,199] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: CH07_11_S13_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:57,199] multiqc [DEBUG ] File ignored by rockhopper because it exceeded search pattern filesize limit: CH07_11_S13_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:57,199] multiqc [DEBUG ] File ignored by rseqc/bam_stat because it exceeded search pattern filesize limit: CH07_11_S13_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:57,199] multiqc [DEBUG ] File ignored by rseqc/junction_annotation because it exceeded search pattern filesize limit: CH07_11_S13_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:57,199] multiqc [DEBUG ] File ignored by rseqc/read_distribution because it exceeded search pattern filesize limit: CH07_11_S13_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:57,199] multiqc [DEBUG ] File ignored by rseqc/infer_experiment because it exceeded search pattern filesize limit: CH07_11_S13_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:57,205] multiqc [DEBUG ] File ignored by stacks/sumstats because it exceeded search pattern filesize limit: CH07_11_S13_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:57,484] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: CH03_04_S5_R1_bismark_bt2_pe.bam [2023-04-25 14:09:57,485] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: CH01_38_S4_R1_bismark_bt2_pe.bam [2023-04-25 14:09:57,486] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: CH05_21_S10_R1_bismark_bt2_pe.deduplicated.bam [2023-04-25 14:09:57,486] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: CH05_06_S9_R1_bismark_bt2_pe.bam [2023-04-25 14:09:57,497] multiqc [DEBUG ] File ignored by ccs/v4 because it exceeded search pattern filesize limit: CH03_33_S7_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:57,498] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: CH03_33_S7_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:57,499] multiqc [DEBUG ] File ignored by nanostat because it exceeded search pattern filesize limit: CH03_33_S7_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:57,499] multiqc [DEBUG ] File ignored by lima/summary because it exceeded search pattern filesize limit: CH03_33_S7_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:57,502] multiqc [DEBUG ] File ignored by vep/vep_html because it exceeded search pattern filesize limit: CH03_33_S7_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:57,502] multiqc [DEBUG ] File ignored by vep/vep_txt because it exceeded search pattern filesize limit: CH03_33_S7_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:57,502] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: CH03_33_S7_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:57,502] multiqc [DEBUG ] File ignored by rockhopper because it exceeded search pattern filesize limit: CH03_33_S7_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:57,502] multiqc [DEBUG ] File ignored by rseqc/bam_stat because it exceeded search pattern filesize limit: CH03_33_S7_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:57,502] multiqc [DEBUG ] File ignored by rseqc/junction_annotation because it exceeded search pattern filesize limit: CH03_33_S7_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:57,502] multiqc [DEBUG ] File ignored by rseqc/read_distribution because it exceeded search pattern filesize limit: CH03_33_S7_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:57,502] multiqc [DEBUG ] File ignored by rseqc/infer_experiment because it exceeded search pattern filesize limit: CH03_33_S7_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:57,508] multiqc [DEBUG ] File ignored by stacks/sumstats because it exceeded search pattern filesize limit: CH03_33_S7_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:57,798] multiqc [DEBUG ] File ignored by ccs/v4 because it exceeded search pattern filesize limit: CH03_04_S5_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:57,800] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: CH03_04_S5_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:57,800] multiqc [DEBUG ] File ignored by nanostat because it exceeded search pattern filesize limit: CH03_04_S5_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:57,800] multiqc [DEBUG ] File ignored by lima/summary because it exceeded search pattern filesize limit: CH03_04_S5_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:57,804] multiqc [DEBUG ] File ignored by vep/vep_html because it exceeded search pattern filesize limit: CH03_04_S5_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:57,804] multiqc [DEBUG ] File ignored by vep/vep_txt because it exceeded search pattern filesize limit: CH03_04_S5_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:57,804] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: CH03_04_S5_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:57,804] multiqc [DEBUG ] File ignored by rockhopper because it exceeded search pattern filesize limit: CH03_04_S5_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:57,804] multiqc [DEBUG ] File ignored by rseqc/bam_stat because it exceeded search pattern filesize limit: CH03_04_S5_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:57,804] multiqc [DEBUG ] File ignored by rseqc/junction_annotation because it exceeded search pattern filesize limit: CH03_04_S5_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:57,804] multiqc [DEBUG ] File ignored by rseqc/read_distribution because it exceeded search pattern filesize limit: CH03_04_S5_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:57,804] multiqc [DEBUG ] File ignored by rseqc/infer_experiment because it exceeded search pattern filesize limit: CH03_04_S5_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:57,810] multiqc [DEBUG ] File ignored by stacks/sumstats because it exceeded search pattern filesize limit: CH03_04_S5_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:58,089] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: CH07_24_S14_R1_bismark_bt2_pe.bam [2023-04-25 14:09:58,090] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: CH01_22_S3_R1_bismark_bt2_pe.deduplicated.bam [2023-04-25 14:09:58,092] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: CH05_06_S9_R1_bismark_bt2_pe.deduplicated.bam [2023-04-25 14:09:58,103] multiqc [DEBUG ] File ignored by ccs/v4 because it exceeded search pattern filesize limit: CH01_14_S2_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:58,105] multiqc [DEBUG ] File ignored by hicexplorer because it exceeded search pattern filesize limit: CH01_14_S2_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:58,105] multiqc [DEBUG ] File ignored by nanostat because it exceeded search pattern filesize limit: CH01_14_S2_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:58,105] multiqc [DEBUG ] File ignored by lima/summary because it exceeded search pattern filesize limit: CH01_14_S2_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:58,109] multiqc [DEBUG ] File ignored by vep/vep_html because it exceeded search pattern filesize limit: CH01_14_S2_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:58,109] multiqc [DEBUG ] File ignored by vep/vep_txt because it exceeded search pattern filesize limit: CH01_14_S2_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:58,109] multiqc [DEBUG ] File ignored by longranger/invocation because it exceeded search pattern filesize limit: CH01_14_S2_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:58,109] multiqc [DEBUG ] File ignored by rockhopper because it exceeded search pattern filesize limit: CH01_14_S2_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:58,109] multiqc [DEBUG ] File ignored by rseqc/bam_stat because it exceeded search pattern filesize limit: CH01_14_S2_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:58,109] multiqc [DEBUG ] File ignored by rseqc/junction_annotation because it exceeded search pattern filesize limit: CH01_14_S2_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:58,109] multiqc [DEBUG ] File ignored by rseqc/read_distribution because it exceeded search pattern filesize limit: CH01_14_S2_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:58,109] multiqc [DEBUG ] File ignored by rseqc/infer_experiment because it exceeded search pattern filesize limit: CH01_14_S2_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:58,115] multiqc [DEBUG ] File ignored by stacks/sumstats because it exceeded search pattern filesize limit: CH01_14_S2_R1_bismark_bt2_PE_report.html [2023-04-25 14:09:58,398] multiqc [DEBUG ] Ignoring file as matched an ignore pattern: CH09_02_S15_R1_bismark_bt2_pe.bam [2023-04-25 14:10:00,810] multiqc.plots.bargraph [DEBUG ] Using matplotlib version 3.3.4 [2023-04-25 14:10:00,811] multiqc.plots.linegraph [DEBUG ] Using matplotlib version 3.3.4 [2023-04-25 14:10:00,813] multiqc [DEBUG ] No samples found: custom_content [2023-04-25 14:10:00,833] multiqc [DEBUG ] No samples found: ccs [2023-04-25 14:10:00,847] multiqc [DEBUG ] No samples found: ngsderive [2023-04-25 14:10:00,877] multiqc [DEBUG ] No samples found: purple [2023-04-25 14:10:00,882] multiqc [DEBUG ] No samples found: conpair [2023-04-25 14:10:00,900] multiqc [DEBUG ] No samples found: lima [2023-04-25 14:10:00,918] multiqc [DEBUG ] No samples found: peddy [2023-04-25 14:10:00,941] multiqc [DEBUG ] No samples found: somalier [2023-04-25 14:10:00,970] multiqc [DEBUG ] No samples found: methylQA [2023-04-25 14:10:01,023] multiqc.modules.mosdepth.mosdepth [DEBUG ] include_contigs: [] [2023-04-25 14:10:01,023] multiqc.modules.mosdepth.mosdepth [DEBUG ] exclude_contigs: [] [2023-04-25 14:10:01,023] multiqc [DEBUG ] No samples found: mosdepth [2023-04-25 14:10:01,046] multiqc [DEBUG ] No samples found: phantompeakqualtools [2023-04-25 14:10:01,056] multiqc [DEBUG ] No samples found: qualimap [2023-04-25 14:10:01,075] multiqc [DEBUG ] No samples found: preseq [2023-04-25 14:10:01,092] multiqc [DEBUG ] No samples found: quast [2023-04-25 14:10:01,108] multiqc [DEBUG ] No samples found: qorts [2023-04-25 14:10:01,129] multiqc [DEBUG ] No samples found: rna_seqc [2023-04-25 14:10:01,149] multiqc [DEBUG ] No samples found: rockhopper [2023-04-25 14:10:01,188] multiqc [DEBUG ] No samples found: rsem [2023-04-25 14:10:01,220] multiqc [DEBUG ] No samples found: rseqc [2023-04-25 14:10:01,248] multiqc [DEBUG ] No samples found: busco [2023-04-25 14:10:01,299] multiqc [DEBUG ] No samples found: bustools [2023-04-25 14:10:01,304] multiqc [DEBUG ] No samples found: goleft_indexcov [2023-04-25 14:10:01,340] multiqc [DEBUG ] No samples found: gffcompare [2023-04-25 14:10:01,363] multiqc [DEBUG ] No samples found: disambiguate [2023-04-25 14:10:01,389] multiqc [DEBUG ] No samples found: supernova [2023-04-25 14:10:01,440] multiqc [DEBUG ] No samples found: deeptools [2023-04-25 14:10:01,478] multiqc [DEBUG ] No samples found: sargasso [2023-04-25 14:10:01,505] multiqc [DEBUG ] No samples found: verifybamid [2023-04-25 14:10:01,524] multiqc [DEBUG ] No samples found: mirtrace [2023-04-25 14:10:01,540] multiqc [DEBUG ] No samples found: happy [2023-04-25 14:10:01,560] multiqc [DEBUG ] No samples found: mirtop [2023-04-25 14:10:01,612] multiqc [DEBUG ] No samples found: sambamba [2023-04-25 14:10:01,631] multiqc [DEBUG ] No samples found: homer [2023-04-25 14:10:01,657] multiqc [DEBUG ] No samples found: hops [2023-04-25 14:10:01,672] multiqc [DEBUG ] No samples found: macs2 [2023-04-25 14:10:01,687] multiqc [DEBUG ] No samples found: theta2 [2023-04-25 14:10:01,725] multiqc [DEBUG ] No samples found: snpeff [2023-04-25 14:10:01,748] multiqc [DEBUG ] No samples found: gatk [2023-04-25 14:10:01,760] multiqc [DEBUG ] No samples found: htseq [2023-04-25 14:10:01,778] multiqc [DEBUG ] No samples found: bcftools [2023-04-25 14:10:01,809] multiqc [DEBUG ] No samples found: featureCounts [2023-04-25 14:10:01,850] multiqc [DEBUG ] No samples found: fgbio [2023-04-25 14:10:01,939] multiqc [DEBUG ] No samples found: dragen [2023-04-25 14:10:01,953] multiqc [DEBUG ] No samples found: dedup [2023-04-25 14:10:01,966] multiqc [DEBUG ] No samples found: damageprofiler [2023-04-25 14:10:02,070] multiqc [DEBUG ] No samples found: biobambam2 [2023-04-25 14:10:02,088] multiqc [DEBUG ] No samples found: jcvi [2023-04-25 14:10:02,107] multiqc [DEBUG ] No samples found: mtnucratio [2023-04-25 14:10:02,111] multiqc [DEBUG ] No samples found: picard [2023-04-25 14:10:02,139] multiqc [DEBUG ] No samples found: vep [2023-04-25 14:10:02,173] multiqc [DEBUG ] No samples found: sentieon [2023-04-25 14:10:02,193] multiqc [DEBUG ] No samples found: prokka [2023-04-25 14:10:02,219] multiqc [DEBUG ] No samples found: qc3C [2023-04-25 14:10:02,234] multiqc [DEBUG ] No samples found: nanostat [2023-04-25 14:10:02,250] multiqc [DEBUG ] No samples found: samblaster [2023-04-25 14:10:02,287] multiqc [DEBUG ] No samples found: samtools [2023-04-25 14:10:02,291] multiqc [DEBUG ] No samples found: sexdeterrmine [2023-04-25 14:10:02,310] multiqc [DEBUG ] No samples found: eigenstratdatabasetools [2023-04-25 14:10:02,325] multiqc [DEBUG ] No samples found: bamtools [2023-04-25 14:10:02,329] multiqc [DEBUG ] No samples found: jellyfish [2023-04-25 14:10:02,356] multiqc [DEBUG ] No samples found: vcftools [2023-04-25 14:10:02,376] multiqc [DEBUG ] No samples found: longranger [2023-04-25 14:10:02,387] multiqc [DEBUG ] No samples found: stacks [2023-04-25 14:10:02,434] multiqc [DEBUG ] No samples found: varscan2 [2023-04-25 14:10:02,462] multiqc [DEBUG ] No samples found: snippy [2023-04-25 14:10:02,524] multiqc [DEBUG ] No samples found: bbmap [2023-04-25 14:10:02,571] multiqc.modules.bismark.bismark [DEBUG ] Duplicate alignment sample log found! Overwriting: CH01_38_S4_R1 [2023-04-25 14:10:02,571] multiqc.modules.bismark.bismark [DEBUG ] Duplicate alignment sample log found! Overwriting: CH05_24_S11_R1 [2023-04-25 14:10:02,572] multiqc.modules.bismark.bismark [DEBUG ] Duplicate alignment sample log found! Overwriting: CH05_06_S9_R1 [2023-04-25 14:10:02,572] multiqc.modules.bismark.bismark [DEBUG ] Duplicate alignment sample log found! Overwriting: CH10_08_S19_R1 [2023-04-25 14:10:02,572] multiqc.modules.bismark.bismark [DEBUG ] Duplicate alignment sample log found! Overwriting: CH05_01_S8_R1 [2023-04-25 14:10:02,573] multiqc.modules.bismark.bismark [DEBUG ] Duplicate alignment sample log found! Overwriting: CH05_21_S10_R1 [2023-04-25 14:10:02,573] multiqc.modules.bismark.bismark [DEBUG ] Duplicate alignment sample log found! Overwriting: CH03_33_S7_R1 [2023-04-25 14:10:02,573] multiqc.modules.bismark.bismark [DEBUG ] Duplicate alignment sample log found! Overwriting: CH10_01_S18_R1 [2023-04-25 14:10:02,573] multiqc.modules.bismark.bismark [DEBUG ] Duplicate alignment sample log found! Overwriting: CH01_22_S3_R1 [2023-04-25 14:10:02,574] multiqc.modules.bismark.bismark [DEBUG ] Duplicate alignment sample log found! Overwriting: CH07_24_S14_R1 [2023-04-25 14:10:02,574] multiqc.modules.bismark.bismark [DEBUG ] Duplicate alignment sample log found! Overwriting: CH09_13_S16_R1 [2023-04-25 14:10:02,574] multiqc.modules.bismark.bismark [DEBUG ] Duplicate alignment sample log found! Overwriting: CH09_28_S17_R1 [2023-04-25 14:10:02,575] multiqc.modules.bismark.bismark [DEBUG ] Duplicate alignment sample log found! Overwriting: CH01_06_S1_R1 [2023-04-25 14:10:02,575] multiqc.modules.bismark.bismark [DEBUG ] Duplicate alignment sample log found! Overwriting: CH01_14_S2_R1 [2023-04-25 14:10:02,575] multiqc.modules.bismark.bismark [DEBUG ] Duplicate alignment sample log found! Overwriting: CH07_06_S12_R1 [2023-04-25 14:10:02,576] multiqc.modules.bismark.bismark [DEBUG ] Duplicate alignment sample log found! Overwriting: CH10_11_S20_R1 [2023-04-25 14:10:02,576] multiqc.modules.bismark.bismark [DEBUG ] Duplicate alignment sample log found! Overwriting: CH07_11_S13_R1 [2023-04-25 14:10:02,576] multiqc.modules.bismark.bismark [DEBUG ] Duplicate alignment sample log found! Overwriting: CH03_15_S6_R1 [2023-04-25 14:10:02,576] multiqc.modules.bismark.bismark [DEBUG ] Duplicate alignment sample log found! Overwriting: CH03_04_S5_R1 [2023-04-25 14:10:02,577] multiqc.modules.bismark.bismark [DEBUG ] Duplicate alignment sample log found! Overwriting: CH09_02_S15_R1 [2023-04-25 14:10:02,583] multiqc.modules.bismark.bismark [DEBUG ] Duplicate deduplication sample log found! Overwriting: CH10_01_S18_R1 [2023-04-25 14:10:02,583] multiqc.modules.bismark.bismark [DEBUG ] Duplicate deduplication sample log found! Overwriting: CH10_11_S20_R1 [2023-04-25 14:10:02,584] multiqc.modules.bismark.bismark [DEBUG ] Duplicate deduplication sample log found! Overwriting: CH01_22_S3_R1 [2023-04-25 14:10:02,584] multiqc.modules.bismark.bismark [DEBUG ] Duplicate deduplication sample log found! Overwriting: CH01_06_S1_R1 [2023-04-25 14:10:02,584] multiqc.modules.bismark.bismark [DEBUG ] Duplicate deduplication sample log found! Overwriting: CH10_08_S19_R1 [2023-04-25 14:10:02,584] multiqc.modules.bismark.bismark [DEBUG ] Duplicate deduplication sample log found! Overwriting: CH03_04_S5_R1 [2023-04-25 14:10:02,585] multiqc.modules.bismark.bismark [DEBUG ] Duplicate deduplication sample log found! Overwriting: CH01_14_S2_R1 [2023-04-25 14:10:02,585] multiqc.modules.bismark.bismark [DEBUG ] Duplicate deduplication sample log found! Overwriting: CH03_15_S6_R1 [2023-04-25 14:10:02,585] multiqc.modules.bismark.bismark [DEBUG ] Duplicate deduplication sample log found! Overwriting: CH09_02_S15_R1 [2023-04-25 14:10:02,585] multiqc.modules.bismark.bismark [DEBUG ] Duplicate deduplication sample log found! Overwriting: CH05_21_S10_R1 [2023-04-25 14:10:02,585] multiqc.modules.bismark.bismark [DEBUG ] Duplicate deduplication sample log found! Overwriting: CH05_01_S8_R1 [2023-04-25 14:10:02,586] multiqc.modules.bismark.bismark [DEBUG ] Duplicate deduplication sample log found! Overwriting: CH03_33_S7_R1 [2023-04-25 14:10:02,586] multiqc.modules.bismark.bismark [DEBUG ] Duplicate deduplication sample log found! Overwriting: CH07_11_S13_R1 [2023-04-25 14:10:02,586] multiqc.modules.bismark.bismark [DEBUG ] Duplicate deduplication sample log found! Overwriting: CH09_13_S16_R1 [2023-04-25 14:10:02,586] multiqc.modules.bismark.bismark [DEBUG ] Duplicate deduplication sample log found! Overwriting: CH05_24_S11_R1 [2023-04-25 14:10:02,587] multiqc.modules.bismark.bismark [DEBUG ] Duplicate deduplication sample log found! Overwriting: CH07_06_S12_R1 [2023-04-25 14:10:02,587] multiqc.modules.bismark.bismark [DEBUG ] Duplicate deduplication sample log found! Overwriting: CH07_24_S14_R1 [2023-04-25 14:10:02,587] multiqc.modules.bismark.bismark [DEBUG ] Duplicate deduplication sample log found! Overwriting: CH05_06_S9_R1 [2023-04-25 14:10:02,587] multiqc.modules.bismark.bismark [DEBUG ] Duplicate deduplication sample log found! Overwriting: CH09_28_S17_R1 [2023-04-25 14:10:02,588] multiqc.modules.bismark.bismark [DEBUG ] Duplicate deduplication sample log found! Overwriting: CH01_38_S4_R1 [2023-04-25 14:10:02,593] multiqc.modules.bismark.bismark [DEBUG ] Duplicate methylation extraction sample log found! Overwriting: CH10_08_S19_R1 [2023-04-25 14:10:02,594] multiqc.modules.bismark.bismark [DEBUG ] Duplicate methylation extraction sample log found! Overwriting: CH03_15_S6_R1 [2023-04-25 14:10:02,594] multiqc.modules.bismark.bismark [DEBUG ] Duplicate methylation extraction sample log found! Overwriting: CH01_14_S2_R1 [2023-04-25 14:10:02,594] multiqc.modules.bismark.bismark [DEBUG ] Duplicate methylation extraction sample log found! Overwriting: CH05_21_S10_R1 [2023-04-25 14:10:02,594] multiqc.modules.bismark.bismark [DEBUG ] Duplicate methylation extraction sample log found! Overwriting: CH10_11_S20_R1 [2023-04-25 14:10:02,595] multiqc.modules.bismark.bismark [DEBUG ] Duplicate methylation extraction sample log found! Overwriting: CH01_06_S1_R1 [2023-04-25 14:10:02,595] multiqc.modules.bismark.bismark [DEBUG ] Duplicate methylation extraction sample log found! Overwriting: CH03_04_S5_R1 [2023-04-25 14:10:02,595] multiqc.modules.bismark.bismark [DEBUG ] Duplicate methylation extraction sample log found! Overwriting: CH05_01_S8_R1 [2023-04-25 14:10:02,595] multiqc.modules.bismark.bismark [DEBUG ] Duplicate methylation extraction sample log found! Overwriting: CH10_01_S18_R1 [2023-04-25 14:10:02,596] multiqc.modules.bismark.bismark [DEBUG ] Duplicate methylation extraction sample log found! Overwriting: CH05_06_S9_R1 [2023-04-25 14:10:02,596] multiqc.modules.bismark.bismark [DEBUG ] Duplicate methylation extraction sample log found! Overwriting: CH05_24_S11_R1 [2023-04-25 14:10:02,596] multiqc.modules.bismark.bismark [DEBUG ] Duplicate methylation extraction sample log found! Overwriting: CH03_33_S7_R1 [2023-04-25 14:10:02,597] multiqc.modules.bismark.bismark [DEBUG ] Duplicate methylation extraction sample log found! Overwriting: CH01_38_S4_R1 [2023-04-25 14:10:02,597] multiqc.modules.bismark.bismark [DEBUG ] Duplicate methylation extraction sample log found! Overwriting: CH09_28_S17_R1 [2023-04-25 14:10:02,597] multiqc.modules.bismark.bismark [DEBUG ] Duplicate methylation extraction sample log found! Overwriting: CH07_11_S13_R1 [2023-04-25 14:10:02,597] multiqc.modules.bismark.bismark [DEBUG ] Duplicate methylation extraction sample log found! Overwriting: CH07_24_S14_R1 [2023-04-25 14:10:02,598] multiqc.modules.bismark.bismark [DEBUG ] Duplicate methylation extraction sample log found! Overwriting: CH01_22_S3_R1 [2023-04-25 14:10:02,598] multiqc.modules.bismark.bismark [DEBUG ] Duplicate methylation extraction sample log found! Overwriting: CH09_13_S16_R1 [2023-04-25 14:10:02,598] multiqc.modules.bismark.bismark [DEBUG ] Duplicate methylation extraction sample log found! Overwriting: CH07_06_S12_R1 [2023-04-25 14:10:02,598] multiqc.modules.bismark.bismark [DEBUG ] Duplicate methylation extraction sample log found! Overwriting: CH09_02_S15_R1 [2023-04-25 14:10:02,665] multiqc.modules.bismark.bismark [INFO ] Found 20 alignment reports [2023-04-25 14:10:02,668] multiqc.modules.bismark.bismark [INFO ] Found 20 dedup reports [2023-04-25 14:10:02,669] multiqc.modules.bismark.bismark [INFO ] Found 20 methextract reports [2023-04-25 14:10:02,722] multiqc [DEBUG ] No samples found: biscuit [2023-04-25 14:10:02,753] multiqc [DEBUG ] No samples found: hicexplorer [2023-04-25 14:10:02,771] multiqc [DEBUG ] No samples found: hicup [2023-04-25 14:10:02,814] multiqc [DEBUG ] No samples found: hicpro [2023-04-25 14:10:02,837] multiqc [DEBUG ] No samples found: salmon [2023-04-25 14:10:02,862] multiqc [DEBUG ] No samples found: kallisto [2023-04-25 14:10:02,891] multiqc [DEBUG ] No samples found: slamdunk [2023-04-25 14:10:02,902] multiqc [DEBUG ] No samples found: star [2023-04-25 14:10:02,934] multiqc [DEBUG ] No samples found: hisat2 [2023-04-25 14:10:02,949] multiqc [DEBUG ] No samples found: tophat [2023-04-25 14:10:02,969] multiqc [DEBUG ] No samples found: bowtie2 [2023-04-25 14:10:03,039] multiqc [DEBUG ] No samples found: bowtie1 [2023-04-25 14:10:03,062] multiqc [DEBUG ] No samples found: snpsplit [2023-04-25 14:10:03,077] multiqc [DEBUG ] No samples found: odgi [2023-04-25 14:10:03,108] multiqc [DEBUG ] No samples found: pangolin [2023-04-25 14:10:03,122] multiqc [DEBUG ] No samples found: kat [2023-04-25 14:10:03,133] multiqc [DEBUG ] No samples found: leehom [2023-04-25 14:10:03,171] multiqc [DEBUG ] No samples found: adapterRemoval [2023-04-25 14:10:03,197] multiqc [DEBUG ] No samples found: clipandmerge [2023-04-25 14:10:03,215] multiqc [DEBUG ] No samples found: cutadapt [2023-04-25 14:10:03,247] multiqc [DEBUG ] No samples found: flexbar [2023-04-25 14:10:03,280] multiqc [DEBUG ] No samples found: kaiju [2023-04-25 14:10:03,285] multiqc [DEBUG ] No samples found: kraken [2023-04-25 14:10:03,304] multiqc [DEBUG ] No samples found: malt [2023-04-25 14:10:03,321] multiqc [DEBUG ] No samples found: trimmomatic [2023-04-25 14:10:03,337] multiqc [DEBUG ] No samples found: sickle [2023-04-25 14:10:03,353] multiqc [DEBUG ] No samples found: skewer [2023-04-25 14:10:03,384] multiqc [DEBUG ] No samples found: sortmerna [2023-04-25 14:10:03,406] multiqc [DEBUG ] No samples found: biobloomtools [2023-04-25 14:10:03,440] multiqc [DEBUG ] No samples found: fastq_screen [2023-04-25 14:10:03,485] multiqc [DEBUG ] No samples found: afterqc [2023-04-25 14:10:03,518] multiqc [DEBUG ] No samples found: fastp [2023-04-25 14:10:03,561] multiqc [DEBUG ] No samples found: fastqc [2023-04-25 14:10:03,576] multiqc [DEBUG ] No samples found: pychopper [2023-04-25 14:10:03,593] multiqc [DEBUG ] No samples found: pycoqc [2023-04-25 14:10:03,617] multiqc [DEBUG ] No samples found: minionqc [2023-04-25 14:10:03,642] multiqc [DEBUG ] No samples found: multivcfanalyzer [2023-04-25 14:10:03,657] multiqc [DEBUG ] No samples found: clusterflow [2023-04-25 14:10:03,675] multiqc [DEBUG ] No samples found: bcl2fastq [2023-04-25 14:10:03,692] multiqc [DEBUG ] No samples found: bclconvert [2023-04-25 14:10:03,721] multiqc [DEBUG ] No samples found: interop [2023-04-25 14:10:03,740] multiqc [DEBUG ] No samples found: ivar [2023-04-25 14:10:03,766] multiqc [DEBUG ] No samples found: flash [2023-04-25 14:10:03,781] multiqc [DEBUG ] No samples found: seqyclean [2023-04-25 14:10:03,804] multiqc [DEBUG ] No samples found: optitype [2023-04-25 14:10:03,838] multiqc [INFO ] Compressing plot data [2023-04-25 14:10:04,152] multiqc [INFO ] Report : multiqc_report.html [2023-04-25 14:10:04,152] multiqc [INFO ] Data : multiqc_data [2023-04-25 14:10:04,152] multiqc [DEBUG ] Moving data file from '/tmp/tmppbnxyz84/multiqc_data' to '/scratch/lspencer/DuMOAR/aligned/trim-before-concat/multiqc_data' [2023-04-25 14:10:04,449] multiqc [INFO ] MultiQC complete