[2023-04-01 05:13:54,141] multiqc                                            [DEBUG  ]  This is MultiQC v1.13.dev0
[2023-04-01 05:13:54,142] multiqc                                            [DEBUG  ]  Loading config settings from: /usr/local/src/nephele2/pipelines/QC_reads/multiqc_config.yaml
[2023-04-01 05:13:54,142] multiqc                                            [DEBUG  ]  New config: {'top_modules': ['fastqc', 'cutadapt', 'trimmomatic'], 'read_count_multiplier': 1, 'read_count_prefix': '', 'read_count_desc': 'reads', 'flash': {'use_output_name': True}}
[2023-04-01 05:13:54,142] multiqc                                            [DEBUG  ]  Added to filename patterns: [{'flash/hist': {'fn': '*.hist'}}]
[2023-04-01 05:13:54,142] multiqc                                            [DEBUG  ]  Command used: /usr/local/bin/miniconda3/bin/multiqc -c /usr/local/src/nephele2/pipelines/QC_reads/multiqc_config.yaml --title GIW23-testRun1 -o /nephele_data/outputs/ /nephele_data/outputs/multiqc_input/
[2023-04-01 05:13:54,697] multiqc                                            [WARNING]  MultiQC Version v1.14 now available!
[2023-04-01 05:13:54,698] multiqc                                            [DEBUG  ]  Working dir : /
[2023-04-01 05:13:54,698] multiqc                                            [DEBUG  ]  Template    : default
[2023-04-01 05:13:54,698] multiqc                                            [DEBUG  ]  Running Python 3.8.13 (default, Mar 28 2022, 11:38:47)  [GCC 7.5.0]
[2023-04-01 05:13:54,698] multiqc                                            [INFO   ]  Report title: GIW23-testRun1
[2023-04-01 05:13:54,698] multiqc                                            [DEBUG  ]  Analysing modules: fastqc, cutadapt, trimmomatic, 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, pbmarkdup, 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, flexbar, kaiju, kraken, malt, sickle, skewer, sortmerna, biobloomtools, fastq_screen, afterqc, fastp, pychopper, pycoqc, minionqc, multivcfanalyzer, clusterflow, checkqc, bcl2fastq, bclconvert, interop, ivar, flash, seqyclean, optitype, whatshap
[2023-04-01 05:13:54,698] multiqc                                            [DEBUG  ]  Using temporary directory for creating report: /nephele_data/tmp/tmphzf7nddx
[2023-04-01 05:13:54,869] multiqc                                            [INFO   ]  Search path : /nephele_data/outputs/multiqc_input
[2023-04-01 05:14:20,198] multiqc                                            [DEBUG  ]  Summary of files that were skipped by the search: [skipped_module_specific_max_filesize: 2808] // [skipped_no_match: 216]
[2023-04-01 05:14:21,089] multiqc.plots.linegraph                            [DEBUG  ]  Using matplotlib version 3.5.3
[2023-04-01 05:14:21,090] multiqc.plots.bargraph                             [DEBUG  ]  Using matplotlib version 3.5.3
[2023-04-01 05:14:22,184] multiqc.modules.fastqc.fastqc                      [INFO   ]  Found 216 reports
[2023-04-01 05:14:35,068] multiqc.modules.cutadapt.cutadapt                  [INFO   ]  Found 216 reports
[2023-04-01 05:14:39,522] multiqc.modules.trimmomatic.trimmomatic            [INFO   ]  Found 216 logs
[2023-04-01 05:14:44,036] multiqc                                            [INFO   ]  Compressing plot data
[2023-04-01 05:14:44,140] multiqc                                            [INFO   ]  Report      : nephele_data/outputs/GIW23-testRun1_multiqc_report.html
[2023-04-01 05:14:44,140] multiqc                                            [INFO   ]  Data        : nephele_data/outputs/GIW23-testRun1_multiqc_report_data
[2023-04-01 05:14:44,140] multiqc                                            [DEBUG  ]  Moving data file from '/nephele_data/tmp/tmphzf7nddx/multiqc_data' to '/nephele_data/outputs/GIW23-testRun1_multiqc_report_data'
[2023-04-01 05:14:44,247] multiqc                                            [INFO   ]  MultiQC complete
[2023-04-01 05:14:44,247] multiqc                                            [WARNING]  10 flat-image plots used in the report due to large sample numbers