[2022-03-26 16:16:18,551] multiqc [DEBUG ] This is MultiQC v1.11
[2022-03-26 16:16:18,551] multiqc [DEBUG ] No MultiQC config found: /usr/local/lib/python3.9/site-packages/multiqc_config.yaml
[2022-03-26 16:16:18,600] multiqc [DEBUG ] Loading config settings from: /usr/lusers/samwhite/.multiqc_config.yaml
[2022-03-26 16:16:18,600] multiqc [DEBUG ] New config 'star': {'fn': '*Log.final.out'}
[2022-03-26 16:16:18,601] multiqc [DEBUG ] New config 'star/genecounts': {'fn': '*ReadsPerGene.out.tab'}
[2022-03-26 16:16:18,601] multiqc [DEBUG ] Added to filename patterns: {'fastp': {'fn': '*report.json'}}
[2022-03-26 16:16:18,601] multiqc [DEBUG ] New config 'hisat2': {'contents': 'HISAT2 summary stats:', 'shared': True}
[2022-03-26 16:16:18,663] multiqc [DEBUG ] Loading config settings from: multiqc_config.yaml
[2022-03-26 16:16:18,663] multiqc [DEBUG ] New config 'report_comment': This report has been generated by the nf-core/rnaseq analysis pipeline. For information about how to interpret these results, please see the documentation.
[2022-03-26 16:16:18,663] multiqc [DEBUG ] New config 'report_section_order': {'software_versions': {'order': -1000}, 'nf-core-rnaseq-summary': {'order': -1001}}
[2022-03-26 16:16:18,664] multiqc [DEBUG ] New config 'export_plots': True
[2022-03-26 16:16:18,664] multiqc [DEBUG ] New config 'run_modules': ['custom_content', 'fastqc', 'cutadapt', 'sortmerna', 'star', 'hisat2', 'rsem', 'salmon', 'samtools', 'picard', 'preseq', 'rseqc', 'qualimap']
[2022-03-26 16:16:18,664] multiqc [DEBUG ] New config 'top_modules': ['fail_mapped_samples', 'fail_strand_check', 'star_rsem_deseq2_pca', 'star_rsem_deseq2_clustering', 'star_salmon_deseq2_pca', 'star_salmon_deseq2_clustering', 'salmon_deseq2_pca', 'salmon_deseq2_clustering', 'biotype_counts', 'dupradar']
[2022-03-26 16:16:18,664] multiqc [DEBUG ] New config 'module_order': [{'fastqc': {'name': 'FastQC (raw)', 'info': 'This section of the report shows FastQC results before adapter trimming.', 'path_filters': ['./fastqc/*.zip']}}, 'cutadapt', {'fastqc': {'name': 'FastQC (trimmed)', 'info': 'This section of the report shows FastQC results after adapter trimming.', 'path_filters': ['./trimgalore/fastqc/*.zip']}}]
[2022-03-26 16:16:18,664] multiqc [DEBUG ] New config 'table_columns_visible': {'fastqc': {'percent_duplicates': False}}
[2022-03-26 16:16:18,664] multiqc [DEBUG ] Added to filename clean extensions: ['.umi_dedup', '_val', '.markdup']
[2022-03-26 16:16:18,664] multiqc [DEBUG ] Added to filename patterns: {'cutadapt': {'fn': '*trimming_report.txt'}, 'sortmerna': {'fn': '*.sortmerna.log'}, 'hisat2': {'fn': '*.hisat2.summary.log'}, 'salmon/meta': {'fn': 'meta_info.json'}, 'preseq': {'fn': '*.ccurve.txt'}, 'samtools/stats': {'fn': '*.stats'}, 'samtools/flagstat': {'fn': '*.flagstat'}, 'samtools/idxstats': {'fn': '*.idxstats*'}, 'rseqc/bam_stat': {'fn': '*.bam_stat.txt'}, 'rseqc/gene_body_coverage': {'skip': True}, 'rseqc/junction_annotation': {'fn': '*.junction_annotation.log'}, 'rseqc/read_gc': {'skip': True}, 'rseqc/read_distribution': {'fn': '*.read_distribution.txt'}, 'rseqc/infer_experiment': {'fn': '*.infer_experiment.txt'}, 'rseqc/tin': {'fn': '*.tin.txt'}, 'picard/markdups': {'fn': '*.MarkDuplicates.metrics.txt'}, 'picard/alignment_metrics': {'skip': True}, 'picard/basedistributionbycycle': {'skip': True}, 'picard/gcbias': {'skip': True}, 'picard/hsmetrics': {'skip': True}, 'picard/insertsize': {'skip': True}, 'picard/oxogmetrics': {'skip': True}, 'picard/pcr_metrics': {'skip': True}, 'picard/quality_by_cycle': {'skip': True}, 'picard/quality_score_distribution': {'skip': True}, 'picard/quality_yield_metrics': {'skip': True}, 'picard/rnaseqmetrics': {'skip': True}, 'picard/rrbs_metrics': {'skip': True}, 'picard/sam_file_validation': {'skip': True}, 'picard/variant_calling_metrics': {'skip': True}, 'picard/wgs_metrics': {'skip': True}}
[2022-03-26 16:16:18,664] multiqc [DEBUG ] New config 'custom_data': {'fail_mapped_samples': {'section_name': 'WARNING: Fail Alignment Check', 'description': "List of samples that failed the STAR minimum mapped reads threshold specified via the '--min_mapped_reads' parameter, and hence were ignored for the downstream processing steps.", 'plot_type': 'table', 'pconfig': {'id': 'fail_mapped_samples_table', 'table_title': 'Samples failed mapping threshold', 'namespace': 'Samples failed mapping threshold', 'format': '{:.2f}'}}, 'fail_strand_check': {'section_name': 'WARNING: Fail Strand Check', 'description': "List of samples that failed the strandedness check between that provided in the samplesheet and calculated by the RSeQC infer_experiment.py tool.", 'plot_type': 'table', 'pconfig': {'id': 'fail_strand_check_table', 'table_title': 'Samples failed strandedness check', 'namespace': 'Samples failed strandedness check', 'format': '{:.2f}'}}}
[2022-03-26 16:16:18,665] multiqc [DEBUG ] Command used: /usr/local/bin/multiqc -f --title 20220321-pgen-nextflow_rnaseq-tissues-2666621 .
[2022-03-26 16:16:24,116] multiqc [DEBUG ] Could not connect to multiqc.info for version check:
[2022-03-26 16:16:24,116] multiqc [DEBUG ] Command : /usr/local/bin/multiqc -f --title 20220321-pgen-nextflow_rnaseq-tissues-2666621 .
[2022-03-26 16:16:24,116] multiqc [DEBUG ] Working dir : /gscratch/scrubbed/samwhite/outputs/20220323-pgen-nextflow_rnaseq-tissues/work/52/429af6e7d80a8084c003f8911b5a80
[2022-03-26 16:16:24,116] multiqc [DEBUG ] Template : default
[2022-03-26 16:16:24,116] multiqc [DEBUG ] Running Python 3.9.5 | packaged by conda-forge | (default, Jun 19 2021, 00:32:32) [GCC 9.3.0]
[2022-03-26 16:16:24,117] multiqc [INFO ] Report title: 20220321-pgen-nextflow_rnaseq-tissues-2666621
[2022-03-26 16:16:24,118] multiqc [INFO ] Only using modules: custom_content, fastqc, cutadapt, sortmerna, star, hisat2, rsem, salmon, samtools, picard, preseq, rseqc, qualimap
[2022-03-26 16:16:24,118] multiqc [DEBUG ] Analysing modules: custom_content, hisat2, picard, preseq, qualimap, rsem, rseqc, salmon, samtools, sortmerna, star, fastqc, cutadapt, fastqc
[2022-03-26 16:16:24,118] multiqc [DEBUG ] Using temporary directory for creating report: /tmp/tmput0kwvhh
[2022-03-26 16:16:24,255] multiqc [INFO ] Search path : /gscratch/scrubbed/samwhite/outputs/20220323-pgen-nextflow_rnaseq-tissues/work/52/429af6e7d80a8084c003f8911b5a80
[2022-03-26 16:16:24,257] multiqc [DEBUG ] Ignored 218 search patterns as didn't match running modules.
[2022-03-26 16:16:24,257] multiqc [INFO ] Skipping 17 file search patterns
[2022-03-26 16:16:24,257] multiqc [DEBUG ] Skipping search patterns: picard/alignment_metrics, picard/basedistributionbycycle, picard/gcbias, picard/hsmetrics, picard/insertsize, picard/oxogmetrics, picard/pcr_metrics, picard/quality_by_cycle, picard/quality_score_distribution, picard/quality_yield_metrics, picard/rnaseqmetrics, picard/rrbs_metrics, picard/sam_file_validation, picard/variant_calling_metrics, picard/wgs_metrics, rseqc/gene_body_coverage, rseqc/read_gc
[2022-03-26 16:16:28,826] multiqc.plots.bargraph [DEBUG ] Using matplotlib version 3.4.2
[2022-03-26 16:16:28,832] multiqc.plots.linegraph [DEBUG ] Using matplotlib version 3.4.2
[2022-03-26 16:16:29,017] multiqc.modules.custom_content.custom_content [INFO ] software_versions: Found 1 sample (html)
[2022-03-26 16:16:29,018] multiqc.modules.custom_content.custom_content [INFO ] nf-core-rnaseq-summary: Found 1 sample (html)
[2022-03-26 16:16:29,019] multiqc.modules.custom_content.custom_content [INFO ] salmon_deseq2_clustering: Found 5 samples (heatmap)
[2022-03-26 16:16:29,019] multiqc.modules.custom_content.custom_content [INFO ] salmon_deseq2_pca: Found 5 samples (scatter)
[2022-03-26 16:16:29,019] multiqc.modules.custom_content.custom_content [INFO ] star_salmon_deseq2_pca: Found 5 samples (scatter)
[2022-03-26 16:16:29,019] multiqc.modules.custom_content.custom_content [INFO ] star_salmon_deseq2_clustering: Found 5 samples (heatmap)
[2022-03-26 16:16:30,092] multiqc.modules.custom_content.custom_content [INFO ] biotype_counts: Found 5 samples (bargraph)
[2022-03-26 16:16:30,092] multiqc.modules.custom_content.custom_content [INFO ] biotype-gs: Found 5 General Statistics columns
[2022-03-26 16:16:31,731] multiqc.modules.custom_content.custom_content [INFO ] dupradar: Found 5 samples (linegraph)
[2022-03-26 16:16:31,731] multiqc.modules.custom_content.custom_content [INFO ] DupInt: Found 5 General Statistics columns
[2022-03-26 16:16:31,737] multiqc [DEBUG ] No samples found: hisat2
[2022-03-26 16:16:32,904] multiqc.modules.picard.picard [INFO ] Found 5 MarkDuplicates reports
[2022-03-26 16:16:33,112] multiqc.modules.preseq.preseq [INFO ] Found 5 reports
[2022-03-26 16:16:37,739] multiqc.modules.qualimap.qualimap [INFO ] Found 5 RNASeq reports
[2022-03-26 16:16:37,743] multiqc [DEBUG ] No samples found: rsem
[2022-03-26 16:16:38,993] multiqc.modules.rseqc.rseqc [INFO ] Found 5 read_distribution reports
[2022-03-26 16:16:40,296] multiqc.modules.rseqc.rseqc [INFO ] Found 5 inner_distance reports
[2022-03-26 16:16:41,056] multiqc.modules.rseqc.rseqc [INFO ] Found 5 read_duplication reports
[2022-03-26 16:16:42,989] multiqc.modules.rseqc.rseqc [INFO ] Found 5 junction_annotation reports
[2022-03-26 16:16:44,981] multiqc.modules.rseqc.rseqc [INFO ] Found 5 junction_saturation reports
[2022-03-26 16:16:45,454] multiqc.modules.rseqc.rseqc [INFO ] Found 5 infer_experiment reports
[2022-03-26 16:16:45,459] multiqc.modules.rseqc.rseqc [INFO ] Found 5 bam_stat reports
[2022-03-26 16:16:45,595] multiqc.modules.salmon.salmon [INFO ] Found 5 meta reports
[2022-03-26 16:16:45,596] multiqc.modules.salmon.salmon [INFO ] Found 5 fragment length distributions
[2022-03-26 16:16:47,186] multiqc.modules.samtools.samtools [INFO ] Found 5 stats reports
[2022-03-26 16:16:47,191] multiqc.modules.samtools.samtools [INFO ] Found 5 flagstat reports
[2022-03-26 16:16:49,761] multiqc.modules.samtools.samtools [INFO ] Found 5 idxstats reports
[2022-03-26 16:16:49,768] multiqc [DEBUG ] No samples found: sortmerna
[2022-03-26 16:16:49,777] multiqc.modules.star.star [INFO ] Found 5 reports
[2022-03-26 16:16:50,820] multiqc.modules.base_module [DEBUG ] fastqc/zip - Skipping 'juvenile_2_val_2_fastqc.zip' as it didn't match the path_filters for 'FastQC (raw)'
[2022-03-26 16:16:50,820] multiqc.modules.base_module [DEBUG ] fastqc/zip - Skipping 'gonad_2_val_2_fastqc.zip' as it didn't match the path_filters for 'FastQC (raw)'
[2022-03-26 16:16:50,820] multiqc.modules.base_module [DEBUG ] fastqc/zip - Skipping 'larvae_2_val_2_fastqc.zip' as it didn't match the path_filters for 'FastQC (raw)'
[2022-03-26 16:16:50,820] multiqc.modules.base_module [DEBUG ] fastqc/zip - Skipping 'gonad_1_val_1_fastqc.zip' as it didn't match the path_filters for 'FastQC (raw)'
[2022-03-26 16:16:50,820] multiqc.modules.base_module [DEBUG ] fastqc/zip - Skipping 'ctenidia_2_val_2_fastqc.zip' as it didn't match the path_filters for 'FastQC (raw)'
[2022-03-26 16:16:50,821] multiqc.modules.base_module [DEBUG ] fastqc/zip - Skipping 'juvenile_1_val_1_fastqc.zip' as it didn't match the path_filters for 'FastQC (raw)'
[2022-03-26 16:16:50,821] multiqc.modules.base_module [DEBUG ] fastqc/zip - Skipping 'heart_1_val_1_fastqc.zip' as it didn't match the path_filters for 'FastQC (raw)'
[2022-03-26 16:16:50,821] multiqc.modules.base_module [DEBUG ] fastqc/zip - Skipping 'ctenidia_1_val_1_fastqc.zip' as it didn't match the path_filters for 'FastQC (raw)'
[2022-03-26 16:16:50,821] multiqc.modules.base_module [DEBUG ] fastqc/zip - Skipping 'larvae_1_val_1_fastqc.zip' as it didn't match the path_filters for 'FastQC (raw)'
[2022-03-26 16:16:50,821] multiqc.modules.base_module [DEBUG ] fastqc/zip - Skipping 'heart_2_val_2_fastqc.zip' as it didn't match the path_filters for 'FastQC (raw)'
[2022-03-26 16:16:50,821] multiqc.modules.base_module [DEBUG ] fastqc/zip - Selecting 'heart_1_fastqc.zip' as it matched the path_filters for 'FastQC (raw)'
[2022-03-26 16:16:50,872] multiqc.modules.base_module [DEBUG ] fastqc/zip - Selecting 'juvenile_1_fastqc.zip' as it matched the path_filters for 'FastQC (raw)'
[2022-03-26 16:16:50,905] multiqc.modules.base_module [DEBUG ] fastqc/zip - Selecting 'gonad_1_fastqc.zip' as it matched the path_filters for 'FastQC (raw)'
[2022-03-26 16:16:50,945] multiqc.modules.base_module [DEBUG ] fastqc/zip - Selecting 'ctenidia_1_fastqc.zip' as it matched the path_filters for 'FastQC (raw)'
[2022-03-26 16:16:50,977] multiqc.modules.base_module [DEBUG ] fastqc/zip - Selecting 'heart_2_fastqc.zip' as it matched the path_filters for 'FastQC (raw)'
[2022-03-26 16:16:51,027] multiqc.modules.base_module [DEBUG ] fastqc/zip - Selecting 'gonad_2_fastqc.zip' as it matched the path_filters for 'FastQC (raw)'
[2022-03-26 16:16:51,067] multiqc.modules.base_module [DEBUG ] fastqc/zip - Selecting 'larvae_2_fastqc.zip' as it matched the path_filters for 'FastQC (raw)'
[2022-03-26 16:16:51,100] multiqc.modules.base_module [DEBUG ] fastqc/zip - Selecting 'juvenile_2_fastqc.zip' as it matched the path_filters for 'FastQC (raw)'
[2022-03-26 16:16:51,129] multiqc.modules.base_module [DEBUG ] fastqc/zip - Selecting 'larvae_1_fastqc.zip' as it matched the path_filters for 'FastQC (raw)'
[2022-03-26 16:16:51,163] multiqc.modules.base_module [DEBUG ] fastqc/zip - Selecting 'ctenidia_2_fastqc.zip' as it matched the path_filters for 'FastQC (raw)'
[2022-03-26 16:16:51,211] multiqc.modules.fastqc.fastqc [INFO ] Found 10 reports
[2022-03-26 16:16:59,642] multiqc.modules.cutadapt.cutadapt [INFO ] Found 10 reports
[2022-03-26 16:17:02,295] multiqc.modules.base_module [DEBUG ] fastqc/zip - Selecting 'juvenile_2_val_2_fastqc.zip' as it matched the path_filters for 'FastQC (trimmed)'
[2022-03-26 16:17:02,320] multiqc.modules.base_module [DEBUG ] fastqc/zip - Selecting 'gonad_2_val_2_fastqc.zip' as it matched the path_filters for 'FastQC (trimmed)'
[2022-03-26 16:17:02,371] multiqc.modules.base_module [DEBUG ] fastqc/zip - Selecting 'larvae_2_val_2_fastqc.zip' as it matched the path_filters for 'FastQC (trimmed)'
[2022-03-26 16:17:02,401] multiqc.modules.base_module [DEBUG ] fastqc/zip - Selecting 'gonad_1_val_1_fastqc.zip' as it matched the path_filters for 'FastQC (trimmed)'
[2022-03-26 16:17:02,435] multiqc.modules.base_module [DEBUG ] fastqc/zip - Selecting 'ctenidia_2_val_2_fastqc.zip' as it matched the path_filters for 'FastQC (trimmed)'
[2022-03-26 16:17:02,498] multiqc.modules.base_module [DEBUG ] fastqc/zip - Selecting 'juvenile_1_val_1_fastqc.zip' as it matched the path_filters for 'FastQC (trimmed)'
[2022-03-26 16:17:02,523] multiqc.modules.base_module [DEBUG ] fastqc/zip - Selecting 'heart_1_val_1_fastqc.zip' as it matched the path_filters for 'FastQC (trimmed)'
[2022-03-26 16:17:02,548] multiqc.modules.base_module [DEBUG ] fastqc/zip - Selecting 'ctenidia_1_val_1_fastqc.zip' as it matched the path_filters for 'FastQC (trimmed)'
[2022-03-26 16:17:02,599] multiqc.modules.base_module [DEBUG ] fastqc/zip - Selecting 'larvae_1_val_1_fastqc.zip' as it matched the path_filters for 'FastQC (trimmed)'
[2022-03-26 16:17:02,644] multiqc.modules.base_module [DEBUG ] fastqc/zip - Selecting 'heart_2_val_2_fastqc.zip' as it matched the path_filters for 'FastQC (trimmed)'
[2022-03-26 16:17:02,742] multiqc.modules.base_module [DEBUG ] fastqc/zip - Skipping 'heart_1_fastqc.zip' as it didn't match the path_filters for 'FastQC (trimmed)'
[2022-03-26 16:17:02,743] multiqc.modules.base_module [DEBUG ] fastqc/zip - Skipping 'juvenile_1_fastqc.zip' as it didn't match the path_filters for 'FastQC (trimmed)'
[2022-03-26 16:17:02,743] multiqc.modules.base_module [DEBUG ] fastqc/zip - Skipping 'gonad_1_fastqc.zip' as it didn't match the path_filters for 'FastQC (trimmed)'
[2022-03-26 16:17:02,743] multiqc.modules.base_module [DEBUG ] fastqc/zip - Skipping 'ctenidia_1_fastqc.zip' as it didn't match the path_filters for 'FastQC (trimmed)'
[2022-03-26 16:17:02,743] multiqc.modules.base_module [DEBUG ] fastqc/zip - Skipping 'heart_2_fastqc.zip' as it didn't match the path_filters for 'FastQC (trimmed)'
[2022-03-26 16:17:02,743] multiqc.modules.base_module [DEBUG ] fastqc/zip - Skipping 'gonad_2_fastqc.zip' as it didn't match the path_filters for 'FastQC (trimmed)'
[2022-03-26 16:17:02,743] multiqc.modules.base_module [DEBUG ] fastqc/zip - Skipping 'larvae_2_fastqc.zip' as it didn't match the path_filters for 'FastQC (trimmed)'
[2022-03-26 16:17:02,743] multiqc.modules.base_module [DEBUG ] fastqc/zip - Skipping 'juvenile_2_fastqc.zip' as it didn't match the path_filters for 'FastQC (trimmed)'
[2022-03-26 16:17:02,743] multiqc.modules.base_module [DEBUG ] fastqc/zip - Skipping 'larvae_1_fastqc.zip' as it didn't match the path_filters for 'FastQC (trimmed)'
[2022-03-26 16:17:02,743] multiqc.modules.base_module [DEBUG ] fastqc/zip - Skipping 'ctenidia_2_fastqc.zip' as it didn't match the path_filters for 'FastQC (trimmed)'
[2022-03-26 16:17:02,743] multiqc.modules.fastqc.fastqc [INFO ] Found 10 reports
[2022-03-26 16:17:10,865] multiqc [DEBUG ] Reordering sections: anchor 'software_versions' not found for module 'SALMON DESeq2 sample similarity'.
[2022-03-26 16:17:10,865] multiqc [DEBUG ] Reordering sections: anchor 'nf-core-rnaseq-summary' not found for module 'SALMON DESeq2 sample similarity'.
[2022-03-26 16:17:10,865] multiqc [DEBUG ] Reordering sections: anchor 'software_versions' not found for module 'SALMON DESeq2 PCA plot'.
[2022-03-26 16:17:10,865] multiqc [DEBUG ] Reordering sections: anchor 'nf-core-rnaseq-summary' not found for module 'SALMON DESeq2 PCA plot'.
[2022-03-26 16:17:10,865] multiqc [DEBUG ] Reordering sections: anchor 'software_versions' not found for module 'STAR_SALMON DESeq2 PCA plot'.
[2022-03-26 16:17:10,865] multiqc [DEBUG ] Reordering sections: anchor 'nf-core-rnaseq-summary' not found for module 'STAR_SALMON DESeq2 PCA plot'.
[2022-03-26 16:17:10,865] multiqc [DEBUG ] Reordering sections: anchor 'software_versions' not found for module 'STAR_SALMON DESeq2 sample similarity'.
[2022-03-26 16:17:10,865] multiqc [DEBUG ] Reordering sections: anchor 'nf-core-rnaseq-summary' not found for module 'STAR_SALMON DESeq2 sample similarity'.
[2022-03-26 16:17:10,865] multiqc [DEBUG ] Reordering sections: anchor 'software_versions' not found for module 'Biotype Counts'.
[2022-03-26 16:17:10,865] multiqc [DEBUG ] Reordering sections: anchor 'nf-core-rnaseq-summary' not found for module 'Biotype Counts'.
[2022-03-26 16:17:10,865] multiqc [DEBUG ] Reordering sections: anchor 'software_versions' not found for module 'DupRadar'.
[2022-03-26 16:17:10,865] multiqc [DEBUG ] Reordering sections: anchor 'nf-core-rnaseq-summary' not found for module 'DupRadar'.
[2022-03-26 16:17:10,865] multiqc [DEBUG ] Reordering sections: anchor 'software_versions' not found for module 'Picard'.
[2022-03-26 16:17:10,865] multiqc [DEBUG ] Reordering sections: anchor 'nf-core-rnaseq-summary' not found for module 'Picard'.
[2022-03-26 16:17:10,865] multiqc [DEBUG ] Reordering sections: anchor 'software_versions' not found for module 'Preseq'.
[2022-03-26 16:17:10,865] multiqc [DEBUG ] Reordering sections: anchor 'nf-core-rnaseq-summary' not found for module 'Preseq'.
[2022-03-26 16:17:10,865] multiqc [DEBUG ] Reordering sections: anchor 'software_versions' not found for module 'QualiMap'.
[2022-03-26 16:17:10,865] multiqc [DEBUG ] Reordering sections: anchor 'nf-core-rnaseq-summary' not found for module 'QualiMap'.
[2022-03-26 16:17:10,865] multiqc [DEBUG ] Reordering sections: anchor 'software_versions' not found for module 'RSeQC'.
[2022-03-26 16:17:10,865] multiqc [DEBUG ] Reordering sections: anchor 'nf-core-rnaseq-summary' not found for module 'RSeQC'.
[2022-03-26 16:17:10,865] multiqc [DEBUG ] Reordering sections: anchor 'software_versions' not found for module 'Salmon'.
[2022-03-26 16:17:10,865] multiqc [DEBUG ] Reordering sections: anchor 'nf-core-rnaseq-summary' not found for module 'Salmon'.
[2022-03-26 16:17:10,865] multiqc [DEBUG ] Reordering sections: anchor 'software_versions' not found for module 'Samtools'.
[2022-03-26 16:17:10,865] multiqc [DEBUG ] Reordering sections: anchor 'nf-core-rnaseq-summary' not found for module 'Samtools'.
[2022-03-26 16:17:10,866] multiqc [DEBUG ] Reordering sections: anchor 'software_versions' not found for module 'STAR'.
[2022-03-26 16:17:10,866] multiqc [DEBUG ] Reordering sections: anchor 'nf-core-rnaseq-summary' not found for module 'STAR'.
[2022-03-26 16:17:10,866] multiqc [DEBUG ] Reordering sections: anchor 'software_versions' not found for module 'FastQC (raw)'.
[2022-03-26 16:17:10,866] multiqc [DEBUG ] Reordering sections: anchor 'nf-core-rnaseq-summary' not found for module 'FastQC (raw)'.
[2022-03-26 16:17:10,866] multiqc [DEBUG ] Reordering sections: anchor 'software_versions' not found for module 'Cutadapt'.
[2022-03-26 16:17:10,866] multiqc [DEBUG ] Reordering sections: anchor 'nf-core-rnaseq-summary' not found for module 'Cutadapt'.
[2022-03-26 16:17:10,866] multiqc [DEBUG ] Reordering sections: anchor 'software_versions' not found for module 'FastQC (trimmed)'.
[2022-03-26 16:17:10,866] multiqc [DEBUG ] Reordering sections: anchor 'nf-core-rnaseq-summary' not found for module 'FastQC (trimmed)'.
[2022-03-26 16:17:10,866] multiqc [DEBUG ] Reordering sections: anchor 'software_versions' not found for module 'nf-core/rnaseq Software Versions'.
[2022-03-26 16:17:10,866] multiqc [DEBUG ] Reordering sections: anchor 'nf-core-rnaseq-summary' not found for module 'nf-core/rnaseq Software Versions'.
[2022-03-26 16:17:10,866] multiqc [DEBUG ] Reordering sections: anchor 'software_versions' not found for module 'nf-core/rnaseq Workflow Summary'.
[2022-03-26 16:17:10,866] multiqc [DEBUG ] Reordering sections: anchor 'nf-core-rnaseq-summary' not found for module 'nf-core/rnaseq Workflow Summary'.
[2022-03-26 16:17:10,917] multiqc [INFO ] Compressing plot data
[2022-03-26 16:17:12,446] multiqc [INFO ] Report : 20220321-pgen-nextflow_rnaseq-tissues-2666621_multiqc_report.html
[2022-03-26 16:17:12,446] multiqc [INFO ] Data : 20220321-pgen-nextflow_rnaseq-tissues-2666621_multiqc_report_data
[2022-03-26 16:17:12,446] multiqc [DEBUG ] Moving data file from '/tmp/tmput0kwvhh/multiqc_data' to '/gscratch/scrubbed/samwhite/outputs/20220323-pgen-nextflow_rnaseq-tissues/work/52/429af6e7d80a8084c003f8911b5a80/20220321-pgen-nextflow_rnaseq-tissues-2666621_multiqc_report_data'
[2022-03-26 16:17:12,499] multiqc [INFO ] Plots : 20220321-pgen-nextflow_rnaseq-tissues-2666621_multiqc_report_plots
[2022-03-26 16:17:12,499] multiqc [DEBUG ] Moving plots directory from '/tmp/tmput0kwvhh/multiqc_plots' to '/gscratch/scrubbed/samwhite/outputs/20220323-pgen-nextflow_rnaseq-tissues/work/52/429af6e7d80a8084c003f8911b5a80/20220321-pgen-nextflow_rnaseq-tissues-2666621_multiqc_report_plots'
[2022-03-26 16:17:12,777] multiqc [INFO ] MultiQC complete