[2026-06-08 22:19:10,256] root [DEBUG ] Logging to file: /tmp/tmpn_79k_ra/multiqc.log
[2026-06-08 22:19:10,257] multiqc.core.update_config [DEBUG ] This is MultiQC v1.33
[2026-06-08 22:19:10,257] multiqc.core.update_config [DEBUG ] Running Python 3.13.11 (main, Dec 8 2025, 23:38:07) [GCC 14.2.0]
[2026-06-08 22:19:10,259] multiqc.config [DEBUG ] Found command line config: {'intro_text': 'MultiQC Report for DAQ. Includes data from all the QC tools in DAQ.', 'seqtool_panels': [{'name': 'all_targets', 'bed': 'xgen-exome-hyb-panel-v2-targets-hg38_AND_altera_v3_targets_postQC_hg38_AND_foresight_clarity.bed'}, {'name': 'all_probes', 'bed': 'xgen-exome-hyb-panel-v2_AND_altera_v3_probes_short_hg38_AND_cdx_spike_custom30off4x_hg38_AND_foresight_clarity_footprint.bed'}, {'name': 'boosted_depth', 'bed': 'altera_v3_targets_postQC_hg38.bed'}, {'name': 'coding_depth', 'bed': 'altera_v3_targets_coding_postQC_hg38.bed'}, {'name': 'noncoding_depth', 'bed': 'altera_v3_targets_noncoding_postQC_hg38.bed'}, {'name': 'non_boosted_depth', 'bed': 'xgen-exome-hyb-panel-v2-targets-hg38_minus_altera_v3_targets_postQC_hg38.bed'}, {'name': 'hotspot_depth', 'bed': 'FINAL_hotspot_list_07302025_hg38_sorted.bed'}, {'name': 'foresight_depth', 'bed': 'foresight_clarity_targets_hg38.bed'}], 'extra_fn_clean_exts': ['.md'], 'section_comments': {'bclconvert': 'Demultiplexing statistics from BCL Convert, run per lane', 'fastp': 'Pre-alignment QC and adapter trimming, run per sample', 'samtools-stats': 'Alignment statistics from samtools stats on post-dedup BAMs', 'picard-alignmentsummary': 'Alignment summary metrics from Sentieon (Picard format)', 'picard-insertsize': 'Insert size distribution from Sentieon (Picard format)', 'picard_hsmetrics': 'Hybrid selection metrics from Sentieon (Picard format)', 'picard-markduplicates': 'Duplicate marking metrics from Sentieon MarkDuplicates'}}
[2026-06-08 22:19:10,259] multiqc.config [DEBUG ] New config: {'intro_text': 'MultiQC Report for DAQ. Includes data from all the QC tools in DAQ.', 'seqtool_panels': [{'name': 'all_targets', 'bed': 'xgen-exome-hyb-panel-v2-targets-hg38_AND_altera_v3_targets_postQC_hg38_AND_foresight_clarity.bed'}, {'name': 'all_probes', 'bed': 'xgen-exome-hyb-panel-v2_AND_altera_v3_probes_short_hg38_AND_cdx_spike_custom30off4x_hg38_AND_foresight_clarity_footprint.bed'}, {'name': 'boosted_depth', 'bed': 'altera_v3_targets_postQC_hg38.bed'}, {'name': 'coding_depth', 'bed': 'altera_v3_targets_coding_postQC_hg38.bed'}, {'name': 'noncoding_depth', 'bed': 'altera_v3_targets_noncoding_postQC_hg38.bed'}, {'name': 'non_boosted_depth', 'bed': 'xgen-exome-hyb-panel-v2-targets-hg38_minus_altera_v3_targets_postQC_hg38.bed'}, {'name': 'hotspot_depth', 'bed': 'FINAL_hotspot_list_07302025_hg38_sorted.bed'}, {'name': 'foresight_depth', 'bed': 'foresight_clarity_targets_hg38.bed'}], 'section_comments': {'bclconvert': 'Demultiplexing statistics from BCL Convert, run per lane', 'fastp': 'Pre-alignment QC and adapter trimming, run per sample', 'samtools-stats': 'Alignment statistics from samtools stats on post-dedup BAMs', 'picard-alignmentsummary': 'Alignment summary metrics from Sentieon (Picard format)', 'picard-insertsize': 'Insert size distribution from Sentieon (Picard format)', 'picard_hsmetrics': 'Hybrid selection metrics from Sentieon (Picard format)', 'picard-markduplicates': 'Duplicate marking metrics from Sentieon MarkDuplicates'}}
[2026-06-08 22:19:10,259] multiqc.config [DEBUG ] Added to filename clean extensions: [['.md']]
[2026-06-08 22:19:10,259] multiqc.core.update_config [INFO ] Report title: REGRESSION
[2026-06-08 22:19:10,260] multiqc [INFO ] Running seqtool MultiQC Plugin v0.1.0
[2026-06-08 22:19:10,260] multiqc [INFO ] Running seqtool MultiQC Plugin v0.1.0
[2026-06-08 22:19:10,263] urllib3.connectionpool [DEBUG ] Starting new HTTPS connection (1): api.multiqc.info:443
[2026-06-08 22:19:10,811] urllib3.connectionpool [DEBUG ] https://api.multiqc.info:443 "GET /version?version_multiqc=1.33&version_python=3.13.11&operating_system=Linux&is_docker=False&is_singularity=False&is_conda=False&is_uv=False&is_ci=False&is_notebook=False&ai_summary=False&ai_summary_full=False&ai_provider=seqera HTTP/1.1" 200 178
[2026-06-08 22:19:10,812] multiqc.core.version_check [WARNING] MultiQC Version v1.35 now available!
[2026-06-08 22:19:10,812] multiqc.core.version_check [DEBUG ] Latest MultiQC version is v1.35, released 2026-05-13
[2026-06-08 22:19:10,813] multiqc.multiqc [DEBUG ] Working dir : /tmp/nxf.MtskK3pgxb
[2026-06-08 22:19:10,814] multiqc.multiqc [DEBUG ] Template : default
[2026-06-08 22:19:10,815] multiqc.multiqc [DEBUG ] Command used: /usr/local/bin/multiqc --force --title REGRESSION --cl-config {"intro_text":"MultiQC Report for DAQ. Includes data from all the QC tools in DAQ.","seqtool_panels":[{"name":"all_targets","bed":"xgen-exome-hyb-panel-v2-targets-hg38_AND_altera_v3_targets_postQC_hg38_AND_foresight_clarity.bed"},{"name":"all_probes","bed":"xgen-exome-hyb-panel-v2_AND_altera_v3_probes_short_hg38_AND_cdx_spike_custom30off4x_hg38_AND_foresight_clarity_footprint.bed"},{"name":"boosted_depth","bed":"altera_v3_targets_postQC_hg38.bed"},{"name":"coding_depth","bed":"altera_v3_targets_coding_postQC_hg38.bed"},{"name":"noncoding_depth","bed":"altera_v3_targets_noncoding_postQC_hg38.bed"},{"name":"non_boosted_depth","bed":"xgen-exome-hyb-panel-v2-targets-hg38_minus_altera_v3_targets_postQC_hg38.bed"},{"name":"hotspot_depth","bed":"FINAL_hotspot_list_07302025_hg38_sorted.bed"},{"name":"foresight_depth","bed":"foresight_clarity_targets_hg38.bed"}],"extra_fn_clean_exts":[".md"],"section_comments":{"bclconvert":"Demultiplexing statistics from BCL Convert, run per lane","fastp":"Pre-alignment QC and adapter trimming, run per sample","samtools-stats":"Alignment statistics from samtools stats on post-dedup BAMs","picard-alignmentsummary":"Alignment summary metrics from Sentieon (Picard format)","picard-insertsize":"Insert size distribution from Sentieon (Picard format)","picard_hsmetrics":"Hybrid selection metrics from Sentieon (Picard format)","picard-markduplicates":"Duplicate marking metrics from Sentieon MarkDuplicates"}} .
[2026-06-08 22:19:10,815] multiqc.core.file_search [INFO ] Search path: /tmp/nxf.MtskK3pgxb
[2026-06-08 22:19:10,815] multiqc.core.file_search [DEBUG ] Analysing modules: seqtool, bases2fastq, cellranger_arc, cells2stats, ribotish, seqkit, sompy, xenium, custom_content, ccs, ngsderive, purple, conpair, isoseq, lima, peddy, percolator, haplocheck, somalier, methylqa, mosdepth, phantompeakqualtools, qualimap, bamdst, preseq, hifiasm, quast, qorts, rna_seqc, rockhopper, rsem, rseqc, busco, checkm, bustools, goleft_indexcov, gffcompare, disambiguate, supernova, deeptools, sargasso, verifybamid, mirtrace, happy, mirtop, glimpse, gopeaks, homer, hops, macs2, theta2, snpeff, gatk, htseq, bcftools, featurecounts, fgbio, dragen, dragen_fastqc, dedup, pbmarkdup, damageprofiler, mapdamage, biobambam2, jcvi, mtnucratio, picard, vep, bakta, prokka, checkm2, qc3C, nanoq, nanostat, samblaster, samtools, bamtools, sambamba, ngsbits, pairtools, sexdeterrmine, seqera_cli, eigenstratdatabasetools, jellyfish, vcftools, longranger, stacks, varscan2, snippy, umicollapse, umitools, truvari, megahit, ganon, gtdbtk, bbmap, bismark, biscuit, diamond, hicexplorer, hicup, hicpro, salmon, kallisto, slamdunk, star, hisat2, tophat, bowtie2, bowtie1, hostile, cellranger, snpsplit, odgi, vg, pangolin, nextclade, freyja, humid, kat, leehom, librarian, nonpareil, adapterremoval, bbduk, clipandmerge, cutadapt, flexbar, sourmash, kaiju, kraken, malt, motus, trimmomatic, sickle, skewer, sortmerna, biobloomtools, seqfu, fastq_screen, afterqc, fastp, fastqc, sequali, filtlong, prinseqplusplus, pychopper, porechop, pycoqc, minionqc, anglerfish, multivcfanalyzer, clusterflow, checkqc, bcl2fastq, bclconvert, interop, ivar, flash, seqyclean, optitype, whatshap, spaceranger, xenome, xengsort, metaphlan, sylphtax, seqwho, telseq, ataqv, mgikit, mosaicatcher, software_versions
[2026-06-08 22:19:10,815] multiqc.core.file_search [DEBUG ] Search keys: adapterremoval, afterqc, anglerfish, ataqv, bakta, bamdst, bamtools, bases2fastq, bbduk, bbmap, bcftools, bcl2fastq, bclconvert, biobambam2, biobloomtools, biscuit, bismark, bowtie1, bowtie2, busco, bustools, ccs, cellranger, cellranger_arc, cells2stats, checkm, checkm2, checkqc, clipandmerge, clusterflow, conpair, custom_content, cutadapt, damageprofiler, dedup, deeptools, diamond, disambiguate, dragen, dragen_fastqc, eigenstratdatabasetools, fastp, fastq_screen, fastqc, featurecounts, fgbio, filtlong, flash, flexbar, freyja, ganon, gatk, gffcompare, glimpse, goleft_indexcov, gopeaks, gtdbtk, haplocheck, happy, hicexplorer, hicpro, hicup, hifiasm, hisat2, homer, hops, hostile, htseq, humid, interop, isoseq, ivar, jcvi, jellyfish, kaiju, kallisto, kat, kraken, leehom, librarian, lima, longranger, macs2, malt, mapdamage, megahit, metaphlan, methylqa, mgikit, minionqc, mirtop, mirtrace, mosaicatcher, mosdepth, motus, mtnucratio, multiqc_data, multivcfanalyzer, nanoq, nanostat, nextclade, ngsbits, ngsderive, nonpareil, odgi, optitype, pairtools, pangolin, pbmarkdup, peddy, percolator, phantompeakqualtools, picard, porechop, preseq, prinseqplusplus, prokka, purple, pychopper, pycoqc, qc3C, qorts, qualimap, quast, ribotish, rna_seqc, rockhopper, rsem, rseqc, salmon, sambamba, samblaster, samtools, sargasso, seqera_cli, seqfu, seqkit, seqtool, sequali, seqwho, seqyclean, sexdeterrmine, sickle, skewer, slamdunk, snippy, snpeff, snpsplit, software_versions, somalier, sompy, sortmerna, sourmash, spaceranger, stacks, star, supernova, sylphtax, telseq, theta2, tophat, trimmomatic, truvari, umicollapse, umitools, varscan2, vcftools, vep, verifybamid, vg, whatshap, xengsort, xenium, xenome
[2026-06-08 22:19:11,153] multiqc.report [DEBUG ] Summary of files that were skipped by the search: |skipped_module_specific_max_filesize: 187|, |skipped_no_match: 234|, |skipped_ignore_pattern: 4|
[2026-06-08 22:19:11,157] multiqc.core.exec_modules [DEBUG ] Running module: seqtool
[2026-06-08 22:19:11,160] multiqc [INFO ] Found 4 full_basics_stats files
[2026-06-08 22:19:11,304] multiqc.plots.plot [DEBUG ] merge_with_previous for seqtool_full_basic_stats_table: found old_data = False
[2026-06-08 22:19:11,304] multiqc.plots.plot [DEBUG ] merge_with_previous for seqtool_full_basic_stats_table: no old data or empty, using new data only
[2026-06-08 22:19:11,411] multiqc [INFO ] Found 4 depth stats files for all_targets
[2026-06-08 22:19:11,413] multiqc.plots.plot [DEBUG ] merge_with_previous for seqtool_depth_stats_xgen_exome_hyb_panel_v2_targets_hg38_AND_altera_v3_targets_postQC_hg38_AND_foresight_clarity_bed: found old_data = False
[2026-06-08 22:19:11,413] multiqc.plots.plot [DEBUG ] merge_with_previous for seqtool_depth_stats_xgen_exome_hyb_panel_v2_targets_hg38_AND_altera_v3_targets_postQC_hg38_AND_foresight_clarity_bed: no old data or empty, using new data only
[2026-06-08 22:19:11,427] multiqc [INFO ] Found 4 depth stats files for all_probes
[2026-06-08 22:19:11,429] multiqc.plots.plot [DEBUG ] merge_with_previous for seqtool_depth_stats_xgen_exome_hyb_panel_v2_AND_altera_v3_probes_short_hg38_AND_cdx_spike_custom30off4x_hg38_AND_foresight_clarity_footprint_bed: found old_data = False
[2026-06-08 22:19:11,429] multiqc.plots.plot [DEBUG ] merge_with_previous for seqtool_depth_stats_xgen_exome_hyb_panel_v2_AND_altera_v3_probes_short_hg38_AND_cdx_spike_custom30off4x_hg38_AND_foresight_clarity_footprint_bed: no old data or empty, using new data only
[2026-06-08 22:19:11,441] multiqc [INFO ] Found 4 depth stats files for boosted_depth
[2026-06-08 22:19:11,443] multiqc.plots.plot [DEBUG ] merge_with_previous for seqtool_depth_stats_altera_v3_targets_postQC_hg38_bed: found old_data = False
[2026-06-08 22:19:11,443] multiqc.plots.plot [DEBUG ] merge_with_previous for seqtool_depth_stats_altera_v3_targets_postQC_hg38_bed: no old data or empty, using new data only
[2026-06-08 22:19:11,455] multiqc [INFO ] Found 4 depth stats files for coding_depth
[2026-06-08 22:19:11,458] multiqc.plots.plot [DEBUG ] merge_with_previous for seqtool_depth_stats_altera_v3_targets_coding_postQC_hg38_bed: found old_data = False
[2026-06-08 22:19:11,458] multiqc.plots.plot [DEBUG ] merge_with_previous for seqtool_depth_stats_altera_v3_targets_coding_postQC_hg38_bed: no old data or empty, using new data only
[2026-06-08 22:19:11,472] multiqc [INFO ] Found 4 depth stats files for noncoding_depth
[2026-06-08 22:19:11,474] multiqc.plots.plot [DEBUG ] merge_with_previous for seqtool_depth_stats_altera_v3_targets_noncoding_postQC_hg38_bed: found old_data = False
[2026-06-08 22:19:11,474] multiqc.plots.plot [DEBUG ] merge_with_previous for seqtool_depth_stats_altera_v3_targets_noncoding_postQC_hg38_bed: no old data or empty, using new data only
[2026-06-08 22:19:11,487] multiqc [INFO ] Found 4 depth stats files for non_boosted_depth
[2026-06-08 22:19:11,490] multiqc.plots.plot [DEBUG ] merge_with_previous for seqtool_depth_stats_xgen_exome_hyb_panel_v2_targets_hg38_minus_altera_v3_targets_postQC_hg38_bed: found old_data = False
[2026-06-08 22:19:11,490] multiqc.plots.plot [DEBUG ] merge_with_previous for seqtool_depth_stats_xgen_exome_hyb_panel_v2_targets_hg38_minus_altera_v3_targets_postQC_hg38_bed: no old data or empty, using new data only
[2026-06-08 22:19:11,502] multiqc [INFO ] Found 4 depth stats files for hotspot_depth
[2026-06-08 22:19:11,504] multiqc.plots.plot [DEBUG ] merge_with_previous for seqtool_depth_stats_FINAL_hotspot_list_07302025_hg38_sorted_bed: found old_data = False
[2026-06-08 22:19:11,504] multiqc.plots.plot [DEBUG ] merge_with_previous for seqtool_depth_stats_FINAL_hotspot_list_07302025_hg38_sorted_bed: no old data or empty, using new data only
[2026-06-08 22:19:11,515] multiqc [INFO ] Found 4 depth stats files for foresight_depth
[2026-06-08 22:19:11,517] multiqc.plots.plot [DEBUG ] merge_with_previous for seqtool_depth_stats_foresight_clarity_targets_hg38_bed: found old_data = False
[2026-06-08 22:19:11,517] multiqc.plots.plot [DEBUG ] merge_with_previous for seqtool_depth_stats_foresight_clarity_targets_hg38_bed: no old data or empty, using new data only
[2026-06-08 22:19:11,525] multiqc [INFO ] Found 4 fragment size files
[2026-06-08 22:19:11,526] multiqc.plots.plot [DEBUG ] merge_with_previous for seqtool_fragment_size: found old_data = False
[2026-06-08 22:19:11,526] multiqc.plots.plot [DEBUG ] merge_with_previous for seqtool_fragment_size: no old data or empty, using new data only
[2026-06-08 22:19:11,537] multiqc [INFO ] Found 4 GC bias files for all_targets
[2026-06-08 22:19:11,541] multiqc [INFO ] Found 4 GC bias files for all_probes
[2026-06-08 22:19:11,545] multiqc [INFO ] Found 4 GC bias files for boosted_depth
[2026-06-08 22:19:11,549] multiqc [INFO ] Found 4 GC bias files for coding_depth
[2026-06-08 22:19:11,553] multiqc [INFO ] Found 4 GC bias files for noncoding_depth
[2026-06-08 22:19:11,557] multiqc [INFO ] Found 4 GC bias files for non_boosted_depth
[2026-06-08 22:19:11,562] multiqc [INFO ] Found 4 GC bias files for hotspot_depth
[2026-06-08 22:19:11,566] multiqc [INFO ] Found 4 GC bias files for foresight_depth
[2026-06-08 22:19:11,571] multiqc.plots.plot [DEBUG ] merge_with_previous for seqtool_gc_bias: found old_data = False
[2026-06-08 22:19:11,571] multiqc.plots.plot [DEBUG ] merge_with_previous for seqtool_gc_bias: no old data or empty, using new data only
[2026-06-08 22:19:11,576] multiqc.core.exec_modules [DEBUG ] Running module: custom_content
[2026-06-08 22:19:11,584] multiqc.core.exec_modules [DEBUG ] No samples found: custom_content
[2026-06-08 22:19:11,584] multiqc.core.exec_modules [DEBUG ] Running module: mosdepth
[2026-06-08 22:19:11,592] multiqc.config [DEBUG ] Using default coverage thresholds: 1, 5, 10, 30, 50
[2026-06-08 22:19:11,595] multiqc.config [DEBUG ] Using default coverage thresholds: 1, 5, 10, 30, 50
[2026-06-08 22:19:11,598] multiqc.modules.mosdepth.mosdepth [INFO ] Found reports for 4 samples
[2026-06-08 22:19:11,598] multiqc.report [DEBUG ] Wrote data file mosdepth_cumcov_dist.txt
[2026-06-08 22:19:11,599] multiqc.report [DEBUG ] Wrote data file mosdepth_cumcov_dist.json
[2026-06-08 22:19:11,599] multiqc.plots.plot [DEBUG ] merge_with_previous for mosdepth-cumcoverage-dist-id: found old_data = False
[2026-06-08 22:19:11,599] multiqc.plots.plot [DEBUG ] merge_with_previous for mosdepth-cumcoverage-dist-id: no old data or empty, using new data only
[2026-06-08 22:19:11,605] multiqc.report [DEBUG ] Wrote data file mosdepth_cov_dist.txt
[2026-06-08 22:19:11,605] multiqc.report [DEBUG ] Wrote data file mosdepth_cov_dist.json
[2026-06-08 22:19:11,605] multiqc.report [DEBUG ] Wrote data file mosdepth_perchrom.txt
[2026-06-08 22:19:11,606] multiqc.report [DEBUG ] Wrote data file mosdepth_perchrom.json
[2026-06-08 22:19:11,606] multiqc.plots.plot [DEBUG ] merge_with_previous for mosdepth-coverage-per-contig-multi: found old_data = False
[2026-06-08 22:19:11,606] multiqc.plots.plot [DEBUG ] merge_with_previous for mosdepth-coverage-per-contig-multi: no old data or empty, using new data only
[2026-06-08 22:19:11,610] multiqc.plots.plot [DEBUG ] merge_with_previous for mosdepth-xy-coverage-plot: found old_data = False
[2026-06-08 22:19:11,610] multiqc.plots.plot [DEBUG ] merge_with_previous for mosdepth-xy-coverage-plot: no old data or empty, using new data only
[2026-06-08 22:19:11,618] multiqc.config [DEBUG ] Using default coverage thresholds: 1, 5, 10, 30, 50
[2026-06-08 22:19:11,618] multiqc.base_module [DEBUG ] mosdepth: deleting attribute self.cfg
[2026-06-08 22:19:11,618] multiqc.core.exec_modules [DEBUG ] Running module: picard
[2026-06-08 22:19:11,640] multiqc.modules.picard.picard [DEBUG ] Running picard tool AlignmentSummaryMetrics
[2026-06-08 22:19:11,641] multiqc.report [DEBUG ] Wrote data file multiqc_picard_AlignmentSummaryMetrics.txt
[2026-06-08 22:19:11,642] multiqc.report [DEBUG ] Wrote data file multiqc_picard_AlignmentSummaryMetrics.json
[2026-06-08 22:19:11,642] multiqc.plots.plot [DEBUG ] merge_with_previous for picard_alignment_summary: found old_data = False
[2026-06-08 22:19:11,642] multiqc.plots.plot [DEBUG ] merge_with_previous for picard_alignment_summary: no old data or empty, using new data only
[2026-06-08 22:19:11,648] multiqc.plots.plot [DEBUG ] merge_with_previous for picard_alignment_readlength_plot: found old_data = False
[2026-06-08 22:19:11,648] multiqc.plots.plot [DEBUG ] merge_with_previous for picard_alignment_readlength_plot: no old data or empty, using new data only
[2026-06-08 22:19:11,662] multiqc.modules.picard.picard [INFO ] Found 4 AlignmentSummaryMetrics reports
[2026-06-08 22:19:11,662] multiqc.modules.picard.picard [DEBUG ] Running picard tool BaseDistributionByCycleMetrics
[2026-06-08 22:19:11,662] multiqc.modules.picard.picard [DEBUG ] Running picard tool IlluminaBasecallingMetrics
[2026-06-08 22:19:11,662] multiqc.modules.picard.picard [DEBUG ] Running picard tool IlluminaLaneMetrics
[2026-06-08 22:19:11,662] multiqc.modules.picard.picard [DEBUG ] Running picard tool CrosscheckFingerprints
[2026-06-08 22:19:11,662] multiqc.modules.picard.picard [DEBUG ] Running picard tool ExtractIlluminaBarcodes
[2026-06-08 22:19:11,662] multiqc.modules.picard.picard [DEBUG ] Running picard tool GcBiasMetrics
[2026-06-08 22:19:11,662] multiqc.modules.picard.picard [DEBUG ] Running picard tool HsMetrics
[2026-06-08 22:19:11,665] multiqc.modules.picard.HsMetrics [DEBUG ] Duplicate sample name found in HCC1395_BL_altera_v3_targets_coding_postQC_hg38.sentieon.hs_metrics! Overwriting: HCC1395_BL
[2026-06-08 22:19:11,665] multiqc.modules.picard.HsMetrics [DEBUG ] Duplicate sample name found in HCC1395_BL_altera_v3_targets_noncoding_postQC_hg38.sentieon.hs_metrics! Overwriting: HCC1395_BL
[2026-06-08 22:19:11,665] multiqc.modules.picard.HsMetrics [DEBUG ] Duplicate sample name found in HCC1395_BL_altera_v3_targets_postQC_hg38.sentieon.hs_metrics! Overwriting: HCC1395_BL
[2026-06-08 22:19:11,665] multiqc.modules.picard.HsMetrics [DEBUG ] Duplicate sample name found in HCC1395_BL_foresight_clarity_targets_hg38.sentieon.hs_metrics! Overwriting: HCC1395_BL
[2026-06-08 22:19:11,666] multiqc.modules.picard.HsMetrics [DEBUG ] Duplicate sample name found in HCC1395_BL_xgen-exome-hyb-panel-v2-targets-hg38_AND_altera_v3_targets_postQC_hg38_AND_foresight_clarity.sentieon.hs_metrics! Overwriting: HCC1395_BL
[2026-06-08 22:19:11,666] multiqc.modules.picard.HsMetrics [DEBUG ] Duplicate sample name found in HCC1395_BL_xgen-exome-hyb-panel-v2-targets-hg38_minus_altera_v3_targets_postQC_hg38.sentieon.hs_metrics! Overwriting: HCC1395_BL
[2026-06-08 22:19:11,666] multiqc.modules.picard.HsMetrics [DEBUG ] Duplicate sample name found in HCC1395_BL_xgen-exome-hyb-panel-v2_AND_altera_v3_probes_short_hg38_AND_cdx_spike_custom30off4x_hg38_AND_foresight_clarity_footprint.sentieon.hs_metrics! Overwriting: HCC1395_BL
[2026-06-08 22:19:11,667] multiqc.modules.picard.HsMetrics [DEBUG ] Duplicate sample name found in HCC1395_tumor_altera_v3_targets_coding_postQC_hg38.sentieon.hs_metrics! Overwriting: HCC1395_tumor
[2026-06-08 22:19:11,667] multiqc.modules.picard.HsMetrics [DEBUG ] Duplicate sample name found in HCC1395_tumor_altera_v3_targets_noncoding_postQC_hg38.sentieon.hs_metrics! Overwriting: HCC1395_tumor
[2026-06-08 22:19:11,668] multiqc.modules.picard.HsMetrics [DEBUG ] Duplicate sample name found in HCC1395_tumor_altera_v3_targets_postQC_hg38.sentieon.hs_metrics! Overwriting: HCC1395_tumor
[2026-06-08 22:19:11,668] multiqc.modules.picard.HsMetrics [DEBUG ] Duplicate sample name found in HCC1395_tumor_foresight_clarity_targets_hg38.sentieon.hs_metrics! Overwriting: HCC1395_tumor
[2026-06-08 22:19:11,668] multiqc.modules.picard.HsMetrics [DEBUG ] Duplicate sample name found in HCC1395_tumor_xgen-exome-hyb-panel-v2-targets-hg38_AND_altera_v3_targets_postQC_hg38_AND_foresight_clarity.sentieon.hs_metrics! Overwriting: HCC1395_tumor
[2026-06-08 22:19:11,668] multiqc.modules.picard.HsMetrics [DEBUG ] Duplicate sample name found in HCC1395_tumor_xgen-exome-hyb-panel-v2-targets-hg38_minus_altera_v3_targets_postQC_hg38.sentieon.hs_metrics! Overwriting: HCC1395_tumor
[2026-06-08 22:19:11,669] multiqc.modules.picard.HsMetrics [DEBUG ] Duplicate sample name found in HCC1395_tumor_xgen-exome-hyb-panel-v2_AND_altera_v3_probes_short_hg38_AND_cdx_spike_custom30off4x_hg38_AND_foresight_clarity_footprint.sentieon.hs_metrics! Overwriting: HCC1395_tumor
[2026-06-08 22:19:11,669] multiqc.modules.picard.HsMetrics [DEBUG ] Duplicate sample name found in Sig_18_Blood_altera_v3_targets_coding_postQC_hg38.sentieon.hs_metrics! Overwriting: Sig_18_Blood
[2026-06-08 22:19:11,670] multiqc.modules.picard.HsMetrics [DEBUG ] Duplicate sample name found in Sig_18_Blood_altera_v3_targets_noncoding_postQC_hg38.sentieon.hs_metrics! Overwriting: Sig_18_Blood
[2026-06-08 22:19:11,670] multiqc.modules.picard.HsMetrics [DEBUG ] Duplicate sample name found in Sig_18_Blood_altera_v3_targets_postQC_hg38.sentieon.hs_metrics! Overwriting: Sig_18_Blood
[2026-06-08 22:19:11,670] multiqc.modules.picard.HsMetrics [DEBUG ] Duplicate sample name found in Sig_18_Blood_foresight_clarity_targets_hg38.sentieon.hs_metrics! Overwriting: Sig_18_Blood
[2026-06-08 22:19:11,670] multiqc.modules.picard.HsMetrics [DEBUG ] Duplicate sample name found in Sig_18_Blood_xgen-exome-hyb-panel-v2-targets-hg38_AND_altera_v3_targets_postQC_hg38_AND_foresight_clarity.sentieon.hs_metrics! Overwriting: Sig_18_Blood
[2026-06-08 22:19:11,671] multiqc.modules.picard.HsMetrics [DEBUG ] Duplicate sample name found in Sig_18_Blood_xgen-exome-hyb-panel-v2-targets-hg38_minus_altera_v3_targets_postQC_hg38.sentieon.hs_metrics! Overwriting: Sig_18_Blood
[2026-06-08 22:19:11,671] multiqc.modules.picard.HsMetrics [DEBUG ] Duplicate sample name found in Sig_18_Blood_xgen-exome-hyb-panel-v2_AND_altera_v3_probes_short_hg38_AND_cdx_spike_custom30off4x_hg38_AND_foresight_clarity_footprint.sentieon.hs_metrics! Overwriting: Sig_18_Blood
[2026-06-08 22:19:11,672] multiqc.modules.picard.HsMetrics [DEBUG ] Duplicate sample name found in Sig_18_tissue_altera_v3_targets_coding_postQC_hg38.sentieon.hs_metrics! Overwriting: Sig_18_tissue
[2026-06-08 22:19:11,672] multiqc.modules.picard.HsMetrics [DEBUG ] Duplicate sample name found in Sig_18_tissue_altera_v3_targets_noncoding_postQC_hg38.sentieon.hs_metrics! Overwriting: Sig_18_tissue
[2026-06-08 22:19:11,672] multiqc.modules.picard.HsMetrics [DEBUG ] Duplicate sample name found in Sig_18_tissue_altera_v3_targets_postQC_hg38.sentieon.hs_metrics! Overwriting: Sig_18_tissue
[2026-06-08 22:19:11,673] multiqc.modules.picard.HsMetrics [DEBUG ] Duplicate sample name found in Sig_18_tissue_foresight_clarity_targets_hg38.sentieon.hs_metrics! Overwriting: Sig_18_tissue
[2026-06-08 22:19:11,673] multiqc.modules.picard.HsMetrics [DEBUG ] Duplicate sample name found in Sig_18_tissue_xgen-exome-hyb-panel-v2-targets-hg38_AND_altera_v3_targets_postQC_hg38_AND_foresight_clarity.sentieon.hs_metrics! Overwriting: Sig_18_tissue
[2026-06-08 22:19:11,673] multiqc.modules.picard.HsMetrics [DEBUG ] Duplicate sample name found in Sig_18_tissue_xgen-exome-hyb-panel-v2-targets-hg38_minus_altera_v3_targets_postQC_hg38.sentieon.hs_metrics! Overwriting: Sig_18_tissue
[2026-06-08 22:19:11,673] multiqc.modules.picard.HsMetrics [DEBUG ] Duplicate sample name found in Sig_18_tissue_xgen-exome-hyb-panel-v2_AND_altera_v3_probes_short_hg38_AND_cdx_spike_custom30off4x_hg38_AND_foresight_clarity_footprint.sentieon.hs_metrics! Overwriting: Sig_18_tissue
[2026-06-08 22:19:11,674] multiqc.report [DEBUG ] Wrote data file multiqc_picard_HsMetrics.txt
[2026-06-08 22:19:11,675] multiqc.report [DEBUG ] Wrote data file multiqc_picard_HsMetrics.json
[2026-06-08 22:19:11,675] multiqc.plots.table_object [DEBUG ] Table key 'HET_SNP_Q' not found in data for 'picard_hsmetrics_table'. Skipping. Check for possible typos between data keys and header keys
[2026-06-08 22:19:11,675] multiqc.plots.table_object [DEBUG ] Table key 'HET_SNP_SENSITIVITY' not found in data for 'picard_hsmetrics_table'. Skipping. Check for possible typos between data keys and header keys
[2026-06-08 22:19:11,675] multiqc.plots.table_object [DEBUG ] Table key 'PF_BASES' not found in data for 'picard_hsmetrics_table'. Skipping. Check for possible typos between data keys and header keys
[2026-06-08 22:19:11,675] multiqc.plots.table_object [DEBUG ] Table key 'MAX_TARGET_COVERAGE' not found in data for 'picard_hsmetrics_table'. Skipping. Check for possible typos between data keys and header keys
[2026-06-08 22:19:11,675] multiqc.plots.table_object [DEBUG ] Table key 'MEDIAN_TARGET_COVERAGE' not found in data for 'picard_hsmetrics_table'. Skipping. Check for possible typos between data keys and header keys
[2026-06-08 22:19:11,679] multiqc.plots.plot [DEBUG ] merge_with_previous for picard_hsmetrics_table: found old_data = False
[2026-06-08 22:19:11,679] multiqc.plots.plot [DEBUG ] merge_with_previous for picard_hsmetrics_table: no old data or empty, using new data only
[2026-06-08 22:19:11,688] multiqc.plots.plot [DEBUG ] merge_with_previous for picard_percentage_target_bases: found old_data = False
[2026-06-08 22:19:11,688] multiqc.plots.plot [DEBUG ] merge_with_previous for picard_percentage_target_bases: no old data or empty, using new data only
[2026-06-08 22:19:11,693] multiqc.plots.plot [DEBUG ] merge_with_previous for picard_hybrid_selection_penalty: found old_data = False
[2026-06-08 22:19:11,693] multiqc.plots.plot [DEBUG ] merge_with_previous for picard_hybrid_selection_penalty: no old data or empty, using new data only
[2026-06-08 22:19:11,772] multiqc.modules.picard.picard [INFO ] Found 4 HsMetrics reports
[2026-06-08 22:19:11,772] multiqc.modules.picard.picard [DEBUG ] Running picard tool InsertSizeMetrics
[2026-06-08 22:19:11,778] multiqc.report [DEBUG ] Wrote data file multiqc_picard_insertSize.txt
[2026-06-08 22:19:11,778] multiqc.report [DEBUG ] Wrote data file multiqc_picard_insertSize.json
[2026-06-08 22:19:11,783] multiqc.plots.plot [DEBUG ] merge_with_previous for picard_insert_size: found old_data = False
[2026-06-08 22:19:11,783] multiqc.plots.plot [DEBUG ] merge_with_previous for picard_insert_size: no old data or empty, using new data only
[2026-06-08 22:19:11,792] multiqc.modules.picard.picard [INFO ] Found 4 InsertSizeMetrics reports
[2026-06-08 22:19:11,792] multiqc.modules.picard.picard [DEBUG ] Running picard tool MarkDuplicates
[2026-06-08 22:19:11,793] multiqc.report [DEBUG ] Wrote data file multiqc_picard_dups.txt
[2026-06-08 22:19:11,794] multiqc.report [DEBUG ] Wrote data file multiqc_picard_dups.json
[2026-06-08 22:19:11,794] multiqc.plots.plot [DEBUG ] merge_with_previous for picard_deduplication: found old_data = False
[2026-06-08 22:19:11,794] multiqc.plots.plot [DEBUG ] merge_with_previous for picard_deduplication: no old data or empty, using new data only
[2026-06-08 22:19:11,801] multiqc.modules.picard.picard [INFO ] Found 4 MarkDuplicates reports
[2026-06-08 22:19:11,801] multiqc.modules.picard.picard [DEBUG ] Running picard tool MarkIlluminaAdapters
[2026-06-08 22:19:11,801] multiqc.report [DEBUG ] Wrote data file picard_MarkIlluminaAdapters_histogram.txt
[2026-06-08 22:19:11,801] multiqc.report [DEBUG ] Wrote data file picard_MarkIlluminaAdapters_histogram.json
[2026-06-08 22:19:11,801] multiqc.modules.picard.picard [DEBUG ] Running picard tool OxoGMetrics
[2026-06-08 22:19:11,801] multiqc.modules.picard.picard [DEBUG ] Running picard tool QualityByCycleMetrics
[2026-06-08 22:19:11,803] multiqc.report [DEBUG ] Wrote data file picard_MeanQualityByCycle_histogram.txt
[2026-06-08 22:19:11,803] multiqc.report [DEBUG ] Wrote data file picard_MeanQualityByCycle_histogram.json
[2026-06-08 22:19:11,807] multiqc.report [DEBUG ] Wrote data file picard_MeanQualityByCycle_histogram_1.txt
[2026-06-08 22:19:11,812] multiqc.report [DEBUG ] Wrote data file picard_MeanQualityByCycle_histogram_1.json
[2026-06-08 22:19:11,813] multiqc.report [DEBUG ] Wrote data file multiqc_picard_quality_by_cycle.txt
[2026-06-08 22:19:11,818] multiqc.report [DEBUG ] Wrote data file multiqc_picard_quality_by_cycle.json
[2026-06-08 22:19:11,820] multiqc.plots.plot [DEBUG ] merge_with_previous for picard_quality_by_cycle: found old_data = False
[2026-06-08 22:19:11,820] multiqc.plots.plot [DEBUG ] merge_with_previous for picard_quality_by_cycle: no old data or empty, using new data only
[2026-06-08 22:19:11,826] multiqc.modules.picard.picard [INFO ] Found 4 QualityByCycleMetrics reports
[2026-06-08 22:19:11,826] multiqc.modules.picard.picard [DEBUG ] Running picard tool QualityScoreDistributionMetrics
[2026-06-08 22:19:11,827] multiqc.report [DEBUG ] Wrote data file picard_QualityScoreDistribution_histogram.txt
[2026-06-08 22:19:11,827] multiqc.report [DEBUG ] Wrote data file picard_QualityScoreDistribution_histogram.json
[2026-06-08 22:19:11,827] multiqc.report [DEBUG ] Wrote data file multiqc_picard_quality_score_distribution.txt
[2026-06-08 22:19:11,828] multiqc.report [DEBUG ] Wrote data file multiqc_picard_quality_score_distribution.json
[2026-06-08 22:19:11,828] multiqc.plots.plot [DEBUG ] merge_with_previous for picard_quality_score_distribution: found old_data = False
[2026-06-08 22:19:11,828] multiqc.plots.plot [DEBUG ] merge_with_previous for picard_quality_score_distribution: no old data or empty, using new data only
[2026-06-08 22:19:11,833] multiqc.modules.picard.picard [INFO ] Found 4 QualityScoreDistributionMetrics reports
[2026-06-08 22:19:11,833] multiqc.modules.picard.picard [DEBUG ] Running picard tool QualityYieldMetrics
[2026-06-08 22:19:11,833] multiqc.modules.picard.picard [DEBUG ] Running picard tool RnaSeqMetrics
[2026-06-08 22:19:11,833] multiqc.modules.picard.picard [DEBUG ] Running picard tool RrbsSummaryMetrics
[2026-06-08 22:19:11,833] multiqc.modules.picard.picard [DEBUG ] Running picard tool TargetedPcrMetrics
[2026-06-08 22:19:11,833] multiqc.modules.picard.picard [DEBUG ] Running picard tool ValidateSamFile
[2026-06-08 22:19:11,833] multiqc.modules.picard.picard [DEBUG ] Running picard tool VariantCallingMetrics
[2026-06-08 22:19:11,833] multiqc.modules.picard.picard [DEBUG ] Running picard tool WgsMetrics
[2026-06-08 22:19:11,833] multiqc.base_module [DEBUG ] picard: deleting attribute self.general_stats_headers
[2026-06-08 22:19:11,833] multiqc.base_module [DEBUG ] picard: deleting attribute self.general_stats_data
[2026-06-08 22:19:11,833] multiqc.base_module [DEBUG ] picard: deleting attribute self.samples_parsed_by_tool
[2026-06-08 22:19:11,833] multiqc.core.exec_modules [DEBUG ] Running module: samtools
[2026-06-08 22:19:11,844] multiqc.plots.plot [DEBUG ] merge_with_previous for samtools_alignment_plot: found old_data = False
[2026-06-08 22:19:11,845] multiqc.plots.plot [DEBUG ] merge_with_previous for samtools_alignment_plot: no old data or empty, using new data only
[2026-06-08 22:19:11,852] multiqc.plots.plot [DEBUG ] merge_with_previous for samtools-stats-dp: found old_data = False
[2026-06-08 22:19:11,852] multiqc.plots.plot [DEBUG ] merge_with_previous for samtools-stats-dp: no old data or empty, using new data only
[2026-06-08 22:19:11,861] multiqc.report [DEBUG ] Wrote data file multiqc_samtools_stats.txt
[2026-06-08 22:19:11,861] multiqc.report [DEBUG ] Wrote data file multiqc_samtools_stats.json
[2026-06-08 22:19:11,862] multiqc.modules.samtools.samtools [INFO ] Found 4 stats reports
[2026-06-08 22:19:11,862] multiqc.base_module [DEBUG ] samtools: deleting attribute self.samtools_idxstats
[2026-06-08 22:19:11,862] multiqc.core.exec_modules [DEBUG ] Running module: fastp
[2026-06-08 22:19:11,916] multiqc.modules.fastp.fastp [INFO ] Found 32 reports
[2026-06-08 22:19:11,916] multiqc.modules.fastp.fastp [DEBUG ] No duplication rate plot data: HCC1395_BL_S2_L006
[2026-06-08 22:19:11,916] multiqc.modules.fastp.fastp [DEBUG ] Read quality merged_and_filtered not found: HCC1395_BL_S2_L006
[2026-06-08 22:19:11,916] multiqc.modules.fastp.fastp [DEBUG ] Content curve data merged_and_filtered not found: HCC1395_BL_S2_L006
[2026-06-08 22:19:11,916] multiqc.modules.fastp.fastp [DEBUG ] Overrepresented sequences data merged_and_filtered not found: HCC1395_BL_S2_L006
[2026-06-08 22:19:11,916] multiqc.modules.fastp.fastp [DEBUG ] No duplication rate plot data: HCC1395_BL_S2_L007
[2026-06-08 22:19:11,916] multiqc.modules.fastp.fastp [DEBUG ] Read quality merged_and_filtered not found: HCC1395_BL_S2_L007
[2026-06-08 22:19:11,917] multiqc.modules.fastp.fastp [DEBUG ] Content curve data merged_and_filtered not found: HCC1395_BL_S2_L007
[2026-06-08 22:19:11,917] multiqc.modules.fastp.fastp [DEBUG ] Overrepresented sequences data merged_and_filtered not found: HCC1395_BL_S2_L007
[2026-06-08 22:19:11,917] multiqc.modules.fastp.fastp [DEBUG ] No duplication rate plot data: HCC1395_BL_S2_L008
[2026-06-08 22:19:11,917] multiqc.modules.fastp.fastp [DEBUG ] Read quality merged_and_filtered not found: HCC1395_BL_S2_L008
[2026-06-08 22:19:11,917] multiqc.modules.fastp.fastp [DEBUG ] Content curve data merged_and_filtered not found: HCC1395_BL_S2_L008
[2026-06-08 22:19:11,917] multiqc.modules.fastp.fastp [DEBUG ] Overrepresented sequences data merged_and_filtered not found: HCC1395_BL_S2_L008
[2026-06-08 22:19:11,917] multiqc.modules.fastp.fastp [DEBUG ] No duplication rate plot data: HCC1395_BL_S2_L003
[2026-06-08 22:19:11,917] multiqc.modules.fastp.fastp [DEBUG ] Read quality merged_and_filtered not found: HCC1395_BL_S2_L003
[2026-06-08 22:19:11,917] multiqc.modules.fastp.fastp [DEBUG ] Content curve data merged_and_filtered not found: HCC1395_BL_S2_L003
[2026-06-08 22:19:11,917] multiqc.modules.fastp.fastp [DEBUG ] Overrepresented sequences data merged_and_filtered not found: HCC1395_BL_S2_L003
[2026-06-08 22:19:11,917] multiqc.modules.fastp.fastp [DEBUG ] No duplication rate plot data: HCC1395_BL_S2_L004
[2026-06-08 22:19:11,917] multiqc.modules.fastp.fastp [DEBUG ] Read quality merged_and_filtered not found: HCC1395_BL_S2_L004
[2026-06-08 22:19:11,917] multiqc.modules.fastp.fastp [DEBUG ] Content curve data merged_and_filtered not found: HCC1395_BL_S2_L004
[2026-06-08 22:19:11,917] multiqc.modules.fastp.fastp [DEBUG ] Overrepresented sequences data merged_and_filtered not found: HCC1395_BL_S2_L004
[2026-06-08 22:19:11,918] multiqc.modules.fastp.fastp [DEBUG ] No duplication rate plot data: HCC1395_BL_S2_L002
[2026-06-08 22:19:11,918] multiqc.modules.fastp.fastp [DEBUG ] Read quality merged_and_filtered not found: HCC1395_BL_S2_L002
[2026-06-08 22:19:11,918] multiqc.modules.fastp.fastp [DEBUG ] Content curve data merged_and_filtered not found: HCC1395_BL_S2_L002
[2026-06-08 22:19:11,918] multiqc.modules.fastp.fastp [DEBUG ] Overrepresented sequences data merged_and_filtered not found: HCC1395_BL_S2_L002
[2026-06-08 22:19:11,918] multiqc.modules.fastp.fastp [DEBUG ] No duplication rate plot data: HCC1395_BL_S2_L005
[2026-06-08 22:19:11,918] multiqc.modules.fastp.fastp [DEBUG ] Read quality merged_and_filtered not found: HCC1395_BL_S2_L005
[2026-06-08 22:19:11,918] multiqc.modules.fastp.fastp [DEBUG ] Content curve data merged_and_filtered not found: HCC1395_BL_S2_L005
[2026-06-08 22:19:11,918] multiqc.modules.fastp.fastp [DEBUG ] Overrepresented sequences data merged_and_filtered not found: HCC1395_BL_S2_L005
[2026-06-08 22:19:11,918] multiqc.modules.fastp.fastp [DEBUG ] No duplication rate plot data: HCC1395_BL_S2_L001
[2026-06-08 22:19:11,918] multiqc.modules.fastp.fastp [DEBUG ] Read quality merged_and_filtered not found: HCC1395_BL_S2_L001
[2026-06-08 22:19:11,918] multiqc.modules.fastp.fastp [DEBUG ] Content curve data merged_and_filtered not found: HCC1395_BL_S2_L001
[2026-06-08 22:19:11,918] multiqc.modules.fastp.fastp [DEBUG ] Overrepresented sequences data merged_and_filtered not found: HCC1395_BL_S2_L001
[2026-06-08 22:19:11,918] multiqc.modules.fastp.fastp [DEBUG ] No duplication rate plot data: HCC1395_tumor_S1_L002
[2026-06-08 22:19:11,919] multiqc.modules.fastp.fastp [DEBUG ] Read quality merged_and_filtered not found: HCC1395_tumor_S1_L002
[2026-06-08 22:19:11,919] multiqc.modules.fastp.fastp [DEBUG ] Content curve data merged_and_filtered not found: HCC1395_tumor_S1_L002
[2026-06-08 22:19:11,919] multiqc.modules.fastp.fastp [DEBUG ] Overrepresented sequences data merged_and_filtered not found: HCC1395_tumor_S1_L002
[2026-06-08 22:19:11,919] multiqc.modules.fastp.fastp [DEBUG ] No duplication rate plot data: HCC1395_tumor_S1_L008
[2026-06-08 22:19:11,919] multiqc.modules.fastp.fastp [DEBUG ] Read quality merged_and_filtered not found: HCC1395_tumor_S1_L008
[2026-06-08 22:19:11,919] multiqc.modules.fastp.fastp [DEBUG ] Content curve data merged_and_filtered not found: HCC1395_tumor_S1_L008
[2026-06-08 22:19:11,919] multiqc.modules.fastp.fastp [DEBUG ] Overrepresented sequences data merged_and_filtered not found: HCC1395_tumor_S1_L008
[2026-06-08 22:19:11,919] multiqc.modules.fastp.fastp [DEBUG ] No duplication rate plot data: HCC1395_tumor_S1_L004
[2026-06-08 22:19:11,919] multiqc.modules.fastp.fastp [DEBUG ] Read quality merged_and_filtered not found: HCC1395_tumor_S1_L004
[2026-06-08 22:19:11,919] multiqc.modules.fastp.fastp [DEBUG ] Content curve data merged_and_filtered not found: HCC1395_tumor_S1_L004
[2026-06-08 22:19:11,919] multiqc.modules.fastp.fastp [DEBUG ] Overrepresented sequences data merged_and_filtered not found: HCC1395_tumor_S1_L004
[2026-06-08 22:19:11,919] multiqc.modules.fastp.fastp [DEBUG ] No duplication rate plot data: HCC1395_tumor_S1_L003
[2026-06-08 22:19:11,920] multiqc.modules.fastp.fastp [DEBUG ] Read quality merged_and_filtered not found: HCC1395_tumor_S1_L003
[2026-06-08 22:19:11,920] multiqc.modules.fastp.fastp [DEBUG ] Content curve data merged_and_filtered not found: HCC1395_tumor_S1_L003
[2026-06-08 22:19:11,920] multiqc.modules.fastp.fastp [DEBUG ] Overrepresented sequences data merged_and_filtered not found: HCC1395_tumor_S1_L003
[2026-06-08 22:19:11,920] multiqc.modules.fastp.fastp [DEBUG ] No duplication rate plot data: HCC1395_tumor_S1_L007
[2026-06-08 22:19:11,920] multiqc.modules.fastp.fastp [DEBUG ] Read quality merged_and_filtered not found: HCC1395_tumor_S1_L007
[2026-06-08 22:19:11,920] multiqc.modules.fastp.fastp [DEBUG ] Content curve data merged_and_filtered not found: HCC1395_tumor_S1_L007
[2026-06-08 22:19:11,920] multiqc.modules.fastp.fastp [DEBUG ] Overrepresented sequences data merged_and_filtered not found: HCC1395_tumor_S1_L007
[2026-06-08 22:19:11,920] multiqc.modules.fastp.fastp [DEBUG ] No duplication rate plot data: HCC1395_tumor_S1_L006
[2026-06-08 22:19:11,920] multiqc.modules.fastp.fastp [DEBUG ] Read quality merged_and_filtered not found: HCC1395_tumor_S1_L006
[2026-06-08 22:19:11,920] multiqc.modules.fastp.fastp [DEBUG ] Content curve data merged_and_filtered not found: HCC1395_tumor_S1_L006
[2026-06-08 22:19:11,920] multiqc.modules.fastp.fastp [DEBUG ] Overrepresented sequences data merged_and_filtered not found: HCC1395_tumor_S1_L006
[2026-06-08 22:19:11,920] multiqc.modules.fastp.fastp [DEBUG ] No duplication rate plot data: HCC1395_tumor_S1_L001
[2026-06-08 22:19:11,920] multiqc.modules.fastp.fastp [DEBUG ] Read quality merged_and_filtered not found: HCC1395_tumor_S1_L001
[2026-06-08 22:19:11,920] multiqc.modules.fastp.fastp [DEBUG ] Content curve data merged_and_filtered not found: HCC1395_tumor_S1_L001
[2026-06-08 22:19:11,921] multiqc.modules.fastp.fastp [DEBUG ] Overrepresented sequences data merged_and_filtered not found: HCC1395_tumor_S1_L001
[2026-06-08 22:19:11,921] multiqc.modules.fastp.fastp [DEBUG ] No duplication rate plot data: HCC1395_tumor_S1_L005
[2026-06-08 22:19:11,921] multiqc.modules.fastp.fastp [DEBUG ] Read quality merged_and_filtered not found: HCC1395_tumor_S1_L005
[2026-06-08 22:19:11,921] multiqc.modules.fastp.fastp [DEBUG ] Content curve data merged_and_filtered not found: HCC1395_tumor_S1_L005
[2026-06-08 22:19:11,921] multiqc.modules.fastp.fastp [DEBUG ] Overrepresented sequences data merged_and_filtered not found: HCC1395_tumor_S1_L005
[2026-06-08 22:19:11,921] multiqc.modules.fastp.fastp [DEBUG ] No duplication rate plot data: Sig_18_Blood_S4_L003
[2026-06-08 22:19:11,921] multiqc.modules.fastp.fastp [DEBUG ] Read quality merged_and_filtered not found: Sig_18_Blood_S4_L003
[2026-06-08 22:19:11,921] multiqc.modules.fastp.fastp [DEBUG ] Content curve data merged_and_filtered not found: Sig_18_Blood_S4_L003
[2026-06-08 22:19:11,921] multiqc.modules.fastp.fastp [DEBUG ] Overrepresented sequences data merged_and_filtered not found: Sig_18_Blood_S4_L003
[2026-06-08 22:19:11,921] multiqc.modules.fastp.fastp [DEBUG ] No duplication rate plot data: Sig_18_Blood_S4_L005
[2026-06-08 22:19:11,921] multiqc.modules.fastp.fastp [DEBUG ] Read quality merged_and_filtered not found: Sig_18_Blood_S4_L005
[2026-06-08 22:19:11,921] multiqc.modules.fastp.fastp [DEBUG ] Content curve data merged_and_filtered not found: Sig_18_Blood_S4_L005
[2026-06-08 22:19:11,921] multiqc.modules.fastp.fastp [DEBUG ] Overrepresented sequences data merged_and_filtered not found: Sig_18_Blood_S4_L005
[2026-06-08 22:19:11,921] multiqc.modules.fastp.fastp [DEBUG ] No duplication rate plot data: Sig_18_Blood_S4_L006
[2026-06-08 22:19:11,922] multiqc.modules.fastp.fastp [DEBUG ] Read quality merged_and_filtered not found: Sig_18_Blood_S4_L006
[2026-06-08 22:19:11,922] multiqc.modules.fastp.fastp [DEBUG ] Content curve data merged_and_filtered not found: Sig_18_Blood_S4_L006
[2026-06-08 22:19:11,922] multiqc.modules.fastp.fastp [DEBUG ] Overrepresented sequences data merged_and_filtered not found: Sig_18_Blood_S4_L006
[2026-06-08 22:19:11,922] multiqc.modules.fastp.fastp [DEBUG ] No duplication rate plot data: Sig_18_Blood_S4_L002
[2026-06-08 22:19:11,922] multiqc.modules.fastp.fastp [DEBUG ] Read quality merged_and_filtered not found: Sig_18_Blood_S4_L002
[2026-06-08 22:19:11,922] multiqc.modules.fastp.fastp [DEBUG ] Content curve data merged_and_filtered not found: Sig_18_Blood_S4_L002
[2026-06-08 22:19:11,922] multiqc.modules.fastp.fastp [DEBUG ] Overrepresented sequences data merged_and_filtered not found: Sig_18_Blood_S4_L002
[2026-06-08 22:19:11,922] multiqc.modules.fastp.fastp [DEBUG ] No duplication rate plot data: Sig_18_Blood_S4_L007
[2026-06-08 22:19:11,922] multiqc.modules.fastp.fastp [DEBUG ] Read quality merged_and_filtered not found: Sig_18_Blood_S4_L007
[2026-06-08 22:19:11,922] multiqc.modules.fastp.fastp [DEBUG ] Content curve data merged_and_filtered not found: Sig_18_Blood_S4_L007
[2026-06-08 22:19:11,922] multiqc.modules.fastp.fastp [DEBUG ] Overrepresented sequences data merged_and_filtered not found: Sig_18_Blood_S4_L007
[2026-06-08 22:19:11,922] multiqc.modules.fastp.fastp [DEBUG ] No duplication rate plot data: Sig_18_Blood_S4_L008
[2026-06-08 22:19:11,923] multiqc.modules.fastp.fastp [DEBUG ] Read quality merged_and_filtered not found: Sig_18_Blood_S4_L008
[2026-06-08 22:19:11,923] multiqc.modules.fastp.fastp [DEBUG ] Content curve data merged_and_filtered not found: Sig_18_Blood_S4_L008
[2026-06-08 22:19:11,923] multiqc.modules.fastp.fastp [DEBUG ] Overrepresented sequences data merged_and_filtered not found: Sig_18_Blood_S4_L008
[2026-06-08 22:19:11,923] multiqc.modules.fastp.fastp [DEBUG ] No duplication rate plot data: Sig_18_Blood_S4_L004
[2026-06-08 22:19:11,923] multiqc.modules.fastp.fastp [DEBUG ] Read quality merged_and_filtered not found: Sig_18_Blood_S4_L004
[2026-06-08 22:19:11,923] multiqc.modules.fastp.fastp [DEBUG ] Content curve data merged_and_filtered not found: Sig_18_Blood_S4_L004
[2026-06-08 22:19:11,923] multiqc.modules.fastp.fastp [DEBUG ] Overrepresented sequences data merged_and_filtered not found: Sig_18_Blood_S4_L004
[2026-06-08 22:19:11,923] multiqc.modules.fastp.fastp [DEBUG ] No duplication rate plot data: Sig_18_Blood_S4_L001
[2026-06-08 22:19:11,923] multiqc.modules.fastp.fastp [DEBUG ] Read quality merged_and_filtered not found: Sig_18_Blood_S4_L001
[2026-06-08 22:19:11,923] multiqc.modules.fastp.fastp [DEBUG ] Content curve data merged_and_filtered not found: Sig_18_Blood_S4_L001
[2026-06-08 22:19:11,923] multiqc.modules.fastp.fastp [DEBUG ] Overrepresented sequences data merged_and_filtered not found: Sig_18_Blood_S4_L001
[2026-06-08 22:19:11,923] multiqc.modules.fastp.fastp [DEBUG ] No duplication rate plot data: Sig_18_tissue_S3_L002
[2026-06-08 22:19:11,923] multiqc.modules.fastp.fastp [DEBUG ] Read quality merged_and_filtered not found: Sig_18_tissue_S3_L002
[2026-06-08 22:19:11,924] multiqc.modules.fastp.fastp [DEBUG ] Content curve data merged_and_filtered not found: Sig_18_tissue_S3_L002
[2026-06-08 22:19:11,924] multiqc.modules.fastp.fastp [DEBUG ] Overrepresented sequences data merged_and_filtered not found: Sig_18_tissue_S3_L002
[2026-06-08 22:19:11,924] multiqc.modules.fastp.fastp [DEBUG ] No duplication rate plot data: Sig_18_tissue_S3_L008
[2026-06-08 22:19:11,924] multiqc.modules.fastp.fastp [DEBUG ] Read quality merged_and_filtered not found: Sig_18_tissue_S3_L008
[2026-06-08 22:19:11,924] multiqc.modules.fastp.fastp [DEBUG ] Content curve data merged_and_filtered not found: Sig_18_tissue_S3_L008
[2026-06-08 22:19:11,924] multiqc.modules.fastp.fastp [DEBUG ] Overrepresented sequences data merged_and_filtered not found: Sig_18_tissue_S3_L008
[2026-06-08 22:19:11,924] multiqc.modules.fastp.fastp [DEBUG ] No duplication rate plot data: Sig_18_tissue_S3_L005
[2026-06-08 22:19:11,924] multiqc.modules.fastp.fastp [DEBUG ] Read quality merged_and_filtered not found: Sig_18_tissue_S3_L005
[2026-06-08 22:19:11,924] multiqc.modules.fastp.fastp [DEBUG ] Content curve data merged_and_filtered not found: Sig_18_tissue_S3_L005
[2026-06-08 22:19:11,924] multiqc.modules.fastp.fastp [DEBUG ] Overrepresented sequences data merged_and_filtered not found: Sig_18_tissue_S3_L005
[2026-06-08 22:19:11,924] multiqc.modules.fastp.fastp [DEBUG ] No duplication rate plot data: Sig_18_tissue_S3_L004
[2026-06-08 22:19:11,924] multiqc.modules.fastp.fastp [DEBUG ] Read quality merged_and_filtered not found: Sig_18_tissue_S3_L004
[2026-06-08 22:19:11,925] multiqc.modules.fastp.fastp [DEBUG ] Content curve data merged_and_filtered not found: Sig_18_tissue_S3_L004
[2026-06-08 22:19:11,925] multiqc.modules.fastp.fastp [DEBUG ] Overrepresented sequences data merged_and_filtered not found: Sig_18_tissue_S3_L004
[2026-06-08 22:19:11,925] multiqc.modules.fastp.fastp [DEBUG ] No duplication rate plot data: Sig_18_tissue_S3_L003
[2026-06-08 22:19:11,925] multiqc.modules.fastp.fastp [DEBUG ] Read quality merged_and_filtered not found: Sig_18_tissue_S3_L003
[2026-06-08 22:19:11,925] multiqc.modules.fastp.fastp [DEBUG ] Content curve data merged_and_filtered not found: Sig_18_tissue_S3_L003
[2026-06-08 22:19:11,925] multiqc.modules.fastp.fastp [DEBUG ] Overrepresented sequences data merged_and_filtered not found: Sig_18_tissue_S3_L003
[2026-06-08 22:19:11,925] multiqc.modules.fastp.fastp [DEBUG ] No duplication rate plot data: Sig_18_tissue_S3_L007
[2026-06-08 22:19:11,925] multiqc.modules.fastp.fastp [DEBUG ] Read quality merged_and_filtered not found: Sig_18_tissue_S3_L007
[2026-06-08 22:19:11,925] multiqc.modules.fastp.fastp [DEBUG ] Content curve data merged_and_filtered not found: Sig_18_tissue_S3_L007
[2026-06-08 22:19:11,925] multiqc.modules.fastp.fastp [DEBUG ] Overrepresented sequences data merged_and_filtered not found: Sig_18_tissue_S3_L007
[2026-06-08 22:19:11,925] multiqc.modules.fastp.fastp [DEBUG ] No duplication rate plot data: Sig_18_tissue_S3_L001
[2026-06-08 22:19:11,925] multiqc.modules.fastp.fastp [DEBUG ] Read quality merged_and_filtered not found: Sig_18_tissue_S3_L001
[2026-06-08 22:19:11,925] multiqc.modules.fastp.fastp [DEBUG ] Content curve data merged_and_filtered not found: Sig_18_tissue_S3_L001
[2026-06-08 22:19:11,925] multiqc.modules.fastp.fastp [DEBUG ] Overrepresented sequences data merged_and_filtered not found: Sig_18_tissue_S3_L001
[2026-06-08 22:19:11,925] multiqc.modules.fastp.fastp [DEBUG ] No duplication rate plot data: Sig_18_tissue_S3_L006
[2026-06-08 22:19:11,926] multiqc.modules.fastp.fastp [DEBUG ] Read quality merged_and_filtered not found: Sig_18_tissue_S3_L006
[2026-06-08 22:19:11,926] multiqc.modules.fastp.fastp [DEBUG ] Content curve data merged_and_filtered not found: Sig_18_tissue_S3_L006
[2026-06-08 22:19:11,926] multiqc.modules.fastp.fastp [DEBUG ] Overrepresented sequences data merged_and_filtered not found: Sig_18_tissue_S3_L006
[2026-06-08 22:19:12,004] multiqc.report [DEBUG ] Wrote data file multiqc_fastp.txt
[2026-06-08 22:19:12,258] multiqc.report [DEBUG ] Wrote data file multiqc_fastp.json
[2026-06-08 22:19:12,259] multiqc.plots.plot [DEBUG ] merge_with_previous for fastp_filtered_reads_plot: found old_data = False
[2026-06-08 22:19:12,259] multiqc.plots.plot [DEBUG ] merge_with_previous for fastp_filtered_reads_plot: no old data or empty, using new data only
[2026-06-08 22:19:12,273] multiqc.plots.plot [DEBUG ] merge_with_previous for fastp-duprates-plot: found old_data = False
[2026-06-08 22:19:12,273] multiqc.plots.plot [DEBUG ] merge_with_previous for fastp-duprates-plot: no old data or empty, using new data only
[2026-06-08 22:19:12,279] multiqc.plots.plot [DEBUG ] merge_with_previous for fastp-insert-size-plot: found old_data = False
[2026-06-08 22:19:12,279] multiqc.plots.plot [DEBUG ] merge_with_previous for fastp-insert-size-plot: no old data or empty, using new data only
[2026-06-08 22:19:12,314] multiqc.plots.plot [DEBUG ] merge_with_previous for fastp-seq-quality-plot: found old_data = False
[2026-06-08 22:19:12,314] multiqc.plots.plot [DEBUG ] merge_with_previous for fastp-seq-quality-plot: no old data or empty, using new data only
[2026-06-08 22:19:12,362] multiqc.plots.plot [DEBUG ] merge_with_previous for fastp-seq-content-gc-plot: found old_data = False
[2026-06-08 22:19:12,362] multiqc.plots.plot [DEBUG ] merge_with_previous for fastp-seq-content-gc-plot: no old data or empty, using new data only
[2026-06-08 22:19:12,409] multiqc.plots.plot [DEBUG ] merge_with_previous for fastp-seq-content-n-plot: found old_data = False
[2026-06-08 22:19:12,409] multiqc.plots.plot [DEBUG ] merge_with_previous for fastp-seq-content-n-plot: no old data or empty, using new data only
[2026-06-08 22:19:12,437] multiqc.plots.plot [DEBUG ] merge_with_previous for fastp_overrepresented_sequences_plot: found old_data = False
[2026-06-08 22:19:12,437] multiqc.plots.plot [DEBUG ] merge_with_previous for fastp_overrepresented_sequences_plot: no old data or empty, using new data only
[2026-06-08 22:19:12,437] multiqc.plots.table_object [DEBUG ] Table key 'samples' not found in data for 'fastp_top_overrepresented_sequences_table'. Skipping. Check for possible typos between data keys and header keys
[2026-06-08 22:19:12,437] multiqc.plots.table_object [DEBUG ] Table key 'total_count' not found in data for 'fastp_top_overrepresented_sequences_table'. Skipping. Check for possible typos between data keys and header keys
[2026-06-08 22:19:12,437] multiqc.plots.table_object [DEBUG ] Table key 'total_percent' not found in data for 'fastp_top_overrepresented_sequences_table'. Skipping. Check for possible typos between data keys and header keys
[2026-06-08 22:19:12,437] multiqc.plots.plot [DEBUG ] merge_with_previous for fastp_top_overrepresented_sequences_table: found old_data = False
[2026-06-08 22:19:12,437] multiqc.plots.plot [DEBUG ] merge_with_previous for fastp_top_overrepresented_sequences_table: no old data or empty, using new data only
[2026-06-08 22:19:12,438] multiqc.base_module [DEBUG ] fastp: deleting attribute self.fastp_data
[2026-06-08 22:19:12,438] multiqc.base_module [DEBUG ] fastp: deleting attribute self.fastp_duplication_plotdata
[2026-06-08 22:19:12,438] multiqc.base_module [DEBUG ] fastp: deleting attribute self.fastp_insert_size_data
[2026-06-08 22:19:12,438] multiqc.base_module [DEBUG ] fastp: deleting attribute self.fastp_all_data
[2026-06-08 22:19:12,444] multiqc.base_module [DEBUG ] fastp: deleting attribute self.fastp_qual_plotdata
[2026-06-08 22:19:12,444] multiqc.base_module [DEBUG ] fastp: deleting attribute self.fastp_gc_content_data
[2026-06-08 22:19:12,444] multiqc.base_module [DEBUG ] fastp: deleting attribute self.fastp_n_content_data
[2026-06-08 22:19:12,444] multiqc.base_module [DEBUG ] fastp: deleting attribute self.fastp_overrepresented_sequences
[2026-06-08 22:19:12,444] multiqc.core.exec_modules [DEBUG ] Running module: bclconvert
[2026-06-08 22:19:12,461] multiqc.modules.bclconvert.bclconvert [ERROR ] Found RunInfo.xml file in 75 but no Demux Stats file, skipping
[2026-06-08 22:19:12,461] multiqc.modules.bclconvert.bclconvert [ERROR ] Found RunInfo.xml file in 88 but no Demux Stats file, skipping
[2026-06-08 22:19:12,461] multiqc.modules.bclconvert.bclconvert [ERROR ] Found RunInfo.xml file in 62 but no Demux Stats file, skipping
[2026-06-08 22:19:12,461] multiqc.modules.bclconvert.bclconvert [ERROR ] Found RunInfo.xml file in 49 but no Demux Stats file, skipping
[2026-06-08 22:19:12,461] multiqc.modules.bclconvert.bclconvert [ERROR ] Found RunInfo.xml file in 101 but no Demux Stats file, skipping
[2026-06-08 22:19:12,461] multiqc.modules.bclconvert.bclconvert [ERROR ] Found RunInfo.xml file in 10 but no Demux Stats file, skipping
[2026-06-08 22:19:12,461] multiqc.modules.bclconvert.bclconvert [ERROR ] Found RunInfo.xml file in 23 but no Demux Stats file, skipping
[2026-06-08 22:19:12,461] multiqc.modules.bclconvert.bclconvert [ERROR ] Found RunInfo.xml file in 36 but no Demux Stats file, skipping
[2026-06-08 22:19:12,461] multiqc.modules.bclconvert.bclconvert [ERROR ] Found Demux Stats file in 17 but no RunInfo.xml file, skipping
[2026-06-08 22:19:12,461] multiqc.modules.bclconvert.bclconvert [ERROR ] Found Demux Stats file in 69 but no RunInfo.xml file, skipping
[2026-06-08 22:19:12,461] multiqc.modules.bclconvert.bclconvert [ERROR ] Found Demux Stats file in 56 but no RunInfo.xml file, skipping
[2026-06-08 22:19:12,461] multiqc.modules.bclconvert.bclconvert [ERROR ] Found Demux Stats file in 30 but no RunInfo.xml file, skipping
[2026-06-08 22:19:12,461] multiqc.modules.bclconvert.bclconvert [ERROR ] Found Demux Stats file in 82 but no RunInfo.xml file, skipping
[2026-06-08 22:19:12,461] multiqc.modules.bclconvert.bclconvert [ERROR ] Found Demux Stats file in 43 but no RunInfo.xml file, skipping
[2026-06-08 22:19:12,461] multiqc.modules.bclconvert.bclconvert [ERROR ] Found Demux Stats file in 95 but no RunInfo.xml file, skipping
[2026-06-08 22:19:12,461] multiqc.modules.bclconvert.bclconvert [ERROR ] Found Demux Stats file in 4 but no RunInfo.xml file, skipping
[2026-06-08 22:19:12,461] multiqc.core.exec_modules [DEBUG ] No samples found: bclconvert
[2026-06-08 22:19:12,461] multiqc.core.software_versions [DEBUG ] Reading software versions from config.software_versions
[2026-06-08 22:19:12,465] multiqc.report [DEBUG ] Wrote data file multiqc_software_versions.txt
[2026-06-08 22:19:12,465] multiqc.core.write_results [DEBUG ] Rendering plots
[2026-06-08 22:19:12,475] multiqc.report [DEBUG ] Wrote data file multiqc_seqtool_full_basic_stats_table_table.txt
[2026-06-08 22:19:12,475] multiqc.report [DEBUG ] Wrote data file multiqc_seqtool_full_basic_stats_table_table.json
[2026-06-08 22:19:12,481] multiqc.report [DEBUG ] Wrote data file multiqc_seqtool_depth_stats_xgen_exome_hyb_panel_v2_targets_hg38_AND_altera_v3_targets_postQC_hg38_AND_foresight_clarity_bed_table.txt
[2026-06-08 22:19:12,481] multiqc.report [DEBUG ] Wrote data file multiqc_seqtool_depth_stats_xgen_exome_hyb_panel_v2_targets_hg38_AND_altera_v3_targets_postQC_hg38_AND_foresight_clarity_bed_table.json
[2026-06-08 22:19:12,485] multiqc.report [DEBUG ] Wrote data file multiqc_seqtool_depth_stats_xgen_exome_hyb_panel_v2_AND_altera_v3_probes_short_hg38_AND_cdx_spike_custom30off4x_hg38_AND_foresight_clarity_footprint_bed_table.txt
[2026-06-08 22:19:12,485] multiqc.report [DEBUG ] Wrote data file multiqc_seqtool_depth_stats_xgen_exome_hyb_panel_v2_AND_altera_v3_probes_short_hg38_AND_cdx_spike_custom30off4x_hg38_AND_foresight_clarity_footprint_bed_table.json
[2026-06-08 22:19:12,490] multiqc.report [DEBUG ] Wrote data file multiqc_seqtool_depth_stats_altera_v3_targets_postQC_hg38_bed_table.txt
[2026-06-08 22:19:12,490] multiqc.report [DEBUG ] Wrote data file multiqc_seqtool_depth_stats_altera_v3_targets_postQC_hg38_bed_table.json
[2026-06-08 22:19:12,494] multiqc.report [DEBUG ] Wrote data file multiqc_seqtool_depth_stats_altera_v3_targets_coding_postQC_hg38_bed_table.txt
[2026-06-08 22:19:12,494] multiqc.report [DEBUG ] Wrote data file multiqc_seqtool_depth_stats_altera_v3_targets_coding_postQC_hg38_bed_table.json
[2026-06-08 22:19:12,502] multiqc.report [DEBUG ] Wrote data file multiqc_seqtool_depth_stats_altera_v3_targets_noncoding_postQC_hg38_bed_table.txt
[2026-06-08 22:19:12,503] multiqc.report [DEBUG ] Wrote data file multiqc_seqtool_depth_stats_altera_v3_targets_noncoding_postQC_hg38_bed_table.json
[2026-06-08 22:19:12,508] multiqc.report [DEBUG ] Wrote data file multiqc_seqtool_depth_stats_xgen_exome_hyb_panel_v2_targets_hg38_minus_altera_v3_targets_postQC_hg38_bed_table.txt
[2026-06-08 22:19:12,508] multiqc.report [DEBUG ] Wrote data file multiqc_seqtool_depth_stats_xgen_exome_hyb_panel_v2_targets_hg38_minus_altera_v3_targets_postQC_hg38_bed_table.json
[2026-06-08 22:19:12,512] multiqc.report [DEBUG ] Wrote data file multiqc_seqtool_depth_stats_FINAL_hotspot_list_07302025_hg38_sorted_bed_table.txt
[2026-06-08 22:19:12,513] multiqc.report [DEBUG ] Wrote data file multiqc_seqtool_depth_stats_FINAL_hotspot_list_07302025_hg38_sorted_bed_table.json
[2026-06-08 22:19:12,517] multiqc.report [DEBUG ] Wrote data file multiqc_seqtool_depth_stats_foresight_clarity_targets_hg38_bed_table.txt
[2026-06-08 22:19:12,517] multiqc.report [DEBUG ] Wrote data file multiqc_seqtool_depth_stats_foresight_clarity_targets_hg38_bed_table.json
[2026-06-08 22:19:12,519] multiqc.report [DEBUG ] Wrote data file multiqc_seqtool_fragment_size_table.txt
[2026-06-08 22:19:12,519] multiqc.report [DEBUG ] Wrote data file multiqc_seqtool_fragment_size_table.json
[2026-06-08 22:19:12,611] multiqc.plots.table_object [DEBUG ] Table key 'MEDIAN_TARGET_COVERAGE' not found in data for 'general_stats_table'. Skipping. Check for possible typos between data keys and header keys
[2026-06-08 22:19:12,615] multiqc.plots.plot [DEBUG ] merge_with_previous for general_stats_table: found old_data = False
[2026-06-08 22:19:12,615] multiqc.plots.plot [DEBUG ] merge_with_previous for general_stats_table: no old data or empty, using new data only
[2026-06-08 22:19:12,640] multiqc.report [DEBUG ] Wrote data file multiqc_general_stats.txt
[2026-06-08 22:19:12,640] multiqc.report [DEBUG ] Wrote data file multiqc_general_stats.json
[2026-06-08 22:19:12,687] multiqc.core.ai [DEBUG ] Saved AI prompt to multiqc_data/llms-full.txt
[2026-06-08 22:19:12,688] multiqc.core.write_results [DEBUG ] Exporting plot data to files
[2026-06-08 22:19:12,688] multiqc.report [DEBUG ] Wrote data file seqtool_full_basic_stats_table.txt
[2026-06-08 22:19:12,688] multiqc.report [DEBUG ] Wrote data file seqtool_depth_stats_xgen_exome_hyb_panel_v2_targets_hg38_AND_altera_v3_targets_postQC_hg38_AND_foresight_clarity_bed.txt
[2026-06-08 22:19:12,688] multiqc.report [DEBUG ] Wrote data file seqtool_depth_stats_xgen_exome_hyb_panel_v2_AND_altera_v3_probes_short_hg38_AND_cdx_spike_custom30off4x_hg38_AND_foresight_clarity_footprint_bed.txt
[2026-06-08 22:19:12,688] multiqc.report [DEBUG ] Wrote data file seqtool_depth_stats_altera_v3_targets_postQC_hg38_bed.txt
[2026-06-08 22:19:12,689] multiqc.report [DEBUG ] Wrote data file seqtool_depth_stats_altera_v3_targets_coding_postQC_hg38_bed.txt
[2026-06-08 22:19:12,689] multiqc.report [DEBUG ] Wrote data file seqtool_depth_stats_altera_v3_targets_noncoding_postQC_hg38_bed.txt
[2026-06-08 22:19:12,689] multiqc.report [DEBUG ] Wrote data file seqtool_depth_stats_xgen_exome_hyb_panel_v2_targets_hg38_minus_altera_v3_targets_postQC_hg38_bed.txt
[2026-06-08 22:19:12,689] multiqc.report [DEBUG ] Wrote data file seqtool_depth_stats_FINAL_hotspot_list_07302025_hg38_sorted_bed.txt
[2026-06-08 22:19:12,689] multiqc.report [DEBUG ] Wrote data file seqtool_depth_stats_foresight_clarity_targets_hg38_bed.txt
[2026-06-08 22:19:12,689] multiqc.report [DEBUG ] Wrote data file seqtool_fragment_size.txt
[2026-06-08 22:19:12,689] multiqc.report [DEBUG ] Wrote data file seqtool_gc_bias_all_targets.txt
[2026-06-08 22:19:12,690] multiqc.report [DEBUG ] Wrote data file seqtool_gc_bias_all_probes.txt
[2026-06-08 22:19:12,690] multiqc.report [DEBUG ] Wrote data file seqtool_gc_bias_boosted_depth.txt
[2026-06-08 22:19:12,690] multiqc.report [DEBUG ] Wrote data file seqtool_gc_bias_coding_depth.txt
[2026-06-08 22:19:12,690] multiqc.report [DEBUG ] Wrote data file seqtool_gc_bias_noncoding_depth.txt
[2026-06-08 22:19:12,690] multiqc.report [DEBUG ] Wrote data file seqtool_gc_bias_non_boosted_depth.txt
[2026-06-08 22:19:12,690] multiqc.report [DEBUG ] Wrote data file seqtool_gc_bias_hotspot_depth.txt
[2026-06-08 22:19:12,691] multiqc.report [DEBUG ] Wrote data file seqtool_gc_bias_foresight_depth.txt
[2026-06-08 22:19:12,691] multiqc.report [DEBUG ] Wrote data file mosdepth-cumcoverage-dist-id.txt
[2026-06-08 22:19:12,691] multiqc.report [DEBUG ] Wrote data file mosdepth-coverage-per-contig-multi.txt
[2026-06-08 22:19:12,691] multiqc.report [DEBUG ] Wrote data file mosdepth-xy-coverage-plot.txt
[2026-06-08 22:19:12,691] multiqc.report [DEBUG ] Wrote data file picard_alignment_summary_Aligned_Reads.txt
[2026-06-08 22:19:12,691] multiqc.report [DEBUG ] Wrote data file picard_alignment_summary_Aligned_Bases.txt
[2026-06-08 22:19:12,691] multiqc.report [DEBUG ] Wrote data file picard_alignment_readlength_plot.txt
[2026-06-08 22:19:12,691] multiqc.report [DEBUG ] Wrote data file picard_hsmetrics_table.txt
[2026-06-08 22:19:12,691] multiqc.report [DEBUG ] Wrote data file picard_percentage_target_bases.txt
[2026-06-08 22:19:12,692] multiqc.report [DEBUG ] Wrote data file picard_hybrid_selection_penalty.txt
[2026-06-08 22:19:12,693] multiqc.report [DEBUG ] Wrote data file picard_insert_size_Counts.txt
[2026-06-08 22:19:12,695] multiqc.report [DEBUG ] Wrote data file picard_insert_size_Percentages.txt
[2026-06-08 22:19:12,695] multiqc.report [DEBUG ] Wrote data file picard_deduplication.txt
[2026-06-08 22:19:12,697] multiqc.report [DEBUG ] Wrote data file picard_quality_by_cycle.txt
[2026-06-08 22:19:12,697] multiqc.report [DEBUG ] Wrote data file picard_quality_score_distribution.txt
[2026-06-08 22:19:12,697] multiqc.report [DEBUG ] Wrote data file samtools_alignment_plot.txt
[2026-06-08 22:19:12,697] multiqc.report [DEBUG ] Wrote data file samtools-stats-dp.txt
[2026-06-08 22:19:12,697] multiqc.report [DEBUG ] Wrote data file fastp_filtered_reads_plot.txt
[2026-06-08 22:19:12,707] multiqc.report [DEBUG ] Wrote data file fastp-insert-size-plot.txt
[2026-06-08 22:19:12,711] multiqc.report [DEBUG ] Wrote data file fastp-seq-quality-plot_Read_1_Before_filtering.txt
[2026-06-08 22:19:12,715] multiqc.report [DEBUG ] Wrote data file fastp-seq-quality-plot_Read_1_After_filtering.txt
[2026-06-08 22:19:12,719] multiqc.report [DEBUG ] Wrote data file fastp-seq-quality-plot_Read_2_Before_filtering.txt
[2026-06-08 22:19:12,724] multiqc.report [DEBUG ] Wrote data file fastp-seq-quality-plot_Read_2_After_filtering.txt
[2026-06-08 22:19:12,728] multiqc.report [DEBUG ] Wrote data file fastp-seq-content-gc-plot_Read_1_Before_filtering.txt
[2026-06-08 22:19:12,733] multiqc.report [DEBUG ] Wrote data file fastp-seq-content-gc-plot_Read_1_After_filtering.txt
[2026-06-08 22:19:12,737] multiqc.report [DEBUG ] Wrote data file fastp-seq-content-gc-plot_Read_2_Before_filtering.txt
[2026-06-08 22:19:12,742] multiqc.report [DEBUG ] Wrote data file fastp-seq-content-gc-plot_Read_2_After_filtering.txt
[2026-06-08 22:19:12,745] multiqc.report [DEBUG ] Wrote data file fastp-seq-content-n-plot_Read_1_Before_filtering.txt
[2026-06-08 22:19:12,748] multiqc.report [DEBUG ] Wrote data file fastp-seq-content-n-plot_Read_1_After_filtering.txt
[2026-06-08 22:19:12,751] multiqc.report [DEBUG ] Wrote data file fastp-seq-content-n-plot_Read_2_Before_filtering.txt
[2026-06-08 22:19:12,754] multiqc.report [DEBUG ] Wrote data file fastp-seq-content-n-plot_Read_2_After_filtering.txt
[2026-06-08 22:19:12,754] multiqc.core.write_results [DEBUG ] Moving data file from '/tmp/tmpn_79k_ra/multiqc_data' to '/tmp/nxf.MtskK3pgxb/REGRESSION_multiqc_report_data'
[2026-06-08 22:19:13,360] multiqc.core.write_results [INFO ] Data : REGRESSION_multiqc_report_data
[2026-06-08 22:19:13,369] multiqc.core.write_results [DEBUG ] Compressing plot data
[2026-06-08 22:19:13,734] multiqc.core.write_results [INFO ] Report : REGRESSION_multiqc_report.html