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2026/06/04 17:28:26 INFO  : Logs_Intermediates/Gis/659_ch2-T1-TDNA-1_HLNN7DRX7_1_dna/659_ch2-T1-TDNA-1_HLNN7DRX7_1_dna_logRatio.tsv: Copied (new)
2026/06/04 17:28:26 INFO  : TSO500_Nextflow_Logs/analysis_node_002-nextflow.log: Copied (new)
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2026/06/04 17:28:27 INFO  : Logs_Intermediates/DnaDragenExonCnvCaller/659_Jk-T1-TDNA-1_HLNN7DRX7_1_dna/659_Jk-T1-TDNA-1_HLNN7DRX7_1_dna-replay.json: Copied (new)
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2026/06/04 17:28:27 INFO  : Logs_Intermediates/DnaDragenExonCnvCaller/659_Jk-T1-TDNA-1_HLNN7DRX7_1_dna/659_Jk-T1-TDNA-1_HLNN7DRX7_1_dna.seg.called.merged: Copied (new)
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2026/06/04 17:28:27 INFO  : Logs_Intermediates/DnaDragenExonCnvCaller/659_bIL-T1-TDNA-1_HLNN7DRX7_1_dna/659_bIL-T1-TDNA-1_HLNN7DRX7_1_dna.cnv.excluded_intervals.bed.gz: Copied (new)
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2026/06/04 17:28:27 INFO  : TSO500_Nextflow_Logs/analysis_node_001-nextflow.log: Copied (new)
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2026/06/04 17:28:27 INFO  : Logs_Intermediates/DnaDragenExonCnvCaller/659_bIL-T1-TDNA-1_HLNN7DRX7_1_dna/659_bIL-T1-TDNA-1_HLNN7DRX7_1_dna.time_metrics.csv: Copied (new)
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2026/06/04 17:28:27 INFO  : TSO500_Nextflow_Logs/analysis_node_004-nextflow.log: Copied (new)
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2026/06/04 17:28:39 INFO  : Results/659_ehb-T1-TDNA-1_HLNN7DRX7_1/659_ehb-T1-TDNA-1_HLNN7DRX7_1_dna/659_ehb-T1-TDNA-1_HLNN7DRX7_1_dna.hard-filtered.gvcf: Copied (new)
2026/06/04 17:28:39 INFO  : Logs_Intermediates/DnaDragenCaller/659_cDZ-T1-TDNA-1_HLNN7DRX7_1_dna/659_cDZ-T1-TDNA-1_HLNN7DRX7_1_dna.snperror-sampler.log: Copied (new)
2026/06/04 17:28:39 INFO  : Logs_Intermediates/DnaDragenCaller/659_cDZ-T1-TDNA-1_HLNN7DRX7_1_dna/659_cDZ-T1-TDNA-1_HLNN7DRX7_1_dna.target_bed_contig_mean_cov.csv: Copied (new)
2026/06/04 17:28:39 INFO  : Logs_Intermediates/DnaDragenCaller/659_cDZ-T1-TDNA-1_HLNN7DRX7_1_dna/659_cDZ-T1-TDNA-1_HLNN7DRX7_1_dna.target_bed_overall_mean_cov.csv: Copied (new)
2026/06/04 17:28:39 INFO  : Logs_Intermediates/DnaDragenCaller/659_cDZ-T1-TDNA-1_HLNN7DRX7_1_dna/659_cDZ-T1-TDNA-1_HLNN7DRX7_1_dna.target.counts.gz: Copied (new)
2026/06/04 17:28:39 INFO  : Logs_Intermediates/DnaDragenCaller/659_cDZ-T1-TDNA-1_HLNN7DRX7_1_dna/659_cDZ-T1-TDNA-1_HLNN7DRX7_1_dna.target_bed_callability.bed: Copied (new)
2026/06/04 17:28:39 INFO  : Logs_Intermediates/DnaDragenCaller/659_cDZ-T1-TDNA-1_HLNN7DRX7_1_dna/659_cDZ-T1-TDNA-1_HLNN7DRX7_1_dna.tmb_contig_mean_cov.csv: Copied (new)
2026/06/04 17:28:39 INFO  : Logs_Intermediates/DnaDragenCaller/659_cDZ-T1-TDNA-1_HLNN7DRX7_1_dna/659_cDZ-T1-TDNA-1_HLNN7DRX7_1_dna.target_bed_hist.csv: Copied (new)
2026/06/04 17:28:39 INFO  : Logs_Intermediates/DnaDragenCaller/659_cDZ-T1-TDNA-1_HLNN7DRX7_1_dna/659_cDZ-T1-TDNA-1_HLNN7DRX7_1_dna.target_bed_coverage_metrics.csv: Copied (new)
2026/06/04 17:28:39 INFO  : Logs_Intermediates/DnaDragenCaller/659_cDZ-T1-TDNA-1_HLNN7DRX7_1_dna/659_cDZ-T1-TDNA-1_HLNN7DRX7_1_dna.target_bed_fine_hist.csv: Copied (new)
2026/06/04 17:28:39 INFO  : Logs_Intermediates/DnaDragenCaller/659_cDZ-T1-TDNA-1_HLNN7DRX7_1_dna/659_cDZ-T1-TDNA-1_HLNN7DRX7_1_dna.time_metrics.csv: Copied (new)
2026/06/04 17:28:39 INFO  : Logs_Intermediates/DnaDragenCaller/659_cDZ-T1-TDNA-1_HLNN7DRX7_1_dna/659_cDZ-T1-TDNA-1_HLNN7DRX7_1_dna.target.counts.bw: Copied (new)
2026/06/04 17:28:39 INFO  : Logs_Intermediates/DnaDragenCaller/659_cDZ-T1-TDNA-1_HLNN7DRX7_1_dna/659_cDZ-T1-TDNA-1_HLNN7DRX7_1_dna.tmb_coverage_metrics.csv: Copied (new)
2026/06/04 17:28:39 INFO  : Logs_Intermediates/DnaDragenCaller/659_cDZ-T1-TDNA-1_HLNN7DRX7_1_dna/659_cDZ-T1-TDNA-1_HLNN7DRX7_1_dna.tmb_hist.csv: Copied (new)
2026/06/04 17:28:39 INFO  : Logs_Intermediates/DnaDragenCaller/659_cDZ-T1-TDNA-1_HLNN7DRX7_1_dna/659_cDZ-T1-TDNA-1_HLNN7DRX7_1_dna.tmb_overall_mean_cov.csv: Copied (new)
2026/06/04 17:28:39 INFO  : Logs_Intermediates/DnaDragenCaller/659_cDZ-T1-TDNA-1_HLNN7DRX7_1_dna/659_cDZ-T1-TDNA-1_HLNN7DRX7_1_dna.tmb_callability.bed: Copied (new)
2026/06/04 17:28:39 INFO  : Logs_Intermediates/DnaDragenCaller/659_cDZ-T1-TDNA-1_HLNN7DRX7_1_dna/659_cDZ-T1-TDNA-1_HLNN7DRX7_1_dna.raw.hard-filtered.vcf.gz: Copied (new)
2026/06/04 17:28:39 INFO  : Logs_Intermediates/DnaDragenCaller/659_cDZ-T1-TDNA-1_HLNN7DRX7_1_dna/659_cDZ-T1-TDNA-1_HLNN7DRX7_1_dna.target_bed_somatic_callable_regions.bed: Copied (new)
2026/06/04 17:28:39 INFO  : Logs_Intermediates/DnaDragenCaller/659_cDZ-T1-TDNA-1_HLNN7DRX7_1_dna/659_cDZ-T1-TDNA-1_HLNN7DRX7_1_dna.umi_metrics.csv: Copied (new)
2026/06/04 17:28:39 INFO  : Logs_Intermediates/DnaDragenCaller/659_cDZ-T1-TDNA-1_HLNN7DRX7_1_dna/659_cDZ-T1-TDNA-1_HLNN7DRX7_1_dna.tmb_somatic_callable_regions.bed: Copied (new)
2026/06/04 17:28:39 INFO  : Logs_Intermediates/DnaDragenCaller/659_cDZ-T1-TDNA-1_HLNN7DRX7_1_dna/659_cDZ-T1-TDNA-1_HLNN7DRX7_1_dna.trimmer_metrics.csv: Copied (new)
2026/06/04 17:28:39 INFO  : Logs_Intermediates/DnaDragenCaller/659_cDZ-T1-TDNA-1_HLNN7DRX7_1_dna/659_cDZ-T1-TDNA-1_HLNN7DRX7_1_dna.vc_metrics.csv: Copied (new)
2026/06/04 17:28:39 INFO  : Logs_Intermediates/DnaDragenCaller/659_cDZ-T1-TDNA-1_HLNN7DRX7_1_dna/659_cDZ-T1-TDNA-1_HLNN7DRX7_1_dna.wgs_coverage_metrics.csv: Copied (new)
2026/06/04 17:28:39 INFO  : Logs_Intermediates/DnaDragenCaller/659_cDZ-T1-TDNA-1_HLNN7DRX7_1_dna/659_cDZ-T1-TDNA-1_HLNN7DRX7_1_dna.tmb_read_cov_report.bed: Copied (new)
2026/06/04 17:28:39 INFO  : Results/659_ett-T1-TDNA-1_HLNN7DRX7_1/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna.hard-filtered.gvcf: Copied (new)
2026/06/04 17:28:39 INFO  : Logs_Intermediates/DnaDragenCaller/659_cDZ-T1-TDNA-1_HLNN7DRX7_1_dna/659_cDZ-T1-TDNA-1_HLNN7DRX7_1_dna.target_bed_read_cov_report.bed: Copied (new)
2026/06/04 17:28:39 INFO  : Logs_Intermediates/DnaDragenCaller/659_cDZ-T1-TDNA-1_HLNN7DRX7_1_dna/659_cDZ-T1-TDNA-1_HLNN7DRX7_1_dna.hard-filtered.gvcf.gz: Copied (new)
2026/06/04 17:28:39 INFO  : Logs_Intermediates/DnaDragenCaller/659_cDZ-T1-TDNA-1_HLNN7DRX7_1_dna/659_cDZ-T1-TDNA-1_HLNN7DRX7_1_dna.wgs_contig_mean_cov.csv: Copied (new)
2026/06/04 17:28:39 INFO  : Logs_Intermediates/DnaDragenCaller/659_cDZ-T1-TDNA-1_HLNN7DRX7_1_dna/659_cDZ-T1-TDNA-1_HLNN7DRX7_1_dna.wgs_fine_hist.csv: Copied (new)
2026/06/04 17:28:39 INFO  : Logs_Intermediates/DnaDragenCaller/659_cDZ-T1-TDNA-1_HLNN7DRX7_1_dna/659_cDZ-T1-TDNA-1_HLNN7DRX7_1_dna.tn.bw: Copied (new)
2026/06/04 17:28:39 INFO  : Logs_Intermediates/DnaDragenCaller/659_cDZ-T1-TDNA-1_HLNN7DRX7_1_dna/659_cDZ-T1-TDNA-1_HLNN7DRX7_1_dna.wgs_overall_mean_cov.csv: Copied (new)
2026/06/04 17:28:39 INFO  : Logs_Intermediates/DnaDragenCaller/659_cDZ-T1-TDNA-1_HLNN7DRX7_1_dna/659_cDZ-T1-TDNA-1_HLNN7DRX7_1_dna.tmb_fine_hist.csv: Copied (new)
2026/06/04 17:28:39 INFO  : Logs_Intermediates/DnaDragenCaller/659_cDZ-T1-TDNA-1_HLNN7DRX7_1_dna/659_cDZ-T1-TDNA-1_HLNN7DRX7_1_dna.wgs_hist.csv: Copied (new)
2026/06/04 17:28:40 INFO  : Logs_Intermediates/DnaDragenCaller/659_cDZ-T1-TDNA-1_HLNN7DRX7_1_dna/659_cDZ-T1-TDNA-1_HLNN7DRX7_1_dna.tn.tsv.gz: Copied (new)
2026/06/04 17:28:40 INFO  : Logs_Intermediates/LrAnnotation/659_bpU-T1-TDNA-1_HLNN7DRX7_1_dna/659_bpU-T1-TDNA-1_HLNN7DRX7_1_dna_DNAExonCNV_Annotated.json.gz.jsi: Copied (new)
2026/06/04 17:28:40 INFO  : Results/659_egw-T1-TDNA-1_HLNN7DRX7_1/659_egw-T1-TDNA-1_HLNN7DRX7_1_dna/659_egw-T1-TDNA-1_HLNN7DRX7_1_dna.hard-filtered.gvcf: Copied (new)
2026/06/04 17:28:40 INFO  : Logs_Intermediates/DnaDragenCaller/659_cDZ-T1-TDNA-1_HLNN7DRX7_1_dna/659_cDZ-T1-TDNA-1_HLNN7DRX7_1_dna.umi-regions.txt: Copied (new)
2026/06/04 17:28:40 INFO  : Logs_Intermediates/LrCalculator/659_cN-T1-TDNA-1_HLNN7DRX7_1_dna/LrCalculator-20260603232257.log: Copied (new)
2026/06/04 17:28:40 INFO  : Logs_Intermediates/DnaDragenExonCnvCaller/659_cNt-T1-TDNA-1_HLNN7DRX7_1_dna/659_cNt-T1-TDNA-1_HLNN7DRX7_1_dna.cnv.excluded_intervals.bed.gz: Copied (new)
2026/06/04 17:28:40 INFO  : Logs_Intermediates/LrCalculator/659_cN-T1-TDNA-1_HLNN7DRX7_1_dna/659_cN-T1-TDNA-1_HLNN7DRX7_1_dna_DragenExonCNV.vcf: Copied (new)
2026/06/04 17:28:40 INFO  : Logs_Intermediates/DnaDragenExonCnvCaller/659_cNt-T1-TDNA-1_HLNN7DRX7_1_dna/659_cNt-T1-TDNA-1_HLNN7DRX7_1_dna-replay.json: Copied (new)
2026/06/04 17:28:40 INFO  : Logs_Intermediates/DnaDragenCaller/659_cDZ-T1-TDNA-1_HLNN7DRX7_1_dna/dragen_syslog_1780522049163_46577.log: Copied (new)
2026/06/04 17:28:40 INFO  : Logs_Intermediates/DnaDragenExonCnvCaller/659_cNt-T1-TDNA-1_HLNN7DRX7_1_dna/659_cNt-T1-TDNA-1_HLNN7DRX7_1_dna.cnv.igv_session.xml: Copied (new)
2026/06/04 17:28:40 INFO  : Logs_Intermediates/LrAnnotation/659_bpU-T1-TDNA-1_HLNN7DRX7_1_dna/Nirvana-20260603232016.log: Copied (new)
2026/06/04 17:28:40 INFO  : Logs_Intermediates/DnaDragenCaller/659_cDZ-T1-TDNA-1_HLNN7DRX7_1_dna/dragen_run_1780522049179_46577.log: Copied (new)
2026/06/04 17:28:40 INFO  : Logs_Intermediates/DnaDragenExonCnvCaller/659_cNt-T1-TDNA-1_HLNN7DRX7_1_dna/659_cNt-T1-TDNA-1_HLNN7DRX7_1_dna.cnv_metrics.csv: Copied (new)
2026/06/04 17:28:40 INFO  : Logs_Intermediates/DnaDragenCaller/659_cDZ-T1-TDNA-1_HLNN7DRX7_1_dna/659_cDZ-T1-TDNA-1_HLNN7DRX7_1_dna.umi-regions-finder.txt: Copied (new)
2026/06/04 17:28:40 INFO  : Logs_Intermediates/DnaDragenExonCnvCaller/659_cNt-T1-TDNA-1_HLNN7DRX7_1_dna/659_cNt-T1-TDNA-1_HLNN7DRX7_1_dna.seg: Copied (new)
2026/06/04 17:28:40 INFO  : Logs_Intermediates/LrAnnotation/659_bpU-T1-TDNA-1_HLNN7DRX7_1_dna/659_bpU-T1-TDNA-1_HLNN7DRX7_1_dna_DNAExonCNV_Annotated.json.gz: Copied (new)
2026/06/04 17:28:40 INFO  : Logs_Intermediates/DnaDragenExonCnvCaller/659_cNt-T1-TDNA-1_HLNN7DRX7_1_dna/659_cNt-T1-TDNA-1_HLNN7DRX7_1_dna.seg.called: Copied (new)
2026/06/04 17:28:40 INFO  : Logs_Intermediates/DnaDragenCaller/659_cDZ-T1-TDNA-1_HLNN7DRX7_1_dna/659_cDZ-T1-TDNA-1_HLNN7DRX7_1_dna.wgs_somatic_callable_regions.bed: Copied (new)
2026/06/04 17:28:40 INFO  : Logs_Intermediates/DnaDragenExonCnvCaller/659_cNt-T1-TDNA-1_HLNN7DRX7_1_dna/659_cNt-T1-TDNA-1_HLNN7DRX7_1_dna.seg.bw: Copied (new)
2026/06/04 17:28:40 INFO  : Logs_Intermediates/DnaDragenExonCnvCaller/659_cNt-T1-TDNA-1_HLNN7DRX7_1_dna/659_cNt-T1-TDNA-1_HLNN7DRX7_1_dna.seg.called.merged: Copied (new)
2026/06/04 17:28:40 INFO  : Logs_Intermediates/DnaDragenExonCnvCaller/659_cNt-T1-TDNA-1_HLNN7DRX7_1_dna/659_cNt-T1-TDNA-1_HLNN7DRX7_1_dna.time_metrics.csv: Copied (new)
2026/06/04 17:28:40 INFO  : Logs_Intermediates/DnaDragenExonCnvCaller/659_cNt-T1-TDNA-1_HLNN7DRX7_1_dna/659_cNt-T1-TDNA-1_HLNN7DRX7_1_dna.target.counts.bw: Copied (new)
2026/06/04 17:28:40 INFO  : Logs_Intermediates/Tmb/659_bpU-T1-TDNA-1_HLNN7DRX7_1_dna/659_bpU-T1-TDNA-1_HLNN7DRX7_1_dna.hard-filtered.vcf.gz.md5sum: Copied (new)
2026/06/04 17:28:40 INFO  : Logs_Intermediates/DnaDragenExonCnvCaller/659_cNt-T1-TDNA-1_HLNN7DRX7_1_dna/659_cNt-T1-TDNA-1_HLNN7DRX7_1_dna.improper.pairs.bw: Copied (new)
2026/06/04 17:28:40 INFO  : Logs_Intermediates/Tmb/659_bpU-T1-TDNA-1_HLNN7DRX7_1_dna/659_bpU-T1-TDNA-1_HLNN7DRX7_1_dna-replay.json: Copied (new)
2026/06/04 17:28:40 INFO  : Logs_Intermediates/DnaDragenExonCnvCaller/659_cNt-T1-TDNA-1_HLNN7DRX7_1_dna/dragen_run_1780527868834_247656.log: Copied (new)
2026/06/04 17:28:40 INFO  : Logs_Intermediates/DnaDragenExonCnvCaller/659_cNt-T1-TDNA-1_HLNN7DRX7_1_dna/659_cNt-T1-TDNA-1_HLNN7DRX7_1_dna_DragenExonCNV.json: Copied (new)
2026/06/04 17:28:40 INFO  : Logs_Intermediates/Tmb/659_bpU-T1-TDNA-1_HLNN7DRX7_1_dna/659_bpU-T1-TDNA-1_HLNN7DRX7_1_dna.hard-filtered.vcf.gz.tbi: Copied (new)
2026/06/04 17:28:40 INFO  : Logs_Intermediates/Tmb/659_bpU-T1-TDNA-1_HLNN7DRX7_1_dna/659_bpU-T1-TDNA-1_HLNN7DRX7_1_dna.time_metrics.csv: Copied (new)
2026/06/04 17:28:40 INFO  : Logs_Intermediates/DnaDragenExonCnvCaller/659_cNt-T1-TDNA-1_HLNN7DRX7_1_dna/659_cNt-T1-TDNA-1_HLNN7DRX7_1_dna.tn.bw: Copied (new)
2026/06/04 17:28:40 INFO  : Logs_Intermediates/Tmb/659_bpU-T1-TDNA-1_HLNN7DRX7_1_dna/659_bpU-T1-TDNA-1_HLNN7DRX7_1_dna.tmb.metrics.csv: Copied (new)
2026/06/04 17:28:40 INFO  : Logs_Intermediates/DnaDragenExonCnvCaller/659_cNt-T1-TDNA-1_HLNN7DRX7_1_dna/dragen_syslog_1780527868826_247656.log: Copied (new)
2026/06/04 17:28:40 INFO  : Logs_Intermediates/DnaDragenExonCnvCaller/659_cNt-T1-TDNA-1_HLNN7DRX7_1_dna/659_cNt-T1-TDNA-1_HLNN7DRX7_1_dna.tn.tsv.gz: Copied (new)
2026/06/04 17:28:40 INFO  : Results/659_eRI-T1-TDNA-1_HLNN7DRX7_1/659_eRI-T1-TDNA-1_HLNN7DRX7_1_dna/659_eRI-T1-TDNA-1_HLNN7DRX7_1_dna.hard-filtered.gvcf: Copied (new)
2026/06/04 17:28:40 INFO  : Logs_Intermediates/DnaDragenExonCnvCaller/659_cNt-T1-TDNA-1_HLNN7DRX7_1_dna/659_cNt-T1-TDNA-1_HLNN7DRX7_1_dna.target.counts.gz: Copied (new)
2026/06/04 17:28:40 INFO  : Logs_Intermediates/Tmb/659_bpU-T1-TDNA-1_HLNN7DRX7_1_dna/659_bpU-T1-TDNA-1_HLNN7DRX7_1_dna.hard-filtered.vcf.gz: Copied (new)
2026/06/04 17:28:40 INFO  : Logs_Intermediates/Tmb/659_bpU-T1-TDNA-1_HLNN7DRX7_1_dna/659_bpU-T1-TDNA-1_HLNN7DRX7_1_dna_DNAVariants_TMB_Annotated.json.gz.jsi: Copied (new)
2026/06/04 17:28:40 INFO  : Logs_Intermediates/DnaDragenExonCnvCaller/659_cNt-T1-TDNA-1_HLNN7DRX7_1_dna/659_cNt-T1-TDNA-1_HLNN7DRX7_1_dna.target.counts.gc-corrected.gz: Copied (new)
2026/06/04 17:28:40 INFO  : Logs_Intermediates/Tmb/659_bpU-T1-TDNA-1_HLNN7DRX7_1_dna/Nirvana-20260603221338.log: Copied (new)
2026/06/04 17:28:40 INFO  : Logs_Intermediates/DnaCoverageReports/659_cN-T1-TDNA-1_HLNN7DRX7_1_dna/gen_coverage_reports.log: Copied (new)
2026/06/04 17:28:40 INFO  : Logs_Intermediates/Tmb/659_bpU-T1-TDNA-1_HLNN7DRX7_1_dna/dragen_syslog_1780528767393_283994.log: Copied (new)
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2026/06/04 17:28:40 INFO  : Logs_Intermediates/DnaCoverageReports/659_cN-T1-TDNA-1_HLNN7DRX7_1_dna/659_cN-T1-TDNA-1_HLNN7DRX7_1_dna.gene_cov_report.tsv: Copied (new)
2026/06/04 17:28:40 INFO  : Logs_Intermediates/CombinedVariantOutput/659_bpU-T1-TDNA-1_HLNN7DRX7_1/659_bpU-T1-TDNA-1_HLNN7DRX7_1_CombinedVariantOutput.tsv: Copied (new)
2026/06/04 17:28:40 INFO  : Logs_Intermediates/DnaDragenCaller/659_cNt-T1-TDNA-1_HLNN7DRX7_1_dna/659_cNt-T1-TDNA-1_HLNN7DRX7_1_dna.bam.md5sum: Copied (new)
2026/06/04 17:28:40 INFO  : Logs_Intermediates/DnaDragenCaller/659_cNt-T1-TDNA-1_HLNN7DRX7_1_dna/659_cNt-T1-TDNA-1_HLNN7DRX7_1_dna.cnv.excluded_intervals.bed.gz: Copied (new)
2026/06/04 17:28:40 INFO  : Logs_Intermediates/DnaDragenCaller/659_cNt-T1-TDNA-1_HLNN7DRX7_1_dna/659_cNt-T1-TDNA-1_HLNN7DRX7_1_dna-replay.json: Copied (new)
2026/06/04 17:28:40 INFO  : Logs_Intermediates/DnaCoverageReports/659_cN-T1-TDNA-1_HLNN7DRX7_1_dna/659_cN-T1-TDNA-1_HLNN7DRX7_1_dna.exon_cov_report.tsv: Copied (new)
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2026/06/04 17:28:53 INFO  : Logs_Intermediates/DnaDragenCaller/659_d71-T1-TDNA-1_HLNN7DRX7_1_dna/659_d71-T1-TDNA-1_HLNN7DRX7_1_dna.target_bed_read_cov_report.bed: Copied (new)
2026/06/04 17:28:53 INFO  : Logs_Intermediates/DnaDragenCaller/659_d71-T1-TDNA-1_HLNN7DRX7_1_dna/659_d71-T1-TDNA-1_HLNN7DRX7_1_dna.time_metrics.csv: Copied (new)
2026/06/04 17:28:53 INFO  : Logs_Intermediates/DnaDragenCaller/659_d71-T1-TDNA-1_HLNN7DRX7_1_dna/659_d71-T1-TDNA-1_HLNN7DRX7_1_dna.tmb_callability.bed: Copied (new)
2026/06/04 17:28:53 INFO  : Logs_Intermediates/DnaDragenCaller/659_d71-T1-TDNA-1_HLNN7DRX7_1_dna/659_d71-T1-TDNA-1_HLNN7DRX7_1_dna.tmb_coverage_metrics.csv: Copied (new)
2026/06/04 17:28:53 INFO  : Logs_Intermediates/DnaDragenCaller/659_d71-T1-TDNA-1_HLNN7DRX7_1_dna/659_d71-T1-TDNA-1_HLNN7DRX7_1_dna.tmb_fine_hist.csv: Copied (new)
2026/06/04 17:28:53 INFO  : Logs_Intermediates/DnaDragenCaller/659_d71-T1-TDNA-1_HLNN7DRX7_1_dna/659_d71-T1-TDNA-1_HLNN7DRX7_1_dna.tmb_hist.csv: Copied (new)
2026/06/04 17:28:53 INFO  : Logs_Intermediates/DnaDragenCaller/659_d71-T1-TDNA-1_HLNN7DRX7_1_dna/659_d71-T1-TDNA-1_HLNN7DRX7_1_dna.tmb_overall_mean_cov.csv: Copied (new)
2026/06/04 17:28:53 INFO  : 
Transferred:   	   35.003 GiB / 342.759 GiB, 10%, 1.280 GiB/s, ETA 4m
Transferred:         2497 / 7318, 34%
Elapsed time:        30.0s
Transferring:
 * Logs_Intermediates/Fas…2_L001_R1_001.fastq.gz: 64% /1.606Gi, 41.154Mi/s, 14s
 * Logs_Intermediates/Fas…2_L001_R2_001.fastq.gz: 60% /1.645Gi, 41.090Mi/s, 16s
 * Logs_Intermediates/Fas…2_L002_R1_001.fastq.gz: 63% /1.634Gi, 39.911Mi/s, 15s
 * Logs_Intermediates/Fas…2_L002_R2_001.fastq.gz: 63% /1.665Gi, 42.380Mi/s, 14s
 * Logs_Intermediates/Dna…-1_HLNN7DRX7_1_dna.bam: 20% /3.689Gi, 31.013Mi/s, 1m37s
 * Logs_Intermediates/Dna…-1_HLNN7DRX7_1_dna.bam: 27% /3.391Gi, 39.208Mi/s, 1m4s
 * Results/659_Jk-T1-TDNA…dna.hard-filtered.gvcf: 81% /136.163Mi, 4.493Mi/s, 5s
 * Results/659_QP-T1-TDNA…dna.hard-filtered.gvcf: 86% /136.126Mi, 4.783Mi/s, 3s
 * Logs_Intermediates/Fas…0_L001_R1_001.fastq.gz: 49% /1.648Gi, 35.573Mi/s, 24s
 * Logs_Intermediates/Fas…0_L001_R2_001.fastq.gz: 39% /1.729Gi, 29.328Mi/s, 36s
 * Logs_Intermediates/Fas…0_L002_R1_001.fastq.gz: 51% /1.637Gi, 37.713Mi/s, 21s
 * Logs_Intermediates/Fas…0_L002_R2_001.fastq.gz: 52% /1.712Gi, 40.108Mi/s, 20s
 * Logs_Intermediates/Dna…-1_HLNN7DRX7_1_dna.bam: 29% /2.890Gi, 36.976Mi/s, 56s
 * Logs_Intermediates/Dna…-1_HLNN7DRX7_1_dna.bam: 14% /3.835Gi, 25.665Mi/s, 2m10s
 * Logs_Intermediates/Dna…-1_HLNN7DRX7_1_dna.bam: 23% /2.930Gi, 32.804Mi/s, 1m9s
 * Results/659_oZ-T1-TDNA…dna.hard-filtered.gvcf: 41% /136.326Mi, 2.591Mi/s, 31s
 * Results/659_eIu-T1-TDN…dna.hard-filtered.gvcf: 29% /137.951Mi, 2.070Mi/s, 46s
 * Results/659_em3-T1-TDN…dna.hard-filtered.gvcf: 50% /136.599Mi, 3.568Mi/s, 18s
 * Results/659_edW-T1-TDN…dna.hard-filtered.gvcf: 96% /136.262Mi, 6.742Mi/s, 0s
 * Logs_Intermediates/Fas…8_L001_R1_001.fastq.gz: 56% /1.759Gi, 52.302Mi/s, 14s
 * Logs_Intermediates/Fas…8_L001_R2_001.fastq.gz: 50% /1.810Gi, 46.673Mi/s, 19s
 * Logs_Intermediates/Fas…8_L002_R1_001.fastq.gz: 42% /1.765Gi, 36.592Mi/s, 28s
 * Logs_Intermediates/Fas…8_L002_R2_001.fastq.gz: 43% /1.805Gi, 42.459Mi/s, 24s
 * Logs_Intermediates/Dna…-1_HLNN7DRX7_1_dna.bam: 20% /3.671Gi, 43.418Mi/s, 1m8s
 * Logs_Intermediates/Fas…2_L001_R1_001.fastq.gz: 36% /1.696Gi, 38.000Mi/s, 28s
 * Logs_Intermediates/Fas…2_L001_R2_001.fastq.gz: 34% /1.797Gi, 40.000Mi/s, 29s
 * Logs_Intermediates/Fas…2_L002_R1_001.fastq.gz: 34% /1.708Gi, 38.000Mi/s, 30s
 * Logs_Intermediates/Fas…2_L002_R2_001.fastq.gz: 17% /1.805Gi, 20.000Mi/s, 1m16s
 * Logs_Intermediates/Fas…3_L001_R1_001.fastq.gz: 41% /1.638Gi, 46.933Mi/s, 20s
 * Logs_Intermediates/Fas…3_L001_R2_001.fastq.gz: 34% /1.627Gi, 38.146Mi/s, 28s
 * Logs_Intermediates/Fas…3_L002_R1_001.fastq.gz: 38% /1.631Gi, 42.667Mi/s, 24s
 * Logs_Intermediates/Fas…3_L002_R2_001.fastq.gz: 38% /1.607Gi, 42.667Mi/s, 23s
 * Logs_Intermediates/Dna…-1_HLNN7DRX7_1_dna.bam: 12% /3.370Gi, 27.733Mi/s, 1m49s
 * Logs_Intermediates/Fas…7_L001_R1_001.fastq.gz: 27% /1.826Gi, 39.385Mi/s, 34s
 * Logs_Intermediates/Fas…7_L001_R2_001.fastq.gz: 23% /1.878Gi, 34.461Mi/s, 42s
 * Logs_Intermediates/Fas…7_L002_R1_001.fastq.gz: 21% /1.849Gi, 32.000Mi/s, 46s
 * Logs_Intermediates/Fas…7_L002_R2_001.fastq.gz: 29% /1.888Gi, 41.846Mi/s, 32s
 * Logs_Intermediates/Dna…-1_HLNN7DRX7_1_dna.bam: 14% /3.594Gi, 39.385Mi/s, 1m19s
 * Logs_Intermediates/Dna…-1_HLNN7DRX7_1_dna.bam: 12% /2.928Gi, 32.000Mi/s, 1m21s
 * Logs_Intermediates/Fas…4_L001_R1_001.fastq.gz: 22% /1.555Gi, 35.200Mi/s, 35s
 * Logs_Intermediates/Fas…4_L001_R2_001.fastq.gz: 17% /1.611Gi, 28.800Mi/s, 47s
 * Logs_Intermediates/Fas…4_L002_R1_001.fastq.gz: 20% /1.562Gi, 32.000Mi/s, 39s
 * Logs_Intermediates/Fas…4_L002_R2_001.fastq.gz: 19% /1.614Gi, 32.000Mi/s, 41s
 * Logs_Intermediates/Dna…-1_HLNN7DRX7_1_dna.bam:  9% /3.231Gi, 32.319Mi/s, 1m32s
 * Logs_Intermediates/Fas…0_L001_R1_001.fastq.gz: 10% /1.174Gi, 16.000Mi/s, 1m7s
 * Logs_Intermediates/Fas…0_L001_R2_001.fastq.gz: 29% /1.065Gi, 40.000Mi/s, 19s
 * Logs_Intermediates/Fas…0_L002_R1_001.fastq.gz: 29% /1.052Gi, 40.000Mi/s, 18s
 * Logs_Intermediates/Fas…0_L002_R2_001.fastq.gz: 22% /983.622Mi, 28.000Mi/s, 27s
 * Logs_Intermediates/Dna…-1_HLNN7DRX7_1_dna.bam:  5% /3.963Gi, 27.429Mi/s, 2m19s
 * Logs_Intermediates/Fas…1_L001_R1_001.fastq.gz: 15% /1.615Gi, 44.800Mi/s, 31s
 * Logs_Intermediates/Fas…1_L001_R2_001.fastq.gz: 14% /1.491Gi, 36.937Mi/s, 35s
 * Logs_Intermediates/Fas…1_L002_R1_001.fastq.gz: 11% /1.564Gi, 32.000Mi/s, 44s
 * Logs_Intermediates/Fas…1_L002_R2_001.fastq.gz: 15% /1.422Gi, 32.000Mi/s, 38s
 * Logs_Intermediates/Fas…3_L001_R1_001.fastq.gz:  6% /1.827Gi, 32.000Mi/s, 54s
 * Logs_Intermediates/Fas…3_L001_R2_001.fastq.gz:  4% /1.890Gi, 24.000Mi/s, 1m16s
 * Logs_Intermediates/Fas…3_L002_R1_001.fastq.gz:  6% /1.846Gi, 32.000Mi/s, 55s
 * Logs_Intermediates/Fas…3_L002_R2_001.fastq.gz:  4% /1.899Gi, 24.000Mi/s, 1m17s
 * Logs_Intermediates/Dna…-1_HLNN7DRX7_1_dna.bam:  2% /3.206Gi, 16.000Mi/s, 3m20s
 * Logs_Intermediates/Dna…mb_read_cov_report.bed:100% /586.564Ki, 0/s, -
 * Logs_Intermediates/Dna…c_callable_regions.bed:100% /184.589Ki, 0/s, -
 * Logs_Intermediates/Dna…_HLNN7DRX7_1_dna.tn.bw: 23% /275.807Ki, 0/s, -
 * Logs_Intermediates/Dna…N7DRX7_1_dna.tn.tsv.gz: transferring
 * Logs_Intermediates/Dna…na.trimmer_metrics.csv: transferring
 * Logs_Intermediates/Dna…umi-regions-finder.txt: transferring

2026/06/04 17:28:53 INFO  : Logs_Intermediates/DnaDragenCaller/659_d71-T1-TDNA-1_HLNN7DRX7_1_dna/659_d71-T1-TDNA-1_HLNN7DRX7_1_dna.tmb_read_cov_report.bed: Copied (new)
2026/06/04 17:28:53 INFO  : Logs_Intermediates/DnaDragenCaller/659_d71-T1-TDNA-1_HLNN7DRX7_1_dna/659_d71-T1-TDNA-1_HLNN7DRX7_1_dna.trimmer_metrics.csv: Copied (new)
2026/06/04 17:28:53 INFO  : Logs_Intermediates/DnaDragenCaller/659_d71-T1-TDNA-1_HLNN7DRX7_1_dna/659_d71-T1-TDNA-1_HLNN7DRX7_1_dna.tn.tsv.gz: Copied (new)
2026/06/04 17:28:53 INFO  : Logs_Intermediates/DnaDragenCaller/659_d71-T1-TDNA-1_HLNN7DRX7_1_dna/659_d71-T1-TDNA-1_HLNN7DRX7_1_dna.tmb_somatic_callable_regions.bed: Copied (new)
2026/06/04 17:28:53 INFO  : Logs_Intermediates/DnaDragenCaller/659_d71-T1-TDNA-1_HLNN7DRX7_1_dna/659_d71-T1-TDNA-1_HLNN7DRX7_1_dna.umi-regions-finder.txt: Copied (new)
2026/06/04 17:28:53 INFO  : Logs_Intermediates/DnaDragenCaller/659_d71-T1-TDNA-1_HLNN7DRX7_1_dna/659_d71-T1-TDNA-1_HLNN7DRX7_1_dna.umi_metrics.csv: Copied (new)
2026/06/04 17:28:54 INFO  : Logs_Intermediates/DnaDragenCaller/659_d71-T1-TDNA-1_HLNN7DRX7_1_dna/659_d71-T1-TDNA-1_HLNN7DRX7_1_dna.wgs_contig_mean_cov.csv: Copied (new)
2026/06/04 17:28:54 INFO  : Logs_Intermediates/DnaDragenCaller/659_d71-T1-TDNA-1_HLNN7DRX7_1_dna/659_d71-T1-TDNA-1_HLNN7DRX7_1_dna.tn.bw: Copied (new)
2026/06/04 17:28:54 INFO  : Logs_Intermediates/DnaDragenCaller/659_d71-T1-TDNA-1_HLNN7DRX7_1_dna/659_d71-T1-TDNA-1_HLNN7DRX7_1_dna.vc_metrics.csv: Copied (new)
2026/06/04 17:28:54 INFO  : Logs_Intermediates/DnaDragenCaller/659_d71-T1-TDNA-1_HLNN7DRX7_1_dna/659_d71-T1-TDNA-1_HLNN7DRX7_1_dna.wgs_coverage_metrics.csv: Copied (new)
2026/06/04 17:28:54 INFO  : Logs_Intermediates/DnaDragenCaller/659_d71-T1-TDNA-1_HLNN7DRX7_1_dna/659_d71-T1-TDNA-1_HLNN7DRX7_1_dna.umi-regions.txt: Copied (new)
2026/06/04 17:28:54 INFO  : Logs_Intermediates/DnaDragenCaller/659_d71-T1-TDNA-1_HLNN7DRX7_1_dna/659_d71-T1-TDNA-1_HLNN7DRX7_1_dna.wgs_overall_mean_cov.csv: Copied (new)
2026/06/04 17:28:54 INFO  : Logs_Intermediates/DnaDragenCaller/659_d71-T1-TDNA-1_HLNN7DRX7_1_dna/659_d71-T1-TDNA-1_HLNN7DRX7_1_dna.wgs_hist.csv: Copied (new)
2026/06/04 17:28:54 INFO  : Logs_Intermediates/DnaDragenCaller/659_d71-T1-TDNA-1_HLNN7DRX7_1_dna/659_d71-T1-TDNA-1_HLNN7DRX7_1_dna.wgs_fine_hist.csv: Copied (new)
2026/06/04 17:28:54 INFO  : Logs_Intermediates/nextflow_work_logs/06/322f4237836dfcd3027b552e0a76b1/.command.err: Copied (new)
2026/06/04 17:28:54 INFO  : Logs_Intermediates/nextflow_work_logs/06/322f4237836dfcd3027b552e0a76b1/.command.log: Copied (new)
2026/06/04 17:28:54 INFO  : Logs_Intermediates/nextflow_work_logs/06/322f4237836dfcd3027b552e0a76b1/.command.out: Copied (new)
2026/06/04 17:28:54 INFO  : Logs_Intermediates/DnaDragenCaller/659_d71-T1-TDNA-1_HLNN7DRX7_1_dna/659_d71-T1-TDNA-1_HLNN7DRX7_1_dna.wgs_somatic_callable_regions.bed: Copied (new)
2026/06/04 17:28:54 INFO  : Logs_Intermediates/DnaDragenCaller/659_d71-T1-TDNA-1_HLNN7DRX7_1_dna/dragen_run_1780523498656_89018.log: Copied (new)
2026/06/04 17:28:54 INFO  : Logs_Intermediates/DnaDragenCaller/659_d71-T1-TDNA-1_HLNN7DRX7_1_dna/dragen_syslog_1780523498639_89018.log: Copied (new)
2026/06/04 17:28:54 INFO  : Logs_Intermediates/nextflow_work_logs/06/322f4237836dfcd3027b552e0a76b1/.command.run: Copied (new)
2026/06/04 17:28:54 INFO  : Logs_Intermediates/Tmb/659_ch2-T1-TDNA-1_HLNN7DRX7_1_dna/659_ch2-T1-TDNA-1_HLNN7DRX7_1_dna-replay.json: Copied (new)
2026/06/04 17:28:54 INFO  : Logs_Intermediates/nextflow_work_logs/06/322f4237836dfcd3027b552e0a76b1/.command.sh: Copied (new)
2026/06/04 17:28:54 INFO  : Logs_Intermediates/Tmb/659_ch2-T1-TDNA-1_HLNN7DRX7_1_dna/659_ch2-T1-TDNA-1_HLNN7DRX7_1_dna.hard-filtered.vcf.gz.md5sum: Copied (new)
2026/06/04 17:28:54 INFO  : Logs_Intermediates/Tmb/659_ch2-T1-TDNA-1_HLNN7DRX7_1_dna/659_ch2-T1-TDNA-1_HLNN7DRX7_1_dna.hard-filtered.vcf.gz.tbi: Copied (new)
2026/06/04 17:28:54 INFO  : Logs_Intermediates/Tmb/659_ch2-T1-TDNA-1_HLNN7DRX7_1_dna/659_ch2-T1-TDNA-1_HLNN7DRX7_1_dna.time_metrics.csv: Copied (new)
2026/06/04 17:28:54 INFO  : Logs_Intermediates/Tmb/659_ch2-T1-TDNA-1_HLNN7DRX7_1_dna/659_ch2-T1-TDNA-1_HLNN7DRX7_1_dna.tmb.metrics.csv: Copied (new)
2026/06/04 17:28:54 INFO  : Logs_Intermediates/Tmb/659_ch2-T1-TDNA-1_HLNN7DRX7_1_dna/659_ch2-T1-TDNA-1_HLNN7DRX7_1_dna.hard-filtered.vcf.gz: Copied (new)
2026/06/04 17:28:54 INFO  : Logs_Intermediates/Tmb/659_ch2-T1-TDNA-1_HLNN7DRX7_1_dna/659_ch2-T1-TDNA-1_HLNN7DRX7_1_dna_DNAVariants_TMB_Annotated.json.gz.jsi: Copied (new)
2026/06/04 17:28:54 INFO  : Logs_Intermediates/Tmb/659_ch2-T1-TDNA-1_HLNN7DRX7_1_dna/659_ch2-T1-TDNA-1_HLNN7DRX7_1_dna.tmb.trace.tsv: Copied (new)
2026/06/04 17:28:54 INFO  : Logs_Intermediates/Tmb/659_ch2-T1-TDNA-1_HLNN7DRX7_1_dna/Nirvana-20260603221345.log: Copied (new)
2026/06/04 17:28:54 INFO  : Logs_Intermediates/Tmb/659_ch2-T1-TDNA-1_HLNN7DRX7_1_dna/dragen_syslog_1780528923519_288465.log: Copied (new)
2026/06/04 17:28:54 INFO  : Logs_Intermediates/nextflow_work_logs/05/dd9672723fedc22fd0b7a2fbad50b1/.command.err: Copied (new)
2026/06/04 17:28:54 INFO  : Logs_Intermediates/Tmb/659_ch2-T1-TDNA-1_HLNN7DRX7_1_dna/dragen_run_1780528923527_288465.log: Copied (new)
2026/06/04 17:28:54 INFO  : Logs_Intermediates/nextflow_work_logs/05/dd9672723fedc22fd0b7a2fbad50b1/.command.log: Copied (new)
2026/06/04 17:28:54 INFO  : Logs_Intermediates/nextflow_work_logs/05/dd9672723fedc22fd0b7a2fbad50b1/.command.out: Copied (new)
2026/06/04 17:28:55 INFO  : Logs_Intermediates/nextflow_work_logs/05/dd9672723fedc22fd0b7a2fbad50b1/.command.run: Copied (new)
2026/06/04 17:28:55 INFO  : Logs_Intermediates/nextflow_work_logs/05/dd9672723fedc22fd0b7a2fbad50b1/.command.sh: Copied (new)
2026/06/04 17:28:55 INFO  : Logs_Intermediates/CombinedVariantOutput/659_ch2-T1-TDNA-1_HLNN7DRX7_1/659_ch2-T1-TDNA-1_HLNN7DRX7_1_CombinedVariantOutput.tsv: Copied (new)
2026/06/04 17:28:55 INFO  : Logs_Intermediates/Tmb/659_ch2-T1-TDNA-1_HLNN7DRX7_1_dna/659_ch2-T1-TDNA-1_HLNN7DRX7_1_dna_DNAVariants_TMB_Annotated.json.gz: Copied (new)
2026/06/04 17:28:55 INFO  : Logs_Intermediates/DnaDragenCaller/659_dg8-T1-TDNA-1_HLNN7DRX7_1_dna/659_dg8-T1-TDNA-1_HLNN7DRX7_1_dna-replay.json: Copied (new)
2026/06/04 17:28:55 INFO  : Logs_Intermediates/DnaDragenCaller/659_dg8-T1-TDNA-1_HLNN7DRX7_1_dna/659_dg8-T1-TDNA-1_HLNN7DRX7_1_dna.bam.md5sum: Copied (new)
2026/06/04 17:28:55 INFO  : Logs_Intermediates/DnaDragenCaller/659_dg8-T1-TDNA-1_HLNN7DRX7_1_dna/659_dg8-T1-TDNA-1_HLNN7DRX7_1_dna.cnv.excluded_intervals.bed.gz: Copied (new)
2026/06/04 17:28:55 INFO  : Logs_Intermediates/DnaDragenCaller/659_dg8-T1-TDNA-1_HLNN7DRX7_1_dna/659_dg8-T1-TDNA-1_HLNN7DRX7_1_dna.cnv.igv_session.xml: Copied (new)
2026/06/04 17:28:55 INFO  : Logs_Intermediates/DnaDragenCaller/659_dg8-T1-TDNA-1_HLNN7DRX7_1_dna/659_dg8-T1-TDNA-1_HLNN7DRX7_1_dna.cnv.vcf.gz: Copied (new)
2026/06/04 17:28:55 INFO  : Logs_Intermediates/DnaDragenCaller/659_dg8-T1-TDNA-1_HLNN7DRX7_1_dna/659_dg8-T1-TDNA-1_HLNN7DRX7_1_dna.cnv.gff3: Copied (new)
2026/06/04 17:28:55 INFO  : Logs_Intermediates/DnaDragenCaller/659_dg8-T1-TDNA-1_HLNN7DRX7_1_dna/659_dg8-T1-TDNA-1_HLNN7DRX7_1_dna.cnv.vcf.gz.md5sum: Copied (new)
2026/06/04 17:28:55 INFO  : Logs_Intermediates/DnaDragenCaller/659_dg8-T1-TDNA-1_HLNN7DRX7_1_dna/659_dg8-T1-TDNA-1_HLNN7DRX7_1_dna.cnv.vcf.gz.tbi: Copied (new)
2026/06/04 17:28:55 INFO  : Logs_Intermediates/DnaDragenCaller/659_dg8-T1-TDNA-1_HLNN7DRX7_1_dna/659_dg8-T1-TDNA-1_HLNN7DRX7_1_dna.cnv_metrics.csv: Copied (new)
2026/06/04 17:28:55 INFO  : Logs_Intermediates/DnaDragenCaller/659_dg8-T1-TDNA-1_HLNN7DRX7_1_dna/659_dg8-T1-TDNA-1_HLNN7DRX7_1_dna.exon_contig_mean_cov.csv: Copied (new)
2026/06/04 17:28:55 INFO  : Logs_Intermediates/DnaDragenCaller/659_dg8-T1-TDNA-1_HLNN7DRX7_1_dna/659_dg8-T1-TDNA-1_HLNN7DRX7_1_dna.exon_coverage_metrics.csv: Copied (new)
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2026/06/04 17:29:23 INFO  : Logs_Intermediates/DnaDragenCaller/659_dm6-T1-TDNA-1_HLNN7DRX7_1_dna/659_dm6-T1-TDNA-1_HLNN7DRX7_1_dna.target_bed_overall_mean_cov.csv: Copied (new)
2026/06/04 17:29:23 INFO  : Logs_Intermediates/DnaDragenCaller/659_dm6-T1-TDNA-1_HLNN7DRX7_1_dna/659_dm6-T1-TDNA-1_HLNN7DRX7_1_dna.target_bed_hist.csv: Copied (new)
2026/06/04 17:29:23 INFO  : Logs_Intermediates/DnaDragenCaller/659_dm6-T1-TDNA-1_HLNN7DRX7_1_dna/659_dm6-T1-TDNA-1_HLNN7DRX7_1_dna.target_bed_fine_hist.csv: Copied (new)
2026/06/04 17:29:23 INFO  : Logs_Intermediates/DnaDragenCaller/659_dm6-T1-TDNA-1_HLNN7DRX7_1_dna/659_dm6-T1-TDNA-1_HLNN7DRX7_1_dna.target_bed_callability.bed: Copied (new)
2026/06/04 17:29:23 INFO  : Logs_Intermediates/DnaDragenCaller/659_dm6-T1-TDNA-1_HLNN7DRX7_1_dna/659_dm6-T1-TDNA-1_HLNN7DRX7_1_dna.time_metrics.csv: Copied (new)
2026/06/04 17:29:23 INFO  : Logs_Intermediates/DnaDragenCaller/659_dm6-T1-TDNA-1_HLNN7DRX7_1_dna/659_dm6-T1-TDNA-1_HLNN7DRX7_1_dna.tmb_contig_mean_cov.csv: Copied (new)
2026/06/04 17:29:23 INFO  : Logs_Intermediates/DnaDragenCaller/659_dm6-T1-TDNA-1_HLNN7DRX7_1_dna/659_dm6-T1-TDNA-1_HLNN7DRX7_1_dna.tmb_coverage_metrics.csv: Copied (new)
2026/06/04 17:29:23 INFO  : Logs_Intermediates/DnaDragenCaller/659_dm6-T1-TDNA-1_HLNN7DRX7_1_dna/659_dm6-T1-TDNA-1_HLNN7DRX7_1_dna.tmb_callability.bed: Copied (new)
2026/06/04 17:29:23 INFO  : Logs_Intermediates/DnaDragenCaller/659_dm6-T1-TDNA-1_HLNN7DRX7_1_dna/659_dm6-T1-TDNA-1_HLNN7DRX7_1_dna.tmb_fine_hist.csv: Copied (new)
2026/06/04 17:29:23 INFO  : Logs_Intermediates/DnaDragenCaller/659_dm6-T1-TDNA-1_HLNN7DRX7_1_dna/659_dm6-T1-TDNA-1_HLNN7DRX7_1_dna.tmb_overall_mean_cov.csv: Copied (new)
2026/06/04 17:29:23 INFO  : Logs_Intermediates/DnaDragenCaller/659_dm6-T1-TDNA-1_HLNN7DRX7_1_dna/659_dm6-T1-TDNA-1_HLNN7DRX7_1_dna.target_bed_read_cov_report.bed: Copied (new)
2026/06/04 17:29:23 INFO  : Logs_Intermediates/DnaDragenCaller/659_dm6-T1-TDNA-1_HLNN7DRX7_1_dna/659_dm6-T1-TDNA-1_HLNN7DRX7_1_dna.tmb_hist.csv: Copied (new)
2026/06/04 17:29:23 INFO  : Logs_Intermediates/DnaDragenCaller/659_dm6-T1-TDNA-1_HLNN7DRX7_1_dna/659_dm6-T1-TDNA-1_HLNN7DRX7_1_dna.target_bed_somatic_callable_regions.bed: Copied (new)
2026/06/04 17:29:23 INFO  : Logs_Intermediates/DnaDragenCaller/659_dm6-T1-TDNA-1_HLNN7DRX7_1_dna/659_dm6-T1-TDNA-1_HLNN7DRX7_1_dna.tmb_somatic_callable_regions.bed: Copied (new)
2026/06/04 17:29:23 INFO  : Logs_Intermediates/DnaDragenCaller/659_dm6-T1-TDNA-1_HLNN7DRX7_1_dna/659_dm6-T1-TDNA-1_HLNN7DRX7_1_dna.umi_metrics.csv: Copied (new)
2026/06/04 17:29:23 INFO  : Logs_Intermediates/DnaDragenCaller/659_dm6-T1-TDNA-1_HLNN7DRX7_1_dna/659_dm6-T1-TDNA-1_HLNN7DRX7_1_dna.trimmer_metrics.csv: Copied (new)
2026/06/04 17:29:23 INFO  : Logs_Intermediates/DnaDragenCaller/659_dm6-T1-TDNA-1_HLNN7DRX7_1_dna/659_dm6-T1-TDNA-1_HLNN7DRX7_1_dna.vc_metrics.csv: Copied (new)
2026/06/04 17:29:23 INFO  : Logs_Intermediates/DnaDragenCaller/659_dm6-T1-TDNA-1_HLNN7DRX7_1_dna/659_dm6-T1-TDNA-1_HLNN7DRX7_1_dna.tmb_read_cov_report.bed: Copied (new)
2026/06/04 17:29:23 INFO  : Logs_Intermediates/DnaDragenCaller/659_dm6-T1-TDNA-1_HLNN7DRX7_1_dna/659_dm6-T1-TDNA-1_HLNN7DRX7_1_dna.tn.bw: Copied (new)
2026/06/04 17:29:23 INFO  : Logs_Intermediates/DnaDragenCaller/659_dm6-T1-TDNA-1_HLNN7DRX7_1_dna/659_dm6-T1-TDNA-1_HLNN7DRX7_1_dna.tn.tsv.gz: Copied (new)
2026/06/04 17:29:23 INFO  : Logs_Intermediates/DnaDragenCaller/659_dm6-T1-TDNA-1_HLNN7DRX7_1_dna/659_dm6-T1-TDNA-1_HLNN7DRX7_1_dna.umi-regions-finder.txt: Copied (new)
2026/06/04 17:29:23 INFO  : Logs_Intermediates/DnaDragenCaller/659_dm6-T1-TDNA-1_HLNN7DRX7_1_dna/659_dm6-T1-TDNA-1_HLNN7DRX7_1_dna.wgs_coverage_metrics.csv: Copied (new)
2026/06/04 17:29:23 INFO  : Logs_Intermediates/DnaDragenCaller/659_dm6-T1-TDNA-1_HLNN7DRX7_1_dna/659_dm6-T1-TDNA-1_HLNN7DRX7_1_dna.wgs_contig_mean_cov.csv: Copied (new)
2026/06/04 17:29:23 INFO  : Logs_Intermediates/DnaDragenCaller/659_dm6-T1-TDNA-1_HLNN7DRX7_1_dna/659_dm6-T1-TDNA-1_HLNN7DRX7_1_dna.wgs_fine_hist.csv: Copied (new)
2026/06/04 17:29:23 INFO  : Logs_Intermediates/DnaDragenCaller/659_dm6-T1-TDNA-1_HLNN7DRX7_1_dna/659_dm6-T1-TDNA-1_HLNN7DRX7_1_dna.wgs_overall_mean_cov.csv: Copied (new)
2026/06/04 17:29:23 INFO  : Logs_Intermediates/DnaDragenCaller/659_dm6-T1-TDNA-1_HLNN7DRX7_1_dna/659_dm6-T1-TDNA-1_HLNN7DRX7_1_dna.wgs_hist.csv: Copied (new)
2026/06/04 17:29:23 INFO  : Logs_Intermediates/Contamination/659_dkv-T1-TDNA-1_HLNN7DRX7_1_dna/659_dkv-T1-TDNA-1_HLNN7DRX7_1_dna_contamination.json: Copied (new)
2026/06/04 17:29:23 INFO  : Logs_Intermediates/nextflow_work_logs/08/c4efd072213a857be5493f74427385/.command.err: Copied (new)
2026/06/04 17:29:23 INFO  : Logs_Intermediates/FastqGeneration/659_bIL-T1-TDNA-1_HLNN7DRX7_1_dna/659_bIL-T1-TDNA-1_HLNN7DRX7_1_dna_S2_L001_R1_001.fastq.gz: Multi-thread Copied (new)
2026/06/04 17:29:23 INFO  : Logs_Intermediates/nextflow_work_logs/08/c4efd072213a857be5493f74427385/.command.log: Copied (new)
2026/06/04 17:29:23 INFO  : Logs_Intermediates/DnaDragenCaller/659_dm6-T1-TDNA-1_HLNN7DRX7_1_dna/dragen_syslog_1780525119245_134457.log: Copied (new)
2026/06/04 17:29:23 INFO  : Logs_Intermediates/Contamination/659_dkv-T1-TDNA-1_HLNN7DRX7_1_dna/Spoiler-20260603233312.log: Copied (new)
2026/06/04 17:29:23 INFO  : Logs_Intermediates/nextflow_work_logs/08/c4efd072213a857be5493f74427385/.command.out: Copied (new)
2026/06/04 17:29:23 INFO  : 
Transferred:   	   89.435 GiB / 341.003 GiB, 26%, 1.704 GiB/s, ETA 2m27s
Transferred:         2933 / 7318, 40%
Elapsed time:       1m0.0s
Transferring:
 * Logs_Intermediates/Dna…-1_HLNN7DRX7_1_dna.bam: 49% /3.689Gi, 30.903Mi/s, 1m2s
 * Logs_Intermediates/Dna…-1_HLNN7DRX7_1_dna.bam: 51% /3.391Gi, 28.502Mi/s, 58s
 * Logs_Intermediates/Fas…0_L001_R1_001.fastq.gz: 96% /1.648Gi, 33.095Mi/s, 1s
 * Logs_Intermediates/Fas…0_L001_R2_001.fastq.gz: 98% /1.729Gi, 35.659Mi/s, 0s
 * Logs_Intermediates/Dna…-1_HLNN7DRX7_1_dna.bam: 59% /2.890Gi, 30.343Mi/s, 39s
 * Logs_Intermediates/Dna…-1_HLNN7DRX7_1_dna.bam: 36% /3.835Gi, 30.081Mi/s, 1m23s
 * Logs_Intermediates/Dna…-1_HLNN7DRX7_1_dna.bam: 42% /2.930Gi, 20.226Mi/s, 1m25s
 * Results/659_oZ-T1-TDNA…dna.hard-filtered.gvcf: 73% /136.326Mi, 1.736Mi/s, 20s
 * Results/659_eIu-T1-TDN…dna.hard-filtered.gvcf: 68% /137.951Mi, 1.797Mi/s, 24s
 * Results/659_em3-T1-TDN…dna.hard-filtered.gvcf: 86% /136.599Mi, 2.024Mi/s, 9s
 * Logs_Intermediates/Fas…8_L002_R1_001.fastq.gz: 99% /1.765Gi, 32.470Mi/s, 0s
 * Logs_Intermediates/Fas…8_L002_R2_001.fastq.gz: 98% /1.805Gi, 30.823Mi/s, 1s
 * Logs_Intermediates/Dna…-1_HLNN7DRX7_1_dna.bam: 45% /3.671Gi, 32.507Mi/s, 1m3s
 * Logs_Intermediates/Fas…2_L002_R1_001.fastq.gz: 98% /1.708Gi, 36.917Mi/s, 0s
 * Logs_Intermediates/Fas…2_L002_R2_001.fastq.gz: 69% /1.805Gi, 31.122Mi/s, 18s
 * Logs_Intermediates/Fas…3_L001_R2_001.fastq.gz: 92% /1.627Gi, 31.934Mi/s, 4s
 * Logs_Intermediates/Fas…3_L002_R1_001.fastq.gz: 98% /1.631Gi, 34.468Mi/s, 0s
 * Logs_Intermediates/Fas…3_L002_R2_001.fastq.gz: 96% /1.607Gi, 27.694Mi/s, 2s
 * Logs_Intermediates/Dna…-1_HLNN7DRX7_1_dna.bam: 40% /3.370Gi, 35.009Mi/s, 58s
 * Logs_Intermediates/Fas…7_L001_R1_001.fastq.gz: 78% /1.826Gi, 30.826Mi/s, 12s
 * Logs_Intermediates/Fas…7_L001_R2_001.fastq.gz: 73% /1.878Gi, 30.668Mi/s, 16s
 * Logs_Intermediates/Fas…7_L002_R1_001.fastq.gz: 77% /1.849Gi, 34.834Mi/s, 12s
 * Logs_Intermediates/Fas…7_L002_R2_001.fastq.gz: 74% /1.888Gi, 30.316Mi/s, 16s
 * Logs_Intermediates/Dna…-1_HLNN7DRX7_1_dna.bam: 39% /3.594Gi, 34.928Mi/s, 1m3s
 * Logs_Intermediates/Dna…-1_HLNN7DRX7_1_dna.bam: 45% /2.928Gi, 30.052Mi/s, 54s
 * Logs_Intermediates/Fas…4_L001_R1_001.fastq.gz: 74% /1.555Gi, 27.227Mi/s, 14s
 * Logs_Intermediates/Fas…4_L001_R2_001.fastq.gz: 78% /1.611Gi, 30.908Mi/s, 11s
 * Logs_Intermediates/Fas…4_L002_R1_001.fastq.gz: 92% /1.562Gi, 35.008Mi/s, 3s
 * Logs_Intermediates/Fas…4_L002_R2_001.fastq.gz: 79% /1.614Gi, 32.962Mi/s, 10s
 * Logs_Intermediates/Dna…-1_HLNN7DRX7_1_dna.bam: 33% /3.231Gi, 26.869Mi/s, 1m21s
 * Logs_Intermediates/Fas…0_L001_R1_001.fastq.gz: 79% /1.174Gi, 26.794Mi/s, 9s
 * Logs_Intermediates/Fas…0_L002_R2_001.fastq.gz: 96% /983.622Mi, 18.633Mi/s, 1s
 * Logs_Intermediates/Dna…-1_HLNN7DRX7_1_dna.bam: 32% /3.963Gi, 36.036Mi/s, 1m16s
 * Logs_Intermediates/Fas…1_L001_R1_001.fastq.gz: 61% /1.615Gi, 25.885Mi/s, 24s
 * Logs_Intermediates/Fas…1_L001_R2_001.fastq.gz: 73% /1.491Gi, 33.247Mi/s, 12s
 * Logs_Intermediates/Fas…1_L002_R1_001.fastq.gz: 67% /1.564Gi, 31.247Mi/s, 16s
 * Logs_Intermediates/Fas…1_L002_R2_001.fastq.gz: 92% /1.422Gi, 36.913Mi/s, 3s
 * Logs_Intermediates/Fas…3_L001_R1_001.fastq.gz: 64% /1.827Gi, 32.339Mi/s, 20s
 * Logs_Intermediates/Fas…3_L001_R2_001.fastq.gz: 64% /1.890Gi, 38.625Mi/s, 17s
 * Logs_Intermediates/Fas…3_L002_R1_001.fastq.gz: 57% /1.846Gi, 31.067Mi/s, 25s
 * Logs_Intermediates/Fas…3_L002_R2_001.fastq.gz: 64% /1.899Gi, 37.587Mi/s, 18s
 * Logs_Intermediates/Dna…-1_HLNN7DRX7_1_dna.bam: 30% /3.206Gi, 27.423Mi/s, 1m23s
 * Logs_Intermediates/Dna…-1_HLNN7DRX7_1_dna.bam: 25% /3.691Gi, 31.691Mi/s, 1m28s
 * Logs_Intermediates/Fas…9_L001_R1_001.fastq.gz: 49% /1.697Gi, 32.775Mi/s, 26s
 * Logs_Intermediates/Fas…9_L001_R2_001.fastq.gz: 57% /1.641Gi, 40.703Mi/s, 17s
 * Logs_Intermediates/Fas…9_L002_R1_001.fastq.gz: 48% /1.691Gi, 33.891Mi/s, 26s
 * Logs_Intermediates/Fas…9_L002_R2_001.fastq.gz: 63% /1.624Gi, 44.330Mi/s, 13s
 * Logs_Intermediates/Fas…0_L001_R1_001.fastq.gz: 40% /1.672Gi, 31.198Mi/s, 32s
 * Logs_Intermediates/Fas…0_L001_R2_001.fastq.gz: 41% /1.650Gi, 33.217Mi/s, 29s
 * Logs_Intermediates/Fas…0_L002_R1_001.fastq.gz: 36% /1.676Gi, 27.741Mi/s, 39s
 * Logs_Intermediates/Fas…0_L002_R2_001.fastq.gz: 34% /1.635Gi, 36.267Mi/s, 30s
 * Logs_Intermediates/Dna…-1_HLNN7DRX7_1_dna.bam:  6% /3.708Gi, 19.692Mi/s, 2m59s
 * Logs_Intermediates/Dna…-1_HLNN7DRX7_1_dna.bam:  0% /4.224Gi, 16.000Mi/s, 4m28s
 * Logs_Intermediates/Dna….hard-filtered.gvcf.gz: 77% /18.105Mi, 8.996Mi/s, 0s
 * Logs_Intermediates/Dna…_1_dna.umi-regions.txt:100% /2.308Mi, 0/s, -
 * Logs_Intermediates/Dna…c_callable_regions.bed: 88% /974.507Ki, 0/s, -
 * Logs_Intermediates/Dna…80525119262_134457.log:100% /550.840Ki, 0/s, -
 * Logs_Intermediates/nex…f74427385/.command.run: transferring
 * Logs_Intermediates/nex…3f74427385/.command.sh: transferring
 * Logs_Intermediates/Ann…ants_Annotated.json.gz: transferring
 * Logs_Intermediates/Ann…_Annotated.json.gz.jsi: transferring
 * Logs_Intermediates/Ann…ana-20260603232558.log: transferring
 * Logs_Intermediates/Met…X7_1_MetricsOutput.tsv: transferring
 * Logs_Intermediates/Fas…9_L001_R1_001.fastq.gz: transferring

2026/06/04 17:29:23 INFO  : Logs_Intermediates/DnaDragenCaller/659_dm6-T1-TDNA-1_HLNN7DRX7_1_dna/659_dm6-T1-TDNA-1_HLNN7DRX7_1_dna.umi-regions.txt: Copied (new)
2026/06/04 17:29:23 INFO  : Logs_Intermediates/nextflow_work_logs/08/c4efd072213a857be5493f74427385/.command.sh: Copied (new)
2026/06/04 17:29:23 INFO  : Logs_Intermediates/DnaDragenCaller/659_dm6-T1-TDNA-1_HLNN7DRX7_1_dna/dragen_run_1780525119262_134457.log: Copied (new)
2026/06/04 17:29:23 INFO  : Logs_Intermediates/DnaDragenCaller/659_dm6-T1-TDNA-1_HLNN7DRX7_1_dna/659_dm6-T1-TDNA-1_HLNN7DRX7_1_dna.wgs_somatic_callable_regions.bed: Copied (new)
2026/06/04 17:29:23 INFO  : Logs_Intermediates/nextflow_work_logs/08/c4efd072213a857be5493f74427385/.command.run: Copied (new)
2026/06/04 17:29:23 INFO  : Logs_Intermediates/MetricsOutput/659_dg8-T1-TDNA-1_HLNN7DRX7_1/659_dg8-T1-TDNA-1_HLNN7DRX7_1_MetricsOutput.tsv: Copied (new)
2026/06/04 17:29:23 INFO  : Logs_Intermediates/Annotation/659_dg8-T1-TDNA-1_HLNN7DRX7_1_dna/Nirvana-20260603232558.log: Copied (new)
2026/06/04 17:29:23 INFO  : Logs_Intermediates/Annotation/659_dg8-T1-TDNA-1_HLNN7DRX7_1_dna/659_dg8-T1-TDNA-1_HLNN7DRX7_1_dna_DNAVariants_Annotated.json.gz.jsi: Copied (new)
2026/06/04 17:29:24 INFO  : Logs_Intermediates/DnaDragenCaller/659_dkv-T1-TDNA-1_HLNN7DRX7_1_dna/659_dkv-T1-TDNA-1_HLNN7DRX7_1_dna.bam.md5sum: Copied (new)
2026/06/04 17:29:24 INFO  : Logs_Intermediates/Annotation/659_dg8-T1-TDNA-1_HLNN7DRX7_1_dna/659_dg8-T1-TDNA-1_HLNN7DRX7_1_dna_DNAVariants_Annotated.json.gz: Copied (new)
2026/06/04 17:29:24 INFO  : Logs_Intermediates/DnaDragenCaller/659_dkv-T1-TDNA-1_HLNN7DRX7_1_dna/659_dkv-T1-TDNA-1_HLNN7DRX7_1_dna-replay.json: Copied (new)
2026/06/04 17:29:24 INFO  : Logs_Intermediates/DnaDragenCaller/659_dkv-T1-TDNA-1_HLNN7DRX7_1_dna/659_dkv-T1-TDNA-1_HLNN7DRX7_1_dna.cnv.excluded_intervals.bed.gz: Copied (new)
2026/06/04 17:29:24 INFO  : Logs_Intermediates/FastqGeneration/659_QP-T1-TDNA-1_HLNN7DRX7_1_dna/659_QP-T1-TDNA-1_HLNN7DRX7_1_dna_S28_L002_R1_001.fastq.gz: Multi-thread Copied (new)
2026/06/04 17:29:24 INFO  : Logs_Intermediates/DnaDragenCaller/659_dkv-T1-TDNA-1_HLNN7DRX7_1_dna/659_dkv-T1-TDNA-1_HLNN7DRX7_1_dna.cnv.igv_session.xml: Copied (new)
2026/06/04 17:29:24 INFO  : Logs_Intermediates/DnaDragenCaller/659_dm6-T1-TDNA-1_HLNN7DRX7_1_dna/659_dm6-T1-TDNA-1_HLNN7DRX7_1_dna.hard-filtered.gvcf.gz: Copied (new)
2026/06/04 17:29:24 INFO  : Logs_Intermediates/DnaDragenCaller/659_dkv-T1-TDNA-1_HLNN7DRX7_1_dna/659_dkv-T1-TDNA-1_HLNN7DRX7_1_dna.cnv.vcf.gz.md5sum: Copied (new)
2026/06/04 17:29:24 INFO  : Logs_Intermediates/DnaDragenCaller/659_dkv-T1-TDNA-1_HLNN7DRX7_1_dna/659_dkv-T1-TDNA-1_HLNN7DRX7_1_dna.cnv.gff3: Copied (new)
2026/06/04 17:29:24 INFO  : Logs_Intermediates/DnaDragenCaller/659_dkv-T1-TDNA-1_HLNN7DRX7_1_dna/659_dkv-T1-TDNA-1_HLNN7DRX7_1_dna.cnv.vcf.gz: Copied (new)
2026/06/04 17:29:24 INFO  : Logs_Intermediates/DnaDragenCaller/659_dkv-T1-TDNA-1_HLNN7DRX7_1_dna/659_dkv-T1-TDNA-1_HLNN7DRX7_1_dna.cnv.vcf.gz.tbi: Copied (new)
2026/06/04 17:29:24 INFO  : Logs_Intermediates/FastqGeneration/659_QP-T1-TDNA-1_HLNN7DRX7_1_dna/659_QP-T1-TDNA-1_HLNN7DRX7_1_dna_S28_L002_R2_001.fastq.gz: Multi-thread Copied (new)
2026/06/04 17:29:24 INFO  : Logs_Intermediates/DnaDragenCaller/659_dkv-T1-TDNA-1_HLNN7DRX7_1_dna/659_dkv-T1-TDNA-1_HLNN7DRX7_1_dna.cnv_metrics.csv: Copied (new)
2026/06/04 17:29:24 INFO  : Logs_Intermediates/DnaDragenCaller/659_dkv-T1-TDNA-1_HLNN7DRX7_1_dna/659_dkv-T1-TDNA-1_HLNN7DRX7_1_dna.exon_contig_mean_cov.csv: Copied (new)
2026/06/04 17:29:24 INFO  : Logs_Intermediates/DnaDragenCaller/659_dkv-T1-TDNA-1_HLNN7DRX7_1_dna/659_dkv-T1-TDNA-1_HLNN7DRX7_1_dna.bam.bai: Copied (new)
2026/06/04 17:29:24 INFO  : Logs_Intermediates/DnaDragenCaller/659_dkv-T1-TDNA-1_HLNN7DRX7_1_dna/659_dkv-T1-TDNA-1_HLNN7DRX7_1_dna.exon_fine_hist.csv: Copied (new)
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2026/06/04 17:29:52 INFO  : Logs_Intermediates/FastqGeneration/659_cgF-T1-TDNA-1_HLNN7DRX7_1_dna/659_cgF-T1-TDNA-1_HLNN7DRX7_1_dna_S3_L002_R1_001.fastq.gz: Multi-thread Copied (new)
2026/06/04 17:29:52 INFO  : Logs_Intermediates/DnaDragenExonCnvCaller/659_eeG-T1-TDNA-1_HLNN7DRX7_1_dna/659_eeG-T1-TDNA-1_HLNN7DRX7_1_dna.cnv_metrics.csv: Copied (new)
2026/06/04 17:29:52 INFO  : Logs_Intermediates/DnaDragenExonCnvCaller/659_eeG-T1-TDNA-1_HLNN7DRX7_1_dna/659_eeG-T1-TDNA-1_HLNN7DRX7_1_dna.seg: Copied (new)
2026/06/04 17:29:52 INFO  : Logs_Intermediates/Tmb/659_eRI-T1-TDNA-1_HLNN7DRX7_1_dna/659_eRI-T1-TDNA-1_HLNN7DRX7_1_dna_DNAVariants_TMB_Annotated.json.gz: Copied (new)
2026/06/04 17:29:52 INFO  : Logs_Intermediates/DnaDragenExonCnvCaller/659_eeG-T1-TDNA-1_HLNN7DRX7_1_dna/659_eeG-T1-TDNA-1_HLNN7DRX7_1_dna.seg.bw: Copied (new)
2026/06/04 17:29:52 INFO  : Logs_Intermediates/DnaDragenExonCnvCaller/659_eeG-T1-TDNA-1_HLNN7DRX7_1_dna/659_eeG-T1-TDNA-1_HLNN7DRX7_1_dna.improper.pairs.bw: Copied (new)
2026/06/04 17:29:52 INFO  : Logs_Intermediates/DnaDragenExonCnvCaller/659_eeG-T1-TDNA-1_HLNN7DRX7_1_dna/659_eeG-T1-TDNA-1_HLNN7DRX7_1_dna.seg.called: Copied (new)
2026/06/04 17:29:52 INFO  : Logs_Intermediates/DnaDragenExonCnvCaller/659_eeG-T1-TDNA-1_HLNN7DRX7_1_dna/659_eeG-T1-TDNA-1_HLNN7DRX7_1_dna.seg.called.merged: Copied (new)
2026/06/04 17:29:52 INFO  : Logs_Intermediates/DnaDragenExonCnvCaller/659_eeG-T1-TDNA-1_HLNN7DRX7_1_dna/659_eeG-T1-TDNA-1_HLNN7DRX7_1_dna.time_metrics.csv: Copied (new)
2026/06/04 17:29:52 INFO  : Logs_Intermediates/DnaDragenExonCnvCaller/659_eeG-T1-TDNA-1_HLNN7DRX7_1_dna/659_eeG-T1-TDNA-1_HLNN7DRX7_1_dna.target.counts.gc-corrected.gz: Copied (new)
2026/06/04 17:29:52 INFO  : Logs_Intermediates/DnaDragenExonCnvCaller/659_eeG-T1-TDNA-1_HLNN7DRX7_1_dna/659_eeG-T1-TDNA-1_HLNN7DRX7_1_dna.target.counts.bw: Copied (new)
2026/06/04 17:29:52 INFO  : Logs_Intermediates/DnaDragenExonCnvCaller/659_eeG-T1-TDNA-1_HLNN7DRX7_1_dna/659_eeG-T1-TDNA-1_HLNN7DRX7_1_dna.tn.bw: Copied (new)
2026/06/04 17:29:52 INFO  : Logs_Intermediates/DnaDragenExonCnvCaller/659_eeG-T1-TDNA-1_HLNN7DRX7_1_dna/659_eeG-T1-TDNA-1_HLNN7DRX7_1_dna.target.counts.gz: Copied (new)
2026/06/04 17:29:52 INFO  : Logs_Intermediates/DnaDragenExonCnvCaller/659_eeG-T1-TDNA-1_HLNN7DRX7_1_dna/659_eeG-T1-TDNA-1_HLNN7DRX7_1_dna.tn.tsv.gz: Copied (new)
2026/06/04 17:29:52 INFO  : Logs_Intermediates/DnaDragenExonCnvCaller/659_eeG-T1-TDNA-1_HLNN7DRX7_1_dna/659_eeG-T1-TDNA-1_HLNN7DRX7_1_dna_DragenExonCNV.json: Copied (new)
2026/06/04 17:29:52 INFO  : Logs_Intermediates/DnaDragenExonCnvCaller/659_eeG-T1-TDNA-1_HLNN7DRX7_1_dna/dragen_run_1780528518253_270658.log: Copied (new)
2026/06/04 17:29:52 INFO  : Logs_Intermediates/nextflow_work_logs/12/13ccf19f1d4f0ff0b81c78e2dfbd53/.command.err: Copied (new)
2026/06/04 17:29:52 INFO  : Logs_Intermediates/nextflow_work_logs/12/13ccf19f1d4f0ff0b81c78e2dfbd53/.command.out: Copied (new)
2026/06/04 17:29:52 INFO  : Logs_Intermediates/nextflow_work_logs/12/13ccf19f1d4f0ff0b81c78e2dfbd53/.command.log: Copied (new)
2026/06/04 17:29:52 INFO  : Logs_Intermediates/nextflow_work_logs/12/13ccf19f1d4f0ff0b81c78e2dfbd53/.command.run: Copied (new)
2026/06/04 17:29:52 INFO  : Logs_Intermediates/nextflow_work_logs/12/13ccf19f1d4f0ff0b81c78e2dfbd53/.command.sh: Copied (new)
2026/06/04 17:29:52 INFO  : Logs_Intermediates/DnaDragenExonCnvCaller/659_eeG-T1-TDNA-1_HLNN7DRX7_1_dna/dragen_syslog_1780528518245_270658.log: Copied (new)
2026/06/04 17:29:52 INFO  : Logs_Intermediates/DnaCoverageReports/659_edW-T1-TDNA-1_HLNN7DRX7_1_dna/659_edW-T1-TDNA-1_HLNN7DRX7_1_dna.gene_cov_report.tsv: Copied (new)
2026/06/04 17:29:52 INFO  : Logs_Intermediates/DnaCoverageReports/659_edW-T1-TDNA-1_HLNN7DRX7_1_dna/659_edW-T1-TDNA-1_HLNN7DRX7_1_dna.exon_cov_report.tsv: Copied (new)
2026/06/04 17:29:52 INFO  : Logs_Intermediates/DnaCoverageReports/659_edW-T1-TDNA-1_HLNN7DRX7_1_dna/gen_coverage_reports.log: Copied (new)
2026/06/04 17:29:52 INFO  : Logs_Intermediates/Contamination/659_edW-T1-TDNA-1_HLNN7DRX7_1_dna/Spoiler-20260603233822.log: Copied (new)
2026/06/04 17:29:53 INFO  : Logs_Intermediates/Contamination/659_edW-T1-TDNA-1_HLNN7DRX7_1_dna/659_edW-T1-TDNA-1_HLNN7DRX7_1_dna_contamination.json: Copied (new)
2026/06/04 17:29:53 INFO  : Logs_Intermediates/DnaDragenCaller/659_eeG-T1-TDNA-1_HLNN7DRX7_1_dna/659_eeG-T1-TDNA-1_HLNN7DRX7_1_dna.bam.md5sum: Copied (new)
2026/06/04 17:29:53 INFO  : Logs_Intermediates/DnaDragenCaller/659_eeG-T1-TDNA-1_HLNN7DRX7_1_dna/659_eeG-T1-TDNA-1_HLNN7DRX7_1_dna.cnv.excluded_intervals.bed.gz: Copied (new)
2026/06/04 17:29:53 INFO  : Logs_Intermediates/DnaDragenCaller/659_eeG-T1-TDNA-1_HLNN7DRX7_1_dna/659_eeG-T1-TDNA-1_HLNN7DRX7_1_dna-replay.json: Copied (new)
2026/06/04 17:29:53 INFO  : Logs_Intermediates/DnaDragenCaller/659_eeG-T1-TDNA-1_HLNN7DRX7_1_dna/659_eeG-T1-TDNA-1_HLNN7DRX7_1_dna.cnv.gff3: Copied (new)
2026/06/04 17:29:53 INFO  : Logs_Intermediates/DnaDragenCaller/659_eeG-T1-TDNA-1_HLNN7DRX7_1_dna/659_eeG-T1-TDNA-1_HLNN7DRX7_1_dna.cnv.igv_session.xml: Copied (new)
2026/06/04 17:29:53 INFO  : Logs_Intermediates/DnaDragenCaller/659_eeG-T1-TDNA-1_HLNN7DRX7_1_dna/659_eeG-T1-TDNA-1_HLNN7DRX7_1_dna.cnv.vcf.gz.md5sum: Copied (new)
2026/06/04 17:29:53 INFO  : Logs_Intermediates/DnaDragenCaller/659_eeG-T1-TDNA-1_HLNN7DRX7_1_dna/659_eeG-T1-TDNA-1_HLNN7DRX7_1_dna.cnv.vcf.gz: Copied (new)
2026/06/04 17:29:53 INFO  : Logs_Intermediates/DnaDragenCaller/659_eeG-T1-TDNA-1_HLNN7DRX7_1_dna/659_eeG-T1-TDNA-1_HLNN7DRX7_1_dna.cnv.vcf.gz.tbi: Copied (new)
2026/06/04 17:29:53 INFO  : Logs_Intermediates/DnaDragenCaller/659_eeG-T1-TDNA-1_HLNN7DRX7_1_dna/659_eeG-T1-TDNA-1_HLNN7DRX7_1_dna.exon_contig_mean_cov.csv: Copied (new)
2026/06/04 17:29:53 INFO  : Logs_Intermediates/DnaDragenCaller/659_eeG-T1-TDNA-1_HLNN7DRX7_1_dna/659_eeG-T1-TDNA-1_HLNN7DRX7_1_dna.cnv_metrics.csv: Copied (new)
2026/06/04 17:29:53 INFO  : Logs_Intermediates/DnaDragenExonCnvCaller/659_eeG-T1-TDNA-1_HLNN7DRX7_1_dna/659_eeG-T1-TDNA-1_HLNN7DRX7_1_dna.combined.counts.txt.gz: Copied (new)
2026/06/04 17:29:53 INFO  : Logs_Intermediates/DnaDragenCaller/659_eeG-T1-TDNA-1_HLNN7DRX7_1_dna/659_eeG-T1-TDNA-1_HLNN7DRX7_1_dna.exon_coverage_metrics.csv: Copied (new)
2026/06/04 17:29:53 INFO  : Logs_Intermediates/DnaDragenCaller/659_eeG-T1-TDNA-1_HLNN7DRX7_1_dna/659_eeG-T1-TDNA-1_HLNN7DRX7_1_dna.exon_overall_mean_cov.csv: Copied (new)
2026/06/04 17:29:53 INFO  : Logs_Intermediates/DnaDragenCaller/659_eeG-T1-TDNA-1_HLNN7DRX7_1_dna/659_eeG-T1-TDNA-1_HLNN7DRX7_1_dna.exon_hist.csv: Copied (new)
2026/06/04 17:29:53 INFO  : Logs_Intermediates/DnaDragenCaller/659_eeG-T1-TDNA-1_HLNN7DRX7_1_dna/659_eeG-T1-TDNA-1_HLNN7DRX7_1_dna.exon_fine_hist.csv: Copied (new)
2026/06/04 17:29:53 INFO  : Logs_Intermediates/DnaDragenCaller/659_eeG-T1-TDNA-1_HLNN7DRX7_1_dna/659_eeG-T1-TDNA-1_HLNN7DRX7_1_dna.exon_cov_report.bed: Copied (new)
2026/06/04 17:29:53 INFO  : Logs_Intermediates/DnaDragenCaller/659_eeG-T1-TDNA-1_HLNN7DRX7_1_dna/659_eeG-T1-TDNA-1_HLNN7DRX7_1_dna.exon_read_cov_report.bed: Copied (new)
2026/06/04 17:29:53 INFO  : 
Transferred:   	  142.570 GiB / 342.759 GiB, 42%, 1.747 GiB/s, ETA 1m54s
Transferred:         4148 / 7318, 57%
Elapsed time:      1m30.0s
Transferring:
 * Logs_Intermediates/Dna…-1_HLNN7DRX7_1_dna.bam: 76% /3.689Gi, 31.807Mi/s, 28s
 * Logs_Intermediates/Dna…-1_HLNN7DRX7_1_dna.bam: 82% /3.391Gi, 32.919Mi/s, 18s
 * Logs_Intermediates/Dna…-1_HLNN7DRX7_1_dna.bam: 98% /2.890Gi, 35.996Mi/s, 0s
 * Logs_Intermediates/Dna…-1_HLNN7DRX7_1_dna.bam: 62% /3.835Gi, 33.651Mi/s, 43s
 * Logs_Intermediates/Dna…-1_HLNN7DRX7_1_dna.bam: 80% /2.930Gi, 33.617Mi/s, 17s
 * Logs_Intermediates/Dna…-1_HLNN7DRX7_1_dna.bam: 76% /3.671Gi, 40.160Mi/s, 21s
 * Logs_Intermediates/Dna…-1_HLNN7DRX7_1_dna.bam: 70% /3.370Gi, 33.880Mi/s, 30s
 * Logs_Intermediates/Dna…-1_HLNN7DRX7_1_dna.bam: 70% /3.594Gi, 36.758Mi/s, 29s
 * Logs_Intermediates/Dna…-1_HLNN7DRX7_1_dna.bam: 83% /2.928Gi, 39.233Mi/s, 12s
 * Logs_Intermediates/Dna…-1_HLNN7DRX7_1_dna.bam: 67% /3.231Gi, 33.832Mi/s, 31s
 * Logs_Intermediates/Dna…-1_HLNN7DRX7_1_dna.bam: 60% /3.963Gi, 38.210Mi/s, 41s
 * Logs_Intermediates/Dna…-1_HLNN7DRX7_1_dna.bam: 64% /3.206Gi, 33.492Mi/s, 34s
 * Logs_Intermediates/Dna…-1_HLNN7DRX7_1_dna.bam: 55% /3.691Gi, 40.386Mi/s, 41s
 * Logs_Intermediates/Fas…0_L001_R1_001.fastq.gz: 98% /1.672Gi, 34.085Mi/s, 0s
 * Logs_Intermediates/Fas…0_L002_R1_001.fastq.gz: 96% /1.676Gi, 34.039Mi/s, 1s
 * Logs_Intermediates/Fas…0_L002_R2_001.fastq.gz: 91% /1.635Gi, 34.413Mi/s, 4s
 * Logs_Intermediates/Dna…-1_HLNN7DRX7_1_dna.bam: 32% /3.708Gi, 31.892Mi/s, 1m20s
 * Logs_Intermediates/Dna…-1_HLNN7DRX7_1_dna.bam: 25% /4.224Gi, 34.626Mi/s, 1m33s
 * Logs_Intermediates/Fas…9_L001_R1_001.fastq.gz: 62% /1.753Gi, 35.491Mi/s, 19s
 * Logs_Intermediates/Fas…9_L001_R2_001.fastq.gz: 53% /1.882Gi, 32.616Mi/s, 27s
 * Logs_Intermediates/Fas…9_L002_R1_001.fastq.gz: 66% /1.752Gi, 41.261Mi/s, 14s
 * Logs_Intermediates/Fas…9_L002_R2_001.fastq.gz: 59% /1.906Gi, 36.499Mi/s, 21s
 * Logs_Intermediates/Dna…-1_HLNN7DRX7_1_dna.bam: 32% /2.821Gi, 30.115Mi/s, 1m5s
 * Logs_Intermediates/Fas…4_L001_R1_001.fastq.gz: 43% /1.870Gi, 32.284Mi/s, 33s
 * Logs_Intermediates/Fas…4_L001_R2_001.fastq.gz: 41% /1.944Gi, 33.044Mi/s, 35s
 * Logs_Intermediates/Fas…4_L002_R1_001.fastq.gz: 46% /1.889Gi, 35.768Mi/s, 29s
 * Logs_Intermediates/Fas…4_L002_R2_001.fastq.gz: 46% /1.957Gi, 35.330Mi/s, 30s
 * Logs_Intermediates/Fas…1_L001_R1_001.fastq.gz: 62% /1.307Gi, 34.043Mi/s, 14s
 * Logs_Intermediates/Fas…1_L001_R2_001.fastq.gz: 73% /1.194Gi, 37.049Mi/s, 8s
 * Logs_Intermediates/Fas…1_L002_R1_001.fastq.gz: 75% /1.158Gi, 32.009Mi/s, 9s
 * Logs_Intermediates/Fas…1_L002_R2_001.fastq.gz: 66% /1.074Gi, 27.438Mi/s, 13s
 * Logs_Intermediates/Fas…8_L001_R1_001.fastq.gz: 21% /2.201Gi, 22.477Mi/s, 1m18s
 * Logs_Intermediates/Fas…8_L001_R2_001.fastq.gz: 30% /2.222Gi, 32.384Mi/s, 48s
 * Logs_Intermediates/Fas…8_L002_R1_001.fastq.gz: 29% /2.213Gi, 32.470Mi/s, 49s
 * Logs_Intermediates/Fas…8_L002_R2_001.fastq.gz: 26% /2.224Gi, 29.564Mi/s, 56s
 * Logs_Intermediates/Dna…-1_HLNN7DRX7_1_dna.bam: 17% /3.557Gi, 28.565Mi/s, 1m45s
 * Logs_Intermediates/Dna…-1_HLNN7DRX7_1_dna.bam: 15% /3.698Gi, 33.943Mi/s, 1m34s
 * Logs_Intermediates/Fas…5_L001_R1_001.fastq.gz: 54% /884.281Mi, 33.667Mi/s, 12s
 * Logs_Intermediates/Fas…5_L001_R2_001.fastq.gz: 52% /855.016Mi, 29.714Mi/s, 13s
 * Logs_Intermediates/Fas…5_L002_R1_001.fastq.gz: 53% /899.614Mi, 32.000Mi/s, 13s
 * Logs_Intermediates/Fas…5_L002_R2_001.fastq.gz: 66% /866.756Mi, 36.571Mi/s, 7s
 * Logs_Intermediates/Fas…6_L001_R1_001.fastq.gz: 28% /1.535Gi, 34.461Mi/s, 32s
 * Logs_Intermediates/Fas…6_L001_R2_001.fastq.gz: 27% /1.678Gi, 36.493Mi/s, 34s
 * Logs_Intermediates/Fas…6_L002_R1_001.fastq.gz: 24% /1.552Gi, 29.538Mi/s, 40s
 * Logs_Intermediates/Fas…6_L002_R2_001.fastq.gz: 23% /1.714Gi, 32.000Mi/s, 41s
 * Logs_Intermediates/Dna…-1_HLNN7DRX7_1_dna.bam:  8% /3.891Gi, 32.000Mi/s, 1m53s
 * Logs_Intermediates/Dna…-1_HLNN7DRX7_1_dna.bam:  6% /3.960Gi, 28.000Mi/s, 2m15s
 * Logs_Intermediates/Dna…-1_HLNN7DRX7_1_dna.bam:  4% /4.941Gi, 32.000Mi/s, 2m31s
 * Logs_Intermediates/Fas…8_L001_R1_001.fastq.gz:  7% /1.740Gi, 25.600Mi/s, 1m4s
 * Logs_Intermediates/Fas…8_L001_R2_001.fastq.gz:  6% /1.831Gi, 19.200Mi/s, 1m30s
 * Logs_Intermediates/Fas…8_L002_R1_001.fastq.gz:  8% /1.770Gi, 19.200Mi/s, 1m26s
 * Logs_Intermediates/Fas…8_L002_R2_001.fastq.gz: 10% /1.860Gi, 31.806Mi/s, 53s
 * Logs_Intermediates/Dna…-1_HLNN7DRX7_1_dna.bam:  2% /3.644Gi, 16.000Mi/s, 3m47s
 * Logs_Intermediates/Fas…2_L001_R1_001.fastq.gz:  1% /1.979Gi, 0/s, -
 * Logs_Intermediates/Fas…2_L001_R2_001.fastq.gz:  0% /2.000Gi, 0/s, -
 * Logs_Intermediates/Fas…2_L002_R1_001.fastq.gz:  0% /2.026Gi, 0/s, -
 * Logs_Intermediates/Fas…2_L002_R2_001.fastq.gz:  1% /2.030Gi, 16.000Mi/s, 2m7s
 * Logs_Intermediates/Dna…-1_HLNN7DRX7_1_dna.bam:  0% /3.544Gi, 0/s, -
 * Logs_Intermediates/Dna…LNN7DRX7_1_dna.bam.bai: 48% /6.215Mi, 0/s, -
 * Logs_Intermediates/Dna…c_callable_regions.bed:100% /176.828Ki, 0/s, -
 * Logs_Intermediates/Dna…7_1_dna.fastq_list.csv:100% /620, 0/s, -
 * Logs_Intermediates/Dna…dna.fastqc_metrics.csv: transferring
 * Logs_Intermediates/Dna…agment_length_hist.csv: transferring
 * Logs_Intermediates/Dna…7_1_dna.gc_metrics.csv: transferring

2026/06/04 17:29:53 INFO  : Logs_Intermediates/DnaDragenCaller/659_eeG-T1-TDNA-1_HLNN7DRX7_1_dna/659_eeG-T1-TDNA-1_HLNN7DRX7_1_dna.fastq_list.csv: Copied (new)
2026/06/04 17:29:53 INFO  : Logs_Intermediates/DnaDragenCaller/659_eeG-T1-TDNA-1_HLNN7DRX7_1_dna/659_eeG-T1-TDNA-1_HLNN7DRX7_1_dna.exon_somatic_callable_regions.bed: Copied (new)
2026/06/04 17:29:53 INFO  : Logs_Intermediates/DnaDragenCaller/659_eeG-T1-TDNA-1_HLNN7DRX7_1_dna/659_eeG-T1-TDNA-1_HLNN7DRX7_1_dna.gc_metrics.csv: Copied (new)
2026/06/04 17:29:53 INFO  : Logs_Intermediates/DnaDragenCaller/659_eeG-T1-TDNA-1_HLNN7DRX7_1_dna/659_eeG-T1-TDNA-1_HLNN7DRX7_1_dna.gvcf_metrics.csv: Copied (new)
2026/06/04 17:29:53 INFO  : Logs_Intermediates/DnaDragenCaller/659_eeG-T1-TDNA-1_HLNN7DRX7_1_dna/659_eeG-T1-TDNA-1_HLNN7DRX7_1_dna.fastqc_metrics.csv: Copied (new)
2026/06/04 17:29:53 INFO  : Logs_Intermediates/DnaDragenCaller/659_eeG-T1-TDNA-1_HLNN7DRX7_1_dna/659_eeG-T1-TDNA-1_HLNN7DRX7_1_dna.fragment_length_hist.csv: Copied (new)
2026/06/04 17:29:53 INFO  : Logs_Intermediates/DnaDragenCaller/659_eeG-T1-TDNA-1_HLNN7DRX7_1_dna/659_eeG-T1-TDNA-1_HLNN7DRX7_1_dna.hard-filtered.baf.bw: Copied (new)
2026/06/04 17:29:54 INFO  : Logs_Intermediates/DnaDragenCaller/659_eeG-T1-TDNA-1_HLNN7DRX7_1_dna/659_eeG-T1-TDNA-1_HLNN7DRX7_1_dna.hard-filtered.gvcf.gz.md5sum: Copied (new)
2026/06/04 17:29:54 INFO  : Logs_Intermediates/DnaDragenCaller/659_eeG-T1-TDNA-1_HLNN7DRX7_1_dna/659_eeG-T1-TDNA-1_HLNN7DRX7_1_dna.hard-filtered.vcf.gz.md5sum: Copied (new)
2026/06/04 17:29:54 INFO  : Logs_Intermediates/DnaDragenCaller/659_eeG-T1-TDNA-1_HLNN7DRX7_1_dna/659_eeG-T1-TDNA-1_HLNN7DRX7_1_dna.hard-filtered.gvcf.gz.tbi: Copied (new)
2026/06/04 17:29:54 INFO  : Logs_Intermediates/DnaDragenCaller/659_eeG-T1-TDNA-1_HLNN7DRX7_1_dna/659_eeG-T1-TDNA-1_HLNN7DRX7_1_dna.hard-filtered.vcf.gz.tbi: Copied (new)
2026/06/04 17:29:54 INFO  : Logs_Intermediates/DnaDragenCaller/659_eeG-T1-TDNA-1_HLNN7DRX7_1_dna/659_eeG-T1-TDNA-1_HLNN7DRX7_1_dna.hard-filtered.vcf.gz: Copied (new)
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2026/06/04 17:30:20 INFO  : Logs_Intermediates/DnaDragenCaller/659_ehb-T1-TDNA-1_HLNN7DRX7_1_dna/659_ehb-T1-TDNA-1_HLNN7DRX7_1_dna.wgs_contig_mean_cov.csv: Copied (new)
2026/06/04 17:30:20 INFO  : Logs_Intermediates/DnaDragenCaller/659_ehb-T1-TDNA-1_HLNN7DRX7_1_dna/659_ehb-T1-TDNA-1_HLNN7DRX7_1_dna.umi-regions-finder.txt: Copied (new)
2026/06/04 17:30:20 INFO  : Logs_Intermediates/DnaDragenCaller/659_ehb-T1-TDNA-1_HLNN7DRX7_1_dna/659_ehb-T1-TDNA-1_HLNN7DRX7_1_dna.wgs_coverage_metrics.csv: Copied (new)
2026/06/04 17:30:20 INFO  : Logs_Intermediates/DnaDragenCaller/659_ehb-T1-TDNA-1_HLNN7DRX7_1_dna/659_ehb-T1-TDNA-1_HLNN7DRX7_1_dna.umi-regions.txt: Copied (new)
2026/06/04 17:30:20 INFO  : Logs_Intermediates/DnaDragenCaller/659_ehb-T1-TDNA-1_HLNN7DRX7_1_dna/659_ehb-T1-TDNA-1_HLNN7DRX7_1_dna.wgs_fine_hist.csv: Copied (new)
2026/06/04 17:30:20 INFO  : Logs_Intermediates/DnaDragenCaller/659_ehb-T1-TDNA-1_HLNN7DRX7_1_dna/659_ehb-T1-TDNA-1_HLNN7DRX7_1_dna.wgs_hist.csv: Copied (new)
2026/06/04 17:30:20 INFO  : Logs_Intermediates/DnaDragenCaller/659_ehb-T1-TDNA-1_HLNN7DRX7_1_dna/659_ehb-T1-TDNA-1_HLNN7DRX7_1_dna.wgs_overall_mean_cov.csv: Copied (new)
2026/06/04 17:30:20 INFO  : Logs_Intermediates/nextflow_work_logs/16/6cffaf940f895fdfdc4b10cf72df91/.command.err: Copied (new)
2026/06/04 17:30:20 INFO  : Logs_Intermediates/DnaDragenCaller/659_ehb-T1-TDNA-1_HLNN7DRX7_1_dna/dragen_syslog_1780524084241_104892.log: Copied (new)
2026/06/04 17:30:20 INFO  : Logs_Intermediates/DnaDragenCaller/659_ehb-T1-TDNA-1_HLNN7DRX7_1_dna/dragen_run_1780524084257_104892.log: Copied (new)
2026/06/04 17:30:20 INFO  : Logs_Intermediates/DnaDragenCaller/659_ehb-T1-TDNA-1_HLNN7DRX7_1_dna/659_ehb-T1-TDNA-1_HLNN7DRX7_1_dna.wgs_somatic_callable_regions.bed: Copied (new)
2026/06/04 17:30:20 INFO  : Logs_Intermediates/nextflow_work_logs/16/6cffaf940f895fdfdc4b10cf72df91/.command.sh: Copied (new)
2026/06/04 17:30:20 INFO  : Logs_Intermediates/nextflow_work_logs/16/6cffaf940f895fdfdc4b10cf72df91/.command.run: Copied (new)
2026/06/04 17:30:20 INFO  : Logs_Intermediates/nextflow_work_logs/16/6cffaf940f895fdfdc4b10cf72df91/.command.log: Copied (new)
2026/06/04 17:30:20 INFO  : Logs_Intermediates/nextflow_work_logs/16/6cffaf940f895fdfdc4b10cf72df91/.command.out: Copied (new)
2026/06/04 17:30:20 INFO  : Logs_Intermediates/DnaCoverageReports/659_em3-T1-TDNA-1_HLNN7DRX7_1_dna/659_em3-T1-TDNA-1_HLNN7DRX7_1_dna.gene_cov_report.tsv: Copied (new)
2026/06/04 17:30:20 INFO  : Logs_Intermediates/CombinedVariantOutput/659_egw-T1-TDNA-1_HLNN7DRX7_1/659_egw-T1-TDNA-1_HLNN7DRX7_1_CombinedVariantOutput.tsv: Copied (new)
2026/06/04 17:30:20 INFO  : Logs_Intermediates/DnaCoverageReports/659_em3-T1-TDNA-1_HLNN7DRX7_1_dna/gen_coverage_reports.log: Copied (new)
2026/06/04 17:30:20 INFO  : Logs_Intermediates/DnaCoverageReports/659_em3-T1-TDNA-1_HLNN7DRX7_1_dna/659_em3-T1-TDNA-1_HLNN7DRX7_1_dna.exon_cov_report.tsv: Copied (new)
2026/06/04 17:30:20 INFO  : Logs_Intermediates/Annotation/659_ehb-T1-TDNA-1_HLNN7DRX7_1_dna/659_ehb-T1-TDNA-1_HLNN7DRX7_1_dna_DNAVariants_Annotated.json.gz.jsi: Copied (new)
2026/06/04 17:30:20 INFO  : Logs_Intermediates/Annotation/659_ehb-T1-TDNA-1_HLNN7DRX7_1_dna/Nirvana-20260603232733.log: Copied (new)
2026/06/04 17:30:21 INFO  : Logs_Intermediates/Contamination/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna_contamination.json: Copied (new)
2026/06/04 17:30:21 INFO  : Logs_Intermediates/DnaDragenCaller/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna-replay.json: Copied (new)
2026/06/04 17:30:21 INFO  : Logs_Intermediates/Contamination/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna/Spoiler-20260603233311.log: Copied (new)
2026/06/04 17:30:21 INFO  : Logs_Intermediates/DnaDragenCaller/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna.bam.md5sum: Copied (new)
2026/06/04 17:30:21 INFO  : Logs_Intermediates/DnaDragenCaller/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna.cnv.excluded_intervals.bed.gz: Copied (new)
2026/06/04 17:30:21 INFO  : Logs_Intermediates/DnaDragenCaller/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna.cnv.gff3: Copied (new)
2026/06/04 17:30:21 INFO  : Logs_Intermediates/Annotation/659_ehb-T1-TDNA-1_HLNN7DRX7_1_dna/659_ehb-T1-TDNA-1_HLNN7DRX7_1_dna_DNAVariants_Annotated.json.gz: Copied (new)
2026/06/04 17:30:22 INFO  : Logs_Intermediates/DnaDragenCaller/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna.cnv.igv_session.xml: Copied (new)
2026/06/04 17:30:22 INFO  : Logs_Intermediates/DnaDragenCaller/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna.cnv.vcf.gz.md5sum: Copied (new)
2026/06/04 17:30:22 INFO  : Logs_Intermediates/DnaDragenCaller/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna.cnv.vcf.gz: Copied (new)
2026/06/04 17:30:22 INFO  : Logs_Intermediates/DnaDragenCaller/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna.cnv.vcf.gz.tbi: Copied (new)
2026/06/04 17:30:22 INFO  : Logs_Intermediates/DnaDragenCaller/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna.cnv_metrics.csv: Copied (new)
2026/06/04 17:30:22 INFO  : Logs_Intermediates/DnaDragenCaller/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna.exon_contig_mean_cov.csv: Copied (new)
2026/06/04 17:30:22 INFO  : Logs_Intermediates/DnaDragenCaller/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna.bam.bai: Copied (new)
2026/06/04 17:30:22 INFO  : Logs_Intermediates/DnaDragenCaller/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna.exon_coverage_metrics.csv: Copied (new)
2026/06/04 17:30:22 INFO  : Logs_Intermediates/DnaDragenCaller/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna.exon_fine_hist.csv: Copied (new)
2026/06/04 17:30:22 INFO  : Logs_Intermediates/FastqGeneration/659_dg8-T1-TDNA-1_HLNN7DRX7_1_dna/659_dg8-T1-TDNA-1_HLNN7DRX7_1_dna_S4_L001_R1_001.fastq.gz: Multi-thread Copied (new)
2026/06/04 17:30:22 INFO  : Logs_Intermediates/DnaDragenCaller/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna.exon_cov_report.bed: Copied (new)
2026/06/04 17:30:22 INFO  : Logs_Intermediates/DnaDragenCaller/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna.exon_overall_mean_cov.csv: Copied (new)
2026/06/04 17:30:22 INFO  : Logs_Intermediates/DnaDragenCaller/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna.exon_hist.csv: Copied (new)
2026/06/04 17:30:22 INFO  : Logs_Intermediates/DnaDragenCaller/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna.fastq_list.csv: Copied (new)
2026/06/04 17:30:22 INFO  : Logs_Intermediates/DnaDragenCaller/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna.exon_read_cov_report.bed: Copied (new)
2026/06/04 17:30:22 INFO  : Logs_Intermediates/DnaDragenCaller/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna.exon_somatic_callable_regions.bed: Copied (new)
2026/06/04 17:30:23 INFO  : Logs_Intermediates/DnaDragenCaller/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna.gc_metrics.csv: Copied (new)
2026/06/04 17:30:23 INFO  : Logs_Intermediates/DnaDragenCaller/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna.fastqc_metrics.csv: Copied (new)
2026/06/04 17:30:23 INFO  : Logs_Intermediates/DnaDragenCaller/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna.gvcf_metrics.csv: Copied (new)
2026/06/04 17:30:23 INFO  : Logs_Intermediates/DnaDragenCaller/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna.fragment_length_hist.csv: Copied (new)
2026/06/04 17:30:23 INFO  : Logs_Intermediates/DnaDragenCaller/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna.hard-filtered.gvcf.gz.md5sum: Copied (new)
2026/06/04 17:30:23 INFO  : Logs_Intermediates/DnaDragenCaller/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna.hard-filtered.baf.bw: Copied (new)
2026/06/04 17:30:23 INFO  : Logs_Intermediates/DnaDragenCaller/659_QP-T1-TDNA-1_HLNN7DRX7_1_dna/659_QP-T1-TDNA-1_HLNN7DRX7_1_dna.bam: Multi-thread Copied (new)
2026/06/04 17:30:23 INFO  : Logs_Intermediates/DnaDragenCaller/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna.hard-filtered.vcf.gz.md5sum: Copied (new)
2026/06/04 17:30:23 INFO  : Logs_Intermediates/DnaDragenCaller/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna.hard-filtered.vcf.gz: Copied (new)
2026/06/04 17:30:23 INFO  : Logs_Intermediates/DnaDragenCaller/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna.hard-filtered.gvcf.gz.tbi: Copied (new)
2026/06/04 17:30:23 INFO  : Logs_Intermediates/DnaDragenCaller/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna.hard-filtered.vcf.gz.tbi: Copied (new)
2026/06/04 17:30:23 INFO  : Logs_Intermediates/DnaDragenCaller/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna.insert-stats.tab: Copied (new)
2026/06/04 17:30:23 INFO  : Logs_Intermediates/DnaDragenCaller/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna.improper.pairs.bw: Copied (new)
2026/06/04 17:30:23 INFO  : Logs_Intermediates/DnaDragenCaller/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna.microsat_diffs.txt: Copied (new)
2026/06/04 17:30:23 INFO  : Logs_Intermediates/DnaDragenCaller/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna.mapping_metrics.csv: Copied (new)
2026/06/04 17:30:23 INFO  : 
Transferred:   	  194.921 GiB / 342.760 GiB, 57%, 1.761 GiB/s, ETA 1m23s
Transferred:         4754 / 7318, 65%
Elapsed time:       2m0.0s
Transferring:
 * Logs_Intermediates/Dna…-1_HLNN7DRX7_1_dna.bam: 99% /3.689Gi, 30.640Mi/s, 1s
 * Logs_Intermediates/Dna…-1_HLNN7DRX7_1_dna.bam: 87% /3.835Gi, 31.626Mi/s, 15s
 * Logs_Intermediates/Dna…-1_HLNN7DRX7_1_dna.bam: 98% /3.671Gi, 29.390Mi/s, 1s
 * Logs_Intermediates/Dna…-1_HLNN7DRX7_1_dna.bam: 89% /3.370Gi, 23.880Mi/s, 15s
 * Logs_Intermediates/Dna…-1_HLNN7DRX7_1_dna.bam: 97% /3.594Gi, 35.082Mi/s, 2s
 * Logs_Intermediates/Dna…-1_HLNN7DRX7_1_dna.bam: 97% /3.231Gi, 36.963Mi/s, 2s
 * Logs_Intermediates/Dna…-1_HLNN7DRX7_1_dna.bam: 84% /3.963Gi, 35.404Mi/s, 17s
 * Logs_Intermediates/Dna…-1_HLNN7DRX7_1_dna.bam: 93% /3.206Gi, 31.290Mi/s, 6s
 * Logs_Intermediates/Dna…-1_HLNN7DRX7_1_dna.bam: 82% /3.691Gi, 33.826Mi/s, 19s
 * Logs_Intermediates/Dna…-1_HLNN7DRX7_1_dna.bam: 60% /3.708Gi, 36.753Mi/s, 40s
 * Logs_Intermediates/Dna…-1_HLNN7DRX7_1_dna.bam: 48% /4.224Gi, 31.723Mi/s, 1m10s
 * Logs_Intermediates/Fas…9_L001_R2_001.fastq.gz: 97% /1.882Gi, 29.599Mi/s, 1s
 * Logs_Intermediates/Fas…9_L002_R2_001.fastq.gz:100% /1.906Gi, 24.881Mi/s, 0s
 * Logs_Intermediates/Dna…-1_HLNN7DRX7_1_dna.bam: 66% /2.821Gi, 32.425Mi/s, 29s
 * Logs_Intermediates/Fas…4_L001_R2_001.fastq.gz: 95% /1.944Gi, 32.057Mi/s, 2s
 * Logs_Intermediates/Fas…4_L002_R1_001.fastq.gz: 87% /1.889Gi, 29.835Mi/s, 7s
 * Logs_Intermediates/Fas…4_L002_R2_001.fastq.gz: 94% /1.957Gi, 28.772Mi/s, 4s
 * Logs_Intermediates/Fas…8_L001_R1_001.fastq.gz: 68% /2.201Gi, 35.390Mi/s, 20s
 * Logs_Intermediates/Fas…8_L001_R2_001.fastq.gz: 68% /2.222Gi, 27.975Mi/s, 25s
 * Logs_Intermediates/Fas…8_L002_R1_001.fastq.gz: 63% /2.213Gi, 30.537Mi/s, 27s
 * Logs_Intermediates/Fas…8_L002_R2_001.fastq.gz: 63% /2.224Gi, 25.763Mi/s, 32s
 * Logs_Intermediates/Dna…-1_HLNN7DRX7_1_dna.bam: 44% /3.557Gi, 37.484Mi/s, 53s
 * Logs_Intermediates/Dna…-1_HLNN7DRX7_1_dna.bam: 39% /3.698Gi, 31.647Mi/s, 1m12s
 * Logs_Intermediates/Fas…6_L001_R1_001.fastq.gz: 89% /1.535Gi, 33.075Mi/s, 5s
 * Logs_Intermediates/Fas…6_L001_R2_001.fastq.gz: 76% /1.678Gi, 25.907Mi/s, 15s
 * Logs_Intermediates/Fas…6_L002_R1_001.fastq.gz: 74% /1.552Gi, 30.780Mi/s, 13s
 * Logs_Intermediates/Fas…6_L002_R2_001.fastq.gz: 72% /1.714Gi, 26.123Mi/s, 18s
 * Logs_Intermediates/Dna…-1_HLNN7DRX7_1_dna.bam: 28% /3.891Gi, 29.946Mi/s, 1m34s
 * Logs_Intermediates/Dna…-1_HLNN7DRX7_1_dna.bam: 29% /3.960Gi, 28.662Mi/s, 1m40s
 * Logs_Intermediates/Dna…-1_HLNN7DRX7_1_dna.bam: 22% /4.941Gi, 29.530Mi/s, 2m13s
 * Logs_Intermediates/Fas…8_L001_R1_001.fastq.gz: 57% /1.740Gi, 28.100Mi/s, 26s
 * Logs_Intermediates/Fas…8_L001_R2_001.fastq.gz: 54% /1.831Gi, 33.387Mi/s, 25s
 * Logs_Intermediates/Fas…8_L002_R1_001.fastq.gz: 45% /1.770Gi, 24.028Mi/s, 40s
 * Logs_Intermediates/Fas…8_L002_R2_001.fastq.gz: 57% /1.860Gi, 31.187Mi/s, 26s
 * Logs_Intermediates/Dna…-1_HLNN7DRX7_1_dna.bam: 30% /3.644Gi, 34.710Mi/s, 1m15s
 * Logs_Intermediates/Fas…2_L001_R1_001.fastq.gz: 50% /1.979Gi, 31.325Mi/s, 31s
 * Logs_Intermediates/Fas…2_L001_R2_001.fastq.gz: 50% /2.000Gi, 31.496Mi/s, 32s
 * Logs_Intermediates/Fas…2_L002_R1_001.fastq.gz: 49% /2.026Gi, 31.841Mi/s, 32s
 * Logs_Intermediates/Fas…2_L002_R2_001.fastq.gz: 41% /2.030Gi, 27.063Mi/s, 44s
 * Logs_Intermediates/Dna…-1_HLNN7DRX7_1_dna.bam: 25% /3.544Gi, 29.725Mi/s, 1m30s
 * Logs_Intermediates/Fas…7_L001_R1_001.fastq.gz: 23% /2.670Gi, 23.797Mi/s, 1m28s
 * Logs_Intermediates/Fas…7_L001_R2_001.fastq.gz: 26% /2.670Gi, 26.345Mi/s, 1m15s
 * Logs_Intermediates/Fas…7_L002_R1_001.fastq.gz: 29% /2.664Gi, 29.075Mi/s, 1m6s
 * Logs_Intermediates/Fas…7_L002_R2_001.fastq.gz: 27% /2.644Gi, 26.919Mi/s, 1m13s
 * Logs_Intermediates/Fas…1_L001_R1_001.fastq.gz: 49% /1.690Gi, 36.266Mi/s, 23s
 * Logs_Intermediates/Fas…1_L001_R2_001.fastq.gz: 42% /1.774Gi, 33.631Mi/s, 31s
 * Logs_Intermediates/Fas…1_L002_R1_001.fastq.gz: 37% /1.670Gi, 27.157Mi/s, 39s
 * Logs_Intermediates/Fas…1_L002_R2_001.fastq.gz: 37% /1.755Gi, 28.310Mi/s, 39s
 * Logs_Intermediates/Fas…5_L001_R1_001.fastq.gz: 30% /1.622Gi, 27.703Mi/s, 41s
 * Logs_Intermediates/Fas…5_L001_R2_001.fastq.gz: 29% /1.610Gi, 27.133Mi/s, 43s
 * Logs_Intermediates/Fas…5_L002_R1_001.fastq.gz: 34% /1.631Gi, 32.125Mi/s, 34s
 * Logs_Intermediates/Fas…5_L002_R2_001.fastq.gz: 34% /1.608Gi, 32.359Mi/s, 33s
 * Logs_Intermediates/Dna…-1_HLNN7DRX7_1_dna.bam: 11% /3.563Gi, 33.646Mi/s, 1m36s
 * Logs_Intermediates/Fas…2_L001_R1_001.fastq.gz: 15% /1.637Gi, 28.444Mi/s, 49s
 * Logs_Intermediates/Fas…2_L001_R2_001.fastq.gz: 15% /1.593Gi, 28.444Mi/s, 48s
 * Logs_Intermediates/Fas…2_L002_R1_001.fastq.gz: 11% /1.620Gi, 18.976Mi/s, 1m17s
 * Logs_Intermediates/Fas…2_L002_R2_001.fastq.gz: 10% /1.557Gi, 17.778Mi/s, 1m20s
 * Logs_Intermediates/Dna…-1_HLNN7DRX7_1_dna.bam:  6% /3.622Gi, 27.429Mi/s, 2m7s
 * Logs_Intermediates/Dna…-1_HLNN7DRX7_1_dna.bam:  1% /3.071Gi, 0/s, -
 * Logs_Intermediates/Dna….hard-filtered.gvcf.gz: 29% /16.905Mi, 0/s, -
 * Logs_Intermediates/Dna…1_dna.microsat_log.txt:100% /566, 0/s, -
 * Logs_Intermediates/Dna…a.microsat_output.json: transferring
 * Logs_Intermediates/Dna…na.microsat_tumor.dist: transferring
 * Logs_Intermediates/Dna…_1_dna.pcr-model-0.log: transferring

2026/06/04 17:30:23 INFO  : Logs_Intermediates/DnaDragenCaller/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna.microsat_log.txt: Copied (new)
2026/06/04 17:30:23 INFO  : Logs_Intermediates/DnaDragenCaller/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna.microsat_output.json: Copied (new)
2026/06/04 17:30:23 INFO  : Logs_Intermediates/DnaDragenCaller/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna.microsat_tumor.dist: Copied (new)
2026/06/04 17:30:23 INFO  : Logs_Intermediates/FastqGeneration/659_daA-T1-TDNA-1_HLNN7DRX7_1_dna/659_daA-T1-TDNA-1_HLNN7DRX7_1_dna_S9_L002_R2_001.fastq.gz: Multi-thread Copied (new)
2026/06/04 17:30:23 INFO  : Logs_Intermediates/DnaDragenCaller/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna.pcr-model-0.log: Copied (new)
2026/06/04 17:30:23 INFO  : Logs_Intermediates/DnaDragenCaller/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna.pcr-model.log: Copied (new)
2026/06/04 17:30:24 INFO  : Logs_Intermediates/DnaDragenCaller/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna.raw.hard-filtered.vcf.gz.md5sum: Copied (new)
2026/06/04 17:30:24 INFO  : Logs_Intermediates/DnaDragenCaller/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna.raw.hard-filtered.vcf.gz: Copied (new)
2026/06/04 17:30:24 INFO  : Logs_Intermediates/DnaDragenCaller/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna.seg: Copied (new)
2026/06/04 17:30:24 INFO  : Logs_Intermediates/DnaDragenCaller/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna.raw.hard-filtered.vcf.gz.tbi: Copied (new)
2026/06/04 17:30:24 INFO  : Logs_Intermediates/DnaDragenCaller/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna.seg.bw: Copied (new)
2026/06/04 17:30:24 INFO  : Logs_Intermediates/DnaDragenCaller/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna.pileup.txt: Copied (new)
2026/06/04 17:30:24 INFO  : Logs_Intermediates/DnaDragenCaller/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna.seg.called: Copied (new)
2026/06/04 17:30:24 INFO  : Logs_Intermediates/DnaDragenCaller/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna.seg.called.merged: Copied (new)
2026/06/04 17:30:24 INFO  : Logs_Intermediates/DnaDragenCaller/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna.snperror-sampler.log: Copied (new)
2026/06/04 17:30:24 INFO  : Logs_Intermediates/DnaDragenCaller/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna.target.counts.gz: Copied (new)
2026/06/04 17:30:24 INFO  : Logs_Intermediates/DnaDragenCaller/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna.target_bed_contig_mean_cov.csv: Copied (new)
2026/06/04 17:30:24 INFO  : Logs_Intermediates/DnaDragenCaller/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna.target.counts.bw: Copied (new)
2026/06/04 17:30:24 INFO  : Logs_Intermediates/DnaDragenCaller/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna.target_bed_coverage_metrics.csv: Copied (new)
2026/06/04 17:30:24 INFO  : Logs_Intermediates/DnaDragenCaller/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna.target_bed_callability.bed: Copied (new)
2026/06/04 17:30:24 INFO  : Logs_Intermediates/DnaDragenCaller/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna.target_bed_overall_mean_cov.csv: Copied (new)
2026/06/04 17:30:24 INFO  : Logs_Intermediates/DnaDragenCaller/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna.target_bed_hist.csv: Copied (new)
2026/06/04 17:30:24 INFO  : Logs_Intermediates/DnaDragenCaller/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna.target_bed_fine_hist.csv: Copied (new)
2026/06/04 17:30:24 INFO  : Logs_Intermediates/DnaDragenCaller/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna.target_bed_read_cov_report.bed: Copied (new)
2026/06/04 17:30:24 INFO  : Logs_Intermediates/DnaDragenCaller/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna.tmb_contig_mean_cov.csv: Copied (new)
2026/06/04 17:30:24 INFO  : Logs_Intermediates/DnaDragenCaller/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna.target_bed_somatic_callable_regions.bed: Copied (new)
2026/06/04 17:30:24 INFO  : Logs_Intermediates/DnaDragenCaller/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna.tmb_callability.bed: Copied (new)
2026/06/04 17:30:24 INFO  : Logs_Intermediates/DnaDragenCaller/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna.tmb_coverage_metrics.csv: Copied (new)
2026/06/04 17:30:24 INFO  : Logs_Intermediates/DnaDragenCaller/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna.tmb_fine_hist.csv: Copied (new)
2026/06/04 17:30:24 INFO  : Logs_Intermediates/DnaDragenCaller/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna.time_metrics.csv: Copied (new)
2026/06/04 17:30:24 INFO  : Logs_Intermediates/DnaDragenCaller/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna.tmb_overall_mean_cov.csv: Copied (new)
2026/06/04 17:30:24 INFO  : Logs_Intermediates/DnaDragenCaller/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna.tmb_hist.csv: Copied (new)
2026/06/04 17:30:24 INFO  : Logs_Intermediates/DnaDragenCaller/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna.hard-filtered.gvcf.gz: Copied (new)
2026/06/04 17:30:25 INFO  : Logs_Intermediates/DnaDragenCaller/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna.trimmer_metrics.csv: Copied (new)
2026/06/04 17:30:25 INFO  : Logs_Intermediates/DnaDragenCaller/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna.tmb_read_cov_report.bed: Copied (new)
2026/06/04 17:30:25 INFO  : Logs_Intermediates/DnaDragenCaller/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna.tn.tsv.gz: Copied (new)
2026/06/04 17:30:25 INFO  : Logs_Intermediates/DnaDragenCaller/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna.tn.bw: Copied (new)
2026/06/04 17:30:25 INFO  : Logs_Intermediates/DnaDragenCaller/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna.umi-regions-finder.txt: Copied (new)
2026/06/04 17:30:25 INFO  : Logs_Intermediates/DnaDragenCaller/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna.tmb_somatic_callable_regions.bed: Copied (new)
2026/06/04 17:30:25 INFO  : Logs_Intermediates/DnaDragenCaller/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna.vc_metrics.csv: Copied (new)
2026/06/04 17:30:25 INFO  : Logs_Intermediates/DnaDragenCaller/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna.umi_metrics.csv: Copied (new)
2026/06/04 17:30:25 INFO  : Logs_Intermediates/DnaDragenCaller/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna.wgs_contig_mean_cov.csv: Copied (new)
2026/06/04 17:30:25 INFO  : Logs_Intermediates/DnaDragenCaller/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna.wgs_overall_mean_cov.csv: Copied (new)
2026/06/04 17:30:25 INFO  : Logs_Intermediates/DnaDragenCaller/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna.wgs_coverage_metrics.csv: Copied (new)
2026/06/04 17:30:25 INFO  : Logs_Intermediates/DnaDragenCaller/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna.wgs_hist.csv: Copied (new)
2026/06/04 17:30:25 INFO  : Logs_Intermediates/DnaDragenCaller/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna.wgs_fine_hist.csv: Copied (new)
2026/06/04 17:30:25 INFO  : Logs_Intermediates/DnaDragenCaller/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna.umi-regions.txt: Copied (new)
2026/06/04 17:30:25 INFO  : Logs_Intermediates/DnaDragenCaller/659_Jk-T1-TDNA-1_HLNN7DRX7_1_dna/659_Jk-T1-TDNA-1_HLNN7DRX7_1_dna.bam: Multi-thread Copied (new)
2026/06/04 17:30:25 INFO  : Logs_Intermediates/LrAnnotation/659_ehb-T1-TDNA-1_HLNN7DRX7_1_dna/659_ehb-T1-TDNA-1_HLNN7DRX7_1_dna_DNAExonCNV_Annotated.json.gz: Copied (new)
2026/06/04 17:30:25 INFO  : Logs_Intermediates/DnaDragenCaller/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna/dragen_syslog_1780521962789_42580.log: Copied (new)
2026/06/04 17:30:25 INFO  : Logs_Intermediates/DnaDragenCaller/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna.wgs_somatic_callable_regions.bed: Copied (new)
2026/06/04 17:30:25 INFO  : Logs_Intermediates/LrAnnotation/659_ehb-T1-TDNA-1_HLNN7DRX7_1_dna/659_ehb-T1-TDNA-1_HLNN7DRX7_1_dna_DNAExonCNV_Annotated.json.gz.jsi: Copied (new)
2026/06/04 17:30:25 INFO  : Logs_Intermediates/MetricsOutput/659_ehb-T1-TDNA-1_HLNN7DRX7_1/659_ehb-T1-TDNA-1_HLNN7DRX7_1_MetricsOutput.tsv: Copied (new)
2026/06/04 17:30:25 INFO  : Logs_Intermediates/DnaDragenCaller/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna/dragen_run_1780521962805_42580.log: Copied (new)
2026/06/04 17:30:25 INFO  : Logs_Intermediates/nextflow_work_logs/16/8b06d3dcbd7161cea20af2b56cac9c/.command.err: Copied (new)
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2026/06/04 17:30:25 INFO  : Logs_Intermediates/LrAnnotation/659_ehb-T1-TDNA-1_HLNN7DRX7_1_dna/Nirvana-20260603232809.log: Copied (new)
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2026/06/04 17:30:26 INFO  : Logs_Intermediates/DnaDragenCaller/659_cNt-T1-TDNA-1_HLNN7DRX7_1_dna/659_cNt-T1-TDNA-1_HLNN7DRX7_1_dna.bam: Multi-thread Copied (new)
2026/06/04 17:30:26 INFO  : Logs_Intermediates/DnaDragenExonCnvCaller/659_oZ-T1-TDNA-1_HLNN7DRX7_1_dna/659_oZ-T1-TDNA-1_HLNN7DRX7_1_dna-replay.json: Copied (new)
2026/06/04 17:30:26 INFO  : Logs_Intermediates/DnaDragenExonCnvCaller/659_oZ-T1-TDNA-1_HLNN7DRX7_1_dna/659_oZ-T1-TDNA-1_HLNN7DRX7_1_dna.cnv.excluded_intervals.bed.gz: Copied (new)
2026/06/04 17:30:26 INFO  : Logs_Intermediates/DnaDragenExonCnvCaller/659_oZ-T1-TDNA-1_HLNN7DRX7_1_dna/659_oZ-T1-TDNA-1_HLNN7DRX7_1_dna.cnv.igv_session.xml: Copied (new)
2026/06/04 17:30:26 INFO  : Logs_Intermediates/FastqGeneration/659_daA-T1-TDNA-1_HLNN7DRX7_1_dna/659_daA-T1-TDNA-1_HLNN7DRX7_1_dna_S9_L001_R2_001.fastq.gz: Multi-thread Copied (new)
2026/06/04 17:30:26 INFO  : Logs_Intermediates/DnaDragenExonCnvCaller/659_oZ-T1-TDNA-1_HLNN7DRX7_1_dna/659_oZ-T1-TDNA-1_HLNN7DRX7_1_dna.cnv_metrics.csv: Copied (new)
2026/06/04 17:30:26 INFO  : Logs_Intermediates/DnaDragenExonCnvCaller/659_oZ-T1-TDNA-1_HLNN7DRX7_1_dna/659_oZ-T1-TDNA-1_HLNN7DRX7_1_dna.seg: Copied (new)
2026/06/04 17:30:26 INFO  : Logs_Intermediates/DnaDragenExonCnvCaller/659_oZ-T1-TDNA-1_HLNN7DRX7_1_dna/659_oZ-T1-TDNA-1_HLNN7DRX7_1_dna.seg.bw: Copied (new)
2026/06/04 17:30:26 INFO  : Logs_Intermediates/DnaDragenExonCnvCaller/659_oZ-T1-TDNA-1_HLNN7DRX7_1_dna/659_oZ-T1-TDNA-1_HLNN7DRX7_1_dna.improper.pairs.bw: Copied (new)
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2026/06/04 17:30:26 INFO  : Logs_Intermediates/DnaDragenExonCnvCaller/659_oZ-T1-TDNA-1_HLNN7DRX7_1_dna/659_oZ-T1-TDNA-1_HLNN7DRX7_1_dna.target.counts.bw: Copied (new)
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2026/06/04 17:30:27 INFO  : Logs_Intermediates/DnaDragenExonCnvCaller/659_oZ-T1-TDNA-1_HLNN7DRX7_1_dna/659_oZ-T1-TDNA-1_HLNN7DRX7_1_dna.tn.bw: Copied (new)
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2026/06/04 17:30:49 INFO  : Logs_Intermediates/DnaDragenCaller/659_u7-T1-TDNA-1_HLNN7DRX7_1_dna/659_u7-T1-TDNA-1_HLNN7DRX7_1_dna.raw.hard-filtered.vcf.gz.md5sum: Copied (new)
2026/06/04 17:30:49 INFO  : Logs_Intermediates/DnaDragenCaller/659_u7-T1-TDNA-1_HLNN7DRX7_1_dna/659_u7-T1-TDNA-1_HLNN7DRX7_1_dna.seg: Copied (new)
2026/06/04 17:30:49 INFO  : Logs_Intermediates/DnaDragenCaller/659_u7-T1-TDNA-1_HLNN7DRX7_1_dna/659_u7-T1-TDNA-1_HLNN7DRX7_1_dna.seg.called: Copied (new)
2026/06/04 17:30:49 INFO  : Logs_Intermediates/DnaDragenCaller/659_u7-T1-TDNA-1_HLNN7DRX7_1_dna/659_u7-T1-TDNA-1_HLNN7DRX7_1_dna.seg.bw: Copied (new)
2026/06/04 17:30:50 INFO  : Logs_Intermediates/DnaDragenCaller/659_u7-T1-TDNA-1_HLNN7DRX7_1_dna/659_u7-T1-TDNA-1_HLNN7DRX7_1_dna.pileup.txt: Copied (new)
2026/06/04 17:30:50 INFO  : Logs_Intermediates/DnaDragenCaller/659_u7-T1-TDNA-1_HLNN7DRX7_1_dna/659_u7-T1-TDNA-1_HLNN7DRX7_1_dna.raw.hard-filtered.vcf.gz.tbi: Copied (new)
2026/06/04 17:30:50 INFO  : Logs_Intermediates/DnaDragenCaller/659_u7-T1-TDNA-1_HLNN7DRX7_1_dna/659_u7-T1-TDNA-1_HLNN7DRX7_1_dna.seg.called.merged: Copied (new)
2026/06/04 17:30:50 INFO  : Logs_Intermediates/DnaDragenCaller/659_u7-T1-TDNA-1_HLNN7DRX7_1_dna/659_u7-T1-TDNA-1_HLNN7DRX7_1_dna.raw.hard-filtered.vcf.gz: Copied (new)
2026/06/04 17:30:50 INFO  : Logs_Intermediates/DnaDragenCaller/659_u7-T1-TDNA-1_HLNN7DRX7_1_dna/659_u7-T1-TDNA-1_HLNN7DRX7_1_dna.target_bed_contig_mean_cov.csv: Copied (new)
2026/06/04 17:30:50 INFO  : Logs_Intermediates/DnaDragenCaller/659_u7-T1-TDNA-1_HLNN7DRX7_1_dna/659_u7-T1-TDNA-1_HLNN7DRX7_1_dna.snperror-sampler.log: Copied (new)
2026/06/04 17:30:50 INFO  : Logs_Intermediates/DnaDragenCaller/659_u7-T1-TDNA-1_HLNN7DRX7_1_dna/659_u7-T1-TDNA-1_HLNN7DRX7_1_dna.target.counts.gz: Copied (new)
2026/06/04 17:30:50 INFO  : Logs_Intermediates/DnaDragenCaller/659_u7-T1-TDNA-1_HLNN7DRX7_1_dna/659_u7-T1-TDNA-1_HLNN7DRX7_1_dna.target.counts.bw: Copied (new)
2026/06/04 17:30:50 INFO  : Logs_Intermediates/DnaDragenCaller/659_u7-T1-TDNA-1_HLNN7DRX7_1_dna/659_u7-T1-TDNA-1_HLNN7DRX7_1_dna.target_bed_coverage_metrics.csv: Copied (new)
2026/06/04 17:30:50 INFO  : Logs_Intermediates/DnaDragenCaller/659_u7-T1-TDNA-1_HLNN7DRX7_1_dna/659_u7-T1-TDNA-1_HLNN7DRX7_1_dna.target_bed_fine_hist.csv: Copied (new)
2026/06/04 17:30:50 INFO  : Logs_Intermediates/DnaDragenCaller/659_u7-T1-TDNA-1_HLNN7DRX7_1_dna/659_u7-T1-TDNA-1_HLNN7DRX7_1_dna.target_bed_callability.bed: Copied (new)
2026/06/04 17:30:50 INFO  : Logs_Intermediates/DnaDragenCaller/659_u7-T1-TDNA-1_HLNN7DRX7_1_dna/659_u7-T1-TDNA-1_HLNN7DRX7_1_dna.target_bed_overall_mean_cov.csv: Copied (new)
2026/06/04 17:30:50 INFO  : Logs_Intermediates/DnaDragenCaller/659_u7-T1-TDNA-1_HLNN7DRX7_1_dna/659_u7-T1-TDNA-1_HLNN7DRX7_1_dna.target_bed_hist.csv: Copied (new)
2026/06/04 17:30:50 INFO  : Logs_Intermediates/DnaDragenCaller/659_u7-T1-TDNA-1_HLNN7DRX7_1_dna/659_u7-T1-TDNA-1_HLNN7DRX7_1_dna.time_metrics.csv: Copied (new)
2026/06/04 17:30:50 INFO  : Logs_Intermediates/DnaDragenCaller/659_u7-T1-TDNA-1_HLNN7DRX7_1_dna/659_u7-T1-TDNA-1_HLNN7DRX7_1_dna.tmb_contig_mean_cov.csv: Copied (new)
2026/06/04 17:30:50 INFO  : Logs_Intermediates/DnaDragenCaller/659_u7-T1-TDNA-1_HLNN7DRX7_1_dna/659_u7-T1-TDNA-1_HLNN7DRX7_1_dna.tmb_callability.bed: Copied (new)
2026/06/04 17:30:50 INFO  : Logs_Intermediates/DnaDragenCaller/659_u7-T1-TDNA-1_HLNN7DRX7_1_dna/659_u7-T1-TDNA-1_HLNN7DRX7_1_dna.tmb_fine_hist.csv: Copied (new)
2026/06/04 17:30:50 INFO  : Logs_Intermediates/DnaDragenCaller/659_u7-T1-TDNA-1_HLNN7DRX7_1_dna/659_u7-T1-TDNA-1_HLNN7DRX7_1_dna.target_bed_read_cov_report.bed: Copied (new)
2026/06/04 17:30:50 INFO  : Logs_Intermediates/DnaDragenCaller/659_u7-T1-TDNA-1_HLNN7DRX7_1_dna/659_u7-T1-TDNA-1_HLNN7DRX7_1_dna.tmb_coverage_metrics.csv: Copied (new)
2026/06/04 17:30:50 INFO  : Logs_Intermediates/DnaDragenCaller/659_u7-T1-TDNA-1_HLNN7DRX7_1_dna/659_u7-T1-TDNA-1_HLNN7DRX7_1_dna.tmb_overall_mean_cov.csv: Copied (new)
2026/06/04 17:30:50 INFO  : Logs_Intermediates/DnaDragenCaller/659_u7-T1-TDNA-1_HLNN7DRX7_1_dna/659_u7-T1-TDNA-1_HLNN7DRX7_1_dna.target_bed_somatic_callable_regions.bed: Copied (new)
2026/06/04 17:30:50 INFO  : Logs_Intermediates/DnaDragenCaller/659_u7-T1-TDNA-1_HLNN7DRX7_1_dna/659_u7-T1-TDNA-1_HLNN7DRX7_1_dna.tmb_somatic_callable_regions.bed: Copied (new)
2026/06/04 17:30:50 INFO  : Logs_Intermediates/DnaDragenCaller/659_u7-T1-TDNA-1_HLNN7DRX7_1_dna/659_u7-T1-TDNA-1_HLNN7DRX7_1_dna.tmb_hist.csv: Copied (new)
2026/06/04 17:30:50 INFO  : Logs_Intermediates/DnaDragenCaller/659_u7-T1-TDNA-1_HLNN7DRX7_1_dna/659_u7-T1-TDNA-1_HLNN7DRX7_1_dna.trimmer_metrics.csv: Copied (new)
2026/06/04 17:30:50 INFO  : Logs_Intermediates/DnaDragenCaller/659_u7-T1-TDNA-1_HLNN7DRX7_1_dna/659_u7-T1-TDNA-1_HLNN7DRX7_1_dna.tmb_read_cov_report.bed: Copied (new)
2026/06/04 17:30:50 INFO  : Logs_Intermediates/DnaDragenCaller/659_u7-T1-TDNA-1_HLNN7DRX7_1_dna/659_u7-T1-TDNA-1_HLNN7DRX7_1_dna.tn.bw: Copied (new)
2026/06/04 17:30:50 INFO  : Logs_Intermediates/DnaDragenCaller/659_u7-T1-TDNA-1_HLNN7DRX7_1_dna/659_u7-T1-TDNA-1_HLNN7DRX7_1_dna.tn.tsv.gz: Copied (new)
2026/06/04 17:30:50 INFO  : Logs_Intermediates/DnaDragenCaller/659_u7-T1-TDNA-1_HLNN7DRX7_1_dna/659_u7-T1-TDNA-1_HLNN7DRX7_1_dna.vc_metrics.csv: Copied (new)
2026/06/04 17:30:50 INFO  : Logs_Intermediates/DnaDragenCaller/659_u7-T1-TDNA-1_HLNN7DRX7_1_dna/659_u7-T1-TDNA-1_HLNN7DRX7_1_dna.umi_metrics.csv: Copied (new)
2026/06/04 17:30:50 INFO  : Logs_Intermediates/DnaDragenCaller/659_u7-T1-TDNA-1_HLNN7DRX7_1_dna/659_u7-T1-TDNA-1_HLNN7DRX7_1_dna.wgs_contig_mean_cov.csv: Copied (new)
2026/06/04 17:30:50 INFO  : Logs_Intermediates/DnaDragenCaller/659_u7-T1-TDNA-1_HLNN7DRX7_1_dna/659_u7-T1-TDNA-1_HLNN7DRX7_1_dna.umi-regions-finder.txt: Copied (new)
2026/06/04 17:30:50 INFO  : Logs_Intermediates/DnaDragenCaller/659_u7-T1-TDNA-1_HLNN7DRX7_1_dna/659_u7-T1-TDNA-1_HLNN7DRX7_1_dna.wgs_coverage_metrics.csv: Copied (new)
2026/06/04 17:30:51 INFO  : Logs_Intermediates/DnaDragenCaller/659_u7-T1-TDNA-1_HLNN7DRX7_1_dna/659_u7-T1-TDNA-1_HLNN7DRX7_1_dna.umi-regions.txt: Copied (new)
2026/06/04 17:30:51 INFO  : Logs_Intermediates/DnaDragenCaller/659_u7-T1-TDNA-1_HLNN7DRX7_1_dna/659_u7-T1-TDNA-1_HLNN7DRX7_1_dna.wgs_fine_hist.csv: Copied (new)
2026/06/04 17:30:51 INFO  : Logs_Intermediates/DnaDragenCaller/659_u7-T1-TDNA-1_HLNN7DRX7_1_dna/659_u7-T1-TDNA-1_HLNN7DRX7_1_dna.wgs_overall_mean_cov.csv: Copied (new)
2026/06/04 17:30:51 INFO  : Logs_Intermediates/DnaDragenCaller/659_u7-T1-TDNA-1_HLNN7DRX7_1_dna/659_u7-T1-TDNA-1_HLNN7DRX7_1_dna.wgs_hist.csv: Copied (new)
2026/06/04 17:30:51 INFO  : Logs_Intermediates/MetricsOutput/659_u7-T1-TDNA-1_HLNN7DRX7_1/659_u7-T1-TDNA-1_HLNN7DRX7_1_MetricsOutput.tsv: Copied (new)
2026/06/04 17:30:51 INFO  : Logs_Intermediates/DnaDragenCaller/659_u7-T1-TDNA-1_HLNN7DRX7_1_dna/dragen_syslog_1780522531707_60405.log: Copied (new)
2026/06/04 17:30:51 INFO  : Logs_Intermediates/DnaDragenCaller/659_u7-T1-TDNA-1_HLNN7DRX7_1_dna/dragen_run_1780522531723_60405.log: Copied (new)
2026/06/04 17:30:51 INFO  : Logs_Intermediates/DnaDragenCaller/659_u7-T1-TDNA-1_HLNN7DRX7_1_dna/659_u7-T1-TDNA-1_HLNN7DRX7_1_dna.wgs_somatic_callable_regions.bed: Copied (new)
2026/06/04 17:30:51 INFO  : Logs_Intermediates/nextflow_work_logs/1d/40a91d277d2be8831082aea5c80313/.command.log: Copied (new)
2026/06/04 17:30:51 INFO  : Logs_Intermediates/nextflow_work_logs/1d/40a91d277d2be8831082aea5c80313/.command.out: Copied (new)
2026/06/04 17:30:51 INFO  : Logs_Intermediates/nextflow_work_logs/1d/40a91d277d2be8831082aea5c80313/.command.err: Copied (new)
2026/06/04 17:30:51 INFO  : Logs_Intermediates/nextflow_work_logs/1d/40a91d277d2be8831082aea5c80313/.command.run: Copied (new)
2026/06/04 17:30:51 INFO  : Logs_Intermediates/nextflow_work_logs/1d/40a91d277d2be8831082aea5c80313/.command.sh: Copied (new)
2026/06/04 17:30:51 INFO  : Logs_Intermediates/Tmb/659_u7-T1-TDNA-1_HLNN7DRX7_1_dna/659_u7-T1-TDNA-1_HLNN7DRX7_1_dna.hard-filtered.vcf.gz.md5sum: Copied (new)
2026/06/04 17:30:51 INFO  : Logs_Intermediates/Tmb/659_u7-T1-TDNA-1_HLNN7DRX7_1_dna/659_u7-T1-TDNA-1_HLNN7DRX7_1_dna-replay.json: Copied (new)
2026/06/04 17:30:51 INFO  : Logs_Intermediates/Tmb/659_u7-T1-TDNA-1_HLNN7DRX7_1_dna/659_u7-T1-TDNA-1_HLNN7DRX7_1_dna.hard-filtered.vcf.gz: Copied (new)
2026/06/04 17:30:51 INFO  : Logs_Intermediates/FastqGeneration/659_eXf-T1-TDNA-1_HLNN7DRX7_1_dna/659_eXf-T1-TDNA-1_HLNN7DRX7_1_dna_S1_L001_R2_001.fastq.gz: Multi-thread Copied (new)
2026/06/04 17:30:51 INFO  : Logs_Intermediates/Tmb/659_u7-T1-TDNA-1_HLNN7DRX7_1_dna/659_u7-T1-TDNA-1_HLNN7DRX7_1_dna.hard-filtered.vcf.gz.tbi: Copied (new)
2026/06/04 17:30:51 INFO  : Logs_Intermediates/Tmb/659_u7-T1-TDNA-1_HLNN7DRX7_1_dna/659_u7-T1-TDNA-1_HLNN7DRX7_1_dna.time_metrics.csv: Copied (new)
2026/06/04 17:30:51 INFO  : Logs_Intermediates/Tmb/659_u7-T1-TDNA-1_HLNN7DRX7_1_dna/659_u7-T1-TDNA-1_HLNN7DRX7_1_dna.tmb.metrics.csv: Copied (new)
2026/06/04 17:30:51 INFO  : Logs_Intermediates/Tmb/659_u7-T1-TDNA-1_HLNN7DRX7_1_dna/659_u7-T1-TDNA-1_HLNN7DRX7_1_dna.tmb.trace.tsv: Copied (new)
2026/06/04 17:30:52 INFO  : Logs_Intermediates/Tmb/659_u7-T1-TDNA-1_HLNN7DRX7_1_dna/659_u7-T1-TDNA-1_HLNN7DRX7_1_dna_DNAVariants_TMB_Annotated.json.gz.jsi: Copied (new)
2026/06/04 17:30:52 INFO  : Logs_Intermediates/Tmb/659_u7-T1-TDNA-1_HLNN7DRX7_1_dna/Nirvana-20260603214247.log: Copied (new)
2026/06/04 17:30:52 INFO  : Logs_Intermediates/Tmb/659_u7-T1-TDNA-1_HLNN7DRX7_1_dna/dragen_run_1780528914177_285521.log: Copied (new)
2026/06/04 17:30:52 INFO  : Logs_Intermediates/Tmb/659_u7-T1-TDNA-1_HLNN7DRX7_1_dna/dragen_syslog_1780528914169_285521.log: Copied (new)
2026/06/04 17:30:52 INFO  : Logs_Intermediates/Annotation/659_vE-T1-TDNA-1_HLNN7DRX7_1_dna/659_vE-T1-TDNA-1_HLNN7DRX7_1_dna_DNAVariants_Annotated.json.gz.jsi: Copied (new)
2026/06/04 17:30:52 INFO  : Logs_Intermediates/Annotation/659_vE-T1-TDNA-1_HLNN7DRX7_1_dna/Nirvana-20260603232102.log: Copied (new)
2026/06/04 17:30:52 INFO  : Logs_Intermediates/MetricsOutput/659_vE-T1-TDNA-1_HLNN7DRX7_1/659_vE-T1-TDNA-1_HLNN7DRX7_1_MetricsOutput.tsv: Copied (new)
2026/06/04 17:30:52 INFO  : Logs_Intermediates/Annotation/659_vE-T1-TDNA-1_HLNN7DRX7_1_dna/659_vE-T1-TDNA-1_HLNN7DRX7_1_dna_DNAVariants_Annotated.json.gz: Copied (new)
2026/06/04 17:30:52 INFO  : Logs_Intermediates/CombinedVariantOutput/659_u7-T1-TDNA-1_HLNN7DRX7_1/659_u7-T1-TDNA-1_HLNN7DRX7_1_CombinedVariantOutput.tsv: Copied (new)
2026/06/04 17:30:52 INFO  : Logs_Intermediates/Tmb/659_u7-T1-TDNA-1_HLNN7DRX7_1_dna/659_u7-T1-TDNA-1_HLNN7DRX7_1_dna_DNAVariants_TMB_Annotated.json.gz: Copied (new)
2026/06/04 17:30:53 INFO  : 
Transferred:   	  245.442 GiB / 342.760 GiB, 72%, 1.694 GiB/s, ETA 57s
Transferred:         5457 / 7318, 75%
Elapsed time:      2m30.0s
Transferring:
 * Logs_Intermediates/Dna…-1_HLNN7DRX7_1_dna.bam: 84% /3.708Gi, 28.242Mi/s, 21s
 * Logs_Intermediates/Dna…-1_HLNN7DRX7_1_dna.bam: 70% /4.224Gi, 31.217Mi/s, 41s
 * Logs_Intermediates/Dna…-1_HLNN7DRX7_1_dna.bam: 98% /2.821Gi, 31.281Mi/s, 1s
 * Logs_Intermediates/Fas…8_L002_R1_001.fastq.gz: 98% /2.213Gi, 26.296Mi/s, 1s
 * Logs_Intermediates/Fas…8_L002_R2_001.fastq.gz:100% /2.224Gi, 26.581Mi/s, 0s
 * Logs_Intermediates/Dna…-1_HLNN7DRX7_1_dna.bam: 66% /3.557Gi, 27.844Mi/s, 43s
 * Logs_Intermediates/Dna…-1_HLNN7DRX7_1_dna.bam: 61% /3.698Gi, 29.387Mi/s, 49s
 * Logs_Intermediates/Dna…-1_HLNN7DRX7_1_dna.bam: 54% /3.891Gi, 35.431Mi/s, 51s
 * Logs_Intermediates/Dna…-1_HLNN7DRX7_1_dna.bam: 54% /3.960Gi, 35.580Mi/s, 51s
 * Logs_Intermediates/Dna…-1_HLNN7DRX7_1_dna.bam: 36% /4.941Gi, 26.273Mi/s, 2m1s
 * Logs_Intermediates/Fas…8_L001_R2_001.fastq.gz: 98% /1.831Gi, 28.141Mi/s, 1s
 * Logs_Intermediates/Fas…8_L002_R1_001.fastq.gz: 96% /1.770Gi, 30.034Mi/s, 2s
 * Logs_Intermediates/Dna…-1_HLNN7DRX7_1_dna.bam: 51% /3.644Gi, 27.417Mi/s, 1m6s
 * Logs_Intermediates/Fas…2_L001_R1_001.fastq.gz: 98% /1.979Gi, 31.194Mi/s, 1s
 * Logs_Intermediates/Fas…2_L001_R2_001.fastq.gz: 99% /2.000Gi, 34.464Mi/s, 0s
 * Logs_Intermediates/Fas…2_L002_R1_001.fastq.gz: 89% /2.026Gi, 25.370Mi/s, 8s
 * Logs_Intermediates/Fas…2_L002_R2_001.fastq.gz: 90% /2.030Gi, 32.418Mi/s, 5s
 * Logs_Intermediates/Dna…-1_HLNN7DRX7_1_dna.bam: 54% /3.544Gi, 36.076Mi/s, 45s
 * Logs_Intermediates/Fas…7_L001_R1_001.fastq.gz: 59% /2.670Gi, 31.909Mi/s, 34s
 * Logs_Intermediates/Fas…7_L001_R2_001.fastq.gz: 63% /2.670Gi, 31.962Mi/s, 31s
 * Logs_Intermediates/Fas…7_L002_R1_001.fastq.gz: 68% /2.664Gi, 35.458Mi/s, 24s
 * Logs_Intermediates/Fas…7_L002_R2_001.fastq.gz: 63% /2.644Gi, 33.673Mi/s, 29s
 * Logs_Intermediates/Fas…1_L001_R1_001.fastq.gz: 98% /1.690Gi, 28.245Mi/s, 1s
 * Logs_Intermediates/Fas…1_L002_R1_001.fastq.gz: 97% /1.670Gi, 34.418Mi/s, 1s
 * Logs_Intermediates/Fas…1_L002_R2_001.fastq.gz: 92% /1.755Gi, 30.848Mi/s, 4s
 * Logs_Intermediates/Fas…5_L001_R1_001.fastq.gz: 84% /1.622Gi, 29.799Mi/s, 8s
 * Logs_Intermediates/Fas…5_L001_R2_001.fastq.gz: 79% /1.610Gi, 28.686Mi/s, 11s
 * Logs_Intermediates/Fas…5_L002_R1_001.fastq.gz: 89% /1.631Gi, 27.909Mi/s, 6s
 * Logs_Intermediates/Fas…5_L002_R2_001.fastq.gz: 87% /1.608Gi, 31.296Mi/s, 6s
 * Logs_Intermediates/Dna…-1_HLNN7DRX7_1_dna.bam: 35% /3.563Gi, 31.778Mi/s, 1m13s
 * Logs_Intermediates/Fas…2_L001_R1_001.fastq.gz: 70% /1.637Gi, 29.481Mi/s, 16s
 * Logs_Intermediates/Fas…2_L001_R2_001.fastq.gz: 60% /1.593Gi, 27.516Mi/s, 23s
 * Logs_Intermediates/Fas…2_L002_R1_001.fastq.gz: 57% /1.620Gi, 25.473Mi/s, 27s
 * Logs_Intermediates/Fas…2_L002_R2_001.fastq.gz: 64% /1.557Gi, 28.125Mi/s, 20s
 * Logs_Intermediates/Dna…-1_HLNN7DRX7_1_dna.bam: 34% /3.622Gi, 36.443Mi/s, 1m6s
 * Logs_Intermediates/Dna…-1_HLNN7DRX7_1_dna.bam: 31% /3.071Gi, 31.027Mi/s, 1m9s
 * Logs_Intermediates/Fas…6_L001_R1_001.fastq.gz: 41% /1.877Gi, 32.460Mi/s, 34s
 * Logs_Intermediates/Fas…6_L001_R2_001.fastq.gz: 36% /1.785Gi, 26.493Mi/s, 43s
 * Logs_Intermediates/Fas…6_L002_R1_001.fastq.gz: 35% /1.851Gi, 25.152Mi/s, 48s
 * Logs_Intermediates/Fas…6_L002_R2_001.fastq.gz: 48% /1.740Gi, 32.826Mi/s, 27s
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2026/06/04 17:31:23 INFO  : 
Transferred:   	  294.152 GiB / 342.760 GiB, 86%, 1.628 GiB/s, ETA 29s
Transferred:         7274 / 7318, 99%
Elapsed time:       3m0.0s
Transferring:
 * Logs_Intermediates/Dna…-1_HLNN7DRX7_1_dna.bam: 90% /4.224Gi, 30.542Mi/s, 14s
 * Logs_Intermediates/Dna…-1_HLNN7DRX7_1_dna.bam: 94% /3.557Gi, 33.824Mi/s, 5s
 * Logs_Intermediates/Dna…-1_HLNN7DRX7_1_dna.bam: 86% /3.698Gi, 34.191Mi/s, 15s
 * Logs_Intermediates/Dna…-1_HLNN7DRX7_1_dna.bam: 77% /3.891Gi, 29.568Mi/s, 30s
 * Logs_Intermediates/Dna…-1_HLNN7DRX7_1_dna.bam: 82% /3.960Gi, 35.102Mi/s, 20s
 * Logs_Intermediates/Dna…-1_HLNN7DRX7_1_dna.bam: 55% /4.941Gi, 31.791Mi/s, 1m10s
 * Logs_Intermediates/Dna…-1_HLNN7DRX7_1_dna.bam: 76% /3.644Gi, 29.000Mi/s, 30s
 * Logs_Intermediates/Dna…-1_HLNN7DRX7_1_dna.bam: 81% /3.544Gi, 35.027Mi/s, 19s
 * Logs_Intermediates/Fas…7_L001_R1_001.fastq.gz: 93% /2.670Gi, 33.404Mi/s, 5s
 * Logs_Intermediates/Fas…7_L001_R2_001.fastq.gz: 98% /2.670Gi, 31.256Mi/s, 1s
 * Logs_Intermediates/Dna…-1_HLNN7DRX7_1_dna.bam: 59% /3.563Gi, 32.868Mi/s, 44s
 * Logs_Intermediates/Dna…-1_HLNN7DRX7_1_dna.bam: 62% /3.622Gi, 36.672Mi/s, 38s
 * Logs_Intermediates/Dna…-1_HLNN7DRX7_1_dna.bam: 65% /3.071Gi, 35.785Mi/s, 30s
 * Logs_Intermediates/Fas…6_L001_R1_001.fastq.gz: 93% /1.877Gi, 38.322Mi/s, 3s
 * Logs_Intermediates/Fas…6_L001_R2_001.fastq.gz: 91% /1.785Gi, 35.717Mi/s, 4s
 * Logs_Intermediates/Fas…6_L002_R1_001.fastq.gz: 81% /1.851Gi, 29.997Mi/s, 11s
 * Logs_Intermediates/Dna…-1_HLNN7DRX7_1_dna.bam: 42% /3.877Gi, 31.110Mi/s, 1m13s
 * Logs_Intermediates/Fas…6_L001_R1_001.fastq.gz: 82% /1.742Gi, 32.385Mi/s, 9s
 * Logs_Intermediates/Fas…6_L001_R2_001.fastq.gz: 79% /1.810Gi, 35.134Mi/s, 10s
 * Logs_Intermediates/Fas…6_L002_R1_001.fastq.gz: 82% /1.776Gi, 34.070Mi/s, 9s
 * Logs_Intermediates/Fas…6_L002_R2_001.fastq.gz: 80% /1.836Gi, 34.303Mi/s, 10s
 * Logs_Intermediates/Dna…-1_HLNN7DRX7_1_dna.bam: 39% /3.171Gi, 32.710Mi/s, 1m0s
 * Logs_Intermediates/Fas…9_L001_R1_001.fastq.gz: 70% /1.676Gi, 27.044Mi/s, 18s
 * Logs_Intermediates/Fas…9_L001_R2_001.fastq.gz: 76% /1.637Gi, 33.365Mi/s, 11s
 * Logs_Intermediates/Fas…9_L002_R1_001.fastq.gz: 81% /1.678Gi, 35.455Mi/s, 8s
 * Logs_Intermediates/Fas…9_L002_R2_001.fastq.gz: 78% /1.625Gi, 32.235Mi/s, 10s
 * Logs_Intermediates/Fas…4_L001_R1_001.fastq.gz: 85% /1.503Gi, 32.844Mi/s, 6s
 * Logs_Intermediates/Fas…4_L001_R2_001.fastq.gz: 74% /1.551Gi, 27.207Mi/s, 14s
 * Logs_Intermediates/Fas…4_L002_R1_001.fastq.gz: 77% /1.523Gi, 28.332Mi/s, 12s
 * Logs_Intermediates/Fas…4_L002_R2_001.fastq.gz: 86% /1.562Gi, 33.382Mi/s, 6s
 * Logs_Intermediates/Dna…-1_HLNN7DRX7_1_dna.bam: 32% /3.318Gi, 31.090Mi/s, 1m13s
 * Logs_Intermediates/Fas…7_L001_R1_001.fastq.gz: 50% /1.862Gi, 29.036Mi/s, 32s
 * Logs_Intermediates/Fas…7_L001_R2_001.fastq.gz: 53% /1.913Gi, 30.748Mi/s, 29s
 * Logs_Intermediates/Fas…7_L002_R1_001.fastq.gz: 45% /1.883Gi, 27.222Mi/s, 38s
 * Logs_Intermediates/Fas…7_L002_R2_001.fastq.gz: 52% /1.923Gi, 32.248Mi/s, 29s
 * Logs_Intermediates/Fas…3_L001_R1_001.fastq.gz: 59% /1.776Gi, 36.879Mi/s, 19s
 * Logs_Intermediates/Fas…3_L001_R2_001.fastq.gz: 63% /1.682Gi, 37.700Mi/s, 16s
 * Logs_Intermediates/Fas…3_L002_R1_001.fastq.gz: 53% /1.751Gi, 31.600Mi/s, 26s
 * Logs_Intermediates/Fas…3_L002_R2_001.fastq.gz: 54% /1.634Gi, 33.007Mi/s, 23s
 * Logs_Intermediates/Fas…0_L001_R1_001.fastq.gz: 14% /5.731Gi, 33.266Mi/s, 2m31s
 * Logs_Intermediates/Fas…0_L001_R2_001.fastq.gz: 13% /5.863Gi, 29.949Mi/s, 2m53s
 * Logs_Intermediates/Fas…0_L002_R1_001.fastq.gz: 12% /5.900Gi, 29.099Mi/s, 3m2s
 * Logs_Intermediates/Fas…0_L002_R2_001.fastq.gz: 13% /6.014Gi, 32.711Mi/s, 2m42s
 * Logs_Intermediates/nex…1b4dc44c6/.command.run:100% /12.062Ki, 0/s, -

2026/06/04 17:31:23 INFO  : Logs_Intermediates/nextflow_work_logs/f6/24c6db8fb60893d936dfb1b4dc44c6/.command.run: Copied (new)
2026/06/04 17:31:27 INFO  : Logs_Intermediates/FastqGeneration/659_eRI-T1-TDNA-1_HLNN7DRX7_1_dna/659_eRI-T1-TDNA-1_HLNN7DRX7_1_dna_S7_L001_R1_001.fastq.gz: Multi-thread Copied (new)
2026/06/04 17:31:27 INFO  : Logs_Intermediates/FastqGeneration/659_eRI-T1-TDNA-1_HLNN7DRX7_1_dna/659_eRI-T1-TDNA-1_HLNN7DRX7_1_dna_S7_L001_R2_001.fastq.gz: Multi-thread Copied (new)
2026/06/04 17:31:28 INFO  : Logs_Intermediates/FastqGeneration/659_ehb-T1-TDNA-1_HLNN7DRX7_1_dna/659_ehb-T1-TDNA-1_HLNN7DRX7_1_dna_S6_L001_R1_001.fastq.gz: Multi-thread Copied (new)
2026/06/04 17:31:31 INFO  : Logs_Intermediates/FastqGeneration/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna_S29_L002_R2_001.fastq.gz: Multi-thread Copied (new)
2026/06/04 17:31:31 INFO  : Logs_Intermediates/FastqGeneration/659_oZ-T1-TDNA-1_HLNN7DRX7_1_dna/659_oZ-T1-TDNA-1_HLNN7DRX7_1_dna_S24_L001_R1_001.fastq.gz: Multi-thread Copied (new)
2026/06/04 17:31:31 INFO  : Logs_Intermediates/FastqGeneration/659_em3-T1-TDNA-1_HLNN7DRX7_1_dna/659_em3-T1-TDNA-1_HLNN7DRX7_1_dna_S16_L002_R2_001.fastq.gz: Multi-thread Copied (new)
2026/06/04 17:31:32 INFO  : Logs_Intermediates/DnaDragenCaller/659_eIu-T1-TDNA-1_HLNN7DRX7_1_dna/659_eIu-T1-TDNA-1_HLNN7DRX7_1_dna.bam: Multi-thread Copied (new)
2026/06/04 17:31:32 INFO  : Logs_Intermediates/FastqGeneration/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna_S29_L002_R1_001.fastq.gz: Multi-thread Copied (new)
2026/06/04 17:31:32 INFO  : Logs_Intermediates/FastqGeneration/659_ehb-T1-TDNA-1_HLNN7DRX7_1_dna/659_ehb-T1-TDNA-1_HLNN7DRX7_1_dna_S6_L002_R1_001.fastq.gz: Multi-thread Copied (new)
2026/06/04 17:31:33 INFO  : Logs_Intermediates/FastqGeneration/659_em3-T1-TDNA-1_HLNN7DRX7_1_dna/659_em3-T1-TDNA-1_HLNN7DRX7_1_dna_S16_L001_R2_001.fastq.gz: Multi-thread Copied (new)
2026/06/04 17:31:33 INFO  : Logs_Intermediates/FastqGeneration/659_ehb-T1-TDNA-1_HLNN7DRX7_1_dna/659_ehb-T1-TDNA-1_HLNN7DRX7_1_dna_S6_L001_R2_001.fastq.gz: Multi-thread Copied (new)
2026/06/04 17:31:33 INFO  : Logs_Intermediates/FastqGeneration/659_oZ-T1-TDNA-1_HLNN7DRX7_1_dna/659_oZ-T1-TDNA-1_HLNN7DRX7_1_dna_S24_L002_R1_001.fastq.gz: Multi-thread Copied (new)
2026/06/04 17:31:34 INFO  : Logs_Intermediates/FastqGeneration/659_em3-T1-TDNA-1_HLNN7DRX7_1_dna/659_em3-T1-TDNA-1_HLNN7DRX7_1_dna_S16_L001_R1_001.fastq.gz: Multi-thread Copied (new)
2026/06/04 17:31:34 INFO  : Logs_Intermediates/FastqGeneration/659_oZ-T1-TDNA-1_HLNN7DRX7_1_dna/659_oZ-T1-TDNA-1_HLNN7DRX7_1_dna_S24_L002_R2_001.fastq.gz: Multi-thread Copied (new)
2026/06/04 17:31:36 INFO  : Logs_Intermediates/FastqGeneration/659_em3-T1-TDNA-1_HLNN7DRX7_1_dna/659_em3-T1-TDNA-1_HLNN7DRX7_1_dna_S16_L002_R1_001.fastq.gz: Multi-thread Copied (new)
2026/06/04 17:31:36 INFO  : Logs_Intermediates/DnaDragenCaller/659_dxz-T1-TDNA-1_HLNN7DRX7_1_dna/659_dxz-T1-TDNA-1_HLNN7DRX7_1_dna.bam: Multi-thread Copied (new)
2026/06/04 17:31:37 INFO  : Logs_Intermediates/FastqGeneration/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna_S29_L001_R1_001.fastq.gz: Multi-thread Copied (new)
2026/06/04 17:31:37 INFO  : Logs_Intermediates/DnaDragenCaller/659_dm6-T1-TDNA-1_HLNN7DRX7_1_dna/659_dm6-T1-TDNA-1_HLNN7DRX7_1_dna.bam: Multi-thread Copied (new)
2026/06/04 17:31:38 INFO  : Logs_Intermediates/FastqGeneration/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna_S29_L001_R2_001.fastq.gz: Multi-thread Copied (new)
2026/06/04 17:31:42 INFO  : Logs_Intermediates/DnaDragenCaller/659_eeG-T1-TDNA-1_HLNN7DRX7_1_dna/659_eeG-T1-TDNA-1_HLNN7DRX7_1_dna.bam: Multi-thread Copied (new)
2026/06/04 17:31:43 INFO  : Logs_Intermediates/DnaDragenCaller/659_eL1-T1-TDNA-1_HLNN7DRX7_1_dna/659_eL1-T1-TDNA-1_HLNN7DRX7_1_dna.bam: Multi-thread Copied (new)
2026/06/04 17:31:43 INFO  : Logs_Intermediates/FastqGeneration/659_oZ-T1-TDNA-1_HLNN7DRX7_1_dna/659_oZ-T1-TDNA-1_HLNN7DRX7_1_dna_S24_L001_R2_001.fastq.gz: Multi-thread Copied (new)
2026/06/04 17:31:46 INFO  : Logs_Intermediates/FastqGeneration/659_u7-T1-TDNA-1_HLNN7DRX7_1_dna/659_u7-T1-TDNA-1_HLNN7DRX7_1_dna_S13_L001_R1_001.fastq.gz: Multi-thread Copied (new)
2026/06/04 17:31:47 INFO  : Logs_Intermediates/FastqGeneration/659_u7-T1-TDNA-1_HLNN7DRX7_1_dna/659_u7-T1-TDNA-1_HLNN7DRX7_1_dna_S13_L002_R1_001.fastq.gz: Multi-thread Copied (new)
2026/06/04 17:31:50 INFO  : Logs_Intermediates/FastqGeneration/659_rs-T1-TDNA-1_HLNN7DRX7_1_dna/659_rs-T1-TDNA-1_HLNN7DRX7_1_dna_S17_L001_R1_001.fastq.gz: Multi-thread Copied (new)
2026/06/04 17:31:50 INFO  : Logs_Intermediates/FastqGeneration/659_u7-T1-TDNA-1_HLNN7DRX7_1_dna/659_u7-T1-TDNA-1_HLNN7DRX7_1_dna_S13_L002_R2_001.fastq.gz: Multi-thread Copied (new)
2026/06/04 17:31:51 INFO  : Logs_Intermediates/FastqGeneration/659_rs-T1-TDNA-1_HLNN7DRX7_1_dna/659_rs-T1-TDNA-1_HLNN7DRX7_1_dna_S17_L001_R2_001.fastq.gz: Multi-thread Copied (new)
2026/06/04 17:31:51 INFO  : Logs_Intermediates/DnaDragenCaller/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna/659_ett-T1-TDNA-1_HLNN7DRX7_1_dna.bam: Multi-thread Copied (new)
2026/06/04 17:31:51 INFO  : Logs_Intermediates/FastqGeneration/659_rs-T1-TDNA-1_HLNN7DRX7_1_dna/659_rs-T1-TDNA-1_HLNN7DRX7_1_dna_S17_L002_R2_001.fastq.gz: Multi-thread Copied (new)
2026/06/04 17:31:52 INFO  : Logs_Intermediates/DnaDragenCaller/659_eXf-T1-TDNA-1_HLNN7DRX7_1_dna/659_eXf-T1-TDNA-1_HLNN7DRX7_1_dna.bam: Multi-thread Copied (new)
2026/06/04 17:31:52 INFO  : Logs_Intermediates/FastqGeneration/659_u7-T1-TDNA-1_HLNN7DRX7_1_dna/659_u7-T1-TDNA-1_HLNN7DRX7_1_dna_S13_L001_R2_001.fastq.gz: Multi-thread Copied (new)
2026/06/04 17:31:53 INFO  : Logs_Intermediates/DnaDragenCaller/659_edW-T1-TDNA-1_HLNN7DRX7_1_dna/659_edW-T1-TDNA-1_HLNN7DRX7_1_dna.bam: Multi-thread Copied (new)
2026/06/04 17:31:53 INFO  : 
Transferred:   	  322.361 GiB / 342.760 GiB, 94%, 939.999 MiB/s, ETA 22s
Transferred:         7307 / 7318, 100%
Elapsed time:      3m30.0s
Transferring:
 * Logs_Intermediates/Dna…-1_HLNN7DRX7_1_dna.bam: 77% /4.941Gi, 36.361Mi/s, 31s
 * Logs_Intermediates/Dna…-1_HLNN7DRX7_1_dna.bam: 87% /3.563Gi, 35.240Mi/s, 12s
 * Logs_Intermediates/Dna…-1_HLNN7DRX7_1_dna.bam: 93% /3.622Gi, 36.633Mi/s, 6s
 * Logs_Intermediates/Dna…-1_HLNN7DRX7_1_dna.bam: 73% /3.877Gi, 39.874Mi/s, 26s
 * Logs_Intermediates/Dna…-1_HLNN7DRX7_1_dna.bam: 76% /3.171Gi, 41.293Mi/s, 18s
 * Logs_Intermediates/Dna…-1_HLNN7DRX7_1_dna.bam: 65% /3.318Gi, 38.182Mi/s, 30s
 * Logs_Intermediates/Fas…7_L002_R1_001.fastq.gz: 98% /1.883Gi, 29.498Mi/s, 1s
 * Logs_Intermediates/Fas…0_L001_R1_001.fastq.gz: 35% /5.731Gi, 38.828Mi/s, 1m37s
 * Logs_Intermediates/Fas…0_L001_R2_001.fastq.gz: 32% /5.863Gi, 38.883Mi/s, 1m43s
 * Logs_Intermediates/Fas…0_L002_R1_001.fastq.gz: 30% /5.900Gi, 33.198Mi/s, 2m6s
 * Logs_Intermediates/Fas…0_L002_R2_001.fastq.gz: 34% /6.014Gi, 44.246Mi/s, 1m30s

2026/06/04 17:31:58 INFO  : Logs_Intermediates/FastqGeneration/659_rs-T1-TDNA-1_HLNN7DRX7_1_dna/659_rs-T1-TDNA-1_HLNN7DRX7_1_dna_S17_L002_R1_001.fastq.gz: Multi-thread Copied (new)
2026/06/04 17:32:04 INFO  : Logs_Intermediates/DnaDragenCaller/659_em3-T1-TDNA-1_HLNN7DRX7_1_dna/659_em3-T1-TDNA-1_HLNN7DRX7_1_dna.bam: Multi-thread Copied (new)
2026/06/04 17:32:05 INFO  : Logs_Intermediates/DnaDragenCaller/659_ehb-T1-TDNA-1_HLNN7DRX7_1_dna/659_ehb-T1-TDNA-1_HLNN7DRX7_1_dna.bam: Multi-thread Copied (new)
2026/06/04 17:32:10 INFO  : Logs_Intermediates/DnaDragenCaller/659_oZ-T1-TDNA-1_HLNN7DRX7_1_dna/659_oZ-T1-TDNA-1_HLNN7DRX7_1_dna.bam: Multi-thread Copied (new)
2026/06/04 17:32:17 INFO  : Logs_Intermediates/DnaDragenCaller/659_rs-T1-TDNA-1_HLNN7DRX7_1_dna/659_rs-T1-TDNA-1_HLNN7DRX7_1_dna.bam: Multi-thread Copied (new)
2026/06/04 17:32:22 INFO  : Logs_Intermediates/DnaDragenCaller/659_eRI-T1-TDNA-1_HLNN7DRX7_1_dna/659_eRI-T1-TDNA-1_HLNN7DRX7_1_dna.bam: Multi-thread Copied (new)
2026/06/04 17:32:23 INFO  : 
Transferred:   	  331.440 GiB / 342.760 GiB, 97%, 380.582 MiB/s, ETA 30s
Transferred:         7313 / 7318, 100%
Elapsed time:       4m0.0s
Transferring:
 * Logs_Intermediates/Dna…-1_HLNN7DRX7_1_dna.bam: 97% /3.318Gi, 35.471Mi/s, 2s
 * Logs_Intermediates/Fas…0_L001_R1_001.fastq.gz: 55% /5.731Gi, 40.545Mi/s, 1m4s
 * Logs_Intermediates/Fas…0_L001_R2_001.fastq.gz: 50% /5.863Gi, 35.458Mi/s, 1m23s
 * Logs_Intermediates/Fas…0_L002_R1_001.fastq.gz: 48% /5.900Gi, 36.487Mi/s, 1m25s
 * Logs_Intermediates/Fas…0_L002_R2_001.fastq.gz: 54% /6.014Gi, 38.508Mi/s, 1m13s

2026/06/04 17:32:30 INFO  : Logs_Intermediates/DnaDragenCaller/659_u7-T1-TDNA-1_HLNN7DRX7_1_dna/659_u7-T1-TDNA-1_HLNN7DRX7_1_dna.bam: Multi-thread Copied (new)
2026/06/04 17:32:53 INFO  : 
Transferred:   	  337.251 GiB / 342.760 GiB, 98%, 227.418 MiB/s, ETA 24s
Transferred:         7314 / 7318, 100%
Elapsed time:      4m30.0s
Transferring:
 * Logs_Intermediates/Fas…0_L001_R1_001.fastq.gz: 80% /5.731Gi, 51.162Mi/s, 22s
 * Logs_Intermediates/Fas…0_L001_R2_001.fastq.gz: 75% /5.863Gi, 49.416Mi/s, 30s
 * Logs_Intermediates/Fas…0_L002_R1_001.fastq.gz: 74% /5.900Gi, 51.636Mi/s, 30s
 * Logs_Intermediates/Fas…0_L002_R2_001.fastq.gz: 76% /6.014Gi, 46.101Mi/s, 31s

2026/06/04 17:33:14 INFO  : Logs_Intermediates/FastqGeneration/Undetermined/Undetermined_S0_L001_R1_001.fastq.gz: Multi-thread Copied (new)
2026/06/04 17:33:21 INFO  : Logs_Intermediates/FastqGeneration/Undetermined/Undetermined_S0_L002_R2_001.fastq.gz: Multi-thread Copied (new)
2026/06/04 17:33:23 INFO  : 
Transferred:   	  342.760 GiB / 342.760 GiB, 100%, 183.366 MiB/s, ETA 0s
Transferred:         7316 / 7318, 100%
Elapsed time:       5m0.0s
Transferring:
 * Logs_Intermediates/Fas…0_L001_R2_001.fastq.gz:100% /5.863Gi, 48.341Mi/s, 0s
 * Logs_Intermediates/Fas…0_L002_R1_001.fastq.gz:100% /5.900Gi, 52.148Mi/s, 0s

2026/06/04 17:33:23 INFO  : Logs_Intermediates/FastqGeneration/Undetermined/Undetermined_S0_L002_R1_001.fastq.gz: Multi-thread Copied (new)
2026/06/04 17:33:24 INFO  : Logs_Intermediates/FastqGeneration/Undetermined/Undetermined_S0_L001_R2_001.fastq.gz: Multi-thread Copied (new)
2026/06/04 17:33:24 INFO  : 
Transferred:   	  342.760 GiB / 342.760 GiB, 100%, 177.432 MiB/s, ETA 0s
Transferred:         7318 / 7318, 100%
Elapsed time:       5m0.5s