Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/d7/e02ea350b501c6b30886e1a41da45f/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/d7/e02ea350b501c6b30886e1a41da45f/.command.run
  Downloading: s3://natera-platform-sandbox/pipeline-resources/AIH/rna/GRCh38/blacklist_breakpoint_database_2026-04-27.tsv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/3a/1ccb93fed9c05aee9ba051044fdf35/BVT_FFPE_TRNA_bst_05_A23WKFTLT4_3.arriba.fusions.tsv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/stage-13dfb8f7-c999-4ef0-9260-22ba79cf647d/75/c52a23060671398a8253a658f32ecc/arriba_filter_config.yaml
==> STAGING COMPLETE (5 inputs)

  AIH curated blacklist: matched 0 fusion rows (breakpoint_ID in qualified set)

================================================================================
ARRIBA FILTERING SUMMARY
================================================================================

Total fusions: 198
  Pass (FILTER=PASS): 37 (18.7%)
  Fail (FILTER=FAIL): 161 (81.3%)

Failure reasons (top 15):
  confidence_below_min(medium<high);total_reads_below_min(3.0<8.0): 21
  confidence_below_min(medium<high): 21
  confidence_below_min(low<high);total_reads_below_min(2.0<8.0): 18
  confidence_below_min(low<high);total_reads_below_min(1.0<8.0): 14
  confidence_below_min(medium<high);total_reads_below_min(7.0<8.0): 12
  confidence_below_min(medium<high);total_reads_below_min(6.0<8.0): 12
  confidence_below_min(medium<high);total_reads_below_min(4.0<8.0): 9
  confidence_below_min(low<high);total_reads_below_min(3.0<8.0): 8
  total_reads_below_min(3.0<8.0): 7
  confidence_below_min(medium<high);total_reads_below_min(2.0<8.0): 6
  confidence_below_min(low<high): 6
  total_reads_below_min(6.0<8.0): 6
  confidence_below_min(low<high);total_reads_below_min(4.0<8.0): 4
  total_reads_below_min(4.0<8.0): 4
  confidence_below_min(medium<high);total_reads_below_min(5.0<8.0): 4

Breakdown by confidence:
  high: 37 pass, 22 fail (total: 59)
  low: 0 pass, 54 fail (total: 54)
  medium: 0 pass, 85 fail (total: 85)
Arriba filter: 198 rows -> 37 PASS; wrote BVT_FFPE_TRNA_bst_05_A23WKFTLT4_3.arriba.fusions.filtered.tsv and BVT_FFPE_TRNA_bst_05_A23WKFTLT4_3.arriba.fusions.filtered_pass_only.tsv
Summary written to: BVT_FFPE_TRNA_bst_05_A23WKFTLT4_3.arriba.fusions.filter_summary.txt