Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/70/6610aafa9bea60610192fbb05eaa48/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/70/6610aafa9bea60610192fbb05eaa48/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/4f/a5e906e05a2cf6ef12aa4268c2e38b/BVT_FFPE_TRNA_bst_01_03_A23WKFTLT4_2.arriba.fusions.tsv
  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/stage-13dfb8f7-c999-4ef0-9260-22ba79cf647d/75/c52a23060671398a8253a658f32ecc/arriba_filter_config.yaml
==> STAGING COMPLETE (5 inputs)

  AIH curated blacklist: matched 3 fusion rows (breakpoint_ID in qualified set)

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

Total fusions: 113
  Pass (FILTER=PASS): 17 (15.0%)
  Fail (FILTER=FAIL): 96 (85.0%)

AIH curated blacklist (blacklisted flag):
  Total blacklisted: 3
  All 3 blacklisted rows have FILTER=FAIL

Failure reasons (top 15):
  confidence_below_min(low<high);total_reads_below_min(1.0<8.0): 14
  confidence_below_min(low<high);total_reads_below_min(3.0<8.0): 11
  confidence_below_min(medium<high): 11
  confidence_below_min(low<high);total_reads_below_min(4.0<8.0): 11
  confidence_below_min(low<high);total_reads_below_min(2.0<8.0): 8
  confidence_below_min(medium<high);total_reads_below_min(3.0<8.0): 8
  confidence_below_min(medium<high);total_reads_below_min(2.0<8.0): 5
  confidence_below_min(medium<high);total_reads_below_min(4.0<8.0): 4
  confidence_below_min(low<high);total_reads_below_min(0.0<8.0): 4
  confidence_below_min(low<high): 4
  confidence_below_min(low<high);total_reads_below_min(5.0<8.0): 2
  total_reads_below_min(6.0<8.0): 2
  total_reads_below_min(5.0<8.0): 2
  total_reads_below_min(4.0<8.0): 2
  confidence_below_min(medium<high);aih_curated_blacklist: 2

Breakdown by confidence:
  high: 17 pass, 7 fail (total: 24)
  low: 0 pass, 56 fail (total: 56)
  medium: 0 pass, 33 fail (total: 33)
Arriba filter: 113 rows -> 17 PASS; wrote BVT_FFPE_TRNA_bst_01_03_A23WKFTLT4_2.arriba.fusions.filtered.tsv and BVT_FFPE_TRNA_bst_01_03_A23WKFTLT4_2.arriba.fusions.filtered_pass_only.tsv
Summary written to: BVT_FFPE_TRNA_bst_01_03_A23WKFTLT4_2.arriba.fusions.filter_summary.txt