Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/f7/fbd50f02af5250bf14fd5da30a4c0d/BVT_FFPE_TRNA_thy_01_A23WKFTLT4_2.arriba.fusions.tsv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/cb/2edcbb1f97a777a0c4c7f3f5ce0059/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/cb/2edcbb1f97a777a0c4c7f3f5ce0059/.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/stage-13dfb8f7-c999-4ef0-9260-22ba79cf647d/75/c52a23060671398a8253a658f32ecc/arriba_filter_config.yaml
==> STAGING COMPLETE (5 inputs)

  AIH curated blacklist: matched 1 fusion rows (breakpoint_ID in qualified set)

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

Total fusions: 16
  Pass (FILTER=PASS): 1 (6.2%)
  Fail (FILTER=FAIL): 15 (93.8%)

AIH curated blacklist (blacklisted flag):
  Total blacklisted: 1
  All 1 blacklisted rows have FILTER=FAIL

Failure reasons (top 15):
  confidence_below_min(low<high);total_reads_below_min(2.0<8.0): 7
  confidence_below_min(medium<high): 2
  confidence_below_min(low<high): 2
  confidence_below_min(medium<high);aih_curated_blacklist: 1
  confidence_below_min(medium<high);total_reads_below_min(2.0<8.0): 1
  confidence_below_min(low<high);total_reads_below_min(6.0<8.0): 1
  confidence_below_min(low<high);total_reads_below_min(4.0<8.0): 1

Breakdown by confidence:
  high: 1 pass, 0 fail (total: 1)
  low: 0 pass, 11 fail (total: 11)
  medium: 0 pass, 4 fail (total: 4)
Arriba filter: 16 rows -> 1 PASS; wrote BVT_FFPE_TRNA_thy_01_A23WKFTLT4_2.arriba.fusions.filtered.tsv and BVT_FFPE_TRNA_thy_01_A23WKFTLT4_2.arriba.fusions.filtered_pass_only.tsv
Summary written to: BVT_FFPE_TRNA_thy_01_A23WKFTLT4_2.arriba.fusions.filter_summary.txt