Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/9f/6766bb0071d6e48322ccbd4887b1e3/aih-tih-sc-63c8b4-R1_B23WHYVLT4_1.arriba.fusions.tsv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/f2/11ad1a22f4414a144c94729d4aedad/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/f2/11ad1a22f4414a144c94729d4aedad/.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-8900cb43-4dca-49ac-a290-1d176a2e0012/49/8453bafeca2d0250d89cdefd7ba73e/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: 154
  Pass (FILTER=PASS): 7 (4.5%)
  Fail (FILTER=FAIL): 147 (95.5%)

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

Failure reasons (top 15):
  confidence_below_min(medium<high): 56
  confidence_below_min(low<high): 27
  confidence_below_min(low<high);total_reads_below_min(6.0<8.0): 12
  confidence_below_min(medium<high);total_reads_below_min(6.0<8.0): 10
  confidence_below_min(low<high);total_reads_below_min(1.0<8.0): 7
  confidence_below_min(low<high);total_reads_below_min(0.0<8.0): 7
  confidence_below_min(medium<high);total_reads_below_min(3.0<8.0): 6
  confidence_below_min(low<high);total_reads_below_min(3.0<8.0): 5
  confidence_below_min(low<high);total_reads_below_min(5.0<8.0): 4
  confidence_below_min(low<high);total_reads_below_min(2.0<8.0): 4
  confidence_below_min(low<high);total_reads_below_min(4.0<8.0): 4
  confidence_below_min(low<high);total_reads_below_min(1.0<8.0);aih_curated_blacklist: 1
  total_reads_below_min(4.0<8.0): 1
  total_reads_below_min(3.0<8.0): 1
  confidence_below_min(medium<high);aih_curated_blacklist: 1

Breakdown by confidence:
  high: 7 pass, 2 fail (total: 9)
  low: 0 pass, 72 fail (total: 72)
  medium: 0 pass, 73 fail (total: 73)
Arriba filter: 154 rows -> 7 PASS; wrote aih-tih-sc-63c8b4-R1_B23WHYVLT4_1.arriba.fusions.filtered.tsv and aih-tih-sc-63c8b4-R1_B23WHYVLT4_1.arriba.fusions.filtered_pass_only.tsv
Summary written to: aih-tih-sc-63c8b4-R1_B23WHYVLT4_1.arriba.fusions.filter_summary.txt