Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/41/b47c7981796229638dd0c48835a5c8/aih-tih-sc-c63171-R1_B23WHYVLT4_1.arriba.fusions.tsv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/35/3f3dae0a1d5690bafcec74e9772ed2/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/35/3f3dae0a1d5690bafcec74e9772ed2/.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 11 fusion rows (breakpoint_ID in qualified set)

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

Total fusions: 161
  Pass (FILTER=PASS): 11 (6.8%)
  Fail (FILTER=FAIL): 150 (93.2%)

AIH curated blacklist (blacklisted flag):
  Total blacklisted: 11
  All 11 blacklisted rows have FILTER=FAIL

Failure reasons (top 15):
  confidence_below_min(low<high): 29
  confidence_below_min(low<high);total_reads_below_min(1.0<8.0): 20
  confidence_below_min(low<high);total_reads_below_min(4.0<8.0): 18
  confidence_below_min(low<high);total_reads_below_min(3.0<8.0): 17
  confidence_below_min(medium<high): 17
  confidence_below_min(medium<high);total_reads_below_min(7.0<8.0): 11
  confidence_below_min(low<high);total_reads_below_min(2.0<8.0): 10
  confidence_below_min(low<high);total_reads_below_min(0.0<8.0): 8
  confidence_below_min(medium<high);aih_curated_blacklist: 4
  confidence_below_min(medium<high);total_reads_below_min(4.0<8.0): 3
  confidence_below_min(low<high);total_reads_below_min(5.0<8.0): 3
  confidence_below_min(medium<high);total_reads_below_min(3.0<8.0);aih_curated_blacklist: 2
  confidence_below_min(low<high);aih_curated_blacklist: 2
  total_reads_below_min(4.0<8.0): 1
  confidence_below_min(low<high);total_reads_below_min(4.0<8.0);aih_curated_blacklist: 1

Breakdown by confidence:
  high: 11 pass, 1 fail (total: 12)
  low: 0 pass, 110 fail (total: 110)
  medium: 0 pass, 39 fail (total: 39)
Arriba filter: 161 rows -> 11 PASS; wrote aih-tih-sc-c63171-R1_B23WHYVLT4_1.arriba.fusions.filtered.tsv and aih-tih-sc-c63171-R1_B23WHYVLT4_1.arriba.fusions.filtered_pass_only.tsv
Summary written to: aih-tih-sc-c63171-R1_B23WHYVLT4_1.arriba.fusions.filter_summary.txt