Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/c4/910730e964a0cec75df365b8ffc3a5/aih-tih-sc-2e5fe9-R1_A23YTGFLT4_1.arriba.fusions.tsv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/6c/29f95c796c96c095247e8d7c15f8fb/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/6c/29f95c796c96c095247e8d7c15f8fb/.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-e543dae6-5fea-4720-bfb6-150bf1ff20d4/33/a04540cea7c8abc13163bc03b147d5/arriba_filter_config.yaml
==> STAGING COMPLETE (5 inputs)

  AIH curated blacklist: matched 8 fusion rows (breakpoint_ID in qualified set)

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

Total fusions: 252
  Pass (FILTER=PASS): 15 (6.0%)
  Fail (FILTER=FAIL): 237 (94.0%)

AIH curated blacklist (blacklisted flag):
  Total blacklisted: 8
  All 8 blacklisted rows have FILTER=FAIL

Failure reasons (top 15):
  confidence_below_min(medium<high): 46
  confidence_below_min(medium<high);total_reads_below_min(4.0<8.0): 32
  confidence_below_min(low<high);total_reads_below_min(1.0<8.0): 28
  confidence_below_min(low<high): 26
  confidence_below_min(medium<high);total_reads_below_min(5.0<8.0): 17
  confidence_below_min(low<high);total_reads_below_min(0.0<8.0): 13
  confidence_below_min(low<high);total_reads_below_min(4.0<8.0): 13
  confidence_below_min(medium<high);total_reads_below_min(3.0<8.0): 11
  confidence_below_min(low<high);total_reads_below_min(3.0<8.0): 9
  confidence_below_min(low<high);total_reads_below_min(2.0<8.0): 6
  confidence_below_min(medium<high);total_reads_below_min(2.0<8.0): 5
  confidence_below_min(low<high);total_reads_below_min(5.0<8.0): 5
  confidence_below_min(low<high);total_reads_below_min(7.0<8.0): 4
  confidence_below_min(medium<high);aih_curated_blacklist: 4
  total_reads_below_min(5.0<8.0): 3

Breakdown by confidence:
  high: 15 pass, 11 fail (total: 26)
  low: 0 pass, 108 fail (total: 108)
  medium: 0 pass, 118 fail (total: 118)
Arriba filter: 252 rows -> 15 PASS; wrote aih-tih-sc-2e5fe9-R1_A23YTGFLT4_1.arriba.fusions.filtered.tsv and aih-tih-sc-2e5fe9-R1_A23YTGFLT4_1.arriba.fusions.filtered_pass_only.tsv
Summary written to: aih-tih-sc-2e5fe9-R1_A23YTGFLT4_1.arriba.fusions.filter_summary.txt