Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/59/f13fa9475428d6344b899452941fc9/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/8a/bb89e51441bac67e4c34a9a199376d/aih-tih-sc-f71b32-R1_B23WHYVLT4_1.arriba.fusions.tsv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/59/f13fa9475428d6344b899452941fc9/.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 14 fusion rows (breakpoint_ID in qualified set)

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

Total fusions: 248
  Pass (FILTER=PASS): 20 (8.1%)
  Fail (FILTER=FAIL): 228 (91.9%)

AIH curated blacklist (blacklisted flag):
  Total blacklisted: 14
  All 14 blacklisted rows have FILTER=FAIL

Failure reasons (top 15):
  confidence_below_min(low<high);total_reads_below_min(1.0<8.0): 37
  confidence_below_min(medium<high): 36
  confidence_below_min(low<high): 29
  confidence_below_min(medium<high);total_reads_below_min(3.0<8.0): 28
  confidence_below_min(low<high);total_reads_below_min(3.0<8.0): 19
  confidence_below_min(low<high);total_reads_below_min(0.0<8.0): 17
  confidence_below_min(low<high);total_reads_below_min(2.0<8.0): 13
  confidence_below_min(low<high);total_reads_below_min(4.0<8.0): 9
  confidence_below_min(low<high);total_reads_below_min(5.0<8.0): 6
  confidence_below_min(medium<high);total_reads_below_min(4.0<8.0): 4
  confidence_below_min(medium<high);total_reads_below_min(5.0<8.0): 4
  confidence_below_min(low<high);aih_curated_blacklist: 4
  confidence_below_min(medium<high);aih_curated_blacklist: 3
  confidence_below_min(medium<high);total_reads_below_min(5.0<8.0);aih_curated_blacklist: 3
  confidence_below_min(medium<high);total_reads_below_min(7.0<8.0): 2

Breakdown by confidence:
  high: 20 pass, 4 fail (total: 24)
  low: 0 pass, 139 fail (total: 139)
  medium: 0 pass, 85 fail (total: 85)
Arriba filter: 248 rows -> 20 PASS; wrote aih-tih-sc-f71b32-R1_B23WHYVLT4_1.arriba.fusions.filtered.tsv and aih-tih-sc-f71b32-R1_B23WHYVLT4_1.arriba.fusions.filtered_pass_only.tsv
Summary written to: aih-tih-sc-f71b32-R1_B23WHYVLT4_1.arriba.fusions.filter_summary.txt