Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/23/1e10d6914a11c08629914532b8559d/aih-tih-sc-b845f7-R1_B23WHYVLT4_1.arriba.fusions.tsv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/64/c5063937c05bc706a498ed3f48aead/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/64/c5063937c05bc706a498ed3f48aead/.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 8 fusion rows (breakpoint_ID in qualified set)

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

Total fusions: 273
  Pass (FILTER=PASS): 26 (9.5%)
  Fail (FILTER=FAIL): 247 (90.5%)

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

Failure reasons (top 15):
  confidence_below_min(medium<high): 66
  confidence_below_min(low<high): 44
  confidence_below_min(low<high);total_reads_below_min(1.0<8.0): 24
  confidence_below_min(low<high);total_reads_below_min(2.0<8.0): 17
  confidence_below_min(low<high);total_reads_below_min(3.0<8.0): 14
  confidence_below_min(medium<high);total_reads_below_min(6.0<8.0): 13
  confidence_below_min(medium<high);total_reads_below_min(4.0<8.0): 11
  confidence_below_min(low<high);total_reads_below_min(4.0<8.0): 10
  confidence_below_min(low<high);total_reads_below_min(0.0<8.0): 8
  confidence_below_min(low<high);total_reads_below_min(7.0<8.0): 5
  total_reads_below_min(3.0<8.0): 5
  confidence_below_min(medium<high);total_reads_below_min(3.0<8.0): 5
  total_reads_below_min(7.0<8.0): 4
  confidence_below_min(medium<high);aih_curated_blacklist: 4
  confidence_below_min(medium<high);total_reads_below_min(5.0<8.0): 4

Breakdown by confidence:
  high: 26 pass, 11 fail (total: 37)
  low: 0 pass, 130 fail (total: 130)
  medium: 0 pass, 106 fail (total: 106)
Arriba filter: 273 rows -> 26 PASS; wrote aih-tih-sc-b845f7-R1_B23WHYVLT4_1.arriba.fusions.filtered.tsv and aih-tih-sc-b845f7-R1_B23WHYVLT4_1.arriba.fusions.filtered_pass_only.tsv
Summary written to: aih-tih-sc-b845f7-R1_B23WHYVLT4_1.arriba.fusions.filter_summary.txt