Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/31/7ae629deb567cfaf6d2455022ac386/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/ed/8beff46e84d2410f4ef84a962989a7/aih-tih-sc-0183f6-R1_B23WHYVLT4_1.arriba.fusions.tsv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/31/7ae629deb567cfaf6d2455022ac386/.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 6 fusion rows (breakpoint_ID in qualified set)

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

Total fusions: 65
  Pass (FILTER=PASS): 2 (3.1%)
  Fail (FILTER=FAIL): 63 (96.9%)

AIH curated blacklist (blacklisted flag):
  Total blacklisted: 6
  All 6 blacklisted rows have FILTER=FAIL

Failure reasons (top 15):
  confidence_below_min(low<high): 21
  confidence_below_min(low<high);total_reads_below_min(2.0<8.0): 8
  confidence_below_min(low<high);total_reads_below_min(1.0<8.0): 6
  confidence_below_min(low<high);total_reads_below_min(3.0<8.0): 6
  confidence_below_min(medium<high): 4
  confidence_below_min(low<high);total_reads_below_min(4.0<8.0): 4
  confidence_below_min(medium<high);aih_curated_blacklist: 3
  confidence_below_min(low<high);total_reads_below_min(0.0<8.0): 2
  aih_curated_blacklist: 1
  total_reads_below_min(4.0<8.0): 1
  confidence_below_min(medium<high);total_reads_below_min(6.0<8.0): 1
  confidence_below_min(medium<high);total_reads_below_min(4.0<8.0): 1
  confidence_below_min(low<high);aih_curated_blacklist: 1
  confidence_below_min(low<high);total_reads_below_min(7.0<8.0): 1
  confidence_below_min(low<high);total_reads_below_min(7.0<8.0);aih_curated_blacklist: 1

Breakdown by confidence:
  high: 2 pass, 2 fail (total: 4)
  low: 0 pass, 52 fail (total: 52)
  medium: 0 pass, 9 fail (total: 9)
Arriba filter: 65 rows -> 2 PASS; wrote aih-tih-sc-0183f6-R1_B23WHYVLT4_1.arriba.fusions.filtered.tsv and aih-tih-sc-0183f6-R1_B23WHYVLT4_1.arriba.fusions.filtered_pass_only.tsv
Summary written to: aih-tih-sc-0183f6-R1_B23WHYVLT4_1.arriba.fusions.filter_summary.txt