Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/e0/cdc53cf2744abbaf33cba406acf7dd/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/d9/eae5c59ee19953f9b169b76d2f7f4e/aih-tih-sc-24ecfe-R1_A23YTGFLT4_1.arriba.fusions.tsv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/e0/cdc53cf2744abbaf33cba406acf7dd/.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-eb5d3959-7137-45a9-9f26-41f9201dcf7f/81/be38f7f47cc30e4a107d9e602cb8fb/arriba_filter_config.yaml
==> STAGING COMPLETE (5 inputs)

  AIH curated blacklist: matched 2 fusion rows (breakpoint_ID in qualified set)

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

Total fusions: 3
  Pass (FILTER=PASS): 0 (0.0%)
  Fail (FILTER=FAIL): 3 (100.0%)

AIH curated blacklist (blacklisted flag):
  Total blacklisted: 2
  All 2 blacklisted rows have FILTER=FAIL

Failure reasons (top 15):
  confidence_below_min(medium<high);aih_curated_blacklist: 1
  confidence_below_min(low<high);aih_curated_blacklist: 1
  confidence_below_min(low<high);total_reads_below_min(2.0<8.0): 1

Breakdown by confidence:
  low: 0 pass, 2 fail (total: 2)
  medium: 0 pass, 1 fail (total: 1)
Arriba filter: 3 rows -> 0 PASS; wrote aih-tih-sc-24ecfe-R1_A23YTGFLT4_1.arriba.fusions.filtered.tsv and aih-tih-sc-24ecfe-R1_A23YTGFLT4_1.arriba.fusions.filtered_pass_only.tsv
Summary written to: aih-tih-sc-24ecfe-R1_A23YTGFLT4_1.arriba.fusions.filter_summary.txt