Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/6c/bf2d4846a61437dfa66e69d202f29b/BreastNB_FFPE_L02_RNA_01_B23LG7FLT4_1.arriba.fusions.tsv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/b5/231f69ef925d8aa0267e6661a30d2a/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/b5/231f69ef925d8aa0267e6661a30d2a/.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-6ef41cd9-2e18-4687-842c-3f6f49c5643f/f2/edcdb43d4676ed2a5254ed1bf31faa/arriba_filter_config.yaml
==> STAGING COMPLETE (5 inputs)

  AIH curated blacklist: matched 1 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: 1
  All 1 blacklisted rows have FILTER=FAIL

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

Breakdown by confidence:
  high: 0 pass, 1 fail (total: 1)
  low: 0 pass, 1 fail (total: 1)
  medium: 0 pass, 1 fail (total: 1)
Arriba filter: 3 rows -> 0 PASS; wrote BreastNB_FFPE_L02_RNA_01_B23LG7FLT4_1.arriba.fusions.filtered.tsv and BreastNB_FFPE_L02_RNA_01_B23LG7FLT4_1.arriba.fusions.filtered_pass_only.tsv
Summary written to: BreastNB_FFPE_L02_RNA_01_B23LG7FLT4_1.arriba.fusions.filter_summary.txt