Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/16/17606b7d7276967693ef958da669a0/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/16/17606b7d7276967693ef958da669a0/.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/96/6ddbdc40425e648d09946a4e3964e5/HeadNeckN_FFPE_L03_RNA_01_B23LG7FLT4_1.arriba.fusions.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 0 fusion rows (breakpoint_ID in qualified set)

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

Total fusions: 2
  Pass (FILTER=PASS): 0 (0.0%)
  Fail (FILTER=FAIL): 2 (100.0%)

Failure reasons (top 15):
  confidence_below_min(medium<high);total_reads_below_min(3.0<8.0): 1
  confidence_below_min(medium<high);total_reads_below_min(2.0<8.0): 1

Breakdown by confidence:
  medium: 0 pass, 2 fail (total: 2)
Arriba filter: 2 rows -> 0 PASS; wrote HeadNeckN_FFPE_L03_RNA_01_B23LG7FLT4_1.arriba.fusions.filtered.tsv and HeadNeckN_FFPE_L03_RNA_01_B23LG7FLT4_1.arriba.fusions.filtered_pass_only.tsv
Summary written to: HeadNeckN_FFPE_L03_RNA_01_B23LG7FLT4_1.arriba.fusions.filter_summary.txt