Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/e9/7ff277bbc166dbd6edf3bbdce2fca8/HeadNeckN_FFPE_L02_RNA_01_B23LG7FLT4_1.arriba.fusions.tsv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/bd/1c8b248474e455c70be45e9cbf0757/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/bd/1c8b248474e455c70be45e9cbf0757/.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-f79a17a0-988d-46c3-a0fc-cc7f26b06d9c/2f/783d5e3fc4bb0e4fc378bb3e8b5e61/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: 5
  Pass (FILTER=PASS): 0 (0.0%)
  Fail (FILTER=FAIL): 5 (100.0%)

Failure reasons (top 15):
  confidence_below_min(medium<high): 1
  confidence_below_min(medium<high);total_reads_below_min(3.0<8.0): 1
  confidence_below_min(low<high): 1
  confidence_below_min(low<high);total_reads_below_min(2.0<8.0): 1
  confidence_below_min(low<high);total_reads_below_min(0.0<8.0): 1

Breakdown by confidence:
  low: 0 pass, 3 fail (total: 3)
  medium: 0 pass, 2 fail (total: 2)
Arriba filter: 5 rows -> 0 PASS; wrote HeadNeckN_FFPE_L02_RNA_01_B23LG7FLT4_1.arriba.fusions.filtered.tsv and HeadNeckN_FFPE_L02_RNA_01_B23LG7FLT4_1.arriba.fusions.filtered_pass_only.tsv
Summary written to: HeadNeckN_FFPE_L02_RNA_01_B23LG7FLT4_1.arriba.fusions.filter_summary.txt