Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/8a/afd2353a6419f63f57bbf321108ec3/tih_rna_sample_00422_23H5VFLT4_s47.arriba.fusions.tsv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/5f/7c944c1e679b891332904fe7db31e3/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/5f/7c944c1e679b891332904fe7db31e3/.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-5b456d70-fab3-4fcc-916c-bc437f411fba/48/d36e0303d259ad82d7d96e756f6134/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: 22
  Pass (FILTER=PASS): 0 (0.0%)
  Fail (FILTER=FAIL): 22 (100.0%)

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

Failure reasons (top 15):
  confidence_below_min(low<high);total_reads_below_min(4.0<8.0): 12
  confidence_below_min(low<high);total_reads_below_min(1.0<8.0): 3
  confidence_below_min(medium<high): 2
  confidence_below_min(low<high);total_reads_below_min(3.0<8.0): 2
  confidence_below_min(medium<high);aih_curated_blacklist: 1
  confidence_below_min(low<high): 1
  confidence_below_min(low<high);aih_curated_blacklist: 1

Breakdown by confidence:
  low: 0 pass, 19 fail (total: 19)
  medium: 0 pass, 3 fail (total: 3)
Arriba filter: 22 rows -> 0 PASS; wrote tih_rna_sample_00422_23H5VFLT4_s47.arriba.fusions.filtered.tsv and tih_rna_sample_00422_23H5VFLT4_s47.arriba.fusions.filtered_pass_only.tsv
Summary written to: tih_rna_sample_00422_23H5VFLT4_s47.arriba.fusions.filter_summary.txt