Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/07/daf6f404cc5ba377c0ce58825722c6/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/07/daf6f404cc5ba377c0ce58825722c6/.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/8e/d1969fe0efd8109eab3765567cd632/659_b4x-T1-TRNA-1_B23MHV2LT4_1.arriba.fusions.tsv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/stage-40cc52c0-5bec-40b6-b04d-c64c51f55eff/cf/a844d18c3db3aeda7471fb3d005c4f/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: 13
  Pass (FILTER=PASS): 4 (30.8%)
  Fail (FILTER=FAIL): 9 (69.2%)

AIH curated blacklist (blacklisted flag):
  Total blacklisted: 1
  All 1 blacklisted rows have FILTER=FAIL

Failure reasons (top 15):
  confidence_below_min(medium<high): 2
  confidence_below_min(medium<high);total_reads_below_min(3.0<8.0): 2
  confidence_below_min(low<high);total_reads_below_min(1.0<8.0): 2
  total_reads_below_min(6.0<8.0): 1
  confidence_below_min(medium<high);aih_curated_blacklist: 1
  confidence_below_min(medium<high);total_reads_below_min(2.0<8.0): 1

Breakdown by confidence:
  high: 4 pass, 1 fail (total: 5)
  low: 0 pass, 2 fail (total: 2)
  medium: 0 pass, 6 fail (total: 6)
Arriba filter: 13 rows -> 4 PASS; wrote 659_b4x-T1-TRNA-1_B23MHV2LT4_1.arriba.fusions.filtered.tsv and 659_b4x-T1-TRNA-1_B23MHV2LT4_1.arriba.fusions.filtered_pass_only.tsv
Summary written to: 659_b4x-T1-TRNA-1_B23MHV2LT4_1.arriba.fusions.filter_summary.txt