Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/5f/15e34e21a4956ce128cb7477a2e9fc/tih_rna_sample_00574_B23MVV7LT4_1.arriba.fusions.tsv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/98/9790922142f9fcfaf19cb9beb28122/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/98/9790922142f9fcfaf19cb9beb28122/.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-7324c8a8-f474-426a-a5c9-715912777f94/d8/92d6652b0b8fcc763d0f3fff270437/arriba_filter_config.yaml
==> STAGING COMPLETE (5 inputs)

  AIH curated blacklist: matched 8 fusion rows (breakpoint_ID in qualified set)

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

Total fusions: 358
  Pass (FILTER=PASS): 53 (14.8%)
  Fail (FILTER=FAIL): 305 (85.2%)

AIH curated blacklist (blacklisted flag):
  Total blacklisted: 8
  All 8 blacklisted rows have FILTER=FAIL

Failure reasons (top 15):
  confidence_below_min(medium<high): 84
  confidence_below_min(low<high);total_reads_below_min(1.0<8.0): 48
  confidence_below_min(low<high): 28
  confidence_below_min(low<high);total_reads_below_min(3.0<8.0): 20
  confidence_below_min(low<high);total_reads_below_min(0.0<8.0): 17
  confidence_below_min(medium<high);total_reads_below_min(5.0<8.0): 15
  confidence_below_min(low<high);total_reads_below_min(4.0<8.0): 13
  confidence_below_min(medium<high);total_reads_below_min(4.0<8.0): 13
  confidence_below_min(medium<high);total_reads_below_min(3.0<8.0): 13
  confidence_below_min(low<high);total_reads_below_min(2.0<8.0): 9
  confidence_below_min(medium<high);total_reads_below_min(6.0<8.0): 8
  confidence_below_min(low<high);total_reads_below_min(5.0<8.0): 6
  confidence_below_min(low<high);total_reads_below_min(6.0<8.0): 5
  confidence_below_min(low<high);total_reads_below_min(7.0<8.0): 5
  confidence_below_min(medium<high);total_reads_below_min(7.0<8.0): 5

Breakdown by confidence:
  high: 53 pass, 5 fail (total: 58)
  low: 0 pass, 153 fail (total: 153)
  medium: 0 pass, 147 fail (total: 147)
Arriba filter: 358 rows -> 53 PASS; wrote tih_rna_sample_00574_B23MVV7LT4_1.arriba.fusions.filtered.tsv and tih_rna_sample_00574_B23MVV7LT4_1.arriba.fusions.filtered_pass_only.tsv
Summary written to: tih_rna_sample_00574_B23MVV7LT4_1.arriba.fusions.filter_summary.txt