Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/13/f54c10cfa1180b215bfa4343116c82/aih-tih-sc-992d78-R1_A23YTGFLT4_1.arriba.fusions.tsv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/c2/06b6b1104b20d49ea433e598b57f6f/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/c2/06b6b1104b20d49ea433e598b57f6f/.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-e543dae6-5fea-4720-bfb6-150bf1ff20d4/33/a04540cea7c8abc13163bc03b147d5/arriba_filter_config.yaml
==> STAGING COMPLETE (5 inputs)

  AIH curated blacklist: matched 4 fusion rows (breakpoint_ID in qualified set)

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

Total fusions: 283
  Pass (FILTER=PASS): 19 (6.7%)
  Fail (FILTER=FAIL): 264 (93.3%)

AIH curated blacklist (blacklisted flag):
  Total blacklisted: 4
  All 4 blacklisted rows have FILTER=FAIL

Failure reasons (top 15):
  confidence_below_min(medium<high): 67
  confidence_below_min(low<high);total_reads_below_min(1.0<8.0): 43
  confidence_below_min(medium<high);total_reads_below_min(3.0<8.0): 27
  confidence_below_min(low<high);total_reads_below_min(3.0<8.0): 23
  confidence_below_min(low<high): 19
  confidence_below_min(low<high);total_reads_below_min(7.0<8.0): 17
  confidence_below_min(low<high);total_reads_below_min(2.0<8.0): 16
  confidence_below_min(medium<high);total_reads_below_min(5.0<8.0): 11
  confidence_below_min(low<high);total_reads_below_min(0.0<8.0): 8
  confidence_below_min(low<high);total_reads_below_min(6.0<8.0): 6
  confidence_below_min(low<high);total_reads_below_min(4.0<8.0): 5
  confidence_below_min(low<high);total_reads_below_min(5.0<8.0): 4
  confidence_below_min(medium<high);total_reads_below_min(6.0<8.0): 4
  confidence_below_min(medium<high);total_reads_below_min(7.0<8.0): 3
  confidence_below_min(medium<high);total_reads_below_min(2.0<8.0): 3

Breakdown by confidence:
  high: 19 pass, 2 fail (total: 21)
  low: 0 pass, 143 fail (total: 143)
  medium: 0 pass, 119 fail (total: 119)
Arriba filter: 283 rows -> 19 PASS; wrote aih-tih-sc-992d78-R1_A23YTGFLT4_1.arriba.fusions.filtered.tsv and aih-tih-sc-992d78-R1_A23YTGFLT4_1.arriba.fusions.filtered_pass_only.tsv
Summary written to: aih-tih-sc-992d78-R1_A23YTGFLT4_1.arriba.fusions.filter_summary.txt