Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/d6/465935bf5b7d7e0146dcea007a2118/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/9c/77ce2747345c6aebfbf32a6a03aa96/aih-tih-sc-7d62c4-R1_B23WHYVLT4_1.arriba.fusions.tsv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/d6/465935bf5b7d7e0146dcea007a2118/.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-8900cb43-4dca-49ac-a290-1d176a2e0012/49/8453bafeca2d0250d89cdefd7ba73e/arriba_filter_config.yaml
==> STAGING COMPLETE (5 inputs)

  AIH curated blacklist: matched 9 fusion rows (breakpoint_ID in qualified set)

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

Total fusions: 340
  Pass (FILTER=PASS): 53 (15.6%)
  Fail (FILTER=FAIL): 287 (84.4%)

AIH curated blacklist (blacklisted flag):
  Total blacklisted: 9
  All 9 blacklisted rows have FILTER=FAIL

Failure reasons (top 15):
  confidence_below_min(medium<high): 101
  confidence_below_min(low<high);total_reads_below_min(1.0<8.0): 34
  confidence_below_min(low<high): 30
  confidence_below_min(low<high);total_reads_below_min(3.0<8.0): 20
  confidence_below_min(medium<high);total_reads_below_min(3.0<8.0): 14
  confidence_below_min(low<high);total_reads_below_min(0.0<8.0): 13
  confidence_below_min(low<high);total_reads_below_min(2.0<8.0): 10
  confidence_below_min(low<high);total_reads_below_min(4.0<8.0): 10
  confidence_below_min(medium<high);total_reads_below_min(5.0<8.0): 8
  confidence_below_min(medium<high);total_reads_below_min(2.0<8.0): 7
  confidence_below_min(low<high);total_reads_below_min(5.0<8.0): 5
  confidence_below_min(medium<high);total_reads_below_min(6.0<8.0): 5
  confidence_below_min(medium<high);total_reads_below_min(4.0<8.0): 5
  confidence_below_min(medium<high);aih_curated_blacklist: 4
  confidence_below_min(low<high);total_reads_below_min(7.0<8.0): 4

Breakdown by confidence:
  high: 53 pass, 5 fail (total: 58)
  low: 0 pass, 133 fail (total: 133)
  medium: 0 pass, 149 fail (total: 149)
Arriba filter: 340 rows -> 53 PASS; wrote aih-tih-sc-7d62c4-R1_B23WHYVLT4_1.arriba.fusions.filtered.tsv and aih-tih-sc-7d62c4-R1_B23WHYVLT4_1.arriba.fusions.filtered_pass_only.tsv
Summary written to: aih-tih-sc-7d62c4-R1_B23WHYVLT4_1.arriba.fusions.filter_summary.txt