Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/f5/e8131c03f058be461fca88d2848256/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/a4/61bab2f55c6a6155bff8ac204e18ad/659_bqK_T1_TRNA_1_B2372Y3LT4_1.arriba.fusions.tsv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/f5/e8131c03f058be461fca88d2848256/.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-fff52061-f714-4c14-bb2c-bf5549840817/43/06b80417dcdedb0d1513f19552f633/arriba_filter_config.yaml
==> STAGING COMPLETE (5 inputs)

  AIH curated blacklist: matched 6 fusion rows (breakpoint_ID in qualified set)

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

Total fusions: 106
  Pass (FILTER=PASS): 6 (5.7%)
  Fail (FILTER=FAIL): 100 (94.3%)

AIH curated blacklist (blacklisted flag):
  Total blacklisted: 6
  All 6 blacklisted rows have FILTER=FAIL

Failure reasons (top 15):
  confidence_below_min(medium<high): 19
  confidence_below_min(medium<high);total_reads_below_min(5.0<8.0): 12
  confidence_below_min(low<high);total_reads_below_min(2.0<8.0): 11
  confidence_below_min(medium<high);total_reads_below_min(6.0<8.0): 10
  confidence_below_min(medium<high);total_reads_below_min(4.0<8.0): 10
  confidence_below_min(low<high);total_reads_below_min(1.0<8.0): 7
  confidence_below_min(low<high);total_reads_below_min(3.0<8.0): 5
  confidence_below_min(low<high);total_reads_below_min(4.0<8.0): 5
  confidence_below_min(medium<high);aih_curated_blacklist: 4
  confidence_below_min(low<high): 3
  confidence_below_min(low<high);total_reads_below_min(0.0<8.0): 3
  confidence_below_min(low<high);total_reads_below_min(5.0<8.0): 3
  confidence_below_min(medium<high);total_reads_below_min(3.0<8.0): 2
  confidence_below_min(low<high);total_reads_below_min(3.0<8.0);aih_curated_blacklist: 1
  confidence_below_min(medium<high);total_reads_below_min(2.0<8.0): 1

Breakdown by confidence:
  high: 6 pass, 1 fail (total: 7)
  low: 0 pass, 40 fail (total: 40)
  medium: 0 pass, 59 fail (total: 59)
Arriba filter: 106 rows -> 6 PASS; wrote 659_bqK_T1_TRNA_1_B2372Y3LT4_1.arriba.fusions.filtered.tsv and 659_bqK_T1_TRNA_1_B2372Y3LT4_1.arriba.fusions.filtered_pass_only.tsv
Summary written to: 659_bqK_T1_TRNA_1_B2372Y3LT4_1.arriba.fusions.filter_summary.txt