Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/da/26cb6b9772ecbb9593b45264974508/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/dd/5521ca6b872b05fd63759279275472/659_dcz-T1-TRNA-1_A23MVY2LT4_2.arriba.fusions.tsv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/da/26cb6b9772ecbb9593b45264974508/.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-bba2394f-ea06-4038-829e-f0bb41c45b0f/84/e510984b93930338ae941c5c84bcbe/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: 32
  Pass (FILTER=PASS): 1 (3.1%)
  Fail (FILTER=FAIL): 31 (96.9%)

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

Failure reasons (top 15):
  confidence_below_min(low<high);total_reads_below_min(3.0<8.0): 8
  confidence_below_min(medium<high);total_reads_below_min(2.0<8.0): 5
  confidence_below_min(low<high);total_reads_below_min(1.0<8.0): 4
  confidence_below_min(medium<high);total_reads_below_min(3.0<8.0): 3
  confidence_below_min(low<high);total_reads_below_min(4.0<8.0): 3
  confidence_below_min(medium<high);aih_curated_blacklist: 2
  total_reads_below_min(5.0<8.0): 1
  total_reads_below_min(2.0<8.0): 1
  confidence_below_min(low<high);total_reads_below_min(6.0<8.0);aih_curated_blacklist: 1
  confidence_below_min(low<high): 1
  confidence_below_min(low<high);aih_curated_blacklist: 1
  confidence_below_min(low<high);total_reads_below_min(2.0<8.0): 1

Breakdown by confidence:
  high: 1 pass, 2 fail (total: 3)
  low: 0 pass, 19 fail (total: 19)
  medium: 0 pass, 10 fail (total: 10)
Arriba filter: 32 rows -> 1 PASS; wrote 659_dcz-T1-TRNA-1_A23MVY2LT4_2.arriba.fusions.filtered.tsv and 659_dcz-T1-TRNA-1_A23MVY2LT4_2.arriba.fusions.filtered_pass_only.tsv
Summary written to: 659_dcz-T1-TRNA-1_A23MVY2LT4_2.arriba.fusions.filter_summary.txt