Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/56/6d6df246bf6acb8a645d98496b105c/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/d9/5e4f198e5a0425a28bbe0a23803605/V4_0001_RNA_0005_23H5VFLT4_s21.arriba.fusions.tsv
  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/56/6d6df246bf6acb8a645d98496b105c/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/stage-5b456d70-fab3-4fcc-916c-bc437f411fba/48/d36e0303d259ad82d7d96e756f6134/arriba_filter_config.yaml
==> STAGING COMPLETE (5 inputs)

  AIH curated blacklist: matched 7 fusion rows (breakpoint_ID in qualified set)

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

Total fusions: 79
  Pass (FILTER=PASS): 16 (20.3%)
  Fail (FILTER=FAIL): 63 (79.7%)

AIH curated blacklist (blacklisted flag):
  Total blacklisted: 7
  All 7 blacklisted rows have FILTER=FAIL

Failure reasons (top 15):
  confidence_below_min(low<high);total_reads_below_min(2.0<8.0): 10
  confidence_below_min(low<high);total_reads_below_min(3.0<8.0): 10
  confidence_below_min(medium<high): 8
  confidence_below_min(low<high);total_reads_below_min(4.0<8.0): 6
  confidence_below_min(low<high);total_reads_below_min(1.0<8.0): 5
  confidence_below_min(medium<high);aih_curated_blacklist: 4
  confidence_below_min(medium<high);total_reads_below_min(3.0<8.0): 4
  confidence_below_min(low<high): 3
  confidence_below_min(low<high);total_reads_below_min(5.0<8.0): 3
  confidence_below_min(low<high);total_reads_below_min(0.0<8.0): 3
  confidence_below_min(low<high);total_reads_below_min(6.0<8.0): 2
  confidence_below_min(low<high);total_reads_below_min(2.0<8.0);aih_curated_blacklist: 2
  confidence_below_min(low<high);total_reads_below_min(7.0<8.0): 1
  confidence_below_min(medium<high);total_reads_below_min(7.0<8.0): 1
  confidence_below_min(medium<high);total_reads_below_min(7.0<8.0);aih_curated_blacklist: 1

Breakdown by confidence:
  high: 16 pass, 0 fail (total: 16)
  low: 0 pass, 45 fail (total: 45)
  medium: 0 pass, 18 fail (total: 18)
Arriba filter: 79 rows -> 16 PASS; wrote V4_0001_RNA_0005_23H5VFLT4_s21.arriba.fusions.filtered.tsv and V4_0001_RNA_0005_23H5VFLT4_s21.arriba.fusions.filtered_pass_only.tsv
Summary written to: V4_0001_RNA_0005_23H5VFLT4_s21.arriba.fusions.filter_summary.txt