Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/6f/df6850a0a3b78e68e81f04c731b7d1/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/6f/df6850a0a3b78e68e81f04c731b7d1/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/07/4b4cb6f4dae6675fef86eaa7b5eb7b/tih_rna_sample_00725_B23MVV7LT4_1.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/stage-7324c8a8-f474-426a-a5c9-715912777f94/d8/92d6652b0b8fcc763d0f3fff270437/arriba_filter_config.yaml
==> STAGING COMPLETE (5 inputs)

  AIH curated blacklist: matched 11 fusion rows (breakpoint_ID in qualified set)

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

Total fusions: 220
  Pass (FILTER=PASS): 13 (5.9%)
  Fail (FILTER=FAIL): 207 (94.1%)

AIH curated blacklist (blacklisted flag):
  Total blacklisted: 11
  All 11 blacklisted rows have FILTER=FAIL

Failure reasons (top 15):
  confidence_below_min(medium<high): 82
  confidence_below_min(low<high);total_reads_below_min(2.0<8.0): 26
  confidence_below_min(medium<high);total_reads_below_min(3.0<8.0): 19
  confidence_below_min(low<high);total_reads_below_min(1.0<8.0): 14
  confidence_below_min(low<high);total_reads_below_min(3.0<8.0): 11
  confidence_below_min(medium<high);total_reads_below_min(4.0<8.0): 9
  confidence_below_min(low<high);total_reads_below_min(4.0<8.0): 8
  confidence_below_min(low<high): 7
  confidence_below_min(low<high);total_reads_below_min(5.0<8.0): 5
  confidence_below_min(medium<high);aih_curated_blacklist: 5
  confidence_below_min(low<high);total_reads_below_min(0.0<8.0): 5
  confidence_below_min(medium<high);total_reads_below_min(5.0<8.0): 4
  confidence_below_min(medium<high);total_reads_below_min(2.0<8.0): 3
  confidence_below_min(medium<high);total_reads_below_min(3.0<8.0);aih_curated_blacklist: 2
  aih_curated_blacklist: 1

Breakdown by confidence:
  high: 13 pass, 2 fail (total: 15)
  low: 0 pass, 80 fail (total: 80)
  medium: 0 pass, 125 fail (total: 125)
Arriba filter: 220 rows -> 13 PASS; wrote tih_rna_sample_00725_B23MVV7LT4_1.arriba.fusions.filtered.tsv and tih_rna_sample_00725_B23MVV7LT4_1.arriba.fusions.filtered_pass_only.tsv
Summary written to: tih_rna_sample_00725_B23MVV7LT4_1.arriba.fusions.filter_summary.txt