Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/65/5dea538e23215d58183532205f88cc/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/b6/0b6f2f215da5554ebf3c8d98067f56/tih_rna_sample_00637_B23MVV7LT4_1.arriba.fusions.tsv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/65/5dea538e23215d58183532205f88cc/.command.sh
  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: 301
  Pass (FILTER=PASS): 24 (8.0%)
  Fail (FILTER=FAIL): 277 (92.0%)

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

Failure reasons (top 15):
  confidence_below_min(low<high);total_reads_below_min(1.0<8.0): 67
  confidence_below_min(low<high): 33
  confidence_below_min(low<high);total_reads_below_min(0.0<8.0): 21
  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): 17
  confidence_below_min(low<high);total_reads_below_min(2.0<8.0): 16
  confidence_below_min(medium<high): 15
  confidence_below_min(medium<high);total_reads_below_min(4.0<8.0): 15
  confidence_below_min(medium<high);total_reads_below_min(7.0<8.0): 14
  confidence_below_min(low<high);total_reads_below_min(4.0<8.0): 11
  confidence_below_min(medium<high);total_reads_below_min(5.0<8.0): 9
  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): 6
  confidence_below_min(low<high);total_reads_below_min(7.0<8.0): 5
  confidence_below_min(medium<high);aih_curated_blacklist: 5

Breakdown by confidence:
  high: 24 pass, 2 fail (total: 26)
  low: 0 pass, 187 fail (total: 187)
  medium: 0 pass, 88 fail (total: 88)
Arriba filter: 301 rows -> 24 PASS; wrote tih_rna_sample_00637_B23MVV7LT4_1.arriba.fusions.filtered.tsv and tih_rna_sample_00637_B23MVV7LT4_1.arriba.fusions.filtered_pass_only.tsv
Summary written to: tih_rna_sample_00637_B23MVV7LT4_1.arriba.fusions.filter_summary.txt