Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/26/79a16f81fd479d9757807897f8f193/tih_rna_sample_00691_B23MVV7LT4_1.arriba.fusions.tsv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/58/9b51a0c1024d98135635e7d7ac188f/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/58/9b51a0c1024d98135635e7d7ac188f/.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-7324c8a8-f474-426a-a5c9-715912777f94/d8/92d6652b0b8fcc763d0f3fff270437/arriba_filter_config.yaml
==> STAGING COMPLETE (5 inputs)

  AIH curated blacklist: matched 14 fusion rows (breakpoint_ID in qualified set)

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

Total fusions: 202
  Pass (FILTER=PASS): 11 (5.4%)
  Fail (FILTER=FAIL): 191 (94.6%)

AIH curated blacklist (blacklisted flag):
  Total blacklisted: 14
  All 14 blacklisted rows have FILTER=FAIL

Failure reasons (top 15):
  confidence_below_min(medium<high);total_reads_below_min(3.0<8.0): 32
  confidence_below_min(medium<high): 30
  confidence_below_min(low<high): 21
  confidence_below_min(low<high);total_reads_below_min(3.0<8.0): 19
  confidence_below_min(medium<high);total_reads_below_min(4.0<8.0): 16
  confidence_below_min(low<high);total_reads_below_min(0.0<8.0): 12
  confidence_below_min(low<high);total_reads_below_min(1.0<8.0): 11
  confidence_below_min(low<high);total_reads_below_min(2.0<8.0): 8
  confidence_below_min(medium<high);aih_curated_blacklist: 7
  confidence_below_min(low<high);total_reads_below_min(4.0<8.0): 6
  confidence_below_min(low<high);total_reads_below_min(7.0<8.0): 4
  confidence_below_min(low<high);total_reads_below_min(5.0<8.0): 4
  confidence_below_min(medium<high);total_reads_below_min(5.0<8.0): 3
  confidence_below_min(low<high);total_reads_below_min(6.0<8.0): 3
  total_reads_below_min(7.0<8.0): 2

Breakdown by confidence:
  high: 11 pass, 4 fail (total: 15)
  low: 0 pass, 91 fail (total: 91)
  medium: 0 pass, 96 fail (total: 96)
Arriba filter: 202 rows -> 11 PASS; wrote tih_rna_sample_00691_B23MVV7LT4_1.arriba.fusions.filtered.tsv and tih_rna_sample_00691_B23MVV7LT4_1.arriba.fusions.filtered_pass_only.tsv
Summary written to: tih_rna_sample_00691_B23MVV7LT4_1.arriba.fusions.filter_summary.txt