Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/5a/e01a01583f632c2967ea08fdf64d05/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/5a/e01a01583f632c2967ea08fdf64d05/.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/71/6e035bc47e3e5d66f06faed67d896d/tih_rna_sample_00635_B23MVV7LT4_1.arriba.fusions.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 10 fusion rows (breakpoint_ID in qualified set)

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

Total fusions: 198
  Pass (FILTER=PASS): 15 (7.6%)
  Fail (FILTER=FAIL): 183 (92.4%)

AIH curated blacklist (blacklisted flag):
  Total blacklisted: 10
  All 10 blacklisted rows have FILTER=FAIL

Failure reasons (top 15):
  confidence_below_min(medium<high): 33
  confidence_below_min(low<high);total_reads_below_min(1.0<8.0): 28
  confidence_below_min(low<high): 20
  confidence_below_min(medium<high);total_reads_below_min(3.0<8.0): 16
  confidence_below_min(medium<high);total_reads_below_min(4.0<8.0): 13
  confidence_below_min(low<high);total_reads_below_min(3.0<8.0): 12
  confidence_below_min(low<high);total_reads_below_min(0.0<8.0): 12
  confidence_below_min(low<high);total_reads_below_min(2.0<8.0): 11
  confidence_below_min(low<high);total_reads_below_min(4.0<8.0): 9
  confidence_below_min(low<high);total_reads_below_min(5.0<8.0): 7
  confidence_below_min(low<high);total_reads_below_min(6.0<8.0): 6
  aih_curated_blacklist: 2
  confidence_below_min(medium<high);aih_curated_blacklist: 2
  confidence_below_min(low<high);total_reads_below_min(2.0<8.0);aih_curated_blacklist: 1
  confidence_below_min(low<high);total_reads_below_min(0.0<8.0);aih_curated_blacklist: 1

Breakdown by confidence:
  high: 15 pass, 5 fail (total: 20)
  low: 0 pass, 110 fail (total: 110)
  medium: 0 pass, 68 fail (total: 68)
Arriba filter: 198 rows -> 15 PASS; wrote tih_rna_sample_00635_B23MVV7LT4_1.arriba.fusions.filtered.tsv and tih_rna_sample_00635_B23MVV7LT4_1.arriba.fusions.filtered_pass_only.tsv
Summary written to: tih_rna_sample_00635_B23MVV7LT4_1.arriba.fusions.filter_summary.txt