Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/df/9ab903f214c4e0db8bd771ca832ad6/659_dcz-T1-TRNA-1_B23WHTKLT4_1.arriba.fusions.tsv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/ab/dde18e9415e6fe4d70806fdc7e860f/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/ab/dde18e9415e6fe4d70806fdc7e860f/.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-99ebc9bd-f9f1-4b2c-b9a0-02ddaf99f257/ee/adda01b2d23fdd27de06edfd21ea26/arriba_filter_config.yaml
==> STAGING COMPLETE (5 inputs)

  AIH curated blacklist: matched 2 fusion rows (breakpoint_ID in qualified set)

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

Total fusions: 10
  Pass (FILTER=PASS): 1 (10.0%)
  Fail (FILTER=FAIL): 9 (90.0%)

AIH curated blacklist (blacklisted flag):
  Total blacklisted: 2
  All 2 blacklisted rows have FILTER=FAIL

Failure reasons (top 15):
  confidence_below_min(medium<high);total_reads_below_min(2.0<8.0): 3
  confidence_below_min(low<high);total_reads_below_min(1.0<8.0): 2
  confidence_below_min(low<high): 1
  confidence_below_min(low<high);total_reads_below_min(6.0<8.0): 1
  confidence_below_min(low<high);total_reads_below_min(6.0<8.0);aih_curated_blacklist: 1
  confidence_below_min(low<high);total_reads_below_min(1.0<8.0);aih_curated_blacklist: 1

Breakdown by confidence:
  high: 1 pass, 0 fail (total: 1)
  low: 0 pass, 6 fail (total: 6)
  medium: 0 pass, 3 fail (total: 3)
Arriba filter: 10 rows -> 1 PASS; wrote 659_dcz-T1-TRNA-1_B23WHTKLT4_1.arriba.fusions.filtered.tsv and 659_dcz-T1-TRNA-1_B23WHTKLT4_1.arriba.fusions.filtered_pass_only.tsv
Summary written to: 659_dcz-T1-TRNA-1_B23WHTKLT4_1.arriba.fusions.filter_summary.txt