Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/56/951fb1248a8396979dfa555b3741b8/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/56/951fb1248a8396979dfa555b3741b8/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/37/0834e6e6f91ba5f29c51dc1e3a2535/tih_rna_sample_00117_23H5VFLT4_s37.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-5b456d70-fab3-4fcc-916c-bc437f411fba/48/d36e0303d259ad82d7d96e756f6134/arriba_filter_config.yaml
==> STAGING COMPLETE (5 inputs)

  AIH curated blacklist: matched 3 fusion rows (breakpoint_ID in qualified set)

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

Total fusions: 92
  Pass (FILTER=PASS): 15 (16.3%)
  Fail (FILTER=FAIL): 77 (83.7%)

AIH curated blacklist (blacklisted flag):
  Total blacklisted: 3
  All 3 blacklisted rows have FILTER=FAIL

Failure reasons (top 15):
  confidence_below_min(medium<high): 35
  confidence_below_min(medium<high);total_reads_below_min(5.0<8.0): 10
  confidence_below_min(medium<high);total_reads_below_min(4.0<8.0): 6
  confidence_below_min(medium<high);total_reads_below_min(3.0<8.0): 6
  confidence_below_min(low<high);total_reads_below_min(1.0<8.0): 3
  confidence_below_min(low<high);total_reads_below_min(2.0<8.0): 3
  confidence_below_min(low<high);total_reads_below_min(4.0<8.0): 3
  total_reads_below_min(5.0<8.0): 2
  confidence_below_min(low<high);total_reads_below_min(3.0<8.0): 2
  total_reads_below_min(4.0<8.0): 1
  total_reads_below_min(3.0<8.0): 1
  confidence_below_min(medium<high);aih_curated_blacklist: 1
  confidence_below_min(medium<high);total_reads_below_min(4.0<8.0);aih_curated_blacklist: 1
  confidence_below_min(low<high): 1
  confidence_below_min(low<high);total_reads_below_min(7.0<8.0): 1

Breakdown by confidence:
  high: 15 pass, 4 fail (total: 19)
  low: 0 pass, 14 fail (total: 14)
  medium: 0 pass, 59 fail (total: 59)
Arriba filter: 92 rows -> 15 PASS; wrote tih_rna_sample_00117_23H5VFLT4_s37.arriba.fusions.filtered.tsv and tih_rna_sample_00117_23H5VFLT4_s37.arriba.fusions.filtered_pass_only.tsv
Summary written to: tih_rna_sample_00117_23H5VFLT4_s37.arriba.fusions.filter_summary.txt