Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/2f/fd994b9254ddfcfd7502cfc76c266b/rna_s1200_S21.arriba.fusions.tsv
Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/72/bf8b4978a97a1702ba506ae70e9cb8/.command.sh
Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/72/bf8b4978a97a1702ba506ae70e9cb8/.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-88a46cd3-cc39-4219-b5c0-c7b98f70c344/7a/48efec235339349110e41d8d682bc6/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: 29
Pass (FILTER=PASS): 6 (20.7%)
Fail (FILTER=FAIL): 23 (79.3%)
AIH curated blacklist (blacklisted flag):
Total blacklisted: 2
All 2 blacklisted rows have FILTER=FAIL
Failure reasons (top 15):
confidence_below_min(medium<high): 3
confidence_below_min(medium<high);total_reads_below_min(2.0<8.0): 3
confidence_below_min(low<high): 3
total_reads_below_min(7.0<8.0): 2
confidence_below_min(medium<high);aih_curated_blacklist: 2
confidence_below_min(low<high);total_reads_below_min(0.0<8.0): 2
confidence_below_min(low<high);total_reads_below_min(2.0<8.0): 2
confidence_below_min(low<high);total_reads_below_min(1.0<8.0): 2
total_reads_below_min(6.0<8.0): 1
confidence_below_min(medium<high);total_reads_below_min(4.0<8.0): 1
confidence_below_min(medium<high);total_reads_below_min(3.0<8.0): 1
confidence_below_min(low<high);total_reads_below_min(6.0<8.0): 1
Breakdown by confidence:
high: 6 pass, 3 fail (total: 9)
low: 0 pass, 10 fail (total: 10)
medium: 0 pass, 10 fail (total: 10)
Arriba filter: 29 rows -> 6 PASS; wrote rna_s1200_S21.arriba.fusions.filtered.tsv and rna_s1200_S21.arriba.fusions.filtered_pass_only.tsv
Summary written to: rna_s1200_S21.arriba.fusions.filter_summary.txt