Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/f3/d7d3b0ceaaa0ebc8541676a9f0e661/.command.sh
Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/f3/d7d3b0ceaaa0ebc8541676a9f0e661/.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/55/6bd7169236b1e3216848e3edd7304a/BVT_FFPE_TRNA_bld_01_A23WKFTLT4_2.arriba.fusions.tsv
Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/stage-13dfb8f7-c999-4ef0-9260-22ba79cf647d/75/c52a23060671398a8253a658f32ecc/arriba_filter_config.yaml
==> STAGING COMPLETE (5 inputs)
AIH curated blacklist: matched 1 fusion rows (breakpoint_ID in qualified set)
================================================================================
ARRIBA FILTERING SUMMARY
================================================================================
Total fusions: 22
Pass (FILTER=PASS): 6 (27.3%)
Fail (FILTER=FAIL): 16 (72.7%)
AIH curated blacklist (blacklisted flag):
Total blacklisted: 1
All 1 blacklisted rows have FILTER=FAIL
Failure reasons (top 15):
confidence_below_min(low<high);total_reads_below_min(2.0<8.0): 4
confidence_below_min(medium<high);total_reads_below_min(3.0<8.0): 2
confidence_below_min(low<high);total_reads_below_min(4.0<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);total_reads_below_min(2.0<8.0): 1
total_reads_below_min(2.0<8.0): 1
confidence_below_min(medium<high): 1
confidence_below_min(medium<high);total_reads_below_min(5.0<8.0): 1
confidence_below_min(low<high);aih_curated_blacklist: 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, 8 fail (total: 8)
medium: 0 pass, 5 fail (total: 5)
Arriba filter: 22 rows -> 6 PASS; wrote BVT_FFPE_TRNA_bld_01_A23WKFTLT4_2.arriba.fusions.filtered.tsv and BVT_FFPE_TRNA_bld_01_A23WKFTLT4_2.arriba.fusions.filtered_pass_only.tsv
Summary written to: BVT_FFPE_TRNA_bld_01_A23WKFTLT4_2.arriba.fusions.filter_summary.txt