Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/88/fc810f5bbfca4e02a4b7b8699516b2/BT-20_FFPE_RNA_0001_B23LG7FLT4_2.arriba.fusions.tsv
Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/68/878fc2e259fd463f134683e8537b13/.command.sh
Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/68/878fc2e259fd463f134683e8537b13/.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-f79a17a0-988d-46c3-a0fc-cc7f26b06d9c/2f/783d5e3fc4bb0e4fc378bb3e8b5e61/arriba_filter_config.yaml
==> STAGING COMPLETE (5 inputs)
AIH curated blacklist: matched 4 fusion rows (breakpoint_ID in qualified set)
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ARRIBA FILTERING SUMMARY
================================================================================
Total fusions: 40
Pass (FILTER=PASS): 0 (0.0%)
Fail (FILTER=FAIL): 40 (100.0%)
AIH curated blacklist (blacklisted flag):
Total blacklisted: 4
All 4 blacklisted rows have FILTER=FAIL
Failure reasons (top 15):
confidence_below_min(medium<high);total_reads_below_min(6.0<8.0): 10
confidence_below_min(medium<high);total_reads_below_min(5.0<8.0): 10
confidence_below_min(low<high);total_reads_below_min(1.0<8.0): 5
confidence_below_min(medium<high): 3
confidence_below_min(medium<high);aih_curated_blacklist: 3
confidence_below_min(low<high): 3
confidence_below_min(low<high);total_reads_below_min(2.0<8.0): 2
confidence_below_min(low<high);total_reads_below_min(3.0<8.0): 2
confidence_below_min(medium<high);total_reads_below_min(7.0<8.0): 1
confidence_below_min(medium<high);total_reads_below_min(3.0<8.0);aih_curated_blacklist: 1
Breakdown by confidence:
low: 0 pass, 12 fail (total: 12)
medium: 0 pass, 28 fail (total: 28)
Arriba filter: 40 rows -> 0 PASS; wrote BT-20_FFPE_RNA_0001_B23LG7FLT4_2.arriba.fusions.filtered.tsv and BT-20_FFPE_RNA_0001_B23LG7FLT4_2.arriba.fusions.filtered_pass_only.tsv
Summary written to: BT-20_FFPE_RNA_0001_B23LG7FLT4_2.arriba.fusions.filter_summary.txt