Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/65/e5d07487d6d922ae93bcaea83c8a26/.command.sh
Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/65/e5d07487d6d922ae93bcaea83c8a26/.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/f7/a5296903ce958ae502907b8e0f50ea/dna_s776.arriba.fusions.tsv
Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/stage-fff52061-f714-4c14-bb2c-bf5549840817/43/06b80417dcdedb0d1513f19552f633/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: 51
Pass (FILTER=PASS): 1 (2.0%)
Fail (FILTER=FAIL): 50 (98.0%)
AIH curated blacklist (blacklisted flag):
Total blacklisted: 2
All 2 blacklisted rows have FILTER=FAIL
Failure reasons (top 15):
confidence_below_min(medium<high): 19
confidence_below_min(low<high): 12
confidence_below_min(low<high);total_reads_below_min(3.0<8.0): 5
confidence_below_min(low<high);total_reads_below_min(5.0<8.0): 3
confidence_below_min(medium<high);total_reads_below_min(6.0<8.0): 2
confidence_below_min(low<high);total_reads_below_min(6.0<8.0): 2
confidence_below_min(low<high);total_reads_below_min(2.0<8.0): 2
confidence_below_min(medium<high);aih_curated_blacklist: 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(4.0<8.0): 1
confidence_below_min(low<high);total_reads_below_min(3.0<8.0);aih_curated_blacklist: 1
Breakdown by confidence:
high: 1 pass, 0 fail (total: 1)
low: 0 pass, 26 fail (total: 26)
medium: 0 pass, 24 fail (total: 24)
Arriba filter: 51 rows -> 1 PASS; wrote dna_s776.arriba.fusions.filtered.tsv and dna_s776.arriba.fusions.filtered_pass_only.tsv
Summary written to: dna_s776.arriba.fusions.filter_summary.txt