Downloading: s3://natera-platform-sandbox/pipeline-resources/AIH/rna/GRCh38/arriba/known_fusions_hg38_GRCh38_v2.4.0.tsv.gz
  Downloading: s3://natera-platform-sandbox/pipeline-resources/AIH/rna/GRCh38/starfusion/ctat_genome_lib_build_dir/ref_genome.fa
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/59/d3c95c756d714cc5b2cc496518f80d/.command.sh
  Downloading: s3://natera-platform-sandbox/pipeline-resources/AIH/rna/GRCh38/starfusion/ctat_genome_lib_build_dir/ref_annot.gtf
  Downloading: s3://natera-platform-sandbox/pipeline-resources/AIH/rna/GRCh38/arriba/blacklist_hg38_GRCh38_v2.4.0.tsv.gz
  Downloading: s3://natera-platform-sandbox/pipeline-resources/AIH/rna/GRCh38/arriba/protein_domains_hg38_GRCh38_v2.4.0.gff3
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/59/d3c95c756d714cc5b2cc496518f80d/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/cb/cc27e81fbc52ec9b867b07a3cda21c/A673_FFPE_RNA_0001_B23LG7FLT4_2.Aligned.sortedByCoord.out.bam
==> STAGING COMPLETE (8 inputs)

[2026-05-28T22:22:54] Launching Arriba 2.4.0
[2026-05-28T22:22:54] Loading assembly from 'ref_genome.fa' 
[2026-05-28T22:23:11] Loading annotation from 'ref_annot.gtf' 
[2026-05-28T22:23:17] Reading chimeric alignments from 'A673_FFPE_RNA_0001_B23LG7FLT4_2.Aligned.sortedByCoord.out.bam'