Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/bb/a78f04dc82a637f8487acede66e5d4/FFPE_V4_0002_RNA_0001_B23WHTKLT4_1.Aligned.sortedByCoord.out.bam.bai
  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/00/a63ffd0a8f377085f057101f5e4635/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/00/a63ffd0a8f377085f057101f5e4635/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/31/df7c186edfd8721a4f2e8e8fb9cf1c/FFPE_V4_0002_RNA_0001_B23WHTKLT4_1.Aligned.sortedByCoord.out.bam
==> STAGING COMPLETE (5 inputs)

ls: *.sam: No such file or directory
ls: *.csi: No such file or directory
ls: *.crai: No such file or directory