Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/f9/9b7e7b2ef1237e3e9faba4ba632e7a/A549_FFPE_01_RNA_0001_B23LG7FLT4_1.Aligned.sortedByCoord.out.bam
  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/70/479baf2f5582cfbe42307b3760159f/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/70/479baf2f5582cfbe42307b3760159f/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/2d/1b6839c2f11fb05d655d02c6eec5b1/A549_FFPE_01_RNA_0001_B23LG7FLT4_1.Aligned.sortedByCoord.out.bam.bai
==> 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