Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/b6/faf713aa7f9b598e8a66046a6c5c9c/1173_CI9_T1_RNA_SLD_01_A23T55JLT4_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/55/ccdaa1a3efcdb7d417724d72f2ffd7/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/55/ccdaa1a3efcdb7d417724d72f2ffd7/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/d0/2060de38ad44935437caedd78a2177/1173_CI9_T1_RNA_SLD_01_A23T55JLT4_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