Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/d2/5192b274759daef5bd3c242f03d06b/1173_RQT_T1_RNA_SLD_01_A23T55JLT4_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/ce/44fc74184dfba077894d5a20394681/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/ce/44fc74184dfba077894d5a20394681/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/c3/bebc9ee0675cf5feebde343c983843/1173_RQT_T1_RNA_SLD_01_A23T55JLT4_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