Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/d1/e4f49c816de281bfb2458bf64d0768/tih_rna_sample_00088_23H5VFLT4_s02.Aligned.sortedByCoord.out.bam.bai
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/2f/9055d4b0da3d2fb2a1c6cf662c7616/ref_annot.bed
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/51/e859cf08466d82a6bce1d8ff937213/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/51/e859cf08466d82a6bce1d8ff937213/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/70/444a4a563b71eaad4fb7edb5ef1214/tih_rna_sample_00088_23H5VFLT4_s02.Aligned.sortedByCoord.out.bam
==> STAGING COMPLETE (5 inputs)

processing ref_annot.bed ... Done
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00088_23H5VFLT4_s02.Aligned.sortedByCoord.out.bam.bai
processing tih_rna_sample_00088_23H5VFLT4_s02.Aligned.sortedByCoord.out.bam ... Finished