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/8c/1eacbd5835dadbbce3dd8d0f8eff44/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/8c/1eacbd5835dadbbce3dd8d0f8eff44/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/4a/708828745aa92ea96e9a7231bb51c7/tih_rna_sample_00105_23H5VFLT4_s21.Aligned.sortedByCoord.out.bam
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/97/f63ee4c7bdb5db7845b878969ce73b/tih_rna_sample_00105_23H5VFLT4_s21.Aligned.sortedByCoord.out.bam.bai
==> 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_00105_23H5VFLT4_s21.Aligned.sortedByCoord.out.bam.bai
processing tih_rna_sample_00105_23H5VFLT4_s21.Aligned.sortedByCoord.out.bam ... Finished