Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/75/9c65993edb9600a6a7c3dcc543c185/rna_s1221_S42.Aligned.sortedByCoord.out.bam.bai
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/01/3e7f4e4c4cdf3a8f95754e903eccb4/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/48/1933067be7a984fba87bcade064591/ref_annot.bed
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/01/3e7f4e4c4cdf3a8f95754e903eccb4/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/53/dee80bb1b28d6b5f14532311216acf/rna_s1221_S42.Aligned.sortedByCoord.out.bam
==> STAGING COMPLETE (5 inputs)

[W::hts_idx_load3] The index file is older than the data file: rna_s1221_S42.Aligned.sortedByCoord.out.bam.bai
Reading reference gene model ref_annot.bed ... Done
Loading SAM/BAM file ...  Total 200000 usable reads were sampled