Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/aa/18fe20dd395ab631b4f57a91fcdb12/659_buD-T1-TRNA-1_A23MVY2LT4_2.Aligned.sortedByCoord.out.bam
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/1a/f73a0e22861201cc7c5cccf07ed1b4/ref_annot.bed
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/e4/c8c1ac7765ba8f1235b7c3e76a6f5b/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/e4/c8c1ac7765ba8f1235b7c3e76a6f5b/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/1f/366e253fa972ac1ca727bbadf75240/659_buD-T1-TRNA-1_A23MVY2LT4_2.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: 659_buD-T1-TRNA-1_A23MVY2LT4_2.Aligned.sortedByCoord.out.bam.bai
processing 659_buD-T1-TRNA-1_A23MVY2LT4_2.Aligned.sortedByCoord.out.bam ... Finished