Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/d8/556d03f09ec67e524440264907f29c/659_b7Z-T1-TRNA-1_B23MHV2LT4_1.Aligned.sortedByCoord.out.bam.bai
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/8b/a277d2bbe9b94879ed608d0038a532/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/4a/0243baf59143a09530ee8911e13e43/ref_annot.bed
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/8b/a277d2bbe9b94879ed608d0038a532/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/40/2a5c73bbe05382f282f89a9d3e3f62/659_b7Z-T1-TRNA-1_B23MHV2LT4_1.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: 659_b7Z-T1-TRNA-1_B23MHV2LT4_1.Aligned.sortedByCoord.out.bam.bai
processing 659_b7Z-T1-TRNA-1_B23MHV2LT4_1.Aligned.sortedByCoord.out.bam ... Finished