Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/8b/18170299ca86b3649b731b11b6cc48/BVT_FFPE_TRNA_bst_01_01_A23WKFTLT4_1.Aligned.sortedByCoord.out.bam
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/17/0a96b55d84d45d8460e84d472820bc/ref_annot.bed
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/64/9dbe8ba63e08cec2479a47c046aa67/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/24/e75d22a03d4a5a0f05e872d50efae3/BVT_FFPE_TRNA_bst_01_01_A23WKFTLT4_1.Aligned.sortedByCoord.out.bam.bai
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/64/9dbe8ba63e08cec2479a47c046aa67/.command.run
==> STAGING COMPLETE (5 inputs)

processing ref_annot.bed ... Done
[W::hts_idx_load3] The index file is older than the data file: BVT_FFPE_TRNA_bst_01_01_A23WKFTLT4_1.Aligned.sortedByCoord.out.bam.bai
processing BVT_FFPE_TRNA_bst_01_01_A23WKFTLT4_1.Aligned.sortedByCoord.out.bam ... Finished