Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/5b/4ac7fe8d3e6560c211d575dbb93030/BVT_FFPE_TRNA_bst_01_02_A23WKFTLT4_1.Aligned.sortedByCoord.out.bam.bai
  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/c8/5f2a536257d4d127f80d8dd8ec8cd5/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/c8/5f2a536257d4d127f80d8dd8ec8cd5/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/c9/2bc0305f06cfe60552ae53a0652610/BVT_FFPE_TRNA_bst_01_02_A23WKFTLT4_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: BVT_FFPE_TRNA_bst_01_02_A23WKFTLT4_1.Aligned.sortedByCoord.out.bam.bai
processing BVT_FFPE_TRNA_bst_01_02_A23WKFTLT4_1.Aligned.sortedByCoord.out.bam ... Finished