Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/d7/b872e28220afc691e2436943e53b1e/1173_D6K_T1_RNA_SLD_01_A23T55JLT4_2.Aligned.sortedByCoord.out.bam
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/0b/ca4d20e41802bc8c33ea65523f74cb/ref_annot.bed
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/96/ed4970b3ba7c266e5b9d5e6760728b/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/96/ed4970b3ba7c266e5b9d5e6760728b/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/7e/71c96b76b94fbcb9edbd382e6acfa8/1173_D6K_T1_RNA_SLD_01_A23T55JLT4_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: 1173_D6K_T1_RNA_SLD_01_A23T55JLT4_2.Aligned.sortedByCoord.out.bam.bai
processing 1173_D6K_T1_RNA_SLD_01_A23T55JLT4_2.Aligned.sortedByCoord.out.bam ... Finished