Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/f6/9d130904f6d70eb1f8a2d201078066/659_bua-T1-TRNA-1_B23WHTKLT4_1.Aligned.sortedByCoord.out.bam
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/63/b02a7396bf6caf366aae276126d7b9/ref_annot.bed
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/ea/a6bb47f1fc7c644fe0aa3cd4818c52/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/ea/a6bb47f1fc7c644fe0aa3cd4818c52/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/dc/425fbf5ce7bb2fa3d66c7b64e48711/659_bua-T1-TRNA-1_B23WHTKLT4_1.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_bua-T1-TRNA-1_B23WHTKLT4_1.Aligned.sortedByCoord.out.bam.bai
processing 659_bua-T1-TRNA-1_B23WHTKLT4_1.Aligned.sortedByCoord.out.bam ... Finished