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/08/b085d883799e83af3f2ba6041b39b1/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/23/3890fa91286a6918704a491051759f/659_bGW-T1-TRNA-1_B23MHV2LT4_1.Aligned.sortedByCoord.out.bam.bai
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/08/b085d883799e83af3f2ba6041b39b1/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/35/18b1decae41e9bc03974590c50c365/659_bGW-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_bGW-T1-TRNA-1_B23MHV2LT4_1.Aligned.sortedByCoord.out.bam.bai
processing 659_bGW-T1-TRNA-1_B23MHV2LT4_1.Aligned.sortedByCoord.out.bam ... Finished