Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/06/ff83ea30d2a8cc1a235dc7c8126eb3/659_b7Z-T1-TRNA-1_B23MHV2LT4_1.Aligned.sortedByCoord.out.bam.bai
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/1a/617a60a16b8f03c5a59614b43dab3f/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/1a/617a60a16b8f03c5a59614b43dab3f/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/b0/b8f8c87dd09599a9c5c0311e2153b1/659_b7Z-T1-TRNA-1_B23MHV2LT4_1.Aligned.sortedByCoord.out.bam
==> STAGING COMPLETE (4 inputs)

[W::hts_idx_load3] The index file is older than the data file: 659_b7Z-T1-TRNA-1_B23MHV2LT4_1.Aligned.sortedByCoord.out.bam.bai
Load BAM file ...  Done
report duplicte rate based on sequence ...
report duplicte rate based on mapping  ...
generate R script ...
null device 
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