Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/a7/1a8098ad494c049c6fd20d5d8e685c/659_buD-T1-TRNA-1_A23MVY2LT4_1.Aligned.sortedByCoord.out.bam
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/c4/86e1bdcdf01521874ec94d9d0592f7/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/c4/86e1bdcdf01521874ec94d9d0592f7/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/ab/8df73a6e798a091d16b00bc0149c15/659_buD-T1-TRNA-1_A23MVY2LT4_1.Aligned.sortedByCoord.out.bam.bai
==> STAGING COMPLETE (4 inputs)

[W::hts_idx_load3] The index file is older than the data file: 659_buD-T1-TRNA-1_A23MVY2LT4_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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