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/d3/2a3057e73d889e009773597aaf7828/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/d3/2a3057e73d889e009773597aaf7828/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/63/e955bb1eb3f36201ab882905d78ea6/659_b4x-T1-TRNA-1_B23MHV2LT4_1.Aligned.sortedByCoord.out.bam.bai
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/cb/38f613398bb98d0c78bf28614199fa/659_b4x-T1-TRNA-1_B23MHV2LT4_1.Aligned.sortedByCoord.out.bam
==> STAGING COMPLETE (5 inputs)

[W::hts_idx_load3] The index file is older than the data file: 659_b4x-T1-TRNA-1_B23MHV2LT4_1.Aligned.sortedByCoord.out.bam.bai
Reading reference gene model ref_annot.bed ... Done
Loading SAM/BAM file ...  Total 200000 usable reads were sampled