Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/e6/49e71f92ecd8e98373c28a72e68b97/659_bhK-T1-TRNA-1_B23MHV2LT4_1.Aligned.sortedByCoord.out.bam.bai
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/ce/ead7548c923424c68495c616845975/ref_annot.bed
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/99/7b24db85c12833593e76b221265a0f/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/99/7b24db85c12833593e76b221265a0f/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/35/65e236d8a4b055929d62b19afb2401/659_bhK-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_bhK-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