Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/0e/ce342ec72a56a63b3c624087e67a95/659_bGc-T1-TRNA-1_B23MHV2LT4_1.Aligned.sortedByCoord.out.bam.bai
  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/7e/3da2595712dc6b6de450d3e6e0eceb/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/7e/3da2595712dc6b6de450d3e6e0eceb/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/23/9742a23f2a3c7761b1ce7d9ad23ac5/659_bGc-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_bGc-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