Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/0c/6b226d3a0c42ac8db27ee127eeef0c/rna_s1221_S42.Aligned.sortedByCoord.out.bam.bai
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/09/b12062e5546550aded03288703fff3/ref_annot.bed
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/89/e0b506425219fd3c2da0cc67be0bd3/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/89/e0b506425219fd3c2da0cc67be0bd3/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/bb/8c51e677048cb72c10a987d74941dc/rna_s1221_S42.Aligned.sortedByCoord.out.bam
==> STAGING COMPLETE (5 inputs)

[W::hts_idx_load3] The index file is older than the data file: rna_s1221_S42.Aligned.sortedByCoord.out.bam.bai
Reading reference gene model ref_annot.bed ... Done
Loading SAM/BAM file ...  Total 200000 usable reads were sampled