Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/a7/60e97305b1009e7f5b3994b3470288/HD789_0002_RNA_0008_23H5VFLT4_s19.Aligned.sortedByCoord.out.bam.bai
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/66/438350ea9655e318412c098d495d49/HD789_0002_RNA_0008_23H5VFLT4_s19.Aligned.sortedByCoord.out.bam
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/2f/9055d4b0da3d2fb2a1c6cf662c7616/ref_annot.bed
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/a8/b615ff12d49cf3bdc4e4315ba78aee/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/a8/b615ff12d49cf3bdc4e4315ba78aee/.command.run
==> STAGING COMPLETE (5 inputs)

[W::hts_idx_load3] The index file is older than the data file: HD789_0002_RNA_0008_23H5VFLT4_s19.Aligned.sortedByCoord.out.bam.bai
Reading reference gene model ref_annot.bed ... Done
Loading SAM/BAM file ...  Total 200000 usable reads were sampled