Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/d7/3c8d62dc6d65d71fe07b3391a2e13d/ref_annot.bed
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/d7/c53ba664f42281c009579e1d8a00a5/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/18/e963f580a4992dca43ab693e7c6488/aih-tih-sc-0754d2-R1_A23YTGFLT4_1.Aligned.sortedByCoord.out.bam.bai
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/d7/c53ba664f42281c009579e1d8a00a5/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/72/dae1d6aa7b1426d476226fd533566f/aih-tih-sc-0754d2-R1_A23YTGFLT4_1.Aligned.sortedByCoord.out.bam
==> STAGING COMPLETE (5 inputs)

[W::hts_idx_load3] The index file is older than the data file: aih-tih-sc-0754d2-R1_A23YTGFLT4_1.Aligned.sortedByCoord.out.bam.bai
Reading reference gene model ref_annot.bed ... Done
Loading SAM/BAM file ...  Total 200000 usable reads were sampled