Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/a4/0352010e5727c976f7d16ce88a08da/ref_annot.bed
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/e8/7912f363f4b0bbd1bb85b61f935803/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/e8/7912f363f4b0bbd1bb85b61f935803/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/60/a0dd166dc22baa7aebfe2baeec7e84/aih-tih-sc-2798bb-R1_A23WJ53LT4_1.Aligned.sortedByCoord.out.bam
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/79/4667bbc94c0e0c7ae9bb64638010cc/aih-tih-sc-2798bb-R1_A23WJ53LT4_1.Aligned.sortedByCoord.out.bam.bai
==> STAGING COMPLETE (5 inputs)

[W::hts_idx_load3] The index file is older than the data file: aih-tih-sc-2798bb-R1_A23WJ53LT4_1.Aligned.sortedByCoord.out.bam.bai
Reading reference gene model ref_annot.bed ... Done
Loading SAM/BAM file ...  Total 200000 usable reads were sampled