Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/bb/013786bf60e48795a82bf865049234/ref_annot.bed
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/94/87ed15dbc30ff2d6de469f2f1a7917/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/94/87ed15dbc30ff2d6de469f2f1a7917/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/5d/9a2d661969b12628f87c3cc235c1c4/aih-tih-sc-1d89ab-R1_B23WHYVLT4_1.Aligned.sortedByCoord.out.bam.bai
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/78/9c5736f9c8abfd82971a210e994225/aih-tih-sc-1d89ab-R1_B23WHYVLT4_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-1d89ab-R1_B23WHYVLT4_1.Aligned.sortedByCoord.out.bam.bai
Reading reference gene model ref_annot.bed ... Done
Loading SAM/BAM file ...  Total 200000 usable reads were sampled