Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/3e/28ba1ca772b38e1df04ce676b5c7e0/aih-tih-sc-184b05-R1_A23YTGFLT4_1.Aligned.sortedByCoord.out.bam
  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/a2/14c6878a062bc5a79b51cbd0dd6980/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/a2/14c6878a062bc5a79b51cbd0dd6980/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/ec/3f1163f2f46b1ebd2aaadc106e1e08/aih-tih-sc-184b05-R1_A23YTGFLT4_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-184b05-R1_A23YTGFLT4_1.Aligned.sortedByCoord.out.bam.bai
Get exon regions from ref_annot.bed ...
Load BAM file ...  Total read pairs  used 1000000