Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/12/be8a4d08b3debc53836dda7bdcb162/1173_C31_T1_RNA_SLD_01_A23T55JLT4_2.Aligned.sortedByCoord.out.bam
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/0b/ca4d20e41802bc8c33ea65523f74cb/ref_annot.bed
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/aa/57708482ebab4d2977be9d9af43743/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/aa/57708482ebab4d2977be9d9af43743/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/9b/bc7735c0e93a9e42134806843dccb3/1173_C31_T1_RNA_SLD_01_A23T55JLT4_2.Aligned.sortedByCoord.out.bam.bai
==> STAGING COMPLETE (5 inputs)

[W::hts_idx_load3] The index file is older than the data file: 1173_C31_T1_RNA_SLD_01_A23T55JLT4_2.Aligned.sortedByCoord.out.bam.bai
Reading reference gene model ref_annot.bed ... Done
Loading SAM/BAM file ...  Total 200000 usable reads were sampled