Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/f8/e88fd7fc7045f143707b3a331bf8bc/ref_annot.bed
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/2f/69444d6eed095e62e419cc8e96cc09/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/2f/69444d6eed095e62e419cc8e96cc09/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/e3/4180c47a93835431d059aed33cc9dc/tih_rna_sample_00596_B23MVV7LT4_1.Aligned.sortedByCoord.out.bam
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/08/d352a80c2b869749f08decd2043de4/tih_rna_sample_00596_B23MVV7LT4_1.Aligned.sortedByCoord.out.bam.bai
==> STAGING COMPLETE (5 inputs)

[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00596_B23MVV7LT4_1.Aligned.sortedByCoord.out.bam.bai
Reading reference gene model ref_annot.bed ... Done
Loading SAM/BAM file ...  Total 200000 usable reads were sampled