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/25/5339ab064a78cb61af2fa560548542/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/77/e1f3a1712b5090e567b0d600f63e33/tih_rna_sample_00588_B23MVV7LT4_1.Aligned.sortedByCoord.out.bam
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/25/5339ab064a78cb61af2fa560548542/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/1c/2b18b9be298aa465f59ec7788ec288/tih_rna_sample_00588_B23MVV7LT4_1.Aligned.sortedByCoord.out.bam.bai
==> STAGING COMPLETE (5 inputs)

processing ref_annot.bed ... Done
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00588_B23MVV7LT4_1.Aligned.sortedByCoord.out.bam.bai
processing tih_rna_sample_00588_B23MVV7LT4_1.Aligned.sortedByCoord.out.bam ... Finished