Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/b3/492f747b4ea709690ac2bd7c279748/positive_somatic_control_2.snv_indel.strelka.indel.vcf.gz
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/b3/492f747b4ea709690ac2bd7c279748/positive_somatic_control_2.snv_indel.strelka.indel.vcf.gz.tbi
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/41/dad5d981709cf398a518d9512e55a1/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/3d/27d2977f3b495f442ab50b4885e701/positive_somatic_control_2.snv_indel.tnseq.snv.vcf.gz.tbi
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/41/dad5d981709cf398a518d9512e55a1/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/3d/27d2977f3b495f442ab50b4885e701/positive_somatic_control_2.snv_indel.tnseq.snv.vcf.gz
==> STAGING COMPLETE (6 inputs)

Checking the headers and starting positions of 2 files
[W::hts_idx_load3] The index file is older than the data file: positive_somatic_control_2.snv_indel.tnseq.snv.vcf.gz.tbi
ls: positive_somatic_control_2.snv_indel.merged.vcf.gz.csi: No such file or directory