Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/ee/31a73947534461f033418d53279770/positive_somatic_control_2.snv_indel.strelka.indel.vcf.gz
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/ee/31a73947534461f033418d53279770/positive_somatic_control_2.snv_indel.strelka.indel.vcf.gz.tbi
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/c3/acbfba4a0c59c61af878c37b8c8f04/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/7f/de414d46d29fda71c649185f8893d3/positive_somatic_control_2.snv_indel.tnseq.snv.vcf.gz.tbi
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/c3/acbfba4a0c59c61af878c37b8c8f04/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/7f/de414d46d29fda71c649185f8893d3/positive_somatic_control_2.snv_indel.tnseq.snv.vcf.gz
==> STAGING COMPLETE (6 inputs)

Checking the headers and starting positions of 2 files
ls: positive_somatic_control_2.snv_indel.merged.vcf.gz.csi: No such file or directory