Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/92/cd03d005faaee14458b0683ada3ea8/positive_somatic_control_2.snv_indel.strelka.indel.vcf.gz
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/92/cd03d005faaee14458b0683ada3ea8/positive_somatic_control_2.snv_indel.strelka.indel.vcf.gz.tbi
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/a0/e343a6aa569819ff6ca218814cc45f/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/19/f968978a65d4a5f305cf602bd198cb/positive_somatic_control_2.snv_indel.tnseq.snv.vcf.gz.tbi
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/a0/e343a6aa569819ff6ca218814cc45f/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/19/f968978a65d4a5f305cf602bd198cb/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