Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/97/d521fcbd470dc59cf6f6a2a2715948/positive_somatic_control_1.snv_indel.strelka.indel.vcf.gz
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/92/9c10a23a0cfc40d1b0bd4e84f8c4ad/positive_somatic_control_1.snv_indel.tnseq.snv.vcf.gz.tbi
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/08/ca871fcfc84b903931138d90127dad/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/97/d521fcbd470dc59cf6f6a2a2715948/positive_somatic_control_1.snv_indel.strelka.indel.vcf.gz.tbi
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/08/ca871fcfc84b903931138d90127dad/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/92/9c10a23a0cfc40d1b0bd4e84f8c4ad/positive_somatic_control_1.snv_indel.tnseq.snv.vcf.gz
==> STAGING COMPLETE (6 inputs)

Checking the headers and starting positions of 2 files
ls: positive_somatic_control_1.snv_indel.merged.vcf.gz.csi: No such file or directory