Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/f7/5b43ab4aca0a298258ff1651ad69b1/positive_somatic_control_1.snv_indel.strelka.indel.vcf.gz
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/35/e737269c1ab940d75245c7478238b8/positive_somatic_control_1.snv_indel.tnseq.snv.vcf.gz.tbi
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/f7/5b43ab4aca0a298258ff1651ad69b1/positive_somatic_control_1.snv_indel.strelka.indel.vcf.gz.tbi
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/71/b39a5f47abd0fee8fc82d74915e105/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/71/b39a5f47abd0fee8fc82d74915e105/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/35/e737269c1ab940d75245c7478238b8/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