Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/37/8ddf6c598c2e7c4bb6bc33f0e8216e/negative_somatic_control_1.snv_indel.strelka.indel.vcf.gz
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/9b/cade6ae7d235beca4f3870fff234f2/negative_somatic_control_1.snv_indel.tnseq.snv.vcf.gz
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/a0/fa3e24f77821fe49c7aa077cb0afc8/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/a0/fa3e24f77821fe49c7aa077cb0afc8/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/9b/cade6ae7d235beca4f3870fff234f2/negative_somatic_control_1.snv_indel.tnseq.snv.vcf.gz.tbi
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/37/8ddf6c598c2e7c4bb6bc33f0e8216e/negative_somatic_control_1.snv_indel.strelka.indel.vcf.gz.tbi
==> STAGING COMPLETE (6 inputs)

Checking the headers and starting positions of 2 files
ls: negative_somatic_control_1.snv_indel.merged.vcf.gz.csi: No such file or directory