Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/cc/cd81273f9fc3012135f66541c9024a/positive_somatic_control_2.snv_indel.strelka.indel.vcf.gz
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/cc/cd81273f9fc3012135f66541c9024a/positive_somatic_control_2.snv_indel.strelka.indel.vcf.gz.tbi
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/d9/8cd4addc0df56fe283e229f8dd092b/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/14/34bf72f017eb74066296721452a538/positive_somatic_control_2.snv_indel.tnseq.snv.vcf.gz.tbi
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/d9/8cd4addc0df56fe283e229f8dd092b/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/14/34bf72f017eb74066296721452a538/positive_somatic_control_2.snv_indel.tnseq.snv.vcf.gz
==> STAGING COMPLETE (6 inputs)

Checking the headers and starting positions of 2 files
[W::hts_idx_load3] The index file is older than the data file: positive_somatic_control_2.snv_indel.tnseq.snv.vcf.gz.tbi
ls: positive_somatic_control_2.snv_indel.merged.vcf.gz.csi: No such file or directory