Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/fc/e0af2b86041125579f77055340677f/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/fc/e0af2b86041125579f77055340677f/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/4e/390ac73ff372b56a0b4b9902b9d2bd/germline_control_2.haplotyper.split.vcf.gz
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/2f/b0972150a61a2bd20f74897de5f342/germline_control_2.mpileup.gz
==> STAGING COMPLETE (4 inputs)

Parsing mpileup: germline_control_2.mpileup.gz
Found 26 positions with indel observations
Annotating VCF: germline_control_2.haplotyper.split.vcf.gz
[E::idx_find_and_load] Could not retrieve index file for 'germline_control_2.haplotyper.split.vcf.gz'
Output written to: germline_control_2.entropy.vcf