Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/3c/37272197d685e05b879fd06664db6c/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/3c/37272197d685e05b879fd06664db6c/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/37/9971cca213d149b905ebb49ed18ee0/germline_control_2.haplotyper.split.vcf.gz
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/2f/0949fa639c446e8b9974b38c5c9f56/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