Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/55/d4e4ae2485b57df4bde6e972f277c6/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/55/d4e4ae2485b57df4bde6e972f277c6/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/6e/389355c219562be7f5d3558e1271de/germline_control_2.haplotyper.split.vcf.gz
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/41/d729f5ba41933f4f2be89c1ed2d503/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