v0.0.4 (in development)

User Facing

  • Add option to pull references from datahub

Background

  • Remove (comment out) option to pull references from S3
  • Make pull references from BioHPC default (including in biohpc.config)
  • Start using new gudmaprbk dockerhub (images autobuilt)

Known Bugs

  • Datahub reference pull uses dev.gudmap.org as source until referencencs are placed on production
  • outputBag does not contain fetch for processed data
  • Does not include automatic data upload
  • Override params (inputBag, fastq, species) aren't checked for integrity