GA4GH API v0.6.0a10

Changes to ga4gh/schemas master branch since version 0.6.0a9 (Jan
23, 2016)

Features:

• Remove feature_id from ExpressionLevel and added ability to search by Name field. #818 Impacts

  • POST /expressionlevels/search
  • GET /expressionlevels/{id}

• Added support for BigWig files in a new Continuous Data object #802 Adds the following new endpoints:

  • Continuous Data: POST /continuoussets/search
  • Continuous Data: GET /continuoussets/{id}
  • Continuous Data: POST /continuous/search

• Add deep set/get attr to protocol module #816

• Changed ontology term “id” to “term_id” #805 Impacts the
  message type OntologyTerm

• Replaced info fields with rich type Attributes fields #700 Impacts the following message types:

  • TranscriptEffect
  • VariantAnnotation
  • Individual
  • Biosample
  • Experiment (new)
  • Analysis (new)
  • Dataset
  • ReadGroup
  • ReadGroupSet
  • ReadAlignment
  • Reference
  • ReferenceSet
  • RnaQuantificationSet
  • RnaQuantification
  • ExpressionLevel
  • Feature
  • VariantSetMetadata
  • CallSet
  • Call
  • Variant

• Add ability to list and join peer server networks #760 Adds the following new endpoints:

  • Peer: POST /peers/list
  • Peer: POST /peers/announce
  • Peer: GET /info

* Replace NCBI taxon ID integer with ontology term #699 Impacts the following message types:

• Reference
  - ReferenceSet

Documentation:

• Add instructions for viewing the UML diagram #835
• Expand on schema usage instructions #786
• Expand on release process documentation #753

Infrastructure:

• Automatically deploy tagged releases to PyPi from Travis #825
• Add tests to verify constraints files #817
• Continued effort to separate out common methods