Version 0.5.1

Changes

• Fix ingestion of phenopackets which refer to existing objects
• Fix issue where phenopacket phenotypic features would not get ingested correctly
• Add tests
• Copy editing in documentation
• Fix Travis builds

Version 0.5.0

Changes

• add config for readthedocs

Version 0.4.0

Changes

• add Sphinx docs
• move generic pagination class to restapi service
• generate absolute URIs correctly in pagination contexts
• fix some chord app endpoint permissions

Version 0.3.0

Changes and new features

• Optional Elasticsearch index for FHIR data
• Improvements to serializers
• Change in the data model: added field 'version' to dataset
• Make table ownership public in CHORD app

Elasticsearch indexing of FHIR-formatted data

FHIR data can be indexed in Elasticsearch - this is optional. If an Elasticsearch instance is running on the server (so on localhost:9000) these models will automatically be indexed on creation / update. There are also two scripts provided to update these indexes all at once :

python manage.py patients_build_index
python manage.py phenopackets_build_index

To query this information, here is an example request :

curl -X POST -H 'Content-Type: application/json' -d '{"data_type": "phenopacket", "query": {"query": {"match": {"gender": "FEMALE"}}}}' http://127.0.0.1:8000/private/fhir-search

Version 0.2.0

Changes

Common

• Update chord_lib to 0.2.0
• Update misc. dependencies
• Fix auto_now and auto_now_add mix-ups in models

CHORD

• Add CHORD-compatible permissions system
• Add CHORD-compatible error responses in some places
• Make project/dataset records public (read-only)
• Add "linked field sets" concept to datasets to allow pre-joining of tables
• Dataset views now include some fields even if they're blank
• Change /datasets endpoint to be /tables instead
• Add generic context to schema.org
• Add JSONLD renderer for a dataset: adds context to json (?format=json-ld)
• Add RDF Renderer for a dataset: takes jsonld context and serializes it in rdf graph, returns rdf file (?format=rdf).

Patients

• Add revised help text to schemas and models

Phenopackets

• Add revised help text to schemas and models

REST API

• Move all semantic mappings in a separate directory

Version 0.1.0

Initial release