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Release 4.1.0 - Public API supporting the SNOMED browser
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@kaicode kaicode released this 08 Aug 19:53
· 1832 commits to master since this release
4.1.0
ffd4847

This major version includes the API for the SNOMED International public SNOMEDCT browser!
The browser descriptions endpoint is now faster and includes the full set of aggregations and filters to support the browser search.

Another new feature is enhanced character matching for non-english languages.
Diacritic characters which are considered as additional letters in the alphabet of a language can be added to configuration to have them indexed correctly for search.
For example the Swedish language uses the characters 'å', 'ä' and 'ö' as additional letters in their alphabet, these letters are not just accented versions of 'a' and 'o'.
Thank you to Daniel Karlsson for educating us about this and providing an initial proof of concept.

Thank you to everyone who asked questions and provided feedback during another great release.

Note: The old public browser API project "sct-snapshot-rest-api" has now been archived in favour of the Snowstorm terminology server.

Breaking

  • Description index mapping has been updated with better support for non-english languages.
    Please migrate existing data to the new mapping using the reindexing guide then run
    the new admin "Rebuild the description index" function found in the swagger API docs.

Features

  • Search: Enhanced character matching for non-english languages (configured under "Search International Character Handling" in application.properties).
  • Full set of aggregations and filters for browser description API endpoint.
  • New concept references endpoint.
  • New aggregated browser reference set members endpoint for refset summary view.
  • FHIR:
    • Valueset maintenance / CRUD operations.
    • Language support - search appropriate language refset.

Improvements

  • Scalability:
    • Branch merge operation data now persisted in Elasticsearch. No other non-persistent operational data found. Ready for testing as multi-instance authoring server.
  • Browser description search:
    • Faster aggregations.
    • New search parameters: active, semanticTag, module, conceptRefset.
    • New options: group by concept.
    • New search mode for regular expressions.
  • Browser:
    • Browser Concept JSON format made consistent with Snow Owl (minor changes made on both sides).
  • Code system listing enhanced with languages, modules and latest release.
  • OWL:
    • Use latest International stemming axioms to link Object Properties and Data Properties to the main Class hierarchy.
  • Configuration:
    • Added extension module mapping for Estonia, Ireland, India and Norway extensions.
  • FHIR:
    • Add Postman link to FHIR docs.
    • Upgrade to HAPI 3.8.0.
    • Add filter support for extensionally defined valuesets - on expansion.
  • Authoring:
    • Add attribute grouped/ungrouped validation.
    • Semantic index processing of new object attribute axioms.
    • Automatically add description non-current indicators when inactive concept saved.
    • Automatically inactivate lang refset members when inactive description saved.
    • Validation: GCI must contain at least one parent and one attribute.
  • Classification:
    • Equivalent concepts response format compatible with Snow Owl.
    • Add inferred not previously stated flag to relationship changes in classification report.
  • Version Control:
    • Rebase no longer changes the base timepoint of the original branch version.
    • Allow loading concepts from branch base timepoint using GET /browser/{branch}@^/concept/{conceptId}.
    • Log commit duration.
  • RF2 Import:
    • Change skipped components warning message to info.
  • Code Build:
    • Allow Elasticsearch unit tests to run when disk low.
    • Replace Cobertura maven plugin with Jacoco.
    • Fix all lgtm.com automated code review suggestions.
  • Deployment:
    • Debian package uses urandom for SecureRandom session IDs.

Fixes

  • Fix issue #16 Return complete list of code system versions.
  • Fix issue #49 Correct total results count in simple concept search.
  • Fix issue #53 Incorrect ECL ancestor count after delta import.
    • Account for multiple ancestors in semantic index update concept graph.
  • Fix issue #55 Security fix - upgrade embedded Tomcat container to 8.5.41.
  • FHIR:
    • Correct ICD-10 URI and allow reverse map lookup.
    • Don't show refset membership in system URI.
    • Protect against null pointer if VS is not found.
  • Search:
    • Use translated FSN and PT in concept browser response.
    • Fix concept search when combining ECL and definition status.
    • Concept search using concept id can now return inactive concepts.
    • Fix active flag concept filter.
  • Version Control:
    • Fix branch rebase issue where multiple versions of a component could survive.
    • Fix performance issue when promoting a large amount of changes to MAIN.
    • Branch merge review now checks changes on all ancestor branches not just the parent branch.
  • Authoring validation:
    • Drools: Multiple hierarchy error should not use inferred form.
    • No traceability logging when concept updated with no change.
  • Other:
    • Fix classification job date formats.
    • Concept browser format returns PT in PT field rather than FSN.
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