Merge to master: Release 2.4.0 - Multi-backend stores integrations, URI content negotiation and Ontology metadata and data indexation #73
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* set up multiple triple store test environment * optimize api tests
* update ncbo_annotator gem version * update alegrograph to version 8.1.0
* update docker compose to use standard SOLR not the ontoportal configured * update term search to use the new Schema API and remove config files * update properties search to use the new Schema API & remove config files * update class and properties schema to use the existent dynamic names
…arious output formats(#69) * remove useless line preventing sending the reset password email (#65) * [ontoportal-bot] Gemfile.lock update * Feature: api endpoint returns json-ld for the element with that URI * implement GET, POST requests, and GET /parse to submit INRATHES ontology * Enhance tests using real data submission * Enhance bin/ontoportal to make it able to run localy with UI * Small fixes - change controller name and test controller name - remove /parse endpoint - rackup to shotgun in bin/ontoportal * Fix test dereference resource controller - in json test, before we test the result we sort the hashes with the function (sort_nested_hash) - in xml, ntriples and turtle, we split the result and the expected result, sort them and compare them * update gemfile: add json-ld (3.0.2) * change derefrencement namespacing and clean code * Fix dereference resource tests expected resultsto handle parse triples * fix xml serialization test for AG and Gb by cleaning the xml string --------- Co-authored-by: OntoPortal Bot <[email protected]> Co-authored-by: imadbourouche <[email protected]>
* remove useless line preventing sending the reset password email (#65) * [ontoportal-bot] Gemfile.lock update * Feature: api endpoint returns json-ld for the element with that URI * implement GET, POST requests, and GET /parse to submit INRATHES ontology * Enhance tests using real data submission * Enhance bin/ontoportal to make it able to run localy with UI * Small fixes - change controller name and test controller name - remove /parse endpoint - rackup to shotgun in bin/ontoportal * Fix test dereference resource controller - in json test, before we test the result we sort the hashes with the function (sort_nested_hash) - in xml, ntriples and turtle, we split the result and the expected result, sort them and compare them * update gemfile: add json-ld (3.0.2) * change derefrencement namespacing and clean code * Fix dereference resource tests expected resultsto handle parse triples * Feature: add content negotiation middleware * Add headers to tests instead of output_format * Apply middleware to only /ontologies/:acronym/resolve/:uri * Add test cases for AllegroGraph and fix xml test * move the content_negotiation middleware into rack folder and module * re-implement again the usage of the output_format param if no format is given in the request header * clean the tests for no more necessary checks * clean and simplify the content negotiation middleware * add the accepted format in the error response of resolvability endpoint * refactor the content negotiation middleware code to be more clear --------- Co-authored-by: Syphax bouazzouni <[email protected]> Co-authored-by: OntoPortal Bot <[email protected]>
syphax-bouazzouni
changed the title
* extract slice tests helper to the parent class for reusability * add a test for the creation of an admin user * enforce the security of admin user creation * update slices controller to enforce admin security
* index submission and agents metadata * add search administration endpoints to init schema and index batch * add ontology and agent search endpoints * add agent and ontology search tests * add admin search in collections * make the search admin use directly the solr connector * implement search ontologies content search endpoint * enforce solr models indexing one by one to prevent batch fails * add detType tov search ontologies content search endpoint * fix content ontology search pagination * add ontology search content types filter
Codecov ReportAttention: Patch coverage is
Additional details and impacted files@@ Coverage Diff @@
## master #73 +/- ##
==========================================
+ Coverage 70.78% 71.61% +0.82%
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Files 65 67 +2
Lines 3420 3646 +226
==========================================
+ Hits 2421 2611 +190
- Misses 999 1035 +36
Flags with carried forward coverage won't be shown. Click here to find out more. ☔ View full report in Codecov by Sentry. |
…arch results (#74) * add ontology accessibility restriction to ontology metadata search * add ontology accessibility restriction to ontology content search * add search results accessibility security test
* Merge pull request https://github.com/ncbo/ontologies_api/pull/120from ncbo/remove_redis-activesupport Remove redis activesupport * use the branch development of sparql client
* restrict mapping statistics ontologies to the ontologies of the current slice * add a test for the mappings slices support * add test for mappings statistics slices support
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URI management
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