Feature: mappings statistics slices support #78
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Codecov ReportAll modified and coverable lines are covered by tests ✅
Additional details and impacted files@@ Coverage Diff @@
## development #78 +/- ##
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+ Coverage 71.26% 71.62% +0.36%
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Files 67 67
Lines 3508 3648 +140
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+ Hits 2500 2613 +113
- Misses 1008 1035 +27
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imadbourouche
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May 21, 2024
syphax-bouazzouni
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May 22, 2024
…RI content negotiation and Ontology metadata and data indexation (#73) * Feature: Migrate to virtuoso (#67) * set up multiple triple store test environment * optimize api tests * Fix: update ncbo_annotator gem version (#71) * update ncbo_annotator gem version * update alegrograph to version 8.1.0 * Feature: use the new SOLR Schema API instead of SOLR config files (#68) * 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 * Feature: resolving resources within specific ontologies, supporting various 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 <ontoportal.bot.lirmm@gmail.com> Co-authored-by: imadbourouche <ji_bourouche@esi.dz> * Feature: URI drerfrencement content negotiation (#72) * 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 <gs_bouazzouni@esi.dz> Co-authored-by: OntoPortal Bot <ontoportal.bot.lirmm@gmail.com> * Fix: user creation security (#60) * 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 * Fix: the content negotiation by removing a no needed require * Feature: Indexation administration & Ontologies and Agents search (#70) * 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 * Feature: Add accessibility security to ontology metadata & content search results (#74) * add ontology accessibility restriction to ontology metadata search * add ontology accessibility restriction to ontology content search * add search results accessibility security test * fix: enable user creation notification (#76) * Fix: Invalidating cache on insert & fix Redis warning (#77) * 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 * Feature: mappings statistics slices support (#78) * 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 --------- Co-authored-by: OntoPortal Bot <ontoportal.bot.lirmm@gmail.com> Co-authored-by: imadbourouche <ji_bourouche@esi.dz> Co-authored-by: Bilel Kihal <61744974+Bilelkihal@users.noreply.github.com>
syphax-bouazzouni
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Jun 26, 2024
* 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
syphax-bouazzouni
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Jun 26, 2024
…es of resources with no owl:Ontology (#81) * Feature: mappings statistics slices support (#78) * 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 * update owl wrapper version to v1.4.3 --------- Co-authored-by: Bilel Kihal <61744974+Bilelkihal@users.noreply.github.com>
syphax-bouazzouni
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Aug 8, 2024
* Feature: mappings statistics slices support (#78) * 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 * update owl wrapper version to v1.4.3 * update test search multilingual test to ensure selecting one prefLabel * add filter search results attributes by language * add search multiple languages or all languages tests * implement display search results in multiple languages * fix annotator prefLabel language selection * fix: remove duplicated agents endpoint ('/Agents') (#85) * Feature: implement ontology agents endpoint (#84) * implement ontology agents endpoint * Move ontology agents method out of agents namespace in agents_controller * return a list of uniq values, for the endpoint '/ontologies/:acronym/agents' that contains all the agents of the ontology using agents_attrs list * test for ontology agents endpoing * add another ontologyin test ontology agents test, and assert only the number of results and the names --------- Co-authored-by: Bilel KIHAL <kb_kihal@esi.dz> * update API deploy CI to SSH jump host and get configs from private repo * update deploy files and add agroportal, stage and test environments * Feature: update agents search endpoint to add option to have a custom qf paramter (#90) * fix agents search sensibility * improve agents search endpoint to search only exact string or substring match * make the agent search endpoint query filter configurable --------- Co-authored-by: Syphax <gs_bouazzouni@esi.dz> * Fix: hide duplicated agents endpoint ('/Agents') (#91) * remove duplicated agents endpoint ('/Agents') * put again the Agents endpoint * hide Agents endpoint in the home endpoint * fix properties tests --------- Co-authored-by: Bilel KIHAL <kb_kihal@esi.dz> --------- Co-authored-by: Bilel Kihal <61744974+Bilelkihal@users.noreply.github.com> Co-authored-by: Bilel KIHAL <kb_kihal@esi.dz>
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Done
/mappings/statistics/ontologies/supports slices (when we call it from a slice then limit the ontologies only to the ontologies of this slice)