I have been able to create an easily reproducible scenario that others can use to replicate and test the issues that I’m seeing:
1. Start fuseki using the config that I’ve listed below. 2. Attempt to load the latest version of ICD-10 CM as provided freely by BioPortal: https://bioportal.bioontology.org/ontologies/ICD10CM If inference is enabled, then I can’t even get the turtle file to load in its entirety. If I load the turtle file without inference, then the load completes, but upon restarting the server and submitting a request, the service doesn’t finish processing the request in any reasonable amount of time, no matter how simple the query of the request is (one that actually queries data from the dataset at least). Config: PREFIX dcterms: <http://purl.org/dc/terms/> PREFIX fuseki: <http://jena.apache.org/fuseki#> PREFIX ja: <http://jena.hpl.hp.com/2005/11/Assembler#> PREFIX rdf: <http://www.w3.org/1999/02/22-rdf-syntax-ns#> PREFIX rdfs: <http://www.w3.org/2000/01/rdf-schema#> PREFIX skos: <http://www.w3.org/2004/02/skos/core#> PREFIX tdb2: <http://jena.apache.org/2016/tdb#> PREFIX text: <http://jena.apache.org/text#> [] rdf:type fuseki:Server ; fuseki:pingEP true ; fuseki:statsEP true ; fuseki:metricsEP true ; fuseki:compactEP true ; ja:context [ ja:cxtName "arq:queryTimeout" ; ja:cxtValue "10000,60000" ; ] ; . <#kgService> a fuseki:Service ; fuseki:name "kg" ; fuseki:dataset <#kgIndexedDataset> ; fuseki:endpoint [ fuseki:operation fuseki:query; ] ; fuseki:endpoint [ fuseki:operation fuseki:update; ] ; fuseki:endpoint [ fuseki:operation fuseki:gsp_r; ] ; fuseki:endpoint [ fuseki:operation fuseki:gsp_rw; fuseki:name "data"; ] ; . <#kgIndexedDataset> rdf:type text:TextDataset ; text:dataset <#kgInferredDataset> ; text:index <#kgIndex> ; . <#kgIndex> a text:TextIndexLucene ; text:directory <file:/fuseki/databases/kg.index> ; text:entityMap <#kgEntityMap> ; text:storeValues true ; text:queryParser [ a text:ComplexPhraseQueryParser ] . <#kgEntityMap> a text:EntityMap ; text:defaultField "label" ; text:entityField "uri" ; text:uidField "uid" ; text:langField "lang" ; text:graphField "graph" ; text:map ( [ text:field "id" ; text:predicate dcterms:identifier ] [ text:field "label" ; text:predicate rdfs:label ] ) ; . <#kgInferredDataset> a ja:RDFDataset ; ja:defaultGraph <#kgInferenceModel> ; . <#kgInferenceModel> a ja:InfModel ; ja:baseModel <#kgTdbGraph> ; ja:reasoner [ ja:reasonerURL <http://jena.hpl.hp.com/2003/OWLMicroFBRuleReasoner> ] ; . <#kgTdbGraph> a tdb2:GraphTDB2 ; tdb2:dataset <#kgTdbDataset> ; . <#kgTdbDataset> a tdb2:DatasetTDB2 ; tdb2:location "/fuseki/databases/kg" ; . No PHI in Email: PointClickCare and Collective Medical, A PointClickCare Company, policies prohibit sending protected health information (PHI) by email, which may violate regulatory requirements. If sending PHI is necessary, please contact the sender for secure delivery instructions. Confidentiality Notice: This email message, including any attachments, is for the sole use of the intended recipient(s) and may contain confidential and privileged information. Any unauthorized review, use, disclosure or distribution is prohibited. If you are not the intended recipient, please contact the sender by reply email and destroy all copies of the original message.
