| At line 17 added 2 lines. |
| + Boolean match( ResourceID, ConceptExpression, RemoteFlag ) |
| + |
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| - ConceptExpression semanticType( ResourceID, String, RemoteFlag ) // for summarizing annotations |
| + ConceptExpression semanticTypeConcepts( ResourceID, String, RemoteFlag ) // for summarizing annotations |
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| - The service returns a set of resources (as LSIDs) that have semantic annotations "matching" the given search term. |
| + The service returns a set of resources (as LSIDs) that have semantic types "matching" the given search term. |
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| - ResourceType getResourceType( ResourceID ) |
| + ResourceType getResourceType( ResourceID ) |
| Line 51 was replaced by line 53 |
| - Set<SemanticAnnotationID> getSemanticAnnotations( RemoteSearchFlag ) |
| + Set<SemanticTypeID> getSemanticAnnotations( RemoteSearchFlag ) |
| Line 53 was replaced by line 55 |
| - Set<Ontology> getOntology( OntologyID ) |
| + Set<Ontology> getOntology( OntologyID ) |
| Line 56 was replaced by line 58 |
| - The first operation returns the resource type of a given resource identifier (an LSID). The second operation returns the set of semantic annotations known to the kepler object manager (including annotations stored on remote repositories depending on the value of the remote flag). The last operation returns the ontology for a given ontology identifier (also a resource id). Note that this last operation could be used with an ontology service, e.g., the simple one described at the end of this page[simple ontology service|1]. |
| + The first operation returns the resource type of a given resource identifier (an LSID). The second operation returns the set of semantic types known to the kepler object manager (including semantic types stored on remote repositories depending on the value of the remote flag). The last operation returns the ontology for a given ontology identifier (also a resource id). Note that this last operation could be used with an ontology service, e.g., the simple one described at the end of this page[simple ontology service|1]. |
| Line 60 was replaced by line 62 |
| - In general, the {{search}} operation requires access to all semantic annotations to find matching resources. For example, consider a search expression {{A and B}}, i.e., a resource must contribute to both concept {{A}} and concept {{B}}. To find appropriate matches for this search term, the algorithm must look for annotations that explicitly state {{A and B}} as well as those that state only {{A}} and only {{B}} (which taken together make {{A and B}}). Note that an annotation that states only {{A}} may be in one repository, while an annotation that states only {{B}} may be in another. Thus, for remote searches, the {{search}} algorithm must obtain and consider all remote annotations to find matching resources, making the {{search}} operation inherently centralized. |
| + In general, the {{search}} operation requires access to all semantic types to find matching resources. For example, consider a search expression {{A and B}}, i.e., a resource must contribute to both concept {{A}} and concept {{B}}. To find appropriate matches for this search term, the algorithm must look for semantic types that explicitly state {{A and B}} as well as those that state only {{A}} and only {{B}} (which taken together make {{A and B}}). Note that a semantic type that states only {{A}} may be in one repository, while a semantic type that states only {{B}} may be in another. Thus, for remote searches, the {{search}} algorithm must obtain and consider all remote semantic types to find matching resources, making the {{search}} operation inherently centralized. |
| At line 82 added 18 lines. |
| + |
| + !!!{{Match}}: Checking Matching Resources |
| + |
| + {{{ |
| + Boolean match( ConceptExpression, ResourceID, RemoteFlag ) |
| + }}} |
| + |
| + |
| + The arguments for this service are: |
| + # A resource whose semantic types are to be checked; |
| + # A concept expression; and |
| + # A flag denoting whether local or remote repositories are searched |
| + |
| + The service returns true if the resource has a semantic type matching the concept expression. Note that given a set of resources {{R}} returned by the {{search}} service for a concept expression {{c}} and remote flag value {{m}} (either true or false), for each {{r}} in {{R}}, {{match(r, c, m)}} is true. That is, {{r}} is a {{match}} for search {{c}}. |
| + |
| + The {{match}} service is included primarily to support browsing of ontologies. |
| + |
| + |
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| - compatible( ResourceID, Connection, ResourceID, StructTypeFlag, RemoteFlag ) :: Boolean |
| + Boolean compatible( ResourceID, Connection, ResourceID, StructTypeFlag, RemoteFlag ) |
| Line 94 was replaced by line 114 |
| - searchCompatible( ResourceID, Port, StructTypeFlag, RemoteFlag ) :: Set<ResourceID> |
| + Set<ResourceID> searchCompatible( ResourceID, Port, StructTypeFlag, RemoteFlag ) |
| Line 101 was replaced by line 121 |
| - compose( ResourceID, Connection, ResourceID, RemoteFlag ) :: Set<StructMapping> |
| + Set<StructMapping> compose( ResourceID, Connection, ResourceID, RemoteFlag ) |
| Line 107 was replaced by line 127 |
| - merge( ResourceID, Connection, ResourceID, RemoteFlag ) :: Set<StructMapping> |
| + Set<StructMapping> merge( ResourceID, Connection, ResourceID, RemoteFlag ) |
| Line 114 was replaced by line 134 |
| - semanticType( ResourceID, String, RemoteFlag ) :: ConceptExpression |
| + ConceptExpression semanticType( ResourceID, String, RemoteFlag ) |
| Line 125 was replaced by line 145 |
| - getConcepts( OntologyID ) :: Set<ConceptID> |
| + Set<ConceptID> getConcepts( OntologyID ) |
| Line 127 was replaced by line 147 |
| - getRoles( OntologyID ) :: Set<RoleID> |
| + Set<RoleID> getRoles( OntologyID ) :: Set<RoleID> |
| Line 129 was replaced by line 149 |
| - getMatchingConcepts( OntologyID, String ) :: Set<ConceptID> |
| + Set<ConceptID> getMatchingConcepts( OntologyID, String ) |
| Line 131 was replaced by line 151 |
| - getMatchingRoles( OntologyID, String ) :: Set<ConceptID> |
| + Set<ConceptID> getMatchingRoles( OntologyID, String ) |
| Line 133 was replaced by line 153 |
| - getSubConcepts( OntologyID, ConceptID, DirectFlag ) :: Set<ConceptID> |
| + Set<ConceptID> getSubConcepts( OntologyID, ConceptID, DirectFlag ) |
| Line 135 was replaced by line 155 |
| - getSuperConcepts( OntologyID, ConceptID, DirectFlag ) :: Set<ConceptID> |
| + Set<ConceptID> getSuperConcepts( OntologyID, ConceptID, DirectFlag ) |
| Line 137 was replaced by line 157 |
| - getSubRoles( OntologyID, RoleID, DirectFlag ) :: Set<RoleID> |
| + Set<RoleID> getSubRoles( OntologyID, RoleID, DirectFlag ) |
| Line 139 was replaced by line 159 |
| - getSuperRoles( OntologyID, RoleID, DirectFlag ) :: Set<RoleID> |
| + Set<RoleID> getSuperRoles( OntologyID, RoleID, DirectFlag ) |
| Line 141 was replaced by line 161 |
| - satisfies( ConceptExpression, ConceptExpression ) :: Boolean |
| + Booolean satisfies( ConceptExpression, ConceptExpression ) |
| At line 144 added 2 lines. |
| + |
| + !!! Comments |
