direct_ontology_api

api.direct_ontology_api

Direct RDF/SPARQL-based ontology API.

Efficient access to the TVB ontology using direct owlready2 SPARQL queries. Enables schema ↔︎ ontology interlinking via class URIs.

No fallbacks - fails fast on unexpected data.

Classes

Name	Description
DirectOntologyAPI	Direct RDF/SPARQL-based ontology API.

DirectOntologyAPI

api.direct_ontology_api.DirectOntologyAPI()

Direct RDF/SPARQL-based ontology API.

Methods

Name	Description
enrich_database_item	Enrich database item with ontology information.
get_by_curie	Get entity by CURIE (e.g., ‘tvbo:Equation’).
get_by_iri	Get entity by IRI. Returns None if not found.
get_by_storid	Get entity by storage ID.
get_children	Get child classes/instances via direct RDF access.
get_class_hierarchy	Get full ontology class hierarchy for graph visualization.
get_parents	Get parent classes via direct RDF access.
get_relationships	Get all relationships (both directions).
get_schema_ontology_link	Get ontology concept linked to a schema class.
search	Search ontology via SPARQL.
sparql	Execute SPARQL query.

enrich_database_item

api.direct_ontology_api.DirectOntologyAPI.enrich_database_item(item, type_name)

Enrich database item with ontology information.

get_by_curie

api.direct_ontology_api.DirectOntologyAPI.get_by_curie(curie)

Get entity by CURIE (e.g., ‘tvbo:Equation’).

get_by_iri

api.direct_ontology_api.DirectOntologyAPI.get_by_iri(iri)

Get entity by IRI. Returns None if not found.

get_by_storid

api.direct_ontology_api.DirectOntologyAPI.get_by_storid(storid)

Get entity by storage ID.

get_children

api.direct_ontology_api.DirectOntologyAPI.get_children(storid)

Get child classes/instances via direct RDF access.

get_class_hierarchy

api.direct_ontology_api.DirectOntologyAPI.get_class_hierarchy()

Get full ontology class hierarchy for graph visualization.

get_parents

api.direct_ontology_api.DirectOntologyAPI.get_parents(storid)

Get parent classes via direct RDF access.

get_relationships

api.direct_ontology_api.DirectOntologyAPI.get_relationships(storid)

Get all relationships (both directions).

get_schema_ontology_link

api.direct_ontology_api.DirectOntologyAPI.get_schema_ontology_link(
    schema_class_name,
)

Get ontology concept linked to a schema class.

search

api.direct_ontology_api.DirectOntologyAPI.search(
    term,
    limit=100,
    exact_match=False,
)

Search ontology via SPARQL.

sparql

api.direct_ontology_api.DirectOntologyAPI.sparql(query_string, flatten=True)

Execute SPARQL query.

Functions

Name	Description
get_direct_ontology_api	Get or create singleton.

get_direct_ontology_api

api.direct_ontology_api.get_direct_ontology_api()

Get or create singleton.