MappingServiceGraph

class MappingServiceGraph(*args: Any, converter: Converter, predicates: None | str | list[str] = None, **kwargs: Any)

Bases: Graph

A service that implements identifier mapping based on a converter.

Instantiate the graph.

Parameters:

• args – Positional arguments to pass to rdflib.Graph.__init__()

• converter – A converter object

• predicates – A predicate or set of predicates. If not given, this service will use owl:sameAs as a predicate for mapping IRIs.

• kwargs – Keyword arguments to pass to rdflib.Graph.__init__()

In the following example, a service graph is instantiated using a small example converter, then an example SPARQL query is made directly to show how it makes results:

from curies import Converter
from curies.mapping_service import CURIEServiceGraph

converter = Converter.from_priority_prefix_map(
    {
        "CHEBI": [
            "https://www.ebi.ac.uk/chebi/searchId.do?chebiId=",
            "http://identifiers.org/chebi/",
            "http://purl.obolibrary.org/obo/CHEBI_",
        ],
        "GO": ["http://purl.obolibrary.org/obo/GO_"],
        "OBO": ["http://purl.obolibrary.org/obo/"],
        # ...
    }
)
graph = MappingServiceGraph(converter=converter)

sparql = (
    "SELECT ?o WHERE {"
    "    VALUES ?s {"
    "        <http://purl.obolibrary.org/obo/CHEBI_1>"
    "    }"
    "    ?s owl:sameAs ?o"
    "}"
)
res = graph.query(sparql)

The results of this are:

subject	object
http://purl.obolibrary.org/obo/CHEBI_1	http://purl.obolibrary.org/obo/CHEBI_1
http://purl.obolibrary.org/obo/CHEBI_1	http://identifiers.org/chebi/1
http://purl.obolibrary.org/obo/CHEBI_1	https://www.ebi.ac.uk/chebi/searchId.do?chebiId=1

Methods Summary

triples(triple)

Generate triples, overriden to dynamically generate mappings based on this graph's converter.

Methods Documentation

triples(triple: tuple[URIRef, URIRef, URIRef]) → Iterable[tuple[URIRef, URIRef, URIRef]]

Generate triples, overriden to dynamically generate mappings based on this graph’s converter.