From ea1880d48734b271172497fc205ba7f28706ba2a Mon Sep 17 00:00:00 2001 From: Munyoki Kilyungi Date: Thu, 29 Aug 2024 22:32:35 +0300 Subject: Restructure RDF module. * gn3/api/metadata.py: Import constants from gn3.db.rdf * gn3/api/metadata_api/wiki.py: Ditto. Import "get_wiki_entries_by_symbol" from gn3.db.rdf.wiki. * gn3/db/constants.py: Delete file and move all constants ... * gn3/db/rdf.py: ... and functions ... * gn3/db/rdf/__init__.py: ... here. Signed-off-by: Munyoki Kilyungi --- gn3/api/metadata.py | 2 +- gn3/api/metadata_api/wiki.py | 4 +- gn3/db/constants.py | 152 ---------------------------------- gn3/db/rdf.py | 124 ---------------------------- gn3/db/rdf/__init__.py | 188 +++++++++++++++++++++++++++++++++++++++++++ gn3/db/rdf/wiki.py | 91 +++++++++++++++++++++ 6 files changed, 282 insertions(+), 279 deletions(-) delete mode 100644 gn3/db/constants.py delete mode 100644 gn3/db/rdf.py create mode 100644 gn3/db/rdf/__init__.py create mode 100644 gn3/db/rdf/wiki.py (limited to 'gn3') diff --git a/gn3/api/metadata.py b/gn3/api/metadata.py index 3f28f5d..6110880 100644 --- a/gn3/api/metadata.py +++ b/gn3/api/metadata.py @@ -15,7 +15,7 @@ from gn3.db.datasets import (retrieve_metadata, get_history) from gn3.db.rdf import (query_frame_and_compact, query_and_compact) -from gn3.db.constants import ( +from gn3.db.rdf import ( RDF_PREFIXES, BASE_CONTEXT, DATASET_CONTEXT, DATASET_SEARCH_CONTEXT, PUBLICATION_CONTEXT, diff --git a/gn3/api/metadata_api/wiki.py b/gn3/api/metadata_api/wiki.py index a4abef6..b9942a0 100644 --- a/gn3/api/metadata_api/wiki.py +++ b/gn3/api/metadata_api/wiki.py @@ -5,8 +5,8 @@ from typing import Any, Dict from flask import Blueprint, request, jsonify, current_app, make_response from gn3 import db_utils from gn3.db import wiki -from gn3.db.rdf import (query_frame_and_compact, - get_wiki_entries_by_symbol) +from gn3.db.rdf import query_frame_and_compact +from gn3.db.rdf.wiki import get_wiki_entries_by_symbol wiki_blueprint = Blueprint("wiki", __name__, url_prefix="wiki") diff --git a/gn3/db/constants.py b/gn3/db/constants.py deleted file mode 100644 index 45e3bfc..0000000 --- a/gn3/db/constants.py +++ /dev/null @@ -1,152 +0,0 @@ -""" -This module contains some constants used in other modules. -""" -PREFIXES = { - "dcat": "http://www.w3.org/ns/dcat#", - "dct": "http://purl.org/dc/terms/", - "ex": "http://example.org/stuff/1.0/", - "fabio": "http://purl.org/spar/fabio/", - "foaf": "http://xmlns.com/foaf/0.1/", - "generif": "http://www.ncbi.nlm.nih.gov/gene?cmd=Retrieve&dopt=Graphics&list_uids=", - "genotype": "http://genenetwork.org/genotype/", - "gn": "http://genenetwork.org/id/", - "gnc": "http://genenetwork.org/category/", - "gnt": "http://genenetwork.org/term/", - "owl": "http://www.w3.org/2002/07/owl#", - "phenotype": "http://genenetwork.org/phenotype/", - "prism": "http://prismstandard.org/namespaces/basic/2.0/", - "publication": "http://genenetwork.org/publication/", - "pubmed": "http://rdf.ncbi.nlm.nih.gov/pubmed/", - "rdf": "http://www.w3.org/1999/02/22-rdf-syntax-ns#", - "rdfs": "http://www.w3.org/2000/01/rdf-schema#", - "skos": "http://www.w3.org/2004/02/skos/core#", - "taxon": "https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&id=", - "up": "http://purl.uniprot.org/core/", - "xkos": "http://rdf-vocabulary.ddialliance.org/xkos#", - "xsd": "http://www.w3.org/2001/XMLSchema#", -} - -RDF_PREFIXES = "\n".join([f"PREFIX {key}: <{value}>" - for key, value in PREFIXES.items()]) - -BASE_CONTEXT = { - "data": "@graph", - "type": "@type", - "gn": "http://genenetwork.org/id/", - "gnc": "http://genenetwork.org/category/", - "gnt": "http://genenetwork.org/term/", - "rdfs": "http://www.w3.org/2000/01/rdf-schema#", - "rdf": "http://www.w3.org/1999/02/22-rdf-syntax-ns#>", -} - -DATASET_CONTEXT = { - "accessRights": "dct:accessRights", - "accessionId": "dct:identifier", - "acknowledgement": "gnt:hasAcknowledgement", - "altLabel": "skos:altLabel", - "caseInfo": "gnt:hasCaseInfo", - "classifiedUnder": "xkos:classifiedUnder", - "contributors": "dct:creator", - "contactPoint": "dcat:contactPoint", - "created": "dct:created", - "dcat": "http://www.w3.org/ns/dcat#", - "dct": "http://purl.org/dc/terms/", - "description": "dct:description", - "ex": "http://example.org/stuff/1.0/", - "experimentDesignInfo": "gnt:hasExperimentDesignInfo", - "experimentType": "gnt:hasExperimentType", - "foaf": "http://xmlns.com/foaf/0.1/", - "geoSeriesId": "gnt:hasGeoSeriesId", - "gnt": "http://genenetwork.org/term/", - "inbredSet": "gnt:belongsToGroup", - "label": "rdfs:label", - "normalization": "gnt:usesNormalization", - "platformInfo": "gnt:hasPlatformInfo", - "notes": "gnt:hasNotes", - "organization": "foaf:Organization", - "prefLabel": "skos:prefLabel", - "citation": "dct:isReferencedBy", - "GoTree": "gnt:hasGOTreeValue", - "platform": "gnt:usesPlatform", - "processingInfo": "gnt:hasDataProcessingInfo", - "rdfs": "http://www.w3.org/2000/01/rdf-schema#", - "skos": "http://www.w3.org/2004/02/skos/core#", - "specifics": "gnt:hasContentInfo", - "title": "dct:title", - "xkos": "http://rdf-vocabulary.ddialliance.org/xkos#", - "tissueInfo": "gnt:hasTissueInfo", - "tissue": "gnt:hasTissue", - "contactWebUrl": "foaf:homepage", - "contactName": "foaf:name", -} - -SEARCH_CONTEXT = { - "pages": "ex:pages", - "hits": "ex:hits", - "result": "ex:result", - "results": "ex:items", - "resultItem": "ex:resultType", - "currentPage": "ex:currentPage", -} - -DATASET_SEARCH_CONTEXT = SEARCH_CONTEXT | { - "classifiedUnder": "xkos:classifiedUnder", - "created": "dct:created", - "dct": "http://purl.org/dc/terms/", - "ex": "http://example.org/stuff/1.0/", - "inbredSet": "ex:belongsToInbredSet", - "title": "dct:title", - "name": "rdfs:label", - "rdfs": "http://www.w3.org/2000/01/rdf-schema#", - "type": "@type", - "xkos": "http://rdf-vocabulary.ddialliance.org/xkos#", -} - -PUBLICATION_CONTEXT = { - "dct": "http://purl.org/dc/terms/", - "fabio": "http://purl.org/spar/fabio/", - "prism": "http://prismstandard.org/namespaces/basic/2.0/", - "xsd": "http://www.w3.org/2001/XMLSchema#", - "title": "dct:title", - "journal": "fabio:Journal", - "volume": "prism:volume", - "page": "fabio:page", - "creator": "dct:creator", - "abstract": "dct:abstract", - "year": { - "@id": "fabio:hasPublicationYear", - "@type": "xsd:gYear", - }, - "month": { - "@id": "prism:publicationDate", - "@type": "xsd:gMonth" - }, -} - -PHENOTYPE_CONTEXT = BASE_CONTEXT | PUBLICATION_CONTEXT | { - "skos": "http://www.w3.org/2004/02/skos/core#", - "dcat": "http://www.w3.org/ns/dcat#", - "prism": "http://prismstandard.org/namespaces/basic/2.0/", - "traitName": "skos:altLabel", - "trait": "rdfs:label", - "altName": "rdfs:altLabel", - "description": "dct:description", - "abbreviation": "gnt:abbreviation", - "labCode": "gnt:labCode", - "submitter": "gnt:submitter", - "dataset": "dcat:Distribution", - "contributor": "dct:contributor", - "mean": "gnt:mean", - "locus": "gnt:locus", - "lodScore": "gnt:lodScore", - "references": "dct:isReferencedBy", - "additive": "gnt:additive", - "sequence": "gnt:sequence", - "prefLabel": "skos:prefLabel", - "identifier": "dct:identifier", - "chromosome": "gnt:chr", - "mb": "gnt:mb", - "peakLocation": "gnt:locus", - "species": "gnt:belongsToSpecies", - "group": "gnt:belongsToGroup", -} diff --git a/gn3/db/rdf.py b/gn3/db/rdf.py deleted file mode 100644 index 5a95683..0000000 --- a/gn3/db/rdf.py +++ /dev/null @@ -1,124 +0,0 @@ -"""RDF utilities - -This module is a collection of functions that handle SPARQL queries. - -""" -import json -from string import Template -from SPARQLWrapper import SPARQLWrapper -from pyld import jsonld # type: ignore -from gn3.db.constants import ( - RDF_PREFIXES, BASE_CONTEXT -) - - -def sparql_construct_query(query: str, endpoint: str) -> dict: - """Query virtuoso using a CONSTRUCT query and return a json-ld - dictionary""" - sparql = SPARQLWrapper(endpoint) - sparql.setQuery(query) - results = sparql.queryAndConvert() - return json.loads(results.serialize(format="json-ld")) # type: ignore - - -def query_frame_and_compact(query: str, context: dict, endpoint: str) -> dict: - """Frame and then compact the results given a context""" - results = sparql_construct_query(query, endpoint) - return jsonld.compact(jsonld.frame(results, context), context) - - -def query_and_compact(query: str, context: dict, endpoint: str) -> dict: - """Compact the results given a context""" - results = sparql_construct_query(query, endpoint) - return jsonld.compact(results, context) - - -def query_and_frame(query: str, context: dict, endpoint: str) -> dict: - """Frame the results given a context""" - results = sparql_construct_query(query, endpoint) - return jsonld.frame(results, context) - - -def get_wiki_entries_by_symbol(symbol: str, sparql_uri: str) -> dict: - """Fetch all the Wiki entries using the symbol""" - # This query uses a sub-query to fetch the latest comment by the - # version id. - query = Template(""" -$prefix - -CONSTRUCT { - ?uid rdfs:label ?symbolName; - gnt:reason ?reason ; - gnt:species ?species ; - dct:references ?pmid ; - foaf:homepage ?weburl ; - rdfs:comment ?comment ; - foaf:mbox ?email ; - gnt:initial ?usercode ; - gnt:belongsToCategory ?category ; - gnt:hasVersion ?versionId ; - dct:created ?created ; - dct:identifier ?identifier . -} WHERE { - ?symbolId rdfs:label ?symbolName . - ?uid rdfs:comment ?comment ; - gnt:symbol ?symbolId ; - rdf:type gnc:GNWikiEntry ; - dct:created ?createTime . - FILTER ( LCASE(?symbolName) = LCASE('$symbol') ) . - { - SELECT (MAX(?vers) AS ?max) ?id_ WHERE { - ?symbolId rdfs:label ?symbolName . - ?uid dct:identifier ?id_ ; - dct:hasVersion ?vers ; - dct:identifier ?id_ ; - gnt:symbol ?symbolId . - FILTER ( LCASE(?symbolName) = LCASE('$symbol') ) . - } - } - ?uid dct:hasVersion ?max ; - dct:identifier ?id_ . - OPTIONAL { ?uid gnt:reason ?reason } . - OPTIONAL { - ?uid gnt:belongsToSpecies ?speciesId . - ?speciesId gnt:shortName ?species . - } . - OPTIONAL { ?uid dct:references ?pubmedId . } . - OPTIONAL { ?uid foaf:homepage ?weburl . } . - OPTIONAL { ?uid gnt:initial ?usercode . } . - OPTIONAL { ?uid gnt:mbox ?email . } . - OPTIONAL { ?uid gnt:belongsToCategory ?category . } . - BIND (str(?version) AS ?versionId) . - BIND (str(?id_) AS ?identifier) . - BIND (str(?pubmedId) AS ?pmid) . - BIND (str(?createTime) AS ?created) . -} -""").substitute(prefix=RDF_PREFIXES, symbol=symbol,) - context = BASE_CONTEXT | { - "foaf": "http://xmlns.com/foaf/0.1/", - "dct": "http://purl.org/dc/terms/", - "categories": "gnt:belongsToCategory", - "web_url": "foaf:homepage", - "version": "gnt:hasVersion", - "symbol": "rdfs:label", - "reason": "gnt:reason", - "species": "gnt:species", - "pubmed_id": "dct:references", - "email": "foaf:mbox", - "initial": "gnt:initial", - "comment": "rdfs:comment", - "created": "dct:created", - "id": "dct:identifier", - # This points to the RDF Node which is the unique identifier - # for this triplet. It's constructed using the comment-id and - # the comment-versionId - "wiki_identifier": "@id", - } - results = query_frame_and_compact( - query, context, - sparql_uri - ) - data = results.get("data") - if not data: - return results - return results diff --git a/gn3/db/rdf/__init__.py b/gn3/db/rdf/__init__.py new file mode 100644 index 0000000..c763810 --- /dev/null +++ b/gn3/db/rdf/__init__.py @@ -0,0 +1,188 @@ +"""RDF + +Constants for prefixes and contexts; and wrapper functions around +creating contexts to be used by jsonld when framing and/or compacting. + +""" +import json + +from SPARQLWrapper import SPARQLWrapper +from pyld import jsonld # type: ignore + + +PREFIXES = { + "dcat": "http://www.w3.org/ns/dcat#", + "dct": "http://purl.org/dc/terms/", + "ex": "http://example.org/stuff/1.0/", + "fabio": "http://purl.org/spar/fabio/", + "foaf": "http://xmlns.com/foaf/0.1/", + "generif": "http://www.ncbi.nlm.nih.gov/gene?cmd=Retrieve&dopt=Graphics&list_uids=", + "genotype": "http://genenetwork.org/genotype/", + "gn": "http://genenetwork.org/id/", + "gnc": "http://genenetwork.org/category/", + "gnt": "http://genenetwork.org/term/", + "owl": "http://www.w3.org/2002/07/owl#", + "phenotype": "http://genenetwork.org/phenotype/", + "prism": "http://prismstandard.org/namespaces/basic/2.0/", + "publication": "http://genenetwork.org/publication/", + "pubmed": "http://rdf.ncbi.nlm.nih.gov/pubmed/", + "rdf": "http://www.w3.org/1999/02/22-rdf-syntax-ns#", + "rdfs": "http://www.w3.org/2000/01/rdf-schema#", + "skos": "http://www.w3.org/2004/02/skos/core#", + "taxon": "https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&id=", + "up": "http://purl.uniprot.org/core/", + "xkos": "http://rdf-vocabulary.ddialliance.org/xkos#", + "xsd": "http://www.w3.org/2001/XMLSchema#", +} + +RDF_PREFIXES = "\n".join([f"PREFIX {key}: <{value}>" + for key, value in PREFIXES.items()]) + +BASE_CONTEXT = { + "data": "@graph", + "type": "@type", + "gn": "http://genenetwork.org/id/", + "gnc": "http://genenetwork.org/category/", + "gnt": "http://genenetwork.org/term/", + "rdfs": "http://www.w3.org/2000/01/rdf-schema#", + "rdf": "http://www.w3.org/1999/02/22-rdf-syntax-ns#>", +} + +DATASET_CONTEXT = { + "accessRights": "dct:accessRights", + "accessionId": "dct:identifier", + "acknowledgement": "gnt:hasAcknowledgement", + "altLabel": "skos:altLabel", + "caseInfo": "gnt:hasCaseInfo", + "classifiedUnder": "xkos:classifiedUnder", + "contributors": "dct:creator", + "contactPoint": "dcat:contactPoint", + "created": "dct:created", + "dcat": "http://www.w3.org/ns/dcat#", + "dct": "http://purl.org/dc/terms/", + "description": "dct:description", + "ex": "http://example.org/stuff/1.0/", + "experimentDesignInfo": "gnt:hasExperimentDesignInfo", + "experimentType": "gnt:hasExperimentType", + "foaf": "http://xmlns.com/foaf/0.1/", + "geoSeriesId": "gnt:hasGeoSeriesId", + "gnt": "http://genenetwork.org/term/", + "inbredSet": "gnt:belongsToGroup", + "label": "rdfs:label", + "normalization": "gnt:usesNormalization", + "platformInfo": "gnt:hasPlatformInfo", + "notes": "gnt:hasNotes", + "organization": "foaf:Organization", + "prefLabel": "skos:prefLabel", + "citation": "dct:isReferencedBy", + "GoTree": "gnt:hasGOTreeValue", + "platform": "gnt:usesPlatform", + "processingInfo": "gnt:hasDataProcessingInfo", + "rdfs": "http://www.w3.org/2000/01/rdf-schema#", + "skos": "http://www.w3.org/2004/02/skos/core#", + "specifics": "gnt:hasContentInfo", + "title": "dct:title", + "xkos": "http://rdf-vocabulary.ddialliance.org/xkos#", + "tissueInfo": "gnt:hasTissueInfo", + "tissue": "gnt:hasTissue", + "contactWebUrl": "foaf:homepage", + "contactName": "foaf:name", +} + +SEARCH_CONTEXT = { + "pages": "ex:pages", + "hits": "ex:hits", + "result": "ex:result", + "results": "ex:items", + "resultItem": "ex:resultType", + "currentPage": "ex:currentPage", +} + +DATASET_SEARCH_CONTEXT = SEARCH_CONTEXT | { + "classifiedUnder": "xkos:classifiedUnder", + "created": "dct:created", + "dct": "http://purl.org/dc/terms/", + "ex": "http://example.org/stuff/1.0/", + "inbredSet": "ex:belongsToInbredSet", + "title": "dct:title", + "name": "rdfs:label", + "rdfs": "http://www.w3.org/2000/01/rdf-schema#", + "type": "@type", + "xkos": "http://rdf-vocabulary.ddialliance.org/xkos#", +} + +PUBLICATION_CONTEXT = { + "dct": "http://purl.org/dc/terms/", + "fabio": "http://purl.org/spar/fabio/", + "prism": "http://prismstandard.org/namespaces/basic/2.0/", + "xsd": "http://www.w3.org/2001/XMLSchema#", + "title": "dct:title", + "journal": "fabio:Journal", + "volume": "prism:volume", + "page": "fabio:page", + "creator": "dct:creator", + "abstract": "dct:abstract", + "year": { + "@id": "fabio:hasPublicationYear", + "@type": "xsd:gYear", + }, + "month": { + "@id": "prism:publicationDate", + "@type": "xsd:gMonth" + }, +} + +PHENOTYPE_CONTEXT = BASE_CONTEXT | PUBLICATION_CONTEXT | { + "skos": "http://www.w3.org/2004/02/skos/core#", + "dcat": "http://www.w3.org/ns/dcat#", + "prism": "http://prismstandard.org/namespaces/basic/2.0/", + "traitName": "skos:altLabel", + "trait": "rdfs:label", + "altName": "rdfs:altLabel", + "description": "dct:description", + "abbreviation": "gnt:abbreviation", + "labCode": "gnt:labCode", + "submitter": "gnt:submitter", + "dataset": "dcat:Distribution", + "contributor": "dct:contributor", + "mean": "gnt:mean", + "locus": "gnt:locus", + "lodScore": "gnt:lodScore", + "references": "dct:isReferencedBy", + "additive": "gnt:additive", + "sequence": "gnt:sequence", + "prefLabel": "skos:prefLabel", + "identifier": "dct:identifier", + "chromosome": "gnt:chr", + "mb": "gnt:mb", + "peakLocation": "gnt:locus", + "species": "gnt:belongsToSpecies", + "group": "gnt:belongsToGroup", +} + + +def sparql_construct_query(query: str, endpoint: str) -> dict: + """Query virtuoso using a CONSTRUCT query and return a json-ld + dictionary""" + sparql = SPARQLWrapper(endpoint) + sparql.setQuery(query) + results = sparql.queryAndConvert() + return json.loads(results.serialize(format="json-ld")) # type: ignore + + +def query_frame_and_compact(query: str, context: dict, endpoint: str) -> dict: + """Frame and then compact the results given a context""" + results = sparql_construct_query(query, endpoint) + return jsonld.compact(jsonld.frame(results, context), context) + + +def query_and_compact(query: str, context: dict, endpoint: str) -> dict: + """Compact the results given a context""" + results = sparql_construct_query(query, endpoint) + return jsonld.compact(results, context) + + +def query_and_frame(query: str, context: dict, endpoint: str) -> dict: + """Frame the results given a context""" + results = sparql_construct_query(query, endpoint) + return jsonld.frame(results, context) diff --git a/gn3/db/rdf/wiki.py b/gn3/db/rdf/wiki.py new file mode 100644 index 0000000..1fc3130 --- /dev/null +++ b/gn3/db/rdf/wiki.py @@ -0,0 +1,91 @@ +"""Sparql queries to get metadata about WIKI and RIF metadata. + +""" +from string import Template +from gn3.db.rdf import (BASE_CONTEXT, RDF_PREFIXES, + query_frame_and_compact) + + +def get_wiki_entries_by_symbol(symbol: str, sparql_uri: str) -> dict: + """Fetch all the Wiki entries using the symbol""" + # This query uses a sub-query to fetch the latest comment by the + # version id. + query = Template(""" +$prefix + +CONSTRUCT { + ?uid rdfs:label ?symbolName; + gnt:reason ?reason ; + gnt:species ?species ; + dct:references ?pmid ; + foaf:homepage ?weburl ; + rdfs:comment ?comment ; + foaf:mbox ?email ; + gnt:initial ?usercode ; + gnt:belongsToCategory ?category ; + gnt:hasVersion ?versionId ; + dct:created ?created ; + dct:identifier ?identifier . +} WHERE { + ?symbolId rdfs:label ?symbolName . + ?uid rdfs:comment ?comment ; + gnt:symbol ?symbolId ; + rdf:type gnc:GNWikiEntry ; + dct:created ?createTime . + FILTER ( LCASE(?symbolName) = LCASE('$symbol') ) . + { + SELECT (MAX(?vers) AS ?max) ?id_ WHERE { + ?symbolId rdfs:label ?symbolName . + ?uid dct:identifier ?id_ ; + dct:hasVersion ?vers ; + dct:identifier ?id_ ; + gnt:symbol ?symbolId . + FILTER ( LCASE(?symbolName) = LCASE('$symbol') ) . + } + } + ?uid dct:hasVersion ?max ; + dct:identifier ?id_ . + OPTIONAL { ?uid gnt:reason ?reason } . + OPTIONAL { + ?uid gnt:belongsToSpecies ?speciesId . + ?speciesId gnt:shortName ?species . + } . + OPTIONAL { ?uid dct:references ?pubmedId . } . + OPTIONAL { ?uid foaf:homepage ?weburl . } . + OPTIONAL { ?uid gnt:initial ?usercode . } . + OPTIONAL { ?uid gnt:mbox ?email . } . + OPTIONAL { ?uid gnt:belongsToCategory ?category . } . + BIND (str(?version) AS ?versionId) . + BIND (str(?id_) AS ?identifier) . + BIND (str(?pubmedId) AS ?pmid) . + BIND (str(?createTime) AS ?created) . +} +""").substitute(prefix=RDF_PREFIXES, symbol=symbol,) + context = BASE_CONTEXT | { + "foaf": "http://xmlns.com/foaf/0.1/", + "dct": "http://purl.org/dc/terms/", + "categories": "gnt:belongsToCategory", + "web_url": "foaf:homepage", + "version": "gnt:hasVersion", + "symbol": "rdfs:label", + "reason": "gnt:reason", + "species": "gnt:species", + "pubmed_id": "dct:references", + "email": "foaf:mbox", + "initial": "gnt:initial", + "comment": "rdfs:comment", + "created": "dct:created", + "id": "dct:identifier", + # This points to the RDF Node which is the unique identifier + # for this triplet. It's constructed using the comment-id and + # the comment-versionId + "wiki_identifier": "@id", + } + results = query_frame_and_compact( + query, context, + sparql_uri + ) + data = results.get("data") + if not data: + return results + return results -- cgit v1.2.3