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| author | Munyoki Kilyungi | 2023-10-24 11:05:13 +0300 |
|---|---|---|
| committer | BonfaceKilz | 2023-10-27 13:45:32 +0300 |
| commit | 724f809233730782af35e5702cd6aadfac7c9512 (patch) | |
| tree | f0c0f4be82db6b49d04a73c7fad34ffe21035f96 | |
| parent | 747d550d7bdbb150b806cbd4b08caf6075d51697 (diff) | |
| download | genenetwork3-724f809233730782af35e5702cd6aadfac7c9512.tar.gz | |
Implement "GET /species/:name".
* gn3/api/metadata.py (fetch_species): New end-point. Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
| -rw-r--r-- | gn3/api/metadata.py | 50 |
1 files changed, 49 insertions, 1 deletions
diff --git a/gn3/api/metadata.py b/gn3/api/metadata.py index eb7a599..ce4b689 100644 --- a/gn3/api/metadata.py +++ b/gn3/api/metadata.py @@ -648,10 +648,58 @@ CONSTRUCT { results.serialize(format="json-ld") ) return jsonld.compact(results, { - "@context": PREFIXES | { + "@context": { + "data": "@graph", + "type": "@type", + "id": "@id", + "skos": "http://www.w3.org/2004/02/skos/core#", + "gnt": "http://genenetwork.org/term/", + "rdfs": "http://www.w3.org/2000/01/rdf-schema#", + "name": "rdfs:label", + "family": "gnt:family", + "shortName": "gnt:shortName", + "alternateName": "skos:altLabel", + "taxonomicId": "skos:notation", + "fullName": "skos:prefLabel", + }, + }) + except (RemoteDisconnected, URLError): + return jsonify({}) + +@metadata.route("/species/<name>", methods=["GET"]) +def fetch_species(name): + """Fetch a Single species information""" + try: + sparql = SPARQLWrapper(current_app.config.get("SPARQL_ENDPOINT")) + sparql.setQuery(Template(""" +$prefix + +CONSTRUCT { + ?species ?predicate ?object . +} WHERE { + ?species ^skos:member gnc:Species ; + gnt:shortName "$name" ; + ?predicate ?object . + VALUES ?predicate { + rdfs:label skos:prefLabel + skos:altLabel gnt:shortName + gnt:family skos:notation + } + +} +""").substitute(prefix=RDF_PREFIXES, name=name)) + results = sparql.queryAndConvert() + results = json.loads( + results.serialize(format="json-ld") + ) + return jsonld.compact(results, { + "@context": { "data": "@graph", "type": "@type", "id": "@id", + "skos": "http://www.w3.org/2004/02/skos/core#", + "gnt": "http://genenetwork.org/term/", + "rdfs": "http://www.w3.org/2000/01/rdf-schema#", "name": "rdfs:label", "family": "gnt:family", "shortName": "gnt:shortName", |