diff options
Diffstat (limited to 'gn3/db')
| -rw-r--r-- | gn3/db/rdf/wiki.py | 52 |
1 files changed, 25 insertions, 27 deletions
diff --git a/gn3/db/rdf/wiki.py b/gn3/db/rdf/wiki.py index f19670a..f2030ca 100644 --- a/gn3/db/rdf/wiki.py +++ b/gn3/db/rdf/wiki.py @@ -186,11 +186,10 @@ CONSTRUCT { def update_wiki_comment( - comment_id: int, - payload: dict, - created: str, - next_version: int, - sparql_conf: dict, + insert_dict: dict, + sparql_user: str, + sparql_password: str, + sparql_auth_uri: str, graph: str = "<http://genenetwork.org>", ) -> tuple[str, int]: """Update a wiki comment by inserting a comment with the same @@ -220,7 +219,7 @@ looks like: } } """ - name = f"gn:wiki-{comment_id}-{next_version}" + name = f"gn:wiki-{insert_dict['Id']}-{insert_dict['versionId']}" comment_triple = Template("""$name rdf:label '''$comment'''@en ; rdf:type gnc:GNWikiEntry ; gnt:symbol "$symbol" ; @@ -228,31 +227,31 @@ dct:identifier "$comment_id"^^xsd:integer ; dct:hasVersion "$next_version"^^xsd:integer ; dct:created "$created"^^xsd:datetime . """).substitute( - comment=payload["comment"], - name=name, symbol=payload['symbol'], - comment_id=comment_id, next_version=next_version, - created=created) + comment=insert_dict["comment"], + name=name, symbol=insert_dict['symbol'], + comment_id=insert_dict["Id"], next_version=insert_dict["versionId"], + created=insert_dict["createtime"]) using = "" - if payload["email"]: - comment_triple += f"{name} foaf:mbox <{payload['email']}> .\n" - if payload["initial"]: - comment_triple += f"{name} gnt:initial \"{payload['initial']}\" .\n" - if payload["species"]: + if insert_dict["email"]: + comment_triple += f"{name} foaf:mbox <{insert_dict['email']}> .\n" + if insert_dict["initial"]: + comment_triple += f"{name} gnt:initial \"{insert_dict['initial']}\" .\n" + if insert_dict["species"]: comment_triple += f"{name} gnt:belongsToSpecies ?speciesId .\n" using = Template( """ USING $graph WHERE { ?speciesId gnt:shortName "$species" . } """).substitute( - graph=graph, species=payload["species"] + graph=graph, species=insert_dict["species"] ) - if payload["reason"]: - comment_triple += f"{name} gnt:reason \"{payload['reason']}\" .\n" - if payload["web_url"]: - comment_triple += f"{name} foaf:homepage <{payload['web_url']}> .\n" - for pmid in payload["pubmed_ids"]: + if insert_dict["reason"]: + comment_triple += f"{name} gnt:reason \"{insert_dict['reason']}\" .\n" + if insert_dict["weburl"]: + comment_triple += f"{name} foaf:homepage <{insert_dict['weburl']}> .\n" + for pmid in insert_dict["PubMed_ID"].split(): comment_triple += f"{name} dct:references pubmed:{pmid} .\n" - for category in payload["categories"]: + for category in insert_dict["categories"]: comment_triple += f'{name} gnt:belongsToCategory "{category}".\n' - res = update_rdf( + return update_rdf( query=Template( """ $prefix @@ -265,8 +264,7 @@ $comment_triple} graph=graph, comment_triple=comment_triple, using=using), - sparql_user=sparql_conf["sparql_user"], - sparql_password=sparql_conf["sparql_password"], - sparql_auth_uri=sparql_conf["sparql_auth_uri"], + sparql_user=sparql_user, + sparql_password=sparql_password, + sparql_auth_uri=sparql_auth_uri, ) - return (res, 200) |