Entering edit mode
4.2 years ago
mk
▴
300
I'm using both the format query parameter (SPARQL standard) and the HTTP Accept header (HTTP content negotiation) to specify my desired results format (application/sparql-results+xml) and it only returns the full web page with an embedded html table of results. Is there any documentation on this behavior?
Here is the request header included in the response from the endpoint for one of my queries which seems to indicate that the Accept-portion of the request has been properly understood (and ignored?):
GET /sparql?timeout=0&format=application%2Fsparql-results%2Bxml&query=PREFIX%20obo- term%3A%20%3Chttp%3A%2F%2Fpurl.obolibrary.org%2Fobo%2F%3E%0ASELECT%20%3Flabel%0Afrom%20%3Chttp%3A%2F%2Fpurl.obolibrary.org%2Fobo%2Fmerged%2FGO%3E%0AWHERE%0A%7B%0A%20%20%20%3Fannotation%20rdfs%3Alabel%20%3Flabel%20.%0A%20%20%20VALUES%20%3Fannotation%20%20%7B%3Chttp%3A%2F%2Fpurl.obolibrary.org%2Fobo%2FGO_0005829%3E%20%3Chttp%3A%2F%2Fpurl.obolibrary.org%2Fobo%2FGO_0005886%3E%20%3Chttp%3A%2F%2Fpurl.obolibrary.org%2Fobo%2FGO_0005654%3E%7D%20.%0A%7D%0A&debug=on HTTP/1.1
Accept: application/sparql-results+xml
Host: www.ontobee.org
User-Agent: HTTP.jl/1.4.2
Content-Length: 0
The response (which I am omitting for brevity) includes the desired results for this query but they are embedded in the source for the full human-readable page, how can I just get the xml?
How is this related to bioinformatics?
Ontobee is the default ontology for the Open Biomedical Ontology Foundry .
If there is a 'more standard' access point for the OBO I would be happy to try that instead!
Would posting to Ontobee google group be easier/appropriate?
I can't post without a mod accepting my join-request, which is currently pending :I
edit: see comment by @genomax and reply
Cool. If you get an answer there come back and update this thread with it. Would help someone in future.
Whoops, thanks for the link @genomax, somehow I missed that (my above reply concerned obo-discuss)
This question is now mirrored on ontobee-discuss, once a solution is tested I will post here