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[bioontology-support] OLD Rest API

Paul R Alexander palexander at stanford.edu
Thu Oct 9 16:26:35 PDT 2014


The return from the REST service (both the old and new one) should not vary regardless of how many search terms are provided as input. It will always return classes that best match the search query input.

Paul


On Oct 9, 2014, at 3:22 AM, Alejandro Barahona <abarahona at infomed.dia.fi.upm.es> wrote:

> Hi Paul
> 
> I want to know if you knew what the old api returns on the field contents of the search bioportal (uri: ./search/?query={uri-encoded query}[&{optional args}]&apikey={YourAPIKey}) .
> I search in the example on the wiki but it is for a query of 1 word and i have no idea what to do with the field "contents" when the term match with more than 1 word on the query.
> 
> Regards,
> Alejandro.
> 
> 2014-10-03 20:51 GMT+02:00 Paul R Alexander <palexander at stanford.edu>:
> Sorry, we do not have examples of the old REST response formats. You will have to reverse engineer it from your tool’s code or update to use the new REST API.
> 
> Paul
> 
> 
> On Oct 3, 2014, at 12:22 AM, Alejandro Barahona <abarahona at infomed.dia.fi.upm.es> wrote:
> 
>> Paul,
>> 
>> I know it is now deprecated but i need to know what it returns because i need to make a similar document so our tool could read it as it does before it was deprecated
>> 
>> 2014-10-02 19:24 GMT+02:00 Paul R Alexander <palexander at stanford.edu>:
>> Alejandro,
>> 
>> The REST API available at rest.bioontology.org is now deprecated. You will need to use the calls that I indicated that are available at data.bioontology.org. Documentation on using the new API is here: http://data.bioontology.org/documentation
>> 
>> Paul
>> 
>> 
>> On Oct 2, 2014, at 12:06 AM, Alejandro Barahona <abarahona at infomed.dia.fi.upm.es> wrote:
>> 
>>> Hi paul
>>> 
>>> What i want to know is if exists any example of the xml result of making that call (" http://rest.bioontology.org/bioportal/virtual/rootpath/{ontologyId}/{conceptId}[?apikey={YourAPIKey}&{optional args}]"), i search for it at wiki but the example returns: 
>>> 
>>> <errorStatus>
>>> <accessedResource>/bioportal/virtual/rootpath/1032/C3224</accessedResource>
>>> <accessDate>2014-10-02 00:05:39.735 PDT</accessDate>
>>> <shortMessage>Internal Server Error</shortMessage>
>>> <longMessage>
>>> White spaces are required between publicId and systemId.
>>> </longMessage>
>>> <errorCode>500</errorCode>
>>> </errorStatus>
>>> 
>>> 
>>> Alejandro
>>> 
>>> 2014-10-02 2:03 GMT+02:00 Paul R Alexander <palexander at stanford.edu>:
>>> Alejandro,
>>> 
>>> There are two things that could be useful to replace that call. The first is getting ancestors for a given class:
>>> http://data.bioontology.org/ontologies/NCIT/classes/http%3A%2F%2Fncicb.nci.nih.gov%2Fxml%2Fowl%2FEVS%2FThesaurus.owl%23C3224/ancestors
>>> 
>>> The second would be the tree representation:
>>> http://data.bioontology.org/ontologies/NCIT/classes/http%3A%2F%2Fncicb.nci.nih.gov%2Fxml%2Fowl%2FEVS%2FThesaurus.owl%23C3224/tree
>>> 
>>> The second is really only useful for drawing a tree for a UI because if there are multiple paths between the given class and the root node then it just selects one. Ancestors should give you all the paths.
>>> 
>>> Paul
>>> 
>>> 
>>> On Oct 1, 2014, at 12:29 AM, Alejandro Barahona <abarahona at infomed.dia.fi.upm.es> wrote:
>>> 
>>>> Hi
>>>> 
>>>> Im a developer and i was fixing a tool with the new api, but it uses the old api and i have to return some thigs like it does, i have one question: Is there any example result of the query,  http://rest.bioontology.org/bioportal/virtual/rootpath/1032/C3224?apikey=YourAPIK, maked with the old api???
>>>> 
>>>> Regards,
>>>> Alejandro.
>>>> _______________________________________________
>>>> bioontology-support mailing list
>>>> bioontology-support at lists.stanford.edu
>>>> https://mailman.stanford.edu/mailman/listinfo/bioontology-support
>>> 
>>> 
>> 
>> 
> 
> 

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