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[bioontology-support] HPO

Rakesh Nagarajan rakesh at pieriandx.com
Sat May 6 17:08:31 PDT 2017


Thanks for your response John. Will the BioPortal API function correctly to access this ontology or will that also be problematic?

> On May 6, 2017, at 6:53 PM, John Graybeal <jgraybeal at stanford.edu> wrote:
> 
> Rakesh,
> 
> There are a number of circumstances in which BioPortal can not effectively display the ontology tree. Given finite development time, we choose in those circumstances to avoid presenting a display which may be poorly formatted, difficult to use, or incorrect.
> 
> Obviously we'd like to to meet all needs as effectively as possible, but we recognize there are other tools that are meant explicitly for viewing and editing ontologies, and so we do not try to provide every feature for working with ontologies.
> 
> I am sorry we have not covered this particular situation, and we will look for an opportunity to do so in the future.
> 
> John
> 
> 
>> On May 6, 2017, at 12:23 PM, Rakesh Nagarajan <rakesh at pieriandx.com> wrote:
>> 
>> Hello,
>>      I got the above response to the HPO ontology. How can you list an ontology on your site and not have it loaded appropriately to browse it?
>> 
>> Thanks,
>> Rakesh
>> 
>>> On Fri, May 5, 2017 at 1:51 PM, Vincent Emonet <vincent.emonet at lirmm.fr> wrote:
>>> Hi,
>>> 
>>> It's due to the fact that no roots concepts have been found for this ontology. BioPortal needs those roots concepts to draw the Class tree.
>>> We can see that the root classes of an ontology in the REST API: http://data.bioontology.org/ontologies/HP/classes/roots
>>> Have a good day,
>>> 
>>> Vincent
>>> 
>>> 
>>> On 05/05/2017 08:05, Rakesh Nagarajan wrote:
>>>> Hello,
>>>>      I am trying to access http://bioportal.bioontology.org/ontologies/HP?p=classes&conceptid=root. However, there is an error stating:
>>>> 
>>>> The page you are looking for wasn't found. Please try again.
>>>> 
>>>> 
>>>> Please fix and let me know when I can access this page.
>>>> 
>>>> Thanks,
>>>> Rakesh
>>>> 
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>>>> 
>>>> 
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>> 
>> 
>> 
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>> 
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> 
> ========================
> John Graybeal
> Technical Program Manager
> Center for Expanded Data Annotation and Retrieval /+/ NCBO BioPortal
> Stanford Center for Biomedical Informatics Research
> 650-736-1632  
> skype: graybealski
> 
> 
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