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[bioontology-support] reg. bioportal webservices

Trish Whetzel whetzel at stanford.edu
Tue Aug 10 16:09:11 PDT 2010


Thanks for updating the file.  All looks well from BioPortal.

Trish


On Aug 10, 2010, at 10:47 AM, Sridevi Polavaram wrote:

> Hi Trish:
> Yes, there is a minor bug in the file. Also, this time I used  
> protege 4.0 to view the OBO tree instead of OBO-Edit. Seems like the  
> new protege 4.0 obo parser is more robust to these minor errors.  
> Next time around I will make sure to open it in OBO-Edit before  
> uploading on bioportal.
> I have uploaded the new version onto the server now and it is  
> parsing. Hopefully, it should be fine this time!
> Thanks a lot,
> Sridevi
>
>
> Trish Whetzel wrote:
>> Hi Sridevi,
>>
>> Are you able to open the ontology file in OBO-Edit? I was not able  
>> to open the file in OBO-Edit and it opened only with warnings in  
>> OBO-Edit 2.  After opening in OBO-Edit 2, the hierarchy did not  
>> look correct. See attached screenshots.
>>
>> Can you send a screenshot of how you expect the root level of the  
>> hierarchy to look from OBO-Edit?
>>
>> Thanks,
>> Trish
>>
>>
>>
>>
>>
>>
>>
>> On Aug 10, 2010, at 8:44 AM, Trish Whetzel wrote:
>>
>>> The problem may be due to the format for the view being listed as  
>>> OWL instead of OBO. I'll update this and see if that resolves the  
>>> problem.
>>>
>>> Trish
>>>
>>>
>>>
>>> On Aug 10, 2010, at 7:16 AM, Sridevi Polavaram wrote:
>>>
>>>> Hi Trish and Paul:
>>>> I have uploaded a new version of NeuroMorpho.Org species ontology  
>>>> onto bioportal yesterday, today when I checked, it seemed to be  
>>>> ready, but when I clicked on explore button it is giving me a  
>>>> page not found error.
>>>> http://bioportal.bioontology.org/visualize/43052?view=true
>>>> Can you please check on this.
>>>> Thanks much!
>>>> Sridevi
>>>
>>> _______________________________________________
>>> bioontology-support mailing list
>>> bioontology-support at lists.stanford.edu
>>> https://mailman.stanford.edu/mailman/listinfo/bioontology-support
>>
>




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