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[bioontology-support] [BioPortal] Ontology for Biomedical Investigations Parsing Failed

Jie Zheng jiezheng at pcbi.upenn.edu
Tue Apr 10 07:12:30 PDT 2012


Hi Trish,

Any progress on loading OBI? It still shows 'parsing error' on the 
Bioportal website and we have uploaded the ontology 10 days ago.

Thanks,

Jie


On 4/5/2012 4:39 PM, Trish Whetzel wrote:
> Hi Jie,
>
> Yes, the issue is being reviewed. A ClassCastException error was 
> found. I don't yet have more details on what needs to be done to 
> resolve the issue.
>
> Trish
>
>
> On Apr 5, 2012, at 1:08 PM, Jie Zheng wrote:
>
>> Is anyone in charge of the parsing error issue of OBI? Any issue we 
>> need to fix in the submitted ontology?
>>
>> Thanks,
>>
>> Jie
>>
>> On 4/2/2012 10:39 AM, Jie Zheng wrote:
>>> Hi,
>>>
>>> The new version of OBI uploaded on March 30 is the version that 
>>> imports BFO 2.0 (prerelease) 
>>> (http://purl.obolibrary.org/obo/bfo.owl) which has problem to be 
>>> opened by Protege 3.4. The one uploaded on April 1 merged BFO to 
>>> OBI. It is no problem to be opened using Protege v3.4 and Protege 
>>> v4.1. Reasoning using Hermit on Protege 4.1 works fine as well. 
>>> Please let me know if you find any issue.
>>>
>>> Thanks,
>>>
>>> Jie
>>>
>>> On 4/2/2012 2:34 AM, support at bioontology.org 
>>> <mailto:support at bioontology.org> wrote:
>>>> Ontology for Biomedical Investigations parsing failed.
>>>>
>>>> The BioPortal team is investigating the issue.
>>>>
>>>> Please contact support at bioontology.org 
>>>> <mailto:support at bioontology.org> if you have questions.
>>>>
>>>> Thank you,
>>>> The BioPortal Team
>>>
>>> _______________________________________________
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>>> bioontology-support at lists.stanford.edu 
>>> <mailto:bioontology-support at lists.stanford.edu>
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>>
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>> <mailto:bioontology-support at lists.stanford.edu>
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>
> Trish Whetzel, PhD
> Outreach Coordinator
> The National Center for Biomedical Ontology
> Ph: 650-721-2378
> http://www.bioontology.org
>
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