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[bioontology-support] Display error in BioPortal. Re: Automatic ontology pull

Trish Whetzel whetzel at
Mon Apr 26 09:47:07 PDT 2010

Thanks! I put in a tracker item to request that AEO be added to the  
automatic pull process.


On Apr 26, 2010, at 9:11 AM, Allen Zuoshuang Xiang wrote:

> Hi Trish,
> I have included the metadata file. It can also be downloaded from 
> .
> Thanks,
> Allen
> On 4/25/2010 9:06 PM, Trish Whetzel wrote:
>> Yes, I noticed that and have a question/tracker item into Natasha  
>> to help resolve the issue regarding the display of the term labels.
>> We can certainly set-up AEO to pull automatically. Can you generate  
>> an ontology metadata file in the same format as used for VO and  
>> then send us the full path to the location to where this file has  
>> been uploaded?
>> Thanks!
>> Trish
>> On Apr 25, 2010, at 3:53 PM, Yongqun He wrote:
>>> Hi Trish,
>>> I am glad to hear from you again. It appears that VO is displayed  
>>> well in BioPortal. One note is that some terms like  
>>> obo:OBI_0000047 (processed material) and CHEBI:CHEBI_23367  
>>> (molecular entity) do not show the labels. I am not sure why.
>>> Also, recently I submitted another ontology AEO: Adverse Event  
>>> Ontology to BioPortal. Can I also use the automatic update  
>>> mechanism?
>>> Thanks!
>>> Oliver
>>> >>> Trish Whetzel <whetzel at> 4/25/2010 3:00 PM >>>
>>> Hi Oliver,
>>> I am writing to update you on a few items related to BioPortal and  
>>> the
>>> Vaccine ontology.  In cases where the hierarchy is displayed as a  
>>> flat
>>> list, we have found that this is due to one of the imported  
>>> ontologies
>>> not being available via the web at the time of loading the Vaccine
>>> ontology. We are able to correct the display if an imported ontology
>>> is not accessible via the web when loading VO and are monitoring new
>>> uploads of VO.
>>> We have also generated PURLs that can be used to refer to ontologies
>>> in BioPortal. For VO, this is 
>>> VO
>>> and will resolve to the 'visualize' page of the latest version of VO
>>> loaded into BioPortal.
>>> Best regards,
>>> Trish
>>> **********************************************************
>>> Electronic Mail is not secure, may not be read every day, and  
>>> should not be used for urgent or sensitive issues
> <ontologies.txt>

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