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[bioontology-support] Feedback

Natasha Noy noy at stanford.edu
Thu Apr 29 12:03:38 PDT 2010


Sounds like a plan.

Natasha


On Apr 29, 2010, at 11:03 AM, Paul R Alexander wrote:

> I wasn't sure why they had no root nodes, especially as some of them  
> have older versions which work correctly. If the ontologies just  
> lack root nodes, I think we should add them to the "can't explore"  
> list, which is maintained in the bioportal config options.
>
> Paul
>
> On 4/28/10 8:38 PM, Natasha Noy wrote:
>> So, for all the cases besides HL7, there are no root nodes,  
>> basically. The same is true for OBO relationships. We don't have an  
>> "explore" link there. Is that disabled manually? Should we disable  
>> it for these ontologies as well? Should we check for 0 roots and  
>> display some meaningful message?
>>
>> Natasha
>>
>>
>> On Apr 28, 2010, at 4:18 PM, Paul R Alexander wrote:
>>
>>> Most of these have empty results for subclasses at the root node  
>>> so there's nothing to visualize. Not sure if this is due to an  
>>> error in parsing or an error in returning results for root.
>>>    • HL7 (42545): Known issue
>>>    • TOK (42176): Problem displaying the root node from the REST  
>>> service
>>>http://rest.bioontology.org/bioportal/concepts/42176?conceptid=root
>>>    • Cancer Research and Management ACGT Master Ontology (42497):  
>>> Problem displaying the root node from the REST service
>>>http://rest.bioontology.org/bioportal/concepts/42497?conceptid=root
>>>    • ICPC-2 PLUS (42297): Problem displaying the root node from  
>>> the REST service
>>>http://rest.bioontology.org/bioportal/concepts/42297?conceptid=root
>>> I don't see how it would be possible for Safari to display some of  
>>> these, so I don't think that's an issue.
>>>
>>> Paul
>>>
>>> On 4/28/10 4:07 PM, Trish Whetzel wrote:
>>>>
>>>> Yes, HL7 is due to a different problem and will be resolved later  
>>>> today following production push of code.
>>>>
>>>> Trish
>>>>
>>>>
>>>> On Apr 28, 2010, at 4:02 PM, Anna Tordai wrote:
>>>>
>>>>> Same applies for HL7 on both firefox and safari:
>>>>> http://bioportal.bioontology.org/visualize/42545
>>>>>
>>>>> On Apr 28, 2010, at 3:54 PM, Natasha Noy wrote:
>>>>>
>>>>>> It doesn't work for me in either firefox or safari
>>>>>>
>>>>>> Natasha
>>>>>>
>>>>>>
>>>>>> On Apr 28, 2010, at 3:50 PM, Trish Whetzel wrote:
>>>>>>
>>>>>>> What browser are you using? I just tested with Firefox and  
>>>>>>> Safari and had errors with Firefox, but the same link worked  
>>>>>>> in Safari. Paul did not experience the same error.
>>>>>>>
>>>>>>> Trish
>>>>>>>
>>>>>>>
>>>>>>> On Apr 28, 2010, at 3:48 PM, Anna Tordai wrote:
>>>>>>>
>>>>>>>> Same thing happened with TOK ontology.
>>>>>>>>
>>>>>>>> http://bioportal.bioontology.org/visualize/42176
>>>>>>>>
>>>>>>>>
>>>>>>>> On Apr 28, 2010, at 3:28 PM, Trish Whetzel wrote:
>>>>>>>>
>>>>>>>>> Hi Anna,
>>>>>>>>>
>>>>>>>>> Thanks for reporting this error. Paul do you know why this  
>>>>>>>>> is happening?
>>>>>>>>>
>>>>>>>>> Trish
>>>>>>>>>
>>>>>>>>>
>>>>>>>>> On Apr 28, 2010, at 2:58 PM, admin at bioontology.org wrote:
>>>>>>>>>
>>>>>>>>>> Name : Anna Tordai
>>>>>>>>>>
>>>>>>>>>> Email : atordai at cs.vu.nl
>>>>>>>>>>
>>>>>>>>>> Comment:
>>>>>>>>>> When trying to explore the Master Drug Database the  
>>>>>>>>>> following error came up:
>>>>>>>>>> "The page you are looking for wasn't found. Please try  
>>>>>>>>>> again."
>>>>>>>>>>
>>>>>>>>>> The page link:
>>>>>>>>>> http://bioportal.bioontology.org/visualize/42284
>>>>>>>>>> _______________________________________________
>>>>>>>>>> bioontology-support mailing list
>>>>>>>>>> bioontology-support at lists.stanford.edu
>>>>>>>>>> https://mailman.stanford.edu/mailman/listinfo/bioontology-support
>>>>>>>>>
>>>>>>>>
>>>>>>>
>>>>>>> Trish Whetzel, PhD
>>>>>>> Outreach Coordinator
>>>>>>> The National Center for Biomedical Ontology
>>>>>>> Ph: 650-721-2378
>>>>>>> whetzel at stanford.edu
>>>>>>> http://www.bioontology.org
>>>>>>>
>>>>>>>
>>>>>>>
>>>>>>> _______________________________________________
>>>>>>> bioontology-support mailing list
>>>>>>> bioontology-support at lists.stanford.edu
>>>>>>> https://mailman.stanford.edu/mailman/listinfo/bioontology- 
>>>>>>> support
>>>>>>
>>>>>
>>>>
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>>>> bioontology-support at lists.stanford.edu
>>>> https://mailman.stanford.edu/mailman/listinfo/bioontology-support
>>> _______________________________________________
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>>> bioontology-support at lists.stanford.edu
>>> https://mailman.stanford.edu/mailman/listinfo/bioontology-support
>>




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