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[bioontology-support] mappings/REST

Trish Whetzel whetzel at stanford.edu
Fri Jul 17 21:24:35 PDT 2009


The response on including Notes in the exported Mappings RDF is that  
the Notes are not included by design as it could cause XML bloat. The  
authority is the person that did the mapping.

Trish


On Jul 14, 2009, at 8:22 AM, Trish Whetzel wrote:

> Is the request to be able to specify other kinds of mapping  
> relationships through the web interface? In the UI for adding a new  
> point-to-point mapping the only relationship option I see is  
> bidirectional, e.g. http://bioportal.bioontology.org/visualize/40177/CL%253A0000627
>
> As for the mapping RDF not including the comments or Notes  
> information, that has been reported as a bug: https://bmir-gforge.stanford.edu/gf/project/bioportal_core/tracker/?action=TrackerItemEdit&tracker_item_id=1308 
> .
>
> I am not familiar with the field 'authority', and will check with  
> Natasha later this week when she is back in the office.
>
> Trish
>
> On Jul 8, 2009, at 10:59 AM, Alexander Garcia Castro wrote:
>
>> Thanks for the reply, I have exported some of the available  
>> mappings. we are generating a tool to explore the mappings via a  
>> gui based on prefuse libraries(http://prefuse.org/) -see attached  
>> jpg file. We have 3 months to get this done. one question:
>>
>> - when I export the RDF with the mapping I dont get the actual  
>> relationship between the ontologies -mappings:relationship. A  
>> mapping is a relationship between two classes that belong to two  
>> different ontologies, the mapping is a relationship of some kind.  
>> the definition of that relationship is not visible. for instance, I  
>> cant say class 1 in onto1 is mapped to class 2 in onto 2 by means  
>> of "is equivalent to". the relationship "is equivalent to may be  
>> different, may be anything.
>> -the comment is not visible either. same is true for authority (BTW  
>> what is authority?).
>>
>> We have seen this is supported in the DB, it is possibly an  
>> omission in the DB insertion. We could fix this here, but I would  
>> like to make sure we are not wrong on this issue and also that I am  
>> coordinated with you.
>>
>> Thanks in advance, cheers.
>>
>> PS I am ccing to Omar, he is our bioportal guy. Cheers.
>>
>> On Wed, Jul 1, 2009 at 6:13 PM, Natasha Noy <noy at stanford.edu> wrote:
>> Unfortunately, at the moment we don't have REST service access to  
>> mappings :( We are working on it and should have it by the end of  
>> teh Summer when we move the mappings into a different backend.
>>
>> What is your timeline? Would it work if we just give you a dump of  
>> all the mappings? They don't get updated too frequently anyway.
>>
>> Natasha
>>
>>
>>
>> On Jun 30, 2009, at 9:12 AM, Alexander Garcia Castro wrote:
>>
>> Dear Support Staff. I would like to get the RDF for some mappings.  
>> I would like to know which web service should I use in order to get  
>> a specific mapping, or those mappings available for a concept  
>> within an ontology. I would then like to post process the mappings  
>> via a protege plug in I am working on. This P4 plug in allows to  
>> visualize the mappings.
>>
>> -- 
>> Alexander Garcia
>> http://www.alexandergarcia.name/
>> http://www.usefilm.com/photographer/75943.html
>> _______________________________________________
>> bioontology-support mailing list
>> bioontology-support at lists.stanford.edu
>> https://mailman.stanford.edu/mailman/listinfo/bioontology-support
>>
>>
>>
>>
>> -- 
>> Alexander Garcia
>> http://www.alexandergarcia.name/
>> http://www.usefilm.com/photographer/75943.html
>> _______________________________________________
>> bioontology-support mailing list
>> bioontology-support at lists.stanford.edu
>> https://mailman.stanford.edu/mailman/listinfo/bioontology-support
>
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