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[protege-discussion] UMLS in Protege but not over the network

Tania Tudorache tudorache at stanford.edu
Wed Feb 6 11:03:47 PST 2008


Mitch,

Mitch Harris wrote:
> On Feb 5, 2008 8:04 PM, Tania Tudorache <tudorache at stanford.edu> wrote:
>   
>> I found the place in code where the tab connects to the UMLS RMI server
>> (at //umlsks.nlm.nih.gov/KSSRetriever). Would it help if I would make
>> the server name configurable? Of course, this makes sense, only if you
>> are able to install the server locally.
>>     
>
> searching the UMLSKS website I find:
>
>   http://umlsks.nlm.nih.gov/kss/servlet/Turbine/template/docs%2CDevelGuide%2Cchapter2.vm
>
> which basically says that they're working on it but currently you
> can't run a local KSS server. So the absolute easiest thing (run the
> server locally, allow one to configure the name of the server for
> UMLSTab) might be possible eventually, but is not possible right now.
>
> The next level would be to bypass the UMLSTab and explicitly link the
> two statically, that is using the Protege API and UMLS API on the
> static downloaded UMLSKS files. Unfortunately, that has a higher
> labor/time/learning curve cost to it.
>
>   

I think you will be able to reuse almost all the code from the UMLSTab 
that interacts with the KSS-API. If they have a method to load a UMLS 
model from a file in KSS-API, then all you'll have to do is to replace 
the initialization method, which is very easy to do.

Just a thought..

Tania


> Any suggestions to making this easier would be very welcome.
>
> Mitch
>
>
>   
>> Mitch Harris wrote:
>>     
>>> I want to include terms from UMLS in an ontology I'm developing with
>>> Protege. I have used successfully in the past the UMLSKS service with
>>> the UMLS tab. But now I happen to be behind a firewall where it is
>>> possible but a bureaucratic nightmare to get the requisite port
>>> opened.
>>>
>>> Surely it is possible to use Protege with the downloaded UMLS files.
>>> But possible doesn't mean easy. Is there code/a tab that doesn't use
>>> an IP address but rather the the local file location? Or some obvious
>>> solution that I am missing?
>>>
>>> Thanks for any pointers,
>>> Mitch
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>>     
>
>
>
>   




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