Search Mailing List Archives


Limit search to: Subject & Body Subject Author
Sort by: Reverse Sort
Limit to: All This Week Last Week This Month Last Month
Select Date Range     through    

[bioontology-support] procedures CPT

Trish Whetzel whetzel at stanford.edu
Tue May 25 10:44:16 PDT 2010


To get the list of ontologies accessible via the Hierarchy Web  
services, the call is: http://rest.bioontology.org/obs/ontologies.   
For more documentation on the Production Hierarchy Web services see: http://www.bioontology.org/wiki/index.php/NCBO_REST_services#Hierarchy_Services 
.

Trish


On May 25, 2010, at 9:53 AM, Arvinder Choudhary wrote:

> We trying to build CPT hierarchy table (umls)
> In the code (ComputeHierarchies.java) what Production service URL  
> should put instead of the below serverURL
>     private static final String serverUrl ="http://ncbolabs-dev2.stanford.edu:8080/OBS_v1/obs/ 
> ";
>
>
> >>> Nigam Shah <nigam at stanford.edu> 5/25/2010 10:35 AM >>>
> Hey .. you are hitting the ncbolabs-dev2 machine ... that is our  
> sandbox. Please use the production service URLs from the wiki links  
> below. The prod boxes should not time out.
>
> Also, if you run into issues on hitting prod, email support at bioontology.org 
>  .. I am out of town starting today (actually on vacation right now)  
> so might not be able to respond.
>
> Regards,
> Nigam.
>
>
> On Tue, May 25, 2010 at 8:18 AM, Arvinder Choudhary <achoudhary at kumc.edu 
> > wrote:
> Nigam:
> While executing the step 5 to create a file we are getting time out  
> issue (attaching the snapshot to the email). Please advice
> Arvinder
>
> 1 - you specify an ontology to extract (or a root node that you want  
> to extract the branch under)
>
> 2 - the code simply calls the services at: http://www.bioontology.org/wiki/index.php/NCBO_REST_services
> - specifically "get term" http://www.bioontology.org/wiki/index.php/NCBO_REST_services#Get_term_for_latest_ontology_version_id
> - and then recursively "get children" http://www.bioontology.org/wiki/index.php/NCBO_REST_services#Get_parents.2Fchildren_of_a_given_concept_in_the_latest_version_of_a_given_ontology
>
> 3 - parses the XML using a few XPATH expressions and writes out the  
> information the information in the i2b2 format.
>
>
> _______________________________________________
> bioontology-support mailing list
> bioontology-support at lists.stanford.edu
> https://mailman.stanford.edu/mailman/listinfo/bioontology-support

-------------- next part --------------
An HTML attachment was scrubbed...
URL: <http://mailman.stanford.edu/pipermail/bioontology-support/attachments/20100525/da89ac88/attachment.html>


More information about the bioontology-support mailing list