''' Primary goal: to have the semantic search available for BBMRI catalog '''

 1. Get access to http://gbic.target.rug.nl:8080/ (DONE)
 1. Added user at tomcat file , still cannot have access. Maybe should be in another file?
 1. scheduled meeting with Eric to set it up through his account.

 * '''reintegrate the semantic search plugin and all dependencies - despoina'''

''' 1. Add the semantic plugin as a plugin inside the bbmri @pheno  '''

 1. First locally
   1. In order to  generate bbmri  we encountered some problem with the Entities  :   name="Contact"   and "Institute" . Conflict with existing entities in pheno model : <entity name="Contact" implements="Identifiable" xref_label="!FirstName,!LastName"> and <entity name="Institute" implements="Identifiable,Nameable" xref_label="name">. (DONE, generate success)
   1. Install semantic search in bbmri :
     1. Check if plugin file  exists ...ok (DONE)
     1. Check for configuration file if exists (DONE)
     1. Adapt connection variables between code & configuration . Some removed , some added, some more documenattion added. (DONE) .
     1. Check for configuration variables.
       1. Change index location . (DONE)
       1. Change the database field names that are used for the index . (DONE)
     1. (check other dependencies for manual file ) (DONE)
     1. when ready recreate both indexes to see if the are valid created. (DONE)
     1. create ontocat index (by running particular java file) (DONE)
     1. '''search examples  : search and ensure results make sense :Search for each table that have contents that make sense (to search)'''
       * Biobank :
         * "Agnes" (a name),
         * "HIV" (from description),
         * "musculoskeletal" (word inside description),
         * "EU-PACT-NL" found only with quotes.

 1. then upload to gbic server .

 * '''make from each element in this list a link to the right biobank (if you get stuck wait) - despoina'''