wiki:BBMRI_task2

Version 16 (modified by antonak, 14 years ago) (diff)

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

  1. Get access to http://gbic.target.rug.nl:8080/ (DONE)
  2. Added user at tomcat file , still cannot have access. Maybe should be in another file?
  3. 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)
    2. Install semantic search in bbmri :
      1. Check if plugin file exists ...ok (DONE)
      2. Check for configuration file if exists (DONE)
      3. Adapt connection variables between code & configuration . Some removed , some added, some more documenattion added. (DONE) .
      4. Check for configuration variables.
        1. Change index location . (DONE)
        2. Change the database field names that are used for the index . (DONE)
      5. (check other dependencies for manual file ) (DONE)
      6. when ready recreate both indexes to see if the are valid created. (DONE)
      7. create ontocat index (by running particular java file) (DONE)
      8. === search examples : search and ensure results make sense :Search for each table that have contents that make sense (to search) ===
  1. 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 sure that the search results make sense, i.e., list of features | biobank name - despoina
  • make from each element in this list a link to the right biobank (if you get stuck wait) - despoina