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Software Updates & Configuring New Database Project

A new project file will need to be created using the raw OWL file located in /app/protégé/data/Protégé_x.x/<PROTÉGÉ INSTANCE>.  Usually newer, more fresher data is available by the editors after performing a PROMPT of production data.  Each baseline file that is created after each session can be used as test data.  If however, by some reason, that an OWL file must be created manually,  instructions are available on how to export data from the production database.

• As long as no changes have been made to the behavior of the startup scripts, the following files and scripts should be copied over from the old Protégé.Server version to the new folder:
  

       run_rmiregistry.sh
      run_protege_ server_nci.sh
      shutdown_protege_server.sh
      codegen.properties
      codegen.dat 

• If you do need to use new scripts, make sure to adjust the memory upwards from the default in the run_protege_server_nci.sh script.  The following table dsisplays how much memory to allocate for each script, per tier.  You will also need to adjust the rmi.registry and rmi.server ports, the hostname and the metaproject location in this same file.  Please view Appendix A for port information for each tier.

• As long as no changes have been made to the behavior of the startup scripts, navigate to the Protégé.Client folder and transfer the following script:

       run_protege_BGT.sh (BiomedGT)  or  run_protege_NCIT.sh (NCIThesaurus)

• If you do need to use a new script, make sure the Xmx memory is adjusted upwards from the default from the table.

• As long as no changes have been made to the behavior of the startup scripts,  navigate to the Explanation.Server directory and transfer the following files:

       restart_explanation_server.sh
      stop_explanation_server.sh 
      start_explanation_server.sh

      *The (the path to the correct Protege server version will need to modified in this script.  To edit, type 'vi vi 
      start_explanation_server.sh' to view the script from the vi editor.  Type 'shift + I' and edit the server number to the correct correct 
      version number.  Press 'esc', then ':wq' to save changes and exit the editor).

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