import java.util.ArrayList;
import java.util.Collection;
import java.util.HashSet;
import java.util.Iterator;
 
import edu.stanford.smi.protege.model.Cls;
import edu.stanford.smi.protege.model.KnowledgeBase;
import edu.stanford.smi.protege.model.Project;
 
//This Program will output a complete list of distinct slots within a Protege Frames Project file.
 
public class jokke
{
      private static final String PROJECT_FILE_NAME = "C:\\MC\\RadLex.pprj";
      public static void main(String[] args)
      {
            HashSet idsLoaded = new HashSet();
            Collection errors = new ArrayList();
        Project project = new Project(PROJECT_FILE_NAME, errors);
        KnowledgeBase kb = project.getKnowledgeBase();
        ArrayList distinctSlotList = new ArrayList();
        //get Class iterator
        Iterator radClsIter = kb.getClses().iterator();
        //loop through each class
        while ( radClsIter.hasNext())
        {
            //get Cls object
            Cls currentClass = (Cls) radClsIter.next();
            //String for a comma deliminated list of slots
            String slotsString = currentClass.getOwnSlots().toString();
            String [] clsSlotComponents = slotsString.split(",");
            //loop through each slot
            for ( int i = 0 ; i <  clsSlotComponents.length; i++ )
            {
                  //check to see if particular slot already exists in ArrayList
                  if ( distinctSlotList.contains(clsSlotComponents[i].trim().replaceAll("\\[|\\]", "")))
                  {}
                  else
                  {
                        distinctSlotList.add(clsSlotComponents[i].trim().replaceAll("\\[|\\]", ""));
                  }
            }
        }
 
        Iterator iterator = distinctSlotList.iterator();
        while(iterator.hasNext())
        {
            System.out.println(iterator.next());
        }
      }
}

import edu.stanford.smi.protege.model.Cls;
import edu.stanford.smi.protege.model.Instance;
import edu.stanford.smi.protege.model.KnowledgeBase;
import edu.stanford.smi.protege.model.Project;
import edu.stanford.smi.protege.model.Slot;

//Get the project file of the lexicon you want to manipulate
private static final String PROJECT_FILE_Pointer = "C:\\smelo\\RadLex.pprj";

//errors object is required in getting the project
Collection errors = new ArrayList();
//Get Project project
Project project = new Project(PROJECT_FILE_Pointer, errors);
//Get Knowledgebase kb
KnowledgeBase kb = project.getKnowledgeBase();

//RadLex Class iterator
Iterator radClsIter = kb.getClses().iterator();

while( radClsIter.hasNext() )
{
	Cls currentClass = radClsIter.next();
}

String slotName = "Preferred_name"; 
 
Iterator slotIter = currentClass.getOwnSlots().iterator();
 
//Iterate through the slots
while( slotIter.hasNext() )
{
	Slot currentSlot = slotIter.next();
 
	//Compare the slot name with your slotName String
	if( slotName.equals( currentSlot.getName() ) )
    	{
		Object slotContentObject = null;
 
		//Create another iterator for the content of the slot
    		Iterator iterSlotContent = currentClass.getOwnSlotValues(currentSlot).iterator();
 
    		if( iterSlotContent.hasNext() )
    		{
    			slotContentObject = iterSlotContent.next(); 
 
			//if the content of a slot is of type Instance
    			if(slotContentObject instanceof Instance)
  			{
				//cast to Instance
    				Instance instSlotValue = (Instance) slotContentObject;
 
				//use the method getBrowserText() on the Instance to get its String content
    				System.out.println(instSlotValue.getBrowserText());
    			}
    		}
    	}
}

String slotName = "Definition"; 
 
//get the Cls object of the Term/Concept/Class
Cls myConcept = kb.getCls( "RID35712" );
 
Iterator myConceptClsIter = myConcept.getOwnSlots().iterator();
while( myConceptClsIter.hasNext() )
{
	Slot currentSlot = myConceptClsIter.next();
	if(slotName.equals(currentSlot.getName()) )
	{
		//set new Definition
		myConcept.setOwnSlotValue(currentSlot, "This is my new Definition for Term RID35712");
	}
}
 
//save changes
project.save(errors);

Iterator radClsIter = kb.getClses().iterator();
 
while( radClsIter.hasNext() ){
        Cls currentClass = radClsIter.next();
        String prefName = findPreferredName(currentClass);
 
        String slotName = "Synonym";
        Iterator slotIter = currentClass.getOwnSlots().iterator();
 
        while( slotIter.hasNext() )
        {
    		Slot currentSlot = slotIter.next();
    		if(slotName.equals(currentSlot.getName()) )
    		{
    			Object slotContentObject = null;
    			Iterator iterSlotContent = currentClass.getOwnSlotValues(currentSlot).iterator();
    			if( iterSlotContent.hasNext() )
    			{
    				slotContentObject = iterSlotContent.next();
    				if(slotContentObject instanceof Instance)
    				{
    					Instance instSlotValue = (Instance) slotContentObject;
    					System.out.println(instSlotValue.getBrowserText());
    				}
    			}
    		}
    	}
}

Collection myCol =   kb.getClsNameMatches("RID35712",1);
kb.createCls("RID12345", myCol);