Minor adaptions to post-processing, BeanInspector.

src/javaeva/OptimizerFactory.java

@@ -3,7 +3,6 @@ package javaeva;
 import java.util.BitSet;
 import java.util.Vector;
 
-import javaeva.gui.BeanInspector;
 import javaeva.server.go.IndividualInterface;
 import javaeva.server.go.InterfacePopulationChangedEventListener;
 import javaeva.server.go.InterfaceTerminator;
@@ -41,7 +40,6 @@ import javaeva.server.go.strategies.ParticleSwarmOptimization;
 import javaeva.server.go.strategies.SimulatedAnnealing;
 import javaeva.server.go.strategies.Tribes;
 import javaeva.server.modules.GOParameters;
-import javaeva.tools.SelectedTag;
 
 /**
  * <p>
@@ -73,49 +71,20 @@ public class OptimizerFactory {
 	private static InterfaceTerminator	term	         = null;
 
 	public final static int	           STD_ES	         = 1;
-
 	public final static int	           CMA_ES	         = 2;
-
 	public final static int	           STD_GA	         = 3;
-
 	public final static int	           PSO	           = 4;
-
 	public final static int	           DE	             = 5;
-
 	public final static int	           TRIBES	         = 6;
-
 	public final static int	           RANDOM	         = 7;
-
 	public final static int	           HILLCL	         = 8;
-
 	public final static int	           CBN_ES	         = 9;
-
 	public final static int	           CL_HILLCL	     = 10;
 
 	public final static int	           defaultFitCalls	= 10000;
-
 	public final static int	           randSeed	       = 0;
-
 	private static OptimizerRunnable	 lastRunnable	   = null;
 
-	/**
-	 * The topologies for the PSO algorithm. Contains
-	 * <ul>
-	 * <li>Linear</li>
-	 * <li>Grid</li>
-	 * <li>Star</li>
-	 * <li>Multi-Swarm</li>
-	 * <li>Tree</li>
-	 * <li>HPSO</li>
-	 * <li>Random
-	 * </ul>
-	 */
-	public static SelectedTag	         topology	       = new SelectedTag(
-	                                                       "Linear", "Grid",
-	                                                       "Star", "Multi-Swarm",
-	                                                       "Tree", "HPSO",
-	                                                       "Random");
-
 	/**
 	 * Add an InterfaceTerminator to any new optimizer in a boolean combination.
 	 * The old and the given terminator will be combined as in (TOld && TNew) if
@@ -176,19 +145,16 @@ public class OptimizerFactory {
 		es.setPlusStrategy(false);
 		
 		// TODO improve this by adding getEAIndividual to AbstractEAIndividual? 
-		Object maybeTemplate = BeanInspector.callIfAvailable(problem,
-		    "getEAIndividual", null);
-		if ((maybeTemplate != null)
-		    && (maybeTemplate instanceof InterfaceESIndividual)) {
+		AbstractEAIndividual indyTemplate  = problem.getIndividualTemplate();
+		if ((indyTemplate != null) && (indyTemplate instanceof InterfaceESIndividual)) {
 			// Set CMA operator for mutation
-			AbstractEAIndividual indy = (AbstractEAIndividual) maybeTemplate;
+			AbstractEAIndividual indy = (AbstractEAIndividual)indyTemplate;
 			MutateESCovarianceMartixAdaption cmaMut = new MutateESCovarianceMartixAdaption();
 			cmaMut.setCheckConstraints(true);
 			indy.setMutationOperator(cmaMut);
 			indy.setCrossoverOperator(new CrossoverESDefault());
 		} else {
-			System.err
-			    .println("Error, CMA-ES is implemented for ES individuals only (requires double data types)");
+			System.err.println("Error, CMA-ES is implemented for ES individuals only (requires double data types)");
 			return null;
 		}
 		
@@ -442,8 +408,7 @@ public class OptimizerFactory {
 		pso.setPhi1(phi1);
 		pso.setPhi2(phi2);
 		pso.setSpeedLimit(k);
-		topology.setSelectedTag(selectedTopology);
-		pso.setTopology(topology);
+		pso.getTopology().setSelectedTag(selectedTopology);
 		pso.addPopulationChangedEventListener(listener);
 		pso.init();
 
@@ -509,47 +474,43 @@ public class OptimizerFactory {
 		return defaultFitCalls;
 	}
 	
-	public static OptimizerRunnable getOptRunnable(final int optType,
-	    AbstractOptimizationProblem problem, int fitCalls, String outputFilePrefix) {
-		OptimizerRunnable opt = null;
+///////////////////////////// constructing a default OptimizerRunnable
+
+	public static GOParameters getParams(final int optType, AbstractOptimizationProblem problem) {
 		switch (optType) {
 		case STD_ES:
-			opt = new OptimizerRunnable(standardES(problem), outputFilePrefix);
-			break;
+			return standardES(problem); 
 		case CMA_ES:
-			opt = new OptimizerRunnable(cmaES(problem), outputFilePrefix);
-			break;
+			return cmaES(problem); 
 		case STD_GA:
-			opt = new OptimizerRunnable(standardGA(problem), outputFilePrefix);
-			break;
+			return standardGA(problem); 
 		case PSO:
-			opt = new OptimizerRunnable(standardPSO(problem), outputFilePrefix);
-			break;
+			return standardPSO(problem);
 		case DE:
-			opt = new OptimizerRunnable(standardDE(problem), outputFilePrefix);
-			break;
+			return standardDE(problem); 
 		case TRIBES:
-			opt = new OptimizerRunnable(tribes(problem), outputFilePrefix);
-			break;
+			return tribes(problem); 
 		case RANDOM:
-			opt = new OptimizerRunnable(monteCarlo(problem), outputFilePrefix);
-			break;
+			return monteCarlo(problem); 
 		case HILLCL:
-			opt = new OptimizerRunnable(hillClimbing(problem), outputFilePrefix);
-			break;
+			return hillClimbing(problem); 
 		case CBN_ES:
-			opt = new OptimizerRunnable(cbnES(problem), outputFilePrefix);
-			break;
+			return cbnES(problem); 
 		case CL_HILLCL:
-			opt = new OptimizerRunnable(clusteringHillClimbing(problem),
-			    outputFilePrefix);
-			break;
+			return clusteringHillClimbing(problem);
 		default:
 			System.err.println("Error: optimizer type " + optType + " is unknown!");
 			return null;
 		}
-		if (fitCalls != defaultFitCalls)
-		  opt.getGOParams().setTerminator(new EvaluationTerminator(fitCalls));
+	}
+	
+	public static OptimizerRunnable getOptRunnable(final int optType, AbstractOptimizationProblem problem, int fitCalls, String outputFilePrefix) {
+		OptimizerRunnable opt = null;
+		GOParameters params = getParams(optType, problem);
+		if (params != null) {
+			opt = new OptimizerRunnable(params, outputFilePrefix);
+			if (fitCalls != defaultFitCalls) opt.getGOParams().setTerminator(new EvaluationTerminator(fitCalls));
+		}
 		return opt;
 	}
 

src/javaeva/OptimizerRunnable.java

@@ -15,6 +15,7 @@ import javaeva.server.go.operators.postprocess.PostProcessParams;
 import javaeva.server.go.populations.Population;
 import javaeva.server.modules.GOParameters;
 import javaeva.server.modules.Processor;
+import javaeva.server.stat.AbstractStatistics;
 import javaeva.server.stat.InterfaceTextListener;
 import javaeva.server.stat.StatisticsStandalone;
 
@@ -37,6 +38,7 @@ public class OptimizerRunnable implements Runnable {
 		
 	public OptimizerRunnable(GOParameters params, String outputFilePrefix, boolean restart) {
 		proc = new Processor(new StatisticsStandalone(outputFilePrefix), null, params);
+		((AbstractStatistics)proc.getStatistics()).setSaveParams(false);
 		doRestart = restart;
 	}
 	
@@ -45,7 +47,9 @@ public class OptimizerRunnable implements Runnable {
 	}
 	
 	public void setTextListener(InterfaceTextListener lsnr) {
+		proc.getStatistics().removeTextListener(listener);
 		this.listener = lsnr;
+		if (listener != null) proc.getStatistics().addTextListener(listener);
 	}
 	
 	public void setDoRestart(boolean restart) {

src/javaeva/gui/BeanInspector.java

@@ -18,8 +18,12 @@ import java.beans.Introspector;
 import java.beans.PropertyDescriptor;
 import java.lang.reflect.Array;
 import java.lang.reflect.Method;
+import java.util.ArrayList;
 import java.util.List;
 
+import javaeva.tools.SelectedTag;
+import javaeva.tools.Tag;
+
 /*
  *  ==========================================================================*
  *  CLASS DECLARATION
@@ -30,7 +34,7 @@ public class BeanInspector {
 
 //	public static int  step = 0;
 //	public static String check(String s) {
-//
+
 //	s=s.replace('$','_');
 //	s=s.replace(';','_');
 ////	String ret = null;
@@ -44,10 +48,13 @@ public class BeanInspector {
 //	if (s.equals("[D")) return "Double_Array";
 //	if (s.startsWith("[D")) return s.substring(2);
 //	if (s.startsWith("[L")) return s.substring(2);
-//
+
 //	return s;
 //	}
 
+	/**
+	 * Check for equality based on bean properties of two target objects.
+	 */
 	public static boolean equalProperties(Object Target_1, Object Target_2) {
 		if (Target_1 == null || Target_2 == null) {
 			System.out.println("");
@@ -149,7 +156,7 @@ public class BeanInspector {
 
 		if (Target instanceof List) { // handle the list case
 			StringBuffer sbuf = new StringBuffer("[ ");
-			List lst = (List)Target;
+			List<?> lst = (List<?>)Target;
 			for (Object o : lst) {
 				sbuf.append(o.toString());
 				sbuf.append("; ");
@@ -292,7 +299,17 @@ public class BeanInspector {
 		}
 	}
 
-    
+	/**
+	 * Call a method by a given name with given arguments, if the method is available.
+	 * Returns the return values of the call or null if it isnt found.
+	 * This of course means that the caller is unable to distinguish between "method not found"
+	 * and "method found and it returned null".
+	 * 
+	 * @param obj
+	 * @param mName
+	 * @param args
+	 * @return the return value of the called method or null
+	 */
 	public static Object callIfAvailable(Object obj, String mName, Object[] args) {
 		Method meth = hasMethod(obj, mName);
 		if (meth != null) {
@@ -305,13 +322,317 @@ public class BeanInspector {
 		} else return null;
 	}
 
+	/**
+	 * Check whether an object has a method by the given name. Return
+	 * it if found, or null if not.
+	 *  
+	 * @param obj
+	 * @param mName the method name
+	 * @return the method or null if it isn't found
+	 */
 	public static Method hasMethod(Object obj, String mName) {
-    	Class cls = obj.getClass();
+		Class<?> cls = obj.getClass();
 		Method[] meths = cls.getMethods();
 		for (Method method : meths) {
 			if (method.getName().equals(mName)) return method;
 		}
 		return null;
 	}
-}
 	
+	/**
+	 * Just concatenates getClassDescription(obj) and getMemberDescriptions(obj, withValues).
+	 * 
+	 * @param obj	target object
+	 * @param withValues	if true, member values are displayed as well 
+	 * @return an info string about class and members of the given object
+	 */
+	public static String getDescription(Object obj, boolean withValues) {
+		StringBuffer sbuf = new StringBuffer(getClassDescription(obj));
+		sbuf.append("\n"); 
+		String[] mems = getMemberDescriptions(obj, withValues);
+		for (String str : mems) {
+			sbuf.append(str);
+		}
+		return sbuf.toString();
+	}
+	
+	/**
+	 * Check for info methods on the object to be provided by the developer
+	 * and return their text as String.
+	 * 
+	 * @param obj
+	 * @return String information about the object's class
+	 */
+	public static String getClassDescription(Object obj) {
+		StringBuffer infoBf = new StringBuffer("Type: ");
+		infoBf.append(obj.getClass().getName());
+		infoBf.append("\t");
+		
+		Object          args[]  = { };
+		Object ret; 
+		
+		for (String meth : new String[]{"getName", "globalInfo"}) {
+			ret = callIfAvailable(obj, meth, args);
+			if (ret != null) {
+				infoBf.append("\t");
+				infoBf.append((String)ret);
+			}
+		}
+		
+		return infoBf.toString();
+	}
+
+	/**
+	 * Return an info string on the members of the object class, containing name, type, optional
+	 * value and tool tip text if available. The type is accompagnied by a tag "common" or "restricted",
+	 * indicating whether the member property is normal or hidden, meaning it may have effect depending
+	 * on settings of other members only, for instance.
+	 * 
+	 * @param obj	target object
+	 * @param withValues	if true, member values are displayed as well 
+	 * @return an info string about class and members of the given object
+	 */
+	public static String[] getMemberDescriptions(Object obj, boolean withValues) {
+		BeanInfo bi;    
+		try {
+			bi      = Introspector.getBeanInfo(obj.getClass());
+		} catch(IntrospectionException e) {
+			e.printStackTrace();
+			return null;
+		}
+		PropertyDescriptor[] 	m_Properties = bi.getPropertyDescriptors();
+		ArrayList<String> 				memberInfoList  = new ArrayList<String>();
+		
+		for (int i = 0; i < m_Properties.length; i++) {
+			if (m_Properties[i].isExpert()) continue;
+			
+			String  name    = m_Properties[i].getDisplayName();
+			if (TRACE) System.out.println("PSP looking at "+ name);
+
+			Method  getter  = m_Properties[i].getReadMethod();
+			Method  setter  = m_Properties[i].getWriteMethod();
+			// Only display read/write properties.
+			if (getter == null || setter == null) continue;
+			
+			try {
+				Object          args[]  = { };
+				Object          value   = getter.invoke(obj, args);
+
+				// Don't try to set null values:
+				if (value == null) {
+					// If it's a user-defined property we give a warning.
+					String getterClass = m_Properties[i].getReadMethod().getDeclaringClass().getName();
+					if (getterClass.indexOf("java.") != 0) System.err.println("Warning: Property \"" + name+ "\" has null initial value.  Skipping.");
+					continue;
+				}
+
+				StringBuffer memberInfoBf = new StringBuffer("Member:\t");
+				memberInfoBf.append(name);
+				
+				memberInfoBf.append("\tType: ");
+				
+				if (m_Properties[i].isHidden()) {
+					memberInfoBf.append("restricted, ");
+				} else {
+					memberInfoBf.append("common, ");
+				}
+				String typeName = value.getClass().getName();
+				if (value instanceof SelectedTag) {
+					Tag[] tags = ((SelectedTag)value).getTags();
+					memberInfoBf.append("String in {");
+					for (int k=0; k<tags.length; k++) {
+						memberInfoBf.append(tags[k].getString());
+						if (k+1<tags.length) memberInfoBf.append(", ");
+					}
+					memberInfoBf.append("}");
+				} else memberInfoBf.append(typeName);
+				
+				if (withValues) {
+					memberInfoBf.append('\t');
+					memberInfoBf.append("Value: \t");
+					memberInfoBf.append(toString(value));
+				}
+				
+				// now look for a TipText method for this property
+				Method tipTextMethod = hasMethod(obj, name + "TipText");
+				if (tipTextMethod == null) {
+					memberInfoBf.append("\tNo further hint.");
+				} else {
+					memberInfoBf.append("\tHint: ");
+					memberInfoBf.append(toString(tipTextMethod.invoke(obj, args)));
+				}
+				
+				memberInfoBf.append('\n');
+				memberInfoList.add(memberInfoBf.toString());
+			} catch (Exception ex) {
+				System.err.println("Skipping property "+name+" ; exception: " + ex.getMessage());
+				ex.printStackTrace();
+			} // end try
+		}	// end for
+		return memberInfoList.toArray(new String[1]);
+	}
+	
+	/**
+	 * Take an object of primitive type (like int, Integer etc) and convert it to double.
+	 * 
+	 * @param val
+	 * @return
+	 * @throws IllegalArgumentException
+	 */
+	public static double toDouble(Object val) throws IllegalArgumentException {
+		if (val instanceof Integer) return ((Integer)val).doubleValue();
+		else if (val instanceof Double) return ((Double)val).doubleValue();
+		else if (val instanceof Boolean) return (((Boolean)val) ? 1. : 0.); 
+		else if (val instanceof Character) return ((Character)val).charValue(); 
+		else if (val instanceof Byte) return ((Byte)val).doubleValue(); 
+		else if (val instanceof Short) return ((Short)val).doubleValue(); 
+		else if (val instanceof Long) return ((Long)val).doubleValue(); 
+		else if (val instanceof Float) return ((Float)val).doubleValue(); 
+		else if (val instanceof Void) return 0;
+		throw new IllegalArgumentException("Illegal type, cant convert " + val.getClass() + " to double.");
+	}
+	
+	/**
+	 * Take a String and convert it to a destined data type using the appropriate function.
+	 * 
+	 * @param str
+	 * @param destType
+	 * @return
+	 */
+	public static Object stringToPrimitive(String str, Class<?> destType) throws NumberFormatException {
+		if ((destType == Integer.class) || (destType == int.class)) return Integer.valueOf(str);
+		else if ((destType == Double.class) || (destType == double.class)) return Double.valueOf(str);
+		else if ((destType == Boolean.class) || (destType == boolean.class)) return Boolean.valueOf(str); 
+		else if ((destType == Byte.class) || (destType == byte.class)) return Byte.valueOf(str);
+		else if ((destType == Short.class) || (destType == short.class)) return Short.valueOf(str);
+		else if ((destType == Long.class) || (destType == long.class)) return Long.valueOf(str);
+		else if ((destType == Float.class) || (destType == float.class)) return Float.valueOf(str);
+		else if ((destType == Character.class) || (destType == char.class)) return str.charAt(0);
+		else {
+			// if (destType == Void.class)
+			System.err.println("warning, value interpreted as void type");
+			return 0;
+		}
+	}
+	
+	/**
+	 * Take a double value and convert it to a primitive object.
+	 * 
+	 * @param d
+	 * @param destType
+	 * @return
+	 */
+	public static Object doubleToPrimitive(Double d, Class<?> destType) {
+		if ((destType == Double.class) || (destType == double.class)) return d;
+		if ((destType == Integer.class) || (destType == int.class)) return new Integer(d.intValue());
+		else if ((destType == Boolean.class) || (destType == boolean.class)) return new Boolean(d != 0); 
+		else if ((destType == Byte.class) || (destType == byte.class)) return new Byte(d.byteValue());
+		else if ((destType == Short.class) || (destType == short.class)) return new Short(d.shortValue());
+		else if ((destType == Long.class) || (destType == long.class)) return new Long(d.longValue());
+		else if ((destType == Float.class) || (destType == float.class)) return new Float(d.floatValue());
+		else { // this makes hardly sense...
+			System.err.println("warning: converting from double to character or void...");
+			if ((destType == Character.class) || (destType == char.class)) return new Character(d.toString().charAt(0));
+			else //if (destType == Void.class) return 0;
+				return 0;
+		}
+	}
+	
+	/**
+	 * Checks whether a type belongs to primitive (int, long, double, char etc.) or the Java encapsulations (Integer, Long etc.)
+	 * 
+	 * @param cls
+	 * @return
+	 */
+	public static boolean isJavaPrimitive(Class<?> cls) {
+		if (cls.isPrimitive()) return true;
+		if ((cls == Double.class) || (cls == Integer.class) || (cls == Boolean.class) 
+				|| (cls == Byte.class) || (cls == Short.class) || (cls == Long.class) || (cls == Float.class)) return true;
+		return false;
+	}
+	
+	/**
+	 * Try to convert an object to a destination type, especially for primitive types (int, double etc.
+	 * but also Integer, Double etc.).
+	 *  
+	 * @param destType
+	 * @param value
+	 * @return
+	 */
+	public static Object decodeType(Class<?> destType, Object value) {
+		if (destType.isAssignableFrom(value.getClass())) {
+			// value is already of destType or assignable (subclass), so just return it
+			return value;
+		}
+		if (destType == String.class || destType == SelectedTag.class) {
+			if (value.getClass() == String.class) return value;
+			else return value.toString();
+		} else if (isJavaPrimitive(destType)) {
+			try {
+				if (value.getClass() == String.class) return stringToPrimitive((String)value, destType);
+				else {
+					return doubleToPrimitive(toDouble(value), destType);
+				}
+			} catch(Exception e) {
+				System.err.println("Error in converting type of " + value + " to " + destType.getName() + ": " + e.getMessage());
+				return null;
+			}
+		}
+		System.err.println("Error: unknown type, skipping decode " + value.getClass().getName() + " to " +  destType.getName());
+		return value;
+	}
+
+	/**
+	 * Try to set an object member to a given value.
+	 * Returns true if successful, else false. The types are adapted as generally as possible,
+	 * converting using the decodeType() method.
+	 * 
+	 * @param obj
+	 * @param mem
+	 * @param val
+	 * @return true if successful, else false
+	 */
+	public static boolean setMem(Object obj, String mem, Object val) {
+		BeanInfo bi;    
+		try {
+			bi      = Introspector.getBeanInfo(obj.getClass());
+		} catch(IntrospectionException e) {
+			e.printStackTrace();
+			return false;
+		}
+		PropertyDescriptor[] 	m_Properties = bi.getPropertyDescriptors();
+//		Method getter = null;
+		Method setter = null;
+		Class<?> type = null;
+//		System.err.println("looking at " + toString(obj));
+		for (int i = 0; i < m_Properties.length; i++) {
+			if (m_Properties[i].getDisplayName().equals(mem)) {
+//				System.err.println("looking at " + m_Properties[i].getDisplayName());
+//				getter  = m_Properties[i].getReadMethod();
+				setter  = m_Properties[i].getWriteMethod();
+				type 	= m_Properties[i].getPropertyType();
+				break;
+			}
+		}
+		if (setter != null) {
+			try {
+//				System.out.println("setting value...");
+				Object[] args = new Object[]{ decodeType(type, val) };
+				if (args[0] != null) {
+					setter.invoke(obj, args);
+					return true;
+				} else  {
+					System.err.println("no value to set");
+					return false;
+				}
+			} catch (Exception e) {
+				System.err.println("Exception in invoking setter: "+e.getMessage());
+//				e.printStackTrace(); 
+				return false;
+			} 
+		} else {
+			System.err.println("Setter method for " + mem + " not found!");
+			return false;
+		}
+	}
+}

src/javaeva/gui/PropertySheetPanel.java

@@ -215,8 +215,8 @@ public class PropertySheetPanel extends JPanel implements PropertyChangeListener
         for (int i = 0; i < m_Properties.length; i++) {
             // For each property do this
             // Don't display hidden or expert properties.
-            //if (m_Properties[i].isHidden() || m_Properties[i].isExpert()) continue;
-        	// we now display hidden properties (MK)
+            // if (m_Properties[i].isHidden() || m_Properties[i].isExpert()) continue;
+        	// we now look at hidden properties, they can be shown or hidden dynamically (MK)
             String  name    = m_Properties[i].getDisplayName();
             if (TRACE) System.out.println("PSP looking at "+ name);
 

src/javaeva/server/go/operators/postprocess/PostProcess.java

@@ -488,53 +488,55 @@ public class PostProcess {
 	 * a list of solutions after post processing.
 	 * 
 	 * @param params
-	 * @param solutions
+	 * @param inputPop
 	 * @param problem
 	 * @param listener
 	 * @return the clustered, post-processed population
 	 */
-	public static Population postProcess(InterfacePostProcessParams params, Population solutions, AbstractOptimizationProblem problem, InterfaceTextListener listener) {
+	public static Population postProcess(InterfacePostProcessParams params, Population inputPop, AbstractOptimizationProblem problem, InterfaceTextListener listener) {
 		if (params.isDoPostProcessing()) {
-			Population outputPop;
+			Population clusteredPop, outputPop;
 			if (params.getPostProcessClusterSigma() > 0) {
-				outputPop = (Population)PostProcess.clusterBest(solutions, params.getPostProcessClusterSigma(), 0, PostProcess.KEEP_LONERS, PostProcess.BEST_ONLY).clone();
-				if (outputPop.size() < solutions.size()) {
-					if (listener != null) listener.println("Initial clustering reduced population size from " + solutions.size() + " to " + outputPop.size());
+				clusteredPop = (Population)PostProcess.clusterBest(inputPop, params.getPostProcessClusterSigma(), 0, PostProcess.KEEP_LONERS, PostProcess.BEST_ONLY).clone();
+				if (clusteredPop.size() < inputPop.size()) {
+					if (listener != null) listener.println("Initial clustering reduced population size from " + inputPop.size() + " to " + clusteredPop.size());
 				} else if (listener != null) listener.println("Initial clustering yielded no size reduction.");
-			} else outputPop = solutions;
+			} else clusteredPop = inputPop;
 			
 			if (params.getPostProcessSteps() > 0) {
-				processWithHC(outputPop, problem, params.getPostProcessSteps());
-				if (listener != null) listener.println("HC post processing done.");
+				processWithHC(clusteredPop, problem, params.getPostProcessSteps());
+				if (listener != null) listener.println("HC post processing: " + params.getPostProcessSteps() + " steps done.");
 				// some individuals may have now converged again
 				if (params.getPostProcessClusterSigma() > 0) {
 					// so if wished, cluster again.
-					outputPop = (Population)PostProcess.clusterBest(outputPop, params.getPostProcessClusterSigma(), 0, PostProcess.KEEP_LONERS, PostProcess.BEST_ONLY).clone();
-					if (outputPop.size() < solutions.size()) {
-						if (listener != null) listener.println("Second clustering reduced population size from " + solutions.size() + " to " + outputPop.size());
+					outputPop = (Population)PostProcess.clusterBest(clusteredPop, params.getPostProcessClusterSigma(), 0, PostProcess.KEEP_LONERS, PostProcess.BEST_ONLY).clone();
+					if (outputPop.size() < clusteredPop.size()) {
+						if (listener != null) listener.println("Second clustering reduced population size from " + clusteredPop.size() + " to " + outputPop.size());
 					} else if (listener != null) listener.println("Second clustering yielded no size reduction.");
-				}
-			}
+				} else outputPop = clusteredPop;
+			} else outputPop = clusteredPop;
 			
 			double upBnd = PhenotypeMetric.norm(outputPop.getWorstEAIndividual().getFitness())*1.1;
 			upBnd = Math.pow(10,Math.floor(Math.log10(upBnd)+1));
 			double lowBnd = 0;
 			int[] sols = PostProcess.createFitNormHistogram(outputPop, lowBnd, upBnd, 20);
 //			PostProcessInterim.outputResult((AbstractOptimizationProblem)goParams.getProblem(), outputPop, 0.01, System.out, 0, 2000, 20, goParams.getPostProcessSteps());
+			if (outputPop.size()>1) {
 				if (listener != null) listener.println("measures: " + BeanInspector.toString(outputPop.getPopulationMeasures()));
 				if (listener != null) listener.println("solution histogram in [" + lowBnd + "," + upBnd + "]: " + BeanInspector.toString(sols));
+			}
 			
 			//////////// multimodal data output?
 			if (problem instanceof InterfaceMultimodalProblemKnown) procMultiModalKnown(outputPop, (InterfaceMultimodalProblemKnown)problem, listener);
 			
-			Population resPop = outputPop.getBestNIndividuals(params.getPrintNBest()); // n individuals are returned and sorted, all of them if n<=0
-			if (listener != null) listener.println("Best after post process:" + ((outputPop.size()>resPop.size()) ? ( "(first " + resPop.size() + " of " + outputPop.size() + ")") : ""));
+			Population nBestPop = outputPop.getBestNIndividuals(params.getPrintNBest()); // n individuals are returned and sorted, all of them if n<=0
+			if (listener != null) listener.println("Best after post process:" + ((outputPop.size()>nBestPop.size()) ? ( "(first " + nBestPop.size() + " of " + outputPop.size() + ")") : ""));
 			//////////// output some individual data
-			if (listener != null) for (int i=0; i<resPop.size(); i++) {
-				listener.println(AbstractEAIndividual.getDefaultStringRepresentation(resPop.getEAIndividual(i)));
+			if (listener != null) for (int i=0; i<nBestPop.size(); i++) {
+				listener.println(AbstractEAIndividual.getDefaultStringRepresentation(nBestPop.getEAIndividual(i)));
 			}
-			return resPop;
-		} else return solutions;
+			return nBestPop;
+		} else return inputPop;
 	}
 }
 

src/javaeva/server/go/problems/AbstractOptimizationProblem.java

@@ -179,12 +179,12 @@ public abstract class AbstractOptimizationProblem implements InterfaceOptimizati
     }
 
     /**
-     * This allows "anyone" to access the problem template and set operators etc.
+     * This allows "anyone" to access the problem's individual template and set operators etc.
      * Subclasses may have a method getEAIndividual additionally with a more
      * specific interface signature, which makes sense for the GUI which decides
      * on what classes to present to the user based on the interface signature. 
      * 
-     * @return
+     * @return the problem's individual template
      */
     public AbstractEAIndividual getIndividualTemplate() {
     	return m_Template;

src/javaeva/server/go/problems/DynJumpProblem.java

@@ -169,7 +169,7 @@ public class DynJumpProblem extends AbstractDynTransProblem {
 		return "DynJumpProblem";
 	}
     public String globalInfo() {
-    	return "A real valued problem jumping"; 
+    	return "A real valued problem jumping dynamically."; 
     }
     
 	public String severityTipText() {
@@ -182,10 +182,10 @@ public class DynJumpProblem extends AbstractDynTransProblem {
 		this.lambda = lambda;
 	}
 	public String lambdaTipText() {
-		return "direction of movement: [0,1] 0 = random, 1 = depending";
+		return "direction of movement: [0,1] 0 = random, 1 = dependent";
 	}
 	/**************************************************************************
-	 * These are for debugging and determing the output file
+	 * These are for debugging and determining the output file
 	 * 
 	 */
 	

src/javaeva/server/modules/Processor.java

@@ -333,14 +333,16 @@ public class Processor extends Thread implements InterfaceProcessor, InterfacePo
      * @param listener
      */
     public void performNewPostProcessing(PostProcessParams ppp, InterfaceTextListener listener) {
+    	if (ppp.isDoPostProcessing()) {
 	    	ppp.hideHideable(); // a bit mean: as we may have several instances of ppp in different states, make sure Bean-"hidden" state is consistent for output.
-    	if (listener != null) listener.println("Starting post processing... " + BeanInspector.toString(ppp));
+	    	if (listener != null) listener.println("Post processing params: " + BeanInspector.toString(ppp));
 	    	resPop = goParams.getOptimizer().getAllSolutions();
 	    	if (resPop.getFunctionCalls() != goParams.getOptimizer().getPopulation().getFunctionCalls()) {
-//    		System.err.println("bad case in Processor::performNewPostProcessing ");
+	//    		System.err.println("bad case in Processor::performNewPostProcessing ");
 	    		resPop.SetFunctionCalls(goParams.getOptimizer().getPopulation().getFunctionCalls());
 	    	}
 	    	if (!resPop.contains(m_Statistics.getBestSolution())) resPop.add(m_Statistics.getBestSolution()); // this is a minor cheat but guarantees that the best solution ever found is contained in the final results
 	    	resPop = PostProcess.postProcess(ppp, resPop, (AbstractOptimizationProblem)goParams.getProblem(), listener);
     	}
+    }
 }

src/javaeva/server/stat/AbstractStatistics.java

@@ -21,6 +21,8 @@ public abstract class AbstractStatistics implements InterfaceTextListener, Inter
 	protected String startDate;
 	protected long startTime;
 	
+
+	private boolean saveParams = true;
 	private boolean firstPlot = true;
 	protected int functionCalls;
 	protected int functionCallSum;
@@ -45,7 +47,7 @@ public abstract class AbstractStatistics implements InterfaceTextListener, Inter
 	}
 	
 	public void addTextListener(InterfaceTextListener listener) {
-		textListeners.add(listener);
+		if (!textListeners.contains(listener)) textListeners.add(listener);
 	}
 	
 	public boolean removeTextListener(InterfaceTextListener listener) {
@@ -73,6 +75,15 @@ public abstract class AbstractStatistics implements InterfaceTextListener, Inter
 		} else resultOut = null;
 	}
 	
+	/**
+	 * If set to true, before every run the parameters will be stored to a file.
+	 * 
+	 * @param doSave
+	 */
+	public void setSaveParams(boolean doSave) {
+		saveParams = doSave;
+	}
+
 	public void startOptPerformed(String infoString, int runNumber) {
 		if (TRACE) System.out.println("AbstractStatistics.startOptPerformed " + runNumber);
 		if (runNumber == 0) {
@@ -80,7 +91,7 @@ public abstract class AbstractStatistics implements InterfaceTextListener, Inter
 			firstPlot = true;
 			optRunsPerformed = 0;
 			convergenceCnt = 0;
-			m_StatisticsParameter.saveInstance();
+			if (saveParams) m_StatisticsParameter.saveInstance();
 			initOutput();
 			bestCurrentIndividual = null;
 			bestIndivdualAllover = null;

src/javaeva/server/stat/StatisticsStandalone.java

@@ -137,7 +137,7 @@ public class StatisticsStandalone extends AbstractStatistics implements Interfac
 			//System.out.println("m_FitnessMeanofALL  "+m_FitnessMeanofALL);
 			m_FitnessMedianofALL = getMedian(m_BestFitnessAtEnd);
 
-			finalizeOutput();
+//			finalizeOutput();
 		}
 	}