Added more "clean" logging

Some more components representing parameters

src/main/java/de/hhu/ba/yoshikoWrapper/core/YoshikoLoader.java

@@ -2,17 +2,24 @@ package de.hhu.ba.yoshikoWrapper.core;
 
 import java.io.File;
 
+import org.slf4j.Logger;
+
+import de.hhu.ba.yoshikoWrapper.logging.YoshikoLogger;
+
 public class YoshikoLoader {
 	
 	private static ConfigurationManager cm;
 	private static boolean isLoaded;
 	
+	//Symbolic Links
+	private static Logger logger = YoshikoLogger.getInstance().getLogger();
+	
 	public static void loadLibrary(String libPath) {
 		
 		//Attempt to load from a previously stored path
 		File f = new File (libPath);
 		if (!f.exists()) {
-			System.out.println("Could not find a previously saved yoshiko library path, needs to be set manually!");
+			logger.info("Could not load the Yoshiko-library from a previously saved path! You might need to set the path manually.");
 			return;
 		}
 		

src/main/java/de/hhu/ba/yoshikoWrapper/gui/DoubleInputField.java

@@ -8,8 +8,8 @@ import javax.swing.JFormattedTextField;
 @SuppressWarnings("serial")
 public class DoubleInputField extends JFormattedTextField{
 	
-	public DoubleInputField() {
-		super(FormatHelper.getDoubleFormatter());
+	public DoubleInputField(double minValue,double maxValue) {
+		super(FormatHelper.getDoubleFormatter(minValue,maxValue));
 		this.setColumns(8);
 	}
 

src/main/java/de/hhu/ba/yoshikoWrapper/gui/EditCostPanel.java

+package de.hhu.ba.yoshikoWrapper.gui;
+
+import javax.swing.JLabel;
+
+@SuppressWarnings("serial") //Will never be serialized
+public class EditCostPanel extends ComfortPanel {
+	
+	//SWING COMPONENTS
+	private ModificationCostMapper modCostMapper;
+	private DoubleInputField  icField;
+	private DoubleInputField dcField;
+	private JLabel icLabel;
+	private JLabel dcLabel;
+	
+	public EditCostPanel() {
+		modCostMapper = new ModificationCostMapper();
+		icField = new DoubleInputField(0,Double.NEGATIVE_INFINITY);
+		dcField = new DoubleInputField(0,Double.POSITIVE_INFINITY);
+		icLabel = new JLabel("Insertion Cost:");
+		dcLabel = new JLabel("Deletion Cost:");
+		icLabel.setLabelFor(icField);
+		dcLabel.setLabelFor(dcField);
+		this.addAll(modCostMapper,icField,dcField,icLabel,dcLabel);
+	}
+	
+}

src/main/java/de/hhu/ba/yoshikoWrapper/gui/FormatHelper.java

@@ -18,12 +18,12 @@ public class FormatHelper {
 	    return formatter;
 	}
 
-	public static NumberFormatter getDoubleFormatter() {
+	public static NumberFormatter getDoubleFormatter(double minValue, double maxValue) {
 		NumberFormat format = NumberFormat.getInstance();
 	    NumberFormatter formatter = new NumberFormatter(format);
 	    formatter.setValueClass(Integer.class);
-	    formatter.setMinimum(0);
-	    formatter.setMaximum(Integer.MAX_VALUE);
+	    formatter.setMinimum(minValue);
+	    formatter.setMaximum(maxValue);
 	    formatter.setAllowsInvalid(false);
 	    formatter.setCommitsOnValidEdit(true);
 	    

src/main/java/de/hhu/ba/yoshikoWrapper/gui/MainPanel.java

@@ -34,7 +34,7 @@ public class MainPanel extends ComfortPanel implements CytoPanelComponent {
 	private JButton searchLibButton;
 	private JLabel yoshikoVersionLabel;
 
-	private ModificationCostMapper modCostMapper;
+	private EditCostPanel ecPanel;
 	
 	private ButtonGroup heuristicGroup;
 	private JRadioButton useHeuristic;
@@ -66,7 +66,7 @@ public class MainPanel extends ComfortPanel implements CytoPanelComponent {
 		}
 		searchLibButton = new JButton("POINT TO LIB");
 		
-		modCostMapper = new ModificationCostMapper();
+		ecPanel = new EditCostPanel();
 		
 		heuristicGroup = new ButtonGroup();
 		useILP = new JRadioButton("Use Integer Linear Programming");
@@ -116,7 +116,7 @@ public class MainPanel extends ComfortPanel implements CytoPanelComponent {
 				libStatusPanel,
 				yoshikoVersionLabel,
 				searchLibButton,
-				modCostMapper,
+				ecPanel,
 				useILP,
 				useHeuristic,
 				timeLimitSetter,

src/main/java/de/hhu/ba/yoshikoWrapper/gui/ModificationCostMapper.java

@@ -37,7 +37,7 @@ public class ModificationCostMapper extends ComfortPanel {
 		updateValues();
 		//Add a focus listener to update values
 		//TODO: This might be a bit inelegant but there is no way to get a callback from CS when a table changes values
-		this.addFocusListener(new FocusListener() {
+		tableFields.addFocusListener(new FocusListener() {
 
 			@Override
 			public void focusGained(FocusEvent e) {

src/main/java/de/hhu/ba/yoshikoWrapper/gui/YoshikoHelpDialog.java

+package de.hhu.ba.yoshikoWrapper.gui;
+
+import javax.swing.JDialog;
+import javax.swing.JTree;
+
+@SuppressWarnings("serial")
+public class YoshikoHelpDialog extends JDialog {
+	private JTree navigationTree;
+	
+	public YoshikoHelpDialog() {
+		navigationTree = new JTree();
+		this.add(navigationTree);
+	}
+}

src/main/java/de/hhu/ba/yoshikoWrapper/gui/YoshikoHelpModel.java

+package de.hhu.ba.yoshikoWrapper.gui;
+
+import javax.swing.event.TreeModelListener;
+import javax.swing.tree.TreeModel;
+import javax.swing.tree.TreePath;
+
+public class YoshikoHelpModel implements TreeModel {
+
+	@Override
+	public Object getRoot() {
+		// TODO Auto-generated method stub
+		return null;
+	}
+
+	@Override
+	public Object getChild(Object parent, int index) {
+		// TODO Auto-generated method stub
+		return null;
+	}
+
+	@Override
+	public int getChildCount(Object parent) {
+		// TODO Auto-generated method stub
+		return 0;
+	}
+
+	@Override
+	public boolean isLeaf(Object node) {
+		// TODO Auto-generated method stub
+		return false;
+	}
+
+	@Override
+	public void valueForPathChanged(TreePath path, Object newValue) {
+		// TODO Auto-generated method stub
+
+	}
+
+	@Override
+	public int getIndexOfChild(Object parent, Object child) {
+		// TODO Auto-generated method stub
+		return 0;
+	}
+
+	@Override
+	public void addTreeModelListener(TreeModelListener l) {
+		// TODO Auto-generated method stub
+
+	}
+
+	@Override
+	public void removeTreeModelListener(TreeModelListener l) {
+		// TODO Auto-generated method stub
+
+	}
+
+}

src/main/java/de/hhu/ba/yoshikoWrapper/logging/YoshikoLogger.java

+package de.hhu.ba.yoshikoWrapper.logging;
+
+import org.slf4j.Logger;
+import org.slf4j.LoggerFactory;
+
+public class YoshikoLogger {
+	
+	//SINGLETON TEMPLATE//
+	private static YoshikoLogger instance;
+	private YoshikoLogger() {};
+	public static YoshikoLogger getInstance() {
+		if (instance == null) {
+			instance = new YoshikoLogger();
+		}
+		return instance;
+	}
+	
+	private Logger logger;
+
+	public Logger getLogger() {
+		if (logger == null) {
+			logger = LoggerFactory.getLogger(getClass());
+		}
+		return logger;
+	}
+	
+	
+}

src/main/java/de/hhu/ba/yoshikoWrapper/logging/package-info.java

+/**
+ * 
+ */
+package de.hhu.ba.yoshikoWrapper.logging;
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