Index: branches/ralph/src/main/java/de/ugoe/cs/autoquest/tasktrees/alignment/algorithms/FengDoolittle.java
===================================================================
--- branches/ralph/src/main/java/de/ugoe/cs/autoquest/tasktrees/alignment/algorithms/FengDoolittle.java	(revision 1555)
+++ branches/ralph/src/main/java/de/ugoe/cs/autoquest/tasktrees/alignment/algorithms/FengDoolittle.java	(revision 1557)
@@ -1,5 +1,18 @@
 package de.ugoe.cs.autoquest.tasktrees.alignment.algorithms;
+
+import de.ugoe.cs.autoquest.tasktrees.alignment.substitution.TriangleMatrix;
 
 public class FengDoolittle {
 
+	private TriangleMatrix scoreDistance;
+	
+	
+	
+	public FengDoolittle() {
+		
+	
+		
+		
+	}
+	
 }
Index: branches/ralph/src/main/java/de/ugoe/cs/autoquest/tasktrees/alignment/algorithms/ProgressiveMultiAlignment.java
===================================================================
--- branches/ralph/src/main/java/de/ugoe/cs/autoquest/tasktrees/alignment/algorithms/ProgressiveMultiAlignment.java	(revision 1555)
+++ 	(revision )
@@ -1,5 +1,0 @@
-package de.ugoe.cs.autoquest.tasktrees.alignment.algorithms;
-
-public class ProgressiveMultiAlignment {
-
-}
Index: branches/ralph/src/main/java/de/ugoe/cs/autoquest/tasktrees/temporalrelation/SequenceForTaskDetectionRuleAlignment.java
===================================================================
--- branches/ralph/src/main/java/de/ugoe/cs/autoquest/tasktrees/temporalrelation/SequenceForTaskDetectionRuleAlignment.java	(revision 1555)
+++ branches/ralph/src/main/java/de/ugoe/cs/autoquest/tasktrees/temporalrelation/SequenceForTaskDetectionRuleAlignment.java	(revision 1557)
@@ -25,4 +25,5 @@
 import java.util.logging.Level;
 
+import de.ugoe.cs.autoquest.tasktrees.alignment.algorithms.FengDoolittle;
 import de.ugoe.cs.autoquest.tasktrees.alignment.algorithms.NumberSequence;
 import de.ugoe.cs.autoquest.tasktrees.alignment.algorithms.SmithWaterman;
@@ -150,12 +151,17 @@
         submat.generate();
         
-        SmithWaterman sm = new SmithWaterman(numberseqs.get(1).getSequence(), numberseqs.get(1).getSequence(), submat);
-        sm.printDPMatrix();
+        SmithWaterman sw = new SmithWaterman(numberseqs.get(1).getSequence(), numberseqs.get(1).getSequence(), submat);
+        
+   
+        
+        
       
         
         
         //Hier mein kram hin
-        /*do {
+        do {
             System.out.println();
+            FengDoolittle fd = new FengDoolittle();
+            
             
             appData.getStopWatch().start("whole loop");
@@ -167,6 +173,4 @@
             appData.getStopWatch().stop("whole loop");
             
-            //((TaskTreeNodeComparator) taskComparator).getStopWatch().dumpStatistics(System.out);
-            //((TaskTreeNodeComparator) taskComparator).getStopWatch().reset();
             
             appData.getStopWatch().dumpStatistics(System.out);
@@ -174,5 +178,5 @@
             
         }
-        while (appData.detectedAndReplacedTasks());*/
+        while (appData.detectedAndReplacedTasks());
         
         Console.println