Changeset 1558 for branches/ralph/src/main/java/de/ugoe/cs/autoquest/tasktrees/alignment/algorithms

Timestamp:

05/29/14 22:43:07 (10 years ago)

Author:

rkrimmel

Message:

new Smith waterman variant

Location:

branches/ralph/src/main/java/de/ugoe/cs/autoquest/tasktrees/alignment/algorithms

Files:

• MatrixEntry.java (added)
• NumberSequence.java (modified) (1 diff)
• SmithWaterman.java (modified) (3 diffs)
• SmithWatermanRepeated.java (added)

branches/ralph/src/main/java/de/ugoe/cs/autoquest/tasktrees/alignment/algorithms/NumberSequence.java

@@ -25 +25 @@
                 this.signature = signature;
         }
+        
+        public void printSequence()
+        {       
+                for (int i = 0; i < sequence.length; i++) {
+                        System.out.format("%4d", sequence[i]);
+                }
+                System.out.println();
+        }
 
 }

branches/ralph/src/main/java/de/ugoe/cs/autoquest/tasktrees/alignment/algorithms/SmithWaterman.java

@@ -162 +162 @@
          * Get the maximum value in the score matrix.
          */
-        private double getMaxScore() {
+        public double getMaxScore() {
                 double maxScore = 0;
 
@@ -184 +184 @@
         }
 
+        
+        
         /**
          * TODO: Iterative Version!!! Output the local alignments ending in the (i,
@@ -272 +274 @@
                         }
                 }
-                // Note: empty alignments are not printed.
         }