X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Fdatamodel%2FSequence.java;h=290cdfc10dfa46ab7ba09734be35bf2e55038b8c;hb=10ddc20a773099eaf0dc4d9d1bbb3b88b4176ed4;hp=333737e497e4a13ddbf95e5a0e84d157dcca06b8;hpb=5d42680ece60840a7c5851b169e94bd091fff1d8;p=jalview.git

diff --git a/src/jalview/datamodel/Sequence.java b/src/jalview/datamodel/Sequence.java
index 333737e..290cdfc 100755
--- a/src/jalview/datamodel/Sequence.java
+++ b/src/jalview/datamodel/Sequence.java
@@ -643,8 +643,8 @@ public class Sequence implements SequenceI
     {
       StringBuffer newSeq = new StringBuffer();
 
-      if(end>=sequence.length())
-        end = sequence.length()-1;
+      if(end>sequence.length())
+        end = sequence.length();
 
       if (start > 0)
       {
@@ -662,4 +662,38 @@ public class Sequence implements SequenceI
       sequence = newSeq.toString();
     }
 
+    public void toggleCase(int start, int end)
+    {
+      StringBuffer newSeq = new StringBuffer();
+
+     if(end>sequence.length())
+       end = sequence.length();
+
+     if (start > 0)
+     {
+       newSeq.append(sequence.substring(0, start));
+     }
+
+     char nextChar;
+     for(int c=start; c<end; c++)
+     {
+       nextChar = sequence.charAt(c);
+       if(Character.isLetter(nextChar))
+       {
+         if(Character.isUpperCase(nextChar))
+           nextChar = Character.toLowerCase(nextChar);
+         else
+           nextChar = Character.toUpperCase(nextChar);
+       }
+
+
+       newSeq.append(nextChar);
+     }
+
+     if (end < sequence.length())
+       newSeq.append(sequence.substring(end));
+
+     sequence = newSeq.toString();
+    }
+
 }