merge from 2_4_Release branch

[jalview.git] / src / jalview / commands / ChangeCaseCommand.java

diff --git a/src/jalview/commands/ChangeCaseCommand.java b/src/jalview/commands/ChangeCaseCommand.java
index 976be92..7a74e08 100644 (file)
--- a/src/jalview/commands/ChangeCaseCommand.java
+++ b/src/jalview/commands/ChangeCaseCommand.java
@@ -1,17 +1,17 @@
 /*
- * Jalview - A Sequence Alignment Editor and Viewer
- * Copyright (C) 2007 AM Waterhouse, J Procter, G Barton, M Clamp, S Searle
- *
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.4)
+ * Copyright (C) 2008 AM Waterhouse, J Procter, G Barton, M Clamp, S Searle
+ * 
  * This program is free software; you can redistribute it and/or
  * modify it under the terms of the GNU General Public License
  * as published by the Free Software Foundation; either version 2
  * of the License, or (at your option) any later version.
- *
+ * 
  * This program is distributed in the hope that it will be useful,
  * but WITHOUT ANY WARRANTY; without even the implied warranty of
  * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
  * GNU General Public License for more details.
- *
+ * 
  * You should have received a copy of the GNU General Public License
  * along with this program; if not, write to the Free Software
  * Foundation, Inc., 51 Franklin Street, Fifth Floor, Boston, MA  02110-1301, USA
@@ -20,20 +20,24 @@ package jalview.commands;
 
 import jalview.datamodel.*;
 
-public class ChangeCaseCommand
-    implements CommandI
+public class ChangeCaseCommand implements CommandI
 {
   String description;
+
   public static int TO_LOWER = 0;
+
   public static int TO_UPPER = 1;
+
   public static int TOGGLE_CASE = 2;
+
   int caseChange = -1;
+
   SequenceI[] seqs;
+
   int[][] regions;
-  public ChangeCaseCommand(String description,
-                           SequenceI[] seqs,
-                           int[][] regions,
-                           int caseChange)
+
+  public ChangeCaseCommand(String description, SequenceI[] seqs,
+          int[][] regions, int caseChange)
   {
     this.description = description;
     this.seqs = seqs;
@@ -89,19 +93,20 @@ public class ChangeCaseCommand
           newSeq.append(sequence.substring(0, start));
         }
 
-        if ( (caseChange == TO_UPPER && doCommand)
-            || (caseChange == TO_LOWER && !doCommand))
+        if ((caseChange == TO_UPPER && doCommand)
+                || (caseChange == TO_LOWER && !doCommand))
         {
           newSeq.append(sequence.substring(start, end).toUpperCase());
         }
 
-        else if ( (caseChange == TO_LOWER && doCommand)
-                 || (caseChange == TO_UPPER && !doCommand))
+        else if ((caseChange == TO_LOWER && doCommand)
+                || (caseChange == TO_UPPER && !doCommand))
         {
           newSeq.append(sequence.substring(start, end).toLowerCase());
         }
 
-        else //TOGGLE CASE
+        else
+        // TOGGLE CASE
         {
           for (int c = start; c < end; c++)
           {