X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Fdatamodel%2FCigarCigar.java;h=9643d9d918a877bf6faacd97e5b1b64241509fa0;hb=HEAD;hp=83cce199f85870bf36cde1db5eed9bcc2c1d3295;hpb=7bc226b58110fa26d9dbd3f0c78095d06909ffc3;p=jalview.git

diff --git a/src/jalview/datamodel/CigarCigar.java b/src/jalview/datamodel/CigarCigar.java
index 83cce19..9643d9d 100644
--- a/src/jalview/datamodel/CigarCigar.java
+++ b/src/jalview/datamodel/CigarCigar.java
@@ -1,30 +1,34 @@
 /*
- * Jalview - A Sequence Alignment Editor and Viewer
- * Copyright (C) 2007 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
+ * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$)
+ * Copyright (C) $$Year-Rel$$ The Jalview Authors
+ * 
+ * This file is part of Jalview.
+ * 
+ * Jalview 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 3
  * 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.
- *
+ *  
+ * Jalview 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
+ * along with Jalview.  If not, see <http://www.gnu.org/licenses/>.
+ * The Jalview Authors are detailed in the 'AUTHORS' file.
  */
 package jalview.datamodel;
 
-public class CigarCigar
-    extends CigarSimple
+public class CigarCigar extends CigarSimple
 {
   SeqCigar refCigar;
+
   /**
    * Apply CIGAR operations to the result of another cigar
-   * @param cigar Cigar
+   * 
+   * @param cigar
+   *          Cigar
    */
   CigarCigar(SeqCigar cigar)
   {
@@ -33,9 +37,10 @@ public class CigarCigar
   }
 
   /**
-   *
+   * 
    * @return String formed by applying CIGAR operations to the reference object
-   * @param GapChar char
+   * @param GapChar
+   *          char
    * @todo Implement this jalview.datamodel.Cigar method
    */
   public String getSequenceString(char GapChar)
@@ -47,8 +52,8 @@ public class CigarCigar
     String refString = refCigar.getSequenceString(GapChar);
     if (refString != null)
     {
-      return (length == 0) ? "" :
-          (String) getSequenceAndDeletions(refString, GapChar)[0];
+      return (length == 0) ? ""
+              : (String) getSequenceAndDeletions(refString, GapChar)[0];
     }
     else
     {