JAL-1620 version bump and release notes

[jalview.git] / src / jalview / schemabinding / version2 / JGroup.java

diff --git a/src/jalview/schemabinding/version2/JGroup.java b/src/jalview/schemabinding/version2/JGroup.java
index 56e43b7..523115f 100644 (file)
--- a/src/jalview/schemabinding/version2/JGroup.java
+++ b/src/jalview/schemabinding/version2/JGroup.java
@@ -1,35 +1,31 @@
-/*******************************************************************************
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8.0b1)
+/*
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8.2b1)
  * Copyright (C) 2014 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.
+ * as published by the Free Software Foundation, either version 3
+ * of the License, or (at your option) any later version.
  *  
  * 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 Jalview.  
- * If not, see <http://www.gnu.org/licenses/>.
+ * You should have received a copy of the GNU General Public License
+ * along with Jalview.  If not, see <http://www.gnu.org/licenses/>.
  * The Jalview Authors are detailed in the 'AUTHORS' file.
- ******************************************************************************/
-/*
- * This class was automatically generated with 
- * <a href="http://www.castor.org">Castor 1.1</a>, using an XML
- * Schema.
- * $Id$
  */
-
 package jalview.schemabinding.version2;
 
 //---------------------------------/
 //- Imported classes and packages -/
 //---------------------------------/
 
+import jalview.util.MessageManager;
+
 import org.exolab.castor.xml.Marshaller;
 import org.exolab.castor.xml.Unmarshaller;
 
@@ -226,6 +222,11 @@ public class JGroup implements java.io.Serializable
    */
   private java.util.Vector _seqList;
 
+  /**
+   * Field _annotationColours.
+   */
+  private jalview.schemabinding.version2.AnnotationColours _annotationColours;
+
   // ----------------/
   // - Constructors -/
   // ----------------/
@@ -390,6 +391,16 @@ public class JGroup implements java.io.Serializable
   }
 
   /**
+   * Returns the value of field 'annotationColours'.
+   * 
+   * @return the value of field 'AnnotationColours'.
+   */
+  public jalview.schemabinding.version2.AnnotationColours getAnnotationColours()
+  {
+    return this._annotationColours;
+  }
+
+  /**
    * Returns the value of field 'colour'.
    * 
    * @return the value of field 'Colour'.
@@ -526,8 +537,11 @@ public class JGroup implements java.io.Serializable
     // check bounds for index
     if (index < 0 || index >= this._seqList.size())
     {
-      throw new IndexOutOfBoundsException("getSeq: Index value '" + index
-              + "' not in range [0.." + (this._seqList.size() - 1) + "]");
+        throw new IndexOutOfBoundsException(MessageManager.formatMessage("exception.index_value_not_in_range", new String[]{
+                         "getSeq",
+                         Integer.valueOf(index).toString(),
+                         Integer.valueOf((this._seqList.size() - 1)).toString()
+          })); 
     }
 
     return (java.lang.String) _seqList.get(index);
@@ -954,6 +968,18 @@ public class JGroup implements java.io.Serializable
   }
 
   /**
+   * Sets the value of field 'annotationColours'.
+   * 
+   * @param annotationColours
+   *          the value of field 'annotationColours'.
+   */
+  public void setAnnotationColours(
+          final jalview.schemabinding.version2.AnnotationColours annotationColours)
+  {
+    this._annotationColours = annotationColours;
+  }
+
+  /**
    * Sets the value of field 'colour'.
    * 
    * @param colour
@@ -1110,8 +1136,11 @@ public class JGroup implements java.io.Serializable
     // check bounds for index
     if (index < 0 || index >= this._seqList.size())
     {
-      throw new IndexOutOfBoundsException("setSeq: Index value '" + index
-              + "' not in range [0.." + (this._seqList.size() - 1) + "]");
+        throw new IndexOutOfBoundsException(MessageManager.formatMessage("exception.index_value_not_in_range", new String[]{
+                 "setSeq",
+                 Integer.valueOf(index).toString(),
+                 Integer.valueOf((this._seqList.size() - 1)).toString()
+        })); 
     }
 
     this._seqList.set(index, vSeq);