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[jalview.git] / src / jalview / binding / Alignment.java

diff --git a/src/jalview/binding/Alignment.java b/src/jalview/binding/Alignment.java
index 644cd03..9a38f10 100755 (executable)
--- a/src/jalview/binding/Alignment.java
+++ b/src/jalview/binding/Alignment.java
@@ -1,29 +1,10 @@
 /*\r
- * This class was automatically generated with\r
+ * This class was automatically generated with \r
  * <a href="http://www.castor.org">Castor 0.9.6</a>, using an XML\r
  * Schema.\r
  * $Id$\r
  */\r
 \r
-/*\r
-* Jalview - A Sequence Alignment Editor and Viewer\r
-* Copyright (C) 2005 AM Waterhouse, J Procter, G Barton, M Clamp, S Searle\r
-*\r
-* This program is free software; you can redistribute it and/or\r
-* modify it under the terms of the GNU General Public License\r
-* as published by the Free Software Foundation; either version 2\r
-* of the License, or (at your option) any later version.\r
-*\r
-* This program is distributed in the hope that it will be useful,\r
-* but WITHOUT ANY WARRANTY; without even the implied warranty of\r
-* MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the\r
-* GNU General Public License for more details.\r
-*\r
-* You should have received a copy of the GNU General Public License\r
-* along with this program; if not, write to the Free Software\r
-* Foundation, Inc., 51 Franklin Street, Fifth Floor, Boston, MA  02110-1301, USA\r
-*/\r
-\r
 package jalview.binding;\r
 \r
   //---------------------------------/\r
@@ -42,7 +23,7 @@ import org.xml.sax.ContentHandler;
 \r
 /**\r
  * Class Alignment.\r
- *\r
+ * \r
  * @version $Revision$ $Date$\r
  */\r
 public class Alignment implements java.io.Serializable {\r
@@ -78,31 +59,31 @@ public class Alignment implements java.io.Serializable {
 \r
     /**\r
      * Returns the value of field 'annotation'.\r
-     *\r
+     * \r
      * @return Annotation\r
      * @return the value of field 'annotation'.\r
      */\r
     public jalview.binding.Annotation getAnnotation()\r
     {\r
         return this._annotation;\r
-    } //-- jalview.binding.Annotation getAnnotation()\r
+    } //-- jalview.binding.Annotation getAnnotation() \r
 \r
     /**\r
      * Returns the value of field 'sequenceSet'.\r
-     *\r
+     * \r
      * @return SequenceSet\r
      * @return the value of field 'sequenceSet'.\r
      */\r
     public jalview.binding.SequenceSet getSequenceSet()\r
     {\r
         return this._sequenceSet;\r
-    } //-- jalview.binding.SequenceSet getSequenceSet()\r
+    } //-- jalview.binding.SequenceSet getSequenceSet() \r
 \r
     /**\r
      * Method isValid\r
-     *\r
-     *\r
-     *\r
+     * \r
+     * \r
+     * \r
      * @return boolean\r
      */\r
     public boolean isValid()\r
@@ -114,61 +95,61 @@ public class Alignment implements java.io.Serializable {
             return false;\r
         }\r
         return true;\r
-    } //-- boolean isValid()\r
+    } //-- boolean isValid() \r
 \r
     /**\r
      * Method marshal\r
-     *\r
-     *\r
-     *\r
+     * \r
+     * \r
+     * \r
      * @param out\r
      */\r
     public void marshal(java.io.Writer out)\r
         throws org.exolab.castor.xml.MarshalException, org.exolab.castor.xml.ValidationException\r
     {\r
-\r
+        \r
         Marshaller.marshal(this, out);\r
-    } //-- void marshal(java.io.Writer)\r
+    } //-- void marshal(java.io.Writer) \r
 \r
     /**\r
      * Method marshal\r
-     *\r
-     *\r
-     *\r
+     * \r
+     * \r
+     * \r
      * @param handler\r
      */\r
     public void marshal(org.xml.sax.ContentHandler handler)\r
         throws java.io.IOException, org.exolab.castor.xml.MarshalException, org.exolab.castor.xml.ValidationException\r
     {\r
-\r
+        \r
         Marshaller.marshal(this, handler);\r
-    } //-- void marshal(org.xml.sax.ContentHandler)\r
+    } //-- void marshal(org.xml.sax.ContentHandler) \r
 \r
     /**\r
      * Sets the value of field 'annotation'.\r
-     *\r
+     * \r
      * @param annotation the value of field 'annotation'.\r
      */\r
     public void setAnnotation(jalview.binding.Annotation annotation)\r
     {\r
         this._annotation = annotation;\r
-    } //-- void setAnnotation(jalview.binding.Annotation)\r
+    } //-- void setAnnotation(jalview.binding.Annotation) \r
 \r
     /**\r
      * Sets the value of field 'sequenceSet'.\r
-     *\r
+     * \r
      * @param sequenceSet the value of field 'sequenceSet'.\r
      */\r
     public void setSequenceSet(jalview.binding.SequenceSet sequenceSet)\r
     {\r
         this._sequenceSet = sequenceSet;\r
-    } //-- void setSequenceSet(jalview.binding.SequenceSet)\r
+    } //-- void setSequenceSet(jalview.binding.SequenceSet) \r
 \r
     /**\r
      * Method unmarshal\r
-     *\r
-     *\r
-     *\r
+     * \r
+     * \r
+     * \r
      * @param reader\r
      * @return Object\r
      */\r
@@ -176,17 +157,17 @@ public class Alignment implements java.io.Serializable {
         throws org.exolab.castor.xml.MarshalException, org.exolab.castor.xml.ValidationException\r
     {\r
         return (jalview.binding.Alignment) Unmarshaller.unmarshal(jalview.binding.Alignment.class, reader);\r
-    } //-- java.lang.Object unmarshal(java.io.Reader)\r
+    } //-- java.lang.Object unmarshal(java.io.Reader) \r
 \r
     /**\r
      * Method validate\r
-     *\r
+     * \r
      */\r
     public void validate()\r
         throws org.exolab.castor.xml.ValidationException\r
     {\r
         org.exolab.castor.xml.Validator validator = new org.exolab.castor.xml.Validator();\r
         validator.validate(this);\r
-    } //-- void validate()\r
+    } //-- void validate() \r
 \r
 }\r