X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Fbinding%2FAlignment.java;h=9a38f10c1d7c794c3d3d412fca7cb8277693543d;hb=d4b1e4d0c74b1c6d0f3c3556b10be91a6aaea475;hp=78fff89dc2a6285df130e8bda1f746824356d1c4;hpb=efc31b4a8d5cee63555586804a2b79c06bdb5a14;p=jalview.git

diff --git a/src/jalview/binding/Alignment.java b/src/jalview/binding/Alignment.java
index 78fff89..9a38f10 100755
--- a/src/jalview/binding/Alignment.java
+++ b/src/jalview/binding/Alignment.java
@@ -1,36 +1,36 @@
 /*
- * This class was automatically generated with
+ * This class was automatically generated with 
  * <a href="http://www.castor.org">Castor 0.9.6</a>, using an XML
  * Schema.
  * $Id$
  */
-package jalview.binding;
 
-import org.exolab.castor.xml.MarshalException;
-import org.exolab.castor.xml.Marshaller;
-import org.exolab.castor.xml.Unmarshaller;
-import org.exolab.castor.xml.ValidationException;
-
-import org.xml.sax.ContentHandler;
+package jalview.binding;
 
+  //---------------------------------/
+ //- Imported classes and packages -/
 //---------------------------------/
-//- Imported classes and packages -/
-//---------------------------------/
+
 import java.io.IOException;
 import java.io.Reader;
 import java.io.Serializable;
 import java.io.Writer;
-
+import org.exolab.castor.xml.MarshalException;
+import org.exolab.castor.xml.Marshaller;
+import org.exolab.castor.xml.Unmarshaller;
+import org.exolab.castor.xml.ValidationException;
+import org.xml.sax.ContentHandler;
 
 /**
  * Class Alignment.
- *
+ * 
  * @version $Revision$ $Date$
  */
-public class Alignment implements java.io.Serializable
-{
-    //--------------------------/
-    //- Class/Member Variables -/
+public class Alignment implements java.io.Serializable {
+
+
+      //--------------------------/
+     //- Class/Member Variables -/
     //--------------------------/
 
     /**
@@ -43,148 +43,131 @@ public class Alignment implements java.io.Serializable
      */
     private jalview.binding.SequenceSet _sequenceSet;
 
+
+      //----------------/
+     //- Constructors -/
     //----------------/
-    //- Constructors -/
-    //----------------/
-    public Alignment()
-    {
+
+    public Alignment() {
         super();
-    }
+    } //-- jalview.binding.Alignment()
 
-    //-- jalview.binding.Alignment()
+
+      //-----------/
+     //- Methods -/
     //-----------/
 
     /**
-     * DOCUMENT ME!
-     *
-     * @return DOCUMENT ME!
+     * Returns the value of field 'annotation'.
+     * 
+     * @return Annotation
+     * @return the value of field 'annotation'.
      */
     public jalview.binding.Annotation getAnnotation()
     {
         return this._annotation;
-    }
-
-    //-- jalview.binding.Annotation getAnnotation() 
+    } //-- jalview.binding.Annotation getAnnotation() 
 
     /**
      * Returns the value of field 'sequenceSet'.
-     *
+     * 
      * @return SequenceSet
      * @return the value of field 'sequenceSet'.
      */
     public jalview.binding.SequenceSet getSequenceSet()
     {
         return this._sequenceSet;
-    }
-
-    //-- jalview.binding.SequenceSet getSequenceSet() 
+    } //-- jalview.binding.SequenceSet getSequenceSet() 
 
     /**
      * Method isValid
-     *
-     *
-     *
+     * 
+     * 
+     * 
      * @return boolean
      */
     public boolean isValid()
     {
-        try
-        {
+        try {
             validate();
         }
-        catch (org.exolab.castor.xml.ValidationException vex)
-        {
+        catch (org.exolab.castor.xml.ValidationException vex) {
             return false;
         }
-
         return true;
-    }
-
-    //-- boolean isValid() 
+    } //-- boolean isValid() 
 
     /**
      * Method marshal
-     *
-     *
-     *
+     * 
+     * 
+     * 
      * @param out
      */
     public void marshal(java.io.Writer out)
-        throws org.exolab.castor.xml.MarshalException, 
-            org.exolab.castor.xml.ValidationException
+        throws org.exolab.castor.xml.MarshalException, org.exolab.castor.xml.ValidationException
     {
+        
         Marshaller.marshal(this, out);
-    }
-
-    //-- void marshal(java.io.Writer) 
+    } //-- void marshal(java.io.Writer) 
 
     /**
      * Method marshal
-     *
-     *
-     *
+     * 
+     * 
+     * 
      * @param handler
      */
     public void marshal(org.xml.sax.ContentHandler handler)
-        throws java.io.IOException, org.exolab.castor.xml.MarshalException, 
-            org.exolab.castor.xml.ValidationException
+        throws java.io.IOException, org.exolab.castor.xml.MarshalException, org.exolab.castor.xml.ValidationException
     {
+        
         Marshaller.marshal(this, handler);
-    }
-
-    //-- void marshal(org.xml.sax.ContentHandler) 
+    } //-- void marshal(org.xml.sax.ContentHandler) 
 
     /**
      * Sets the value of field 'annotation'.
-     *
+     * 
      * @param annotation the value of field 'annotation'.
      */
     public void setAnnotation(jalview.binding.Annotation annotation)
     {
         this._annotation = annotation;
-    }
-
-    //-- void setAnnotation(jalview.binding.Annotation) 
+    } //-- void setAnnotation(jalview.binding.Annotation) 
 
     /**
      * Sets the value of field 'sequenceSet'.
-     *
+     * 
      * @param sequenceSet the value of field 'sequenceSet'.
      */
     public void setSequenceSet(jalview.binding.SequenceSet sequenceSet)
     {
         this._sequenceSet = sequenceSet;
-    }
-
-    //-- void setSequenceSet(jalview.binding.SequenceSet) 
+    } //-- void setSequenceSet(jalview.binding.SequenceSet) 
 
     /**
      * Method unmarshal
-     *
-     *
-     *
+     * 
+     * 
+     * 
      * @param reader
      * @return Object
      */
     public static java.lang.Object unmarshal(java.io.Reader reader)
-        throws org.exolab.castor.xml.MarshalException, 
-            org.exolab.castor.xml.ValidationException
+        throws org.exolab.castor.xml.MarshalException, org.exolab.castor.xml.ValidationException
     {
-        return (jalview.binding.Alignment) Unmarshaller.unmarshal(jalview.binding.Alignment.class,
-            reader);
-    }
-
-    //-- java.lang.Object unmarshal(java.io.Reader) 
+        return (jalview.binding.Alignment) Unmarshaller.unmarshal(jalview.binding.Alignment.class, reader);
+    } //-- java.lang.Object unmarshal(java.io.Reader) 
 
     /**
      * Method validate
-     *
+     * 
      */
-    public void validate() throws org.exolab.castor.xml.ValidationException
+    public void validate()
+        throws org.exolab.castor.xml.ValidationException
     {
         org.exolab.castor.xml.Validator validator = new org.exolab.castor.xml.Validator();
         validator.validate(this);
-    }
+    } //-- void validate() 
 
-    //-- void validate() 
 }