X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Fschemabinding%2Fversion2%2FVAMSAS.java;h=ae8e17fe08c7d0d237fd2d9f3e51c1174b73e0e3;hb=a95b88b05400d7e841f9523d4c4228c678307654;hp=a0b34602f8874457665e544101f0d125aeca1680;hpb=d2f229824ea8104aacccc8f72887d464a58e73d4;p=jalview.git

diff --git a/src/jalview/schemabinding/version2/VAMSAS.java b/src/jalview/schemabinding/version2/VAMSAS.java
index a0b3460..ae8e17f 100755
--- a/src/jalview/schemabinding/version2/VAMSAS.java
+++ b/src/jalview/schemabinding/version2/VAMSAS.java
@@ -1,24 +1,14 @@
 /*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
- * 
- * 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.
- * 
- * 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/>.
+ * 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 -/
+  //---------------------------------/
+ //- Imported classes and packages -/
 //---------------------------------/
 
 import org.exolab.castor.xml.Marshaller;
@@ -29,436 +19,411 @@ import org.exolab.castor.xml.Unmarshaller;
  * 
  * @version $Revision$ $Date$
  */
-public class VAMSAS implements java.io.Serializable
-{
-
-  // --------------------------/
-  // - Class/Member Variables -/
-  // --------------------------/
-
-  /**
-   * Field _treeList.
-   */
-  private java.util.Vector _treeList;
-
-  /**
-   * Field _sequenceSetList.
-   */
-  private java.util.Vector _sequenceSetList;
-
-  // ----------------/
-  // - Constructors -/
-  // ----------------/
-
-  public VAMSAS()
-  {
-    super();
-    this._treeList = new java.util.Vector();
-    this._sequenceSetList = new java.util.Vector();
-  }
-
-  // -----------/
-  // - Methods -/
-  // -----------/
-
-  /**
-   * 
-   * 
-   * @param vSequenceSet
-   * @throws java.lang.IndexOutOfBoundsException
-   *           if the index given is outside the bounds of the collection
-   */
-  public void addSequenceSet(
-          final jalview.schemabinding.version2.SequenceSet vSequenceSet)
-          throws java.lang.IndexOutOfBoundsException
-  {
-    this._sequenceSetList.addElement(vSequenceSet);
-  }
-
-  /**
-   * 
-   * 
-   * @param index
-   * @param vSequenceSet
-   * @throws java.lang.IndexOutOfBoundsException
-   *           if the index given is outside the bounds of the collection
-   */
-  public void addSequenceSet(final int index,
-          final jalview.schemabinding.version2.SequenceSet vSequenceSet)
-          throws java.lang.IndexOutOfBoundsException
-  {
-    this._sequenceSetList.add(index, vSequenceSet);
-  }
-
-  /**
-   * 
-   * 
-   * @param vTree
-   * @throws java.lang.IndexOutOfBoundsException
-   *           if the index given is outside the bounds of the collection
-   */
-  public void addTree(final java.lang.String vTree)
-          throws java.lang.IndexOutOfBoundsException
-  {
-    this._treeList.addElement(vTree);
-  }
-
-  /**
-   * 
-   * 
-   * @param index
-   * @param vTree
-   * @throws java.lang.IndexOutOfBoundsException
-   *           if the index given is outside the bounds of the collection
-   */
-  public void addTree(final int index, final java.lang.String vTree)
-          throws java.lang.IndexOutOfBoundsException
-  {
-    this._treeList.add(index, vTree);
-  }
-
-  /**
-   * Method enumerateSequenceSet.
-   * 
-   * @return an Enumeration over all jalview.schemabinding.version2.SequenceSet
-   *         elements
-   */
-  public java.util.Enumeration enumerateSequenceSet()
-  {
-    return this._sequenceSetList.elements();
-  }
-
-  /**
-   * Method enumerateTree.
-   * 
-   * @return an Enumeration over all java.lang.String elements
-   */
-  public java.util.Enumeration enumerateTree()
-  {
-    return this._treeList.elements();
-  }
-
-  /**
-   * Method getSequenceSet.
-   * 
-   * @param index
-   * @throws java.lang.IndexOutOfBoundsException
-   *           if the index given is outside the bounds of the collection
-   * @return the value of the jalview.schemabinding.version2.SequenceSet at the
-   *         given index
-   */
-  public jalview.schemabinding.version2.SequenceSet getSequenceSet(
-          final int index) throws java.lang.IndexOutOfBoundsException
-  {
-    // check bounds for index
-    if (index < 0 || index >= this._sequenceSetList.size())
-    {
-      throw new IndexOutOfBoundsException("getSequenceSet: Index value '"
-              + index + "' not in range [0.."
-              + (this._sequenceSetList.size() - 1) + "]");
+public class VAMSAS implements java.io.Serializable {
+
+
+      //--------------------------/
+     //- Class/Member Variables -/
+    //--------------------------/
+
+    /**
+     * Field _treeList.
+     */
+    private java.util.Vector _treeList;
+
+    /**
+     * Field _sequenceSetList.
+     */
+    private java.util.Vector _sequenceSetList;
+
+
+      //----------------/
+     //- Constructors -/
+    //----------------/
+
+    public VAMSAS() {
+        super();
+        this._treeList = new java.util.Vector();
+        this._sequenceSetList = new java.util.Vector();
     }
 
-    return (jalview.schemabinding.version2.SequenceSet) _sequenceSetList
-            .get(index);
-  }
-
-  /**
-   * Method getSequenceSet.Returns the contents of the collection in an Array.
-   * <p>
-   * Note: Just in case the collection contents are changing in another thread,
-   * we pass a 0-length Array of the correct type into the API call. This way we
-   * <i>know</i> that the Array returned is of exactly the correct length.
-   * 
-   * @return this collection as an Array
-   */
-  public jalview.schemabinding.version2.SequenceSet[] getSequenceSet()
-  {
-    jalview.schemabinding.version2.SequenceSet[] array = new jalview.schemabinding.version2.SequenceSet[0];
-    return (jalview.schemabinding.version2.SequenceSet[]) this._sequenceSetList
-            .toArray(array);
-  }
-
-  /**
-   * Method getSequenceSetCount.
-   * 
-   * @return the size of this collection
-   */
-  public int getSequenceSetCount()
-  {
-    return this._sequenceSetList.size();
-  }
-
-  /**
-   * Method getTree.
-   * 
-   * @param index
-   * @throws java.lang.IndexOutOfBoundsException
-   *           if the index given is outside the bounds of the collection
-   * @return the value of the java.lang.String at the given index
-   */
-  public java.lang.String getTree(final int index)
-          throws java.lang.IndexOutOfBoundsException
-  {
-    // check bounds for index
-    if (index < 0 || index >= this._treeList.size())
-    {
-      throw new IndexOutOfBoundsException("getTree: Index value '" + index
-              + "' not in range [0.." + (this._treeList.size() - 1) + "]");
+
+      //-----------/
+     //- Methods -/
+    //-----------/
+
+    /**
+     * 
+     * 
+     * @param vSequenceSet
+     * @throws java.lang.IndexOutOfBoundsException if the index
+     * given is outside the bounds of the collection
+     */
+    public void addSequenceSet(
+            final jalview.schemabinding.version2.SequenceSet vSequenceSet)
+    throws java.lang.IndexOutOfBoundsException {
+        this._sequenceSetList.addElement(vSequenceSet);
     }
 
-    return (java.lang.String) _treeList.get(index);
-  }
-
-  /**
-   * Method getTree.Returns the contents of the collection in an Array.
-   * <p>
-   * Note: Just in case the collection contents are changing in another thread,
-   * we pass a 0-length Array of the correct type into the API call. This way we
-   * <i>know</i> that the Array returned is of exactly the correct length.
-   * 
-   * @return this collection as an Array
-   */
-  public java.lang.String[] getTree()
-  {
-    java.lang.String[] array = new java.lang.String[0];
-    return (java.lang.String[]) this._treeList.toArray(array);
-  }
-
-  /**
-   * Method getTreeCount.
-   * 
-   * @return the size of this collection
-   */
-  public int getTreeCount()
-  {
-    return this._treeList.size();
-  }
-
-  /**
-   * Method isValid.
-   * 
-   * @return true if this object is valid according to the schema
-   */
-  public boolean isValid()
-  {
-    try
-    {
-      validate();
-    } catch (org.exolab.castor.xml.ValidationException vex)
-    {
-      return false;
+    /**
+     * 
+     * 
+     * @param index
+     * @param vSequenceSet
+     * @throws java.lang.IndexOutOfBoundsException if the index
+     * given is outside the bounds of the collection
+     */
+    public void addSequenceSet(
+            final int index,
+            final jalview.schemabinding.version2.SequenceSet vSequenceSet)
+    throws java.lang.IndexOutOfBoundsException {
+        this._sequenceSetList.add(index, vSequenceSet);
     }
-    return true;
-  }
-
-  /**
-   * 
-   * 
-   * @param out
-   * @throws org.exolab.castor.xml.MarshalException
-   *           if object is null or if any SAXException is thrown during
-   *           marshaling
-   * @throws org.exolab.castor.xml.ValidationException
-   *           if this object is an invalid instance according to the schema
-   */
-  public void marshal(final java.io.Writer out)
-          throws org.exolab.castor.xml.MarshalException,
-          org.exolab.castor.xml.ValidationException
-  {
-    Marshaller.marshal(this, out);
-  }
-
-  /**
-   * 
-   * 
-   * @param handler
-   * @throws java.io.IOException
-   *           if an IOException occurs during marshaling
-   * @throws org.exolab.castor.xml.ValidationException
-   *           if this object is an invalid instance according to the schema
-   * @throws org.exolab.castor.xml.MarshalException
-   *           if object is null or if any SAXException is thrown during
-   *           marshaling
-   */
-  public void marshal(final org.xml.sax.ContentHandler handler)
-          throws java.io.IOException,
-          org.exolab.castor.xml.MarshalException,
-          org.exolab.castor.xml.ValidationException
-  {
-    Marshaller.marshal(this, handler);
-  }
-
-  /**
+
+    /**
+     * 
+     * 
+     * @param vTree
+     * @throws java.lang.IndexOutOfBoundsException if the index
+     * given is outside the bounds of the collection
      */
-  public void removeAllSequenceSet()
-  {
-    this._sequenceSetList.clear();
-  }
+    public void addTree(
+            final java.lang.String vTree)
+    throws java.lang.IndexOutOfBoundsException {
+        this._treeList.addElement(vTree);
+    }
 
-  /**
+    /**
+     * 
+     * 
+     * @param index
+     * @param vTree
+     * @throws java.lang.IndexOutOfBoundsException if the index
+     * given is outside the bounds of the collection
      */
-  public void removeAllTree()
-  {
-    this._treeList.clear();
-  }
-
-  /**
-   * Method removeSequenceSet.
-   * 
-   * @param vSequenceSet
-   * @return true if the object was removed from the collection.
-   */
-  public boolean removeSequenceSet(
-          final jalview.schemabinding.version2.SequenceSet vSequenceSet)
-  {
-    boolean removed = _sequenceSetList.remove(vSequenceSet);
-    return removed;
-  }
-
-  /**
-   * Method removeSequenceSetAt.
-   * 
-   * @param index
-   * @return the element removed from the collection
-   */
-  public jalview.schemabinding.version2.SequenceSet removeSequenceSetAt(
-          final int index)
-  {
-    java.lang.Object obj = this._sequenceSetList.remove(index);
-    return (jalview.schemabinding.version2.SequenceSet) obj;
-  }
-
-  /**
-   * Method removeTree.
-   * 
-   * @param vTree
-   * @return true if the object was removed from the collection.
-   */
-  public boolean removeTree(final java.lang.String vTree)
-  {
-    boolean removed = _treeList.remove(vTree);
-    return removed;
-  }
-
-  /**
-   * Method removeTreeAt.
-   * 
-   * @param index
-   * @return the element removed from the collection
-   */
-  public java.lang.String removeTreeAt(final int index)
-  {
-    java.lang.Object obj = this._treeList.remove(index);
-    return (java.lang.String) obj;
-  }
-
-  /**
-   * 
-   * 
-   * @param index
-   * @param vSequenceSet
-   * @throws java.lang.IndexOutOfBoundsException
-   *           if the index given is outside the bounds of the collection
-   */
-  public void setSequenceSet(final int index,
-          final jalview.schemabinding.version2.SequenceSet vSequenceSet)
-          throws java.lang.IndexOutOfBoundsException
-  {
-    // check bounds for index
-    if (index < 0 || index >= this._sequenceSetList.size())
-    {
-      throw new IndexOutOfBoundsException("setSequenceSet: Index value '"
-              + index + "' not in range [0.."
-              + (this._sequenceSetList.size() - 1) + "]");
+    public void addTree(
+            final int index,
+            final java.lang.String vTree)
+    throws java.lang.IndexOutOfBoundsException {
+        this._treeList.add(index, vTree);
     }
 
-    this._sequenceSetList.set(index, vSequenceSet);
-  }
-
-  /**
-   * 
-   * 
-   * @param vSequenceSetArray
-   */
-  public void setSequenceSet(
-          final jalview.schemabinding.version2.SequenceSet[] vSequenceSetArray)
-  {
-    // -- copy array
-    _sequenceSetList.clear();
-
-    for (int i = 0; i < vSequenceSetArray.length; i++)
-    {
-      this._sequenceSetList.add(vSequenceSetArray[i]);
+    /**
+     * Method enumerateSequenceSet.
+     * 
+     * @return an Enumeration over all
+     * jalview.schemabinding.version2.SequenceSet elements
+     */
+    public java.util.Enumeration enumerateSequenceSet(
+    ) {
+        return this._sequenceSetList.elements();
     }
-  }
-
-  /**
-   * 
-   * 
-   * @param index
-   * @param vTree
-   * @throws java.lang.IndexOutOfBoundsException
-   *           if the index given is outside the bounds of the collection
-   */
-  public void setTree(final int index, final java.lang.String vTree)
-          throws java.lang.IndexOutOfBoundsException
-  {
-    // check bounds for index
-    if (index < 0 || index >= this._treeList.size())
-    {
-      throw new IndexOutOfBoundsException("setTree: Index value '" + index
-              + "' not in range [0.." + (this._treeList.size() - 1) + "]");
+
+    /**
+     * Method enumerateTree.
+     * 
+     * @return an Enumeration over all java.lang.String elements
+     */
+    public java.util.Enumeration enumerateTree(
+    ) {
+        return this._treeList.elements();
+    }
+
+    /**
+     * Method getSequenceSet.
+     * 
+     * @param index
+     * @throws java.lang.IndexOutOfBoundsException if the index
+     * given is outside the bounds of the collection
+     * @return the value of the
+     * jalview.schemabinding.version2.SequenceSet at the given index
+     */
+    public jalview.schemabinding.version2.SequenceSet getSequenceSet(
+            final int index)
+    throws java.lang.IndexOutOfBoundsException {
+        // check bounds for index
+        if (index < 0 || index >= this._sequenceSetList.size()) {
+            throw new IndexOutOfBoundsException("getSequenceSet: Index value '" + index + "' not in range [0.." + (this._sequenceSetList.size() - 1) + "]");
+        }
+        
+        return (jalview.schemabinding.version2.SequenceSet) _sequenceSetList.get(index);
+    }
+
+    /**
+     * Method getSequenceSet.Returns the contents of the collection
+     * in an Array.  <p>Note:  Just in case the collection contents
+     * are changing in another thread, we pass a 0-length Array of
+     * the correct type into the API call.  This way we <i>know</i>
+     * that the Array returned is of exactly the correct length.
+     * 
+     * @return this collection as an Array
+     */
+    public jalview.schemabinding.version2.SequenceSet[] getSequenceSet(
+    ) {
+        jalview.schemabinding.version2.SequenceSet[] array = new jalview.schemabinding.version2.SequenceSet[0];
+        return (jalview.schemabinding.version2.SequenceSet[]) this._sequenceSetList.toArray(array);
+    }
+
+    /**
+     * Method getSequenceSetCount.
+     * 
+     * @return the size of this collection
+     */
+    public int getSequenceSetCount(
+    ) {
+        return this._sequenceSetList.size();
     }
 
-    this._treeList.set(index, vTree);
-  }
-
-  /**
-   * 
-   * 
-   * @param vTreeArray
-   */
-  public void setTree(final java.lang.String[] vTreeArray)
-  {
-    // -- copy array
-    _treeList.clear();
-
-    for (int i = 0; i < vTreeArray.length; i++)
-    {
-      this._treeList.add(vTreeArray[i]);
+    /**
+     * Method getTree.
+     * 
+     * @param index
+     * @throws java.lang.IndexOutOfBoundsException if the index
+     * given is outside the bounds of the collection
+     * @return the value of the java.lang.String at the given index
+     */
+    public java.lang.String getTree(
+            final int index)
+    throws java.lang.IndexOutOfBoundsException {
+        // check bounds for index
+        if (index < 0 || index >= this._treeList.size()) {
+            throw new IndexOutOfBoundsException("getTree: Index value '" + index + "' not in range [0.." + (this._treeList.size() - 1) + "]");
+        }
+        
+        return (java.lang.String) _treeList.get(index);
+    }
+
+    /**
+     * Method getTree.Returns the contents of the collection in an
+     * Array.  <p>Note:  Just in case the collection contents are
+     * changing in another thread, we pass a 0-length Array of the
+     * correct type into the API call.  This way we <i>know</i>
+     * that the Array returned is of exactly the correct length.
+     * 
+     * @return this collection as an Array
+     */
+    public java.lang.String[] getTree(
+    ) {
+        java.lang.String[] array = new java.lang.String[0];
+        return (java.lang.String[]) this._treeList.toArray(array);
+    }
+
+    /**
+     * Method getTreeCount.
+     * 
+     * @return the size of this collection
+     */
+    public int getTreeCount(
+    ) {
+        return this._treeList.size();
+    }
+
+    /**
+     * Method isValid.
+     * 
+     * @return true if this object is valid according to the schema
+     */
+    public boolean isValid(
+    ) {
+        try {
+            validate();
+        } catch (org.exolab.castor.xml.ValidationException vex) {
+            return false;
+        }
+        return true;
+    }
+
+    /**
+     * 
+     * 
+     * @param out
+     * @throws org.exolab.castor.xml.MarshalException if object is
+     * null or if any SAXException is thrown during marshaling
+     * @throws org.exolab.castor.xml.ValidationException if this
+     * object is an invalid instance according to the schema
+     */
+    public void marshal(
+            final java.io.Writer out)
+    throws org.exolab.castor.xml.MarshalException, org.exolab.castor.xml.ValidationException {
+        Marshaller.marshal(this, out);
+    }
+
+    /**
+     * 
+     * 
+     * @param handler
+     * @throws java.io.IOException if an IOException occurs during
+     * marshaling
+     * @throws org.exolab.castor.xml.ValidationException if this
+     * object is an invalid instance according to the schema
+     * @throws org.exolab.castor.xml.MarshalException if object is
+     * null or if any SAXException is thrown during marshaling
+     */
+    public void marshal(
+            final org.xml.sax.ContentHandler handler)
+    throws java.io.IOException, org.exolab.castor.xml.MarshalException, org.exolab.castor.xml.ValidationException {
+        Marshaller.marshal(this, handler);
+    }
+
+    /**
+     */
+    public void removeAllSequenceSet(
+    ) {
+        this._sequenceSetList.clear();
+    }
+
+    /**
+     */
+    public void removeAllTree(
+    ) {
+        this._treeList.clear();
+    }
+
+    /**
+     * Method removeSequenceSet.
+     * 
+     * @param vSequenceSet
+     * @return true if the object was removed from the collection.
+     */
+    public boolean removeSequenceSet(
+            final jalview.schemabinding.version2.SequenceSet vSequenceSet) {
+        boolean removed = _sequenceSetList.remove(vSequenceSet);
+        return removed;
+    }
+
+    /**
+     * Method removeSequenceSetAt.
+     * 
+     * @param index
+     * @return the element removed from the collection
+     */
+    public jalview.schemabinding.version2.SequenceSet removeSequenceSetAt(
+            final int index) {
+        java.lang.Object obj = this._sequenceSetList.remove(index);
+        return (jalview.schemabinding.version2.SequenceSet) obj;
+    }
+
+    /**
+     * Method removeTree.
+     * 
+     * @param vTree
+     * @return true if the object was removed from the collection.
+     */
+    public boolean removeTree(
+            final java.lang.String vTree) {
+        boolean removed = _treeList.remove(vTree);
+        return removed;
+    }
+
+    /**
+     * Method removeTreeAt.
+     * 
+     * @param index
+     * @return the element removed from the collection
+     */
+    public java.lang.String removeTreeAt(
+            final int index) {
+        java.lang.Object obj = this._treeList.remove(index);
+        return (java.lang.String) obj;
+    }
+
+    /**
+     * 
+     * 
+     * @param index
+     * @param vSequenceSet
+     * @throws java.lang.IndexOutOfBoundsException if the index
+     * given is outside the bounds of the collection
+     */
+    public void setSequenceSet(
+            final int index,
+            final jalview.schemabinding.version2.SequenceSet vSequenceSet)
+    throws java.lang.IndexOutOfBoundsException {
+        // check bounds for index
+        if (index < 0 || index >= this._sequenceSetList.size()) {
+            throw new IndexOutOfBoundsException("setSequenceSet: Index value '" + index + "' not in range [0.." + (this._sequenceSetList.size() - 1) + "]");
+        }
+        
+        this._sequenceSetList.set(index, vSequenceSet);
+    }
+
+    /**
+     * 
+     * 
+     * @param vSequenceSetArray
+     */
+    public void setSequenceSet(
+            final jalview.schemabinding.version2.SequenceSet[] vSequenceSetArray) {
+        //-- copy array
+        _sequenceSetList.clear();
+        
+        for (int i = 0; i < vSequenceSetArray.length; i++) {
+                this._sequenceSetList.add(vSequenceSetArray[i]);
+        }
+    }
+
+    /**
+     * 
+     * 
+     * @param index
+     * @param vTree
+     * @throws java.lang.IndexOutOfBoundsException if the index
+     * given is outside the bounds of the collection
+     */
+    public void setTree(
+            final int index,
+            final java.lang.String vTree)
+    throws java.lang.IndexOutOfBoundsException {
+        // check bounds for index
+        if (index < 0 || index >= this._treeList.size()) {
+            throw new IndexOutOfBoundsException("setTree: Index value '" + index + "' not in range [0.." + (this._treeList.size() - 1) + "]");
+        }
+        
+        this._treeList.set(index, vTree);
+    }
+
+    /**
+     * 
+     * 
+     * @param vTreeArray
+     */
+    public void setTree(
+            final java.lang.String[] vTreeArray) {
+        //-- copy array
+        _treeList.clear();
+        
+        for (int i = 0; i < vTreeArray.length; i++) {
+                this._treeList.add(vTreeArray[i]);
+        }
+    }
+
+    /**
+     * Method unmarshal.
+     * 
+     * @param reader
+     * @throws org.exolab.castor.xml.MarshalException if object is
+     * null or if any SAXException is thrown during marshaling
+     * @throws org.exolab.castor.xml.ValidationException if this
+     * object is an invalid instance according to the schema
+     * @return the unmarshaled jalview.schemabinding.version2.VAMSAS
+     */
+    public static jalview.schemabinding.version2.VAMSAS unmarshal(
+            final java.io.Reader reader)
+    throws org.exolab.castor.xml.MarshalException, org.exolab.castor.xml.ValidationException {
+        return (jalview.schemabinding.version2.VAMSAS) Unmarshaller.unmarshal(jalview.schemabinding.version2.VAMSAS.class, reader);
+    }
+
+    /**
+     * 
+     * 
+     * @throws org.exolab.castor.xml.ValidationException if this
+     * object is an invalid instance according to the schema
+     */
+    public void validate(
+    )
+    throws org.exolab.castor.xml.ValidationException {
+        org.exolab.castor.xml.Validator validator = new org.exolab.castor.xml.Validator();
+        validator.validate(this);
     }
-  }
-
-  /**
-   * Method unmarshal.
-   * 
-   * @param reader
-   * @throws org.exolab.castor.xml.MarshalException
-   *           if object is null or if any SAXException is thrown during
-   *           marshaling
-   * @throws org.exolab.castor.xml.ValidationException
-   *           if this object is an invalid instance according to the schema
-   * @return the unmarshaled jalview.schemabinding.version2.VAMSAS
-   */
-  public static jalview.schemabinding.version2.VAMSAS unmarshal(
-          final java.io.Reader reader)
-          throws org.exolab.castor.xml.MarshalException,
-          org.exolab.castor.xml.ValidationException
-  {
-    return (jalview.schemabinding.version2.VAMSAS) Unmarshaller.unmarshal(
-            jalview.schemabinding.version2.VAMSAS.class, reader);
-  }
-
-  /**
-   * 
-   * 
-   * @throws org.exolab.castor.xml.ValidationException
-   *           if this object is an invalid instance according to the schema
-   */
-  public void validate() throws org.exolab.castor.xml.ValidationException
-  {
-    org.exolab.castor.xml.Validator validator = new org.exolab.castor.xml.Validator();
-    validator.validate(this);
-  }
 
 }