X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Fschemabinding%2Fversion2%2FSequence.java;h=993ad23609b227ec32ae07d817e49cd2abed549c;hb=def10fb2252c67e8256ec1fddc6605e34d760c63;hp=372a2c564c2155544387190b74448117254802cb;hpb=7bc226b58110fa26d9dbd3f0c78095d06909ffc3;p=jalview.git

diff --git a/src/jalview/schemabinding/version2/Sequence.java b/src/jalview/schemabinding/version2/Sequence.java
index 372a2c5..993ad23 100755
--- a/src/jalview/schemabinding/version2/Sequence.java
+++ b/src/jalview/schemabinding/version2/Sequence.java
@@ -1,5 +1,5 @@
 /*
- * 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.
  * $Id$
@@ -7,274 +7,270 @@
 
 package jalview.schemabinding.version2;
 
+  //---------------------------------/
+ //- Imported classes and packages -/
 //---------------------------------/
-//- Imported classes and packages -/
-//---------------------------------/
-
-import java.util.*;
 
-import org.exolab.castor.xml.*;
+import java.io.IOException;
+import java.io.Reader;
+import java.io.Serializable;
+import java.io.Writer;
+import java.util.Enumeration;
+import java.util.Vector;
+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 Sequence.
- *
+ * 
  * @version $Revision$ $Date$
  */
-public class Sequence
-    extends jalview.schemabinding.version2.SequenceType implements java.io.
-    Serializable
+public class Sequence extends jalview.schemabinding.version2.SequenceType 
+implements java.io.Serializable
 {
 
-  //--------------------------/
-  //- Class/Member Variables -/
-  //--------------------------/
 
-  /**
-   * Field _DBRefList
-   */
-  private java.util.Vector _DBRefList;
+      //--------------------------/
+     //- Class/Member Variables -/
+    //--------------------------/
 
-  //----------------/
-  //- Constructors -/
-  //----------------/
+    /**
+     * Field _DBRefList
+     */
+    private java.util.Vector _DBRefList;
 
-  public Sequence()
-  {
-    super();
-    _DBRefList = new Vector();
-  } //-- jalview.schemabinding.version2.Sequence()
 
-  //-----------/
-  //- Methods -/
-  //-----------/
+      //----------------/
+     //- Constructors -/
+    //----------------/
 
-  /**
-   * Method addDBRef
-   *
-   *
-   *
-   * @param vDBRef
-   */
-  public void addDBRef(jalview.schemabinding.version2.DBRef vDBRef)
-      throws java.lang.IndexOutOfBoundsException
-  {
-    _DBRefList.addElement(vDBRef);
-  } //-- void addDBRef(jalview.schemabinding.version2.DBRef)
+    public Sequence() {
+        super();
+        _DBRefList = new Vector();
+    } //-- jalview.schemabinding.version2.Sequence()
 
-  /**
-   * Method addDBRef
-   *
-   *
-   *
-   * @param index
-   * @param vDBRef
-   */
-  public void addDBRef(int index, jalview.schemabinding.version2.DBRef vDBRef)
-      throws java.lang.IndexOutOfBoundsException
-  {
-    _DBRefList.insertElementAt(vDBRef, index);
-  } //-- void addDBRef(int, jalview.schemabinding.version2.DBRef)
 
-  /**
-   * Method enumerateDBRef
-   *
-   *
-   *
-   * @return Enumeration
-   */
-  public java.util.Enumeration enumerateDBRef()
-  {
-    return _DBRefList.elements();
-  } //-- java.util.Enumeration enumerateDBRef()
+      //-----------/
+     //- Methods -/
+    //-----------/
 
-  /**
-   * Method getDBRef
-   *
-   *
-   *
-   * @param index
-   * @return DBRef
-   */
-  public jalview.schemabinding.version2.DBRef getDBRef(int index)
-      throws java.lang.IndexOutOfBoundsException
-  {
-    //-- check bounds for index
-    if ( (index < 0) || (index > _DBRefList.size()))
+    /**
+     * Method addDBRef
+     * 
+     * 
+     * 
+     * @param vDBRef
+     */
+    public void addDBRef(jalview.schemabinding.version2.DBRef vDBRef)
+        throws java.lang.IndexOutOfBoundsException
     {
-      throw new IndexOutOfBoundsException();
-    }
+        _DBRefList.addElement(vDBRef);
+    } //-- void addDBRef(jalview.schemabinding.version2.DBRef) 
 
-    return (jalview.schemabinding.version2.DBRef) _DBRefList.elementAt(index);
-  } //-- jalview.schemabinding.version2.DBRef getDBRef(int)
-
-  /**
-   * Method getDBRef
-   *
-   *
-   *
-   * @return DBRef
-   */
-  public jalview.schemabinding.version2.DBRef[] getDBRef()
-  {
-    int size = _DBRefList.size();
-    jalview.schemabinding.version2.DBRef[] mArray = new jalview.schemabinding.
-        version2.DBRef[size];
-    for (int index = 0; index < size; index++)
+    /**
+     * Method addDBRef
+     * 
+     * 
+     * 
+     * @param index
+     * @param vDBRef
+     */
+    public void addDBRef(int index, jalview.schemabinding.version2.DBRef vDBRef)
+        throws java.lang.IndexOutOfBoundsException
     {
-      mArray[index] = (jalview.schemabinding.version2.DBRef) _DBRefList.
-          elementAt(index);
-    }
-    return mArray;
-  } //-- jalview.schemabinding.version2.DBRef[] getDBRef()
+        _DBRefList.insertElementAt(vDBRef, index);
+    } //-- void addDBRef(int, jalview.schemabinding.version2.DBRef) 
 
-  /**
-   * Method getDBRefCount
-   *
-   *
-   *
-   * @return int
-   */
-  public int getDBRefCount()
-  {
-    return _DBRefList.size();
-  } //-- int getDBRefCount()
+    /**
+     * Method enumerateDBRef
+     * 
+     * 
+     * 
+     * @return Enumeration
+     */
+    public java.util.Enumeration enumerateDBRef()
+    {
+        return _DBRefList.elements();
+    } //-- java.util.Enumeration enumerateDBRef() 
 
-  /**
-   * Method isValid
-   *
-   *
-   *
-   * @return boolean
-   */
-  public boolean isValid()
-  {
-    try
+    /**
+     * Method getDBRef
+     * 
+     * 
+     * 
+     * @param index
+     * @return DBRef
+     */
+    public jalview.schemabinding.version2.DBRef getDBRef(int index)
+        throws java.lang.IndexOutOfBoundsException
     {
-      validate();
-    }
-    catch (org.exolab.castor.xml.ValidationException vex)
+        //-- check bounds for index
+        if ((index < 0) || (index > _DBRefList.size())) {
+            throw new IndexOutOfBoundsException();
+        }
+        
+        return (jalview.schemabinding.version2.DBRef) _DBRefList.elementAt(index);
+    } //-- jalview.schemabinding.version2.DBRef getDBRef(int) 
+
+    /**
+     * Method getDBRef
+     * 
+     * 
+     * 
+     * @return DBRef
+     */
+    public jalview.schemabinding.version2.DBRef[] getDBRef()
     {
-      return false;
-    }
-    return true;
-  } //-- boolean isValid()
+        int size = _DBRefList.size();
+        jalview.schemabinding.version2.DBRef[] mArray = new jalview.schemabinding.version2.DBRef[size];
+        for (int index = 0; index < size; index++) {
+            mArray[index] = (jalview.schemabinding.version2.DBRef) _DBRefList.elementAt(index);
+        }
+        return mArray;
+    } //-- jalview.schemabinding.version2.DBRef[] getDBRef() 
 
-  /**
-   * Method marshal
-   *
-   *
-   *
-   * @param out
-   */
-  public void marshal(java.io.Writer out)
-      throws org.exolab.castor.xml.MarshalException,
-      org.exolab.castor.xml.ValidationException
-  {
+    /**
+     * Method getDBRefCount
+     * 
+     * 
+     * 
+     * @return int
+     */
+    public int getDBRefCount()
+    {
+        return _DBRefList.size();
+    } //-- int getDBRefCount() 
 
-    Marshaller.marshal(this, out);
-  } //-- void marshal(java.io.Writer)
+    /**
+     * Method isValid
+     * 
+     * 
+     * 
+     * @return boolean
+     */
+    public boolean isValid()
+    {
+        try {
+            validate();
+        }
+        catch (org.exolab.castor.xml.ValidationException vex) {
+            return false;
+        }
+        return true;
+    } //-- boolean isValid() 
 
-  /**
-   * 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
-  {
+    /**
+     * Method marshal
+     * 
+     * 
+     * 
+     * @param out
+     */
+    public void marshal(java.io.Writer out)
+        throws org.exolab.castor.xml.MarshalException, org.exolab.castor.xml.ValidationException
+    {
+        
+        Marshaller.marshal(this, out);
+    } //-- void marshal(java.io.Writer) 
 
-    Marshaller.marshal(this, handler);
-  } //-- void marshal(org.xml.sax.ContentHandler)
+    /**
+     * 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
+    {
+        
+        Marshaller.marshal(this, handler);
+    } //-- void marshal(org.xml.sax.ContentHandler) 
 
-  /**
-   * Method removeAllDBRef
-   *
-   */
-  public void removeAllDBRef()
-  {
-    _DBRefList.removeAllElements();
-  } //-- void removeAllDBRef()
+    /**
+     * Method removeAllDBRef
+     * 
+     */
+    public void removeAllDBRef()
+    {
+        _DBRefList.removeAllElements();
+    } //-- void removeAllDBRef() 
 
-  /**
-   * Method removeDBRef
-   *
-   *
-   *
-   * @param index
-   * @return DBRef
-   */
-  public jalview.schemabinding.version2.DBRef removeDBRef(int index)
-  {
-    java.lang.Object obj = _DBRefList.elementAt(index);
-    _DBRefList.removeElementAt(index);
-    return (jalview.schemabinding.version2.DBRef) obj;
-  } //-- jalview.schemabinding.version2.DBRef removeDBRef(int)
+    /**
+     * Method removeDBRef
+     * 
+     * 
+     * 
+     * @param index
+     * @return DBRef
+     */
+    public jalview.schemabinding.version2.DBRef removeDBRef(int index)
+    {
+        java.lang.Object obj = _DBRefList.elementAt(index);
+        _DBRefList.removeElementAt(index);
+        return (jalview.schemabinding.version2.DBRef) obj;
+    } //-- jalview.schemabinding.version2.DBRef removeDBRef(int) 
 
-  /**
-   * Method setDBRef
-   *
-   *
-   *
-   * @param index
-   * @param vDBRef
-   */
-  public void setDBRef(int index, jalview.schemabinding.version2.DBRef vDBRef)
-      throws java.lang.IndexOutOfBoundsException
-  {
-    //-- check bounds for index
-    if ( (index < 0) || (index > _DBRefList.size()))
+    /**
+     * Method setDBRef
+     * 
+     * 
+     * 
+     * @param index
+     * @param vDBRef
+     */
+    public void setDBRef(int index, jalview.schemabinding.version2.DBRef vDBRef)
+        throws java.lang.IndexOutOfBoundsException
     {
-      throw new IndexOutOfBoundsException();
-    }
-    _DBRefList.setElementAt(vDBRef, index);
-  } //-- void setDBRef(int, jalview.schemabinding.version2.DBRef)
+        //-- check bounds for index
+        if ((index < 0) || (index > _DBRefList.size())) {
+            throw new IndexOutOfBoundsException();
+        }
+        _DBRefList.setElementAt(vDBRef, index);
+    } //-- void setDBRef(int, jalview.schemabinding.version2.DBRef) 
 
-  /**
-   * Method setDBRef
-   *
-   *
-   *
-   * @param DBRefArray
-   */
-  public void setDBRef(jalview.schemabinding.version2.DBRef[] DBRefArray)
-  {
-    //-- copy array
-    _DBRefList.removeAllElements();
-    for (int i = 0; i < DBRefArray.length; i++)
+    /**
+     * Method setDBRef
+     * 
+     * 
+     * 
+     * @param DBRefArray
+     */
+    public void setDBRef(jalview.schemabinding.version2.DBRef[] DBRefArray)
     {
-      _DBRefList.addElement(DBRefArray[i]);
-    }
-  } //-- void setDBRef(jalview.schemabinding.version2.DBRef)
+        //-- copy array
+        _DBRefList.removeAllElements();
+        for (int i = 0; i < DBRefArray.length; i++) {
+            _DBRefList.addElement(DBRefArray[i]);
+        }
+    } //-- void setDBRef(jalview.schemabinding.version2.DBRef) 
 
-  /**
-   * 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
-  {
-    return (jalview.schemabinding.version2.Sequence) Unmarshaller.unmarshal(
-        jalview.schemabinding.version2.Sequence.class, reader);
-  } //-- java.lang.Object unmarshal(java.io.Reader)
+    /**
+     * 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
+    {
+        return (jalview.schemabinding.version2.Sequence) Unmarshaller.unmarshal(jalview.schemabinding.version2.Sequence.class, reader);
+    } //-- java.lang.Object unmarshal(java.io.Reader) 
 
-  /**
-   * Method validate
-   *
-   */
-  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()
+    /**
+     * Method validate
+     * 
+     */
+    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() 
 
 }