X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Fschemabinding%2Fversion2%2FAnnotationDescriptor.java;h=34047b39c91c012d9486b74b8f1e28cff6a1c0be;hb=48df59aa393e03aa7269b2df662ac1b8d58cbb25;hp=7ba7e675d76d93ab2845b1d613847adcc60b5d4b;hpb=fae5909561b434d5fa0043584ace268c545dad9b;p=jalview.git

diff --git a/src/jalview/schemabinding/version2/AnnotationDescriptor.java b/src/jalview/schemabinding/version2/AnnotationDescriptor.java
index 7ba7e67..34047b3 100755
--- a/src/jalview/schemabinding/version2/AnnotationDescriptor.java
+++ b/src/jalview/schemabinding/version2/AnnotationDescriptor.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.
  * $Id$
@@ -7,643 +7,550 @@
 
 package jalview.schemabinding.version2;
 
-//---------------------------------/
-//- Imported classes and packages -/
+  //---------------------------------/
+ //- Imported classes and packages -/
 //---------------------------------/
 
+import org.exolab.castor.mapping.AccessMode;
+import org.exolab.castor.xml.TypeValidator;
+import org.exolab.castor.xml.XMLFieldDescriptor;
 import org.exolab.castor.xml.validators.*;
 
 /**
  * Class AnnotationDescriptor.
- *
+ * 
  * @version $Revision$ $Date$
  */
-public class AnnotationDescriptor
-    extends org.exolab.castor.xml.util.XMLClassDescriptorImpl
-{
-
-  //--------------------------/
-  //- Class/Member Variables -/
-  //--------------------------/
-
-  /**
-   * Field nsPrefix
-   */
-  private java.lang.String nsPrefix;
-
-  /**
-   * Field nsURI
-   */
-  private java.lang.String nsURI;
-
-  /**
-   * Field xmlName
-   */
-  private java.lang.String xmlName;
-
-  /**
-   * Field identity
-   */
-  private org.exolab.castor.xml.XMLFieldDescriptor identity;
-
-  //----------------/
-  //- Constructors -/
-  //----------------/
-
-  public AnnotationDescriptor()
-  {
-    super();
-    nsURI = "www.vamsas.ac.uk/jalview/version2";
-    xmlName = "Annotation";
-
-    //-- set grouping compositor
-    setCompositorAsSequence();
-    org.exolab.castor.xml.util.XMLFieldDescriptorImpl desc = null;
-    org.exolab.castor.xml.XMLFieldHandler handler = null;
-    org.exolab.castor.xml.FieldValidator fieldValidator = null;
-    //-- initialize attribute descriptors
-
-    //-- _graph
-    desc = new org.exolab.castor.xml.util.XMLFieldDescriptorImpl(java.lang.
-        Boolean.TYPE, "_graph", "graph",
-        org.exolab.castor.xml.NodeType.Attribute);
-    handler = (new org.exolab.castor.xml.XMLFieldHandler()
-    {
-      public java.lang.Object getValue(java.lang.Object object)
-          throws IllegalStateException
-      {
-        Annotation target = (Annotation) object;
-        if (!target.hasGraph())
-        {
-          return null;
+public class AnnotationDescriptor extends org.exolab.castor.xml.util.XMLClassDescriptorImpl {
+
+
+      //--------------------------/
+     //- Class/Member Variables -/
+    //--------------------------/
+
+    /**
+     * Field nsPrefix
+     */
+    private java.lang.String nsPrefix;
+
+    /**
+     * Field nsURI
+     */
+    private java.lang.String nsURI;
+
+    /**
+     * Field xmlName
+     */
+    private java.lang.String xmlName;
+
+    /**
+     * Field identity
+     */
+    private org.exolab.castor.xml.XMLFieldDescriptor identity;
+
+
+      //----------------/
+     //- Constructors -/
+    //----------------/
+
+    public AnnotationDescriptor() {
+        super();
+        nsURI = "www.vamsas.ac.uk/jalview/version2";
+        xmlName = "Annotation";
+        
+        //-- set grouping compositor
+        setCompositorAsSequence();
+        org.exolab.castor.xml.util.XMLFieldDescriptorImpl  desc           = null;
+        org.exolab.castor.xml.XMLFieldHandler              handler        = null;
+        org.exolab.castor.xml.FieldValidator               fieldValidator = null;
+        //-- initialize attribute descriptors
+        
+        //-- _graph
+        desc = new org.exolab.castor.xml.util.XMLFieldDescriptorImpl(java.lang.Boolean.TYPE, "_graph", "graph", org.exolab.castor.xml.NodeType.Attribute);
+        handler = (new org.exolab.castor.xml.XMLFieldHandler() {
+            public java.lang.Object getValue( java.lang.Object object ) 
+                throws IllegalStateException
+            {
+                Annotation target = (Annotation) object;
+                if(!target.hasGraph())
+                    return null;
+                return (target.getGraph() ? java.lang.Boolean.TRUE : java.lang.Boolean.FALSE);
+            }
+            public void setValue( java.lang.Object object, java.lang.Object value) 
+                throws IllegalStateException, IllegalArgumentException
+            {
+                try {
+                    Annotation target = (Annotation) object;
+                    // ignore null values for non optional primitives
+                    if (value == null) return;
+                    
+                    target.setGraph( ((java.lang.Boolean)value).booleanValue());
+                }
+                catch (java.lang.Exception ex) {
+                    throw new IllegalStateException(ex.toString());
+                }
+            }
+            public java.lang.Object newInstance( java.lang.Object parent ) {
+                return null;
+            }
+        } );
+        desc.setHandler(handler);
+        desc.setRequired(true);
+        addFieldDescriptor(desc);
+        
+        //-- validation code for: _graph
+        fieldValidator = new org.exolab.castor.xml.FieldValidator();
+        fieldValidator.setMinOccurs(1);
+        { //-- local scope
+            BooleanValidator typeValidator = new BooleanValidator();
+            fieldValidator.setValidator(typeValidator);
         }
-        return (target.getGraph() ? java.lang.Boolean.TRUE :
-                java.lang.Boolean.FALSE);
-      }
-
-      public void setValue(java.lang.Object object, java.lang.Object value)
-          throws IllegalStateException, IllegalArgumentException
-      {
-        try
-        {
-          Annotation target = (Annotation) object;
-          // ignore null values for non optional primitives
-          if (value == null)
-          {
-            return;
-          }
-
-          target.setGraph( ( (java.lang.Boolean) value).booleanValue());
+        desc.setValidator(fieldValidator);
+        //-- _graphType
+        desc = new org.exolab.castor.xml.util.XMLFieldDescriptorImpl(java.lang.Integer.TYPE, "_graphType", "graphType", org.exolab.castor.xml.NodeType.Attribute);
+        handler = (new org.exolab.castor.xml.XMLFieldHandler() {
+            public java.lang.Object getValue( java.lang.Object object ) 
+                throws IllegalStateException
+            {
+                Annotation target = (Annotation) object;
+                if(!target.hasGraphType())
+                    return null;
+                return new java.lang.Integer(target.getGraphType());
+            }
+            public void setValue( java.lang.Object object, java.lang.Object value) 
+                throws IllegalStateException, IllegalArgumentException
+            {
+                try {
+                    Annotation target = (Annotation) object;
+                    // if null, use delete method for optional primitives 
+                    if (value == null) {
+                        target.deleteGraphType();
+                        return;
+                    }
+                    target.setGraphType( ((java.lang.Integer)value).intValue());
+                }
+                catch (java.lang.Exception ex) {
+                    throw new IllegalStateException(ex.toString());
+                }
+            }
+            public java.lang.Object newInstance( java.lang.Object parent ) {
+                return null;
+            }
+        } );
+        desc.setHandler(handler);
+        addFieldDescriptor(desc);
+        
+        //-- validation code for: _graphType
+        fieldValidator = new org.exolab.castor.xml.FieldValidator();
+        { //-- local scope
+            IntegerValidator typeValidator= new IntegerValidator();
+            fieldValidator.setValidator(typeValidator);
         }
-        catch (java.lang.Exception ex)
-        {
-          throw new IllegalStateException(ex.toString());
+        desc.setValidator(fieldValidator);
+        //-- _sequenceRef
+        desc = new org.exolab.castor.xml.util.XMLFieldDescriptorImpl(java.lang.String.class, "_sequenceRef", "sequenceRef", org.exolab.castor.xml.NodeType.Attribute);
+        desc.setImmutable(true);
+        handler = (new org.exolab.castor.xml.XMLFieldHandler() {
+            public java.lang.Object getValue( java.lang.Object object ) 
+                throws IllegalStateException
+            {
+                Annotation target = (Annotation) object;
+                return target.getSequenceRef();
+            }
+            public void setValue( java.lang.Object object, java.lang.Object value) 
+                throws IllegalStateException, IllegalArgumentException
+            {
+                try {
+                    Annotation target = (Annotation) object;
+                    target.setSequenceRef( (java.lang.String) value);
+                }
+                catch (java.lang.Exception ex) {
+                    throw new IllegalStateException(ex.toString());
+                }
+            }
+            public java.lang.Object newInstance( java.lang.Object parent ) {
+                return null;
+            }
+        } );
+        desc.setHandler(handler);
+        addFieldDescriptor(desc);
+        
+        //-- validation code for: _sequenceRef
+        fieldValidator = new org.exolab.castor.xml.FieldValidator();
+        { //-- local scope
+            StringValidator typeValidator = new StringValidator();
+            typeValidator.setWhiteSpace("preserve");
+            fieldValidator.setValidator(typeValidator);
         }
-      }
-
-      public java.lang.Object newInstance(java.lang.Object parent)
-      {
-        return null;
-      }
-    });
-    desc.setHandler(handler);
-    desc.setRequired(true);
-    addFieldDescriptor(desc);
-
-    //-- validation code for: _graph
-    fieldValidator = new org.exolab.castor.xml.FieldValidator();
-    fieldValidator.setMinOccurs(1);
-    { //-- local scope
-      BooleanValidator typeValidator = new BooleanValidator();
-      fieldValidator.setValidator(typeValidator);
-    }
-    desc.setValidator(fieldValidator);
-    //-- _graphType
-    desc = new org.exolab.castor.xml.util.XMLFieldDescriptorImpl(java.lang.
-        Integer.TYPE, "_graphType", "graphType",
-        org.exolab.castor.xml.NodeType.Attribute);
-    handler = (new org.exolab.castor.xml.XMLFieldHandler()
-    {
-      public java.lang.Object getValue(java.lang.Object object)
-          throws IllegalStateException
-      {
-        Annotation target = (Annotation) object;
-        if (!target.hasGraphType())
-        {
-          return null;
+        desc.setValidator(fieldValidator);
+        //-- _graphColour
+        desc = new org.exolab.castor.xml.util.XMLFieldDescriptorImpl(java.lang.Integer.TYPE, "_graphColour", "graphColour", org.exolab.castor.xml.NodeType.Attribute);
+        handler = (new org.exolab.castor.xml.XMLFieldHandler() {
+            public java.lang.Object getValue( java.lang.Object object ) 
+                throws IllegalStateException
+            {
+                Annotation target = (Annotation) object;
+                if(!target.hasGraphColour())
+                    return null;
+                return new java.lang.Integer(target.getGraphColour());
+            }
+            public void setValue( java.lang.Object object, java.lang.Object value) 
+                throws IllegalStateException, IllegalArgumentException
+            {
+                try {
+                    Annotation target = (Annotation) object;
+                    // if null, use delete method for optional primitives 
+                    if (value == null) {
+                        target.deleteGraphColour();
+                        return;
+                    }
+                    target.setGraphColour( ((java.lang.Integer)value).intValue());
+                }
+                catch (java.lang.Exception ex) {
+                    throw new IllegalStateException(ex.toString());
+                }
+            }
+            public java.lang.Object newInstance( java.lang.Object parent ) {
+                return null;
+            }
+        } );
+        desc.setHandler(handler);
+        addFieldDescriptor(desc);
+        
+        //-- validation code for: _graphColour
+        fieldValidator = new org.exolab.castor.xml.FieldValidator();
+        { //-- local scope
+            IntegerValidator typeValidator= new IntegerValidator();
+            fieldValidator.setValidator(typeValidator);
         }
-        return new java.lang.Integer(target.getGraphType());
-      }
-
-      public void setValue(java.lang.Object object, java.lang.Object value)
-          throws IllegalStateException, IllegalArgumentException
-      {
-        try
-        {
-          Annotation target = (Annotation) object;
-          // if null, use delete method for optional primitives
-          if (value == null)
-          {
-            target.deleteGraphType();
-            return;
-          }
-          target.setGraphType( ( (java.lang.Integer) value).intValue());
+        desc.setValidator(fieldValidator);
+        //-- _graphGroup
+        desc = new org.exolab.castor.xml.util.XMLFieldDescriptorImpl(java.lang.Integer.TYPE, "_graphGroup", "graphGroup", org.exolab.castor.xml.NodeType.Attribute);
+        handler = (new org.exolab.castor.xml.XMLFieldHandler() {
+            public java.lang.Object getValue( java.lang.Object object ) 
+                throws IllegalStateException
+            {
+                Annotation target = (Annotation) object;
+                if(!target.hasGraphGroup())
+                    return null;
+                return new java.lang.Integer(target.getGraphGroup());
+            }
+            public void setValue( java.lang.Object object, java.lang.Object value) 
+                throws IllegalStateException, IllegalArgumentException
+            {
+                try {
+                    Annotation target = (Annotation) object;
+                    // if null, use delete method for optional primitives 
+                    if (value == null) {
+                        target.deleteGraphGroup();
+                        return;
+                    }
+                    target.setGraphGroup( ((java.lang.Integer)value).intValue());
+                }
+                catch (java.lang.Exception ex) {
+                    throw new IllegalStateException(ex.toString());
+                }
+            }
+            public java.lang.Object newInstance( java.lang.Object parent ) {
+                return null;
+            }
+        } );
+        desc.setHandler(handler);
+        addFieldDescriptor(desc);
+        
+        //-- validation code for: _graphGroup
+        fieldValidator = new org.exolab.castor.xml.FieldValidator();
+        { //-- local scope
+            IntegerValidator typeValidator= new IntegerValidator();
+            fieldValidator.setValidator(typeValidator);
         }
-        catch (java.lang.Exception ex)
-        {
-          throw new IllegalStateException(ex.toString());
+        desc.setValidator(fieldValidator);
+        //-- _id
+        desc = new org.exolab.castor.xml.util.XMLFieldDescriptorImpl(java.lang.String.class, "_id", "id", org.exolab.castor.xml.NodeType.Attribute);
+        desc.setImmutable(true);
+        handler = (new org.exolab.castor.xml.XMLFieldHandler() {
+            public java.lang.Object getValue( java.lang.Object object ) 
+                throws IllegalStateException
+            {
+                Annotation target = (Annotation) object;
+                return target.getId();
+            }
+            public void setValue( java.lang.Object object, java.lang.Object value) 
+                throws IllegalStateException, IllegalArgumentException
+            {
+                try {
+                    Annotation target = (Annotation) object;
+                    target.setId( (java.lang.String) value);
+                }
+                catch (java.lang.Exception ex) {
+                    throw new IllegalStateException(ex.toString());
+                }
+            }
+            public java.lang.Object newInstance( java.lang.Object parent ) {
+                return null;
+            }
+        } );
+        desc.setHandler(handler);
+        addFieldDescriptor(desc);
+        
+        //-- validation code for: _id
+        fieldValidator = new org.exolab.castor.xml.FieldValidator();
+        { //-- local scope
+            StringValidator typeValidator = new StringValidator();
+            typeValidator.setWhiteSpace("preserve");
+            fieldValidator.setValidator(typeValidator);
         }
-      }
-
-      public java.lang.Object newInstance(java.lang.Object parent)
-      {
-        return null;
-      }
-    });
-    desc.setHandler(handler);
-    addFieldDescriptor(desc);
-
-    //-- validation code for: _graphType
-    fieldValidator = new org.exolab.castor.xml.FieldValidator();
-    { //-- local scope
-      IntegerValidator typeValidator = new IntegerValidator();
-      fieldValidator.setValidator(typeValidator);
-    }
-    desc.setValidator(fieldValidator);
-    //-- _sequenceRef
-    desc = new org.exolab.castor.xml.util.XMLFieldDescriptorImpl(java.lang.
-        String.class, "_sequenceRef", "sequenceRef",
-        org.exolab.castor.xml.NodeType.Attribute);
-    desc.setImmutable(true);
-    handler = (new org.exolab.castor.xml.XMLFieldHandler()
-    {
-      public java.lang.Object getValue(java.lang.Object object)
-          throws IllegalStateException
-      {
-        Annotation target = (Annotation) object;
-        return target.getSequenceRef();
-      }
-
-      public void setValue(java.lang.Object object, java.lang.Object value)
-          throws IllegalStateException, IllegalArgumentException
-      {
-        try
-        {
-          Annotation target = (Annotation) object;
-          target.setSequenceRef( (java.lang.String) value);
+        desc.setValidator(fieldValidator);
+        //-- initialize element descriptors
+        
+        //-- _annotationElementList
+        desc = new org.exolab.castor.xml.util.XMLFieldDescriptorImpl(jalview.schemabinding.version2.AnnotationElement.class, "_annotationElementList", "annotationElement", org.exolab.castor.xml.NodeType.Element);
+        handler = (new org.exolab.castor.xml.XMLFieldHandler() {
+            public java.lang.Object getValue( java.lang.Object object ) 
+                throws IllegalStateException
+            {
+                Annotation target = (Annotation) object;
+                return target.getAnnotationElement();
+            }
+            public void setValue( java.lang.Object object, java.lang.Object value) 
+                throws IllegalStateException, IllegalArgumentException
+            {
+                try {
+                    Annotation target = (Annotation) object;
+                    target.addAnnotationElement( (jalview.schemabinding.version2.AnnotationElement) value);
+                }
+                catch (java.lang.Exception ex) {
+                    throw new IllegalStateException(ex.toString());
+                }
+            }
+            public java.lang.Object newInstance( java.lang.Object parent ) {
+                return new jalview.schemabinding.version2.AnnotationElement();
+            }
+        } );
+        desc.setHandler(handler);
+        desc.setNameSpaceURI("www.vamsas.ac.uk/jalview/version2");
+        desc.setMultivalued(true);
+        addFieldDescriptor(desc);
+        
+        //-- validation code for: _annotationElementList
+        fieldValidator = new org.exolab.castor.xml.FieldValidator();
+        fieldValidator.setMinOccurs(0);
+        { //-- local scope
         }
-        catch (java.lang.Exception ex)
-        {
-          throw new IllegalStateException(ex.toString());
-        }
-      }
-
-      public java.lang.Object newInstance(java.lang.Object parent)
-      {
-        return null;
-      }
-    });
-    desc.setHandler(handler);
-    addFieldDescriptor(desc);
-
-    //-- validation code for: _sequenceRef
-    fieldValidator = new org.exolab.castor.xml.FieldValidator();
-    { //-- local scope
-      StringValidator typeValidator = new StringValidator();
-      typeValidator.setWhiteSpace("preserve");
-      fieldValidator.setValidator(typeValidator);
-    }
-    desc.setValidator(fieldValidator);
-    //-- _graphColour
-    desc = new org.exolab.castor.xml.util.XMLFieldDescriptorImpl(java.lang.
-        Integer.TYPE, "_graphColour", "graphColour",
-        org.exolab.castor.xml.NodeType.Attribute);
-    handler = (new org.exolab.castor.xml.XMLFieldHandler()
-    {
-      public java.lang.Object getValue(java.lang.Object object)
-          throws IllegalStateException
-      {
-        Annotation target = (Annotation) object;
-        if (!target.hasGraphColour())
-        {
-          return null;
+        desc.setValidator(fieldValidator);
+        //-- _label
+        desc = new org.exolab.castor.xml.util.XMLFieldDescriptorImpl(java.lang.String.class, "_label", "label", org.exolab.castor.xml.NodeType.Element);
+        desc.setImmutable(true);
+        handler = (new org.exolab.castor.xml.XMLFieldHandler() {
+            public java.lang.Object getValue( java.lang.Object object ) 
+                throws IllegalStateException
+            {
+                Annotation target = (Annotation) object;
+                return target.getLabel();
+            }
+            public void setValue( java.lang.Object object, java.lang.Object value) 
+                throws IllegalStateException, IllegalArgumentException
+            {
+                try {
+                    Annotation target = (Annotation) object;
+                    target.setLabel( (java.lang.String) value);
+                }
+                catch (java.lang.Exception ex) {
+                    throw new IllegalStateException(ex.toString());
+                }
+            }
+            public java.lang.Object newInstance( java.lang.Object parent ) {
+                return null;
+            }
+        } );
+        desc.setHandler(handler);
+        desc.setNameSpaceURI("www.vamsas.ac.uk/jalview/version2");
+        desc.setRequired(true);
+        desc.setMultivalued(false);
+        addFieldDescriptor(desc);
+        
+        //-- validation code for: _label
+        fieldValidator = new org.exolab.castor.xml.FieldValidator();
+        fieldValidator.setMinOccurs(1);
+        { //-- local scope
+            StringValidator typeValidator = new StringValidator();
+            typeValidator.setWhiteSpace("preserve");
+            fieldValidator.setValidator(typeValidator);
         }
-        return new java.lang.Integer(target.getGraphColour());
-      }
-
-      public void setValue(java.lang.Object object, java.lang.Object value)
-          throws IllegalStateException, IllegalArgumentException
-      {
-        try
-        {
-          Annotation target = (Annotation) object;
-          // if null, use delete method for optional primitives
-          if (value == null)
-          {
-            target.deleteGraphColour();
-            return;
-          }
-          target.setGraphColour( ( (java.lang.Integer) value).intValue());
+        desc.setValidator(fieldValidator);
+        //-- _description
+        desc = new org.exolab.castor.xml.util.XMLFieldDescriptorImpl(java.lang.String.class, "_description", "description", org.exolab.castor.xml.NodeType.Element);
+        desc.setImmutable(true);
+        handler = (new org.exolab.castor.xml.XMLFieldHandler() {
+            public java.lang.Object getValue( java.lang.Object object ) 
+                throws IllegalStateException
+            {
+                Annotation target = (Annotation) object;
+                return target.getDescription();
+            }
+            public void setValue( java.lang.Object object, java.lang.Object value) 
+                throws IllegalStateException, IllegalArgumentException
+            {
+                try {
+                    Annotation target = (Annotation) object;
+                    target.setDescription( (java.lang.String) value);
+                }
+                catch (java.lang.Exception ex) {
+                    throw new IllegalStateException(ex.toString());
+                }
+            }
+            public java.lang.Object newInstance( java.lang.Object parent ) {
+                return null;
+            }
+        } );
+        desc.setHandler(handler);
+        desc.setNameSpaceURI("www.vamsas.ac.uk/jalview/version2");
+        desc.setMultivalued(false);
+        addFieldDescriptor(desc);
+        
+        //-- validation code for: _description
+        fieldValidator = new org.exolab.castor.xml.FieldValidator();
+        { //-- local scope
+            StringValidator typeValidator = new StringValidator();
+            typeValidator.setWhiteSpace("preserve");
+            fieldValidator.setValidator(typeValidator);
         }
-        catch (java.lang.Exception ex)
-        {
-          throw new IllegalStateException(ex.toString());
+        desc.setValidator(fieldValidator);
+        //-- _thresholdLine
+        desc = new org.exolab.castor.xml.util.XMLFieldDescriptorImpl(jalview.schemabinding.version2.ThresholdLine.class, "_thresholdLine", "thresholdLine", org.exolab.castor.xml.NodeType.Element);
+        handler = (new org.exolab.castor.xml.XMLFieldHandler() {
+            public java.lang.Object getValue( java.lang.Object object ) 
+                throws IllegalStateException
+            {
+                Annotation target = (Annotation) object;
+                return target.getThresholdLine();
+            }
+            public void setValue( java.lang.Object object, java.lang.Object value) 
+                throws IllegalStateException, IllegalArgumentException
+            {
+                try {
+                    Annotation target = (Annotation) object;
+                    target.setThresholdLine( (jalview.schemabinding.version2.ThresholdLine) value);
+                }
+                catch (java.lang.Exception ex) {
+                    throw new IllegalStateException(ex.toString());
+                }
+            }
+            public java.lang.Object newInstance( java.lang.Object parent ) {
+                return new jalview.schemabinding.version2.ThresholdLine();
+            }
+        } );
+        desc.setHandler(handler);
+        desc.setNameSpaceURI("www.vamsas.ac.uk/jalview/version2");
+        desc.setMultivalued(false);
+        addFieldDescriptor(desc);
+        
+        //-- validation code for: _thresholdLine
+        fieldValidator = new org.exolab.castor.xml.FieldValidator();
+        { //-- local scope
         }
-      }
-
-      public java.lang.Object newInstance(java.lang.Object parent)
-      {
-        return null;
-      }
-    });
-    desc.setHandler(handler);
-    addFieldDescriptor(desc);
-
-    //-- validation code for: _graphColour
-    fieldValidator = new org.exolab.castor.xml.FieldValidator();
-    { //-- local scope
-      IntegerValidator typeValidator = new IntegerValidator();
-      fieldValidator.setValidator(typeValidator);
-    }
-    desc.setValidator(fieldValidator);
-    //-- _graphGroup
-    desc = new org.exolab.castor.xml.util.XMLFieldDescriptorImpl(java.lang.
-        Integer.TYPE, "_graphGroup", "graphGroup",
-        org.exolab.castor.xml.NodeType.Attribute);
-    handler = (new org.exolab.castor.xml.XMLFieldHandler()
+        desc.setValidator(fieldValidator);
+    } //-- jalview.schemabinding.version2.AnnotationDescriptor()
+
+
+      //-----------/
+     //- Methods -/
+    //-----------/
+
+    /**
+     * Method getAccessMode
+     * 
+     * 
+     * 
+     * @return AccessMode
+     */
+    public org.exolab.castor.mapping.AccessMode getAccessMode()
     {
-      public java.lang.Object getValue(java.lang.Object object)
-          throws IllegalStateException
-      {
-        Annotation target = (Annotation) object;
-        if (!target.hasGraphGroup())
-        {
-          return null;
-        }
-        return new java.lang.Integer(target.getGraphGroup());
-      }
-
-      public void setValue(java.lang.Object object, java.lang.Object value)
-          throws IllegalStateException, IllegalArgumentException
-      {
-        try
-        {
-          Annotation target = (Annotation) object;
-          // if null, use delete method for optional primitives
-          if (value == null)
-          {
-            target.deleteGraphGroup();
-            return;
-          }
-          target.setGraphGroup( ( (java.lang.Integer) value).intValue());
-        }
-        catch (java.lang.Exception ex)
-        {
-          throw new IllegalStateException(ex.toString());
-        }
-      }
-
-      public java.lang.Object newInstance(java.lang.Object parent)
-      {
         return null;
-      }
-    });
-    desc.setHandler(handler);
-    addFieldDescriptor(desc);
-
-    //-- validation code for: _graphGroup
-    fieldValidator = new org.exolab.castor.xml.FieldValidator();
-    { //-- local scope
-      IntegerValidator typeValidator = new IntegerValidator();
-      fieldValidator.setValidator(typeValidator);
-    }
-    desc.setValidator(fieldValidator);
-    //-- _id
-    desc = new org.exolab.castor.xml.util.XMLFieldDescriptorImpl(java.lang.
-        String.class, "_id", "id", org.exolab.castor.xml.NodeType.Attribute);
-    desc.setImmutable(true);
-    handler = (new org.exolab.castor.xml.XMLFieldHandler()
+    } //-- org.exolab.castor.mapping.AccessMode getAccessMode() 
+
+    /**
+     * Method getExtends
+     * 
+     * 
+     * 
+     * @return ClassDescriptor
+     */
+    public org.exolab.castor.mapping.ClassDescriptor getExtends()
     {
-      public java.lang.Object getValue(java.lang.Object object)
-          throws IllegalStateException
-      {
-        Annotation target = (Annotation) object;
-        return target.getId();
-      }
-
-      public void setValue(java.lang.Object object, java.lang.Object value)
-          throws IllegalStateException, IllegalArgumentException
-      {
-        try
-        {
-          Annotation target = (Annotation) object;
-          target.setId( (java.lang.String) value);
-        }
-        catch (java.lang.Exception ex)
-        {
-          throw new IllegalStateException(ex.toString());
-        }
-      }
-
-      public java.lang.Object newInstance(java.lang.Object parent)
-      {
         return null;
-      }
-    });
-    desc.setHandler(handler);
-    addFieldDescriptor(desc);
-
-    //-- validation code for: _id
-    fieldValidator = new org.exolab.castor.xml.FieldValidator();
-    { //-- local scope
-      StringValidator typeValidator = new StringValidator();
-      typeValidator.setWhiteSpace("preserve");
-      fieldValidator.setValidator(typeValidator);
-    }
-    desc.setValidator(fieldValidator);
-    //-- initialize element descriptors
-
-    //-- _annotationElementList
-    desc = new org.exolab.castor.xml.util.XMLFieldDescriptorImpl(jalview.
-        schemabinding.version2.AnnotationElement.class,
-        "_annotationElementList", "annotationElement",
-                 org.exolab.castor.xml.NodeType.Element);
-    handler = (new org.exolab.castor.xml.XMLFieldHandler()
+    } //-- org.exolab.castor.mapping.ClassDescriptor getExtends() 
+
+    /**
+     * Method getIdentity
+     * 
+     * 
+     * 
+     * @return FieldDescriptor
+     */
+    public org.exolab.castor.mapping.FieldDescriptor getIdentity()
     {
-      public java.lang.Object getValue(java.lang.Object object)
-          throws IllegalStateException
-      {
-        Annotation target = (Annotation) object;
-        return target.getAnnotationElement();
-      }
-
-      public void setValue(java.lang.Object object, java.lang.Object value)
-          throws IllegalStateException, IllegalArgumentException
-      {
-        try
-        {
-          Annotation target = (Annotation) object;
-          target.addAnnotationElement( (jalview.schemabinding.version2.
-                                        AnnotationElement) value);
-        }
-        catch (java.lang.Exception ex)
-        {
-          throw new IllegalStateException(ex.toString());
-        }
-      }
-
-      public java.lang.Object newInstance(java.lang.Object parent)
-      {
-        return new jalview.schemabinding.version2.AnnotationElement();
-      }
-    });
-    desc.setHandler(handler);
-    desc.setNameSpaceURI("www.vamsas.ac.uk/jalview/version2");
-    desc.setMultivalued(true);
-    addFieldDescriptor(desc);
-
-    //-- validation code for: _annotationElementList
-    fieldValidator = new org.exolab.castor.xml.FieldValidator();
-    fieldValidator.setMinOccurs(0);
-    { //-- local scope
-    }
-    desc.setValidator(fieldValidator);
-    //-- _label
-    desc = new org.exolab.castor.xml.util.XMLFieldDescriptorImpl(java.lang.
-        String.class, "_label", "label", org.exolab.castor.xml.NodeType.Element);
-    desc.setImmutable(true);
-    handler = (new org.exolab.castor.xml.XMLFieldHandler()
+        return identity;
+    } //-- org.exolab.castor.mapping.FieldDescriptor getIdentity() 
+
+    /**
+     * Method getJavaClass
+     * 
+     * 
+     * 
+     * @return Class
+     */
+    public java.lang.Class getJavaClass()
     {
-      public java.lang.Object getValue(java.lang.Object object)
-          throws IllegalStateException
-      {
-        Annotation target = (Annotation) object;
-        return target.getLabel();
-      }
-
-      public void setValue(java.lang.Object object, java.lang.Object value)
-          throws IllegalStateException, IllegalArgumentException
-      {
-        try
-        {
-          Annotation target = (Annotation) object;
-          target.setLabel( (java.lang.String) value);
-        }
-        catch (java.lang.Exception ex)
-        {
-          throw new IllegalStateException(ex.toString());
-        }
-      }
-
-      public java.lang.Object newInstance(java.lang.Object parent)
-      {
-        return null;
-      }
-    });
-    desc.setHandler(handler);
-    desc.setNameSpaceURI("www.vamsas.ac.uk/jalview/version2");
-    desc.setRequired(true);
-    desc.setMultivalued(false);
-    addFieldDescriptor(desc);
-
-    //-- validation code for: _label
-    fieldValidator = new org.exolab.castor.xml.FieldValidator();
-    fieldValidator.setMinOccurs(1);
-    { //-- local scope
-      StringValidator typeValidator = new StringValidator();
-      typeValidator.setWhiteSpace("preserve");
-      fieldValidator.setValidator(typeValidator);
-    }
-    desc.setValidator(fieldValidator);
-    //-- _description
-    desc = new org.exolab.castor.xml.util.XMLFieldDescriptorImpl(java.lang.
-        String.class, "_description", "description",
-        org.exolab.castor.xml.NodeType.Element);
-    desc.setImmutable(true);
-    handler = (new org.exolab.castor.xml.XMLFieldHandler()
+        return jalview.schemabinding.version2.Annotation.class;
+    } //-- java.lang.Class getJavaClass() 
+
+    /**
+     * Method getNameSpacePrefix
+     * 
+     * 
+     * 
+     * @return String
+     */
+    public java.lang.String getNameSpacePrefix()
     {
-      public java.lang.Object getValue(java.lang.Object object)
-          throws IllegalStateException
-      {
-        Annotation target = (Annotation) object;
-        return target.getDescription();
-      }
-
-      public void setValue(java.lang.Object object, java.lang.Object value)
-          throws IllegalStateException, IllegalArgumentException
-      {
-        try
-        {
-          Annotation target = (Annotation) object;
-          target.setDescription( (java.lang.String) value);
-        }
-        catch (java.lang.Exception ex)
-        {
-          throw new IllegalStateException(ex.toString());
-        }
-      }
-
-      public java.lang.Object newInstance(java.lang.Object parent)
-      {
-        return null;
-      }
-    });
-    desc.setHandler(handler);
-    desc.setNameSpaceURI("www.vamsas.ac.uk/jalview/version2");
-    desc.setMultivalued(false);
-    addFieldDescriptor(desc);
-
-    //-- validation code for: _description
-    fieldValidator = new org.exolab.castor.xml.FieldValidator();
-    { //-- local scope
-      StringValidator typeValidator = new StringValidator();
-      typeValidator.setWhiteSpace("preserve");
-      fieldValidator.setValidator(typeValidator);
-    }
-    desc.setValidator(fieldValidator);
-    //-- _thresholdLine
-    desc = new org.exolab.castor.xml.util.XMLFieldDescriptorImpl(jalview.
-        schemabinding.version2.ThresholdLine.class, "_thresholdLine",
-        "thresholdLine", org.exolab.castor.xml.NodeType.Element);
-    handler = (new org.exolab.castor.xml.XMLFieldHandler()
+        return nsPrefix;
+    } //-- java.lang.String getNameSpacePrefix() 
+
+    /**
+     * Method getNameSpaceURI
+     * 
+     * 
+     * 
+     * @return String
+     */
+    public java.lang.String getNameSpaceURI()
     {
-      public java.lang.Object getValue(java.lang.Object object)
-          throws IllegalStateException
-      {
-        Annotation target = (Annotation) object;
-        return target.getThresholdLine();
-      }
-
-      public void setValue(java.lang.Object object, java.lang.Object value)
-          throws IllegalStateException, IllegalArgumentException
-      {
-        try
-        {
-          Annotation target = (Annotation) object;
-          target.setThresholdLine( (jalview.schemabinding.version2.
-                                    ThresholdLine) value);
-        }
-        catch (java.lang.Exception ex)
-        {
-          throw new IllegalStateException(ex.toString());
-        }
-      }
-
-      public java.lang.Object newInstance(java.lang.Object parent)
-      {
-        return new jalview.schemabinding.version2.ThresholdLine();
-      }
-    });
-    desc.setHandler(handler);
-    desc.setNameSpaceURI("www.vamsas.ac.uk/jalview/version2");
-    desc.setMultivalued(false);
-    addFieldDescriptor(desc);
-
-    //-- validation code for: _thresholdLine
-    fieldValidator = new org.exolab.castor.xml.FieldValidator();
-    { //-- local scope
-    }
-    desc.setValidator(fieldValidator);
-  } //-- jalview.schemabinding.version2.AnnotationDescriptor()
-
-  //-----------/
-  //- Methods -/
-  //-----------/
-
-  /**
-   * Method getAccessMode
-   *
-   *
-   *
-   * @return AccessMode
-   */
-  public org.exolab.castor.mapping.AccessMode getAccessMode()
-  {
-    return null;
-  } //-- org.exolab.castor.mapping.AccessMode getAccessMode()
-
-  /**
-   * Method getExtends
-   *
-   *
-   *
-   * @return ClassDescriptor
-   */
-  public org.exolab.castor.mapping.ClassDescriptor getExtends()
-  {
-    return null;
-  } //-- org.exolab.castor.mapping.ClassDescriptor getExtends()
-
-  /**
-   * Method getIdentity
-   *
-   *
-   *
-   * @return FieldDescriptor
-   */
-  public org.exolab.castor.mapping.FieldDescriptor getIdentity()
-  {
-    return identity;
-  } //-- org.exolab.castor.mapping.FieldDescriptor getIdentity()
-
-  /**
-   * Method getJavaClass
-   *
-   *
-   *
-   * @return Class
-   */
-  public java.lang.Class getJavaClass()
-  {
-    return jalview.schemabinding.version2.Annotation.class;
-  } //-- java.lang.Class getJavaClass()
-
-  /**
-   * Method getNameSpacePrefix
-   *
-   *
-   *
-   * @return String
-   */
-  public java.lang.String getNameSpacePrefix()
-  {
-    return nsPrefix;
-  } //-- java.lang.String getNameSpacePrefix()
-
-  /**
-   * Method getNameSpaceURI
-   *
-   *
-   *
-   * @return String
-   */
-  public java.lang.String getNameSpaceURI()
-  {
-    return nsURI;
-  } //-- java.lang.String getNameSpaceURI()
-
-  /**
-   * Method getValidator
-   *
-   *
-   *
-   * @return TypeValidator
-   */
-  public org.exolab.castor.xml.TypeValidator getValidator()
-  {
-    return this;
-  } //-- org.exolab.castor.xml.TypeValidator getValidator()
-
-  /**
-   * Method getXMLName
-   *
-   *
-   *
-   * @return String
-   */
-  public java.lang.String getXMLName()
-  {
-    return xmlName;
-  } //-- java.lang.String getXMLName()
+        return nsURI;
+    } //-- java.lang.String getNameSpaceURI() 
+
+    /**
+     * Method getValidator
+     * 
+     * 
+     * 
+     * @return TypeValidator
+     */
+    public org.exolab.castor.xml.TypeValidator getValidator()
+    {
+        return this;
+    } //-- org.exolab.castor.xml.TypeValidator getValidator() 
+
+    /**
+     * Method getXMLName
+     * 
+     * 
+     * 
+     * @return String
+     */
+    public java.lang.String getXMLName()
+    {
+        return xmlName;
+    } //-- java.lang.String getXMLName() 
 
 }