fixes JAL-778 - flag to indicate binding between an alignment panel and Jmol view...
[jalview.git] / src / jalview / schemabinding / version2 / descriptors / JalviewModelSequenceDescriptor.java
index 4ea81bc..d6fd0ba 100644 (file)
@@ -1,24 +1,14 @@
 /*\r
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)\r
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle\r
- * \r
- * This file is part of Jalview.\r
- * \r
- * Jalview 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 3 of the License, or (at your option) any later version.\r
- * \r
- * Jalview is distributed in the hope that it will be useful, but \r
- * WITHOUT ANY WARRANTY; without even the implied warranty \r
- * of MERCHANTABILITY or FITNESS FOR A PARTICULAR \r
- * PURPOSE.  See the GNU General Public License for more details.\r
- * \r
- * You should have received a copy of the GNU General Public License along with Jalview.  If not, see <http://www.gnu.org/licenses/>.\r
+ * This class was automatically generated with \r
+ * <a href="http://www.castor.org">Castor 1.1</a>, using an XML\r
+ * Schema.\r
+ * $Id$\r
  */\r
+\r
 package jalview.schemabinding.version2.descriptors;\r
 \r
-//---------------------------------/\r
-//- Imported classes and packages -/\r
+  //---------------------------------/\r
+ //- Imported classes and packages -/\r
 //---------------------------------/\r
 \r
 import jalview.schemabinding.version2.JalviewModelSequence;\r
@@ -28,459 +18,387 @@ import jalview.schemabinding.version2.JalviewModelSequence;
  * \r
  * @version $Revision$ $Date$\r
  */\r
-public class JalviewModelSequenceDescriptor extends\r
-        org.exolab.castor.xml.util.XMLClassDescriptorImpl\r
-{\r
-\r
-  // --------------------------/\r
-  // - Class/Member Variables -/\r
-  // --------------------------/\r
-\r
-  /**\r
-   * Field _elementDefinition.\r
-   */\r
-  private boolean _elementDefinition;\r
-\r
-  /**\r
-   * Field _nsPrefix.\r
-   */\r
-  private java.lang.String _nsPrefix;\r
-\r
-  /**\r
-   * Field _nsURI.\r
-   */\r
-  private java.lang.String _nsURI;\r
-\r
-  /**\r
-   * Field _xmlName.\r
-   */\r
-  private java.lang.String _xmlName;\r
-\r
-  // ----------------/\r
-  // - Constructors -/\r
-  // ----------------/\r
-\r
-  public JalviewModelSequenceDescriptor()\r
-  {\r
-    super();\r
-    _nsURI = "www.jalview.org";\r
-    _elementDefinition = false;\r
-\r
-    // -- set grouping compositor\r
-    setCompositorAsSequence();\r
-    org.exolab.castor.xml.util.XMLFieldDescriptorImpl desc = null;\r
-    org.exolab.castor.mapping.FieldHandler handler = null;\r
-    org.exolab.castor.xml.FieldValidator fieldValidator = null;\r
-    // -- initialize attribute descriptors\r
-\r
-    // -- initialize element descriptors\r
-\r
-    // -- _JSeqList\r
-    desc = new org.exolab.castor.xml.util.XMLFieldDescriptorImpl(\r
-            jalview.schemabinding.version2.JSeq.class, "_JSeqList", "JSeq",\r
-            org.exolab.castor.xml.NodeType.Element);\r
-    handler = new org.exolab.castor.xml.XMLFieldHandler()\r
-    {\r
-      public java.lang.Object getValue(java.lang.Object object)\r
-              throws IllegalStateException\r
-      {\r
-        JalviewModelSequence target = (JalviewModelSequence) object;\r
-        return target.getJSeq();\r
-      }\r
-\r
-      public void setValue(java.lang.Object object, java.lang.Object value)\r
-              throws IllegalStateException, IllegalArgumentException\r
-      {\r
-        try\r
-        {\r
-          JalviewModelSequence target = (JalviewModelSequence) object;\r
-          target.addJSeq((jalview.schemabinding.version2.JSeq) value);\r
-        } catch (java.lang.Exception ex)\r
-        {\r
-          throw new IllegalStateException(ex.toString());\r
+public class JalviewModelSequenceDescriptor extends org.exolab.castor.xml.util.XMLClassDescriptorImpl {\r
+\r
+\r
+      //--------------------------/\r
+     //- Class/Member Variables -/\r
+    //--------------------------/\r
+\r
+    /**\r
+     * Field _elementDefinition.\r
+     */\r
+    private boolean _elementDefinition;\r
+\r
+    /**\r
+     * Field _nsPrefix.\r
+     */\r
+    private java.lang.String _nsPrefix;\r
+\r
+    /**\r
+     * Field _nsURI.\r
+     */\r
+    private java.lang.String _nsURI;\r
+\r
+    /**\r
+     * Field _xmlName.\r
+     */\r
+    private java.lang.String _xmlName;\r
+\r
+\r
+      //----------------/\r
+     //- Constructors -/\r
+    //----------------/\r
+\r
+    public JalviewModelSequenceDescriptor() {\r
+        super();\r
+        _nsURI = "www.jalview.org";\r
+        _elementDefinition = false;\r
+        \r
+        //-- set grouping compositor\r
+        setCompositorAsSequence();\r
+        org.exolab.castor.xml.util.XMLFieldDescriptorImpl  desc           = null;\r
+        org.exolab.castor.mapping.FieldHandler             handler        = null;\r
+        org.exolab.castor.xml.FieldValidator               fieldValidator = null;\r
+        //-- initialize attribute descriptors\r
+        \r
+        //-- initialize element descriptors\r
+        \r
+        //-- _JSeqList\r
+        desc = new org.exolab.castor.xml.util.XMLFieldDescriptorImpl(jalview.schemabinding.version2.JSeq.class, "_JSeqList", "JSeq", org.exolab.castor.xml.NodeType.Element);\r
+        handler = new org.exolab.castor.xml.XMLFieldHandler() {\r
+            public java.lang.Object getValue( java.lang.Object object ) \r
+                throws IllegalStateException\r
+            {\r
+                JalviewModelSequence target = (JalviewModelSequence) object;\r
+                return target.getJSeq();\r
+            }\r
+            public void setValue( java.lang.Object object, java.lang.Object value) \r
+                throws IllegalStateException, IllegalArgumentException\r
+            {\r
+                try {\r
+                    JalviewModelSequence target = (JalviewModelSequence) object;\r
+                    target.addJSeq( (jalview.schemabinding.version2.JSeq) value);\r
+                } catch (java.lang.Exception ex) {\r
+                    throw new IllegalStateException(ex.toString());\r
+                }\r
+            }\r
+            public void resetValue(Object object) throws IllegalStateException, IllegalArgumentException {\r
+                try {\r
+                    JalviewModelSequence target = (JalviewModelSequence) object;\r
+                    target.removeAllJSeq();\r
+                } catch (java.lang.Exception ex) {\r
+                    throw new IllegalStateException(ex.toString());\r
+                }\r
+            }\r
+            public java.lang.Object newInstance(java.lang.Object parent) {\r
+                return new jalview.schemabinding.version2.JSeq();\r
+            }\r
+        };\r
+        desc.setHandler(handler);\r
+        desc.setNameSpaceURI("www.jalview.org");\r
+        desc.setRequired(true);\r
+        desc.setMultivalued(true);\r
+        addFieldDescriptor(desc);\r
+        \r
+        //-- validation code for: _JSeqList\r
+        fieldValidator = new org.exolab.castor.xml.FieldValidator();\r
+        fieldValidator.setMinOccurs(1);\r
+        { //-- local scope\r
         }\r
-      }\r
-\r
-      public void resetValue(Object object) throws IllegalStateException,\r
-              IllegalArgumentException\r
-      {\r
-        try\r
-        {\r
-          JalviewModelSequence target = (JalviewModelSequence) object;\r
-          target.removeAllJSeq();\r
-        } catch (java.lang.Exception ex)\r
-        {\r
-          throw new IllegalStateException(ex.toString());\r
+        desc.setValidator(fieldValidator);\r
+        //-- _JGroupList\r
+        desc = new org.exolab.castor.xml.util.XMLFieldDescriptorImpl(jalview.schemabinding.version2.JGroup.class, "_JGroupList", "JGroup", org.exolab.castor.xml.NodeType.Element);\r
+        handler = new org.exolab.castor.xml.XMLFieldHandler() {\r
+            public java.lang.Object getValue( java.lang.Object object ) \r
+                throws IllegalStateException\r
+            {\r
+                JalviewModelSequence target = (JalviewModelSequence) object;\r
+                return target.getJGroup();\r
+            }\r
+            public void setValue( java.lang.Object object, java.lang.Object value) \r
+                throws IllegalStateException, IllegalArgumentException\r
+            {\r
+                try {\r
+                    JalviewModelSequence target = (JalviewModelSequence) object;\r
+                    target.addJGroup( (jalview.schemabinding.version2.JGroup) value);\r
+                } catch (java.lang.Exception ex) {\r
+                    throw new IllegalStateException(ex.toString());\r
+                }\r
+            }\r
+            public void resetValue(Object object) throws IllegalStateException, IllegalArgumentException {\r
+                try {\r
+                    JalviewModelSequence target = (JalviewModelSequence) object;\r
+                    target.removeAllJGroup();\r
+                } catch (java.lang.Exception ex) {\r
+                    throw new IllegalStateException(ex.toString());\r
+                }\r
+            }\r
+            public java.lang.Object newInstance(java.lang.Object parent) {\r
+                return new jalview.schemabinding.version2.JGroup();\r
+            }\r
+        };\r
+        desc.setHandler(handler);\r
+        desc.setNameSpaceURI("www.jalview.org");\r
+        desc.setMultivalued(true);\r
+        addFieldDescriptor(desc);\r
+        \r
+        //-- validation code for: _JGroupList\r
+        fieldValidator = new org.exolab.castor.xml.FieldValidator();\r
+        fieldValidator.setMinOccurs(0);\r
+        { //-- local scope\r
         }\r
-      }\r
-\r
-      public java.lang.Object newInstance(java.lang.Object parent)\r
-      {\r
-        return new jalview.schemabinding.version2.JSeq();\r
-      }\r
-    };\r
-    desc.setHandler(handler);\r
-    desc.setNameSpaceURI("www.jalview.org");\r
-    desc.setRequired(true);\r
-    desc.setMultivalued(true);\r
-    addFieldDescriptor(desc);\r
-\r
-    // -- validation code for: _JSeqList\r
-    fieldValidator = new org.exolab.castor.xml.FieldValidator();\r
-    fieldValidator.setMinOccurs(1);\r
-    { // -- local scope\r
-    }\r
-    desc.setValidator(fieldValidator);\r
-    // -- _JGroupList\r
-    desc = new org.exolab.castor.xml.util.XMLFieldDescriptorImpl(\r
-            jalview.schemabinding.version2.JGroup.class, "_JGroupList",\r
-            "JGroup", org.exolab.castor.xml.NodeType.Element);\r
-    handler = new org.exolab.castor.xml.XMLFieldHandler()\r
-    {\r
-      public java.lang.Object getValue(java.lang.Object object)\r
-              throws IllegalStateException\r
-      {\r
-        JalviewModelSequence target = (JalviewModelSequence) object;\r
-        return target.getJGroup();\r
-      }\r
-\r
-      public void setValue(java.lang.Object object, java.lang.Object value)\r
-              throws IllegalStateException, IllegalArgumentException\r
-      {\r
-        try\r
-        {\r
-          JalviewModelSequence target = (JalviewModelSequence) object;\r
-          target.addJGroup((jalview.schemabinding.version2.JGroup) value);\r
-        } catch (java.lang.Exception ex)\r
-        {\r
-          throw new IllegalStateException(ex.toString());\r
+        desc.setValidator(fieldValidator);\r
+        //-- _viewportList\r
+        desc = new org.exolab.castor.xml.util.XMLFieldDescriptorImpl(jalview.schemabinding.version2.Viewport.class, "_viewportList", "Viewport", org.exolab.castor.xml.NodeType.Element);\r
+        handler = new org.exolab.castor.xml.XMLFieldHandler() {\r
+            public java.lang.Object getValue( java.lang.Object object ) \r
+                throws IllegalStateException\r
+            {\r
+                JalviewModelSequence target = (JalviewModelSequence) object;\r
+                return target.getViewport();\r
+            }\r
+            public void setValue( java.lang.Object object, java.lang.Object value) \r
+                throws IllegalStateException, IllegalArgumentException\r
+            {\r
+                try {\r
+                    JalviewModelSequence target = (JalviewModelSequence) object;\r
+                    target.addViewport( (jalview.schemabinding.version2.Viewport) value);\r
+                } catch (java.lang.Exception ex) {\r
+                    throw new IllegalStateException(ex.toString());\r
+                }\r
+            }\r
+            public void resetValue(Object object) throws IllegalStateException, IllegalArgumentException {\r
+                try {\r
+                    JalviewModelSequence target = (JalviewModelSequence) object;\r
+                    target.removeAllViewport();\r
+                } catch (java.lang.Exception ex) {\r
+                    throw new IllegalStateException(ex.toString());\r
+                }\r
+            }\r
+            public java.lang.Object newInstance(java.lang.Object parent) {\r
+                return new jalview.schemabinding.version2.Viewport();\r
+            }\r
+        };\r
+        desc.setHandler(handler);\r
+        desc.setNameSpaceURI("www.jalview.org");\r
+        desc.setRequired(true);\r
+        desc.setMultivalued(true);\r
+        addFieldDescriptor(desc);\r
+        \r
+        //-- validation code for: _viewportList\r
+        fieldValidator = new org.exolab.castor.xml.FieldValidator();\r
+        fieldValidator.setMinOccurs(1);\r
+        { //-- local scope\r
         }\r
-      }\r
-\r
-      public void resetValue(Object object) throws IllegalStateException,\r
-              IllegalArgumentException\r
-      {\r
-        try\r
-        {\r
-          JalviewModelSequence target = (JalviewModelSequence) object;\r
-          target.removeAllJGroup();\r
-        } catch (java.lang.Exception ex)\r
-        {\r
-          throw new IllegalStateException(ex.toString());\r
+        desc.setValidator(fieldValidator);\r
+        //-- _userColoursList\r
+        desc = new org.exolab.castor.xml.util.XMLFieldDescriptorImpl(jalview.schemabinding.version2.UserColours.class, "_userColoursList", "UserColours", org.exolab.castor.xml.NodeType.Element);\r
+        handler = new org.exolab.castor.xml.XMLFieldHandler() {\r
+            public java.lang.Object getValue( java.lang.Object object ) \r
+                throws IllegalStateException\r
+            {\r
+                JalviewModelSequence target = (JalviewModelSequence) object;\r
+                return target.getUserColours();\r
+            }\r
+            public void setValue( java.lang.Object object, java.lang.Object value) \r
+                throws IllegalStateException, IllegalArgumentException\r
+            {\r
+                try {\r
+                    JalviewModelSequence target = (JalviewModelSequence) object;\r
+                    target.addUserColours( (jalview.schemabinding.version2.UserColours) value);\r
+                } catch (java.lang.Exception ex) {\r
+                    throw new IllegalStateException(ex.toString());\r
+                }\r
+            }\r
+            public void resetValue(Object object) throws IllegalStateException, IllegalArgumentException {\r
+                try {\r
+                    JalviewModelSequence target = (JalviewModelSequence) object;\r
+                    target.removeAllUserColours();\r
+                } catch (java.lang.Exception ex) {\r
+                    throw new IllegalStateException(ex.toString());\r
+                }\r
+            }\r
+            public java.lang.Object newInstance(java.lang.Object parent) {\r
+                return new jalview.schemabinding.version2.UserColours();\r
+            }\r
+        };\r
+        desc.setHandler(handler);\r
+        desc.setNameSpaceURI("www.jalview.org");\r
+        desc.setMultivalued(true);\r
+        addFieldDescriptor(desc);\r
+        \r
+        //-- validation code for: _userColoursList\r
+        fieldValidator = new org.exolab.castor.xml.FieldValidator();\r
+        fieldValidator.setMinOccurs(0);\r
+        { //-- local scope\r
         }\r
-      }\r
-\r
-      public java.lang.Object newInstance(java.lang.Object parent)\r
-      {\r
-        return new jalview.schemabinding.version2.JGroup();\r
-      }\r
-    };\r
-    desc.setHandler(handler);\r
-    desc.setNameSpaceURI("www.jalview.org");\r
-    desc.setMultivalued(true);\r
-    addFieldDescriptor(desc);\r
-\r
-    // -- validation code for: _JGroupList\r
-    fieldValidator = new org.exolab.castor.xml.FieldValidator();\r
-    fieldValidator.setMinOccurs(0);\r
-    { // -- local scope\r
-    }\r
-    desc.setValidator(fieldValidator);\r
-    // -- _viewportList\r
-    desc = new org.exolab.castor.xml.util.XMLFieldDescriptorImpl(\r
-            jalview.schemabinding.version2.Viewport.class, "_viewportList",\r
-            "Viewport", org.exolab.castor.xml.NodeType.Element);\r
-    handler = new org.exolab.castor.xml.XMLFieldHandler()\r
-    {\r
-      public java.lang.Object getValue(java.lang.Object object)\r
-              throws IllegalStateException\r
-      {\r
-        JalviewModelSequence target = (JalviewModelSequence) object;\r
-        return target.getViewport();\r
-      }\r
-\r
-      public void setValue(java.lang.Object object, java.lang.Object value)\r
-              throws IllegalStateException, IllegalArgumentException\r
-      {\r
-        try\r
-        {\r
-          JalviewModelSequence target = (JalviewModelSequence) object;\r
-          target.addViewport((jalview.schemabinding.version2.Viewport) value);\r
-        } catch (java.lang.Exception ex)\r
-        {\r
-          throw new IllegalStateException(ex.toString());\r
+        desc.setValidator(fieldValidator);\r
+        //-- _treeList\r
+        desc = new org.exolab.castor.xml.util.XMLFieldDescriptorImpl(jalview.schemabinding.version2.Tree.class, "_treeList", "tree", org.exolab.castor.xml.NodeType.Element);\r
+        handler = new org.exolab.castor.xml.XMLFieldHandler() {\r
+            public java.lang.Object getValue( java.lang.Object object ) \r
+                throws IllegalStateException\r
+            {\r
+                JalviewModelSequence target = (JalviewModelSequence) object;\r
+                return target.getTree();\r
+            }\r
+            public void setValue( java.lang.Object object, java.lang.Object value) \r
+                throws IllegalStateException, IllegalArgumentException\r
+            {\r
+                try {\r
+                    JalviewModelSequence target = (JalviewModelSequence) object;\r
+                    target.addTree( (jalview.schemabinding.version2.Tree) value);\r
+                } catch (java.lang.Exception ex) {\r
+                    throw new IllegalStateException(ex.toString());\r
+                }\r
+            }\r
+            public void resetValue(Object object) throws IllegalStateException, IllegalArgumentException {\r
+                try {\r
+                    JalviewModelSequence target = (JalviewModelSequence) object;\r
+                    target.removeAllTree();\r
+                } catch (java.lang.Exception ex) {\r
+                    throw new IllegalStateException(ex.toString());\r
+                }\r
+            }\r
+            public java.lang.Object newInstance(java.lang.Object parent) {\r
+                return new jalview.schemabinding.version2.Tree();\r
+            }\r
+        };\r
+        desc.setHandler(handler);\r
+        desc.setNameSpaceURI("www.jalview.org");\r
+        desc.setMultivalued(true);\r
+        addFieldDescriptor(desc);\r
+        \r
+        //-- validation code for: _treeList\r
+        fieldValidator = new org.exolab.castor.xml.FieldValidator();\r
+        fieldValidator.setMinOccurs(0);\r
+        { //-- local scope\r
         }\r
-      }\r
-\r
-      public void resetValue(Object object) throws IllegalStateException,\r
-              IllegalArgumentException\r
-      {\r
-        try\r
-        {\r
-          JalviewModelSequence target = (JalviewModelSequence) object;\r
-          target.removeAllViewport();\r
-        } catch (java.lang.Exception ex)\r
-        {\r
-          throw new IllegalStateException(ex.toString());\r
+        desc.setValidator(fieldValidator);\r
+        //-- _featureSettings\r
+        desc = new org.exolab.castor.xml.util.XMLFieldDescriptorImpl(jalview.schemabinding.version2.FeatureSettings.class, "_featureSettings", "FeatureSettings", org.exolab.castor.xml.NodeType.Element);\r
+        handler = new org.exolab.castor.xml.XMLFieldHandler() {\r
+            public java.lang.Object getValue( java.lang.Object object ) \r
+                throws IllegalStateException\r
+            {\r
+                JalviewModelSequence target = (JalviewModelSequence) object;\r
+                return target.getFeatureSettings();\r
+            }\r
+            public void setValue( java.lang.Object object, java.lang.Object value) \r
+                throws IllegalStateException, IllegalArgumentException\r
+            {\r
+                try {\r
+                    JalviewModelSequence target = (JalviewModelSequence) object;\r
+                    target.setFeatureSettings( (jalview.schemabinding.version2.FeatureSettings) value);\r
+                } catch (java.lang.Exception ex) {\r
+                    throw new IllegalStateException(ex.toString());\r
+                }\r
+            }\r
+            public java.lang.Object newInstance(java.lang.Object parent) {\r
+                return new jalview.schemabinding.version2.FeatureSettings();\r
+            }\r
+        };\r
+        desc.setHandler(handler);\r
+        desc.setNameSpaceURI("www.jalview.org");\r
+        desc.setMultivalued(false);\r
+        addFieldDescriptor(desc);\r
+        \r
+        //-- validation code for: _featureSettings\r
+        fieldValidator = new org.exolab.castor.xml.FieldValidator();\r
+        { //-- local scope\r
         }\r
-      }\r
-\r
-      public java.lang.Object newInstance(java.lang.Object parent)\r
-      {\r
-        return new jalview.schemabinding.version2.Viewport();\r
-      }\r
-    };\r
-    desc.setHandler(handler);\r
-    desc.setNameSpaceURI("www.jalview.org");\r
-    desc.setRequired(true);\r
-    desc.setMultivalued(true);\r
-    addFieldDescriptor(desc);\r
-\r
-    // -- validation code for: _viewportList\r
-    fieldValidator = new org.exolab.castor.xml.FieldValidator();\r
-    fieldValidator.setMinOccurs(1);\r
-    { // -- local scope\r
+        desc.setValidator(fieldValidator);\r
     }\r
-    desc.setValidator(fieldValidator);\r
-    // -- _userColoursList\r
-    desc = new org.exolab.castor.xml.util.XMLFieldDescriptorImpl(\r
-            jalview.schemabinding.version2.UserColours.class,\r
-            "_userColoursList", "UserColours",\r
-            org.exolab.castor.xml.NodeType.Element);\r
-    handler = new org.exolab.castor.xml.XMLFieldHandler()\r
-    {\r
-      public java.lang.Object getValue(java.lang.Object object)\r
-              throws IllegalStateException\r
-      {\r
-        JalviewModelSequence target = (JalviewModelSequence) object;\r
-        return target.getUserColours();\r
-      }\r
 \r
-      public void setValue(java.lang.Object object, java.lang.Object value)\r
-              throws IllegalStateException, IllegalArgumentException\r
-      {\r
-        try\r
-        {\r
-          JalviewModelSequence target = (JalviewModelSequence) object;\r
-          target.addUserColours((jalview.schemabinding.version2.UserColours) value);\r
-        } catch (java.lang.Exception ex)\r
-        {\r
-          throw new IllegalStateException(ex.toString());\r
-        }\r
-      }\r
 \r
-      public void resetValue(Object object) throws IllegalStateException,\r
-              IllegalArgumentException\r
-      {\r
-        try\r
-        {\r
-          JalviewModelSequence target = (JalviewModelSequence) object;\r
-          target.removeAllUserColours();\r
-        } catch (java.lang.Exception ex)\r
-        {\r
-          throw new IllegalStateException(ex.toString());\r
-        }\r
-      }\r
+      //-----------/\r
+     //- Methods -/\r
+    //-----------/\r
 \r
-      public java.lang.Object newInstance(java.lang.Object parent)\r
-      {\r
-        return new jalview.schemabinding.version2.UserColours();\r
-      }\r
-    };\r
-    desc.setHandler(handler);\r
-    desc.setNameSpaceURI("www.jalview.org");\r
-    desc.setMultivalued(true);\r
-    addFieldDescriptor(desc);\r
-\r
-    // -- validation code for: _userColoursList\r
-    fieldValidator = new org.exolab.castor.xml.FieldValidator();\r
-    fieldValidator.setMinOccurs(0);\r
-    { // -- local scope\r
+    /**\r
+     * Method getAccessMode.\r
+     * \r
+     * @return the access mode specified for this class.\r
+     */\r
+    public org.exolab.castor.mapping.AccessMode getAccessMode(\r
+    ) {\r
+        return null;\r
     }\r
-    desc.setValidator(fieldValidator);\r
-    // -- _treeList\r
-    desc = new org.exolab.castor.xml.util.XMLFieldDescriptorImpl(\r
-            jalview.schemabinding.version2.Tree.class, "_treeList", "tree",\r
-            org.exolab.castor.xml.NodeType.Element);\r
-    handler = new org.exolab.castor.xml.XMLFieldHandler()\r
-    {\r
-      public java.lang.Object getValue(java.lang.Object object)\r
-              throws IllegalStateException\r
-      {\r
-        JalviewModelSequence target = (JalviewModelSequence) object;\r
-        return target.getTree();\r
-      }\r
-\r
-      public void setValue(java.lang.Object object, java.lang.Object value)\r
-              throws IllegalStateException, IllegalArgumentException\r
-      {\r
-        try\r
-        {\r
-          JalviewModelSequence target = (JalviewModelSequence) object;\r
-          target.addTree((jalview.schemabinding.version2.Tree) value);\r
-        } catch (java.lang.Exception ex)\r
-        {\r
-          throw new IllegalStateException(ex.toString());\r
-        }\r
-      }\r
-\r
-      public void resetValue(Object object) throws IllegalStateException,\r
-              IllegalArgumentException\r
-      {\r
-        try\r
-        {\r
-          JalviewModelSequence target = (JalviewModelSequence) object;\r
-          target.removeAllTree();\r
-        } catch (java.lang.Exception ex)\r
-        {\r
-          throw new IllegalStateException(ex.toString());\r
-        }\r
-      }\r
-\r
-      public java.lang.Object newInstance(java.lang.Object parent)\r
-      {\r
-        return new jalview.schemabinding.version2.Tree();\r
-      }\r
-    };\r
-    desc.setHandler(handler);\r
-    desc.setNameSpaceURI("www.jalview.org");\r
-    desc.setMultivalued(true);\r
-    addFieldDescriptor(desc);\r
 \r
-    // -- validation code for: _treeList\r
-    fieldValidator = new org.exolab.castor.xml.FieldValidator();\r
-    fieldValidator.setMinOccurs(0);\r
-    { // -- local scope\r
+    /**\r
+     * Method getIdentity.\r
+     * \r
+     * @return the identity field, null if this class has no\r
+     * identity.\r
+     */\r
+    public org.exolab.castor.mapping.FieldDescriptor getIdentity(\r
+    ) {\r
+        return super.getIdentity();\r
     }\r
-    desc.setValidator(fieldValidator);\r
-    // -- _featureSettings\r
-    desc = new org.exolab.castor.xml.util.XMLFieldDescriptorImpl(\r
-            jalview.schemabinding.version2.FeatureSettings.class,\r
-            "_featureSettings", "FeatureSettings",\r
-            org.exolab.castor.xml.NodeType.Element);\r
-    handler = new org.exolab.castor.xml.XMLFieldHandler()\r
-    {\r
-      public java.lang.Object getValue(java.lang.Object object)\r
-              throws IllegalStateException\r
-      {\r
-        JalviewModelSequence target = (JalviewModelSequence) object;\r
-        return target.getFeatureSettings();\r
-      }\r
 \r
-      public void setValue(java.lang.Object object, java.lang.Object value)\r
-              throws IllegalStateException, IllegalArgumentException\r
-      {\r
-        try\r
-        {\r
-          JalviewModelSequence target = (JalviewModelSequence) object;\r
-          target.setFeatureSettings((jalview.schemabinding.version2.FeatureSettings) value);\r
-        } catch (java.lang.Exception ex)\r
-        {\r
-          throw new IllegalStateException(ex.toString());\r
-        }\r
-      }\r
-\r
-      public java.lang.Object newInstance(java.lang.Object parent)\r
-      {\r
-        return new jalview.schemabinding.version2.FeatureSettings();\r
-      }\r
-    };\r
-    desc.setHandler(handler);\r
-    desc.setNameSpaceURI("www.jalview.org");\r
-    desc.setMultivalued(false);\r
-    addFieldDescriptor(desc);\r
-\r
-    // -- validation code for: _featureSettings\r
-    fieldValidator = new org.exolab.castor.xml.FieldValidator();\r
-    { // -- local scope\r
+    /**\r
+     * Method getJavaClass.\r
+     * \r
+     * @return the Java class represented by this descriptor.\r
+     */\r
+    public java.lang.Class getJavaClass(\r
+    ) {\r
+        return jalview.schemabinding.version2.JalviewModelSequence.class;\r
     }\r
-    desc.setValidator(fieldValidator);\r
-  }\r
-\r
-  // -----------/\r
-  // - Methods -/\r
-  // -----------/\r
-\r
-  /**\r
-   * Method getAccessMode.\r
-   * \r
-   * @return the access mode specified for this class.\r
-   */\r
-  public org.exolab.castor.mapping.AccessMode getAccessMode()\r
-  {\r
-    return null;\r
-  }\r
-\r
-  /**\r
-   * Method getIdentity.\r
-   * \r
-   * @return the identity field, null if this class has no identity.\r
-   */\r
-  public org.exolab.castor.mapping.FieldDescriptor getIdentity()\r
-  {\r
-    return super.getIdentity();\r
-  }\r
 \r
-  /**\r
-   * Method getJavaClass.\r
-   * \r
-   * @return the Java class represented by this descriptor.\r
-   */\r
-  public java.lang.Class getJavaClass()\r
-  {\r
-    return jalview.schemabinding.version2.JalviewModelSequence.class;\r
-  }\r
-\r
-  /**\r
-   * Method getNameSpacePrefix.\r
-   * \r
-   * @return the namespace prefix to use when marshaling as XML.\r
-   */\r
-  public java.lang.String getNameSpacePrefix()\r
-  {\r
-    return _nsPrefix;\r
-  }\r
+    /**\r
+     * Method getNameSpacePrefix.\r
+     * \r
+     * @return the namespace prefix to use when marshaling as XML.\r
+     */\r
+    public java.lang.String getNameSpacePrefix(\r
+    ) {\r
+        return _nsPrefix;\r
+    }\r
 \r
-  /**\r
-   * Method getNameSpaceURI.\r
-   * \r
-   * @return the namespace URI used when marshaling and unmarshaling as XML.\r
-   */\r
-  public java.lang.String getNameSpaceURI()\r
-  {\r
-    return _nsURI;\r
-  }\r
+    /**\r
+     * Method getNameSpaceURI.\r
+     * \r
+     * @return the namespace URI used when marshaling and\r
+     * unmarshaling as XML.\r
+     */\r
+    public java.lang.String getNameSpaceURI(\r
+    ) {\r
+        return _nsURI;\r
+    }\r
 \r
-  /**\r
-   * Method getValidator.\r
-   * \r
-   * @return a specific validator for the class described by this\r
-   *         ClassDescriptor.\r
-   */\r
-  public org.exolab.castor.xml.TypeValidator getValidator()\r
-  {\r
-    return this;\r
-  }\r
+    /**\r
+     * Method getValidator.\r
+     * \r
+     * @return a specific validator for the class described by this\r
+     * ClassDescriptor.\r
+     */\r
+    public org.exolab.castor.xml.TypeValidator getValidator(\r
+    ) {\r
+        return this;\r
+    }\r
 \r
-  /**\r
-   * Method getXMLName.\r
-   * \r
-   * @return the XML Name for the Class being described.\r
-   */\r
-  public java.lang.String getXMLName()\r
-  {\r
-    return _xmlName;\r
-  }\r
+    /**\r
+     * Method getXMLName.\r
+     * \r
+     * @return the XML Name for the Class being described.\r
+     */\r
+    public java.lang.String getXMLName(\r
+    ) {\r
+        return _xmlName;\r
+    }\r
 \r
-  /**\r
-   * Method isElementDefinition.\r
-   * \r
-   * @return true if XML schema definition of this Class is that of a global\r
-   *         element or element with anonymous type definition.\r
-   */\r
-  public boolean isElementDefinition()\r
-  {\r
-    return _elementDefinition;\r
-  }\r
+    /**\r
+     * Method isElementDefinition.\r
+     * \r
+     * @return true if XML schema definition of this Class is that\r
+     * of a global\r
+     * element or element with anonymous type definition.\r
+     */\r
+    public boolean isElementDefinition(\r
+    ) {\r
+        return _elementDefinition;\r
+    }\r
 \r
 }\r