From 84c20bdc7d5c6bd3aea2c8dae5263ebd9c5e5458 Mon Sep 17 00:00:00 2001
From: amwaterhouse <Andrew Waterhouse>
Date: Thu, 10 May 2007 07:12:06 +0000
Subject: [PATCH] save visible state of annotation

---
 src/jalview/schemabinding/version2/Annotation.java |   53 ++++++++++++++++++++
 .../version2/AnnotationDescriptor.java             |   41 +++++++++++++++
 2 files changed, 94 insertions(+)

diff --git a/src/jalview/schemabinding/version2/Annotation.java b/src/jalview/schemabinding/version2/Annotation.java
index 021fa8b..0084c75 100755
--- a/src/jalview/schemabinding/version2/Annotation.java
+++ b/src/jalview/schemabinding/version2/Annotation.java
@@ -106,6 +106,16 @@ public class Annotation implements java.io.Serializable {
     private boolean _has_score;
 
     /**
+     * Field _visible
+     */
+    private boolean _visible;
+
+    /**
+     * keeps track of state for field: _visible
+     */
+    private boolean _has_visible;
+
+    /**
      * Field _annotationElementList
      */
     private java.util.Vector _annotationElementList;
@@ -222,6 +232,15 @@ public class Annotation implements java.io.Serializable {
     } //-- void deleteScoreOnly() 
 
     /**
+     * Method deleteVisible
+     * 
+     */
+    public void deleteVisible()
+    {
+        this._has_visible= false;
+    } //-- void deleteVisible() 
+
+    /**
      * Method enumerateAnnotationElement
      * 
      * 
@@ -403,6 +422,17 @@ public class Annotation implements java.io.Serializable {
     } //-- jalview.schemabinding.version2.ThresholdLine getThresholdLine() 
 
     /**
+     * Returns the value of field 'visible'.
+     * 
+     * @return boolean
+     * @return the value of field 'visible'.
+     */
+    public boolean getVisible()
+    {
+        return this._visible;
+    } //-- boolean getVisible() 
+
+    /**
      * Method hasGraph
      * 
      * 
@@ -475,6 +505,18 @@ public class Annotation implements java.io.Serializable {
     } //-- boolean hasScoreOnly() 
 
     /**
+     * Method hasVisible
+     * 
+     * 
+     * 
+     * @return boolean
+     */
+    public boolean hasVisible()
+    {
+        return this._has_visible;
+    } //-- boolean hasVisible() 
+
+    /**
      * Method isValid
      * 
      * 
@@ -695,6 +737,17 @@ public class Annotation implements java.io.Serializable {
     } //-- void setThresholdLine(jalview.schemabinding.version2.ThresholdLine) 
 
     /**
+     * Sets the value of field 'visible'.
+     * 
+     * @param visible the value of field 'visible'.
+     */
+    public void setVisible(boolean visible)
+    {
+        this._visible = visible;
+        this._has_visible = true;
+    } //-- void setVisible(boolean) 
+
+    /**
      * Method unmarshal
      * 
      * 
diff --git a/src/jalview/schemabinding/version2/AnnotationDescriptor.java b/src/jalview/schemabinding/version2/AnnotationDescriptor.java
index 28ceec1..e0380f3 100755
--- a/src/jalview/schemabinding/version2/AnnotationDescriptor.java
+++ b/src/jalview/schemabinding/version2/AnnotationDescriptor.java
@@ -383,6 +383,47 @@ public class AnnotationDescriptor extends org.exolab.castor.xml.util.XMLClassDes
             fieldValidator.setValidator(typeValidator);
         }
         desc.setValidator(fieldValidator);
+        //-- _visible
+        desc = new org.exolab.castor.xml.util.XMLFieldDescriptorImpl(java.lang.Boolean.TYPE, "_visible", "visible", 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.hasVisible())
+                    return null;
+                return (target.getVisible() ? 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;
+                    // if null, use delete method for optional primitives 
+                    if (value == null) {
+                        target.deleteVisible();
+                        return;
+                    }
+                    target.setVisible( ((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);
+        addFieldDescriptor(desc);
+        
+        //-- validation code for: _visible
+        fieldValidator = new org.exolab.castor.xml.FieldValidator();
+        { //-- local scope
+            BooleanValidator typeValidator = new BooleanValidator();
+            fieldValidator.setValidator(typeValidator);
+        }
+        desc.setValidator(fieldValidator);
         //-- initialize element descriptors
         
         //-- _annotationElementList
-- 
1.7.10.2