save visible state of annotation

diff --git a/src/jalview/schemabinding/version2/Annotation.java b/src/jalview/schemabinding/version2/Annotation.java
index 021fa8b..0084c75 100755 (executable)
--- 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;\r
 \r
     /**\r
+     * Field _visible\r
+     */\r
+    private boolean _visible;\r
+\r
+    /**\r
+     * keeps track of state for field: _visible\r
+     */\r
+    private boolean _has_visible;\r
+\r
+    /**\r
      * Field _annotationElementList\r
      */\r
     private java.util.Vector _annotationElementList;\r
@@ -222,6 +232,15 @@ public class Annotation implements java.io.Serializable {
     } //-- void deleteScoreOnly() \r
 \r
     /**\r
+     * Method deleteVisible\r
+     * \r
+     */\r
+    public void deleteVisible()\r
+    {\r
+        this._has_visible= false;\r
+    } //-- void deleteVisible() \r
+\r
+    /**\r
      * Method enumerateAnnotationElement\r
      * \r
      * \r
@@ -403,6 +422,17 @@ public class Annotation implements java.io.Serializable {
     } //-- jalview.schemabinding.version2.ThresholdLine getThresholdLine() \r
 \r
     /**\r
+     * Returns the value of field 'visible'.\r
+     * \r
+     * @return boolean\r
+     * @return the value of field 'visible'.\r
+     */\r
+    public boolean getVisible()\r
+    {\r
+        return this._visible;\r
+    } //-- boolean getVisible() \r
+\r
+    /**\r
      * Method hasGraph\r
      * \r
      * \r
@@ -475,6 +505,18 @@ public class Annotation implements java.io.Serializable {
     } //-- boolean hasScoreOnly() \r
 \r
     /**\r
+     * Method hasVisible\r
+     * \r
+     * \r
+     * \r
+     * @return boolean\r
+     */\r
+    public boolean hasVisible()\r
+    {\r
+        return this._has_visible;\r
+    } //-- boolean hasVisible() \r
+\r
+    /**\r
      * Method isValid\r
      * \r
      * \r
@@ -695,6 +737,17 @@ public class Annotation implements java.io.Serializable {
     } //-- void setThresholdLine(jalview.schemabinding.version2.ThresholdLine) \r
 \r
     /**\r
+     * Sets the value of field 'visible'.\r
+     * \r
+     * @param visible the value of field 'visible'.\r
+     */\r
+    public void setVisible(boolean visible)\r
+    {\r
+        this._visible = visible;\r
+        this._has_visible = true;\r
+    } //-- void setVisible(boolean) \r
+\r
+    /**\r
      * Method unmarshal\r
      * \r
      * \r

diff --git a/src/jalview/schemabinding/version2/AnnotationDescriptor.java b/src/jalview/schemabinding/version2/AnnotationDescriptor.java
index 28ceec1..e0380f3 100755 (executable)
--- 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);\r
         }\r
         desc.setValidator(fieldValidator);\r
+        //-- _visible\r
+        desc = new org.exolab.castor.xml.util.XMLFieldDescriptorImpl(java.lang.Boolean.TYPE, "_visible", "visible", org.exolab.castor.xml.NodeType.Attribute);\r
+        handler = (new org.exolab.castor.xml.XMLFieldHandler() {\r
+            public java.lang.Object getValue( java.lang.Object object ) \r
+                throws IllegalStateException\r
+            {\r
+                Annotation target = (Annotation) object;\r
+                if(!target.hasVisible())\r
+                    return null;\r
+                return (target.getVisible() ? java.lang.Boolean.TRUE : java.lang.Boolean.FALSE);\r
+            }\r
+            public void setValue( java.lang.Object object, java.lang.Object value) \r
+                throws IllegalStateException, IllegalArgumentException\r
+            {\r
+                try {\r
+                    Annotation target = (Annotation) object;\r
+                    // if null, use delete method for optional primitives \r
+                    if (value == null) {\r
+                        target.deleteVisible();\r
+                        return;\r
+                    }\r
+                    target.setVisible( ((java.lang.Boolean)value).booleanValue());\r
+                }\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 null;\r
+            }\r
+        } );\r
+        desc.setHandler(handler);\r
+        addFieldDescriptor(desc);\r
+        \r
+        //-- validation code for: _visible\r
+        fieldValidator = new org.exolab.castor.xml.FieldValidator();\r
+        { //-- local scope\r
+            BooleanValidator typeValidator = new BooleanValidator();\r
+            fieldValidator.setValidator(typeValidator);\r
+        }\r
+        desc.setValidator(fieldValidator);\r
         //-- initialize element descriptors\r
         \r
         //-- _annotationElementList\r