<?xml version="1.0" encoding="UTF-8"?>\r
-<xs:schema xmlns:xs="http://www.w3.org/2001/XMLSchema"\r
- xmlns:vamsas="www.vamsas.ac.uk/jalview/version2"\r
- xmlns:jalview="www.jalview.org/colours"\r
- xmlns:jv="www.jalview.org" \r
- targetNamespace="www.jalview.org" elementFormDefault="qualified" attributeFormDefault="unqualified">\r
- \r
- <xs:import schemaLocation="vamsas.xsd" namespace="www.vamsas.ac.uk/jalview/version2"/>\r
- <xs:import schemaLocation="JalviewUserColours.xsd" namespace="www.jalview.org/colours"/>\r
+<xs:schema xmlns:xs="http://www.w3.org/2001/XMLSchema" xmlns:vamsas="www.vamsas.ac.uk/jalview/version2" xmlns:jalview="www.jalview.org/colours" xmlns:jv="www.jalview.org" targetNamespace="www.jalview.org" elementFormDefault="qualified" attributeFormDefault="unqualified">\r
+ <xs:import namespace="www.vamsas.ac.uk/jalview/version2" schemaLocation="vamsas.xsd"/>\r
+ <xs:import namespace="www.jalview.org/colours" schemaLocation="JalviewUserColours.xsd"/>\r
<xs:complexType name="JalviewModel">\r
<xs:sequence>\r
<xs:element name="creationDate" type="xs:dateTime"/>\r
<xs:element name="JSeq" maxOccurs="unbounded">\r
<xs:complexType>\r
<xs:sequence>\r
- <xs:element name="features" type="jv:feature" minOccurs="0" maxOccurs="unbounded"/>\r
- <xs:element name="pdbids" type="jv:pdbentry" minOccurs="0" maxOccurs="unbounded"/>\r
- </xs:sequence>\r
- \r
- <xs:attribute name="colour" type="xs:int" use="optional"/>\r
- <xs:attribute name="start" type="xs:int" use="required"/>\r
- <xs:attribute name="end" type="xs:int" use="required"/>\r
- <xs:attribute name="id" type="xs:int" use="required"/>\r
- </xs:complexType>\r
+ <xs:element name="features" type="jv:feature" minOccurs="0" maxOccurs="unbounded"/>\r
+ <xs:element name="pdbids" type="jv:pdbentry" minOccurs="0" maxOccurs="unbounded"/>\r
+ </xs:sequence>\r
+ <xs:attribute name="colour" type="xs:int" use="optional"/>\r
+ <xs:attribute name="start" type="xs:int" use="required"/>\r
+ <xs:attribute name="end" type="xs:int" use="required"/>\r
+ <xs:attribute name="id" type="xs:int" use="required"/>\r
+ </xs:complexType>\r
</xs:element>\r
<xs:element name="JGroup" minOccurs="0" maxOccurs="unbounded">\r
<xs:complexType>\r
- <xs:sequence minOccurs="1">\r
- <xs:element name="seq" maxOccurs="unbounded" type="xs:int"/>\r
+ <xs:sequence>\r
+ <xs:element name="seq" type="xs:int" maxOccurs="unbounded"/>\r
</xs:sequence>\r
<xs:attribute name="start" type="xs:int"/>\r
<xs:attribute name="end" type="xs:int"/>\r
</xs:element>\r
<xs:element name="Viewport" maxOccurs="unbounded">\r
<xs:complexType>\r
+ <xs:sequence>\r
+ <xs:element name="AnnotationColours" minOccurs="0">\r
+ <xs:complexType>\r
+ <xs:attribute name="aboveThreshold" type="xs:int"/>\r
+ <xs:attribute name="annotation" type="xs:string"/>\r
+ <xs:attribute name="minColour" type="xs:int"/>\r
+ <xs:attribute name="maxColour" type="xs:int"/>\r
+ <xs:attribute name="colourScheme" type="xs:string"/>\r
+ <xs:attribute name="threshold" type="xs:float"/>\r
+ </xs:complexType>\r
+ </xs:element>\r
+ </xs:sequence>\r
<xs:attribute name="conservationSelected" type="xs:boolean"/>\r
<xs:attribute name="pidSelected" type="xs:boolean"/>\r
<xs:attribute name="bgColour" type="xs:string"/>\r
</xs:element>\r
<xs:element name="UserColours" minOccurs="0" maxOccurs="unbounded">\r
<xs:complexType>\r
- <xs:sequence minOccurs="1">\r
+ <xs:sequence>\r
<xs:element name="UserColourScheme" type="jalview:JalviewUserColours"/>\r
</xs:sequence>\r
<xs:attribute name="id" type="xs:string"/>\r
</xs:element>\r
<xs:element name="tree" minOccurs="0" maxOccurs="unbounded">\r
<xs:complexType>\r
- <xs:sequence minOccurs="0" maxOccurs="1">\r
+ <xs:sequence minOccurs="0">\r
<xs:element name="title" type="xs:string"/>\r
<xs:element name="newick" type="xs:string"/>\r
</xs:sequence>\r
<xs:attribute name="currentTree" type="xs:boolean"/>\r
</xs:complexType>\r
</xs:element>\r
- \r
- <xs:element name="FeatureSettings" minOccurs="0" maxOccurs="1">\r
- <xs:complexType>\r
- <xs:sequence>\r
- <xs:element name="setting" minOccurs="0" maxOccurs="unbounded">\r
- <xs:complexType>\r
- <xs:attribute name="type" type="xs:string" use="required"/>\r
- <xs:attribute name="colour" type="xs:int" use="required"/>\r
- <xs:attribute name="display" type="xs:boolean" use="required"/>\r
- </xs:complexType>\r
- </xs:element>\r
- </xs:sequence>\r
- </xs:complexType>\r
+ <xs:element name="FeatureSettings" minOccurs="0">\r
+ <xs:complexType>\r
+ <xs:sequence>\r
+ <xs:element name="setting" minOccurs="0" maxOccurs="unbounded">\r
+ <xs:complexType>\r
+ <xs:attribute name="type" type="xs:string" use="required"/>\r
+ <xs:attribute name="colour" type="xs:int" use="required"/>\r
+ <xs:attribute name="display" type="xs:boolean" use="required"/>\r
+ </xs:complexType>\r
+ </xs:element>\r
+ </xs:sequence>\r
+ </xs:complexType>\r
</xs:element>\r
- \r
</xs:sequence>\r
</xs:sequence>\r
</xs:complexType>\r
- \r
<xs:complexType name="feature">\r
<xs:attribute name="begin" type="xs:int" use="required"/>\r
<xs:attribute name="end" type="xs:int" use="required"/>\r
<xs:attribute name="status" type="xs:string" use="optional"/>\r
<xs:attribute name="featureGroup" type="xs:string" use="optional"/>\r
</xs:complexType>\r
- \r
<xs:complexType name="pdbentry">\r
<xs:sequence minOccurs="0" maxOccurs="unbounded">\r
<xs:element name="property" minOccurs="0" maxOccurs="unbounded">\r
<xs:attribute name="id" type="xs:string" use="required"/>\r
<xs:attribute name="type" type="xs:string" use="optional"/>\r
</xs:complexType>\r
- \r
</xs:schema>\r
<xs:element ref="vamsas:annotationElement" maxOccurs="unbounded"/>\r
<xs:element name="label" type="xs:string"/>\r
<xs:element name="description" type="xs:string"/>\r
+ <xs:element name="thresholdLine" minOccurs="0">\r
+ <xs:complexType>\r
+ <xs:attribute name="label" type="xs:string"/>\r
+ <xs:attribute name="value" type="xs:float"/>\r
+ <xs:attribute name="colour" type="xs:int"/>\r
+ </xs:complexType>\r
+ </xs:element>\r
</xs:sequence>\r
<xs:attribute name="graph" type="xs:boolean" use="required"/>\r
<xs:attribute name="graphType" type="xs:int" use="optional"/>\r
*/\r
private java.lang.String _description;\r
\r
+ /**\r
+ * Field _thresholdLine\r
+ */\r
+ private jalview.schemabinding.version2.ThresholdLine _thresholdLine;\r
+\r
\r
//----------------/\r
//- Constructors -/\r
} //-- java.lang.String getLabel() \r
\r
/**\r
+ * Returns the value of field 'thresholdLine'.\r
+ * \r
+ * @return ThresholdLine\r
+ * @return the value of field 'thresholdLine'.\r
+ */\r
+ public jalview.schemabinding.version2.ThresholdLine getThresholdLine()\r
+ {\r
+ return this._thresholdLine;\r
+ } //-- jalview.schemabinding.version2.ThresholdLine getThresholdLine() \r
+\r
+ /**\r
* Method hasGraph\r
* \r
* \r
} //-- void setLabel(java.lang.String) \r
\r
/**\r
+ * Sets the value of field 'thresholdLine'.\r
+ * \r
+ * @param thresholdLine the value of field 'thresholdLine'.\r
+ */\r
+ public void setThresholdLine(jalview.schemabinding.version2.ThresholdLine thresholdLine)\r
+ {\r
+ this._thresholdLine = thresholdLine;\r
+ } //-- void setThresholdLine(jalview.schemabinding.version2.ThresholdLine) \r
+\r
+ /**\r
* Method unmarshal\r
* \r
* \r
--- /dev/null
+/*\r
+ * This class was automatically generated with \r
+ * <a href="http://www.castor.org">Castor 0.9.6</a>, using an XML\r
+ * Schema.\r
+ * $Id$\r
+ */\r
+\r
+package jalview.schemabinding.version2;\r
+\r
+ //---------------------------------/\r
+ //- Imported classes and packages -/\r
+//---------------------------------/\r
+\r
+import java.io.IOException;\r
+import java.io.Reader;\r
+import java.io.Serializable;\r
+import java.io.Writer;\r
+import org.exolab.castor.xml.MarshalException;\r
+import org.exolab.castor.xml.Marshaller;\r
+import org.exolab.castor.xml.Unmarshaller;\r
+import org.exolab.castor.xml.ValidationException;\r
+import org.xml.sax.ContentHandler;\r
+\r
+/**\r
+ * Class AnnotationColours.\r
+ * \r
+ * @version $Revision$ $Date$\r
+ */\r
+public class AnnotationColours implements java.io.Serializable {\r
+\r
+\r
+ //--------------------------/\r
+ //- Class/Member Variables -/\r
+ //--------------------------/\r
+\r
+ /**\r
+ * Field _aboveThreshold\r
+ */\r
+ private int _aboveThreshold;\r
+\r
+ /**\r
+ * keeps track of state for field: _aboveThreshold\r
+ */\r
+ private boolean _has_aboveThreshold;\r
+\r
+ /**\r
+ * Field _annotation\r
+ */\r
+ private java.lang.String _annotation;\r
+\r
+ /**\r
+ * Field _minColour\r
+ */\r
+ private int _minColour;\r
+\r
+ /**\r
+ * keeps track of state for field: _minColour\r
+ */\r
+ private boolean _has_minColour;\r
+\r
+ /**\r
+ * Field _maxColour\r
+ */\r
+ private int _maxColour;\r
+\r
+ /**\r
+ * keeps track of state for field: _maxColour\r
+ */\r
+ private boolean _has_maxColour;\r
+\r
+ /**\r
+ * Field _colourScheme\r
+ */\r
+ private java.lang.String _colourScheme;\r
+\r
+ /**\r
+ * Field _threshold\r
+ */\r
+ private float _threshold;\r
+\r
+ /**\r
+ * keeps track of state for field: _threshold\r
+ */\r
+ private boolean _has_threshold;\r
+\r
+\r
+ //----------------/\r
+ //- Constructors -/\r
+ //----------------/\r
+\r
+ public AnnotationColours() {\r
+ super();\r
+ } //-- jalview.schemabinding.version2.AnnotationColours()\r
+\r
+\r
+ //-----------/\r
+ //- Methods -/\r
+ //-----------/\r
+\r
+ /**\r
+ * Method deleteAboveThreshold\r
+ * \r
+ */\r
+ public void deleteAboveThreshold()\r
+ {\r
+ this._has_aboveThreshold= false;\r
+ } //-- void deleteAboveThreshold() \r
+\r
+ /**\r
+ * Method deleteMaxColour\r
+ * \r
+ */\r
+ public void deleteMaxColour()\r
+ {\r
+ this._has_maxColour= false;\r
+ } //-- void deleteMaxColour() \r
+\r
+ /**\r
+ * Method deleteMinColour\r
+ * \r
+ */\r
+ public void deleteMinColour()\r
+ {\r
+ this._has_minColour= false;\r
+ } //-- void deleteMinColour() \r
+\r
+ /**\r
+ * Method deleteThreshold\r
+ * \r
+ */\r
+ public void deleteThreshold()\r
+ {\r
+ this._has_threshold= false;\r
+ } //-- void deleteThreshold() \r
+\r
+ /**\r
+ * Returns the value of field 'aboveThreshold'.\r
+ * \r
+ * @return int\r
+ * @return the value of field 'aboveThreshold'.\r
+ */\r
+ public int getAboveThreshold()\r
+ {\r
+ return this._aboveThreshold;\r
+ } //-- int getAboveThreshold() \r
+\r
+ /**\r
+ * Returns the value of field 'annotation'.\r
+ * \r
+ * @return String\r
+ * @return the value of field 'annotation'.\r
+ */\r
+ public java.lang.String getAnnotation()\r
+ {\r
+ return this._annotation;\r
+ } //-- java.lang.String getAnnotation() \r
+\r
+ /**\r
+ * Returns the value of field 'colourScheme'.\r
+ * \r
+ * @return String\r
+ * @return the value of field 'colourScheme'.\r
+ */\r
+ public java.lang.String getColourScheme()\r
+ {\r
+ return this._colourScheme;\r
+ } //-- java.lang.String getColourScheme() \r
+\r
+ /**\r
+ * Returns the value of field 'maxColour'.\r
+ * \r
+ * @return int\r
+ * @return the value of field 'maxColour'.\r
+ */\r
+ public int getMaxColour()\r
+ {\r
+ return this._maxColour;\r
+ } //-- int getMaxColour() \r
+\r
+ /**\r
+ * Returns the value of field 'minColour'.\r
+ * \r
+ * @return int\r
+ * @return the value of field 'minColour'.\r
+ */\r
+ public int getMinColour()\r
+ {\r
+ return this._minColour;\r
+ } //-- int getMinColour() \r
+\r
+ /**\r
+ * Returns the value of field 'threshold'.\r
+ * \r
+ * @return float\r
+ * @return the value of field 'threshold'.\r
+ */\r
+ public float getThreshold()\r
+ {\r
+ return this._threshold;\r
+ } //-- float getThreshold() \r
+\r
+ /**\r
+ * Method hasAboveThreshold\r
+ * \r
+ * \r
+ * \r
+ * @return boolean\r
+ */\r
+ public boolean hasAboveThreshold()\r
+ {\r
+ return this._has_aboveThreshold;\r
+ } //-- boolean hasAboveThreshold() \r
+\r
+ /**\r
+ * Method hasMaxColour\r
+ * \r
+ * \r
+ * \r
+ * @return boolean\r
+ */\r
+ public boolean hasMaxColour()\r
+ {\r
+ return this._has_maxColour;\r
+ } //-- boolean hasMaxColour() \r
+\r
+ /**\r
+ * Method hasMinColour\r
+ * \r
+ * \r
+ * \r
+ * @return boolean\r
+ */\r
+ public boolean hasMinColour()\r
+ {\r
+ return this._has_minColour;\r
+ } //-- boolean hasMinColour() \r
+\r
+ /**\r
+ * Method hasThreshold\r
+ * \r
+ * \r
+ * \r
+ * @return boolean\r
+ */\r
+ public boolean hasThreshold()\r
+ {\r
+ return this._has_threshold;\r
+ } //-- boolean hasThreshold() \r
+\r
+ /**\r
+ * Method isValid\r
+ * \r
+ * \r
+ * \r
+ * @return boolean\r
+ */\r
+ public boolean isValid()\r
+ {\r
+ try {\r
+ validate();\r
+ }\r
+ catch (org.exolab.castor.xml.ValidationException vex) {\r
+ return false;\r
+ }\r
+ return true;\r
+ } //-- boolean isValid() \r
+\r
+ /**\r
+ * Method marshal\r
+ * \r
+ * \r
+ * \r
+ * @param out\r
+ */\r
+ public void marshal(java.io.Writer out)\r
+ throws org.exolab.castor.xml.MarshalException, org.exolab.castor.xml.ValidationException\r
+ {\r
+ \r
+ Marshaller.marshal(this, out);\r
+ } //-- void marshal(java.io.Writer) \r
+\r
+ /**\r
+ * Method marshal\r
+ * \r
+ * \r
+ * \r
+ * @param handler\r
+ */\r
+ public void marshal(org.xml.sax.ContentHandler handler)\r
+ throws java.io.IOException, org.exolab.castor.xml.MarshalException, org.exolab.castor.xml.ValidationException\r
+ {\r
+ \r
+ Marshaller.marshal(this, handler);\r
+ } //-- void marshal(org.xml.sax.ContentHandler) \r
+\r
+ /**\r
+ * Sets the value of field 'aboveThreshold'.\r
+ * \r
+ * @param aboveThreshold the value of field 'aboveThreshold'.\r
+ */\r
+ public void setAboveThreshold(int aboveThreshold)\r
+ {\r
+ this._aboveThreshold = aboveThreshold;\r
+ this._has_aboveThreshold = true;\r
+ } //-- void setAboveThreshold(int) \r
+\r
+ /**\r
+ * Sets the value of field 'annotation'.\r
+ * \r
+ * @param annotation the value of field 'annotation'.\r
+ */\r
+ public void setAnnotation(java.lang.String annotation)\r
+ {\r
+ this._annotation = annotation;\r
+ } //-- void setAnnotation(java.lang.String) \r
+\r
+ /**\r
+ * Sets the value of field 'colourScheme'.\r
+ * \r
+ * @param colourScheme the value of field 'colourScheme'.\r
+ */\r
+ public void setColourScheme(java.lang.String colourScheme)\r
+ {\r
+ this._colourScheme = colourScheme;\r
+ } //-- void setColourScheme(java.lang.String) \r
+\r
+ /**\r
+ * Sets the value of field 'maxColour'.\r
+ * \r
+ * @param maxColour the value of field 'maxColour'.\r
+ */\r
+ public void setMaxColour(int maxColour)\r
+ {\r
+ this._maxColour = maxColour;\r
+ this._has_maxColour = true;\r
+ } //-- void setMaxColour(int) \r
+\r
+ /**\r
+ * Sets the value of field 'minColour'.\r
+ * \r
+ * @param minColour the value of field 'minColour'.\r
+ */\r
+ public void setMinColour(int minColour)\r
+ {\r
+ this._minColour = minColour;\r
+ this._has_minColour = true;\r
+ } //-- void setMinColour(int) \r
+\r
+ /**\r
+ * Sets the value of field 'threshold'.\r
+ * \r
+ * @param threshold the value of field 'threshold'.\r
+ */\r
+ public void setThreshold(float threshold)\r
+ {\r
+ this._threshold = threshold;\r
+ this._has_threshold = true;\r
+ } //-- void setThreshold(float) \r
+\r
+ /**\r
+ * Method unmarshal\r
+ * \r
+ * \r
+ * \r
+ * @param reader\r
+ * @return Object\r
+ */\r
+ public static java.lang.Object unmarshal(java.io.Reader reader)\r
+ throws org.exolab.castor.xml.MarshalException, org.exolab.castor.xml.ValidationException\r
+ {\r
+ return (jalview.schemabinding.version2.AnnotationColours) Unmarshaller.unmarshal(jalview.schemabinding.version2.AnnotationColours.class, reader);\r
+ } //-- java.lang.Object unmarshal(java.io.Reader) \r
+\r
+ /**\r
+ * Method validate\r
+ * \r
+ */\r
+ public void validate()\r
+ throws org.exolab.castor.xml.ValidationException\r
+ {\r
+ org.exolab.castor.xml.Validator validator = new org.exolab.castor.xml.Validator();\r
+ validator.validate(this);\r
+ } //-- void validate() \r
+\r
+}\r
--- /dev/null
+/*\r
+ * This class was automatically generated with \r
+ * <a href="http://www.castor.org">Castor 0.9.6</a>, using an XML\r
+ * Schema.\r
+ * $Id$\r
+ */\r
+\r
+package jalview.schemabinding.version2;\r
+\r
+ //---------------------------------/\r
+ //- Imported classes and packages -/\r
+//---------------------------------/\r
+\r
+import org.exolab.castor.mapping.AccessMode;\r
+import org.exolab.castor.xml.TypeValidator;\r
+import org.exolab.castor.xml.XMLFieldDescriptor;\r
+import org.exolab.castor.xml.validators.*;\r
+\r
+/**\r
+ * Class AnnotationColoursDescriptor.\r
+ * \r
+ * @version $Revision$ $Date$\r
+ */\r
+public class AnnotationColoursDescriptor extends org.exolab.castor.xml.util.XMLClassDescriptorImpl {\r
+\r
+\r
+ //--------------------------/\r
+ //- Class/Member Variables -/\r
+ //--------------------------/\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
+ * Field identity\r
+ */\r
+ private org.exolab.castor.xml.XMLFieldDescriptor identity;\r
+\r
+\r
+ //----------------/\r
+ //- Constructors -/\r
+ //----------------/\r
+\r
+ public AnnotationColoursDescriptor() {\r
+ super();\r
+ nsURI = "www.jalview.org";\r
+ xmlName = "AnnotationColours";\r
+ org.exolab.castor.xml.util.XMLFieldDescriptorImpl desc = null;\r
+ org.exolab.castor.xml.XMLFieldHandler handler = null;\r
+ org.exolab.castor.xml.FieldValidator fieldValidator = null;\r
+ //-- initialize attribute descriptors\r
+ \r
+ //-- _aboveThreshold\r
+ desc = new org.exolab.castor.xml.util.XMLFieldDescriptorImpl(java.lang.Integer.TYPE, "_aboveThreshold", "aboveThreshold", 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
+ AnnotationColours target = (AnnotationColours) object;\r
+ if(!target.hasAboveThreshold())\r
+ return null;\r
+ return new java.lang.Integer(target.getAboveThreshold());\r
+ }\r
+ public void setValue( java.lang.Object object, java.lang.Object value) \r
+ throws IllegalStateException, IllegalArgumentException\r
+ {\r
+ try {\r
+ AnnotationColours target = (AnnotationColours) object;\r
+ // if null, use delete method for optional primitives \r
+ if (value == null) {\r
+ target.deleteAboveThreshold();\r
+ return;\r
+ }\r
+ target.setAboveThreshold( ((java.lang.Integer)value).intValue());\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: _aboveThreshold\r
+ fieldValidator = new org.exolab.castor.xml.FieldValidator();\r
+ { //-- local scope\r
+ IntegerValidator typeValidator= new IntegerValidator();\r
+ fieldValidator.setValidator(typeValidator);\r
+ }\r
+ desc.setValidator(fieldValidator);\r
+ //-- _annotation\r
+ desc = new org.exolab.castor.xml.util.XMLFieldDescriptorImpl(java.lang.String.class, "_annotation", "annotation", org.exolab.castor.xml.NodeType.Attribute);\r
+ desc.setImmutable(true);\r
+ handler = (new org.exolab.castor.xml.XMLFieldHandler() {\r
+ public java.lang.Object getValue( java.lang.Object object ) \r
+ throws IllegalStateException\r
+ {\r
+ AnnotationColours target = (AnnotationColours) object;\r
+ return target.getAnnotation();\r
+ }\r
+ public void setValue( java.lang.Object object, java.lang.Object value) \r
+ throws IllegalStateException, IllegalArgumentException\r
+ {\r
+ try {\r
+ AnnotationColours target = (AnnotationColours) object;\r
+ target.setAnnotation( (java.lang.String) value);\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: _annotation\r
+ fieldValidator = new org.exolab.castor.xml.FieldValidator();\r
+ { //-- local scope\r
+ StringValidator typeValidator = new StringValidator();\r
+ typeValidator.setWhiteSpace("preserve");\r
+ fieldValidator.setValidator(typeValidator);\r
+ }\r
+ desc.setValidator(fieldValidator);\r
+ //-- _minColour\r
+ desc = new org.exolab.castor.xml.util.XMLFieldDescriptorImpl(java.lang.Integer.TYPE, "_minColour", "minColour", 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
+ AnnotationColours target = (AnnotationColours) object;\r
+ if(!target.hasMinColour())\r
+ return null;\r
+ return new java.lang.Integer(target.getMinColour());\r
+ }\r
+ public void setValue( java.lang.Object object, java.lang.Object value) \r
+ throws IllegalStateException, IllegalArgumentException\r
+ {\r
+ try {\r
+ AnnotationColours target = (AnnotationColours) object;\r
+ // if null, use delete method for optional primitives \r
+ if (value == null) {\r
+ target.deleteMinColour();\r
+ return;\r
+ }\r
+ target.setMinColour( ((java.lang.Integer)value).intValue());\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: _minColour\r
+ fieldValidator = new org.exolab.castor.xml.FieldValidator();\r
+ { //-- local scope\r
+ IntegerValidator typeValidator= new IntegerValidator();\r
+ fieldValidator.setValidator(typeValidator);\r
+ }\r
+ desc.setValidator(fieldValidator);\r
+ //-- _maxColour\r
+ desc = new org.exolab.castor.xml.util.XMLFieldDescriptorImpl(java.lang.Integer.TYPE, "_maxColour", "maxColour", 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
+ AnnotationColours target = (AnnotationColours) object;\r
+ if(!target.hasMaxColour())\r
+ return null;\r
+ return new java.lang.Integer(target.getMaxColour());\r
+ }\r
+ public void setValue( java.lang.Object object, java.lang.Object value) \r
+ throws IllegalStateException, IllegalArgumentException\r
+ {\r
+ try {\r
+ AnnotationColours target = (AnnotationColours) object;\r
+ // if null, use delete method for optional primitives \r
+ if (value == null) {\r
+ target.deleteMaxColour();\r
+ return;\r
+ }\r
+ target.setMaxColour( ((java.lang.Integer)value).intValue());\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: _maxColour\r
+ fieldValidator = new org.exolab.castor.xml.FieldValidator();\r
+ { //-- local scope\r
+ IntegerValidator typeValidator= new IntegerValidator();\r
+ fieldValidator.setValidator(typeValidator);\r
+ }\r
+ desc.setValidator(fieldValidator);\r
+ //-- _colourScheme\r
+ desc = new org.exolab.castor.xml.util.XMLFieldDescriptorImpl(java.lang.String.class, "_colourScheme", "colourScheme", org.exolab.castor.xml.NodeType.Attribute);\r
+ desc.setImmutable(true);\r
+ handler = (new org.exolab.castor.xml.XMLFieldHandler() {\r
+ public java.lang.Object getValue( java.lang.Object object ) \r
+ throws IllegalStateException\r
+ {\r
+ AnnotationColours target = (AnnotationColours) object;\r
+ return target.getColourScheme();\r
+ }\r
+ public void setValue( java.lang.Object object, java.lang.Object value) \r
+ throws IllegalStateException, IllegalArgumentException\r
+ {\r
+ try {\r
+ AnnotationColours target = (AnnotationColours) object;\r
+ target.setColourScheme( (java.lang.String) value);\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: _colourScheme\r
+ fieldValidator = new org.exolab.castor.xml.FieldValidator();\r
+ { //-- local scope\r
+ StringValidator typeValidator = new StringValidator();\r
+ typeValidator.setWhiteSpace("preserve");\r
+ fieldValidator.setValidator(typeValidator);\r
+ }\r
+ desc.setValidator(fieldValidator);\r
+ //-- _threshold\r
+ desc = new org.exolab.castor.xml.util.XMLFieldDescriptorImpl(float.class, "_threshold", "threshold", 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
+ AnnotationColours target = (AnnotationColours) object;\r
+ if(!target.hasThreshold())\r
+ return null;\r
+ return new java.lang.Float(target.getThreshold());\r
+ }\r
+ public void setValue( java.lang.Object object, java.lang.Object value) \r
+ throws IllegalStateException, IllegalArgumentException\r
+ {\r
+ try {\r
+ AnnotationColours target = (AnnotationColours) object;\r
+ // if null, use delete method for optional primitives \r
+ if (value == null) {\r
+ target.deleteThreshold();\r
+ return;\r
+ }\r
+ target.setThreshold( ((java.lang.Float)value).floatValue());\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: _threshold\r
+ fieldValidator = new org.exolab.castor.xml.FieldValidator();\r
+ { //-- local scope\r
+ FloatValidator typeValidator = new FloatValidator();\r
+ fieldValidator.setValidator(typeValidator);\r
+ }\r
+ desc.setValidator(fieldValidator);\r
+ //-- initialize element descriptors\r
+ \r
+ } //-- jalview.schemabinding.version2.AnnotationColoursDescriptor()\r
+\r
+\r
+ //-----------/\r
+ //- Methods -/\r
+ //-----------/\r
+\r
+ /**\r
+ * Method getAccessMode\r
+ * \r
+ * \r
+ * \r
+ * @return AccessMode\r
+ */\r
+ public org.exolab.castor.mapping.AccessMode getAccessMode()\r
+ {\r
+ return null;\r
+ } //-- org.exolab.castor.mapping.AccessMode getAccessMode() \r
+\r
+ /**\r
+ * Method getExtends\r
+ * \r
+ * \r
+ * \r
+ * @return ClassDescriptor\r
+ */\r
+ public org.exolab.castor.mapping.ClassDescriptor getExtends()\r
+ {\r
+ return null;\r
+ } //-- org.exolab.castor.mapping.ClassDescriptor getExtends() \r
+\r
+ /**\r
+ * Method getIdentity\r
+ * \r
+ * \r
+ * \r
+ * @return FieldDescriptor\r
+ */\r
+ public org.exolab.castor.mapping.FieldDescriptor getIdentity()\r
+ {\r
+ return identity;\r
+ } //-- org.exolab.castor.mapping.FieldDescriptor getIdentity() \r
+\r
+ /**\r
+ * Method getJavaClass\r
+ * \r
+ * \r
+ * \r
+ * @return Class\r
+ */\r
+ public java.lang.Class getJavaClass()\r
+ {\r
+ return jalview.schemabinding.version2.AnnotationColours.class;\r
+ } //-- java.lang.Class getJavaClass() \r
+\r
+ /**\r
+ * Method getNameSpacePrefix\r
+ * \r
+ * \r
+ * \r
+ * @return String\r
+ */\r
+ public java.lang.String getNameSpacePrefix()\r
+ {\r
+ return nsPrefix;\r
+ } //-- java.lang.String getNameSpacePrefix() \r
+\r
+ /**\r
+ * Method getNameSpaceURI\r
+ * \r
+ * \r
+ * \r
+ * @return String\r
+ */\r
+ public java.lang.String getNameSpaceURI()\r
+ {\r
+ return nsURI;\r
+ } //-- java.lang.String getNameSpaceURI() \r
+\r
+ /**\r
+ * Method getValidator\r
+ * \r
+ * \r
+ * \r
+ * @return TypeValidator\r
+ */\r
+ public org.exolab.castor.xml.TypeValidator getValidator()\r
+ {\r
+ return this;\r
+ } //-- org.exolab.castor.xml.TypeValidator getValidator() \r
+\r
+ /**\r
+ * Method getXMLName\r
+ * \r
+ * \r
+ * \r
+ * @return String\r
+ */\r
+ public java.lang.String getXMLName()\r
+ {\r
+ return xmlName;\r
+ } //-- java.lang.String getXMLName() \r
+\r
+}\r
fieldValidator.setValidator(typeValidator);\r
}\r
desc.setValidator(fieldValidator);\r
+ //-- _thresholdLine\r
+ desc = new org.exolab.castor.xml.util.XMLFieldDescriptorImpl(jalview.schemabinding.version2.ThresholdLine.class, "_thresholdLine", "thresholdLine", 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
+ Annotation target = (Annotation) object;\r
+ return target.getThresholdLine();\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
+ target.setThresholdLine( (jalview.schemabinding.version2.ThresholdLine) value);\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 new jalview.schemabinding.version2.ThresholdLine();\r
+ }\r
+ } );\r
+ desc.setHandler(handler);\r
+ desc.setNameSpaceURI("www.vamsas.ac.uk/jalview/version2");\r
+ desc.setMultivalued(false);\r
+ addFieldDescriptor(desc);\r
+ \r
+ //-- validation code for: _thresholdLine\r
+ fieldValidator = new org.exolab.castor.xml.FieldValidator();\r
+ { //-- local scope\r
+ }\r
+ desc.setValidator(fieldValidator);\r
} //-- jalview.schemabinding.version2.AnnotationDescriptor()\r
\r
\r
--- /dev/null
+/*\r
+ * This class was automatically generated with \r
+ * <a href="http://www.castor.org">Castor 0.9.6</a>, using an XML\r
+ * Schema.\r
+ * $Id$\r
+ */\r
+\r
+package jalview.schemabinding.version2;\r
+\r
+ //---------------------------------/\r
+ //- Imported classes and packages -/\r
+//---------------------------------/\r
+\r
+import java.io.IOException;\r
+import java.io.Reader;\r
+import java.io.Serializable;\r
+import java.io.Writer;\r
+import org.exolab.castor.xml.MarshalException;\r
+import org.exolab.castor.xml.Marshaller;\r
+import org.exolab.castor.xml.Unmarshaller;\r
+import org.exolab.castor.xml.ValidationException;\r
+import org.xml.sax.ContentHandler;\r
+\r
+/**\r
+ * Class ThresholdLine.\r
+ * \r
+ * @version $Revision$ $Date$\r
+ */\r
+public class ThresholdLine implements java.io.Serializable {\r
+\r
+\r
+ //--------------------------/\r
+ //- Class/Member Variables -/\r
+ //--------------------------/\r
+\r
+ /**\r
+ * Field _label\r
+ */\r
+ private java.lang.String _label;\r
+\r
+ /**\r
+ * Field _value\r
+ */\r
+ private float _value;\r
+\r
+ /**\r
+ * keeps track of state for field: _value\r
+ */\r
+ private boolean _has_value;\r
+\r
+ /**\r
+ * Field _colour\r
+ */\r
+ private int _colour;\r
+\r
+ /**\r
+ * keeps track of state for field: _colour\r
+ */\r
+ private boolean _has_colour;\r
+\r
+\r
+ //----------------/\r
+ //- Constructors -/\r
+ //----------------/\r
+\r
+ public ThresholdLine() {\r
+ super();\r
+ } //-- jalview.schemabinding.version2.ThresholdLine()\r
+\r
+\r
+ //-----------/\r
+ //- Methods -/\r
+ //-----------/\r
+\r
+ /**\r
+ * Method deleteColour\r
+ * \r
+ */\r
+ public void deleteColour()\r
+ {\r
+ this._has_colour= false;\r
+ } //-- void deleteColour() \r
+\r
+ /**\r
+ * Method deleteValue\r
+ * \r
+ */\r
+ public void deleteValue()\r
+ {\r
+ this._has_value= false;\r
+ } //-- void deleteValue() \r
+\r
+ /**\r
+ * Returns the value of field 'colour'.\r
+ * \r
+ * @return int\r
+ * @return the value of field 'colour'.\r
+ */\r
+ public int getColour()\r
+ {\r
+ return this._colour;\r
+ } //-- int getColour() \r
+\r
+ /**\r
+ * Returns the value of field 'label'.\r
+ * \r
+ * @return String\r
+ * @return the value of field 'label'.\r
+ */\r
+ public java.lang.String getLabel()\r
+ {\r
+ return this._label;\r
+ } //-- java.lang.String getLabel() \r
+\r
+ /**\r
+ * Returns the value of field 'value'.\r
+ * \r
+ * @return float\r
+ * @return the value of field 'value'.\r
+ */\r
+ public float getValue()\r
+ {\r
+ return this._value;\r
+ } //-- float getValue() \r
+\r
+ /**\r
+ * Method hasColour\r
+ * \r
+ * \r
+ * \r
+ * @return boolean\r
+ */\r
+ public boolean hasColour()\r
+ {\r
+ return this._has_colour;\r
+ } //-- boolean hasColour() \r
+\r
+ /**\r
+ * Method hasValue\r
+ * \r
+ * \r
+ * \r
+ * @return boolean\r
+ */\r
+ public boolean hasValue()\r
+ {\r
+ return this._has_value;\r
+ } //-- boolean hasValue() \r
+\r
+ /**\r
+ * Method isValid\r
+ * \r
+ * \r
+ * \r
+ * @return boolean\r
+ */\r
+ public boolean isValid()\r
+ {\r
+ try {\r
+ validate();\r
+ }\r
+ catch (org.exolab.castor.xml.ValidationException vex) {\r
+ return false;\r
+ }\r
+ return true;\r
+ } //-- boolean isValid() \r
+\r
+ /**\r
+ * Method marshal\r
+ * \r
+ * \r
+ * \r
+ * @param out\r
+ */\r
+ public void marshal(java.io.Writer out)\r
+ throws org.exolab.castor.xml.MarshalException, org.exolab.castor.xml.ValidationException\r
+ {\r
+ \r
+ Marshaller.marshal(this, out);\r
+ } //-- void marshal(java.io.Writer) \r
+\r
+ /**\r
+ * Method marshal\r
+ * \r
+ * \r
+ * \r
+ * @param handler\r
+ */\r
+ public void marshal(org.xml.sax.ContentHandler handler)\r
+ throws java.io.IOException, org.exolab.castor.xml.MarshalException, org.exolab.castor.xml.ValidationException\r
+ {\r
+ \r
+ Marshaller.marshal(this, handler);\r
+ } //-- void marshal(org.xml.sax.ContentHandler) \r
+\r
+ /**\r
+ * Sets the value of field 'colour'.\r
+ * \r
+ * @param colour the value of field 'colour'.\r
+ */\r
+ public void setColour(int colour)\r
+ {\r
+ this._colour = colour;\r
+ this._has_colour = true;\r
+ } //-- void setColour(int) \r
+\r
+ /**\r
+ * Sets the value of field 'label'.\r
+ * \r
+ * @param label the value of field 'label'.\r
+ */\r
+ public void setLabel(java.lang.String label)\r
+ {\r
+ this._label = label;\r
+ } //-- void setLabel(java.lang.String) \r
+\r
+ /**\r
+ * Sets the value of field 'value'.\r
+ * \r
+ * @param value the value of field 'value'.\r
+ */\r
+ public void setValue(float value)\r
+ {\r
+ this._value = value;\r
+ this._has_value = true;\r
+ } //-- void setValue(float) \r
+\r
+ /**\r
+ * Method unmarshal\r
+ * \r
+ * \r
+ * \r
+ * @param reader\r
+ * @return Object\r
+ */\r
+ public static java.lang.Object unmarshal(java.io.Reader reader)\r
+ throws org.exolab.castor.xml.MarshalException, org.exolab.castor.xml.ValidationException\r
+ {\r
+ return (jalview.schemabinding.version2.ThresholdLine) Unmarshaller.unmarshal(jalview.schemabinding.version2.ThresholdLine.class, reader);\r
+ } //-- java.lang.Object unmarshal(java.io.Reader) \r
+\r
+ /**\r
+ * Method validate\r
+ * \r
+ */\r
+ public void validate()\r
+ throws org.exolab.castor.xml.ValidationException\r
+ {\r
+ org.exolab.castor.xml.Validator validator = new org.exolab.castor.xml.Validator();\r
+ validator.validate(this);\r
+ } //-- void validate() \r
+\r
+}\r
--- /dev/null
+/*\r
+ * This class was automatically generated with \r
+ * <a href="http://www.castor.org">Castor 0.9.6</a>, using an XML\r
+ * Schema.\r
+ * $Id$\r
+ */\r
+\r
+package jalview.schemabinding.version2;\r
+\r
+ //---------------------------------/\r
+ //- Imported classes and packages -/\r
+//---------------------------------/\r
+\r
+import org.exolab.castor.mapping.AccessMode;\r
+import org.exolab.castor.xml.TypeValidator;\r
+import org.exolab.castor.xml.XMLFieldDescriptor;\r
+import org.exolab.castor.xml.validators.*;\r
+\r
+/**\r
+ * Class ThresholdLineDescriptor.\r
+ * \r
+ * @version $Revision$ $Date$\r
+ */\r
+public class ThresholdLineDescriptor extends org.exolab.castor.xml.util.XMLClassDescriptorImpl {\r
+\r
+\r
+ //--------------------------/\r
+ //- Class/Member Variables -/\r
+ //--------------------------/\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
+ * Field identity\r
+ */\r
+ private org.exolab.castor.xml.XMLFieldDescriptor identity;\r
+\r
+\r
+ //----------------/\r
+ //- Constructors -/\r
+ //----------------/\r
+\r
+ public ThresholdLineDescriptor() {\r
+ super();\r
+ nsURI = "www.vamsas.ac.uk/jalview/version2";\r
+ xmlName = "thresholdLine";\r
+ org.exolab.castor.xml.util.XMLFieldDescriptorImpl desc = null;\r
+ org.exolab.castor.xml.XMLFieldHandler handler = null;\r
+ org.exolab.castor.xml.FieldValidator fieldValidator = null;\r
+ //-- initialize attribute descriptors\r
+ \r
+ //-- _label\r
+ desc = new org.exolab.castor.xml.util.XMLFieldDescriptorImpl(java.lang.String.class, "_label", "label", org.exolab.castor.xml.NodeType.Attribute);\r
+ desc.setImmutable(true);\r
+ handler = (new org.exolab.castor.xml.XMLFieldHandler() {\r
+ public java.lang.Object getValue( java.lang.Object object ) \r
+ throws IllegalStateException\r
+ {\r
+ ThresholdLine target = (ThresholdLine) object;\r
+ return target.getLabel();\r
+ }\r
+ public void setValue( java.lang.Object object, java.lang.Object value) \r
+ throws IllegalStateException, IllegalArgumentException\r
+ {\r
+ try {\r
+ ThresholdLine target = (ThresholdLine) object;\r
+ target.setLabel( (java.lang.String) value);\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: _label\r
+ fieldValidator = new org.exolab.castor.xml.FieldValidator();\r
+ { //-- local scope\r
+ StringValidator typeValidator = new StringValidator();\r
+ typeValidator.setWhiteSpace("preserve");\r
+ fieldValidator.setValidator(typeValidator);\r
+ }\r
+ desc.setValidator(fieldValidator);\r
+ //-- _value\r
+ desc = new org.exolab.castor.xml.util.XMLFieldDescriptorImpl(float.class, "_value", "value", 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
+ ThresholdLine target = (ThresholdLine) object;\r
+ if(!target.hasValue())\r
+ return null;\r
+ return new java.lang.Float(target.getValue());\r
+ }\r
+ public void setValue( java.lang.Object object, java.lang.Object value) \r
+ throws IllegalStateException, IllegalArgumentException\r
+ {\r
+ try {\r
+ ThresholdLine target = (ThresholdLine) object;\r
+ // if null, use delete method for optional primitives \r
+ if (value == null) {\r
+ target.deleteValue();\r
+ return;\r
+ }\r
+ target.setValue( ((java.lang.Float)value).floatValue());\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: _value\r
+ fieldValidator = new org.exolab.castor.xml.FieldValidator();\r
+ { //-- local scope\r
+ FloatValidator typeValidator = new FloatValidator();\r
+ fieldValidator.setValidator(typeValidator);\r
+ }\r
+ desc.setValidator(fieldValidator);\r
+ //-- _colour\r
+ desc = new org.exolab.castor.xml.util.XMLFieldDescriptorImpl(java.lang.Integer.TYPE, "_colour", "colour", 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
+ ThresholdLine target = (ThresholdLine) object;\r
+ if(!target.hasColour())\r
+ return null;\r
+ return new java.lang.Integer(target.getColour());\r
+ }\r
+ public void setValue( java.lang.Object object, java.lang.Object value) \r
+ throws IllegalStateException, IllegalArgumentException\r
+ {\r
+ try {\r
+ ThresholdLine target = (ThresholdLine) object;\r
+ // if null, use delete method for optional primitives \r
+ if (value == null) {\r
+ target.deleteColour();\r
+ return;\r
+ }\r
+ target.setColour( ((java.lang.Integer)value).intValue());\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: _colour\r
+ fieldValidator = new org.exolab.castor.xml.FieldValidator();\r
+ { //-- local scope\r
+ IntegerValidator typeValidator= new IntegerValidator();\r
+ fieldValidator.setValidator(typeValidator);\r
+ }\r
+ desc.setValidator(fieldValidator);\r
+ //-- initialize element descriptors\r
+ \r
+ } //-- jalview.schemabinding.version2.ThresholdLineDescriptor()\r
+\r
+\r
+ //-----------/\r
+ //- Methods -/\r
+ //-----------/\r
+\r
+ /**\r
+ * Method getAccessMode\r
+ * \r
+ * \r
+ * \r
+ * @return AccessMode\r
+ */\r
+ public org.exolab.castor.mapping.AccessMode getAccessMode()\r
+ {\r
+ return null;\r
+ } //-- org.exolab.castor.mapping.AccessMode getAccessMode() \r
+\r
+ /**\r
+ * Method getExtends\r
+ * \r
+ * \r
+ * \r
+ * @return ClassDescriptor\r
+ */\r
+ public org.exolab.castor.mapping.ClassDescriptor getExtends()\r
+ {\r
+ return null;\r
+ } //-- org.exolab.castor.mapping.ClassDescriptor getExtends() \r
+\r
+ /**\r
+ * Method getIdentity\r
+ * \r
+ * \r
+ * \r
+ * @return FieldDescriptor\r
+ */\r
+ public org.exolab.castor.mapping.FieldDescriptor getIdentity()\r
+ {\r
+ return identity;\r
+ } //-- org.exolab.castor.mapping.FieldDescriptor getIdentity() \r
+\r
+ /**\r
+ * Method getJavaClass\r
+ * \r
+ * \r
+ * \r
+ * @return Class\r
+ */\r
+ public java.lang.Class getJavaClass()\r
+ {\r
+ return jalview.schemabinding.version2.ThresholdLine.class;\r
+ } //-- java.lang.Class getJavaClass() \r
+\r
+ /**\r
+ * Method getNameSpacePrefix\r
+ * \r
+ * \r
+ * \r
+ * @return String\r
+ */\r
+ public java.lang.String getNameSpacePrefix()\r
+ {\r
+ return nsPrefix;\r
+ } //-- java.lang.String getNameSpacePrefix() \r
+\r
+ /**\r
+ * Method getNameSpaceURI\r
+ * \r
+ * \r
+ * \r
+ * @return String\r
+ */\r
+ public java.lang.String getNameSpaceURI()\r
+ {\r
+ return nsURI;\r
+ } //-- java.lang.String getNameSpaceURI() \r
+\r
+ /**\r
+ * Method getValidator\r
+ * \r
+ * \r
+ * \r
+ * @return TypeValidator\r
+ */\r
+ public org.exolab.castor.xml.TypeValidator getValidator()\r
+ {\r
+ return this;\r
+ } //-- org.exolab.castor.xml.TypeValidator getValidator() \r
+\r
+ /**\r
+ * Method getXMLName\r
+ * \r
+ * \r
+ * \r
+ * @return String\r
+ */\r
+ public java.lang.String getXMLName()\r
+ {\r
+ return xmlName;\r
+ } //-- java.lang.String getXMLName() \r
+\r
+}\r
*/\r
private boolean _has_fontStyle;\r
\r
+ /**\r
+ * Field _annotationColours\r
+ */\r
+ private jalview.schemabinding.version2.AnnotationColours _annotationColours;\r
+\r
\r
//----------------/\r
//- Constructors -/\r
} //-- void deleteYpos() \r
\r
/**\r
+ * Returns the value of field 'annotationColours'.\r
+ * \r
+ * @return AnnotationColours\r
+ * @return the value of field 'annotationColours'.\r
+ */\r
+ public jalview.schemabinding.version2.AnnotationColours getAnnotationColours()\r
+ {\r
+ return this._annotationColours;\r
+ } //-- jalview.schemabinding.version2.AnnotationColours getAnnotationColours() \r
+\r
+ /**\r
* Returns the value of field 'bgColour'.\r
* \r
* @return String\r
} //-- void marshal(org.xml.sax.ContentHandler) \r
\r
/**\r
+ * Sets the value of field 'annotationColours'.\r
+ * \r
+ * @param annotationColours the value of field\r
+ * 'annotationColours'.\r
+ */\r
+ public void setAnnotationColours(jalview.schemabinding.version2.AnnotationColours annotationColours)\r
+ {\r
+ this._annotationColours = annotationColours;\r
+ } //-- void setAnnotationColours(jalview.schemabinding.version2.AnnotationColours) \r
+\r
+ /**\r
* Sets the value of field 'bgColour'.\r
* \r
* @param bgColour the value of field 'bgColour'.\r
super();\r
nsURI = "www.jalview.org";\r
xmlName = "Viewport";\r
+ \r
+ //-- set grouping compositor\r
+ setCompositorAsSequence();\r
org.exolab.castor.xml.util.XMLFieldDescriptorImpl desc = null;\r
org.exolab.castor.xml.XMLFieldHandler handler = null;\r
org.exolab.castor.xml.FieldValidator fieldValidator = null;\r
desc.setValidator(fieldValidator);\r
//-- initialize element descriptors\r
\r
+ //-- _annotationColours\r
+ desc = new org.exolab.castor.xml.util.XMLFieldDescriptorImpl(jalview.schemabinding.version2.AnnotationColours.class, "_annotationColours", "AnnotationColours", 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
+ Viewport target = (Viewport) object;\r
+ return target.getAnnotationColours();\r
+ }\r
+ public void setValue( java.lang.Object object, java.lang.Object value) \r
+ throws IllegalStateException, IllegalArgumentException\r
+ {\r
+ try {\r
+ Viewport target = (Viewport) object;\r
+ target.setAnnotationColours( (jalview.schemabinding.version2.AnnotationColours) value);\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 new jalview.schemabinding.version2.AnnotationColours();\r
+ }\r
+ } );\r
+ desc.setHandler(handler);\r
+ desc.setNameSpaceURI("www.jalview.org");\r
+ desc.setMultivalued(false);\r
+ addFieldDescriptor(desc);\r
+ \r
+ //-- validation code for: _annotationColours\r
+ fieldValidator = new org.exolab.castor.xml.FieldValidator();\r
+ { //-- local scope\r
+ }\r
+ desc.setValidator(fieldValidator);\r
} //-- jalview.schemabinding.version2.ViewportDescriptor()\r
\r
\r
git://source.jalview.org / jalview.git / commitdiff