--- /dev/null
+#\r
+# Property file for SourceCodeGenerator\r
+#\r
+# $Id$\r
+\r
+# To enable bound properties uncomment the following line. Please\r
+# note that currently *all* fields will be treated as bound properties\r
+# when enabled. This will change in the future when we introduce\r
+# fine grained control over each class and it's properties.\r
+#\r
+#org.exolab.castor.builder.boundproperties=true\r
+\r
+# Java class mapping of <xsd:element>'s and <xsd:complexType>'s \r
+#\r
+#org.exolab.castor.builder.javaclassmapping=element\r
+\r
+# This property allows one to specify the super class of *all* \r
+# generated classes\r
+#\r
+#org.exolab.castor.builder.superclass=com.xyz.BaseObject\r
+\r
+# XML namespace mapping to Java packages\r
+#\r
+#org.exolab.castor.builder.nspackages=\\r
+ http://www.xyz.com/schemas/project=com.xyz.schemas.project,\\r
+ http://www.xyz.com/schemas/person=com.xyz.schemas.person\r
+\r
+# Set to true if you want to generate the equals method\r
+# for each generated class\r
+# false by default\r
+#\r
+#org.exolab.castor.builder.equalsmethod=true\r
+\r
+# Set to true if you want to use Object Wrappers instead\r
+# of primitives (e.g Float instead of float).\r
+# false by default.\r
+#\r
+#org.exolab.castor.builder.primitivetowrapper=false\r
+\r
+# Set to true if you want the generated class descriptors to\r
+# expose the element and attribute names they contain.\r
+# false by default.\r
+#\r
+#org.exolab.castor.builder.classdescfieldnames=false\r
+\r
+# Set to true if you want the generated source code to contain\r
+# Extra methods for the collection fields, such as get/set using\r
+# the collection type in addition to the type-safe array.\r
+# Set this to true if you want your code to be more compatible \r
+# with Castor JDO. This is false by default.\r
+#\r
+#org.exolab.castor.builder.extraCollectionMethods=true\r
+\r
+# Use old-style (Castor 0.9.3.9) of naming that uppercases\r
+# names after an underscore\r
+#\r
+#org.exolab.castor.xml.JavaNaming.upperCaseAfterUnderscore=true\r
+\r
+# This property specifies whether generated enumerated type\r
+# classes implement the EnumeratedTypeAccess interface.\r
+# false by default\r
+#org.exolab.castor.builder.enumTypeAccessInterface=true\r
+\r
-<?xml version="1.0" encoding="UTF-8"?>\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="version" type="xs:string"/>\r
- <xs:element name="vamsasModel" type="vamsas:VAMSAS"/>\r
- <xs:sequence>\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" minOccurs="0" maxOccurs="unbounded">\r
- <xs:complexType>\r
- <xs:complexContent>\r
- <xs:extension base="jv:pdbentry">\r
- <xs:sequence>\r
- <xs:element name="structureState" minOccurs="0" maxOccurs="unbounded">\r
- <xs:complexType>\r
- <xs:simpleContent>\r
- <xs:extension base="xs:string">\r
- <xs:attribute name="visible" type="xs:boolean"/>\r
- <xs:attribute name="xpos" type="xs:int"/>\r
- <xs:attribute name="ypos" type="xs:int"/>\r
- <xs:attribute name="width" type="xs:int"/>\r
- <xs:attribute name="height" type="xs:int"/>\r
- </xs:extension>\r
- </xs:simpleContent>\r
- </xs:complexType>\r
- </xs:element>\r
- </xs:sequence>\r
- </xs:extension>\r
- </xs:complexContent>\r
- </xs:complexType>\r
- </xs:element>\r
- <xs:element name="hiddenSequences" type="xs:int" 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:attribute name="hidden" type="xs:boolean"/>\r
- </xs:complexType>\r
- </xs:element>\r
- <xs:element name="JGroup" minOccurs="0" maxOccurs="unbounded">\r
- <xs:complexType>\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:attribute name="name" type="xs:string"/>\r
- <xs:attribute name="colour" type="xs:string"/>\r
- <xs:attribute name="consThreshold" type="xs:int"/>\r
- <xs:attribute name="pidThreshold" type="xs:int"/>\r
- <xs:attribute name="outlineColour" type="xs:int"/>\r
- <xs:attribute name="displayBoxes" type="xs:boolean"/>\r
- <xs:attribute name="displayText" type="xs:boolean"/>\r
- <xs:attribute name="colourText" type="xs:boolean"/>\r
- <xs:attribute name="textCol1" type="xs:int"/>\r
- <xs:attribute name="textCol2" type="xs:int"/>\r
- <xs:attribute name="textColThreshold" type="xs:int"/>\r
- </xs:complexType>\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:element name="hiddenColumns" minOccurs="0" maxOccurs="unbounded">\r
- <xs:complexType>\r
- <xs:attribute name="start" type="xs:int"/>\r
- <xs:attribute name="end" type="xs:int"/>\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:attribute name="consThreshold" type="xs:int"/>\r
- <xs:attribute name="pidThreshold" type="xs:int"/>\r
- <xs:attribute name="title" type="xs:string"/>\r
- <xs:attribute name="showFullId" type="xs:boolean"/>\r
- <xs:attribute name="rightAlignIds" type="xs:boolean"/>\r
- <xs:attribute name="showText" type="xs:boolean"/>\r
- <xs:attribute name="showColourText" type="xs:boolean"/>\r
- <xs:attribute name="showBoxes" type="xs:boolean"/>\r
- <xs:attribute name="wrapAlignment" type="xs:boolean"/>\r
- <xs:attribute name="renderGaps" type="xs:boolean"/>\r
- <xs:attribute name="showSequenceFeatures" type="xs:boolean"/>\r
- <xs:attribute name="showAnnotation" type="xs:boolean"/>\r
- <xs:attribute name="xpos" type="xs:int"/>\r
- <xs:attribute name="ypos" type="xs:int"/>\r
- <xs:attribute name="width" type="xs:int"/>\r
- <xs:attribute name="height" type="xs:int"/>\r
- <xs:attribute name="startRes" type="xs:int"/>\r
- <xs:attribute name="startSeq" type="xs:int"/>\r
- <xs:attribute name="fontName" type="xs:string"/>\r
- <xs:attribute name="fontSize" type="xs:int"/>\r
- <xs:attribute name="fontStyle" type="xs:int"/>\r
- <xs:attribute name="viewName" type="xs:string"/>\r
- <xs:attribute name="sequenceSetId" type="xs:string"/>\r
- <xs:attribute name="gatheredViews" type="xs:boolean"/>\r
- <xs:attribute name="textCol1" type="xs:int"/>\r
- <xs:attribute name="textCol2" type="xs:int"/>\r
- <xs:attribute name="textColThreshold" type="xs:int"/>\r
- </xs:complexType>\r
- </xs:element>\r
- <xs:element name="UserColours" minOccurs="0" maxOccurs="unbounded">\r
- <xs:complexType>\r
- <xs:sequence>\r
- <xs:element name="UserColourScheme" type="jalview:JalviewUserColours"/>\r
- </xs:sequence>\r
- <xs:attribute name="id" type="xs:string"/>\r
- </xs:complexType>\r
- </xs:element>\r
- <xs:element name="tree" minOccurs="0" maxOccurs="unbounded">\r
- <xs:complexType>\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="width" type="xs:int"/>\r
- <xs:attribute name="height" type="xs:int"/>\r
- <xs:attribute name="xpos" type="xs:int"/>\r
- <xs:attribute name="ypos" type="xs:int"/>\r
- <xs:attribute name="fontName" type="xs:string"/>\r
- <xs:attribute name="fontSize" type="xs:int"/>\r
- <xs:attribute name="fontStyle" type="xs:int"/>\r
- <xs:attribute name="threshold" type="xs:float"/>\r
- <xs:attribute name="showBootstrap" type="xs:boolean"/>\r
- <xs:attribute name="showDistances" type="xs:boolean"/>\r
- <xs:attribute name="markUnlinked" type="xs:boolean"/>\r
- <xs:attribute name="fitToWindow" type="xs:boolean"/>\r
- <xs:attribute name="currentTree" type="xs:boolean"/>\r
- </xs:complexType>\r
- </xs:element>\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
- </xs:sequence>\r
- </xs:sequence>\r
- </xs:complexType>\r
- <xs:complexType name="feature">\r
- <xs:sequence>\r
- <xs:element name="otherData" minOccurs="0" maxOccurs="unbounded">\r
- <xs:complexType>\r
- <xs:attribute name="key" type="xs:string" use="required"/>\r
- <xs:attribute name="value" type="xs:string" use="required"/>\r
- </xs:complexType>\r
- </xs:element>\r
- </xs:sequence>\r
- <xs:attribute name="begin" type="xs:int" use="required"/>\r
- <xs:attribute name="end" type="xs:int" use="required"/>\r
- <xs:attribute name="type" type="xs:string" use="required"/>\r
- <xs:attribute name="description" type="xs:string" use="optional"/>\r
- <xs:attribute name="status" type="xs:string" use="optional"/>\r
- <xs:attribute name="featureGroup" type="xs:string" use="optional"/>\r
- <xs:attribute name="score" type="xs:float" use="optional"/>\r
- </xs:complexType>\r
- <xs:complexType name="pdbentry">\r
- <xs:sequence minOccurs="0" maxOccurs="unbounded">\r
- <xs:element name="property" minOccurs="0" maxOccurs="unbounded">\r
- <xs:complexType>\r
- <xs:attribute name="name" type="xs:string" use="required"/>\r
- <xs:attribute name="value" type="xs:string" use="required"/>\r
- </xs:complexType>\r
- </xs:element>\r
- </xs:sequence>\r
- <xs:attribute name="id" type="xs:string" use="required"/>\r
- <xs:attribute name="type" type="xs:string" use="optional"/>\r
- <xs:attribute name="file" type="xs:string"/>\r
- </xs:complexType>\r
-</xs:schema>\r
+<?xml version="1.0" encoding="UTF-8"?>
+<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">
+ <xs:import namespace="www.vamsas.ac.uk/jalview/version2" schemaLocation="vamsas.xsd"/>
+ <xs:import namespace="www.jalview.org/colours" schemaLocation="JalviewUserColours.xsd"/>
+ <xs:complexType name="JalviewModel">
+ <xs:sequence>
+ <xs:element name="creationDate" type="xs:dateTime"/>
+ <xs:element name="version" type="xs:string"/>
+ <xs:element name="vamsasModel" type="vamsas:VAMSAS"/>
+ <xs:sequence>
+ <xs:element name="JSeq" maxOccurs="unbounded">
+ <xs:complexType>
+ <xs:sequence>
+ <xs:element name="features" type="jv:feature" minOccurs="0" maxOccurs="unbounded"/>
+ <xs:element name="pdbids" minOccurs="0" maxOccurs="unbounded">
+ <xs:complexType>
+ <xs:complexContent>
+ <xs:extension base="jv:pdbentry">
+ <xs:sequence>
+ <xs:element name="structureState" minOccurs="0" maxOccurs="unbounded">
+ <xs:complexType>
+ <xs:simpleContent>
+ <xs:extension base="xs:string">
+ <xs:attribute name="visible" type="xs:boolean"/>
+ <xs:attribute name="xpos" type="xs:int"/>
+ <xs:attribute name="ypos" type="xs:int"/>
+ <xs:attribute name="width" type="xs:int"/>
+ <xs:attribute name="height" type="xs:int"/>
+ </xs:extension>
+ </xs:simpleContent>
+ </xs:complexType>
+ </xs:element>
+ </xs:sequence>
+ </xs:extension>
+ </xs:complexContent>
+ </xs:complexType>
+ </xs:element>
+ <xs:element name="hiddenSequences" type="xs:int" minOccurs="0" maxOccurs="unbounded"/>
+ </xs:sequence>
+ <xs:attribute name="colour" type="xs:int" use="optional"/>
+ <xs:attribute name="start" type="xs:int" use="required"/>
+ <xs:attribute name="end" type="xs:int" use="required"/>
+ <xs:attribute name="id" type="xs:int" use="required"/>
+ <xs:attribute name="hidden" type="xs:boolean"/>
+ </xs:complexType>
+ </xs:element>
+ <xs:element name="JGroup" minOccurs="0" maxOccurs="unbounded">
+ <xs:complexType>
+ <xs:sequence>
+ <xs:element name="seq" type="xs:int" maxOccurs="unbounded"/>
+ </xs:sequence>
+ <xs:attribute name="start" type="xs:int"/>
+ <xs:attribute name="end" type="xs:int"/>
+ <xs:attribute name="name" type="xs:string"/>
+ <xs:attribute name="colour" type="xs:string"/>
+ <xs:attribute name="consThreshold" type="xs:int"/>
+ <xs:attribute name="pidThreshold" type="xs:int"/>
+ <xs:attribute name="outlineColour" type="xs:int"/>
+ <xs:attribute name="displayBoxes" type="xs:boolean"/>
+ <xs:attribute name="displayText" type="xs:boolean"/>
+ <xs:attribute name="colourText" type="xs:boolean"/>
+ <xs:attribute name="textCol1" type="xs:int"/>
+ <xs:attribute name="textCol2" type="xs:int"/>
+ <xs:attribute name="textColThreshold" type="xs:int"/>
+ </xs:complexType>
+ </xs:element>
+ <xs:element name="Viewport" maxOccurs="unbounded">
+ <xs:complexType>
+ <xs:sequence>
+ <xs:element name="AnnotationColours" minOccurs="0">
+ <xs:complexType>
+ <xs:attribute name="aboveThreshold" type="xs:int"/>
+ <xs:attribute name="annotation" type="xs:string"/>
+ <xs:attribute name="minColour" type="xs:int"/>
+ <xs:attribute name="maxColour" type="xs:int"/>
+ <xs:attribute name="colourScheme" type="xs:string"/>
+ <xs:attribute name="threshold" type="xs:float"/>
+ </xs:complexType>
+ </xs:element>
+ <xs:element name="hiddenColumns" minOccurs="0" maxOccurs="unbounded">
+ <xs:complexType>
+ <xs:attribute name="start" type="xs:int"/>
+ <xs:attribute name="end" type="xs:int"/>
+ </xs:complexType>
+ </xs:element>
+ </xs:sequence>
+ <xs:attribute name="conservationSelected" type="xs:boolean"/>
+ <xs:attribute name="pidSelected" type="xs:boolean"/>
+ <xs:attribute name="bgColour" type="xs:string"/>
+ <xs:attribute name="consThreshold" type="xs:int"/>
+ <xs:attribute name="pidThreshold" type="xs:int"/>
+ <xs:attribute name="title" type="xs:string"/>
+ <xs:attribute name="showFullId" type="xs:boolean"/>
+ <xs:attribute name="rightAlignIds" type="xs:boolean"/>
+ <xs:attribute name="showText" type="xs:boolean"/>
+ <xs:attribute name="showColourText" type="xs:boolean"/>
+ <xs:attribute name="showBoxes" type="xs:boolean"/>
+ <xs:attribute name="wrapAlignment" type="xs:boolean"/>
+ <xs:attribute name="renderGaps" type="xs:boolean"/>
+ <xs:attribute name="showSequenceFeatures" type="xs:boolean"/>
+ <xs:attribute name="showAnnotation" type="xs:boolean"/>
+ <xs:attribute name="xpos" type="xs:int"/>
+ <xs:attribute name="ypos" type="xs:int"/>
+ <xs:attribute name="width" type="xs:int"/>
+ <xs:attribute name="height" type="xs:int"/>
+ <xs:attribute name="startRes" type="xs:int"/>
+ <xs:attribute name="startSeq" type="xs:int"/>
+ <xs:attribute name="fontName" type="xs:string"/>
+ <xs:attribute name="fontSize" type="xs:int"/>
+ <xs:attribute name="fontStyle" type="xs:int"/>
+ <xs:attribute name="viewName" type="xs:string"/>
+ <xs:attribute name="sequenceSetId" type="xs:string"/>
+ <xs:attribute name="gatheredViews" type="xs:boolean"/>
+ <xs:attribute name="textCol1" type="xs:int"/>
+ <xs:attribute name="textCol2" type="xs:int"/>
+ <xs:attribute name="textColThreshold" type="xs:int"/>
+ </xs:complexType>
+ </xs:element>
+ <xs:element name="UserColours" minOccurs="0" maxOccurs="unbounded">
+ <xs:complexType>
+ <xs:sequence>
+ <xs:element name="UserColourScheme" type="jalview:JalviewUserColours"/>
+ </xs:sequence>
+ <xs:attribute name="id" type="xs:string"/>
+ </xs:complexType>
+ </xs:element>
+ <xs:element name="tree" minOccurs="0" maxOccurs="unbounded">
+ <xs:complexType>
+ <xs:sequence minOccurs="0">
+ <xs:element name="title" type="xs:string"/>
+ <xs:element name="newick" type="xs:string"/>
+ </xs:sequence>
+ <xs:attribute name="width" type="xs:int"/>
+ <xs:attribute name="height" type="xs:int"/>
+ <xs:attribute name="xpos" type="xs:int"/>
+ <xs:attribute name="ypos" type="xs:int"/>
+ <xs:attribute name="fontName" type="xs:string"/>
+ <xs:attribute name="fontSize" type="xs:int"/>
+ <xs:attribute name="fontStyle" type="xs:int"/>
+ <xs:attribute name="threshold" type="xs:float"/>
+ <xs:attribute name="showBootstrap" type="xs:boolean"/>
+ <xs:attribute name="showDistances" type="xs:boolean"/>
+ <xs:attribute name="markUnlinked" type="xs:boolean"/>
+ <xs:attribute name="fitToWindow" type="xs:boolean"/>
+ <xs:attribute name="currentTree" type="xs:boolean"/>
+ </xs:complexType>
+ </xs:element>
+ <xs:element name="FeatureSettings" minOccurs="0">
+ <xs:complexType>
+ <xs:sequence>
+ <xs:element name="setting" minOccurs="0" maxOccurs="unbounded">
+ <xs:complexType>
+ <xs:attribute name="type" type="xs:string" use="required"/>
+ <xs:attribute name="colour" type="xs:int" use="required"/>
+ <xs:attribute name="display" type="xs:boolean" use="required"/>
+ <xs:attribute name="order" type="xs:float" use="optional"/>
+ </xs:complexType>
+ </xs:element>
+ <xs:element name="group" minOccurs="0" maxOccurs="unbounded">
+ <xs:complexType>
+ <xs:attribute name="name" type="xs:string" use="required"/>
+ <xs:attribute name="display" type="xs:boolean" use="required"/>
+ </xs:complexType>
+ </xs:element>
+ </xs:sequence>
+ </xs:complexType>
+ </xs:element>
+ </xs:sequence>
+ </xs:sequence>
+ </xs:complexType>
+ <xs:complexType name="feature">
+ <xs:sequence>
+ <xs:element name="otherData" minOccurs="0" maxOccurs="unbounded">
+ <xs:complexType>
+ <xs:attribute name="key" type="xs:string" use="required"/>
+ <xs:attribute name="value" type="xs:string" use="required"/>
+ </xs:complexType>
+ </xs:element>
+ </xs:sequence>
+ <xs:attribute name="begin" type="xs:int" use="required"/>
+ <xs:attribute name="end" type="xs:int" use="required"/>
+ <xs:attribute name="type" type="xs:string" use="required"/>
+ <xs:attribute name="description" type="xs:string" use="optional"/>
+ <xs:attribute name="status" type="xs:string" use="optional"/>
+ <xs:attribute name="featureGroup" type="xs:string" use="optional"/>
+ <xs:attribute name="score" type="xs:float" use="optional"/>
+ </xs:complexType>
+ <xs:complexType name="pdbentry">
+ <xs:sequence minOccurs="0" maxOccurs="unbounded">
+ <xs:element name="property" minOccurs="0" maxOccurs="unbounded">
+ <xs:complexType>
+ <xs:attribute name="name" type="xs:string" use="required"/>
+ <xs:attribute name="value" type="xs:string" use="required"/>
+ </xs:complexType>
+ </xs:element>
+ </xs:sequence>
+ <xs:attribute name="id" type="xs:string" use="required"/>
+ <xs:attribute name="type" type="xs:string" use="optional"/>
+ <xs:attribute name="file" type="xs:string"/>
+ </xs:complexType>
+</xs:schema>
*/\r
private java.util.Vector _settingList;\r
\r
+ /**\r
+ * Field _groupList\r
+ */\r
+ private java.util.Vector _groupList;\r
+\r
\r
//----------------/\r
//- Constructors -/\r
public FeatureSettings() {\r
super();\r
_settingList = new Vector();\r
+ _groupList = new Vector();\r
} //-- jalview.schemabinding.version2.FeatureSettings()\r
\r
\r
//-----------/\r
\r
/**\r
+ * Method addGroup\r
+ * \r
+ * \r
+ * \r
+ * @param vGroup\r
+ */\r
+ public void addGroup(jalview.schemabinding.version2.Group vGroup)\r
+ throws java.lang.IndexOutOfBoundsException\r
+ {\r
+ _groupList.addElement(vGroup);\r
+ } //-- void addGroup(jalview.schemabinding.version2.Group) \r
+\r
+ /**\r
+ * Method addGroup\r
+ * \r
+ * \r
+ * \r
+ * @param index\r
+ * @param vGroup\r
+ */\r
+ public void addGroup(int index, jalview.schemabinding.version2.Group vGroup)\r
+ throws java.lang.IndexOutOfBoundsException\r
+ {\r
+ _groupList.insertElementAt(vGroup, index);\r
+ } //-- void addGroup(int, jalview.schemabinding.version2.Group) \r
+\r
+ /**\r
* Method addSetting\r
* \r
* \r
} //-- void addSetting(int, jalview.schemabinding.version2.Setting) \r
\r
/**\r
+ * Method enumerateGroup\r
+ * \r
+ * \r
+ * \r
+ * @return Enumeration\r
+ */\r
+ public java.util.Enumeration enumerateGroup()\r
+ {\r
+ return _groupList.elements();\r
+ } //-- java.util.Enumeration enumerateGroup() \r
+\r
+ /**\r
* Method enumerateSetting\r
* \r
* \r
} //-- java.util.Enumeration enumerateSetting() \r
\r
/**\r
+ * Method getGroup\r
+ * \r
+ * \r
+ * \r
+ * @param index\r
+ * @return Group\r
+ */\r
+ public jalview.schemabinding.version2.Group getGroup(int index)\r
+ throws java.lang.IndexOutOfBoundsException\r
+ {\r
+ //-- check bounds for index\r
+ if ((index < 0) || (index > _groupList.size())) {\r
+ throw new IndexOutOfBoundsException();\r
+ }\r
+ \r
+ return (jalview.schemabinding.version2.Group) _groupList.elementAt(index);\r
+ } //-- jalview.schemabinding.version2.Group getGroup(int) \r
+\r
+ /**\r
+ * Method getGroup\r
+ * \r
+ * \r
+ * \r
+ * @return Group\r
+ */\r
+ public jalview.schemabinding.version2.Group[] getGroup()\r
+ {\r
+ int size = _groupList.size();\r
+ jalview.schemabinding.version2.Group[] mArray = new jalview.schemabinding.version2.Group[size];\r
+ for (int index = 0; index < size; index++) {\r
+ mArray[index] = (jalview.schemabinding.version2.Group) _groupList.elementAt(index);\r
+ }\r
+ return mArray;\r
+ } //-- jalview.schemabinding.version2.Group[] getGroup() \r
+\r
+ /**\r
+ * Method getGroupCount\r
+ * \r
+ * \r
+ * \r
+ * @return int\r
+ */\r
+ public int getGroupCount()\r
+ {\r
+ return _groupList.size();\r
+ } //-- int getGroupCount() \r
+\r
+ /**\r
* Method getSetting\r
* \r
* \r
} //-- void marshal(org.xml.sax.ContentHandler) \r
\r
/**\r
+ * Method removeAllGroup\r
+ * \r
+ */\r
+ public void removeAllGroup()\r
+ {\r
+ _groupList.removeAllElements();\r
+ } //-- void removeAllGroup() \r
+\r
+ /**\r
* Method removeAllSetting\r
* \r
*/\r
} //-- void removeAllSetting() \r
\r
/**\r
+ * Method removeGroup\r
+ * \r
+ * \r
+ * \r
+ * @param index\r
+ * @return Group\r
+ */\r
+ public jalview.schemabinding.version2.Group removeGroup(int index)\r
+ {\r
+ java.lang.Object obj = _groupList.elementAt(index);\r
+ _groupList.removeElementAt(index);\r
+ return (jalview.schemabinding.version2.Group) obj;\r
+ } //-- jalview.schemabinding.version2.Group removeGroup(int) \r
+\r
+ /**\r
* Method removeSetting\r
* \r
* \r
} //-- jalview.schemabinding.version2.Setting removeSetting(int) \r
\r
/**\r
+ * Method setGroup\r
+ * \r
+ * \r
+ * \r
+ * @param index\r
+ * @param vGroup\r
+ */\r
+ public void setGroup(int index, jalview.schemabinding.version2.Group vGroup)\r
+ throws java.lang.IndexOutOfBoundsException\r
+ {\r
+ //-- check bounds for index\r
+ if ((index < 0) || (index > _groupList.size())) {\r
+ throw new IndexOutOfBoundsException();\r
+ }\r
+ _groupList.setElementAt(vGroup, index);\r
+ } //-- void setGroup(int, jalview.schemabinding.version2.Group) \r
+\r
+ /**\r
+ * Method setGroup\r
+ * \r
+ * \r
+ * \r
+ * @param groupArray\r
+ */\r
+ public void setGroup(jalview.schemabinding.version2.Group[] groupArray)\r
+ {\r
+ //-- copy array\r
+ _groupList.removeAllElements();\r
+ for (int i = 0; i < groupArray.length; i++) {\r
+ _groupList.addElement(groupArray[i]);\r
+ }\r
+ } //-- void setGroup(jalview.schemabinding.version2.Group) \r
+\r
+ /**\r
* Method setSetting\r
* \r
* \r
{ //-- local scope\r
}\r
desc.setValidator(fieldValidator);\r
+ //-- _groupList\r
+ desc = new org.exolab.castor.xml.util.XMLFieldDescriptorImpl(jalview.schemabinding.version2.Group.class, "_groupList", "group", 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
+ FeatureSettings target = (FeatureSettings) object;\r
+ return target.getGroup();\r
+ }\r
+ public void setValue( java.lang.Object object, java.lang.Object value) \r
+ throws IllegalStateException, IllegalArgumentException\r
+ {\r
+ try {\r
+ FeatureSettings target = (FeatureSettings) object;\r
+ target.addGroup( (jalview.schemabinding.version2.Group) 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.Group();\r
+ }\r
+ } );\r
+ desc.setHandler(handler);\r
+ desc.setNameSpaceURI("www.jalview.org");\r
+ desc.setMultivalued(true);\r
+ addFieldDescriptor(desc);\r
+ \r
+ //-- validation code for: _groupList\r
+ fieldValidator = new org.exolab.castor.xml.FieldValidator();\r
+ fieldValidator.setMinOccurs(0);\r
+ { //-- local scope\r
+ }\r
+ desc.setValidator(fieldValidator);\r
} //-- jalview.schemabinding.version2.FeatureSettingsDescriptor()\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 Group.\r
+ * \r
+ * @version $Revision$ $Date$\r
+ */\r
+public class Group implements java.io.Serializable {\r
+\r
+\r
+ //--------------------------/\r
+ //- Class/Member Variables -/\r
+ //--------------------------/\r
+\r
+ /**\r
+ * Field _name\r
+ */\r
+ private java.lang.String _name;\r
+\r
+ /**\r
+ * Field _display\r
+ */\r
+ private boolean _display;\r
+\r
+ /**\r
+ * keeps track of state for field: _display\r
+ */\r
+ private boolean _has_display;\r
+\r
+\r
+ //----------------/\r
+ //- Constructors -/\r
+ //----------------/\r
+\r
+ public Group() {\r
+ super();\r
+ } //-- jalview.schemabinding.version2.Group()\r
+\r
+\r
+ //-----------/\r
+ //- Methods -/\r
+ //-----------/\r
+\r
+ /**\r
+ * Method deleteDisplay\r
+ * \r
+ */\r
+ public void deleteDisplay()\r
+ {\r
+ this._has_display= false;\r
+ } //-- void deleteDisplay() \r
+\r
+ /**\r
+ * Returns the value of field 'display'.\r
+ * \r
+ * @return boolean\r
+ * @return the value of field 'display'.\r
+ */\r
+ public boolean getDisplay()\r
+ {\r
+ return this._display;\r
+ } //-- boolean getDisplay() \r
+\r
+ /**\r
+ * Returns the value of field 'name'.\r
+ * \r
+ * @return String\r
+ * @return the value of field 'name'.\r
+ */\r
+ public java.lang.String getName()\r
+ {\r
+ return this._name;\r
+ } //-- java.lang.String getName() \r
+\r
+ /**\r
+ * Method hasDisplay\r
+ * \r
+ * \r
+ * \r
+ * @return boolean\r
+ */\r
+ public boolean hasDisplay()\r
+ {\r
+ return this._has_display;\r
+ } //-- boolean hasDisplay() \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 'display'.\r
+ * \r
+ * @param display the value of field 'display'.\r
+ */\r
+ public void setDisplay(boolean display)\r
+ {\r
+ this._display = display;\r
+ this._has_display = true;\r
+ } //-- void setDisplay(boolean) \r
+\r
+ /**\r
+ * Sets the value of field 'name'.\r
+ * \r
+ * @param name the value of field 'name'.\r
+ */\r
+ public void setName(java.lang.String name)\r
+ {\r
+ this._name = name;\r
+ } //-- void setName(java.lang.String) \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.Group) Unmarshaller.unmarshal(jalview.schemabinding.version2.Group.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 GroupDescriptor.\r
+ * \r
+ * @version $Revision$ $Date$\r
+ */\r
+public class GroupDescriptor 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 GroupDescriptor() {\r
+ super();\r
+ nsURI = "www.jalview.org";\r
+ xmlName = "group";\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
+ //-- _name\r
+ desc = new org.exolab.castor.xml.util.XMLFieldDescriptorImpl(java.lang.String.class, "_name", "name", 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
+ Group target = (Group) object;\r
+ return target.getName();\r
+ }\r
+ public void setValue( java.lang.Object object, java.lang.Object value) \r
+ throws IllegalStateException, IllegalArgumentException\r
+ {\r
+ try {\r
+ Group target = (Group) object;\r
+ target.setName( (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
+ desc.setRequired(true);\r
+ addFieldDescriptor(desc);\r
+ \r
+ //-- validation code for: _name\r
+ fieldValidator = new org.exolab.castor.xml.FieldValidator();\r
+ fieldValidator.setMinOccurs(1);\r
+ { //-- local scope\r
+ StringValidator typeValidator = new StringValidator();\r
+ typeValidator.setWhiteSpace("preserve");\r
+ fieldValidator.setValidator(typeValidator);\r
+ }\r
+ desc.setValidator(fieldValidator);\r
+ //-- _display\r
+ desc = new org.exolab.castor.xml.util.XMLFieldDescriptorImpl(java.lang.Boolean.TYPE, "_display", "display", 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
+ Group target = (Group) object;\r
+ if(!target.hasDisplay())\r
+ return null;\r
+ return (target.getDisplay() ? 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
+ Group target = (Group) object;\r
+ // ignore null values for non optional primitives\r
+ if (value == null) return;\r
+ \r
+ target.setDisplay( ((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
+ desc.setRequired(true);\r
+ addFieldDescriptor(desc);\r
+ \r
+ //-- validation code for: _display\r
+ fieldValidator = new org.exolab.castor.xml.FieldValidator();\r
+ fieldValidator.setMinOccurs(1);\r
+ { //-- local scope\r
+ BooleanValidator typeValidator = new BooleanValidator();\r
+ fieldValidator.setValidator(typeValidator);\r
+ }\r
+ desc.setValidator(fieldValidator);\r
+ //-- initialize element descriptors\r
+ \r
+ } //-- jalview.schemabinding.version2.GroupDescriptor()\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.Group.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_display;\r
\r
+ /**\r
+ * Field _order\r
+ */\r
+ private float _order;\r
+\r
+ /**\r
+ * keeps track of state for field: _order\r
+ */\r
+ private boolean _has_order;\r
+\r
\r
//----------------/\r
//- Constructors -/\r
} //-- void deleteDisplay() \r
\r
/**\r
+ * Method deleteOrder\r
+ * \r
+ */\r
+ public void deleteOrder()\r
+ {\r
+ this._has_order= false;\r
+ } //-- void deleteOrder() \r
+\r
+ /**\r
* Returns the value of field 'colour'.\r
* \r
* @return int\r
} //-- boolean getDisplay() \r
\r
/**\r
+ * Returns the value of field 'order'.\r
+ * \r
+ * @return float\r
+ * @return the value of field 'order'.\r
+ */\r
+ public float getOrder()\r
+ {\r
+ return this._order;\r
+ } //-- float getOrder() \r
+\r
+ /**\r
* Returns the value of field 'type'.\r
* \r
* @return String\r
} //-- boolean hasDisplay() \r
\r
/**\r
+ * Method hasOrder\r
+ * \r
+ * \r
+ * \r
+ * @return boolean\r
+ */\r
+ public boolean hasOrder()\r
+ {\r
+ return this._has_order;\r
+ } //-- boolean hasOrder() \r
+\r
+ /**\r
* Method isValid\r
* \r
* \r
} //-- void setDisplay(boolean) \r
\r
/**\r
+ * Sets the value of field 'order'.\r
+ * \r
+ * @param order the value of field 'order'.\r
+ */\r
+ public void setOrder(float order)\r
+ {\r
+ this._order = order;\r
+ this._has_order = true;\r
+ } //-- void setOrder(float) \r
+\r
+ /**\r
* Sets the value of field 'type'.\r
* \r
* @param type the value of field 'type'.\r
fieldValidator.setValidator(typeValidator);\r
}\r
desc.setValidator(fieldValidator);\r
+ //-- _order\r
+ desc = new org.exolab.castor.xml.util.XMLFieldDescriptorImpl(float.class, "_order", "order", 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
+ Setting target = (Setting) object;\r
+ if(!target.hasOrder())\r
+ return null;\r
+ return new java.lang.Float(target.getOrder());\r
+ }\r
+ public void setValue( java.lang.Object object, java.lang.Object value) \r
+ throws IllegalStateException, IllegalArgumentException\r
+ {\r
+ try {\r
+ Setting target = (Setting) object;\r
+ // if null, use delete method for optional primitives \r
+ if (value == null) {\r
+ target.deleteOrder();\r
+ return;\r
+ }\r
+ target.setOrder( ((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: _order\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.SettingDescriptor()\r
git://source.jalview.org / jalview.git / commitdiff