<xs:attribute name="textCol2" type="xs:int"/>
<xs:attribute name="textColThreshold" type="xs:int"/>
<xs:attribute name="showUnconserved" type="xs:boolean" use="optional"/>
-
+ <xs:attribute name="ignoreGapsinConsensus" type="xs:boolean" use="optional" default="true"/>
+ <xs:attribute name="showConsensusHistogram" type="xs:boolean" use="optional" default="true"/>
+ <xs:attribute name="showConsensusProfile" type="xs:boolean" use="optional" default="false"/>
+ <xs:attribute name="id" type="xs:string" use="optional"><xs:annotation>
+ <xs:documentation>
+ Optional sequence group ID (only needs to be unique for this alignment)
+ </xs:documentation>
+ </xs:annotation></xs:attribute>
</xs:complexType>
</xs:element>
<xs:element name="Viewport" maxOccurs="unbounded">
<xs:attribute name="rightAlignIds" type="xs:boolean"/>
<xs:attribute name="showText" type="xs:boolean"/>
<xs:attribute name="showColourText" type="xs:boolean"/>
- <xs:attribute name="showUnconserved" type="xs:boolean" use="optional"/>
+ <xs:attribute name="showUnconserved" type="xs:boolean" use="optional" default="false"/>
<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="showNPfeatureTooltip" type="xs:boolean" use="optional"/>
+ <xs:attribute name="showDbRefTooltip" type="xs:boolean" use="optional"/>
+ <xs:attribute name="followHighlight" type="xs:boolean" use="optional" default="true"/>
+ <xs:attribute name="followSelection" type="xs:boolean" use="optional" default="true"/>
<xs:attribute name="showAnnotation" type="xs:boolean"/>
+ <xs:attribute name="centreColumnLabels" type="xs:boolean" use="optional" default="false"/>
+ <xs:attribute name="showGroupConservation" type="xs:boolean" use="optional" default="false"/>
+ <xs:attribute name="showGroupConsensus" type="xs:boolean" use="optional" default="false"/>
+ <xs:attribute name="showConsensusHistogram" type="xs:boolean" use="optional" default="true"/>
+ <xs:attribute name="showConsensusProfile" type="xs:boolean" use="optional" default="false"/>
+ <xs:attribute name="ignoreGapsinConsensus" type="xs:boolean" use="optional" default="true"/>
+
<xs:attribute name="xpos" type="xs:int"/>
<xs:attribute name="ypos" type="xs:int"/>
<xs:attribute name="width" type="xs:int"/>
<xs:attribute name="threshstate" type="xs:int" use="optional">
<xs:annotation><xs:documentation>threshold type for graduated feature colour</xs:documentation>
</xs:annotation></xs:attribute>
+ <xs:attribute name="max" type="xs:float" use="optional"/>
+ <xs:attribute name="min" type="xs:float" use="optional"/>
+ <xs:attribute name="colourByLabel" type="xs:boolean" use="optional"/>
+ <xs:attribute name="autoScale" type="xs:boolean" use="optional"/>
</xs:complexType>
</xs:element>
<xs:element name="group" minOccurs="0" maxOccurs="unbounded">
<xs:element name="Annotation">
<xs:complexType>
<xs:sequence>
- <xs:element ref="vamsas:annotationElement" minOccurs="0" maxOccurs="unbounded"/>
- <xs:element name="label" type="xs:string"/>
- <xs:element name="description" type="xs:string" minOccurs="0"/>
+ <xs:element ref="vamsas:annotationElement" minOccurs="0"
+ maxOccurs="unbounded" />
+ <xs:element name="label" type="xs:string" />
+ <xs:element name="description" type="xs:string"
+ minOccurs="0" />
<xs:element name="thresholdLine" minOccurs="0">
<xs:complexType>
- <xs:attribute name="label" type="xs:string"/>
- <xs:attribute name="value" type="xs:float"/>
- <xs:attribute name="colour" type="xs:int"/>
+ <xs:attribute name="label" type="xs:string" />
+ <xs:attribute name="value" type="xs:float" />
+ <xs:attribute name="colour" type="xs:int" />
</xs:complexType>
</xs:element>
</xs:sequence>
- <xs:attribute name="graph" type="xs:boolean" use="required"/>
- <xs:attribute name="graphType" type="xs:int" use="optional"/>
- <xs:attribute name="sequenceRef" type="xs:string" use="optional"/>
- <xs:attribute name="graphColour" type="xs:int" use="optional"/>
- <xs:attribute name="graphGroup" type="xs:int" use="optional"/>
- <xs:attribute name="id" type="xs:string" use="optional"/>
- <xs:attribute name="scoreOnly" type="xs:boolean" use="optional" default="false"/>
- <xs:attribute name="score" type="xs:double" use="optional"/>
- <xs:attribute name="visible" type="xs:boolean" use="optional"/>
+ <xs:attribute name="graph" type="xs:boolean" use="required" />
+ <xs:attribute name="graphType" type="xs:int" use="optional" />
+ <xs:attribute name="sequenceRef" type="xs:string"
+ use="optional" />
+ <xs:attribute name="groupRef" type="xs:string"
+ use="optional" />
+ <xs:attribute name="graphColour" type="xs:int"
+ use="optional" />
+ <xs:attribute name="graphGroup" type="xs:int"
+ use="optional" />
+ <xs:attribute name="id" type="xs:string" use="optional" />
+ <xs:attribute name="scoreOnly" type="xs:boolean"
+ use="optional" default="false" />
+ <xs:attribute name="score" type="xs:double" use="optional" />
+ <xs:attribute name="visible" type="xs:boolean"
+ use="optional" />
+ <xs:attribute name="centreColLabels" type="xs:boolean"
+ use="optional" />
+ <xs:attribute name="scaleColLabels" type="xs:boolean"
+ use="optional" />
+ <xs:attribute name="showAllColLabels" type="xs:boolean"
+ use="optional" />
+
+
+ <xs:attribute name="autoCalculated" type="xs:boolean" use="optional" default="false">
+ <xs:annotation><xs:documentation>is an autocalculated annotation row</xs:documentation>
+ </xs:annotation></xs:attribute>
</xs:complexType>
</xs:element>
<xs:element name="SequenceSet">
-#Fri Apr 02 15:31:06 BST 2010\r
+#Mon Apr 05 11:52:37 BST 2010\r
jalview.schemabinding.version2.ThresholdLine=jalview.schemabinding.version2.descriptors.ThresholdLineDescriptor\r
jalview.schemabinding.version2.SequenceSetProperties=jalview.schemabinding.version2.descriptors.SequenceSetPropertiesDescriptor\r
jalview.schemabinding.version2.StructureState=jalview.schemabinding.version2.descriptors.StructureStateDescriptor\r
jalview.schemabinding.version2.PdbentryItem=jalview.schemabinding.version2.descriptors.PdbentryItemDescriptor\r
jalview.schemabinding.version2.FeatureSettings=jalview.schemabinding.version2.descriptors.FeatureSettingsDescriptor\r
jalview.schemabinding.version2.JGroup=jalview.schemabinding.version2.descriptors.JGroupDescriptor\r
-jalview.schemabinding.version2.MapListTo=jalview.schemabinding.version2.descriptors.MapListToDescriptor\r
-jalview.schemabinding.version2.JalviewUserColours=jalview.schemabinding.version2.descriptors.JalviewUserColoursDescriptor\r
jalview.schemabinding.version2.VamsasModel=jalview.schemabinding.version2.descriptors.VamsasModelDescriptor\r
+jalview.schemabinding.version2.JalviewUserColours=jalview.schemabinding.version2.descriptors.JalviewUserColoursDescriptor\r
+jalview.schemabinding.version2.MapListTo=jalview.schemabinding.version2.descriptors.MapListToDescriptor\r
jalview.schemabinding.version2.Pdbentry=jalview.schemabinding.version2.descriptors.PdbentryDescriptor\r
jalview.schemabinding.version2.HiddenColumns=jalview.schemabinding.version2.descriptors.HiddenColumnsDescriptor\r
-jalview.schemabinding.version2.DseqFor=jalview.schemabinding.version2.descriptors.DseqForDescriptor\r
jalview.schemabinding.version2.Features=jalview.schemabinding.version2.descriptors.FeaturesDescriptor\r
+jalview.schemabinding.version2.DseqFor=jalview.schemabinding.version2.descriptors.DseqForDescriptor\r
jalview.schemabinding.version2.VAMSAS=jalview.schemabinding.version2.descriptors.VAMSASDescriptor\r
jalview.schemabinding.version2.MappingChoiceItem=jalview.schemabinding.version2.descriptors.MappingChoiceItemDescriptor\r
private java.lang.String _sequenceRef;\r
\r
/**\r
+ * Field _groupRef.\r
+ */\r
+ private java.lang.String _groupRef;\r
+\r
+ /**\r
* Field _graphColour.\r
*/\r
private int _graphColour;\r
private boolean _has_visible;\r
\r
/**\r
+ * Field _centreColLabels.\r
+ */\r
+ private boolean _centreColLabels;\r
+\r
+ /**\r
+ * keeps track of state for field: _centreColLabels\r
+ */\r
+ private boolean _has_centreColLabels;\r
+\r
+ /**\r
+ * Field _scaleColLabels.\r
+ */\r
+ private boolean _scaleColLabels;\r
+\r
+ /**\r
+ * keeps track of state for field: _scaleColLabels\r
+ */\r
+ private boolean _has_scaleColLabels;\r
+\r
+ /**\r
+ * Field _showAllColLabels.\r
+ */\r
+ private boolean _showAllColLabels;\r
+\r
+ /**\r
+ * keeps track of state for field: _showAllColLabels\r
+ */\r
+ private boolean _has_showAllColLabels;\r
+\r
+ /**\r
+ * is an autocalculated annotation row\r
+ */\r
+ private boolean _autoCalculated = false;\r
+\r
+ /**\r
+ * keeps track of state for field: _autoCalculated\r
+ */\r
+ private boolean _has_autoCalculated;\r
+\r
+ /**\r
* Field _annotationElementList.\r
*/\r
private java.util.Vector _annotationElementList;\r
\r
/**\r
*/\r
+ public void deleteAutoCalculated(\r
+ ) {\r
+ this._has_autoCalculated= false;\r
+ }\r
+\r
+ /**\r
+ */\r
+ public void deleteCentreColLabels(\r
+ ) {\r
+ this._has_centreColLabels= false;\r
+ }\r
+\r
+ /**\r
+ */\r
public void deleteGraph(\r
) {\r
this._has_graph= false;\r
\r
/**\r
*/\r
+ public void deleteScaleColLabels(\r
+ ) {\r
+ this._has_scaleColLabels= false;\r
+ }\r
+\r
+ /**\r
+ */\r
public void deleteScore(\r
) {\r
this._has_score= false;\r
\r
/**\r
*/\r
+ public void deleteShowAllColLabels(\r
+ ) {\r
+ this._has_showAllColLabels= false;\r
+ }\r
+\r
+ /**\r
+ */\r
public void deleteVisible(\r
) {\r
this._has_visible= false;\r
}\r
\r
/**\r
+ * Returns the value of field 'autoCalculated'. The field\r
+ * 'autoCalculated' has the following description: is an\r
+ * autocalculated annotation row\r
+ * \r
+ * @return the value of field 'AutoCalculated'.\r
+ */\r
+ public boolean getAutoCalculated(\r
+ ) {\r
+ return this._autoCalculated;\r
+ }\r
+\r
+ /**\r
+ * Returns the value of field 'centreColLabels'.\r
+ * \r
+ * @return the value of field 'CentreColLabels'.\r
+ */\r
+ public boolean getCentreColLabels(\r
+ ) {\r
+ return this._centreColLabels;\r
+ }\r
+\r
+ /**\r
* Returns the value of field 'description'.\r
* \r
* @return the value of field 'Description'.\r
}\r
\r
/**\r
+ * Returns the value of field 'groupRef'.\r
+ * \r
+ * @return the value of field 'GroupRef'.\r
+ */\r
+ public java.lang.String getGroupRef(\r
+ ) {\r
+ return this._groupRef;\r
+ }\r
+\r
+ /**\r
* Returns the value of field 'id'.\r
* \r
* @return the value of field 'Id'.\r
}\r
\r
/**\r
+ * Returns the value of field 'scaleColLabels'.\r
+ * \r
+ * @return the value of field 'ScaleColLabels'.\r
+ */\r
+ public boolean getScaleColLabels(\r
+ ) {\r
+ return this._scaleColLabels;\r
+ }\r
+\r
+ /**\r
* Returns the value of field 'score'.\r
* \r
* @return the value of field 'Score'.\r
}\r
\r
/**\r
+ * Returns the value of field 'showAllColLabels'.\r
+ * \r
+ * @return the value of field 'ShowAllColLabels'.\r
+ */\r
+ public boolean getShowAllColLabels(\r
+ ) {\r
+ return this._showAllColLabels;\r
+ }\r
+\r
+ /**\r
* Returns the value of field 'thresholdLine'.\r
* \r
* @return the value of field 'ThresholdLine'.\r
}\r
\r
/**\r
+ * Method hasAutoCalculated.\r
+ * \r
+ * @return true if at least one AutoCalculated has been added\r
+ */\r
+ public boolean hasAutoCalculated(\r
+ ) {\r
+ return this._has_autoCalculated;\r
+ }\r
+\r
+ /**\r
+ * Method hasCentreColLabels.\r
+ * \r
+ * @return true if at least one CentreColLabels has been added\r
+ */\r
+ public boolean hasCentreColLabels(\r
+ ) {\r
+ return this._has_centreColLabels;\r
+ }\r
+\r
+ /**\r
* Method hasGraph.\r
* \r
* @return true if at least one Graph has been added\r
}\r
\r
/**\r
+ * Method hasScaleColLabels.\r
+ * \r
+ * @return true if at least one ScaleColLabels has been added\r
+ */\r
+ public boolean hasScaleColLabels(\r
+ ) {\r
+ return this._has_scaleColLabels;\r
+ }\r
+\r
+ /**\r
* Method hasScore.\r
* \r
* @return true if at least one Score has been added\r
}\r
\r
/**\r
+ * Method hasShowAllColLabels.\r
+ * \r
+ * @return true if at least one ShowAllColLabels has been added\r
+ */\r
+ public boolean hasShowAllColLabels(\r
+ ) {\r
+ return this._has_showAllColLabels;\r
+ }\r
+\r
+ /**\r
* Method hasVisible.\r
* \r
* @return true if at least one Visible has been added\r
}\r
\r
/**\r
+ * Returns the value of field 'autoCalculated'. The field\r
+ * 'autoCalculated' has the following description: is an\r
+ * autocalculated annotation row\r
+ * \r
+ * @return the value of field 'AutoCalculated'.\r
+ */\r
+ public boolean isAutoCalculated(\r
+ ) {\r
+ return this._autoCalculated;\r
+ }\r
+\r
+ /**\r
+ * Returns the value of field 'centreColLabels'.\r
+ * \r
+ * @return the value of field 'CentreColLabels'.\r
+ */\r
+ public boolean isCentreColLabels(\r
+ ) {\r
+ return this._centreColLabels;\r
+ }\r
+\r
+ /**\r
* Returns the value of field 'graph'.\r
* \r
* @return the value of field 'Graph'.\r
}\r
\r
/**\r
+ * Returns the value of field 'scaleColLabels'.\r
+ * \r
+ * @return the value of field 'ScaleColLabels'.\r
+ */\r
+ public boolean isScaleColLabels(\r
+ ) {\r
+ return this._scaleColLabels;\r
+ }\r
+\r
+ /**\r
* Returns the value of field 'scoreOnly'.\r
* \r
* @return the value of field 'ScoreOnly'.\r
}\r
\r
/**\r
+ * Returns the value of field 'showAllColLabels'.\r
+ * \r
+ * @return the value of field 'ShowAllColLabels'.\r
+ */\r
+ public boolean isShowAllColLabels(\r
+ ) {\r
+ return this._showAllColLabels;\r
+ }\r
+\r
+ /**\r
* Method isValid.\r
* \r
* @return true if this object is valid according to the schema\r
}\r
\r
/**\r
+ * Sets the value of field 'autoCalculated'. The field\r
+ * 'autoCalculated' has the following description: is an\r
+ * autocalculated annotation row\r
+ * \r
+ * @param autoCalculated the value of field 'autoCalculated'.\r
+ */\r
+ public void setAutoCalculated(\r
+ final boolean autoCalculated) {\r
+ this._autoCalculated = autoCalculated;\r
+ this._has_autoCalculated = true;\r
+ }\r
+\r
+ /**\r
+ * Sets the value of field 'centreColLabels'.\r
+ * \r
+ * @param centreColLabels the value of field 'centreColLabels'.\r
+ */\r
+ public void setCentreColLabels(\r
+ final boolean centreColLabels) {\r
+ this._centreColLabels = centreColLabels;\r
+ this._has_centreColLabels = true;\r
+ }\r
+\r
+ /**\r
* Sets the value of field 'description'.\r
* \r
* @param description the value of field 'description'.\r
}\r
\r
/**\r
+ * Sets the value of field 'groupRef'.\r
+ * \r
+ * @param groupRef the value of field 'groupRef'.\r
+ */\r
+ public void setGroupRef(\r
+ final java.lang.String groupRef) {\r
+ this._groupRef = groupRef;\r
+ }\r
+\r
+ /**\r
* Sets the value of field 'id'.\r
* \r
* @param id the value of field 'id'.\r
}\r
\r
/**\r
+ * Sets the value of field 'scaleColLabels'.\r
+ * \r
+ * @param scaleColLabels the value of field 'scaleColLabels'.\r
+ */\r
+ public void setScaleColLabels(\r
+ final boolean scaleColLabels) {\r
+ this._scaleColLabels = scaleColLabels;\r
+ this._has_scaleColLabels = true;\r
+ }\r
+\r
+ /**\r
* Sets the value of field 'score'.\r
* \r
* @param score the value of field 'score'.\r
}\r
\r
/**\r
+ * Sets the value of field 'showAllColLabels'.\r
+ * \r
+ * @param showAllColLabels the value of field 'showAllColLabels'\r
+ */\r
+ public void setShowAllColLabels(\r
+ final boolean showAllColLabels) {\r
+ this._showAllColLabels = showAllColLabels;\r
+ this._has_showAllColLabels = true;\r
+ }\r
+\r
+ /**\r
* Sets the value of field 'thresholdLine'.\r
* \r
* @param thresholdLine the value of field 'thresholdLine'.\r
private boolean _has_showUnconserved;\r
\r
/**\r
+ * Field _ignoreGapsinConsensus.\r
+ */\r
+ private boolean _ignoreGapsinConsensus = true;\r
+\r
+ /**\r
+ * keeps track of state for field: _ignoreGapsinConsensus\r
+ */\r
+ private boolean _has_ignoreGapsinConsensus;\r
+\r
+ /**\r
+ * Field _showConsensusHistogram.\r
+ */\r
+ private boolean _showConsensusHistogram = true;\r
+\r
+ /**\r
+ * keeps track of state for field: _showConsensusHistogram\r
+ */\r
+ private boolean _has_showConsensusHistogram;\r
+\r
+ /**\r
+ * Field _showConsensusProfile.\r
+ */\r
+ private boolean _showConsensusProfile = false;\r
+\r
+ /**\r
+ * keeps track of state for field: _showConsensusProfile\r
+ */\r
+ private boolean _has_showConsensusProfile;\r
+\r
+ /**\r
+ * Optional sequence group ID (only needs to be unique for this\r
+ * alignment)\r
+ * \r
+ */\r
+ private java.lang.String _id;\r
+\r
+ /**\r
* Field _seqList.\r
*/\r
private java.util.Vector _seqList;\r
\r
/**\r
*/\r
+ public void deleteIgnoreGapsinConsensus(\r
+ ) {\r
+ this._has_ignoreGapsinConsensus= false;\r
+ }\r
+\r
+ /**\r
+ */\r
public void deleteOutlineColour(\r
) {\r
this._has_outlineColour= false;\r
\r
/**\r
*/\r
+ public void deleteShowConsensusHistogram(\r
+ ) {\r
+ this._has_showConsensusHistogram= false;\r
+ }\r
+\r
+ /**\r
+ */\r
+ public void deleteShowConsensusProfile(\r
+ ) {\r
+ this._has_showConsensusProfile= false;\r
+ }\r
+\r
+ /**\r
+ */\r
public void deleteShowUnconserved(\r
) {\r
this._has_showUnconserved= false;\r
}\r
\r
/**\r
+ * Returns the value of field 'id'. The field 'id' has the\r
+ * following description: Optional sequence group ID (only\r
+ * needs to be unique for this alignment)\r
+ * \r
+ * \r
+ * @return the value of field 'Id'.\r
+ */\r
+ public java.lang.String getId(\r
+ ) {\r
+ return this._id;\r
+ }\r
+\r
+ /**\r
+ * Returns the value of field 'ignoreGapsinConsensus'.\r
+ * \r
+ * @return the value of field 'IgnoreGapsinConsensus'.\r
+ */\r
+ public boolean getIgnoreGapsinConsensus(\r
+ ) {\r
+ return this._ignoreGapsinConsensus;\r
+ }\r
+\r
+ /**\r
* Returns the value of field 'name'.\r
* \r
* @return the value of field 'Name'.\r
}\r
\r
/**\r
+ * Returns the value of field 'showConsensusHistogram'.\r
+ * \r
+ * @return the value of field 'ShowConsensusHistogram'.\r
+ */\r
+ public boolean getShowConsensusHistogram(\r
+ ) {\r
+ return this._showConsensusHistogram;\r
+ }\r
+\r
+ /**\r
+ * Returns the value of field 'showConsensusProfile'.\r
+ * \r
+ * @return the value of field 'ShowConsensusProfile'.\r
+ */\r
+ public boolean getShowConsensusProfile(\r
+ ) {\r
+ return this._showConsensusProfile;\r
+ }\r
+\r
+ /**\r
* Returns the value of field 'showUnconserved'.\r
* \r
* @return the value of field 'ShowUnconserved'.\r
}\r
\r
/**\r
+ * Method hasIgnoreGapsinConsensus.\r
+ * \r
+ * @return true if at least one IgnoreGapsinConsensus has been\r
+ * added\r
+ */\r
+ public boolean hasIgnoreGapsinConsensus(\r
+ ) {\r
+ return this._has_ignoreGapsinConsensus;\r
+ }\r
+\r
+ /**\r
* Method hasOutlineColour.\r
* \r
* @return true if at least one OutlineColour has been added\r
}\r
\r
/**\r
+ * Method hasShowConsensusHistogram.\r
+ * \r
+ * @return true if at least one ShowConsensusHistogram has been\r
+ * added\r
+ */\r
+ public boolean hasShowConsensusHistogram(\r
+ ) {\r
+ return this._has_showConsensusHistogram;\r
+ }\r
+\r
+ /**\r
+ * Method hasShowConsensusProfile.\r
+ * \r
+ * @return true if at least one ShowConsensusProfile has been\r
+ * added\r
+ */\r
+ public boolean hasShowConsensusProfile(\r
+ ) {\r
+ return this._has_showConsensusProfile;\r
+ }\r
+\r
+ /**\r
* Method hasShowUnconserved.\r
* \r
* @return true if at least one ShowUnconserved has been added\r
}\r
\r
/**\r
+ * Returns the value of field 'ignoreGapsinConsensus'.\r
+ * \r
+ * @return the value of field 'IgnoreGapsinConsensus'.\r
+ */\r
+ public boolean isIgnoreGapsinConsensus(\r
+ ) {\r
+ return this._ignoreGapsinConsensus;\r
+ }\r
+\r
+ /**\r
+ * Returns the value of field 'showConsensusHistogram'.\r
+ * \r
+ * @return the value of field 'ShowConsensusHistogram'.\r
+ */\r
+ public boolean isShowConsensusHistogram(\r
+ ) {\r
+ return this._showConsensusHistogram;\r
+ }\r
+\r
+ /**\r
+ * Returns the value of field 'showConsensusProfile'.\r
+ * \r
+ * @return the value of field 'ShowConsensusProfile'.\r
+ */\r
+ public boolean isShowConsensusProfile(\r
+ ) {\r
+ return this._showConsensusProfile;\r
+ }\r
+\r
+ /**\r
* Returns the value of field 'showUnconserved'.\r
* \r
* @return the value of field 'ShowUnconserved'.\r
}\r
\r
/**\r
+ * Sets the value of field 'id'. The field 'id' has the\r
+ * following description: Optional sequence group ID (only\r
+ * needs to be unique for this alignment)\r
+ * \r
+ * \r
+ * @param id the value of field 'id'.\r
+ */\r
+ public void setId(\r
+ final java.lang.String id) {\r
+ this._id = id;\r
+ }\r
+\r
+ /**\r
+ * Sets the value of field 'ignoreGapsinConsensus'.\r
+ * \r
+ * @param ignoreGapsinConsensus the value of field\r
+ * 'ignoreGapsinConsensus'.\r
+ */\r
+ public void setIgnoreGapsinConsensus(\r
+ final boolean ignoreGapsinConsensus) {\r
+ this._ignoreGapsinConsensus = ignoreGapsinConsensus;\r
+ this._has_ignoreGapsinConsensus = true;\r
+ }\r
+\r
+ /**\r
* Sets the value of field 'name'.\r
* \r
* @param name the value of field 'name'.\r
}\r
\r
/**\r
+ * Sets the value of field 'showConsensusHistogram'.\r
+ * \r
+ * @param showConsensusHistogram the value of field\r
+ * 'showConsensusHistogram'.\r
+ */\r
+ public void setShowConsensusHistogram(\r
+ final boolean showConsensusHistogram) {\r
+ this._showConsensusHistogram = showConsensusHistogram;\r
+ this._has_showConsensusHistogram = true;\r
+ }\r
+\r
+ /**\r
+ * Sets the value of field 'showConsensusProfile'.\r
+ * \r
+ * @param showConsensusProfile the value of field\r
+ * 'showConsensusProfile'.\r
+ */\r
+ public void setShowConsensusProfile(\r
+ final boolean showConsensusProfile) {\r
+ this._showConsensusProfile = showConsensusProfile;\r
+ this._has_showConsensusProfile = true;\r
+ }\r
+\r
+ /**\r
* Sets the value of field 'showUnconserved'.\r
* \r
* @param showUnconserved the value of field 'showUnconserved'.\r
*/\r
private boolean _has_threshstate;\r
\r
+ /**\r
+ * Field _max.\r
+ */\r
+ private float _max;\r
+\r
+ /**\r
+ * keeps track of state for field: _max\r
+ */\r
+ private boolean _has_max;\r
+\r
+ /**\r
+ * Field _min.\r
+ */\r
+ private float _min;\r
+\r
+ /**\r
+ * keeps track of state for field: _min\r
+ */\r
+ private boolean _has_min;\r
+\r
+ /**\r
+ * Field _colourByLabel.\r
+ */\r
+ private boolean _colourByLabel;\r
+\r
+ /**\r
+ * keeps track of state for field: _colourByLabel\r
+ */\r
+ private boolean _has_colourByLabel;\r
+\r
+ /**\r
+ * Field _autoScale.\r
+ */\r
+ private boolean _autoScale;\r
+\r
+ /**\r
+ * keeps track of state for field: _autoScale\r
+ */\r
+ private boolean _has_autoScale;\r
+\r
\r
//----------------/\r
//- Constructors -/\r
\r
/**\r
*/\r
+ public void deleteAutoScale(\r
+ ) {\r
+ this._has_autoScale= false;\r
+ }\r
+\r
+ /**\r
+ */\r
public void deleteColour(\r
) {\r
this._has_colour= false;\r
\r
/**\r
*/\r
+ public void deleteColourByLabel(\r
+ ) {\r
+ this._has_colourByLabel= false;\r
+ }\r
+\r
+ /**\r
+ */\r
public void deleteDisplay(\r
) {\r
this._has_display= false;\r
\r
/**\r
*/\r
+ public void deleteMax(\r
+ ) {\r
+ this._has_max= false;\r
+ }\r
+\r
+ /**\r
+ */\r
+ public void deleteMin(\r
+ ) {\r
+ this._has_min= false;\r
+ }\r
+\r
+ /**\r
+ */\r
public void deleteMincolour(\r
) {\r
this._has_mincolour= false;\r
}\r
\r
/**\r
+ * Returns the value of field 'autoScale'.\r
+ * \r
+ * @return the value of field 'AutoScale'.\r
+ */\r
+ public boolean getAutoScale(\r
+ ) {\r
+ return this._autoScale;\r
+ }\r
+\r
+ /**\r
* Returns the value of field 'colour'.\r
* \r
* @return the value of field 'Colour'.\r
}\r
\r
/**\r
+ * Returns the value of field 'colourByLabel'.\r
+ * \r
+ * @return the value of field 'ColourByLabel'.\r
+ */\r
+ public boolean getColourByLabel(\r
+ ) {\r
+ return this._colourByLabel;\r
+ }\r
+\r
+ /**\r
* Returns the value of field 'display'.\r
* \r
* @return the value of field 'Display'.\r
}\r
\r
/**\r
+ * Returns the value of field 'max'.\r
+ * \r
+ * @return the value of field 'Max'.\r
+ */\r
+ public float getMax(\r
+ ) {\r
+ return this._max;\r
+ }\r
+\r
+ /**\r
+ * Returns the value of field 'min'.\r
+ * \r
+ * @return the value of field 'Min'.\r
+ */\r
+ public float getMin(\r
+ ) {\r
+ return this._min;\r
+ }\r
+\r
+ /**\r
* Returns the value of field 'mincolour'. The field\r
* 'mincolour' has the following description: Optional minimum\r
* colour for graduated feature colour\r
}\r
\r
/**\r
+ * Method hasAutoScale.\r
+ * \r
+ * @return true if at least one AutoScale has been added\r
+ */\r
+ public boolean hasAutoScale(\r
+ ) {\r
+ return this._has_autoScale;\r
+ }\r
+\r
+ /**\r
* Method hasColour.\r
* \r
* @return true if at least one Colour has been added\r
}\r
\r
/**\r
+ * Method hasColourByLabel.\r
+ * \r
+ * @return true if at least one ColourByLabel has been added\r
+ */\r
+ public boolean hasColourByLabel(\r
+ ) {\r
+ return this._has_colourByLabel;\r
+ }\r
+\r
+ /**\r
* Method hasDisplay.\r
* \r
* @return true if at least one Display has been added\r
}\r
\r
/**\r
+ * Method hasMax.\r
+ * \r
+ * @return true if at least one Max has been added\r
+ */\r
+ public boolean hasMax(\r
+ ) {\r
+ return this._has_max;\r
+ }\r
+\r
+ /**\r
+ * Method hasMin.\r
+ * \r
+ * @return true if at least one Min has been added\r
+ */\r
+ public boolean hasMin(\r
+ ) {\r
+ return this._has_min;\r
+ }\r
+\r
+ /**\r
* Method hasMincolour.\r
* \r
* @return true if at least one Mincolour has been added\r
}\r
\r
/**\r
+ * Returns the value of field 'autoScale'.\r
+ * \r
+ * @return the value of field 'AutoScale'.\r
+ */\r
+ public boolean isAutoScale(\r
+ ) {\r
+ return this._autoScale;\r
+ }\r
+\r
+ /**\r
+ * Returns the value of field 'colourByLabel'.\r
+ * \r
+ * @return the value of field 'ColourByLabel'.\r
+ */\r
+ public boolean isColourByLabel(\r
+ ) {\r
+ return this._colourByLabel;\r
+ }\r
+\r
+ /**\r
* Returns the value of field 'display'.\r
* \r
* @return the value of field 'Display'.\r
}\r
\r
/**\r
+ * Sets the value of field 'autoScale'.\r
+ * \r
+ * @param autoScale the value of field 'autoScale'.\r
+ */\r
+ public void setAutoScale(\r
+ final boolean autoScale) {\r
+ this._autoScale = autoScale;\r
+ this._has_autoScale = true;\r
+ }\r
+\r
+ /**\r
* Sets the value of field 'colour'.\r
* \r
* @param colour the value of field 'colour'.\r
}\r
\r
/**\r
+ * Sets the value of field 'colourByLabel'.\r
+ * \r
+ * @param colourByLabel the value of field 'colourByLabel'.\r
+ */\r
+ public void setColourByLabel(\r
+ final boolean colourByLabel) {\r
+ this._colourByLabel = colourByLabel;\r
+ this._has_colourByLabel = true;\r
+ }\r
+\r
+ /**\r
* Sets the value of field 'display'.\r
* \r
* @param display the value of field 'display'.\r
}\r
\r
/**\r
+ * Sets the value of field 'max'.\r
+ * \r
+ * @param max the value of field 'max'.\r
+ */\r
+ public void setMax(\r
+ final float max) {\r
+ this._max = max;\r
+ this._has_max = true;\r
+ }\r
+\r
+ /**\r
+ * Sets the value of field 'min'.\r
+ * \r
+ * @param min the value of field 'min'.\r
+ */\r
+ public void setMin(\r
+ final float min) {\r
+ this._min = min;\r
+ this._has_min = true;\r
+ }\r
+\r
+ /**\r
* Sets the value of field 'mincolour'. The field 'mincolour'\r
* has the following description: Optional minimum colour for\r
* graduated feature colour\r
/**\r
* Field _showUnconserved.\r
*/\r
- private boolean _showUnconserved;\r
+ private boolean _showUnconserved = false;\r
\r
/**\r
* keeps track of state for field: _showUnconserved\r
private boolean _has_showSequenceFeatures;\r
\r
/**\r
+ * Field _showNPfeatureTooltip.\r
+ */\r
+ private boolean _showNPfeatureTooltip;\r
+\r
+ /**\r
+ * keeps track of state for field: _showNPfeatureTooltip\r
+ */\r
+ private boolean _has_showNPfeatureTooltip;\r
+\r
+ /**\r
+ * Field _showDbRefTooltip.\r
+ */\r
+ private boolean _showDbRefTooltip;\r
+\r
+ /**\r
+ * keeps track of state for field: _showDbRefTooltip\r
+ */\r
+ private boolean _has_showDbRefTooltip;\r
+\r
+ /**\r
+ * Field _followHighlight.\r
+ */\r
+ private boolean _followHighlight = true;\r
+\r
+ /**\r
+ * keeps track of state for field: _followHighlight\r
+ */\r
+ private boolean _has_followHighlight;\r
+\r
+ /**\r
+ * Field _followSelection.\r
+ */\r
+ private boolean _followSelection = true;\r
+\r
+ /**\r
+ * keeps track of state for field: _followSelection\r
+ */\r
+ private boolean _has_followSelection;\r
+\r
+ /**\r
* Field _showAnnotation.\r
*/\r
private boolean _showAnnotation;\r
private boolean _has_showAnnotation;\r
\r
/**\r
+ * Field _centreColumnLabels.\r
+ */\r
+ private boolean _centreColumnLabels = false;\r
+\r
+ /**\r
+ * keeps track of state for field: _centreColumnLabels\r
+ */\r
+ private boolean _has_centreColumnLabels;\r
+\r
+ /**\r
+ * Field _showGroupConservation.\r
+ */\r
+ private boolean _showGroupConservation = false;\r
+\r
+ /**\r
+ * keeps track of state for field: _showGroupConservation\r
+ */\r
+ private boolean _has_showGroupConservation;\r
+\r
+ /**\r
+ * Field _showGroupConsensus.\r
+ */\r
+ private boolean _showGroupConsensus = false;\r
+\r
+ /**\r
+ * keeps track of state for field: _showGroupConsensus\r
+ */\r
+ private boolean _has_showGroupConsensus;\r
+\r
+ /**\r
+ * Field _showConsensusHistogram.\r
+ */\r
+ private boolean _showConsensusHistogram = true;\r
+\r
+ /**\r
+ * keeps track of state for field: _showConsensusHistogram\r
+ */\r
+ private boolean _has_showConsensusHistogram;\r
+\r
+ /**\r
+ * Field _showConsensusProfile.\r
+ */\r
+ private boolean _showConsensusProfile = false;\r
+\r
+ /**\r
+ * keeps track of state for field: _showConsensusProfile\r
+ */\r
+ private boolean _has_showConsensusProfile;\r
+\r
+ /**\r
+ * Field _ignoreGapsinConsensus.\r
+ */\r
+ private boolean _ignoreGapsinConsensus = true;\r
+\r
+ /**\r
+ * keeps track of state for field: _ignoreGapsinConsensus\r
+ */\r
+ private boolean _has_ignoreGapsinConsensus;\r
+\r
+ /**\r
* Field _xpos.\r
*/\r
private int _xpos;\r
\r
/**\r
*/\r
+ public void deleteCentreColumnLabels(\r
+ ) {\r
+ this._has_centreColumnLabels= false;\r
+ }\r
+\r
+ /**\r
+ */\r
public void deleteConsThreshold(\r
) {\r
this._has_consThreshold= false;\r
\r
/**\r
*/\r
+ public void deleteFollowHighlight(\r
+ ) {\r
+ this._has_followHighlight= false;\r
+ }\r
+\r
+ /**\r
+ */\r
+ public void deleteFollowSelection(\r
+ ) {\r
+ this._has_followSelection= false;\r
+ }\r
+\r
+ /**\r
+ */\r
public void deleteFontSize(\r
) {\r
this._has_fontSize= false;\r
\r
/**\r
*/\r
+ public void deleteIgnoreGapsinConsensus(\r
+ ) {\r
+ this._has_ignoreGapsinConsensus= false;\r
+ }\r
+\r
+ /**\r
+ */\r
public void deletePidSelected(\r
) {\r
this._has_pidSelected= false;\r
\r
/**\r
*/\r
+ public void deleteShowConsensusHistogram(\r
+ ) {\r
+ this._has_showConsensusHistogram= false;\r
+ }\r
+\r
+ /**\r
+ */\r
+ public void deleteShowConsensusProfile(\r
+ ) {\r
+ this._has_showConsensusProfile= false;\r
+ }\r
+\r
+ /**\r
+ */\r
+ public void deleteShowDbRefTooltip(\r
+ ) {\r
+ this._has_showDbRefTooltip= false;\r
+ }\r
+\r
+ /**\r
+ */\r
public void deleteShowFullId(\r
) {\r
this._has_showFullId= false;\r
\r
/**\r
*/\r
+ public void deleteShowGroupConsensus(\r
+ ) {\r
+ this._has_showGroupConsensus= false;\r
+ }\r
+\r
+ /**\r
+ */\r
+ public void deleteShowGroupConservation(\r
+ ) {\r
+ this._has_showGroupConservation= false;\r
+ }\r
+\r
+ /**\r
+ */\r
+ public void deleteShowNPfeatureTooltip(\r
+ ) {\r
+ this._has_showNPfeatureTooltip= false;\r
+ }\r
+\r
+ /**\r
+ */\r
public void deleteShowSequenceFeatures(\r
) {\r
this._has_showSequenceFeatures= false;\r
}\r
\r
/**\r
+ * Returns the value of field 'centreColumnLabels'.\r
+ * \r
+ * @return the value of field 'CentreColumnLabels'.\r
+ */\r
+ public boolean getCentreColumnLabels(\r
+ ) {\r
+ return this._centreColumnLabels;\r
+ }\r
+\r
+ /**\r
* Returns the value of field 'consThreshold'.\r
* \r
* @return the value of field 'ConsThreshold'.\r
}\r
\r
/**\r
+ * Returns the value of field 'followHighlight'.\r
+ * \r
+ * @return the value of field 'FollowHighlight'.\r
+ */\r
+ public boolean getFollowHighlight(\r
+ ) {\r
+ return this._followHighlight;\r
+ }\r
+\r
+ /**\r
+ * Returns the value of field 'followSelection'.\r
+ * \r
+ * @return the value of field 'FollowSelection'.\r
+ */\r
+ public boolean getFollowSelection(\r
+ ) {\r
+ return this._followSelection;\r
+ }\r
+\r
+ /**\r
* Returns the value of field 'fontName'.\r
* \r
* @return the value of field 'FontName'.\r
}\r
\r
/**\r
+ * Returns the value of field 'ignoreGapsinConsensus'.\r
+ * \r
+ * @return the value of field 'IgnoreGapsinConsensus'.\r
+ */\r
+ public boolean getIgnoreGapsinConsensus(\r
+ ) {\r
+ return this._ignoreGapsinConsensus;\r
+ }\r
+\r
+ /**\r
* Returns the value of field 'pidSelected'.\r
* \r
* @return the value of field 'PidSelected'.\r
}\r
\r
/**\r
+ * Returns the value of field 'showConsensusHistogram'.\r
+ * \r
+ * @return the value of field 'ShowConsensusHistogram'.\r
+ */\r
+ public boolean getShowConsensusHistogram(\r
+ ) {\r
+ return this._showConsensusHistogram;\r
+ }\r
+\r
+ /**\r
+ * Returns the value of field 'showConsensusProfile'.\r
+ * \r
+ * @return the value of field 'ShowConsensusProfile'.\r
+ */\r
+ public boolean getShowConsensusProfile(\r
+ ) {\r
+ return this._showConsensusProfile;\r
+ }\r
+\r
+ /**\r
+ * Returns the value of field 'showDbRefTooltip'.\r
+ * \r
+ * @return the value of field 'ShowDbRefTooltip'.\r
+ */\r
+ public boolean getShowDbRefTooltip(\r
+ ) {\r
+ return this._showDbRefTooltip;\r
+ }\r
+\r
+ /**\r
* Returns the value of field 'showFullId'.\r
* \r
* @return the value of field 'ShowFullId'.\r
}\r
\r
/**\r
+ * Returns the value of field 'showGroupConsensus'.\r
+ * \r
+ * @return the value of field 'ShowGroupConsensus'.\r
+ */\r
+ public boolean getShowGroupConsensus(\r
+ ) {\r
+ return this._showGroupConsensus;\r
+ }\r
+\r
+ /**\r
+ * Returns the value of field 'showGroupConservation'.\r
+ * \r
+ * @return the value of field 'ShowGroupConservation'.\r
+ */\r
+ public boolean getShowGroupConservation(\r
+ ) {\r
+ return this._showGroupConservation;\r
+ }\r
+\r
+ /**\r
+ * Returns the value of field 'showNPfeatureTooltip'.\r
+ * \r
+ * @return the value of field 'ShowNPfeatureTooltip'.\r
+ */\r
+ public boolean getShowNPfeatureTooltip(\r
+ ) {\r
+ return this._showNPfeatureTooltip;\r
+ }\r
+\r
+ /**\r
* Returns the value of field 'showSequenceFeatures'.\r
* \r
* @return the value of field 'ShowSequenceFeatures'.\r
}\r
\r
/**\r
+ * Method hasCentreColumnLabels.\r
+ * \r
+ * @return true if at least one CentreColumnLabels has been adde\r
+ */\r
+ public boolean hasCentreColumnLabels(\r
+ ) {\r
+ return this._has_centreColumnLabels;\r
+ }\r
+\r
+ /**\r
* Method hasConsThreshold.\r
* \r
* @return true if at least one ConsThreshold has been added\r
}\r
\r
/**\r
+ * Method hasFollowHighlight.\r
+ * \r
+ * @return true if at least one FollowHighlight has been added\r
+ */\r
+ public boolean hasFollowHighlight(\r
+ ) {\r
+ return this._has_followHighlight;\r
+ }\r
+\r
+ /**\r
+ * Method hasFollowSelection.\r
+ * \r
+ * @return true if at least one FollowSelection has been added\r
+ */\r
+ public boolean hasFollowSelection(\r
+ ) {\r
+ return this._has_followSelection;\r
+ }\r
+\r
+ /**\r
* Method hasFontSize.\r
* \r
* @return true if at least one FontSize has been added\r
}\r
\r
/**\r
+ * Method hasIgnoreGapsinConsensus.\r
+ * \r
+ * @return true if at least one IgnoreGapsinConsensus has been\r
+ * added\r
+ */\r
+ public boolean hasIgnoreGapsinConsensus(\r
+ ) {\r
+ return this._has_ignoreGapsinConsensus;\r
+ }\r
+\r
+ /**\r
* Method hasPidSelected.\r
* \r
* @return true if at least one PidSelected has been added\r
}\r
\r
/**\r
+ * Method hasShowConsensusHistogram.\r
+ * \r
+ * @return true if at least one ShowConsensusHistogram has been\r
+ * added\r
+ */\r
+ public boolean hasShowConsensusHistogram(\r
+ ) {\r
+ return this._has_showConsensusHistogram;\r
+ }\r
+\r
+ /**\r
+ * Method hasShowConsensusProfile.\r
+ * \r
+ * @return true if at least one ShowConsensusProfile has been\r
+ * added\r
+ */\r
+ public boolean hasShowConsensusProfile(\r
+ ) {\r
+ return this._has_showConsensusProfile;\r
+ }\r
+\r
+ /**\r
+ * Method hasShowDbRefTooltip.\r
+ * \r
+ * @return true if at least one ShowDbRefTooltip has been added\r
+ */\r
+ public boolean hasShowDbRefTooltip(\r
+ ) {\r
+ return this._has_showDbRefTooltip;\r
+ }\r
+\r
+ /**\r
* Method hasShowFullId.\r
* \r
* @return true if at least one ShowFullId has been added\r
}\r
\r
/**\r
+ * Method hasShowGroupConsensus.\r
+ * \r
+ * @return true if at least one ShowGroupConsensus has been adde\r
+ */\r
+ public boolean hasShowGroupConsensus(\r
+ ) {\r
+ return this._has_showGroupConsensus;\r
+ }\r
+\r
+ /**\r
+ * Method hasShowGroupConservation.\r
+ * \r
+ * @return true if at least one ShowGroupConservation has been\r
+ * added\r
+ */\r
+ public boolean hasShowGroupConservation(\r
+ ) {\r
+ return this._has_showGroupConservation;\r
+ }\r
+\r
+ /**\r
+ * Method hasShowNPfeatureTooltip.\r
+ * \r
+ * @return true if at least one ShowNPfeatureTooltip has been\r
+ * added\r
+ */\r
+ public boolean hasShowNPfeatureTooltip(\r
+ ) {\r
+ return this._has_showNPfeatureTooltip;\r
+ }\r
+\r
+ /**\r
* Method hasShowSequenceFeatures.\r
* \r
* @return true if at least one ShowSequenceFeatures has been\r
}\r
\r
/**\r
+ * Returns the value of field 'centreColumnLabels'.\r
+ * \r
+ * @return the value of field 'CentreColumnLabels'.\r
+ */\r
+ public boolean isCentreColumnLabels(\r
+ ) {\r
+ return this._centreColumnLabels;\r
+ }\r
+\r
+ /**\r
* Returns the value of field 'conservationSelected'.\r
* \r
* @return the value of field 'ConservationSelected'.\r
}\r
\r
/**\r
+ * Returns the value of field 'followHighlight'.\r
+ * \r
+ * @return the value of field 'FollowHighlight'.\r
+ */\r
+ public boolean isFollowHighlight(\r
+ ) {\r
+ return this._followHighlight;\r
+ }\r
+\r
+ /**\r
+ * Returns the value of field 'followSelection'.\r
+ * \r
+ * @return the value of field 'FollowSelection'.\r
+ */\r
+ public boolean isFollowSelection(\r
+ ) {\r
+ return this._followSelection;\r
+ }\r
+\r
+ /**\r
* Returns the value of field 'gatheredViews'.\r
* \r
* @return the value of field 'GatheredViews'.\r
}\r
\r
/**\r
+ * Returns the value of field 'ignoreGapsinConsensus'.\r
+ * \r
+ * @return the value of field 'IgnoreGapsinConsensus'.\r
+ */\r
+ public boolean isIgnoreGapsinConsensus(\r
+ ) {\r
+ return this._ignoreGapsinConsensus;\r
+ }\r
+\r
+ /**\r
* Returns the value of field 'pidSelected'.\r
* \r
* @return the value of field 'PidSelected'.\r
}\r
\r
/**\r
+ * Returns the value of field 'showConsensusHistogram'.\r
+ * \r
+ * @return the value of field 'ShowConsensusHistogram'.\r
+ */\r
+ public boolean isShowConsensusHistogram(\r
+ ) {\r
+ return this._showConsensusHistogram;\r
+ }\r
+\r
+ /**\r
+ * Returns the value of field 'showConsensusProfile'.\r
+ * \r
+ * @return the value of field 'ShowConsensusProfile'.\r
+ */\r
+ public boolean isShowConsensusProfile(\r
+ ) {\r
+ return this._showConsensusProfile;\r
+ }\r
+\r
+ /**\r
+ * Returns the value of field 'showDbRefTooltip'.\r
+ * \r
+ * @return the value of field 'ShowDbRefTooltip'.\r
+ */\r
+ public boolean isShowDbRefTooltip(\r
+ ) {\r
+ return this._showDbRefTooltip;\r
+ }\r
+\r
+ /**\r
* Returns the value of field 'showFullId'.\r
* \r
* @return the value of field 'ShowFullId'.\r
}\r
\r
/**\r
+ * Returns the value of field 'showGroupConsensus'.\r
+ * \r
+ * @return the value of field 'ShowGroupConsensus'.\r
+ */\r
+ public boolean isShowGroupConsensus(\r
+ ) {\r
+ return this._showGroupConsensus;\r
+ }\r
+\r
+ /**\r
+ * Returns the value of field 'showGroupConservation'.\r
+ * \r
+ * @return the value of field 'ShowGroupConservation'.\r
+ */\r
+ public boolean isShowGroupConservation(\r
+ ) {\r
+ return this._showGroupConservation;\r
+ }\r
+\r
+ /**\r
+ * Returns the value of field 'showNPfeatureTooltip'.\r
+ * \r
+ * @return the value of field 'ShowNPfeatureTooltip'.\r
+ */\r
+ public boolean isShowNPfeatureTooltip(\r
+ ) {\r
+ return this._showNPfeatureTooltip;\r
+ }\r
+\r
+ /**\r
* Returns the value of field 'showSequenceFeatures'.\r
* \r
* @return the value of field 'ShowSequenceFeatures'.\r
}\r
\r
/**\r
+ * Sets the value of field 'centreColumnLabels'.\r
+ * \r
+ * @param centreColumnLabels the value of field\r
+ * 'centreColumnLabels'.\r
+ */\r
+ public void setCentreColumnLabels(\r
+ final boolean centreColumnLabels) {\r
+ this._centreColumnLabels = centreColumnLabels;\r
+ this._has_centreColumnLabels = true;\r
+ }\r
+\r
+ /**\r
* Sets the value of field 'consThreshold'.\r
* \r
* @param consThreshold the value of field 'consThreshold'.\r
}\r
\r
/**\r
+ * Sets the value of field 'followHighlight'.\r
+ * \r
+ * @param followHighlight the value of field 'followHighlight'.\r
+ */\r
+ public void setFollowHighlight(\r
+ final boolean followHighlight) {\r
+ this._followHighlight = followHighlight;\r
+ this._has_followHighlight = true;\r
+ }\r
+\r
+ /**\r
+ * Sets the value of field 'followSelection'.\r
+ * \r
+ * @param followSelection the value of field 'followSelection'.\r
+ */\r
+ public void setFollowSelection(\r
+ final boolean followSelection) {\r
+ this._followSelection = followSelection;\r
+ this._has_followSelection = true;\r
+ }\r
+\r
+ /**\r
* Sets the value of field 'fontName'.\r
* \r
* @param fontName the value of field 'fontName'.\r
}\r
\r
/**\r
+ * Sets the value of field 'ignoreGapsinConsensus'.\r
+ * \r
+ * @param ignoreGapsinConsensus the value of field\r
+ * 'ignoreGapsinConsensus'.\r
+ */\r
+ public void setIgnoreGapsinConsensus(\r
+ final boolean ignoreGapsinConsensus) {\r
+ this._ignoreGapsinConsensus = ignoreGapsinConsensus;\r
+ this._has_ignoreGapsinConsensus = true;\r
+ }\r
+\r
+ /**\r
* Sets the value of field 'pidSelected'.\r
* \r
* @param pidSelected the value of field 'pidSelected'.\r
}\r
\r
/**\r
+ * Sets the value of field 'showConsensusHistogram'.\r
+ * \r
+ * @param showConsensusHistogram the value of field\r
+ * 'showConsensusHistogram'.\r
+ */\r
+ public void setShowConsensusHistogram(\r
+ final boolean showConsensusHistogram) {\r
+ this._showConsensusHistogram = showConsensusHistogram;\r
+ this._has_showConsensusHistogram = true;\r
+ }\r
+\r
+ /**\r
+ * Sets the value of field 'showConsensusProfile'.\r
+ * \r
+ * @param showConsensusProfile the value of field\r
+ * 'showConsensusProfile'.\r
+ */\r
+ public void setShowConsensusProfile(\r
+ final boolean showConsensusProfile) {\r
+ this._showConsensusProfile = showConsensusProfile;\r
+ this._has_showConsensusProfile = true;\r
+ }\r
+\r
+ /**\r
+ * Sets the value of field 'showDbRefTooltip'.\r
+ * \r
+ * @param showDbRefTooltip the value of field 'showDbRefTooltip'\r
+ */\r
+ public void setShowDbRefTooltip(\r
+ final boolean showDbRefTooltip) {\r
+ this._showDbRefTooltip = showDbRefTooltip;\r
+ this._has_showDbRefTooltip = true;\r
+ }\r
+\r
+ /**\r
* Sets the value of field 'showFullId'.\r
* \r
* @param showFullId the value of field 'showFullId'.\r
}\r
\r
/**\r
+ * Sets the value of field 'showGroupConsensus'.\r
+ * \r
+ * @param showGroupConsensus the value of field\r
+ * 'showGroupConsensus'.\r
+ */\r
+ public void setShowGroupConsensus(\r
+ final boolean showGroupConsensus) {\r
+ this._showGroupConsensus = showGroupConsensus;\r
+ this._has_showGroupConsensus = true;\r
+ }\r
+\r
+ /**\r
+ * Sets the value of field 'showGroupConservation'.\r
+ * \r
+ * @param showGroupConservation the value of field\r
+ * 'showGroupConservation'.\r
+ */\r
+ public void setShowGroupConservation(\r
+ final boolean showGroupConservation) {\r
+ this._showGroupConservation = showGroupConservation;\r
+ this._has_showGroupConservation = true;\r
+ }\r
+\r
+ /**\r
+ * Sets the value of field 'showNPfeatureTooltip'.\r
+ * \r
+ * @param showNPfeatureTooltip the value of field\r
+ * 'showNPfeatureTooltip'.\r
+ */\r
+ public void setShowNPfeatureTooltip(\r
+ final boolean showNPfeatureTooltip) {\r
+ this._showNPfeatureTooltip = showNPfeatureTooltip;\r
+ this._has_showNPfeatureTooltip = true;\r
+ }\r
+\r
+ /**\r
* Sets the value of field 'showSequenceFeatures'.\r
* \r
* @param showSequenceFeatures the value of field\r
typeValidator.setWhiteSpace("preserve");\r
}\r
desc.setValidator(fieldValidator);\r
+ //-- _groupRef\r
+ desc = new org.exolab.castor.xml.util.XMLFieldDescriptorImpl(java.lang.String.class, "_groupRef", "groupRef", 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
+ Annotation target = (Annotation) object;\r
+ return target.getGroupRef();\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.setGroupRef( (java.lang.String) value);\r
+ } catch (java.lang.Exception ex) {\r
+ throw new IllegalStateException(ex.toString());\r
+ }\r
+ }\r
+ public java.lang.Object newInstance(java.lang.Object parent) {\r
+ return null;\r
+ }\r
+ };\r
+ desc.setHandler(handler);\r
+ desc.setMultivalued(false);\r
+ addFieldDescriptor(desc);\r
+ \r
+ //-- validation code for: _groupRef\r
+ fieldValidator = new org.exolab.castor.xml.FieldValidator();\r
+ { //-- local scope\r
+ org.exolab.castor.xml.validators.StringValidator typeValidator;\r
+ typeValidator = new org.exolab.castor.xml.validators.StringValidator();\r
+ fieldValidator.setValidator(typeValidator);\r
+ typeValidator.setWhiteSpace("preserve");\r
+ }\r
+ desc.setValidator(fieldValidator);\r
//-- _graphColour\r
desc = new org.exolab.castor.xml.util.XMLFieldDescriptorImpl(java.lang.Integer.TYPE, "_graphColour", "graphColour", org.exolab.castor.xml.NodeType.Attribute);\r
handler = new org.exolab.castor.xml.XMLFieldHandler() {\r
fieldValidator.setValidator(typeValidator);\r
}\r
desc.setValidator(fieldValidator);\r
+ //-- _centreColLabels\r
+ desc = new org.exolab.castor.xml.util.XMLFieldDescriptorImpl(java.lang.Boolean.TYPE, "_centreColLabels", "centreColLabels", 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.hasCentreColLabels()) { return null; }\r
+ return (target.getCentreColLabels() ? 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.deleteCentreColLabels();\r
+ return;\r
+ }\r
+ target.setCentreColLabels( ((java.lang.Boolean) value).booleanValue());\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.setMultivalued(false);\r
+ addFieldDescriptor(desc);\r
+ \r
+ //-- validation code for: _centreColLabels\r
+ fieldValidator = new org.exolab.castor.xml.FieldValidator();\r
+ { //-- local scope\r
+ org.exolab.castor.xml.validators.BooleanValidator typeValidator;\r
+ typeValidator = new org.exolab.castor.xml.validators.BooleanValidator();\r
+ fieldValidator.setValidator(typeValidator);\r
+ }\r
+ desc.setValidator(fieldValidator);\r
+ //-- _scaleColLabels\r
+ desc = new org.exolab.castor.xml.util.XMLFieldDescriptorImpl(java.lang.Boolean.TYPE, "_scaleColLabels", "scaleColLabels", 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.hasScaleColLabels()) { return null; }\r
+ return (target.getScaleColLabels() ? 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.deleteScaleColLabels();\r
+ return;\r
+ }\r
+ target.setScaleColLabels( ((java.lang.Boolean) value).booleanValue());\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.setMultivalued(false);\r
+ addFieldDescriptor(desc);\r
+ \r
+ //-- validation code for: _scaleColLabels\r
+ fieldValidator = new org.exolab.castor.xml.FieldValidator();\r
+ { //-- local scope\r
+ org.exolab.castor.xml.validators.BooleanValidator typeValidator;\r
+ typeValidator = new org.exolab.castor.xml.validators.BooleanValidator();\r
+ fieldValidator.setValidator(typeValidator);\r
+ }\r
+ desc.setValidator(fieldValidator);\r
+ //-- _showAllColLabels\r
+ desc = new org.exolab.castor.xml.util.XMLFieldDescriptorImpl(java.lang.Boolean.TYPE, "_showAllColLabels", "showAllColLabels", 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.hasShowAllColLabels()) { return null; }\r
+ return (target.getShowAllColLabels() ? 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.deleteShowAllColLabels();\r
+ return;\r
+ }\r
+ target.setShowAllColLabels( ((java.lang.Boolean) value).booleanValue());\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.setMultivalued(false);\r
+ addFieldDescriptor(desc);\r
+ \r
+ //-- validation code for: _showAllColLabels\r
+ fieldValidator = new org.exolab.castor.xml.FieldValidator();\r
+ { //-- local scope\r
+ org.exolab.castor.xml.validators.BooleanValidator typeValidator;\r
+ typeValidator = new org.exolab.castor.xml.validators.BooleanValidator();\r
+ fieldValidator.setValidator(typeValidator);\r
+ }\r
+ desc.setValidator(fieldValidator);\r
+ //-- _autoCalculated\r
+ desc = new org.exolab.castor.xml.util.XMLFieldDescriptorImpl(java.lang.Boolean.TYPE, "_autoCalculated", "autoCalculated", 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.hasAutoCalculated()) { return null; }\r
+ return (target.getAutoCalculated() ? 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.deleteAutoCalculated();\r
+ return;\r
+ }\r
+ target.setAutoCalculated( ((java.lang.Boolean) value).booleanValue());\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.setMultivalued(false);\r
+ addFieldDescriptor(desc);\r
+ \r
+ //-- validation code for: _autoCalculated\r
+ fieldValidator = new org.exolab.castor.xml.FieldValidator();\r
+ { //-- local scope\r
+ org.exolab.castor.xml.validators.BooleanValidator typeValidator;\r
+ typeValidator = new org.exolab.castor.xml.validators.BooleanValidator();\r
+ fieldValidator.setValidator(typeValidator);\r
+ }\r
+ desc.setValidator(fieldValidator);\r
//-- initialize element descriptors\r
\r
//-- _annotationElementList\r
fieldValidator.setValidator(typeValidator);\r
}\r
desc.setValidator(fieldValidator);\r
+ //-- _ignoreGapsinConsensus\r
+ desc = new org.exolab.castor.xml.util.XMLFieldDescriptorImpl(java.lang.Boolean.TYPE, "_ignoreGapsinConsensus", "ignoreGapsinConsensus", 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
+ JGroup target = (JGroup) object;\r
+ if (!target.hasIgnoreGapsinConsensus()) { return null; }\r
+ return (target.getIgnoreGapsinConsensus() ? 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
+ JGroup target = (JGroup) object;\r
+ // if null, use delete method for optional primitives \r
+ if (value == null) {\r
+ target.deleteIgnoreGapsinConsensus();\r
+ return;\r
+ }\r
+ target.setIgnoreGapsinConsensus( ((java.lang.Boolean) value).booleanValue());\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.setMultivalued(false);\r
+ addFieldDescriptor(desc);\r
+ \r
+ //-- validation code for: _ignoreGapsinConsensus\r
+ fieldValidator = new org.exolab.castor.xml.FieldValidator();\r
+ { //-- local scope\r
+ org.exolab.castor.xml.validators.BooleanValidator typeValidator;\r
+ typeValidator = new org.exolab.castor.xml.validators.BooleanValidator();\r
+ fieldValidator.setValidator(typeValidator);\r
+ }\r
+ desc.setValidator(fieldValidator);\r
+ //-- _showConsensusHistogram\r
+ desc = new org.exolab.castor.xml.util.XMLFieldDescriptorImpl(java.lang.Boolean.TYPE, "_showConsensusHistogram", "showConsensusHistogram", 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
+ JGroup target = (JGroup) object;\r
+ if (!target.hasShowConsensusHistogram()) { return null; }\r
+ return (target.getShowConsensusHistogram() ? 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
+ JGroup target = (JGroup) object;\r
+ // if null, use delete method for optional primitives \r
+ if (value == null) {\r
+ target.deleteShowConsensusHistogram();\r
+ return;\r
+ }\r
+ target.setShowConsensusHistogram( ((java.lang.Boolean) value).booleanValue());\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.setMultivalued(false);\r
+ addFieldDescriptor(desc);\r
+ \r
+ //-- validation code for: _showConsensusHistogram\r
+ fieldValidator = new org.exolab.castor.xml.FieldValidator();\r
+ { //-- local scope\r
+ org.exolab.castor.xml.validators.BooleanValidator typeValidator;\r
+ typeValidator = new org.exolab.castor.xml.validators.BooleanValidator();\r
+ fieldValidator.setValidator(typeValidator);\r
+ }\r
+ desc.setValidator(fieldValidator);\r
+ //-- _showConsensusProfile\r
+ desc = new org.exolab.castor.xml.util.XMLFieldDescriptorImpl(java.lang.Boolean.TYPE, "_showConsensusProfile", "showConsensusProfile", 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
+ JGroup target = (JGroup) object;\r
+ if (!target.hasShowConsensusProfile()) { return null; }\r
+ return (target.getShowConsensusProfile() ? 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
+ JGroup target = (JGroup) object;\r
+ // if null, use delete method for optional primitives \r
+ if (value == null) {\r
+ target.deleteShowConsensusProfile();\r
+ return;\r
+ }\r
+ target.setShowConsensusProfile( ((java.lang.Boolean) value).booleanValue());\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.setMultivalued(false);\r
+ addFieldDescriptor(desc);\r
+ \r
+ //-- validation code for: _showConsensusProfile\r
+ fieldValidator = new org.exolab.castor.xml.FieldValidator();\r
+ { //-- local scope\r
+ org.exolab.castor.xml.validators.BooleanValidator typeValidator;\r
+ typeValidator = new org.exolab.castor.xml.validators.BooleanValidator();\r
+ fieldValidator.setValidator(typeValidator);\r
+ }\r
+ desc.setValidator(fieldValidator);\r
+ //-- _id\r
+ desc = new org.exolab.castor.xml.util.XMLFieldDescriptorImpl(java.lang.String.class, "_id", "id", 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
+ JGroup target = (JGroup) object;\r
+ return target.getId();\r
+ }\r
+ public void setValue( java.lang.Object object, java.lang.Object value) \r
+ throws IllegalStateException, IllegalArgumentException\r
+ {\r
+ try {\r
+ JGroup target = (JGroup) object;\r
+ target.setId( (java.lang.String) value);\r
+ } catch (java.lang.Exception ex) {\r
+ throw new IllegalStateException(ex.toString());\r
+ }\r
+ }\r
+ public java.lang.Object newInstance(java.lang.Object parent) {\r
+ return null;\r
+ }\r
+ };\r
+ desc.setHandler(handler);\r
+ desc.setMultivalued(false);\r
+ addFieldDescriptor(desc);\r
+ \r
+ //-- validation code for: _id\r
+ fieldValidator = new org.exolab.castor.xml.FieldValidator();\r
+ { //-- local scope\r
+ org.exolab.castor.xml.validators.StringValidator typeValidator;\r
+ typeValidator = new org.exolab.castor.xml.validators.StringValidator();\r
+ fieldValidator.setValidator(typeValidator);\r
+ typeValidator.setWhiteSpace("preserve");\r
+ }\r
+ desc.setValidator(fieldValidator);\r
//-- initialize element descriptors\r
\r
//-- _seqList\r
typeValidator.setMaxInclusive(2147483647);\r
}\r
desc.setValidator(fieldValidator);\r
+ //-- _max\r
+ desc = new org.exolab.castor.xml.util.XMLFieldDescriptorImpl(java.lang.Float.TYPE, "_max", "max", 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.hasMax()) { return null; }\r
+ return new java.lang.Float(target.getMax());\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.deleteMax();\r
+ return;\r
+ }\r
+ target.setMax( ((java.lang.Float) value).floatValue());\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.setMultivalued(false);\r
+ addFieldDescriptor(desc);\r
+ \r
+ //-- validation code for: _max\r
+ fieldValidator = new org.exolab.castor.xml.FieldValidator();\r
+ { //-- local scope\r
+ org.exolab.castor.xml.validators.FloatValidator typeValidator;\r
+ typeValidator = new org.exolab.castor.xml.validators.FloatValidator();\r
+ fieldValidator.setValidator(typeValidator);\r
+ typeValidator.setMinInclusive((float) -3.4028235E38);\r
+ typeValidator.setMaxInclusive((float) 3.4028235E38);\r
+ }\r
+ desc.setValidator(fieldValidator);\r
+ //-- _min\r
+ desc = new org.exolab.castor.xml.util.XMLFieldDescriptorImpl(java.lang.Float.TYPE, "_min", "min", 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.hasMin()) { return null; }\r
+ return new java.lang.Float(target.getMin());\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.deleteMin();\r
+ return;\r
+ }\r
+ target.setMin( ((java.lang.Float) value).floatValue());\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.setMultivalued(false);\r
+ addFieldDescriptor(desc);\r
+ \r
+ //-- validation code for: _min\r
+ fieldValidator = new org.exolab.castor.xml.FieldValidator();\r
+ { //-- local scope\r
+ org.exolab.castor.xml.validators.FloatValidator typeValidator;\r
+ typeValidator = new org.exolab.castor.xml.validators.FloatValidator();\r
+ fieldValidator.setValidator(typeValidator);\r
+ typeValidator.setMinInclusive((float) -3.4028235E38);\r
+ typeValidator.setMaxInclusive((float) 3.4028235E38);\r
+ }\r
+ desc.setValidator(fieldValidator);\r
+ //-- _colourByLabel\r
+ desc = new org.exolab.castor.xml.util.XMLFieldDescriptorImpl(java.lang.Boolean.TYPE, "_colourByLabel", "colourByLabel", 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.hasColourByLabel()) { return null; }\r
+ return (target.getColourByLabel() ? 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
+ Setting target = (Setting) object;\r
+ // if null, use delete method for optional primitives \r
+ if (value == null) {\r
+ target.deleteColourByLabel();\r
+ return;\r
+ }\r
+ target.setColourByLabel( ((java.lang.Boolean) value).booleanValue());\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.setMultivalued(false);\r
+ addFieldDescriptor(desc);\r
+ \r
+ //-- validation code for: _colourByLabel\r
+ fieldValidator = new org.exolab.castor.xml.FieldValidator();\r
+ { //-- local scope\r
+ org.exolab.castor.xml.validators.BooleanValidator typeValidator;\r
+ typeValidator = new org.exolab.castor.xml.validators.BooleanValidator();\r
+ fieldValidator.setValidator(typeValidator);\r
+ }\r
+ desc.setValidator(fieldValidator);\r
+ //-- _autoScale\r
+ desc = new org.exolab.castor.xml.util.XMLFieldDescriptorImpl(java.lang.Boolean.TYPE, "_autoScale", "autoScale", 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.hasAutoScale()) { return null; }\r
+ return (target.getAutoScale() ? 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
+ Setting target = (Setting) object;\r
+ // if null, use delete method for optional primitives \r
+ if (value == null) {\r
+ target.deleteAutoScale();\r
+ return;\r
+ }\r
+ target.setAutoScale( ((java.lang.Boolean) value).booleanValue());\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.setMultivalued(false);\r
+ addFieldDescriptor(desc);\r
+ \r
+ //-- validation code for: _autoScale\r
+ fieldValidator = new org.exolab.castor.xml.FieldValidator();\r
+ { //-- local scope\r
+ org.exolab.castor.xml.validators.BooleanValidator typeValidator;\r
+ typeValidator = new org.exolab.castor.xml.validators.BooleanValidator();\r
+ fieldValidator.setValidator(typeValidator);\r
+ }\r
+ desc.setValidator(fieldValidator);\r
//-- initialize element descriptors\r
\r
}\r
fieldValidator.setValidator(typeValidator);\r
}\r
desc.setValidator(fieldValidator);\r
+ //-- _showNPfeatureTooltip\r
+ desc = new org.exolab.castor.xml.util.XMLFieldDescriptorImpl(java.lang.Boolean.TYPE, "_showNPfeatureTooltip", "showNPfeatureTooltip", 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
+ Viewport target = (Viewport) object;\r
+ if (!target.hasShowNPfeatureTooltip()) { return null; }\r
+ return (target.getShowNPfeatureTooltip() ? 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
+ Viewport target = (Viewport) object;\r
+ // if null, use delete method for optional primitives \r
+ if (value == null) {\r
+ target.deleteShowNPfeatureTooltip();\r
+ return;\r
+ }\r
+ target.setShowNPfeatureTooltip( ((java.lang.Boolean) value).booleanValue());\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.setMultivalued(false);\r
+ addFieldDescriptor(desc);\r
+ \r
+ //-- validation code for: _showNPfeatureTooltip\r
+ fieldValidator = new org.exolab.castor.xml.FieldValidator();\r
+ { //-- local scope\r
+ org.exolab.castor.xml.validators.BooleanValidator typeValidator;\r
+ typeValidator = new org.exolab.castor.xml.validators.BooleanValidator();\r
+ fieldValidator.setValidator(typeValidator);\r
+ }\r
+ desc.setValidator(fieldValidator);\r
+ //-- _showDbRefTooltip\r
+ desc = new org.exolab.castor.xml.util.XMLFieldDescriptorImpl(java.lang.Boolean.TYPE, "_showDbRefTooltip", "showDbRefTooltip", 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
+ Viewport target = (Viewport) object;\r
+ if (!target.hasShowDbRefTooltip()) { return null; }\r
+ return (target.getShowDbRefTooltip() ? 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
+ Viewport target = (Viewport) object;\r
+ // if null, use delete method for optional primitives \r
+ if (value == null) {\r
+ target.deleteShowDbRefTooltip();\r
+ return;\r
+ }\r
+ target.setShowDbRefTooltip( ((java.lang.Boolean) value).booleanValue());\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.setMultivalued(false);\r
+ addFieldDescriptor(desc);\r
+ \r
+ //-- validation code for: _showDbRefTooltip\r
+ fieldValidator = new org.exolab.castor.xml.FieldValidator();\r
+ { //-- local scope\r
+ org.exolab.castor.xml.validators.BooleanValidator typeValidator;\r
+ typeValidator = new org.exolab.castor.xml.validators.BooleanValidator();\r
+ fieldValidator.setValidator(typeValidator);\r
+ }\r
+ desc.setValidator(fieldValidator);\r
+ //-- _followHighlight\r
+ desc = new org.exolab.castor.xml.util.XMLFieldDescriptorImpl(java.lang.Boolean.TYPE, "_followHighlight", "followHighlight", 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
+ Viewport target = (Viewport) object;\r
+ if (!target.hasFollowHighlight()) { return null; }\r
+ return (target.getFollowHighlight() ? 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
+ Viewport target = (Viewport) object;\r
+ // if null, use delete method for optional primitives \r
+ if (value == null) {\r
+ target.deleteFollowHighlight();\r
+ return;\r
+ }\r
+ target.setFollowHighlight( ((java.lang.Boolean) value).booleanValue());\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.setMultivalued(false);\r
+ addFieldDescriptor(desc);\r
+ \r
+ //-- validation code for: _followHighlight\r
+ fieldValidator = new org.exolab.castor.xml.FieldValidator();\r
+ { //-- local scope\r
+ org.exolab.castor.xml.validators.BooleanValidator typeValidator;\r
+ typeValidator = new org.exolab.castor.xml.validators.BooleanValidator();\r
+ fieldValidator.setValidator(typeValidator);\r
+ }\r
+ desc.setValidator(fieldValidator);\r
+ //-- _followSelection\r
+ desc = new org.exolab.castor.xml.util.XMLFieldDescriptorImpl(java.lang.Boolean.TYPE, "_followSelection", "followSelection", 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
+ Viewport target = (Viewport) object;\r
+ if (!target.hasFollowSelection()) { return null; }\r
+ return (target.getFollowSelection() ? 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
+ Viewport target = (Viewport) object;\r
+ // if null, use delete method for optional primitives \r
+ if (value == null) {\r
+ target.deleteFollowSelection();\r
+ return;\r
+ }\r
+ target.setFollowSelection( ((java.lang.Boolean) value).booleanValue());\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.setMultivalued(false);\r
+ addFieldDescriptor(desc);\r
+ \r
+ //-- validation code for: _followSelection\r
+ fieldValidator = new org.exolab.castor.xml.FieldValidator();\r
+ { //-- local scope\r
+ org.exolab.castor.xml.validators.BooleanValidator typeValidator;\r
+ typeValidator = new org.exolab.castor.xml.validators.BooleanValidator();\r
+ fieldValidator.setValidator(typeValidator);\r
+ }\r
+ desc.setValidator(fieldValidator);\r
//-- _showAnnotation\r
desc = new org.exolab.castor.xml.util.XMLFieldDescriptorImpl(java.lang.Boolean.TYPE, "_showAnnotation", "showAnnotation", org.exolab.castor.xml.NodeType.Attribute);\r
handler = new org.exolab.castor.xml.XMLFieldHandler() {\r
fieldValidator.setValidator(typeValidator);\r
}\r
desc.setValidator(fieldValidator);\r
+ //-- _centreColumnLabels\r
+ desc = new org.exolab.castor.xml.util.XMLFieldDescriptorImpl(java.lang.Boolean.TYPE, "_centreColumnLabels", "centreColumnLabels", 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
+ Viewport target = (Viewport) object;\r
+ if (!target.hasCentreColumnLabels()) { return null; }\r
+ return (target.getCentreColumnLabels() ? 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
+ Viewport target = (Viewport) object;\r
+ // if null, use delete method for optional primitives \r
+ if (value == null) {\r
+ target.deleteCentreColumnLabels();\r
+ return;\r
+ }\r
+ target.setCentreColumnLabels( ((java.lang.Boolean) value).booleanValue());\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.setMultivalued(false);\r
+ addFieldDescriptor(desc);\r
+ \r
+ //-- validation code for: _centreColumnLabels\r
+ fieldValidator = new org.exolab.castor.xml.FieldValidator();\r
+ { //-- local scope\r
+ org.exolab.castor.xml.validators.BooleanValidator typeValidator;\r
+ typeValidator = new org.exolab.castor.xml.validators.BooleanValidator();\r
+ fieldValidator.setValidator(typeValidator);\r
+ }\r
+ desc.setValidator(fieldValidator);\r
+ //-- _showGroupConservation\r
+ desc = new org.exolab.castor.xml.util.XMLFieldDescriptorImpl(java.lang.Boolean.TYPE, "_showGroupConservation", "showGroupConservation", 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
+ Viewport target = (Viewport) object;\r
+ if (!target.hasShowGroupConservation()) { return null; }\r
+ return (target.getShowGroupConservation() ? 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
+ Viewport target = (Viewport) object;\r
+ // if null, use delete method for optional primitives \r
+ if (value == null) {\r
+ target.deleteShowGroupConservation();\r
+ return;\r
+ }\r
+ target.setShowGroupConservation( ((java.lang.Boolean) value).booleanValue());\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.setMultivalued(false);\r
+ addFieldDescriptor(desc);\r
+ \r
+ //-- validation code for: _showGroupConservation\r
+ fieldValidator = new org.exolab.castor.xml.FieldValidator();\r
+ { //-- local scope\r
+ org.exolab.castor.xml.validators.BooleanValidator typeValidator;\r
+ typeValidator = new org.exolab.castor.xml.validators.BooleanValidator();\r
+ fieldValidator.setValidator(typeValidator);\r
+ }\r
+ desc.setValidator(fieldValidator);\r
+ //-- _showGroupConsensus\r
+ desc = new org.exolab.castor.xml.util.XMLFieldDescriptorImpl(java.lang.Boolean.TYPE, "_showGroupConsensus", "showGroupConsensus", 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
+ Viewport target = (Viewport) object;\r
+ if (!target.hasShowGroupConsensus()) { return null; }\r
+ return (target.getShowGroupConsensus() ? 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
+ Viewport target = (Viewport) object;\r
+ // if null, use delete method for optional primitives \r
+ if (value == null) {\r
+ target.deleteShowGroupConsensus();\r
+ return;\r
+ }\r
+ target.setShowGroupConsensus( ((java.lang.Boolean) value).booleanValue());\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.setMultivalued(false);\r
+ addFieldDescriptor(desc);\r
+ \r
+ //-- validation code for: _showGroupConsensus\r
+ fieldValidator = new org.exolab.castor.xml.FieldValidator();\r
+ { //-- local scope\r
+ org.exolab.castor.xml.validators.BooleanValidator typeValidator;\r
+ typeValidator = new org.exolab.castor.xml.validators.BooleanValidator();\r
+ fieldValidator.setValidator(typeValidator);\r
+ }\r
+ desc.setValidator(fieldValidator);\r
+ //-- _showConsensusHistogram\r
+ desc = new org.exolab.castor.xml.util.XMLFieldDescriptorImpl(java.lang.Boolean.TYPE, "_showConsensusHistogram", "showConsensusHistogram", 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
+ Viewport target = (Viewport) object;\r
+ if (!target.hasShowConsensusHistogram()) { return null; }\r
+ return (target.getShowConsensusHistogram() ? 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
+ Viewport target = (Viewport) object;\r
+ // if null, use delete method for optional primitives \r
+ if (value == null) {\r
+ target.deleteShowConsensusHistogram();\r
+ return;\r
+ }\r
+ target.setShowConsensusHistogram( ((java.lang.Boolean) value).booleanValue());\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.setMultivalued(false);\r
+ addFieldDescriptor(desc);\r
+ \r
+ //-- validation code for: _showConsensusHistogram\r
+ fieldValidator = new org.exolab.castor.xml.FieldValidator();\r
+ { //-- local scope\r
+ org.exolab.castor.xml.validators.BooleanValidator typeValidator;\r
+ typeValidator = new org.exolab.castor.xml.validators.BooleanValidator();\r
+ fieldValidator.setValidator(typeValidator);\r
+ }\r
+ desc.setValidator(fieldValidator);\r
+ //-- _showConsensusProfile\r
+ desc = new org.exolab.castor.xml.util.XMLFieldDescriptorImpl(java.lang.Boolean.TYPE, "_showConsensusProfile", "showConsensusProfile", 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
+ Viewport target = (Viewport) object;\r
+ if (!target.hasShowConsensusProfile()) { return null; }\r
+ return (target.getShowConsensusProfile() ? 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
+ Viewport target = (Viewport) object;\r
+ // if null, use delete method for optional primitives \r
+ if (value == null) {\r
+ target.deleteShowConsensusProfile();\r
+ return;\r
+ }\r
+ target.setShowConsensusProfile( ((java.lang.Boolean) value).booleanValue());\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.setMultivalued(false);\r
+ addFieldDescriptor(desc);\r
+ \r
+ //-- validation code for: _showConsensusProfile\r
+ fieldValidator = new org.exolab.castor.xml.FieldValidator();\r
+ { //-- local scope\r
+ org.exolab.castor.xml.validators.BooleanValidator typeValidator;\r
+ typeValidator = new org.exolab.castor.xml.validators.BooleanValidator();\r
+ fieldValidator.setValidator(typeValidator);\r
+ }\r
+ desc.setValidator(fieldValidator);\r
+ //-- _ignoreGapsinConsensus\r
+ desc = new org.exolab.castor.xml.util.XMLFieldDescriptorImpl(java.lang.Boolean.TYPE, "_ignoreGapsinConsensus", "ignoreGapsinConsensus", 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
+ Viewport target = (Viewport) object;\r
+ if (!target.hasIgnoreGapsinConsensus()) { return null; }\r
+ return (target.getIgnoreGapsinConsensus() ? 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
+ Viewport target = (Viewport) object;\r
+ // if null, use delete method for optional primitives \r
+ if (value == null) {\r
+ target.deleteIgnoreGapsinConsensus();\r
+ return;\r
+ }\r
+ target.setIgnoreGapsinConsensus( ((java.lang.Boolean) value).booleanValue());\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.setMultivalued(false);\r
+ addFieldDescriptor(desc);\r
+ \r
+ //-- validation code for: _ignoreGapsinConsensus\r
+ fieldValidator = new org.exolab.castor.xml.FieldValidator();\r
+ { //-- local scope\r
+ org.exolab.castor.xml.validators.BooleanValidator typeValidator;\r
+ typeValidator = new org.exolab.castor.xml.validators.BooleanValidator();\r
+ fieldValidator.setValidator(typeValidator);\r
+ }\r
+ desc.setValidator(fieldValidator);\r
//-- _xpos\r
desc = new org.exolab.castor.xml.util.XMLFieldDescriptorImpl(java.lang.Integer.TYPE, "_xpos", "xpos", org.exolab.castor.xml.NodeType.Attribute);\r
handler = new org.exolab.castor.xml.XMLFieldHandler() {\r
git://source.jalview.org / jalview.git / commitdiff