+++ /dev/null
-/*
- * This class was automatically generated with
- * <a href="http://www.castor.org">Castor 1.1</a>, using an XML
- * Schema.
- * $Id$
- */
-
-package jalview.schemabinding.version2;
-
-//---------------------------------/
-//- Imported classes and packages -/
-//---------------------------------/
-
-import org.exolab.castor.xml.Marshaller;
-import org.exolab.castor.xml.Unmarshaller;
-
-/**
- * Class SecondaryStructure.
- *
- * @version $Revision$ $Date$
- */
-public class SecondaryStructure implements java.io.Serializable
-{
-
- // --------------------------/
- // - Class/Member Variables -/
- // --------------------------/
-
- /**
- * Field _title.
- */
- private java.lang.String _title;
-
- /**
- * id attribute of Annotation in vamsasModel for the secondary structure
- * annotation shown in the viewer
- *
- */
- private java.lang.String _annotationId;
-
- /**
- * if true the RNA structure is shown with gaps, if false without
- *
- */
- private boolean _gapped;
-
- /**
- * keeps track of state for field: _gapped
- */
- private boolean _has_gapped;
-
- /**
- * name of the project jar entry that holds the VARNA viewer state for the
- * structure
- *
- */
- private java.lang.String _viewerState;
-
- // ----------------/
- // - Constructors -/
- // ----------------/
-
- public SecondaryStructure()
- {
- super();
- }
-
- // -----------/
- // - Methods -/
- // -----------/
-
- /**
- */
- public void deleteGapped()
- {
- this._has_gapped = false;
- }
-
- /**
- * Returns the value of field 'annotationId'. The field 'annotationId' has the
- * following description: id attribute of Annotation in vamsasModel for the
- * secondary structure annotation shown in the viewer
- *
- *
- * @return the value of field 'AnnotationId'.
- */
- public java.lang.String getAnnotationId()
- {
- return this._annotationId;
- }
-
- /**
- * Returns the value of field 'gapped'. The field 'gapped' has the following
- * description: if true the RNA structure is shown with gaps, if false without
- *
- *
- * @return the value of field 'Gapped'.
- */
- public boolean getGapped()
- {
- return this._gapped;
- }
-
- /**
- * Returns the value of field 'title'.
- *
- * @return the value of field 'Title'.
- */
- public java.lang.String getTitle()
- {
- return this._title;
- }
-
- /**
- * Returns the value of field 'viewerState'. The field 'viewerState' has the
- * following description: name of the project jar entry that holds the VARNA
- * viewer state for the structure
- *
- *
- * @return the value of field 'ViewerState'.
- */
- public java.lang.String getViewerState()
- {
- return this._viewerState;
- }
-
- /**
- * Method hasGapped.
- *
- * @return true if at least one Gapped has been added
- */
- public boolean hasGapped()
- {
- return this._has_gapped;
- }
-
- /**
- * Returns the value of field 'gapped'. The field 'gapped' has the following
- * description: if true the RNA structure is shown with gaps, if false without
- *
- *
- * @return the value of field 'Gapped'.
- */
- public boolean isGapped()
- {
- return this._gapped;
- }
-
- /**
- * Method isValid.
- *
- * @return true if this object is valid according to the schema
- */
- public boolean isValid()
- {
- try
- {
- validate();
- } catch (org.exolab.castor.xml.ValidationException vex)
- {
- return false;
- }
- return true;
- }
-
- /**
- *
- *
- * @param out
- * @throws org.exolab.castor.xml.MarshalException
- * if object is null or if any SAXException is thrown during
- * marshaling
- * @throws org.exolab.castor.xml.ValidationException
- * if this object is an invalid instance according to the schema
- */
- public void marshal(final java.io.Writer out)
- throws org.exolab.castor.xml.MarshalException,
- org.exolab.castor.xml.ValidationException
- {
- Marshaller.marshal(this, out);
- }
-
- /**
- *
- *
- * @param handler
- * @throws java.io.IOException
- * if an IOException occurs during marshaling
- * @throws org.exolab.castor.xml.ValidationException
- * if this object is an invalid instance according to the schema
- * @throws org.exolab.castor.xml.MarshalException
- * if object is null or if any SAXException is thrown during
- * marshaling
- */
- public void marshal(final org.xml.sax.ContentHandler handler)
- throws java.io.IOException,
- org.exolab.castor.xml.MarshalException,
- org.exolab.castor.xml.ValidationException
- {
- Marshaller.marshal(this, handler);
- }
-
- /**
- * Sets the value of field 'annotationId'. The field 'annotationId' has the
- * following description: id attribute of Annotation in vamsasModel for the
- * secondary structure annotation shown in the viewer
- *
- *
- * @param annotationId
- * the value of field 'annotationId'.
- */
- public void setAnnotationId(final java.lang.String annotationId)
- {
- this._annotationId = annotationId;
- }
-
- /**
- * Sets the value of field 'gapped'. The field 'gapped' has the following
- * description: if true the RNA structure is shown with gaps, if false without
- *
- *
- * @param gapped
- * the value of field 'gapped'.
- */
- public void setGapped(final boolean gapped)
- {
- this._gapped = gapped;
- this._has_gapped = true;
- }
-
- /**
- * Sets the value of field 'title'.
- *
- * @param title
- * the value of field 'title'.
- */
- public void setTitle(final java.lang.String title)
- {
- this._title = title;
- }
-
- /**
- * Sets the value of field 'viewerState'. The field 'viewerState' has the
- * following description: name of the project jar entry that holds the VARNA
- * viewer state for the structure
- *
- *
- * @param viewerState
- * the value of field 'viewerState'.
- */
- public void setViewerState(final java.lang.String viewerState)
- {
- this._viewerState = viewerState;
- }
-
- /**
- * Method unmarshal.
- *
- * @param reader
- * @throws org.exolab.castor.xml.MarshalException
- * if object is null or if any SAXException is thrown during
- * marshaling
- * @throws org.exolab.castor.xml.ValidationException
- * if this object is an invalid instance according to the schema
- * @return the unmarshaled jalview.schemabinding.version2.SecondaryStructure
- */
- public static jalview.schemabinding.version2.SecondaryStructure unmarshal(
- final java.io.Reader reader)
- throws org.exolab.castor.xml.MarshalException,
- org.exolab.castor.xml.ValidationException
- {
- return (jalview.schemabinding.version2.SecondaryStructure) Unmarshaller
- .unmarshal(
- jalview.schemabinding.version2.SecondaryStructure.class,
- reader);
- }
-
- /**
- *
- *
- * @throws org.exolab.castor.xml.ValidationException
- * if this object is an invalid instance according to the schema
- */
- public void validate() throws org.exolab.castor.xml.ValidationException
- {
- org.exolab.castor.xml.Validator validator = new org.exolab.castor.xml.Validator();
- validator.validate(this);
- }
-
-}
git://source.jalview.org / jalview.git / blobdiff