/*******************************************************************************
* Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$)
* Copyright (C) $(date) The Jalview Authors
*
* This file is part of Jalview.
*
* Jalview is free software: you can redistribute it and/or
* modify it under the terms of the GNU General Public License
* as published by the Free Software Foundation, either version 3
* of the License, or (at your option) any later version.
*
* Jalview is distributed in the hope that it will be useful, but
* WITHOUT ANY WARRANTY; without even the implied warranty
* of MERCHANTABILITY or FITNESS FOR A PARTICULAR
* PURPOSE. See the GNU General Public License for more details.
*
* You should have received a copy of the GNU General Public License
* along with Jalview. If not, see .
* The Jalview Authors are detailed in the 'AUTHORS' file.
*******************************************************************************/
/*
* This class was automatically generated with
* Castor 1.1, using an XML
* Schema.
* $Id$
*/
package jalview.binding;
//---------------------------------/
//- Imported classes and packages -/
//---------------------------------/
import org.exolab.castor.xml.Marshaller;
import org.exolab.castor.xml.Unmarshaller;
/**
* Class Tree.
*
* @version $Revision$ $Date$
*/
public class Tree implements java.io.Serializable
{
// --------------------------/
// - Class/Member Variables -/
// --------------------------/
/**
* Field _width.
*/
private int _width;
/**
* keeps track of state for field: _width
*/
private boolean _has_width;
/**
* Field _height.
*/
private int _height;
/**
* keeps track of state for field: _height
*/
private boolean _has_height;
/**
* Field _xpos.
*/
private int _xpos;
/**
* keeps track of state for field: _xpos
*/
private boolean _has_xpos;
/**
* Field _ypos.
*/
private int _ypos;
/**
* keeps track of state for field: _ypos
*/
private boolean _has_ypos;
/**
* Field _fontName.
*/
private java.lang.String _fontName;
/**
* Field _fontSize.
*/
private int _fontSize;
/**
* keeps track of state for field: _fontSize
*/
private boolean _has_fontSize;
/**
* Field _fontStyle.
*/
private int _fontStyle;
/**
* keeps track of state for field: _fontStyle
*/
private boolean _has_fontStyle;
/**
* Field _threshold.
*/
private float _threshold;
/**
* keeps track of state for field: _threshold
*/
private boolean _has_threshold;
/**
* Field _showBootstrap.
*/
private boolean _showBootstrap;
/**
* keeps track of state for field: _showBootstrap
*/
private boolean _has_showBootstrap;
/**
* Field _showDistances.
*/
private boolean _showDistances;
/**
* keeps track of state for field: _showDistances
*/
private boolean _has_showDistances;
/**
* Field _markUnlinked.
*/
private boolean _markUnlinked;
/**
* keeps track of state for field: _markUnlinked
*/
private boolean _has_markUnlinked;
/**
* Field _fitToWindow.
*/
private boolean _fitToWindow;
/**
* keeps track of state for field: _fitToWindow
*/
private boolean _has_fitToWindow;
/**
* Field _currentTree.
*/
private boolean _currentTree;
/**
* keeps track of state for field: _currentTree
*/
private boolean _has_currentTree;
/**
* Field _title.
*/
private java.lang.String _title;
/**
* Field _newick.
*/
private java.lang.String _newick;
// ----------------/
// - Constructors -/
// ----------------/
public Tree()
{
super();
}
// -----------/
// - Methods -/
// -----------/
/**
*/
public void deleteCurrentTree()
{
this._has_currentTree = false;
}
/**
*/
public void deleteFitToWindow()
{
this._has_fitToWindow = false;
}
/**
*/
public void deleteFontSize()
{
this._has_fontSize = false;
}
/**
*/
public void deleteFontStyle()
{
this._has_fontStyle = false;
}
/**
*/
public void deleteHeight()
{
this._has_height = false;
}
/**
*/
public void deleteMarkUnlinked()
{
this._has_markUnlinked = false;
}
/**
*/
public void deleteShowBootstrap()
{
this._has_showBootstrap = false;
}
/**
*/
public void deleteShowDistances()
{
this._has_showDistances = false;
}
/**
*/
public void deleteThreshold()
{
this._has_threshold = false;
}
/**
*/
public void deleteWidth()
{
this._has_width = false;
}
/**
*/
public void deleteXpos()
{
this._has_xpos = false;
}
/**
*/
public void deleteYpos()
{
this._has_ypos = false;
}
/**
* Returns the value of field 'currentTree'.
*
* @return the value of field 'CurrentTree'.
*/
public boolean getCurrentTree()
{
return this._currentTree;
}
/**
* Returns the value of field 'fitToWindow'.
*
* @return the value of field 'FitToWindow'.
*/
public boolean getFitToWindow()
{
return this._fitToWindow;
}
/**
* Returns the value of field 'fontName'.
*
* @return the value of field 'FontName'.
*/
public java.lang.String getFontName()
{
return this._fontName;
}
/**
* Returns the value of field 'fontSize'.
*
* @return the value of field 'FontSize'.
*/
public int getFontSize()
{
return this._fontSize;
}
/**
* Returns the value of field 'fontStyle'.
*
* @return the value of field 'FontStyle'.
*/
public int getFontStyle()
{
return this._fontStyle;
}
/**
* Returns the value of field 'height'.
*
* @return the value of field 'Height'.
*/
public int getHeight()
{
return this._height;
}
/**
* Returns the value of field 'markUnlinked'.
*
* @return the value of field 'MarkUnlinked'.
*/
public boolean getMarkUnlinked()
{
return this._markUnlinked;
}
/**
* Returns the value of field 'newick'.
*
* @return the value of field 'Newick'.
*/
public java.lang.String getNewick()
{
return this._newick;
}
/**
* Returns the value of field 'showBootstrap'.
*
* @return the value of field 'ShowBootstrap'.
*/
public boolean getShowBootstrap()
{
return this._showBootstrap;
}
/**
* Returns the value of field 'showDistances'.
*
* @return the value of field 'ShowDistances'.
*/
public boolean getShowDistances()
{
return this._showDistances;
}
/**
* Returns the value of field 'threshold'.
*
* @return the value of field 'Threshold'.
*/
public float getThreshold()
{
return this._threshold;
}
/**
* 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 'width'.
*
* @return the value of field 'Width'.
*/
public int getWidth()
{
return this._width;
}
/**
* Returns the value of field 'xpos'.
*
* @return the value of field 'Xpos'.
*/
public int getXpos()
{
return this._xpos;
}
/**
* Returns the value of field 'ypos'.
*
* @return the value of field 'Ypos'.
*/
public int getYpos()
{
return this._ypos;
}
/**
* Method hasCurrentTree.
*
* @return true if at least one CurrentTree has been added
*/
public boolean hasCurrentTree()
{
return this._has_currentTree;
}
/**
* Method hasFitToWindow.
*
* @return true if at least one FitToWindow has been added
*/
public boolean hasFitToWindow()
{
return this._has_fitToWindow;
}
/**
* Method hasFontSize.
*
* @return true if at least one FontSize has been added
*/
public boolean hasFontSize()
{
return this._has_fontSize;
}
/**
* Method hasFontStyle.
*
* @return true if at least one FontStyle has been added
*/
public boolean hasFontStyle()
{
return this._has_fontStyle;
}
/**
* Method hasHeight.
*
* @return true if at least one Height has been added
*/
public boolean hasHeight()
{
return this._has_height;
}
/**
* Method hasMarkUnlinked.
*
* @return true if at least one MarkUnlinked has been added
*/
public boolean hasMarkUnlinked()
{
return this._has_markUnlinked;
}
/**
* Method hasShowBootstrap.
*
* @return true if at least one ShowBootstrap has been added
*/
public boolean hasShowBootstrap()
{
return this._has_showBootstrap;
}
/**
* Method hasShowDistances.
*
* @return true if at least one ShowDistances has been added
*/
public boolean hasShowDistances()
{
return this._has_showDistances;
}
/**
* Method hasThreshold.
*
* @return true if at least one Threshold has been added
*/
public boolean hasThreshold()
{
return this._has_threshold;
}
/**
* Method hasWidth.
*
* @return true if at least one Width has been added
*/
public boolean hasWidth()
{
return this._has_width;
}
/**
* Method hasXpos.
*
* @return true if at least one Xpos has been added
*/
public boolean hasXpos()
{
return this._has_xpos;
}
/**
* Method hasYpos.
*
* @return true if at least one Ypos has been added
*/
public boolean hasYpos()
{
return this._has_ypos;
}
/**
* Returns the value of field 'currentTree'.
*
* @return the value of field 'CurrentTree'.
*/
public boolean isCurrentTree()
{
return this._currentTree;
}
/**
* Returns the value of field 'fitToWindow'.
*
* @return the value of field 'FitToWindow'.
*/
public boolean isFitToWindow()
{
return this._fitToWindow;
}
/**
* Returns the value of field 'markUnlinked'.
*
* @return the value of field 'MarkUnlinked'.
*/
public boolean isMarkUnlinked()
{
return this._markUnlinked;
}
/**
* Returns the value of field 'showBootstrap'.
*
* @return the value of field 'ShowBootstrap'.
*/
public boolean isShowBootstrap()
{
return this._showBootstrap;
}
/**
* Returns the value of field 'showDistances'.
*
* @return the value of field 'ShowDistances'.
*/
public boolean isShowDistances()
{
return this._showDistances;
}
/**
* 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 'currentTree'.
*
* @param currentTree
* the value of field 'currentTree'.
*/
public void setCurrentTree(final boolean currentTree)
{
this._currentTree = currentTree;
this._has_currentTree = true;
}
/**
* Sets the value of field 'fitToWindow'.
*
* @param fitToWindow
* the value of field 'fitToWindow'.
*/
public void setFitToWindow(final boolean fitToWindow)
{
this._fitToWindow = fitToWindow;
this._has_fitToWindow = true;
}
/**
* Sets the value of field 'fontName'.
*
* @param fontName
* the value of field 'fontName'.
*/
public void setFontName(final java.lang.String fontName)
{
this._fontName = fontName;
}
/**
* Sets the value of field 'fontSize'.
*
* @param fontSize
* the value of field 'fontSize'.
*/
public void setFontSize(final int fontSize)
{
this._fontSize = fontSize;
this._has_fontSize = true;
}
/**
* Sets the value of field 'fontStyle'.
*
* @param fontStyle
* the value of field 'fontStyle'.
*/
public void setFontStyle(final int fontStyle)
{
this._fontStyle = fontStyle;
this._has_fontStyle = true;
}
/**
* Sets the value of field 'height'.
*
* @param height
* the value of field 'height'.
*/
public void setHeight(final int height)
{
this._height = height;
this._has_height = true;
}
/**
* Sets the value of field 'markUnlinked'.
*
* @param markUnlinked
* the value of field 'markUnlinked'.
*/
public void setMarkUnlinked(final boolean markUnlinked)
{
this._markUnlinked = markUnlinked;
this._has_markUnlinked = true;
}
/**
* Sets the value of field 'newick'.
*
* @param newick
* the value of field 'newick'.
*/
public void setNewick(final java.lang.String newick)
{
this._newick = newick;
}
/**
* Sets the value of field 'showBootstrap'.
*
* @param showBootstrap
* the value of field 'showBootstrap'.
*/
public void setShowBootstrap(final boolean showBootstrap)
{
this._showBootstrap = showBootstrap;
this._has_showBootstrap = true;
}
/**
* Sets the value of field 'showDistances'.
*
* @param showDistances
* the value of field 'showDistances'.
*/
public void setShowDistances(final boolean showDistances)
{
this._showDistances = showDistances;
this._has_showDistances = true;
}
/**
* Sets the value of field 'threshold'.
*
* @param threshold
* the value of field 'threshold'.
*/
public void setThreshold(final float threshold)
{
this._threshold = threshold;
this._has_threshold = 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 'width'.
*
* @param width
* the value of field 'width'.
*/
public void setWidth(final int width)
{
this._width = width;
this._has_width = true;
}
/**
* Sets the value of field 'xpos'.
*
* @param xpos
* the value of field 'xpos'.
*/
public void setXpos(final int xpos)
{
this._xpos = xpos;
this._has_xpos = true;
}
/**
* Sets the value of field 'ypos'.
*
* @param ypos
* the value of field 'ypos'.
*/
public void setYpos(final int ypos)
{
this._ypos = ypos;
this._has_ypos = true;
}
/**
* 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.binding.Tree
*/
public static jalview.binding.Tree unmarshal(final java.io.Reader reader)
throws org.exolab.castor.xml.MarshalException,
org.exolab.castor.xml.ValidationException
{
return (jalview.binding.Tree) Unmarshaller
.unmarshal(jalview.binding.Tree.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);
}
}