/*
* Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$)
* Copyright (C) $$Year-Rel$$ 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.
*/
package jalview.datamodel;
/**
* DOCUMENT ME!
*
* @author $author$
* @version $Revision$
*/
public class SequenceNode extends BinaryNode
{
private boolean placeholder = false;
/**
* Creates a new SequenceNode object.
*/
public SequenceNode()
{
super();
}
public SequenceNode(SequenceI val, BinaryNode parent,
String name, double dist, int bootstrap, boolean dummy)
{
super(val, parent, name, dist, bootstrap, dummy);
}
public SequenceNode(SequenceI element, BinaryNode parent,
String name, double dist, int bootstrap)
{
super(element, parent, name, dist, bootstrap);
}
public SequenceNode(SequenceI element, BinaryNode parent,
String name, double dist)
{
super(element, parent, name, dist);
}
/*
* @param placeholder is true if the sequence refered to in the element node
* is not actually present in the associated alignment
*/
public boolean isPlaceholder()
{
return placeholder;
}
/**
* DOCUMENT ME!
*
* @param Placeholder
* DOCUMENT ME!
*/
public void setPlaceholder(boolean Placeholder)
{
this.placeholder = Placeholder;
}
/**
* test if this node has a name that might be a label rather than a bootstrap
* value
*
* @return true if node has a non-numeric label
*/
public boolean isSequenceLabel()
{
if (name != null && name.length() > 0)
{
for (int c = 0, s = name.length(); c < s; c++)
{
char q = name.charAt(c);
if ('0' <= q && q <= '9')
{
continue;
}
return true;
}
}
return false;
}
}