/*
* 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;
import java.awt.Color;
import java.util.BitSet;
import java.util.List;
public interface GroupSetI
{
boolean hasGroups();
String getNewick();
boolean hasTree();
void updateGroups(List colGroups);
BitSet getGroupsFor(int column);
Color getColourForGroup(BitSet bs);
void setColorForGroup(BitSet bs, Color color);
void restoreGroups(List newgroups, String treeMethod, String tree,
double thresh2);
boolean hasCutHeight();
double getCutHeight();
String getTreeMethod();
List getGroups();
}