Classes

Class	Line #	Total Statements	Complexity	TOTAL Coverage	Actions
GroupSetI	27	0	0	-1.0 -	Show methods

Class GroupSetI

Class GroupSetI	Line # 27	Total Statements 0	Complexity 0	TOTAL Coverage -1.0 -

 

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1		/*
2		* Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$)
3		* Copyright (C) $$Year-Rel$$ The Jalview Authors
4		*
5		* This file is part of Jalview.
6		*
7		* Jalview is free software: you can redistribute it and/or
8		* modify it under the terms of the GNU General Public License
9		* as published by the Free Software Foundation, either version 3
10		* of the License, or (at your option) any later version.
11		*
12		* Jalview is distributed in the hope that it will be useful, but
13		* WITHOUT ANY WARRANTY; without even the implied warranty
14		* of MERCHANTABILITY or FITNESS FOR A PARTICULAR
15		* PURPOSE. See the GNU General Public License for more details.
16		*
17		* You should have received a copy of the GNU General Public License
18		* along with Jalview. If not, see <http://www.gnu.org/licenses/>.
19		* The Jalview Authors are detailed in the 'AUTHORS' file.
20		*/
21		package jalview.datamodel;
22
23		import java.awt.Color;
24		import java.util.BitSet;
25		import java.util.List;
26
		- Uncovered Elements: 0 (0) Complexity: 0 Complexity Density: -
27		public interface GroupSetI
28		{
29		boolean hasGroups();
30
31		String getNewick();
32
33		boolean hasTree();
34
35		void updateGroups(List<BitSet> colGroups);
36
37		BitSet getGroupsFor(int column);
38
39		Color getColourForGroup(BitSet bs);
40
41		void setColorForGroup(BitSet bs, Color color);
42
43		void restoreGroups(List<BitSet> newgroups, String treeMethod, String tree,
44		double thresh2);
45
46		boolean hasCutHeight();
47
48		double getCutHeight();
49
50		String getTreeMethod();
51
52		List<BitSet> getGroups();
53
54		void transferGroupColorsTo(AlignmentAnnotation aa);
55
56		}