Classes

Class	Line #	Total Statements	Complexity	TOTAL Coverage	Actions
RNAInteractionColourScheme	29	9	7	0.00%	Show methods

Class RNAInteractionColourScheme

Class RNAInteractionColourScheme	Line # 29	Total Statements 9	Complexity 7	TOTAL Coverage 0.00%
RNAInteractionColourScheme()   RNAInteractionColourScheme()	3131	1.01	1.01	0.0 0.00%
findColour(char) : Color   findColour(char) : Color	3636	1.01	1.01	0.0 0.00%
findColour(char,int,SequenceI) : Color   findColour(char,int,SequenceI) : Color	4343	4.04	2.02	0.0 0.00%
isNucleotideSpecific() : boolean   isNucleotideSpecific() : boolean	5858	1.01	1.01	0.0 0.00%
getSchemeName() : String   getSchemeName() : String	6464	1.01	1.01	0.0 0.00%
getInstance(AlignViewportI,AnnotatedCollectionI) : ColourSchemeI   getInstance(AlignViewportI,AnnotatedCollectionI) : ColourSchemeI	7474	1.01	1.01	0.0 0.00%

 

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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.schemes;
22
23		import jalview.api.AlignViewportI;
24		import jalview.datamodel.AnnotatedCollectionI;
25		import jalview.datamodel.SequenceI;
26
27		import java.awt.Color;
28
		0% Uncovered Elements: 15 (15) Complexity: 7 Complexity Density: 0.78
29		public class RNAInteractionColourScheme extends ResidueColourScheme
30		{
		0% Uncovered Elements: 1 (1) Complexity: 1 Complexity Density: 1
31	0	public RNAInteractionColourScheme()...
32		{
33	0	super();
34		}
35
		0% Uncovered Elements: 1 (1) Complexity: 1 Complexity Density: 1
36	0	@Override...
37		public Color findColour(char c)
38		{
39		// FIXME this is just a copy of NucleotideColourScheme
40	0	return colors[ResidueProperties.nucleotideIndex[c]];
41		}
42
		0% Uncovered Elements: 4 (4) Complexity: 2 Complexity Density: 0.5
43	0	@Override...
44		public Color findColour(char c, int j, SequenceI seq)
45		{
46		// FIXME this is just a copy of NucleotideColourScheme
47	0	Color currentColour = Color.white;
48	0	try
49		{
50	0	currentColour = colors[ResidueProperties.nucleotideIndex[c]];
51		} catch (Exception ex)
52		{
53		}
54
55	0	return currentColour;
56		}
57
		0% Uncovered Elements: 1 (1) Complexity: 1 Complexity Density: 1
58	0	@Override...
59		public boolean isNucleotideSpecific()
60		{
61	0	return true;
62		}
63
		0% Uncovered Elements: 1 (1) Complexity: 1 Complexity Density: 1
64	0	@Override...
65		public String getSchemeName()
66		{
67	0	return "RNA Interaction type";
68		}
69
70		/**
71		* Returns a new instance of this colour scheme with which the given data may
72		* be coloured
73		*/
		0% Uncovered Elements: 1 (1) Complexity: 1 Complexity Density: 1
74	0	@Override...
75		public ColourSchemeI getInstance(AlignViewportI view,
76		AnnotatedCollectionI coll)
77		{
78	0	return new RNAInteractionColourScheme();
79		}
80		}