Classes

Class	Line #	Total Statements	Complexity	TOTAL Coverage	Actions
PDBFeatureSettings	31	14	9	0.00%	Show methods

Class PDBFeatureSettings

Class PDBFeatureSettings	Line # 31	Total Statements 14	Complexity 9	TOTAL Coverage 0.00%
isFeatureHidden(String) : boolean   isFeatureHidden(String) : boolean	3838	1.01	1.01	0.0 0.00%
getColour() : Color   getColour() : Color	5252	1.01	1.01	0.0 0.00%
getFeatureColour(String) : FeatureColourI   getFeatureColour(String) : FeatureColourI	4444	3.03	2.02	0.0 0.00%
compare(String,String) : int   compare(String,String) : int	6565	9.09	5.05	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.io;
22
23		import jalview.api.FeatureColourI;
24		import jalview.schemes.FeatureColour;
25		import jalview.schemes.FeatureSettingsAdapter;
26
27		import java.awt.Color;
28
29		import mc_view.PDBChain;
30
		0% Uncovered Elements: 28 (28) Complexity: 9 Complexity Density: 0.64
31		public class PDBFeatureSettings extends FeatureSettingsAdapter
32		{
33		// TODO find one central place to define feature names
34		private static final String FEATURE_INSERTION = "INSERTION";
35
36		private static final String FEATURE_RES_NUM = PDBChain.RESNUM_FEATURE;
37
		0% Uncovered Elements: 1 (1) Complexity: 1 Complexity Density: 1
38	0	@Override...
39		public boolean isFeatureHidden(String type)
40		{
41	0	return type.equalsIgnoreCase(FEATURE_RES_NUM);
42		}
43
		0% Uncovered Elements: 5 (5) Complexity: 2 Complexity Density: 0.67
44	0	@Override...
45		public FeatureColourI getFeatureColour(String type)
46		{
47	0	if (type.equalsIgnoreCase(FEATURE_INSERTION))
48		{
49	0	return new FeatureColour()
50		{
51
		0% Uncovered Elements: 1 (1) Complexity: 1 Complexity Density: 1
52	0	@Override...
53		public Color getColour()
54		{
55	0	return Color.RED;
56		}
57		};
58		}
59	0	return null;
60		}
61
62		/**
63		* Order to render insertion after ResNum
64		*/
		0% Uncovered Elements: 17 (17) Complexity: 5 Complexity Density: 0.56
65	0	@Override...
66		public int compare(String feature1, String feature2)
67		{
68	0	if (feature1.equalsIgnoreCase(FEATURE_INSERTION))
69		{
70	0	return +1;
71		}
72	0	if (feature2.equalsIgnoreCase(FEATURE_INSERTION))
73		{
74	0	return -1;
75		}
76	0	if (feature1.equalsIgnoreCase(FEATURE_RES_NUM))
77		{
78	0	return +1;
79		}
80	0	if (feature2.equalsIgnoreCase(FEATURE_RES_NUM))
81		{
82	0	return -1;
83		}
84	0	return 0;
85		}
86		}