Classes

Class	Line #	Total Statements	Complexity	Uncovered Elements	TOTAL Coverage	Actions
FeatureRendererSettings	33	29	10	10	0.777777877.8%	Show methods

Class FeatureRendererSettings

Class FeatureRendererSettings	Line # 33	Total Statements 29	Complexity 10	Uncovered Elements 10	TOTAL Coverage 0.777777877.8%
FeatureRendererSettings(String[],Map<String, Boolean>,Map<String, FeatureColourI>,float,Map<String, Float>)   FeatureRendererSettings(String[],Map<String, Boolean>,Map<String, FeatureColourI>,float,Map<String, Float>)	5656	6.06	1.01	0.00	1.0 1.0100%
FeatureRendererSettings(jalview.viewmodel.seqfeatures.FeatureRendererModel)   FeatureRendererSettings(jalview.viewmodel.seqfeatures.FeatureRendererModel)	7676	23.023	9.09	10.010	0.7297297 0.729729773%

 

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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.viewmodel.seqfeatures;
22
23		import jalview.api.FeatureColourI;
24		import jalview.datamodel.features.FeatureMatcherSetI;
25		import jalview.schemes.FeatureColour;
26
27		import java.util.Arrays;
28		import java.util.HashMap;
29		import java.util.Iterator;
30		import java.util.Map;
31		import java.util.concurrent.ConcurrentHashMap;
32
		77.8% Uncovered Elements: 10 (45) Complexity: 10 Complexity Density: 0.34
33		public class FeatureRendererSettings implements Cloneable
34		{
35		String[] renderOrder;
36
37		/*
38		* map of {groupName, isDisplayed}
39		*/
40		Map<String, Boolean> featureGroups;
41
42		/*
43		* map of {featureType, colourScheme}
44		*/
45		Map<String, FeatureColourI> featureColours;
46
47		/*
48		* map of {featureType, filters}
49		*/
50		Map<String, FeatureMatcherSetI> featureFilters;
51
52		float transparency;
53
54		Map<String, Float> featureOrder;
55
		100% Uncovered Elements: 0 (6) Complexity: 1 Complexity Density: 0.17
56	51	public FeatureRendererSettings(String[] renderOrder,...
57		Map<String, Boolean> featureGroups,
58		Map<String, FeatureColourI> featureColours, float transparency,
59		Map<String, Float> featureOrder)
60		{
61	51	super();
62	51	this.renderOrder = Arrays.copyOf(renderOrder, renderOrder.length);
63	51	this.featureGroups = new ConcurrentHashMap<String, Boolean>(
64		featureGroups);
65	51	this.featureColours = new ConcurrentHashMap<String, FeatureColourI>(
66		featureColours);
67	51	this.transparency = transparency;
68	51	this.featureOrder = new ConcurrentHashMap<String, Float>(featureOrder);
69		}
70
71		/**
72		* create an independent instance of the feature renderer settings
73		*
74		* @param fr
75		*/
		73% Uncovered Elements: 10 (37) Complexity: 9 Complexity Density: 0.39
76	10	public FeatureRendererSettings(...
77		jalview.viewmodel.seqfeatures.FeatureRendererModel fr)
78		{
79	10	renderOrder = null;
80	10	featureGroups = new ConcurrentHashMap<String, Boolean>();
81	10	featureColours = new ConcurrentHashMap<String, FeatureColourI>();
82	10	featureFilters = new HashMap<>();
83	10	featureOrder = new ConcurrentHashMap<String, Float>();
84
85	10	if (fr.renderOrder != null)
86		{
87	5	this.renderOrder = new String[fr.renderOrder.length];
88	5	System.arraycopy(fr.renderOrder, 0, renderOrder, 0,
89		fr.renderOrder.length);
90		}
91	10	if (fr.featureGroups != null)
92		{
93	10	this.featureGroups = new ConcurrentHashMap<String, Boolean>(
94		fr.featureGroups);
95		}
96	10	if (fr.featureColours != null)
97		{
98	10	this.featureColours = new ConcurrentHashMap<String, FeatureColourI>(
99		fr.featureColours);
100		}
101	10	Iterator<String> en = fr.featureColours.keySet().iterator();
102	10	while (en.hasNext())
103		{
104	0	String next = en.next();
105	0	FeatureColourI val = featureColours.get(next);
106		// if (val instanceof GraduatedColor)
107	0	if (val.isGraduatedColour() || val.isColourByLabel()) // why this test?
108		{
109	0	featureColours.put(next, new FeatureColour((FeatureColour) val));
110		}
111		}
112
113	10	if (fr.featureFilters != null)
114		{
115	10	this.featureFilters.putAll(fr.featureFilters);
116		}
117
118	10	this.transparency = fr.transparency;
119	10	if (fr.featureOrder != null)
120		{
121	5	this.featureOrder = new ConcurrentHashMap<String, Float>(
122		fr.featureOrder);
123		}
124		}
125		}