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ResidueColourFinderTest | 39 | 40 | 5 |
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.renderer; | |
22 | ||
23 | import static org.testng.AssertJUnit.assertEquals; | |
24 | ||
25 | import jalview.datamodel.Alignment; | |
26 | import jalview.datamodel.AlignmentI; | |
27 | import jalview.datamodel.Sequence; | |
28 | import jalview.datamodel.SequenceI; | |
29 | import jalview.gui.AlignViewport; | |
30 | import jalview.gui.JvOptionPane; | |
31 | import jalview.schemes.UserColourScheme; | |
32 | import jalview.schemes.ZappoColourScheme; | |
33 | ||
34 | import java.awt.Color; | |
35 | ||
36 | import org.testng.annotations.BeforeClass; | |
37 | import org.testng.annotations.Test; | |
38 | ||
39 | public class ResidueColourFinderTest | |
40 | { | |
41 | ||
42 | 1 | @BeforeClass(alwaysRun = true) |
43 | public void setUpJvOptionPane() | |
44 | { | |
45 | 1 | JvOptionPane.setInteractiveMode(false); |
46 | 1 | JvOptionPane.setMockResponse(JvOptionPane.CANCEL_OPTION); |
47 | } | |
48 | ||
49 | 1 | @Test(groups = { "Functional" }) |
50 | public void testGetResidueColour_zappo() | |
51 | { | |
52 | 1 | SequenceI seq = new Sequence("name", "MATVLGSPRAPAFF"); // FER1_MAIZE... |
53 | 1 | AlignmentI al = new Alignment(new SequenceI[] { seq }); |
54 | 1 | final AlignViewport av = new AlignViewport(al); |
55 | 1 | ResidueColourFinder rcf = new ResidueColourFinder(); |
56 | 1 | av.setGlobalColourScheme(new ZappoColourScheme()); |
57 | ||
58 | // @see ResidueProperties.zappo | |
59 | 1 | assertEquals(Color.pink, rcf.getResidueColour(true, |
60 | av.getResidueShading(), null, seq, 0, null)); // M | |
61 | 1 | assertEquals(Color.green, rcf.getResidueColour(true, |
62 | av.getResidueShading(), null, seq, 2, null)); // T | |
63 | 1 | assertEquals(Color.magenta, rcf.getResidueColour(true, |
64 | av.getResidueShading(), null, seq, 5, null)); // G | |
65 | 1 | assertEquals(Color.orange, rcf.getResidueColour(true, |
66 | av.getResidueShading(), null, seq, 12, null)); // F | |
67 | ||
68 | // everything is white if showBoxes is false | |
69 | 1 | assertEquals(Color.white, rcf.getResidueColour(false, |
70 | av.getResidueShading(), null, seq, 0, null)); // M | |
71 | 1 | assertEquals(Color.white, rcf.getResidueColour(false, |
72 | av.getResidueShading(), null, seq, 2, null)); // T | |
73 | 1 | assertEquals(Color.white, rcf.getResidueColour(false, |
74 | av.getResidueShading(), null, seq, 5, null)); // G | |
75 | 1 | assertEquals(Color.white, rcf.getResidueColour(false, |
76 | av.getResidueShading(), null, seq, 12, null)); // F | |
77 | } | |
78 | ||
79 | 1 | @Test(groups = { "Functional" }) |
80 | public void testGetResidueColour_none() | |
81 | { | |
82 | 1 | SequenceI seq = new Sequence("name", "MA--TVLGSPRAPAFF"); |
83 | 1 | AlignmentI al = new Alignment(new SequenceI[] { seq }); |
84 | 1 | final AlignViewport av = new AlignViewport(al); |
85 | 1 | ResidueColourFinder rcf = new ResidueColourFinder(); |
86 | ||
87 | 1 | assertEquals(Color.white, rcf.getResidueColour(true, |
88 | av.getResidueShading(), null, seq, 0, null)); | |
89 | 1 | assertEquals(Color.white, rcf.getResidueColour(true, |
90 | av.getResidueShading(), null, seq, 2, null)); | |
91 | ||
92 | // no change if showBoxes is false | |
93 | 1 | assertEquals(Color.white, rcf.getResidueColour(false, |
94 | av.getResidueShading(), null, seq, 0, null)); | |
95 | 1 | assertEquals(Color.white, rcf.getResidueColour(false, |
96 | av.getResidueShading(), null, seq, 2, null)); | |
97 | } | |
98 | ||
99 | 1 | @Test(groups = { "Functional" }) |
100 | public void testGetResidueColour_userdef() | |
101 | { | |
102 | 1 | SequenceI seq = new Sequence("name", "MAT--GSPRAPAFF"); // FER1_MAIZE... + a |
103 | // gap | |
104 | 1 | AlignmentI al = new Alignment(new SequenceI[] { seq }); |
105 | 1 | final AlignViewport av = new AlignViewport(al); |
106 | 1 | ResidueColourFinder rcf = new ResidueColourFinder(); |
107 | ||
108 | 1 | Color[] newColours = new Color[24]; |
109 | 25 | for (int i = 0; i < 24; i++) |
110 | { | |
111 | 24 | newColours[i] = null; |
112 | } | |
113 | ||
114 | 1 | av.setGlobalColourScheme(new UserColourScheme(newColours)); |
115 | ||
116 | // gap colour not specified so gap colour is null | |
117 | // this is consistent with previous behaviour, but may not be correct? | |
118 | 1 | assertEquals(null, rcf.getResidueColour(true, av.getResidueShading(), |
119 | null, seq, 3, null)); | |
120 | ||
121 | 1 | newColours[23] = Color.pink; |
122 | 1 | av.setGlobalColourScheme(new UserColourScheme(newColours)); |
123 | ||
124 | // gap colour specified as pink | |
125 | 1 | assertEquals(Color.pink, rcf.getResidueColour(true, |
126 | av.getResidueShading(), null, seq, 3, null)); | |
127 | ||
128 | // everything is white if showBoxes is false | |
129 | 1 | newColours[23] = null; |
130 | 1 | assertEquals(Color.white, rcf.getResidueColour(false, |
131 | av.getResidueShading(), null, seq, 3, null)); | |
132 | ||
133 | 1 | newColours[23] = Color.pink; |
134 | 1 | av.setGlobalColourScheme(new UserColourScheme(newColours)); |
135 | ||
136 | // gap colour specified as pink | |
137 | 1 | assertEquals(Color.white, rcf.getResidueColour(false, |
138 | av.getResidueShading(), null, seq, 3, null)); | |
139 | } | |
140 | ||
141 | // TODO more tests for getResidueColour covering groups, feature rendering... | |
142 | } |