Classes

Class	Line #	Total Statements	Complexity	TOTAL Coverage	Actions
ColourSchemePropertyTest	16	89	2	1.0100%	Show methods

Class ColourSchemePropertyTest

Class ColourSchemePropertyTest	Line # 16	Total Statements 89	Complexity 2	TOTAL Coverage 1.0100%
testGetColourName() : void   testGetColourName() : void	1818	41.041	1.01	1.0 1.0100%
testGetColourScheme() : void   testGetColourScheme() : void	7373	48.048	1.01	1.0 1.0100%

 

Contributing tests

Contributing tests

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	Test contribution	Test	Result	Actions
	0.53846157	jalview.schemes.ColourSchemePropertyTest.testGetColourSchemejalview.schemes.ColourSchemePropertyTest.testGetColourScheme	1PASS
	0.46153846	jalview.schemes.ColourSchemePropertyTest.testGetColourNamejalview.schemes.ColourSchemePropertyTest.testGetColourName	1PASS

 

Source view

1		package jalview.schemes;
2
3		import static org.testng.Assert.assertEquals;
4		import static org.testng.Assert.assertNull;
5		import static org.testng.Assert.assertTrue;
6
7		import jalview.datamodel.Alignment;
8		import jalview.datamodel.AlignmentI;
9		import jalview.datamodel.Sequence;
10		import jalview.datamodel.SequenceI;
11
12		import java.awt.Color;
13
14		import org.testng.annotations.Test;
15
		100% Uncovered Elements: 0 (91) Complexity: 2 Complexity Density: 0.02
16		public class ColourSchemePropertyTest
17		{
		100% Uncovered Elements: 0 (41) Complexity: 1 Complexity Density: 0.02 1PASS
18	1	@Test(groups = "Functional")...
19		public void testGetColourName()
20		{
21	1	SequenceI seq = new Sequence("Seq1", "abcd");
22	1	AlignmentI al = new Alignment(new SequenceI[] { seq });
23	1	ColourSchemeI cs = new ClustalxColourScheme(al, null);
24	1	assertEquals(ColourSchemeProperty.getColourName(cs), "Clustal");
25	1	cs = new Blosum62ColourScheme();
26	1	assertEquals(ColourSchemeProperty.getColourName(cs), "Blosum62");
27	1	cs = new PIDColourScheme();
28	1	assertEquals(ColourSchemeProperty.getColourName(cs), "% Identity");
29	1	cs = new HydrophobicColourScheme();
30	1	assertEquals(ColourSchemeProperty.getColourName(cs), "Hydrophobic");
31	1	cs = new ZappoColourScheme();
32	1	assertEquals(ColourSchemeProperty.getColourName(cs), "Zappo");
33	1	cs = new TaylorColourScheme();
34	1	assertEquals(ColourSchemeProperty.getColourName(cs), "Taylor");
35	1	cs = new HelixColourScheme();
36	1	assertEquals(ColourSchemeProperty.getColourName(cs),
37		"Helix Propensity");
38	1	cs = new StrandColourScheme();
39	1	assertEquals(ColourSchemeProperty.getColourName(cs),
40		"Strand Propensity");
41	1	cs = new TurnColourScheme();
42	1	assertEquals(ColourSchemeProperty.getColourName(cs), "Turn Propensity");
43	1	cs = new BuriedColourScheme();
44	1	assertEquals(ColourSchemeProperty.getColourName(cs), "Buried Index");
45	1	cs = new NucleotideColourScheme();
46	1	assertEquals(ColourSchemeProperty.getColourName(cs), "Nucleotide");
47	1	cs = new PurinePyrimidineColourScheme();
48	1	assertEquals(ColourSchemeProperty.getColourName(cs),
49		"Purine/Pyrimidine");
50	1	cs = new TCoffeeColourScheme(al);
51	1	assertEquals(ColourSchemeProperty.getColourName(cs), "T-Coffee Scores");
52	1	cs = new RNAHelicesColour(al);
53	1	assertEquals(ColourSchemeProperty.getColourName(cs), "RNA Helices");
54	1	cs = new RNAInteractionColourScheme();
55	1	assertEquals(ColourSchemeProperty.getColourName(cs),
56		"RNA Interaction type");
57	1	cs = new UserColourScheme();
58	1	assertEquals(ColourSchemeProperty.getColourName(cs), "User Defined");
59
60		/*
61		* UserColourScheme may have a bespoke name
62		*/
63	1	((UserColourScheme) cs).setName("stripy");
64	1	assertEquals(ColourSchemeProperty.getColourName(cs), "stripy");
65	1	((UserColourScheme) cs).setName("");
66	1	assertEquals(ColourSchemeProperty.getColourName(cs), "User Defined");
67	1	((UserColourScheme) cs).setName(null);
68	1	assertEquals(ColourSchemeProperty.getColourName(cs), "User Defined");
69
70	1	assertEquals(ColourSchemeProperty.getColourName(null), "None");
71		}
72
		100% Uncovered Elements: 0 (48) Complexity: 1 Complexity Density: 0.02 1PASS
73	1	@Test(groups = "Functional")...
74		public void testGetColourScheme()
75		{
76	1	SequenceI seq = new Sequence("Seq1", "abcd");
77	1	AlignmentI al = new Alignment(new SequenceI[] { seq });
78		// the strings here correspond to JalviewColourScheme.toString() values
79	1	ColourSchemeI cs = ColourSchemeProperty.getColourScheme(null, al,
80		"Clustal");
81	1	assertTrue(cs instanceof ClustalxColourScheme);
82		// not case-sensitive
83	1	cs = ColourSchemeProperty.getColourScheme(null, al, "CLUSTAL");
84	1	assertTrue(cs instanceof ClustalxColourScheme);
85	1	cs = ColourSchemeProperty.getColourScheme(null, al, "clustal");
86	1	assertTrue(cs instanceof ClustalxColourScheme);
87	1	cs = ColourSchemeProperty.getColourScheme(null, al, "Blosum62");
88	1	assertTrue(cs instanceof Blosum62ColourScheme);
89	1	cs = ColourSchemeProperty.getColourScheme(null, al, "% Identity");
90	1	assertTrue(cs instanceof PIDColourScheme);
91	1	cs = ColourSchemeProperty.getColourScheme(null, al, "Zappo");
92	1	assertTrue(cs instanceof ZappoColourScheme);
93	1	cs = ColourSchemeProperty.getColourScheme(null, al, "Taylor");
94	1	assertTrue(cs instanceof TaylorColourScheme);
95	1	cs = ColourSchemeProperty.getColourScheme(null, al, "Hydrophobic");
96	1	assertTrue(cs instanceof HydrophobicColourScheme);
97	1	cs = ColourSchemeProperty.getColourScheme(null, al, "Helix Propensity");
98	1	assertTrue(cs instanceof HelixColourScheme);
99	1	cs = ColourSchemeProperty.getColourScheme(null, al,
100		"Strand Propensity");
101	1	assertTrue(cs instanceof StrandColourScheme);
102	1	cs = ColourSchemeProperty.getColourScheme(null, al, "Turn Propensity");
103	1	assertTrue(cs instanceof TurnColourScheme);
104	1	cs = ColourSchemeProperty.getColourScheme(null, al, "Buried Index");
105	1	assertTrue(cs instanceof BuriedColourScheme);
106	1	cs = ColourSchemeProperty.getColourScheme(null, al, "Nucleotide");
107	1	assertTrue(cs instanceof NucleotideColourScheme);
108	1	cs = ColourSchemeProperty.getColourScheme(null, al,
109		"Purine/Pyrimidine");
110	1	assertTrue(cs instanceof PurinePyrimidineColourScheme);
111	1	cs = ColourSchemeProperty.getColourScheme(null, al, "T-Coffee Scores");
112	1	assertTrue(cs instanceof TCoffeeColourScheme);
113	1	cs = ColourSchemeProperty.getColourScheme(null, al, "RNA Helices");
114	1	assertTrue(cs instanceof RNAHelicesColour);
115		// 'None' is a special value
116	1	assertNull(ColourSchemeProperty.getColourScheme(null, al, "None"));
117	1	assertNull(ColourSchemeProperty.getColourScheme(null, al, "none"));
118		// default is to convert the name into a fixed colour
119	1	cs = ColourSchemeProperty.getColourScheme(null, al, "elephants");
120	1	assertTrue(cs instanceof UserColourScheme);
121
122		/*
123		* explicit aa colours
124		*/
125	1	UserColourScheme ucs = (UserColourScheme) ColourSchemeProperty
126		.getColourScheme(null, al,
127		"R,G=red;C=blue;c=green;Q=10,20,30;S,T=11ffdd");
128	1	assertEquals(ucs.findColour('H'), Color.white);
129	1	assertEquals(ucs.findColour('R'), Color.red);
130	1	assertEquals(ucs.findColour('r'), Color.red);
131	1	assertEquals(ucs.findColour('G'), Color.red);
132	1	assertEquals(ucs.findColour('C'), Color.blue);
133	1	assertEquals(ucs.findColour('c'), Color.green);
134	1	assertEquals(ucs.findColour('Q'), new Color(10, 20, 30));
135	1	assertEquals(ucs.findColour('S'), new Color(0x11ffdd));
136	1	assertEquals(ucs.findColour('T'), new Color(0x11ffdd));
137		}
138		}