Classes

Class	Line #	Total Statements	Complexity	Uncovered Elements	TOTAL Coverage	Actions
StructureViewerTest	19	38	3	0	1.0100%	Show methods

Class StructureViewerTest

Class StructureViewerTest	Line # 19	Total Statements 38	Complexity 3	Uncovered Elements 0	TOTAL Coverage 1.0100%
setUpJvOptionPane() : void   setUpJvOptionPane() : void	2222	2.02	1.01	0.00	1.0 1.0100%
testGetSequencesForPdbs() : void   testGetSequencesForPdbs() : void	2929	36.036	2.02	0.00	1.0 1.0100%

 

Contributing tests

Contributing tests

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	Test contribution	Test	Result	Actions
	0.9285714	jalview.gui.StructureViewerTest.testGetSequencesForPdbsjalview.gui.StructureViewerTest.testGetSequencesForPdbs	1PASS

 

Source view

1		package jalview.gui;
2
3		import static org.testng.Assert.assertEquals;
4		import static org.testng.Assert.assertFalse;
5		import static org.testng.Assert.assertNull;
6		import static org.testng.Assert.assertSame;
7		import static org.testng.Assert.assertTrue;
8
9		import jalview.datamodel.PDBEntry;
10		import jalview.datamodel.PDBEntry.Type;
11		import jalview.datamodel.Sequence;
12		import jalview.datamodel.SequenceI;
13
14		import java.util.Map;
15
16		import org.testng.annotations.BeforeClass;
17		import org.testng.annotations.Test;
18
		100% Uncovered Elements: 0 (42) Complexity: 3 Complexity Density: 0.08
19		public class StructureViewerTest
20		{
21
		100% Uncovered Elements: 0 (2) Complexity: 1 Complexity Density: 0.5
22	1	@BeforeClass(alwaysRun = true)...
23		public void setUpJvOptionPane()
24		{
25	1	JvOptionPane.setInteractiveMode(false);
26	1	JvOptionPane.setMockResponse(JvOptionPane.CANCEL_OPTION);
27		}
28
		100% Uncovered Elements: 0 (38) Complexity: 2 Complexity Density: 0.06 1PASS
29	1	@Test(groups = "Functional")...
30		public void testGetSequencesForPdbs()
31		{
32	1	StructureViewer sv = new StructureViewer(null);
33
34	1	assertNull(sv.getSequencesForPdbs(null, null));
35
36	1	PDBEntry pdbe1 = new PDBEntry("1A70", "A", Type.PDB, "path1");
37	1	PDBEntry pdbe2 = new PDBEntry("3A6S", "A", Type.PDB, "path2");
38	1	PDBEntry pdbe3 = new PDBEntry("1A70", "B", Type.PDB, "path1");
39	1	PDBEntry pdbe4 = new PDBEntry("1GAQ", "A", Type.PDB, null);
40	1	PDBEntry pdbe5 = new PDBEntry("3A6S", "B", Type.PDB, "path2");
41	1	PDBEntry pdbe6 = new PDBEntry("1GAQ", "B", Type.PDB, null);
42	1	PDBEntry pdbe7 = new PDBEntry("1FOO", "Q", Type.PDB, null);
43
44	1	PDBEntry[] pdbs = new PDBEntry[] { pdbe1, pdbe2, pdbe3, pdbe4, pdbe5,
45		pdbe6, pdbe7 };
46
47		/*
48		* seq1 ... seq6 associated with pdbe1 ... pdbe6
49		*/
50	1	SequenceI[] seqs = new SequenceI[pdbs.length];
51	8	for (int i = 0; i < seqs.length; i++)
52		{
53	7	seqs[i] = new Sequence("Seq" + i, "abc");
54		}
55
56		/*
57		* pdbe3/5/6 should get removed as having a duplicate file path
58		*/
59	1	Map<PDBEntry, SequenceI[]> uniques = sv.getSequencesForPdbs(pdbs, seqs);
60	1	assertTrue(uniques.containsKey(pdbe1));
61	1	assertTrue(uniques.containsKey(pdbe2));
62	1	assertFalse(uniques.containsKey(pdbe3));
63	1	assertTrue(uniques.containsKey(pdbe4));
64	1	assertFalse(uniques.containsKey(pdbe5));
65	1	assertFalse(uniques.containsKey(pdbe6));
66	1	assertTrue(uniques.containsKey(pdbe7));
67
68		// 1A70 associates with seq1 and seq3
69	1	SequenceI[] ss = uniques.get(pdbe1);
70	1	assertEquals(ss.length, 2);
71	1	assertSame(seqs[0], ss[0]);
72	1	assertSame(seqs[2], ss[1]);
73
74		// 3A6S has seq2 and seq5
75	1	ss = uniques.get(pdbe2);
76	1	assertEquals(ss.length, 2);
77	1	assertSame(seqs[1], ss[0]);
78	1	assertSame(seqs[4], ss[1]);
79
80		// 1GAQ has seq4 and seq6
81	1	ss = uniques.get(pdbe4);
82	1	assertEquals(ss.length, 2);
83	1	assertSame(seqs[3], ss[0]);
84	1	assertSame(seqs[5], ss[1]);
85
86		// 1FOO has seq7
87	1	ss = uniques.get(pdbe7);
88	1	assertEquals(ss.length, 1);
89	1	assertSame(seqs[6], ss[0]);
90		}
91		}