Classes

Class	Line #	Total Statements	Complexity	TOTAL Coverage	Actions
EnsemblProteinTest	31	15	3	1.0100%	Show methods

Class EnsemblProteinTest

Class EnsemblProteinTest	Line # 31	Total Statements 15	Complexity 3	TOTAL Coverage 1.0100%
setUpJvOptionPane() : void   setUpJvOptionPane() : void	3434	2.02	1.01	1.0 1.0100%
testIsValidReference() : void   testIsValidReference() : void	4141	6.06	1.01	1.0 1.0100%
testGetAccesionIdFromQuery() : void   testGetAccesionIdFromQuery() : void	5353	7.07	1.01	1.0 1.0100%

 

Contributing tests

Contributing tests

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	Test contribution	Test	Result	Actions
	0.44444445	jalview.ext.ensembl.EnsemblProteinTest.testGetAccesionIdFromQueryjalview.ext.ensembl.EnsemblProteinTest.testGetAccesionIdFromQuery	1PASS
	0.3888889	jalview.ext.ensembl.EnsemblProteinTest.testIsValidReferencejalview.ext.ensembl.EnsemblProteinTest.testIsValidReference	1PASS

 

Source view

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.ext.ensembl;
22
23		import static org.testng.AssertJUnit.assertEquals;
24
25		import jalview.gui.JvOptionPane;
26
27		import org.testng.Assert;
28		import org.testng.annotations.BeforeClass;
29		import org.testng.annotations.Test;
30
		100% Uncovered Elements: 0 (18) Complexity: 3 Complexity Density: 0.2
31		public class EnsemblProteinTest
32		{
33
		100% Uncovered Elements: 0 (2) Complexity: 1 Complexity Density: 0.5
34	1	@BeforeClass(alwaysRun = true)...
35		public void setUpJvOptionPane()
36		{
37	1	JvOptionPane.setInteractiveMode(false);
38	1	JvOptionPane.setMockResponse(JvOptionPane.CANCEL_OPTION);
39		}
40
		100% Uncovered Elements: 0 (6) Complexity: 1 Complexity Density: 0.17 1PASS
41	1	@Test(groups = "Functional")...
42		public void testIsValidReference() throws Exception
43		{
44	1	EnsemblSequenceFetcher esq = new EnsemblProtein();
45	1	Assert.assertTrue(esq.isValidReference("CCDS5863.1"));
46	1	Assert.assertTrue(esq.isValidReference("ENSP00000288602"));
47	1	Assert.assertFalse(esq.isValidReference("ENST00000288602"));
48	1	Assert.assertFalse(esq.isValidReference("ENSG00000288602"));
49		// non-human species having a 3 character identifier included:
50	1	Assert.assertTrue(esq.isValidReference("ENSMUSP00000099398"));
51		}
52
		100% Uncovered Elements: 0 (7) Complexity: 1 Complexity Density: 0.14 1PASS
53	1	@Test(groups = "Functional")...
54		public void testGetAccesionIdFromQuery() throws Exception
55		{
56	1	EnsemblSequenceFetcher esq = new EnsemblProtein();
57	1	assertEquals("ENSP00000288602",
58		esq.getAccessionIdFromQuery("ENSP00000288602"));
59	1	assertEquals("ENSMUSP00000288602",
60		esq.getAccessionIdFromQuery("ENSMUSP00000288602"));
61
62		// ENST converted to ENSP
63	1	assertEquals("ENSP00000288602",
64		esq.getAccessionIdFromQuery("ENST00000288602"));
65	1	assertEquals("ENSMUSP00000288602",
66		esq.getAccessionIdFromQuery("ENSMUST00000288602"));
67
68		// with valid separator:
69	1	assertEquals("ENSP00000288604",
70		esq.getAccessionIdFromQuery("ENSP00000288604 ENSP00000288602"));
71
72		// with wrong separator:
73	1	assertEquals("ENSP00000288604,ENSP00000288602",
74		esq.getAccessionIdFromQuery("ENSP00000288604,ENSP00000288602"));
75		}
76
77		}