Classes

Class	Line #	Total Statements	Complexity	TOTAL Coverage	Actions
RNAMLfileTest	39	8	5	1.0100%	Show methods

Class RNAMLfileTest

Class RNAMLfileTest	Line # 39	Total Statements 8	Complexity 5	TOTAL Coverage 1.0100%
setUpJvOptionPane() : void   setUpJvOptionPane() : void	4242	2.02	1.01	1.0 1.0100%
setUpBeforeClass() : void   setUpBeforeClass() : void	4949	0.00	1.01	-1.0 -1.0 -
tearDownAfterClass() : void   tearDownAfterClass() : void	5454	0.00	1.01	-1.0 -1.0 -
testRnamlToStockholmIO() : void   testRnamlToStockholmIO() : void	5959	1.01	1.01	1.0 1.0100%
testRnamlSeqImport() : void   testRnamlSeqImport() : void	6868	5.05	1.01	1.0 1.0100%

 

Contributing tests

Contributing tests

Select all

	Test contribution	Test	Result	Actions
	0.46153846	jalview.io.RNAMLfileTest.testRnamlSeqImportjalview.io.RNAMLfileTest.testRnamlSeqImport	1PASS
	0.15384616	jalview.io.RNAMLfileTest.testRnamlToStockholmIOjalview.io.RNAMLfileTest.testRnamlToStockholmIO	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.io;
22
23		import jalview.datamodel.SequenceI;
24		import jalview.gui.JvOptionPane;
25
26		import static org.testng.Assert.assertEquals;
27		import static org.testng.Assert.assertNotNull;
28
29		import java.io.File;
30		import java.io.IOException;
31
32		import org.testng.annotations.AfterClass;
33		import org.testng.annotations.BeforeClass;
34		import org.testng.annotations.Test;
35
36		import fr.orsay.lri.varna.utils.RNAMLParser;
37		import groovy.lang.Sequence;
38
		100% Uncovered Elements: 0 (13) Complexity: 5 Complexity Density: 0.62
39		public class RNAMLfileTest
40		{
41
		100% Uncovered Elements: 0 (2) Complexity: 1 Complexity Density: 0.5
42	1	@BeforeClass(alwaysRun = true)...
43		public void setUpJvOptionPane()
44		{
45	1	JvOptionPane.setInteractiveMode(false);
46	1	JvOptionPane.setMockResponse(JvOptionPane.CANCEL_OPTION);
47		}
48
		- Uncovered Elements: 0 (0) Complexity: 1 Complexity Density: -
49	1	@BeforeClass(alwaysRun = true)...
50		public static void setUpBeforeClass() throws Exception
51		{
52		}
53
		- Uncovered Elements: 0 (0) Complexity: 1 Complexity Density: -
54	1	@AfterClass(alwaysRun = true)...
55		public static void tearDownAfterClass() throws Exception
56		{
57		}
58
		100% Uncovered Elements: 0 (1) Complexity: 1 Complexity Density: 1 1PASS
59	1	@Test(groups = { "Functional" })...
60		public void testRnamlToStockholmIO()
61		{
62	1	StockholmFileTest.testFileIOwithFormat(
63		new File("examples/testdata/rna-alignment.xml"),
64		FileFormat.Stockholm, -1, -1, true, true, true);
65
66		}
67
		100% Uncovered Elements: 0 (5) Complexity: 1 Complexity Density: 0.2 1PASS
68	1	@Test(groups = { "Functional" })...
69		public void testRnamlSeqImport() throws IOException
70		{
71	1	RnamlFile parser = new RnamlFile("examples/testdata/7WKP-rna1.xml",
72		DataSourceType.FILE);
73	1	SequenceI[] seqs = parser.getSeqsAsArray();
74	1	assertNotNull(seqs);
75	1	assertEquals(seqs.length, 1);
76	1	assertEquals(seqs[0].getEnd() - seqs[0].getStart() + 1,
77		seqs[0].getSequence().length);
78		}
79
80		}