Classes

Class	Line #	Total Statements	Complexity	TOTAL Coverage	Actions
CodingUtilsTest	33	35	4	1.0100%	Show methods

Class CodingUtilsTest

Class CodingUtilsTest	Line # 33	Total Statements 35	Complexity 4	TOTAL Coverage 1.0100%
setUpJvOptionPane() : void   setUpJvOptionPane() : void	3636	2.02	1.01	1.0 1.0100%
testDecodeCodon() : void   testDecodeCodon() : void	4343	8.08	1.01	1.0 1.0100%
testDecodeNucleotide() : void   testDecodeNucleotide() : void	7272	5.05	1.01	1.0 1.0100%
testEncodeCodon() : void   testEncodeCodon() : void	8282	20.020	1.01	1.0 1.0100%

 

Contributing tests

Contributing tests

Select all

	Test contribution	Test	Result	Actions
	0.53846157	jalview.analysis.CodingUtilsTest.testEncodeCodonjalview.analysis.CodingUtilsTest.testEncodeCodon	1PASS
	0.23076923	jalview.analysis.CodingUtilsTest.testDecodeCodonjalview.analysis.CodingUtilsTest.testDecodeCodon	1PASS
	0.15384616	jalview.analysis.CodingUtilsTest.testDecodeNucleotidejalview.analysis.CodingUtilsTest.testDecodeNucleotide	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.analysis;
22
23		import static org.testng.AssertJUnit.assertEquals;
24		import static org.testng.AssertJUnit.assertTrue;
25
26		import jalview.gui.JvOptionPane;
27
28		import java.util.Arrays;
29
30		import org.testng.annotations.BeforeClass;
31		import org.testng.annotations.Test;
32
		100% Uncovered Elements: 0 (39) Complexity: 4 Complexity Density: 0.11
33		public class CodingUtilsTest
34		{
35
		100% Uncovered Elements: 0 (2) Complexity: 1 Complexity Density: 0.5
36	1	@BeforeClass(alwaysRun = true)...
37		public void setUpJvOptionPane()
38		{
39	1	JvOptionPane.setInteractiveMode(false);
40	1	JvOptionPane.setMockResponse(JvOptionPane.CANCEL_OPTION);
41		}
42
		100% Uncovered Elements: 0 (8) Complexity: 1 Complexity Density: 0.12 1PASS
43	1	@Test(groups = { "Functional" })...
44		public void testDecodeCodon()
45		{
46	1	assertTrue(
47		Arrays.equals(new char[]
48		{ 'A', 'A', 'A' }, CodingUtils.decodeCodon(0)));
49	1	assertTrue(
50		Arrays.equals(new char[]
51		{ 'A', 'A', 'C' }, CodingUtils.decodeCodon(1)));
52	1	assertTrue(
53		Arrays.equals(new char[]
54		{ 'A', 'A', 'G' }, CodingUtils.decodeCodon(2)));
55	1	assertTrue(
56		Arrays.equals(new char[]
57		{ 'A', 'A', 'T' }, CodingUtils.decodeCodon(3)));
58	1	assertTrue(
59		Arrays.equals(new char[]
60		{ 'A', 'C', 'A' }, CodingUtils.decodeCodon(4)));
61	1	assertTrue(
62		Arrays.equals(new char[]
63		{ 'C', 'A', 'A' }, CodingUtils.decodeCodon(16)));
64	1	assertTrue(
65		Arrays.equals(new char[]
66		{ 'G', 'G', 'G' }, CodingUtils.decodeCodon(42)));
67	1	assertTrue(
68		Arrays.equals(new char[]
69		{ 'T', 'T', 'T' }, CodingUtils.decodeCodon(63)));
70		}
71
		100% Uncovered Elements: 0 (5) Complexity: 1 Complexity Density: 0.2 1PASS
72	1	@Test(groups = { "Functional" })...
73		public void testDecodeNucleotide()
74		{
75	1	assertEquals('A', CodingUtils.decodeNucleotide(0));
76	1	assertEquals('C', CodingUtils.decodeNucleotide(1));
77	1	assertEquals('G', CodingUtils.decodeNucleotide(2));
78	1	assertEquals('T', CodingUtils.decodeNucleotide(3));
79	1	assertEquals('0', CodingUtils.decodeNucleotide(4));
80		}
81
		100% Uncovered Elements: 0 (20) Complexity: 1 Complexity Density: 0.05 1PASS
82	1	@Test(groups = { "Functional" })...
83		public void testEncodeCodon()
84		{
85	1	assertTrue(CodingUtils.encodeCodon('Z') < 0);
86	1	assertEquals(0, CodingUtils.encodeCodon('a'));
87	1	assertEquals(0, CodingUtils.encodeCodon('A'));
88	1	assertEquals(1, CodingUtils.encodeCodon('c'));
89	1	assertEquals(1, CodingUtils.encodeCodon('C'));
90	1	assertEquals(2, CodingUtils.encodeCodon('g'));
91	1	assertEquals(2, CodingUtils.encodeCodon('G'));
92	1	assertEquals(3, CodingUtils.encodeCodon('t'));
93	1	assertEquals(3, CodingUtils.encodeCodon('T'));
94	1	assertEquals(3, CodingUtils.encodeCodon('u'));
95	1	assertEquals(3, CodingUtils.encodeCodon('U'));
96
97	1	assertEquals(-1, CodingUtils.encodeCodon(null));
98	1	assertEquals(0, CodingUtils.encodeCodon(new char[] { 'A', 'A', 'A' }));
99	1	assertEquals(1, CodingUtils.encodeCodon(new char[] { 'A', 'A', 'C' }));
100	1	assertEquals(2, CodingUtils.encodeCodon(new char[] { 'A', 'A', 'G' }));
101	1	assertEquals(3, CodingUtils.encodeCodon(new char[] { 'A', 'A', 'T' }));
102	1	assertEquals(4, CodingUtils.encodeCodon(new char[] { 'A', 'C', 'A' }));
103	1	assertEquals(16, CodingUtils.encodeCodon(new char[] { 'C', 'A', 'A' }));
104	1	assertEquals(42, CodingUtils.encodeCodon(new char[] { 'G', 'G', 'G' }));
105	1	assertEquals(63, CodingUtils.encodeCodon(new char[] { 'T', 'T', 'T' }));
106		}
107
108		}