Classes

Class	Line #	Total Statements	Complexity	TOTAL Coverage	Actions
AtomTest	31	21	5	0.9696%	Show methods

Class AtomTest

Class AtomTest	Line # 31	Total Statements 21	Complexity 5	TOTAL Coverage 0.9696%
setUpJvOptionPane() : void   setUpJvOptionPane() : void	3434	2.02	1.01	1.0 1.0100%
testStringConstructor() : void   testStringConstructor() : void	4545	13.013	1.01	1.0 1.0100%
testStringConstructor_blankOccupancyTempFactor() : void   testStringConstructor_blankOccupancyTempFactor() : void	6868	3.03	1.01	1.0 1.0100%
testStringConstructor_malformed() : void   testStringConstructor_malformed() : void	8080	3.03	2.02	0.6666667 0.666666766.7%

 

Contributing tests

Contributing tests

Select all

	Test contribution	Test	Result	Actions
	0.56	mc_view.AtomTest.testStringConstructormc_view.AtomTest.testStringConstructor	1PASS
	0.16	mc_view.AtomTest.testStringConstructor_blankOccupancyTempFactormc_view.AtomTest.testStringConstructor_blankOccupancyTempFactor	1PASS
	0.12	mc_view.AtomTest.testStringConstructor_malformedmc_view.AtomTest.testStringConstructor_malformed	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 mc_view;
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
		96% Uncovered Elements: 1 (25) Complexity: 5 Complexity Density: 0.24
31		public class AtomTest
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
41		/**
42		* Test the constructor that parses a PDB file format ATOM line. Fields are in
43		* fixed column positions
44		*/
		100% Uncovered Elements: 0 (13) Complexity: 1 Complexity Density: 0.08 1PASS
45	1	@Test(groups = { "Functional" })...
46		public void testStringConstructor()
47		{
48	1	Atom a = new Atom(
49		"ATOM 349 NE2 GLN A 48 22.290 8.595 17.680 1.00 14.30 N");
50	1	assertEquals(349, a.atomIndex);
51	1	assertEquals("NE", a.name);
52	1	assertEquals("GLN", a.resName);
53	1	assertEquals("A", a.chain);
54	1	assertEquals(48, a.resNumber);
55	1	assertEquals("48", a.resNumIns);
56	1	assertEquals(' ', a.insCode);
57	1	assertEquals(22.290, a.x, 0.00001);
58	1	assertEquals(8.595, a.y, 0.00001);
59	1	assertEquals(17.680, a.z, 0.00001);
60	1	assertEquals(1f, a.occupancy, 0.00001);
61	1	assertEquals(14.3, a.tfactor, 0.00001);
62		}
63
64		/**
65		* Test the case where occupancy and temp factor are blank - should default to
66		* 1
67		*/
		100% Uncovered Elements: 0 (3) Complexity: 1 Complexity Density: 0.33 1PASS
68	1	@Test(groups = { "Functional" })...
69		public void testStringConstructor_blankOccupancyTempFactor()
70		{
71	1	Atom a = new Atom(
72		"ATOM 349 NE2 GLN A 48 22.290 8.595 17.680 N");
73	1	assertEquals(1f, a.occupancy, 0.00001);
74	1	assertEquals(1f, a.tfactor, 0.00001);
75		}
76
77		/**
78		* Parsing non-numeric data as Atom throws an exception
79		*/
		66.7% Uncovered Elements: 1 (3) Complexity: 2 Complexity Density: 0.67 1PASS
80	1	@Test(groups = { "Functional" })...
81		public void testStringConstructor_malformed()
82		{
83	1	try
84		{
85	1	new Atom(
86		"ATOM 34N NE2 GLN A 48 22.290 8.595 17.680 1.00 14.30 N");
87	0	Assert.fail("Expected exception");
88		} catch (NumberFormatException e)
89		{
90		// expected
91		}
92		}
93		}