Classes

Class	Line #	Total Statements	Complexity	TOTAL Coverage	Actions
SequenceIdMatcherTest	33	51	2	1.0100%	Show methods

Class SequenceIdMatcherTest

Class SequenceIdMatcherTest	Line # 33	Total Statements 51	Complexity 2	TOTAL Coverage 1.0100%
setUpJvOptionPane() : void   setUpJvOptionPane() : void	3636	2.02	1.01	1.0 1.0100%
test_seqIdNameEquals() : void   test_seqIdNameEquals() : void	4848	49.049	1.01	1.0 1.0100%

 

Contributing tests

Contributing tests

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	Test contribution	Test	Result	Actions
	0.9433962	jalview.analysis.SequenceIdMatcherTest.test_seqIdNameEqualsjalview.analysis.SequenceIdMatcherTest.test_seqIdNameEquals	1PASS

 

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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.assertFalse;
24		import static org.testng.AssertJUnit.assertTrue;
25
26		import jalview.analysis.SequenceIdMatcher.SeqIdName;
27		import jalview.datamodel.SequenceI;
28		import jalview.gui.JvOptionPane;
29
30		import org.testng.annotations.BeforeClass;
31		import org.testng.annotations.Test;
32
		100% Uncovered Elements: 0 (53) Complexity: 2 Complexity Density: 0.04
33		public class SequenceIdMatcherTest
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
43
44		/**
45		* Test the method that checks for one sequence id starting with the other,
46		* followed by an 'allowed' separator character
47		*/
		100% Uncovered Elements: 0 (49) Complexity: 1 Complexity Density: 0.02 1PASS
48	1	@Test(groups = "Functional")...
49		public void test_seqIdNameEquals()
50		{
51	1	SequenceIdMatcher sequenceIdMatcher = new SequenceIdMatcher(
52		new SequenceI[] {});
53
54		/*
55		* target name = matcher name + word separator...
56		*/
57	1	SeqIdName testee = sequenceIdMatcher.new SeqIdName("A12345");
58	1	assertTrue(testee.equals("A12345"));
59	1	assertTrue(testee.equals("A12345~"));
60	1	assertTrue(testee.equals("A12345."));
61	1	assertTrue(testee.equals("A12345 "));
62	1	assertTrue(testee.equals("A12345|"));
63	1	assertTrue(testee.equals("A12345#"));
64	1	assertTrue(testee.equals("A12345\\"));
65	1	assertTrue(testee.equals("A12345/"));
66	1	assertTrue(testee.equals("A12345<"));
67	1	assertTrue(testee.equals("A12345>"));
68	1	assertTrue(testee.equals("A12345!"));
69	1	assertTrue(testee.equals("A12345\""));
70	1	assertTrue(testee.equals("A12345" + String.valueOf((char) 0x00A4)));
71	1	assertTrue(testee.equals("A12345$a"));
72	1	assertTrue(testee.equals("A12345%b"));
73	1	assertTrue(testee.equals("A12345^cd"));
74	1	assertTrue(testee.equals("A12345*efg"));
75	1	assertTrue(testee.equals("A12345)^&!"));
76	1	assertTrue(testee.equals("A12345}01&*"));
77	1	assertTrue(testee.equals("A12345[A23456"));
78	1	assertTrue(testee.equals("A12345@|Uniprot"));
79	1	assertTrue(testee.equals("A12345'whatever you want here"));
80	1	assertTrue(testee.equals("A12345,"));
81	1	assertTrue(testee.equals("A12345?"));
82	1	assertTrue(testee.equals("A12345_"));
83		/*
84		* case insensitive matching
85		*/
86	1	assertTrue(testee.equals("a12345"));
87
88		/*
89		* matcher name = target name + word separator...
90		*/
91	1	testee = sequenceIdMatcher.new SeqIdName("A12345#");
92	1	assertTrue(testee.equals("A12345"));
93
94		/*
95		* case insensitive matching
96		*/
97	1	assertTrue(testee.equals("a12345"));
98
99		/*
100		* miscellaneous failing cases
101		*/
102	1	testee = sequenceIdMatcher.new SeqIdName("A12345");
103	1	assertFalse(testee.equals((Object) null));
104	1	assertFalse(testee.equals(""));
105	1	assertFalse(testee.equals("A12346|A12345"));
106		/*
107		* case insensitive matching
108		*/
109	1	assertTrue(testee.equals("a12345"));
110
111	1	testee = sequenceIdMatcher.new SeqIdName("A12345?B23456");
112	1	assertFalse(testee.equals("B23456"));
113	1	assertFalse(testee.equals("A12345|"));
114	1	assertFalse(testee.equals("A12345?"));
115
116	1	testee = sequenceIdMatcher.new SeqIdName("A12345<");
117	1	assertFalse(testee.equals("A12345?"));
118	1	assertTrue(testee.equals("A12345<")); // bug? inconsistent
119		/*
120		* case insensitive matching
121		*/
122	1	assertTrue(testee.equals("a12345"));
123
124	1	testee = sequenceIdMatcher.new SeqIdName("UNIPROT|A12345");
125	1	assertFalse(testee.equals("A12345"));
126	1	assertFalse(testee.equals("UNIPROT|B98765"));
127	1	assertFalse(testee.equals("UNIPROT|"));
128	1	assertTrue(testee.equals("UNIPROT"));
129		}
130		}