Classes

Class	Line #	Total Statements	Complexity	TOTAL Coverage	Actions
SequenceIdMatcherTest	33	51	2	0.00%	Show methods

Class SequenceIdMatcherTest

Class SequenceIdMatcherTest	Line # 33	Total Statements 51	Complexity 2	TOTAL Coverage 0.00%
setUpJvOptionPane() : void   setUpJvOptionPane() : void	3636	2.02	1.01	0.0 0.00%
test_seqIdNameEquals() : void   test_seqIdNameEquals() : void	4747	49.049	1.01	0.0 0.00%

 

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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
		0% Uncovered Elements: 53 (53) Complexity: 2 Complexity Density: 0.04
33		public class SequenceIdMatcherTest
34		{
35
		0% Uncovered Elements: 2 (2) Complexity: 1 Complexity Density: 0.5
36	0	@BeforeClass(alwaysRun = true)...
37		public void setUpJvOptionPane()
38		{
39	0	JvOptionPane.setInteractiveMode(false);
40	0	JvOptionPane.setMockResponse(JvOptionPane.CANCEL_OPTION);
41		}
42
43		/**
44		* Test the method that checks for one sequence id starting with the other,
45		* followed by an 'allowed' separator character
46		*/
		0% Uncovered Elements: 49 (49) Complexity: 1 Complexity Density: 0.02 4-
47	0	@Test(groups = "Functional")...
48		public void test_seqIdNameEquals()
49		{
50	0	SequenceIdMatcher sequenceIdMatcher = new SequenceIdMatcher(
51		new SequenceI[] {});
52
53		/*
54		* target name = matcher name + word separator...
55		*/
56	0	SeqIdName testee = sequenceIdMatcher.new SeqIdName("A12345");
57	0	assertTrue(testee.equals("A12345"));
58	0	assertTrue(testee.equals("A12345~"));
59	0	assertTrue(testee.equals("A12345."));
60	0	assertTrue(testee.equals("A12345 "));
61	0	assertTrue(testee.equals("A12345|"));
62	0	assertTrue(testee.equals("A12345#"));
63	0	assertTrue(testee.equals("A12345\\"));
64	0	assertTrue(testee.equals("A12345/"));
65	0	assertTrue(testee.equals("A12345<"));
66	0	assertTrue(testee.equals("A12345>"));
67	0	assertTrue(testee.equals("A12345!"));
68	0	assertTrue(testee.equals("A12345\""));
69	0	assertTrue(testee.equals("A12345" + String.valueOf((char) 0x00A4)));
70	0	assertTrue(testee.equals("A12345$a"));
71	0	assertTrue(testee.equals("A12345%b"));
72	0	assertTrue(testee.equals("A12345^cd"));
73	0	assertTrue(testee.equals("A12345*efg"));
74	0	assertTrue(testee.equals("A12345)^&!"));
75	0	assertTrue(testee.equals("A12345}01&*"));
76	0	assertTrue(testee.equals("A12345[A23456"));
77	0	assertTrue(testee.equals("A12345@|Uniprot"));
78	0	assertTrue(testee.equals("A12345'whatever you want here"));
79	0	assertTrue(testee.equals("A12345,"));
80	0	assertTrue(testee.equals("A12345?"));
81	0	assertTrue(testee.equals("A12345_"));
82		/*
83		* case insensitive matching
84		*/
85	0	assertTrue(testee.equals("a12345"));
86
87		/*
88		* matcher name = target name + word separator...
89		*/
90	0	testee = sequenceIdMatcher.new SeqIdName("A12345#");
91	0	assertTrue(testee.equals("A12345"));
92
93		/*
94		* case insensitive matching
95		*/
96	0	assertTrue(testee.equals("a12345"));
97
98		/*
99		* miscellaneous failing cases
100		*/
101	0	testee = sequenceIdMatcher.new SeqIdName("A12345");
102	0	assertFalse(testee.equals((Object) null));
103	0	assertFalse(testee.equals(""));
104	0	assertFalse(testee.equals("A12346|A12345"));
105		/*
106		* case insensitive matching
107		*/
108	0	assertTrue(testee.equals("a12345"));
109
110	0	testee = sequenceIdMatcher.new SeqIdName("A12345?B23456");
111	0	assertFalse(testee.equals("B23456"));
112	0	assertFalse(testee.equals("A12345|"));
113	0	assertFalse(testee.equals("A12345?"));
114
115	0	testee = sequenceIdMatcher.new SeqIdName("A12345<");
116	0	assertFalse(testee.equals("A12345?"));
117	0	assertTrue(testee.equals("A12345<")); // bug? inconsistent
118		/*
119		* case insensitive matching
120		*/
121	0	assertTrue(testee.equals("a12345"));
122
123	0	testee = sequenceIdMatcher.new SeqIdName("UNIPROT|A12345");
124	0	assertFalse(testee.equals("A12345"));
125	0	assertFalse(testee.equals("UNIPROT|B98765"));
126	0	assertFalse(testee.equals("UNIPROT|"));
127	0	assertTrue(testee.equals("UNIPROT"));
128		}
129		}