File: BetweenLocationTest.java

package info (click to toggle)
biojava-live 1%3A1.7.1-8
  • links: PTS, VCS
  • area: main
  • in suites: buster
  • size: 55,160 kB
  • sloc: java: 180,820; xml: 6,908; sql: 510; makefile: 50
file content (309 lines) | stat: -rw-r--r-- 8,063 bytes parent folder | download | duplicates (7)
1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
37
38
39
40
41
42
43
44
45
46
47
48
49
50
51
52
53
54
55
56
57
58
59
60
61
62
63
64
65
66
67
68
69
70
71
72
73
74
75
76
77
78
79
80
81
82
83
84
85
86
87
88
89
90
91
92
93
94
95
96
97
98
99
100
101
102
103
104
105
106
107
108
109
110
111
112
113
114
115
116
117
118
119
120
121
122
123
124
125
126
127
128
129
130
131
132
133
134
135
136
137
138
139
140
141
142
143
144
145
146
147
148
149
150
151
152
153
154
155
156
157
158
159
160
161
162
163
164
165
166
167
168
169
170
171
172
173
174
175
176
177
178
179
180
181
182
183
184
185
186
187
188
189
190
191
192
193
194
195
196
197
198
199
200
201
202
203
204
205
206
207
208
209
210
211
212
213
214
215
216
217
218
219
220
221
222
223
224
225
226
227
228
229
230
231
232
233
234
235
236
237
238
239
240
241
242
243
244
245
246
247
248
249
250
251
252
253
254
255
256
257
258
259
260
261
262
263
264
265
266
267
268
269
270
271
272
273
274
275
276
277
278
279
280
281
282
283
284
285
286
287
288
289
290
291
292
293
294
295
296
297
298
299
300
301
302
303
304
305
306
307
308
309
/*
 *                    BioJava development code
 *
 * This code may be freely distributed and modified under the
 * terms of the GNU Lesser General Public Licence.  This should
 * be distributed with the code.  If you do not have a copy,
 * see:
 *
 *      http://www.gnu.org/copyleft/lesser.html
 *
 * Copyright for this code is held jointly by the individual
 * authors.  These should be listed in @author doc comments.
 *
 * For more information on the BioJava project and its aims,
 * or to join the biojava-l mailing list, visit the home page
 * at:
 *
 *      http://www.biojava.org/
 *
 */

package org.biojava.bio.symbol;

import junit.framework.TestCase;

/**
 * Automated tests for BetweenLocation operations.
 *
 * @author Greg Cox
 */
public class BetweenLocationTest extends TestCase
{
// Static variables

// Member variables
	private Location betweenFiveSix;
	private Location betweenFiveSeven;
	private Location betweenFiveTen;
	private Location betweenSevenTwelve;
	private Location betweenNineEleven;
	private Location betweenTenEleven;
	private Location rangeOneTen;
	private Location rangeFiveSix;

// Constructors and initialization
	public BetweenLocationTest(String theName)
	{
		super(theName);
	}

// Interface implementations

// Public methods
	/**
	 * Runs the unit tests defined here.
	 */
	public static void main(String args[])
	{
		junit.textui.TestRunner.run(BetweenLocationTest.class);
	}

	// Test intersection operator
	public void testIntersectionOneTenBetweenFiveSix()
	{
		Location expected = new BetweenLocation(new RangeLocation(5, 6));

		Location result = LocationTools.intersection(rangeOneTen, betweenFiveSix);

		this.assertEqual(expected, result);
	}

	public void testIntersectionOneTenBetweenFiveSeven()
	{
		Location expected = new BetweenLocation(new RangeLocation(5, 7));

		Location result = LocationTools.intersection(rangeOneTen, betweenFiveSeven);

		this.assertEqual(expected, result);
	}

	public void testIntersectionOneTenBetweenTenEleven()
	{
		Location expected = Location.empty;

		Location result = LocationTools.intersection(rangeOneTen, betweenTenEleven);

		this.assertEqual(expected, result);
	}

	public void testIntersectionOneTenBetweenNineEleven()
	{
		Location expected = new BetweenLocation(new RangeLocation(9, 10));

		Location result = LocationTools.intersection(rangeOneTen, betweenNineEleven);

		this.assertEqual(expected, result);
	}

	public void testIntersectionBetweenFiveSixBetweenFiveSix()
	{
		Location expected = new BetweenLocation(new RangeLocation(5, 6));

		Location result = LocationTools.intersection(betweenFiveSix, betweenFiveSix);

		this.assertEqual(expected, result);
	}

	public void testIntersectionBetweenFiveTenBetweenFiveSix()
	{
		Location expected = new BetweenLocation(new RangeLocation(5, 6));

		Location result = LocationTools.intersection(betweenFiveTen, betweenFiveSix);

		this.assertEqual(expected, result);
	}

	public void testIntersectionBetweenFiveTenBetweenSevenTwelve()
	{
		Location expected = new BetweenLocation(new RangeLocation(7, 10));

		Location result = LocationTools.intersection(betweenFiveTen, betweenSevenTwelve);

		this.assertEqual(expected, result);
	}

	// Test overlaps operator
	public void testOverlapsOneTenBetweenFiveSix()
	{
		assertTrue(LocationTools.overlaps(rangeOneTen, betweenFiveSix));
	}

	public void testOverlapsOneTenBetweenFiveSeven()
	{
		assertTrue(LocationTools.overlaps(rangeOneTen, betweenFiveSeven));
	}

	public void testOverlapsOneTenBetweenTenEleven()
	{
		assertTrue(!LocationTools.overlaps(rangeOneTen, betweenTenEleven));
	}

	public void testOverlapsOneTenBetweenNineEleven()
	{
		assertTrue(LocationTools.overlaps(rangeOneTen, betweenNineEleven));
	}

	public void testOverlapsBetweenFiveSixBetweenFiveSix()
	{
		assertTrue(LocationTools.overlaps(betweenFiveSix, betweenFiveSix));
	}

	public void testOverlapsBetweenFiveTenBetweenFiveSix()
	{
		assertTrue(LocationTools.overlaps(betweenFiveTen, betweenFiveSix));
	}

	public void testOverlapsBetweenFiveTenBetweenSevenTwelve()
	{
		assertTrue(LocationTools.overlaps(betweenFiveTen, betweenSevenTwelve));
	}

	// Test equals operator
	public void testAreEqualRangeFiveSixBetweenFiveSix()
	{
		assertTrue(!LocationTools.areEqual(rangeFiveSix, betweenFiveSix));
	}

	public void testAreEqualBetweenFiveSixBetweenFiveSix()
	{
		assertTrue(LocationTools.areEqual(betweenFiveSix, betweenFiveSix));
	}

	public void testAreEqualBetweenFiveSixBetweenFiveTen()
	{
		assertTrue(!LocationTools.areEqual(betweenFiveSix, betweenFiveTen));
	}

	// Test contains operator
	public void testContainsOneTenBetweenFiveSix()
	{
		assertTrue(LocationTools.contains(rangeOneTen, betweenFiveSix));
	}

	public void testContainsBetweenFiveSixOneTen()
	{
		assertTrue(!LocationTools.contains(betweenFiveSix, rangeOneTen));
	}

	public void testContainsOneTenBetweenFiveSeven()
	{
		assertTrue(LocationTools.contains(rangeOneTen, betweenFiveSeven));
	}

	public void testContainsOneTenBetweenTenEleven()
	{
		assertTrue(!LocationTools.contains(rangeOneTen, betweenTenEleven));
	}

	public void testContainsOneTenBetweenNineEleven()
	{
		assertTrue(!LocationTools.contains(rangeOneTen, betweenNineEleven));
	}

	public void testContainsBetweenFiveSixBetweenFiveSix()
	{
		assertTrue(LocationTools.contains(betweenFiveSix, betweenFiveSix));
	}

	public void testContainsBetweenFiveTenBetweenFiveSix()
	{
		assertTrue(LocationTools.contains(betweenFiveTen, betweenFiveSix));
	}

	public void testContainsBetweenFiveSixBetweenFiveTen()
	{
		assertTrue(!LocationTools.contains(betweenFiveSix, betweenFiveTen));
	}

	public void testContainsBetweenFiveTenBetweenSevenTwelve()
	{
		assertTrue(!LocationTools.contains(betweenFiveTen, betweenSevenTwelve));
	}

	public void testContainsBetweenSevenTwelveBetweenFiveTen()
	{
		assertTrue(!LocationTools.contains(betweenSevenTwelve, betweenFiveTen));
	}

	// Test union operator
	public void testUnionRangeOneTenBetweenFiveSix()
	{
	}

	public void testUnionRangeOneTenBetweenFiveSeven()
	{
	}

	public void testUnionRangeOneTenBetweenTenEleven()
	{
	}

	public void testUnionRangeOneTenBetweenNineEleven()
	{
	}

	public void testUnionBetweenFiveSixBetweenFiveSix()
	{
	}

	public void testUnionBetweenFiveTenBetweenFiveSix()
	{
	}

	public void testUnionBetweenFiveTenBetweenSevenTwelve()
	{
	}

// Protected methods
	protected void setUp()
	{
		betweenFiveSix = new BetweenLocation(new RangeLocation(5, 6));
		betweenFiveSeven = new BetweenLocation(new RangeLocation(5, 7));
		betweenFiveTen = new BetweenLocation(new RangeLocation(5, 10));
		betweenSevenTwelve = new BetweenLocation(new RangeLocation(7, 12));
		betweenNineEleven = new BetweenLocation(new RangeLocation(9, 11));
		betweenTenEleven = new BetweenLocation(new RangeLocation(10, 11));
		rangeOneTen = new RangeLocation(1, 10);
		rangeFiveSix = new RangeLocation(5, 6);
	}

// Private methods
	/**
	 * This method assumes that the only decorator to deal with is between
	 * location.  Because of sheer lazyness, Between(5,10) and Circular(5,10)
	 * will return as equal from this method.
	 */
	private void assertEqual(Location theLocationA, Location theLocationB)
	{
		boolean locationAWrapped = false;
		boolean locationBWrapped = false;
		try
		{
			// Unwrap decorations
			if(LocationTools.isDecorated(theLocationA))
			{
				locationAWrapped = true;
				theLocationA = ((AbstractLocationDecorator)theLocationA).getWrapped();
			}

			if(LocationTools.isDecorated(theLocationB))
			{
				locationBWrapped = true;
				theLocationB = ((AbstractLocationDecorator)theLocationB).getWrapped();
			}
		}
		catch(ClassCastException cce)
		{
			throw new org.biojava.bio.BioError("Not possible: decorated by other than abstract location decorator");
		}
		assertTrue("The locations do not have the same decorators", locationAWrapped == locationBWrapped);

		// Delegate to LocationTools
		boolean result = LocationTools.areEqual(theLocationA, theLocationB);
		if(result == false)
		{
			fail("Locations not equal: " + theLocationA + " and " + theLocationB);
		}
	}
}