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
|
/*
* 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.seq;
import junit.framework.TestCase;
/**
* Tests for SimpleAssembly. By dependancy, this also
* tests ProjectedFeatureHolder and SimpleAssembly.
*
* @author Thomas Down
* @since 1.3
*/
public class MergeFeatureHolderTest extends TestCase
{
public MergeFeatureHolderTest(String name) {
super(name);
}
public void testTopLevelAccess()
throws Exception
{
MergeFeatureHolder mfh = new MergeFeatureHolder();
mfh.addFeatureHolder(new SimpleFeatureHolder(
new FeatureFilter.And(
FeatureFilter.top_level,
new FeatureFilter.And(
new FeatureFilter.ByType("foo"),
FeatureFilter.leaf
)
)
));
mfh.addFeatureHolder(new FailOnAccessFeatureHolder(
new FeatureFilter.And(
FeatureFilter.top_level,
new FeatureFilter.And(
new FeatureFilter.ByType("bar"),
new FeatureFilter.OnlyChildren(
new FeatureFilter.And(
new FeatureFilter.ByType("foo"),
FeatureFilter.leaf
)
)
)
)
));
mfh.filter(new FeatureFilter.ByType("foo"), false).countFeatures();
}
public void testRecursiveAccess()
throws Exception
{
MergeFeatureHolder mfh = new MergeFeatureHolder();
mfh.addFeatureHolder(new SimpleFeatureHolder(
new FeatureFilter.And(
FeatureFilter.top_level,
new FeatureFilter.And(
new FeatureFilter.ByType("foo"),
FeatureFilter.leaf
)
)
));
mfh.addFeatureHolder(new FailOnAccessFeatureHolder(
new FeatureFilter.And(
FeatureFilter.top_level,
new FeatureFilter.And(
new FeatureFilter.ByType("bar"),
new FeatureFilter.OnlyChildren(
new FeatureFilter.And(
new FeatureFilter.ByType("baz"),
FeatureFilter.leaf
)
)
)
)
));
mfh.filter(new FeatureFilter.ByType("quux")).countFeatures();
}
private class FailOnAccessFeatureHolder extends LazyFeatureHolder {
public FailOnAccessFeatureHolder(FeatureFilter schema) {
super(schema);
}
protected FeatureHolder createFeatureHolder() {
throw new RuntimeException("This FeatureHolder should not have been accessed");
}
}
}
|
