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
|
/*
* 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 java.util.Iterator;
import junit.framework.TestCase;
import org.biojava.bio.seq.DNATools;
import org.biojava.bio.seq.ProteinTools;
import org.biojava.bio.seq.RNATools;
public class TranslationTest extends TestCase {
private SymbolList dnaForm;
private SymbolList rnaForm;
private SymbolList pepForm;
public TranslationTest(String name) {
super(name);
}
protected void setUp() throws Exception {
dnaForm = DNATools.createDNA("tttcctgtc");
rnaForm = RNATools.createRNA("uuuccuguc");
pepForm = ProteinTools.createProtein("FPV");
}
public void testTranscribe()
throws Exception
{
assertTrue(compareSymbolList(RNATools.transcribe(dnaForm), rnaForm));
}
public void testTranslate()
throws Exception
{
assertTrue(compareSymbolList(RNATools.translate(rnaForm), pepForm));
}
private boolean compareSymbolList(SymbolList sl1, SymbolList sl2) {
if (sl1.length() != sl2.length()) {
return false;
}
Iterator si1 = sl1.iterator();
Iterator si2 = sl2.iterator();
while (si1.hasNext()) {
if (! (si1.next() == si2.next())) {
return false;
}
}
return true;
}
}
|
