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/*
* 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.ArrayList;
import java.util.Iterator;
import java.util.List;
import junit.framework.TestCase;
/**
* <p>Title: MergeLocationTest</p>
* <p>Description: Tests the MergeLocation class</p>
* <p>Copyright: Copyright (c) 2002</p>
* <p>Company: AgResearch</p>
* @author Mark Schreiber
* @author Francois Pepin
* @version 1.0
*/
public class MergeLocationTest extends TestCase {
Location a;
Location b;
Location c;
Location d;
Location e;
Location f;
Location g;
MergeLocation ml;
List la;
List lb;
List nestl;
Location abc;
Location abcd;
MergeLocation fg;
Location nested;
public MergeLocationTest(String name){
super(name);
}
/**
* Runs the unit tests defined here.
*/
public static void main(String args[])
{
junit.textui.TestRunner.run(MergeLocationTest.class);
}
protected void setUp() throws java.lang.Exception {
super.setUp();
a = new RangeLocation(1, 10);
b = new RangeLocation(30,40);
c = new RangeLocation(35,65);
d = new RangeLocation(80,90);
e = new RangeLocation(60,70);
f = new RangeLocation(60,64);
g = new RangeLocation(65,70);
la = new ArrayList();
lb = new ArrayList();
nestl = new ArrayList();
la.add(a);
la.add(b);
la.add(c);
lb.add(a);
lb.add(b);
lb.add(c);
lb.add(d);
nestl.add(a);
nestl.add(d);
nestl.add(e);
ml = MergeLocation.mergeLocations(b,c);
nestl.add(ml);
abc = LocationTools.union(la);
abcd = LocationTools.union(lb);
fg = MergeLocation.mergeLocations(f,g);
nested = LocationTools.union(nestl);
}
protected void tearDown() throws java.lang.Exception {
super.tearDown();
}
public void testInstantiation()throws Exception{
assertNotNull(ml);
assertNotNull(abc);
assertNotNull(abcd);
assertNotNull(nested);
}
public void testBlocks(){
assertNotNull(ml.getComponentList(false));
assertTrue(fg.getComponentList(false).size() == 2);
assertTrue(ml.getComponentList(false).size() == 2);
assertTrue(ml.getComponentList(true).size() == 2);
}
public void testTouchingMerge(){
assertTrue(fg.getComponentList(true).size() == 2);
assertTrue(fg.isContiguous());
}
public void testCompoundABC(){
int blocks = 0;
MergeLocation loc = null;
for (Iterator i = abc.blockIterator(); i.hasNext(); ) {
Object item = i.next();
if(item instanceof MergeLocation){
loc = (MergeLocation)item;
}
blocks++;
}
assertTrue(blocks == 2);
assertNotNull(loc);
assertTrue(abc.getMax() == 65);
assertTrue(abc.getMin() == 1);
assertTrue(loc.getComponentList(false).size() == 2);
assertTrue(loc.getComponentList(true).size() == 2);
}
public void testCompoundABCD(){
int blocks = 0;
MergeLocation loc = null;
for (Iterator i = abcd.blockIterator(); i.hasNext(); ) {
Object item = i.next();
if(item instanceof MergeLocation){
loc = (MergeLocation)item;
}
blocks++;
}
assertTrue(blocks == 3);
assertTrue(abcd.getMin() == 1);
assertTrue(abcd.getMax() == 90);
assertTrue(loc.getComponentList(true).size() == 2);
assertTrue(loc.getComponentList(false).size() == 2);
}
public void testNested(){
int blocks = 0;
MergeLocation loc = null;
for (Iterator i = nested.blockIterator(); i.hasNext(); ) {
Object item = i.next();
if(item instanceof MergeLocation){
loc = (MergeLocation)item;
}
blocks++;
}
assertTrue(blocks == 3);
assertTrue(nested.getMax() == 90);
assertTrue(nested.getMin()==1);
assertTrue(loc.getComponentList(false).size()==2);
assertTrue(loc.getComponentList(true).size()==3);
}
}
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