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package org.biojava.bio.dp;
import junit.framework.TestCase;
import org.biojava.bio.Annotation;
import org.biojava.bio.dist.Distribution;
import org.biojava.bio.dist.DistributionFactory;
import org.biojava.bio.seq.DNATools;
import org.biojava.bio.symbol.IllegalAlphabetException;
import org.biojava.bio.symbol.IllegalSymbolException;
import org.biojava.utils.ChangeType;
import org.biojava.utils.ChangeVetoException;
/**
* Test emission state events.
*
* @author Matthew Pocock
*/
public class EmissionStateEventTest
extends TestCase {
public void testDistribution_setWeight() {
try {
Distribution dist = DistributionFactory.DEFAULT.createDistribution(
DNATools.getDNA());
EmissionState es = new SimpleEmissionState("test",
Annotation.EMPTY_ANNOTATION,
new int[] { 1 },
dist);
EventCounter everything = new EventCounter("Everything");
EventCounter distC = new EventCounter("Distribution counter");
EventCounter advC = new EventCounter("Advance counter");
es.addChangeListener(everything, ChangeType.UNKNOWN);
es.addChangeListener(distC, EmissionState.DISTRIBUTION);
es.addChangeListener(advC, EmissionState.ADVANCE);
// test setWeight - should cause a DISTRIBUTION event, and no Advance event
dist.setWeight(DNATools.a(), 0.3);
dist.setWeight(DNATools.a(), 0.7);
assertEquals("No distribution events vetoed: " + distC + "\n\t" + everything, distC.getPreCounts(), distC.getPostCounts());
assertEquals("No advance events vetoed: " + advC + "\n\t" + everything, advC.getPreCounts(), advC.getPostCounts());
assertEquals("Two distribution events: " + distC + "\n\t" + everything, 2, distC.getPostCounts());
assertEquals("No advance events: " + advC + "\n\t" + everything, 0, advC.getPostCounts());
} catch (IllegalAlphabetException iae) {
throw (AssertionError) new AssertionError("Can not create distribution.").initCause(iae);
} catch (IllegalSymbolException ise) {
throw (AssertionError) new AssertionError("Can not set weight.").initCause(ise);
} catch (ChangeVetoException cve) {
throw (AssertionError) new AssertionError("Prevented from setting weight.").initCause(cve);
}
}
public void testSetDistribution() {
try {
Distribution dist = DistributionFactory.DEFAULT.createDistribution(
DNATools.getDNA());
Distribution dist2 = DistributionFactory.DEFAULT.createDistribution(
DNATools.getDNA());
EmissionState es = new SimpleEmissionState("test",
Annotation.EMPTY_ANNOTATION,
new int[] { 1 },
dist);
EventCounter everything = new EventCounter("Everything");
EventCounter distC = new EventCounter("Distribution counter");
EventCounter advC = new EventCounter("Advance counter");
es.addChangeListener(everything, ChangeType.UNKNOWN);
es.addChangeListener(distC, EmissionState.DISTRIBUTION);
es.addChangeListener(advC, EmissionState.ADVANCE);
// test setDistribution - should cause a DISTRIBUTION event, and no Advance event
es.setDistribution(dist2);
assertEquals("No distribution events vetoed: " + distC + "\n\t" + everything, distC.getPreCounts(), distC.getPostCounts());
assertEquals("No advance events vetoed: " + advC + "\n\t" + everything, advC.getPreCounts(), advC.getPostCounts());
assertEquals("One distribution event: " + distC + "\n\t" + everything, 1, distC.getPostCounts());
assertEquals("No advance events: " + advC + "\n\t" + everything, 0, advC.getPostCounts());
} catch (IllegalAlphabetException iae) {
throw (AssertionError) new AssertionError("Can not create distribution.").initCause(iae);
} catch (ChangeVetoException cve) {
throw (AssertionError) new AssertionError("Prevented from setting weight.").initCause(cve);
}
}
}
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