/*
* This file is part of ADDIS (Aggregate Data Drug Information System).
* ADDIS is distributed from http://drugis.org/.
* Copyright © 2009 Gert van Valkenhoef, Tommi Tervonen.
* Copyright © 2010 Gert van Valkenhoef, Tommi Tervonen, Tijs Zwinkels,
* Maarten Jacobs, Hanno Koeslag, Florin Schimbinschi, Ahmad Kamal, Daniel
* Reid.
* Copyright © 2011 Gert van Valkenhoef, Ahmad Kamal, Daniel Reid, Florin
* Schimbinschi.
* Copyright © 2012 Gert van Valkenhoef, Daniel Reid, Joël Kuiper, Wouter
* Reckman.
* Copyright © 2013 Gert van Valkenhoef, Joël Kuiper.
*
* This program is free software: you can redistribute it and/or modify
* it under the terms of the GNU General Public License as published by
* the Free Software Foundation, either version 3 of the License, or
* (at your option) any later version.
*
* This program is distributed in the hope that it will be useful,
* but WITHOUT ANY WARRANTY; without even the implied warranty of
* MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
* GNU General Public License for more details.
*
* You should have received a copy of the GNU General Public License
* along with this program. If not, see <http://www.gnu.org/licenses/>.
*/
package org.drugis.addis.presentation;
import static org.drugis.common.JUnitUtil.assertAllAndOnly;
import static org.easymock.EasyMock.createStrictMock;
import static org.easymock.EasyMock.replay;
import static org.easymock.EasyMock.verify;
import static org.junit.Assert.assertEquals;
import static org.junit.Assert.assertNotNull;
import static org.junit.Assert.assertTrue;
import java.util.ArrayList;
import java.util.Arrays;
import java.util.Collections;
import java.util.List;
import java.util.Set;
import javax.swing.event.ListDataEvent;
import javax.swing.event.ListDataListener;
import org.drugis.addis.ExampleData;
import org.drugis.addis.entities.Domain;
import org.drugis.addis.entities.DomainImpl;
import org.drugis.addis.entities.OutcomeMeasure;
import org.drugis.addis.entities.Study;
import org.drugis.addis.entities.treatment.TreatmentCategorization;
import org.drugis.addis.entities.treatment.TreatmentDefinition;
import org.drugis.addis.presentation.TreatmentDefinitionsGraphModel.Edge;
import org.drugis.addis.presentation.TreatmentDefinitionsGraphModel.Vertex;
import org.drugis.common.event.ListDataEventMatcher;
import org.junit.Before;
import org.junit.Test;
import com.jgoodies.binding.list.ArrayListModel;
import com.jgoodies.binding.list.ObservableList;
public class StudyGraphModelTest {
private TreatmentDefinitionsGraphModel d_pm;
private List<TreatmentDefinition> d_drugs;
private Domain d_domain;
private ObservableList<TreatmentDefinition> d_drugListHolder;
private ValueHolder<OutcomeMeasure> d_outcome;
@Before
public void setUp() {
d_domain = new DomainImpl();
ExampleData.initDefaultData(d_domain);
d_drugs = new ArrayList<TreatmentDefinition>();
d_drugs.add(TreatmentDefinition.createTrivial(ExampleData.buildDrugFluoxetine()));
d_drugs.add(TreatmentDefinition.createTrivial(ExampleData.buildDrugParoxetine()));
d_drugs.add(TreatmentDefinition.createTrivial(ExampleData.buildDrugSertraline()));
d_outcome = new UnmodifiableHolder<OutcomeMeasure>(ExampleData.buildEndpointHamd());
ObservableList<Study> studies = new ArrayListModel<Study>(Arrays.asList(
ExampleData.buildStudyBennie(), ExampleData.buildStudyChouinard(),
ExampleData.buildStudyDeWilde(), ExampleData.buildStudyMultipleArmsperDrug()));
d_drugListHolder = new ArrayListModel<TreatmentDefinition>(d_drugs);
d_pm = new TreatmentDefinitionsGraphModel(studies, d_drugListHolder, d_outcome);
}
@Test
public void testGetDrugs() {
assertAllAndOnly(d_drugs, d_pm.getDefinitions());
}
@Test
public void testGetStudies1() {
List<Study> studies = new ArrayList<Study>();
studies.add(ExampleData.buildStudyBennie());
studies.add(ExampleData.buildStudyChouinard());
studies.add(ExampleData.buildStudyDeWilde());
studies.add(ExampleData.buildStudyMultipleArmsperDrug());
assertAllAndOnly(studies, d_pm.getStudies(TreatmentDefinition.createTrivial(ExampleData.buildDrugFluoxetine())));
studies.remove(ExampleData.buildStudyBennie());
assertAllAndOnly(studies, d_pm.getStudies(TreatmentDefinition.createTrivial(ExampleData.buildDrugParoxetine())));
assertAllAndOnly(Collections.<Study>singletonList(ExampleData.buildStudyBennie()),
d_pm.getStudies(TreatmentDefinition.createTrivial(ExampleData.buildDrugSertraline())));
}
@Test
public void testGetStudies2() {
List<Study> studies = new ArrayList<Study>();
studies.add(ExampleData.buildStudyChouinard());
studies.add(ExampleData.buildStudyDeWilde());
studies.add(ExampleData.buildStudyMultipleArmsperDrug());
assertAllAndOnly(studies, d_pm.getStudies(TreatmentDefinition.createTrivial(ExampleData.buildDrugFluoxetine()), TreatmentDefinition.createTrivial(ExampleData.buildDrugParoxetine())));
studies.remove(ExampleData.buildStudyBennie());
assertAllAndOnly(Collections.emptyList(),
d_pm.getStudies(TreatmentDefinition.createTrivial(ExampleData.buildDrugParoxetine()), TreatmentDefinition.createTrivial(ExampleData.buildDrugSertraline())));
assertAllAndOnly(Collections.<Study>singletonList(ExampleData.buildStudyBennie()),
d_pm.getStudies(TreatmentDefinition.createTrivial(ExampleData.buildDrugSertraline()), TreatmentDefinition.createTrivial(ExampleData.buildDrugFluoxetine())));
}
@Test
public void testGetStudiesWithNonTrivial() {
TreatmentCategorization upto20mg = ExampleData.buildCategorizationUpto20mg(ExampleData.buildDrugFluoxetine());
TreatmentDefinition def = new TreatmentDefinition(upto20mg.getCategories());
ArrayListModel<TreatmentDefinition> defs = new ArrayListModel<TreatmentDefinition>();
defs.add(def);
ObservableList<Study> studies = new ArrayListModel<Study>();
studies.add(ExampleData.buildStudyChouinard());
Study bennie = ExampleData.buildStudyBennie();
studies.add(bennie);
TreatmentDefinitionsGraphModel pm = new TreatmentDefinitionsGraphModel(studies, defs, new UnmodifiableHolder<OutcomeMeasure>(ExampleData.buildEndpointHamd()));
assertAllAndOnly(Collections.singleton(bennie), pm.getStudies(def));
}
@Test
public void testVertexSet() {
Set<Vertex> vertexSet = d_pm.vertexSet();
assertEquals(3, vertexSet.size());
for (Vertex vertex : vertexSet) {
assertTrue(d_drugs.contains(vertex.getTreatmentDefinition()));
assertEquals(calcSampleSize(vertex.getTreatmentDefinition()), vertex.getSampleSize());
}
}
@Test
public void testEdgeSet() {
Set<Edge> edgeSet = d_pm.edgeSet();
assertEquals(2, edgeSet.size());
Edge edge1 = d_pm.getEdge(
getVertex(TreatmentDefinition.createTrivial(ExampleData.buildDrugFluoxetine())),
getVertex(TreatmentDefinition.createTrivial(ExampleData.buildDrugParoxetine())));
assertNotNull(edge1);
assertEquals(3, edge1.getStudyCount());
Edge edge2 = d_pm.getEdge(
getVertex(TreatmentDefinition.createTrivial(ExampleData.buildDrugFluoxetine())),
getVertex(TreatmentDefinition.createTrivial(ExampleData.buildDrugSertraline())));
assertNotNull(edge2);
assertEquals(1, edge2.getStudyCount());
Edge edge3 = d_pm.getEdge(
getVertex(TreatmentDefinition.createTrivial(ExampleData.buildDrugSertraline())),
getVertex(TreatmentDefinition.createTrivial(ExampleData.buildDrugFluoxetine())));
assertEquals(edge2, edge3);
}
@Test
public void testFindVertex() {
assertEquals(TreatmentDefinition.createTrivial(ExampleData.buildDrugFluoxetine()),
d_pm.findVertex(TreatmentDefinition.createTrivial(ExampleData.buildDrugFluoxetine())).getTreatmentDefinition());
}
@Test
public void testNullEndpoint() {
d_pm = new TreatmentDefinitionsGraphModel(new ArrayListModel<Study>(), new ArrayListModel<TreatmentDefinition>(Collections.<TreatmentDefinition>emptyList()),
new UnmodifiableHolder<OutcomeMeasure>(null));
assertTrue(d_pm.vertexSet().isEmpty());
}
@Test
public void testChangeDrugList() {
assertEquals(3, d_pm.vertexSet().size());
assertEquals(2, d_pm.edgeSet().size());
ListDataListener l = createStrictMock(ListDataListener.class);
l.intervalRemoved(ListDataEventMatcher.eqListDataEvent(new ListDataEvent(d_drugListHolder, ListDataEvent.INTERVAL_REMOVED, 0, 2)));
replay(l);
d_drugListHolder.addListDataListener(l);
d_drugListHolder.clear();
d_pm.rebuildGraph();
assertTrue(d_pm.vertexSet().isEmpty());
verify(l);
}
@Test
public void testChangeStudyList() {
ObservableList<TreatmentDefinition> drugListHolder = new ArrayListModel<TreatmentDefinition>(d_drugs);
ObservableList<Study> studyListHolder = new ArrayListModel<Study>();
d_pm = new TreatmentDefinitionsGraphModel(studyListHolder, drugListHolder, new UnmodifiableHolder<OutcomeMeasure>(ExampleData.buildEndpointHamd()));
assertEquals(3, d_pm.vertexSet().size());
assertTrue(d_pm.edgeSet().isEmpty());
studyListHolder.addAll(d_domain.getStudies(ExampleData.buildEndpointHamd()));
d_pm.rebuildGraph();
assertEquals(3, d_pm.vertexSet().size());
assertEquals(2, d_pm.edgeSet().size());
}
private Vertex getVertex(TreatmentDefinition drug) {
return d_pm.findVertex(drug);
}
private int calcSampleSize(TreatmentDefinition drug) {
int n = 0;
for (Study s : d_pm.getStudies(drug)) {
n += s.getSampleSize();
}
return n;
}
}