@Test
public void testAddSubjectCriteriaNull() {
assertTrue(validTrial.getCriteria().isEmpty());
validTrial.addCriterion(null);
assertTrue(validTrial.getCriteria().isEmpty());
assertValid(validTrial);
}
@Test
public void testDateDepenceIsValid() {
stringUtil.getWithLength(20);
Trial trial = factory.getTrial();
trial.setStartDate(new GregorianCalendar(2006, 0, 1));
trial.setEndDate(new GregorianCalendar());
assertEquals(0, trialValidator.validate(trial).size());
trial.setStartDate(new GregorianCalendar());
trial.setEndDate(new GregorianCalendar(2006, 0, 1));
assertEquals(1, trialValidator.validate(trial).size());
trial.setStartDate(new GregorianCalendar(2006, 0, 1));
trial.setEndDate(new GregorianCalendar(2006, 0, 1));
assertEquals(1, trialValidator.validate(trial).size());
trial.setEndDate(null);
assertEquals(1, trialValidator.validate(trial).size());
trial.setCreatedAt(null);
assertEquals(1, trialValidator.validate(trial).size());
trial.setEndDate(new GregorianCalendar(2006, 0, 1));
assertEquals(1, trialValidator.validate(trial).size());
}
@Override
public void setUp() {
super.setUp();
authenticatAsAdmin();
validTrial = factory.getTrial();
validTrial.setLeadingSite(user.getPerson().getTrialSite());
validTrial.setSponsorInvestigator(user.getPerson());
// if(validTrial.getParticipatingSites().size()<2){
//
// Person cp2 = new Person();
// cp2.setFirstname("Contact");
// cp2.setSurname("Person");
// cp2.setEmail("*****@*****.**");
// cp2.setPhone("1234567");
// cp2.setSex(Gender.MALE);
// TrialSite trialSite1 = new TrialSite();
// trialSite1.setCity("Heidelberg");
// trialSite1.setCountry("Germany");
// trialSite1.setName("NCT");
// trialSite1.setPostcode("69120");
// trialSite1.setStreet("INF");
// trialSite1.setPassword("1$heidelberg");
// trialSite1.setContactPerson(cp2);
//
// trialSiteService.create(trialSite1);
// validTrial.addParticipatingSite(trialSite1);
// }
}
@Test
public void testGenerateIds() {
validTrial.setGenerateIds(true);
assertTrue(validTrial.isGenerateIds());
validTrial.setGenerateIds(false);
assertFalse(validTrial.isGenerateIds());
}
@Test
public void testLeadingSiteCorrect() {
TrialSite c = factory.getTrialSite();
validTrial.setLeadingSite(c);
assertEquals(c, validTrial.getLeadingSite());
assertValid(validTrial);
}
@Test
public void testStratifyTrialSite() {
validTrial.setStratifyTrialSite(true);
assertTrue(validTrial.isStratifyTrialSite());
validTrial.setStratifyTrialSite(false);
assertFalse(validTrial.isStratifyTrialSite());
}
@Test
public void testSponsorInvestigatorCorrect() {
Person p = factory.getPerson();
validTrial.setSponsorInvestigator(p);
assertEquals(p, validTrial.getSponsorInvestigator());
assertValid(validTrial);
}
@Test
public void testAddParticipatingSitesNull() {
assertTrue(validTrial.getParticipatingSites().isEmpty());
validTrial.addParticipatingSite(null);
validTrial.addParticipatingSite(null);
assertEquals(0, validTrial.getParticipatingSites().size());
assertValid(validTrial);
}
@Test
public void testNameLongerThan255() {
String[] invalidValues = {stringUtil.getWithLength(256), stringUtil.getWithLength(650)};
for (String s : invalidValues) {
validTrial.setName(s);
assertEquals(s, validTrial.getName());
assertInvalid(validTrial);
}
}
@Test
public void testAbbreviationNotLongerThan255() {
String[] invalidValue = {stringUtil.getWithLength(256), stringUtil.getWithLength(600)};
for (String s : invalidValue) {
validTrial.setAbbreviation(s);
assertEquals(s, validTrial.getAbbreviation());
assertInvalid(validTrial);
}
}
@Test
public void testRandomizationConfigurationCorrect() {
CompleteRandomizationConfig conf = new CompleteRandomizationConfig();
conf.setTrial(null);
assertNull(conf.getTrial());
validTrial.setRandomizationConfiguration(conf);
assertEquals(conf, validTrial.getRandomizationConfiguration());
assertEquals(validTrial, conf.getTrial());
assertValid(validTrial);
}
@Test
public void testEndDateNotNull() {
final GregorianCalendar startDate = new GregorianCalendar(1990, Calendar.NOVEMBER, 3);
validTrial.setStartDate(startDate);
assertEquals(startDate, validTrial.getStartDate());
validTrial.setEndDate(null);
assertNull(validTrial.getEndDate());
assertInvalid(validTrial);
}
@Test
public void testEndDateCorrect() {
final GregorianCalendar date = new GregorianCalendar(1996, Calendar.FEBRUARY, 29);
final GregorianCalendar endDate = new GregorianCalendar(2012, Calendar.NOVEMBER, 3);
validTrial.setEndDate(endDate);
assertEquals(endDate, validTrial.getEndDate());
validTrial.setStartDate(date);
assertEquals(date, validTrial.getStartDate());
assertValid(validTrial);
}
@Test
public void testAbbreviationCorrect() {
String[] validValue = {
stringUtil.getWithLength(255), stringUtil.getWithLength(1), stringUtil.getWithLength(136)
};
for (String s : validValue) {
validTrial.setAbbreviation(s);
assertEquals(s, validTrial.getAbbreviation());
assertValid(validTrial);
}
}
@Test
public void testStrataNamesAndIdsStrataCriterions() {
DichotomousCriterion criterion1 = new DichotomousCriterion();
criterion1.setId(1);
criterion1.setName("criterion1");
criterion1.setOption1("option1");
criterion1.setOption2("option2");
try {
DichotomousConstraint d1 = new DichotomousConstraint(Arrays.asList(new String[] {"option1"}));
d1.setId(1);
criterion1.addStrata(d1);
DichotomousConstraint d2 = new DichotomousConstraint(Arrays.asList(new String[] {"option2"}));
d2.setId(2);
criterion1.addStrata(d2);
} catch (ContraintViolatedException e) {
fail();
}
DichotomousCriterion criterion2 = new DichotomousCriterion();
criterion2.setId(2);
criterion2.setName("criterion2");
criterion2.setOption1("option1");
criterion2.setOption2("option2");
try {
DichotomousConstraint d1 = new DichotomousConstraint(Arrays.asList(new String[] {"option1"}));
d1.setId(1);
criterion2.addStrata(d1);
DichotomousConstraint d2 = new DichotomousConstraint(Arrays.asList(new String[] {"option2"}));
d2.setId(2);
criterion2.addStrata(d2);
} catch (ContraintViolatedException e) {
fail();
}
validTrial.addCriterion(criterion1);
validTrial.addCriterion(criterion2);
Pair<List<String>, List<String>> pair = validTrial.getAllStrataIdsAndNames();
assertEquals(4, pair.first().size());
assertEquals(4, pair.last().size());
Collections.sort(pair.first());
assertEquals("1_1;2_1;", pair.first().get(0));
assertEquals("1_1;2_2;", pair.first().get(1));
assertEquals("1_2;2_1;", pair.first().get(2));
assertEquals("1_2;2_2;", pair.first().get(3));
Collections.sort(pair.last());
assertEquals("criterion1_option1;criterion2_option1;", pair.last().get(0));
assertEquals("criterion1_option1;criterion2_option2;", pair.last().get(1));
assertEquals("criterion1_option2;criterion2_option1;", pair.last().get(2));
assertEquals("criterion1_option2;criterion2_option2;", pair.last().get(3));
}
@Test
public void testDescriptionAnyLengt() {
String[] validValues = {
stringUtil.getWithLength(8941),
stringUtil.getWithLength(2),
stringUtil.getWithLength(10000000)
};
for (String s : validValues) {
validTrial.setDescription(s);
assertEquals(s, validTrial.getDescription());
assertValid(validTrial);
}
}
@Override
@Transactional(propagation = Propagation.REQUIRED)
public void logRandomize(
LogEntry.ActionType action, String username, Trial trial, TrialSubject trialSubject) {
LogEntry entry = new LogEntry();
entry.setAction(action);
entry.setUsername(username);
entry.setClazz(trial.getClass());
entry.setIdentifier(trial.getId());
entry.setValue(trialSubject.toString());
entry.setUiName(trialSubject.getUIName());
entityManager.persist(entry);
}
@Test
public void testNameCorrect() {
String[] validValues = {
stringUtil.getWithLength(254),
stringUtil.getWithLength(2),
"Name",
stringUtil.getWithLength(132)
};
for (String s : validValues) {
validTrial.setName(s);
assertEquals(s, validTrial.getName());
assertValid(validTrial);
}
}
@Test
public void testSubjectCriteriaCorrect() {
DichotomousCriterion criterion1 = new DichotomousCriterion();
criterion1.setName("criterion1");
DichotomousCriterion criterion2 = new DichotomousCriterion();
criterion2.setName("criterion2");
List<
AbstractCriterion<
? extends Serializable, ? extends AbstractConstraint<? extends Serializable>>>
criteria =
new ArrayList<
AbstractCriterion<
? extends Serializable,
? extends AbstractConstraint<? extends Serializable>>>();
criteria.add(criterion1);
criteria.add(criterion2);
validTrial.setCriteria(criteria);
assertEquals(2, validTrial.getCriteria().size());
assertTrue(DichotomousCriterion.class.isInstance(validTrial.getCriteria().get(0)));
assertEquals("criterion1", validTrial.getCriteria().get(0).getName());
assertTrue(DichotomousCriterion.class.isInstance(validTrial.getCriteria().get(1)));
assertEquals("criterion2", validTrial.getCriteria().get(1).getName());
List<
AbstractCriterion<
? extends Serializable, ? extends AbstractConstraint<? extends Serializable>>>
list =
new ArrayList<
AbstractCriterion<
? extends Serializable,
? extends AbstractConstraint<? extends Serializable>>>();
validTrial.setCriteria(list);
assertEquals(list, validTrial.getCriteria());
}
@Test
public void testTreatmentArmsCorrect() {
TreatmentArm arm1 = new TreatmentArm();
arm1.setName("arm1");
TreatmentArm arm2 = new TreatmentArm();
arm2.setName("arm2");
List<TreatmentArm> arms = new ArrayList<TreatmentArm>();
arms.add(arm1);
arms.add(arm2);
validTrial.setTreatmentArms(arms);
assertEquals(arms, validTrial.getTreatmentArms());
assertEquals(2, validTrial.getTreatmentArms().size());
assertTrue(validTrial.getTreatmentArms().containsAll(arms));
assertValid(validTrial);
}
@Test
public void testConstructor() {
final Trial t = new Trial();
assertEquals("", t.getName());
assertEquals("", t.getDescription());
assertEquals("", t.getAbbreviation());
assertNull(t.getStartDate());
assertNull(t.getEndDate());
assertEquals(TrialStatus.IN_PREPARATION, t.getStatus());
assertNull(t.getProtocol());
assertEquals(0, t.getParticipatingSites().size());
}
@Test
public void testParticipatingSitesCorrect() {
Set<TrialSite> cl = validTrial.getParticipatingSites();
TrialSite c1 = factory.getTrialSite();
TrialSite c2 = factory.getTrialSite();
TrialSite c3 = factory.getTrialSite();
cl.add(c1);
cl.add(c2);
cl.add(c3);
assertEquals(3, validTrial.getParticipatingSites().size());
assertValid(validTrial);
}
@Test
public void testPlannedSubjectAmount() {
TreatmentArm arm1 = new TreatmentArm();
arm1.setName("arm1");
arm1.setTrial(validTrial);
arm1.setPlannedSubjects(100);
TreatmentArm arm2 = new TreatmentArm();
arm2.setName("arm2");
arm2.setTrial(validTrial);
arm2.setPlannedSubjects(100);
List<TreatmentArm> arms = new ArrayList<TreatmentArm>();
arms.add(arm1);
arms.add(arm2);
validTrial.setTreatmentArms(arms);
assertEquals(200, validTrial.getPlannedSubjectAmount());
}
@Test
public void testAddParticipatingSitesCorrect() {
assertTrue(validTrial.getParticipatingSites().isEmpty());
TrialSite[] validValues = {
factory.getTrialSite(),
factory.getTrialSite(),
factory.getTrialSite(),
factory.getTrialSite(),
factory.getTrialSite()
};
for (int i = 0; i < validValues.length; i++) {
validTrial.addParticipatingSite(validValues[i]);
assertEquals(i + 1, validTrial.getParticipatingSites().size());
assertTrue(validTrial.getParticipatingSites().contains(validValues[i]));
assertValid(validTrial);
}
}
@Test
public void testIsFresh() {
TreatmentArm arm1 = new TreatmentArm();
arm1.setName("arm1");
arm1.setTrial(validTrial);
arm1.setPlannedSubjects(100);
TreatmentArm arm2 = new TreatmentArm();
arm2.setName("arm2");
arm2.setTrial(validTrial);
arm2.setPlannedSubjects(100);
List<TreatmentArm> arms = new ArrayList<TreatmentArm>();
arms.add(arm1);
arms.add(arm2);
validTrial.setTreatmentArms(arms);
assertTrue(validTrial.isFresh());
arm1.addSubject(new TrialSubject());
assertFalse(validTrial.isFresh());
}
@Test
public void testStrataNamesAndIdsStrataTrialSite() {
TrialSite site1 = new TrialSite();
site1.setId(1);
site1.setName("site1");
TrialSite site2 = new TrialSite();
site2.setId(2);
site2.setName("site2");
TrialSite site3 = new TrialSite();
site3.setId(3);
site3.setName("site3");
TrialSite site4 = new TrialSite();
site4.setId(4);
site4.setName("site4");
validTrial.addParticipatingSite(site1);
validTrial.addParticipatingSite(site2);
validTrial.addParticipatingSite(site3);
validTrial.addParticipatingSite(site4);
validTrial.setStratifyTrialSite(true);
Pair<List<String>, List<String>> pair = validTrial.getAllStrataIdsAndNames();
assertEquals(4, pair.first().size());
assertEquals(4, pair.last().size());
Collections.sort(pair.first());
assertEquals("1__", pair.first().get(0));
assertEquals("2__", pair.first().get(1));
assertEquals("3__", pair.first().get(2));
assertEquals("4__", pair.first().get(3));
Collections.sort(pair.last());
assertEquals("site1", pair.last().get(0));
assertEquals("site2", pair.last().get(1));
assertEquals("site3", pair.last().get(2));
assertEquals("site4", pair.last().get(3));
}
@Test
public void testTotalSubjectAmount() {
TreatmentArm arm1 = new TreatmentArm();
arm1.setName("arm1");
arm1.setTrial(validTrial);
arm1.setPlannedSubjects(100);
TreatmentArm arm2 = new TreatmentArm();
arm2.setName("arm2");
arm2.setTrial(validTrial);
arm2.setPlannedSubjects(100);
List<TreatmentArm> arms = new ArrayList<TreatmentArm>();
arms.add(arm1);
arms.add(arm2);
validTrial.setTreatmentArms(arms);
for (int i = 1; i <= 100; i++) {
if (i % 2 == 0) {
arm1.addSubject(new TrialSubject());
} else {
arm2.addSubject(new TrialSubject());
}
assertEquals(i, validTrial.getTotalSubjectAmount());
}
}
@Test
public void testStatusCorrect() {
validTrial.setStatus(TrialStatus.IN_PREPARATION);
assertEquals(TrialStatus.IN_PREPARATION, validTrial.getStatus());
assertValid(validTrial);
validTrial.setStatus(TrialStatus.ACTIVE);
assertEquals(TrialStatus.ACTIVE, validTrial.getStatus());
assertValid(validTrial);
validTrial.setStatus(TrialStatus.PAUSED);
assertEquals(TrialStatus.PAUSED, validTrial.getStatus());
assertValid(validTrial);
validTrial.setStatus(TrialStatus.FINISHED);
assertEquals(TrialStatus.FINISHED, validTrial.getStatus());
}
@Test
public void testGetSubjects() {
TreatmentArm arm1 = new TreatmentArm();
arm1.setName("arm1");
arm1.setTrial(validTrial);
arm1.setPlannedSubjects(100);
TreatmentArm arm2 = new TreatmentArm();
arm2.setName("arm2");
arm2.setTrial(validTrial);
arm2.setPlannedSubjects(100);
List<TreatmentArm> arms = new ArrayList<TreatmentArm>();
arms.add(arm1);
arms.add(arm2);
validTrial.setTreatmentArms(arms);
for (int i = 1; i <= 100; i++) {
TrialSubject sub = new TrialSubject();
if (i % 2 == 0) {
arm1.addSubject(sub);
} else {
arm2.addSubject(sub);
}
assertTrue(validTrial.getSubjects().contains(sub));
}
}
@Test
public void testGetRequieredFields() {
Map<String, Boolean> map = validTrial.getRequiredFields();
for (String key : map.keySet()) {
if (key.equals("name")) {
assertTrue(map.get(key));
} else if (key.equals("abbreviation")) {
assertFalse(map.get(key));
} else if (key.equals("stratifyTrialSite")) {
assertFalse(map.get(key));
} else if (key.equals("description")) {
assertFalse(map.get(key));
} else if (key.equals("startDate")) {
assertFalse(map.get(key));
} else if (key.equals("endDate")) {
assertFalse(map.get(key));
} else if (key.equals("protocol")) {
assertFalse(map.get(key));
} else if (key.equals("sponsorInvestigator")) {
assertTrue(map.get(key));
} else if (key.equals("leadingSite")) {
assertTrue(map.get(key));
} else if (key.equals("status")) {
assertTrue(map.get(key));
} else if (key.equals("participatingSites")) {
assertFalse(map.get(key));
} else if (key.equals("treatmentArms")) {
assertFalse(map.get(key));
} else if (key.equals("subjectCriteria")) {
assertFalse(map.get(key));
} else if (key.equals("randomConf")) {
assertFalse(map.get(key));
} else if (key.equals("generateIds")) {
assertFalse(map.get(key));
} else if (key.equals("serialVersionUID")) {
assertFalse(map.get(key));
} else if (key.equals("SUBJECT_COUNT_COMPERATOR")) {
assertFalse(map.get(key));
} else if (key.equals("$VRc")) {
assertFalse(map.get(key));
} else fail(key + " not checked");
}
}
