@Override
protected void initializeEntity(Screen screen) {
super.initializeEntity(screen);
getDao().needReadOnly(screen, Screen.labHead.to(LabHead.labAffiliation));
getDao().needReadOnly(screen, Screen.labHead.to(LabHead.labMembers));
getDao().needReadOnly(screen, Screen.leadScreener);
getDao().needReadOnly(screen, Screen.collaborators.to(ScreeningRoomUser.LabHead));
getDao().needReadOnly(screen, Screen.billingItems);
getDao().needReadOnly(screen, Screen.labActivities.to(Activity.performedBy));
// Note: explicit load of serviceActivity screen; however this doesn't solve the need
// to reload the screeen when displaying the activity in the ActivitySearchResults - sde4
getDao().needReadOnly(screen, Screen.serviceActivities.to(Activity.performedBy));
getDao().needReadOnly(screen, Screen.serviceActivities.to(ServiceActivity.servicedUser));
getDao().needReadOnly(screen, Screen.serviceActivities.to(ServiceActivity.servicedScreen));
getDao().needReadOnly(screen, Screen.attachedFiles.to(AttachedFile.fileType));
getDao().needReadOnly(screen, Screen.fundingSupports);
getDao().needReadOnly(screen, Screen.publications);
getDao().needReadOnly(screen, Screen.keywords);
getDao().needReadOnly(screen, Screen.statusItems);
getDao().needReadOnly(screen, Screen.cherryPickRequests.to(CherryPickRequest.requestedBy));
// getDao().needReadOnly(screen, Screen.annotationTypes.to(AnnotationType.annotationValues));
getDao()
.needReadOnly(
screen.getScreenResult(), ScreenResult.dataColumns.to(DataColumn.derivedTypes));
getDao()
.needReadOnly(
screen.getScreenResult(), ScreenResult.dataColumns.to(DataColumn.typesDerivedFrom));
// for screen result last data import date
getDao().needReadOnly(screen, AuditedAbstractEntity.updateActivities);
getDao().needReadOnly(screen, Screen.pinTransferApprovalActivity.to(Activity.createdBy));
getDao().needReadOnly(screen, Screen.pinTransferApprovalActivity.to(Activity.performedBy));
}
private Screen createScreen(String title, ScreenType type) {
log.info("leads" + leadScreener);
Screen screen =
new Screen(
null,
Integer.toString(screen_number_counter++),
leadScreener,
labHead,
type,
StudyType.IN_VITRO,
ProjectPhase.PRIMARY_SCREEN,
title);
screen.addCollaborator(collaborator);
screen.createStatusItem(new LocalDate(), ScreenStatus.ACCEPTED);
genericEntityDao.persistEntity(screen);
return screen;
}
/**
* Test the updates of single screens to various levels TODO: should check the audit log too
*
* @throws Exception
*/
public void testScreenDataSharingLevelUpdater() throws Exception {
initializeData();
Screen screen = createScreen("SDSL TEST");
flushAndClear();
screen = genericEntityDao.reloadEntity(screen);
assertEquals(ScreenDataSharingLevel.PRIVATE, screen.getDataSharingLevel());
screenDataSharingLevelUpdater.updateScreen(
screen, ScreenDataSharingLevel.MUTUAL_SCREENS, admin);
flushAndClear();
screen = genericEntityDao.reloadEntity(screen);
assertEquals(ScreenDataSharingLevel.MUTUAL_SCREENS, screen.getDataSharingLevel());
screenDataSharingLevelUpdater.updateScreen(
screen, ScreenDataSharingLevel.MUTUAL_POSITIVES, admin);
flushAndClear();
screen = genericEntityDao.reloadEntity(screen);
assertEquals(ScreenDataSharingLevel.MUTUAL_POSITIVES, screen.getDataSharingLevel());
screenDataSharingLevelUpdater.updateScreen(screen, ScreenDataSharingLevel.SHARED, admin);
flushAndClear();
screen = genericEntityDao.reloadEntity(screen);
assertEquals(ScreenDataSharingLevel.SHARED, screen.getDataSharingLevel());
screenDataSharingLevelUpdater.updateScreen(screen, ScreenDataSharingLevel.PRIVATE, admin);
flushAndClear();
screen = genericEntityDao.reloadEntity(screen);
assertEquals(ScreenDataSharingLevel.PRIVATE, screen.getDataSharingLevel());
}
public void initializeViewer(Screen screen) {
super.initializeViewer(screen);
_screenDetailViewer.setEntity(screen);
ScreenResult screenResult = screen.getScreenResult();
if (screenResult != null && screenResult.isRestricted()) {
screenResult = null;
}
_screenResultViewer.setEntity(screenResult);
_heatMapViewer.setScreenResult(screenResult);
_cellHTS2Runner.setScreenResult(screenResult);
warnAdminOnMismatchedDataSharingLevel(screen);
}
private void warnAdminOnMismatchedDataSharingLevel(Screen screen) {
if (isReadAdmin()) {
if (screen.getLabHead() != null) {
ScreenDataSharingLevel screenDslForLabHead =
DataSharingLevelMapper.getScreenDataSharingLevelForUser(
screen.getScreenType(), screen.getLabHead());
if (screen.getDataSharingLevel().compareTo(screenDslForLabHead) > 0) {
showMessage(
"screens.dataSharingLevelTooRestrictive",
screen.getDataSharingLevel().toString(),
DataSharingLevelMapper.getPrimaryDataSharingLevelRoleForUser(
screen.getScreenType(), screen.getLabHead()));
}
}
}
}
/** Test the bulk expire method */
public void testExpire() throws Exception {
initializeData();
LocalDate date = new LocalDate(new Date());
testFindExpired();
flushAndClear();
screen1NotExpired = genericEntityDao.reloadEntity(screen1NotExpired);
screen2Expired = genericEntityDao.reloadEntity(screen2Expired);
screen3Expired = genericEntityDao.reloadEntity(screen3Expired);
screen4Default = genericEntityDao.reloadEntity(screen4Default);
screen5RnaiExpired = genericEntityDao.reloadEntity(screen5RnaiExpired);
screen6ExpiredNoResults = genericEntityDao.reloadEntity(screen6ExpiredNoResults);
screen7ExpiredDropped = genericEntityDao.reloadEntity(screen7ExpiredDropped);
screen8ExpiredTransferred = genericEntityDao.reloadEntity(screen8ExpiredTransferred);
screen9ExpiredMaxDatePassed = genericEntityDao.reloadEntity(screen9ExpiredMaxDatePassed);
List<Pair<Screen, AdministrativeActivity>> results =
screenDataSharingLevelUpdater.expireScreenDataSharingLevels(
date, admin, ScreenType.SMALL_MOLECULE);
// TODO: Do some checking of the activities as well.
Set<Screen> screens = Sets.newLinkedHashSet();
for (Pair<Screen, AdministrativeActivity> result : results) {
screens.add(result.getFirst());
}
log.info("screens: " + screens);
screen1NotExpired = genericEntityDao.reloadEntity(screen1NotExpired);
screen2Expired = genericEntityDao.reloadEntity(screen2Expired);
screen3Expired = genericEntityDao.reloadEntity(screen3Expired);
screen4Default = genericEntityDao.reloadEntity(screen4Default);
screen5RnaiExpired = genericEntityDao.reloadEntity(screen5RnaiExpired);
assertTrue("screen2Expired should be expired", screens.contains(screen2Expired));
assertTrue(
"screen2Expired should be shared",
screen2Expired.getDataSharingLevel() == ScreenDataSharingLevel.MUTUAL_SCREENS);
assertTrue("screen3Expired should be expired", screens.contains(screen3Expired));
assertTrue(
"screen3Expired should be shared",
screen3Expired.getDataSharingLevel() == ScreenDataSharingLevel.MUTUAL_SCREENS);
assertFalse("screen4Default should not be expired", screens.contains(screen4Default));
assertTrue(
"screen4Default should not be shared",
screen4Default.getDataSharingLevel() != ScreenDataSharingLevel.MUTUAL_SCREENS);
assertFalse("screen1NotExpired should be expired", screens.contains(screen1NotExpired));
assertTrue(
"screen1NotExpired should not be shared",
screen1NotExpired.getDataSharingLevel() != ScreenDataSharingLevel.MUTUAL_SCREENS);
assertFalse(
"screen5RnaiExpired should NOT be expired (unless setting the screenType=RNAi)",
screens.contains(screen5RnaiExpired));
assertTrue(
"screen5RnaiExpired NOT should be shared",
screen5RnaiExpired.getDataSharingLevel() != ScreenDataSharingLevel.MUTUAL_SCREENS);
assertTrue(
"screen9ExpiredMaxDatePassed should be expired",
screens.contains(screen9ExpiredMaxDatePassed));
assertTrue(
"screen9ExpiredMaxDatePassed should be shared",
screen9ExpiredMaxDatePassed.getDataSharingLevel() == ScreenDataSharingLevel.MUTUAL_SCREENS);
// TODO: Do some checking of the activities as well.
// RNAi
results =
screenDataSharingLevelUpdater.expireScreenDataSharingLevels(date, admin, ScreenType.RNAI);
screen5RnaiExpired = genericEntityDao.reloadEntity(screen5RnaiExpired);
assertFalse(results.isEmpty());
assertTrue("should only return the 1 RNAI screen: " + results, results.size() == 1);
assertTrue(
"screen5RnaiExpired should be expired (setting the screenType=RNAi)",
results.get(0).getFirst().equals((screen5RnaiExpired)));
assertTrue(
"screen5RnaiExpired should be shared",
screen5RnaiExpired.getDataSharingLevel() == ScreenDataSharingLevel.MUTUAL_SCREENS);
}
public void testFindExpired() throws Exception {
initializeData();
LocalDate date = new LocalDate(new Date());
screen1NotExpired = createScreen("SDSL TEST1");
screen1NotExpired.setDataPrivacyExpirationDate(date.plusYears(2));
genericEntityDao.persistEntity(screen1NotExpired);
screen2Expired = createScreen("SDSL TEST2");
screen2Expired.createScreenResult();
screen2Expired.setDataPrivacyExpirationDate(date);
genericEntityDao.persistEntity(screen2Expired);
screen3Expired = createScreen("SDSL TEST3");
screen3Expired.createScreenResult();
screen3Expired.setDataPrivacyExpirationDate(date.minusYears(1));
genericEntityDao.persistEntity(screen3Expired);
screen9ExpiredMaxDatePassed = createScreen("screen9ExpiredMaxDatePassed");
screen9ExpiredMaxDatePassed.createScreenResult();
screen9ExpiredMaxDatePassed.setMinAllowedDataPrivacyExpirationDate(date.minusYears(2));
screen9ExpiredMaxDatePassed.setMaxAllowedDataPrivacyExpirationDate(date.minusYears(2));
screen9ExpiredMaxDatePassed.setDataPrivacyExpirationDate(date.minusYears(2));
genericEntityDao.persistEntity(screen9ExpiredMaxDatePassed);
screen4Default = createScreen("SDSL TEST4");
genericEntityDao.persistEntity(screen4Default);
screen5RnaiExpired = createScreen("Test RNAI expired", ScreenType.RNAI);
screen5RnaiExpired.setDataPrivacyExpirationDate(date.minusYears(1));
screen5RnaiExpired.createScreenResult();
genericEntityDao.persistEntity(screen5RnaiExpired);
screen6ExpiredNoResults = createScreen("test expired no results", ScreenType.RNAI);
screen6ExpiredNoResults.setDataPrivacyExpirationDate(date.minusYears(1));
genericEntityDao.persistEntity(screen6ExpiredNoResults);
screen7ExpiredDropped = createScreen("test expired dropped technical");
screen7ExpiredDropped.setDataPrivacyExpirationDate(date.minusYears(1));
screen7ExpiredDropped.createScreenResult();
screen7ExpiredDropped.createStatusItem(new LocalDate(), ScreenStatus.DROPPED_TECHNICAL);
genericEntityDao.persistEntity(screen7ExpiredDropped);
screen8ExpiredTransferred = createScreen("test expired transferred");
screen8ExpiredTransferred.setDataPrivacyExpirationDate(date.minusYears(1));
screen8ExpiredTransferred.createScreenResult();
screen8ExpiredTransferred.createStatusItem(
new LocalDate(), ScreenStatus.TRANSFERRED_TO_BROAD_INSTITUTE);
genericEntityDao.persistEntity(screen8ExpiredTransferred);
flushAndClear();
// startNewTransaction();
List<Screen> allScreens = genericEntityDao.findAllEntitiesOfType(Screen.class);
for (Screen screen : allScreens) {
log.info(
"allScreens: "
+ screen.getTitle()
+ " , expires: "
+ screen.getDataPrivacyExpirationDate());
}
List<Screen> screens =
screenDataSharingLevelUpdater.findNewExpiredNotNotified(date, ScreenType.SMALL_MOLECULE);
for (Screen screen : screens) {
log.info(
"expiredScreens: "
+ screen.getTitle()
+ " , expires: "
+ screen.getDataPrivacyExpirationDate());
}
assertFalse("no expired screens", screens.isEmpty());
screen1NotExpired = genericEntityDao.reloadEntity(screen1NotExpired);
screen2Expired = genericEntityDao.reloadEntity(screen2Expired);
screen3Expired = genericEntityDao.reloadEntity(screen3Expired);
screen4Default = genericEntityDao.reloadEntity(screen4Default);
screen5RnaiExpired = genericEntityDao.reloadEntity(screen5RnaiExpired);
screen6ExpiredNoResults = genericEntityDao.reloadEntity(screen6ExpiredNoResults);
screen7ExpiredDropped = genericEntityDao.reloadEntity(screen7ExpiredDropped);
screen8ExpiredTransferred = genericEntityDao.reloadEntity(screen8ExpiredTransferred);
screen9ExpiredMaxDatePassed = genericEntityDao.reloadEntity(screen9ExpiredMaxDatePassed);
assertTrue("screen2Expired should be expired: ", screens.contains(screen2Expired));
assertTrue("screen3Expired should be expired: ", screens.contains(screen3Expired));
assertTrue(
"screen9ExpiredMaxDatePassed should be expired: ",
screens.contains(screen9ExpiredMaxDatePassed));
assertFalse("screen4Default should not be expired", screens.contains(screen4Default));
assertFalse("screen1NotExpired should not be expired", screens.contains(screen1NotExpired));
assertFalse(
"screen5RnaiExpired should NOT be expired (unless setting screenType=RNAi)",
screens.contains(screen5RnaiExpired));
assertFalse(
"screen6ExpiredNoResults should not be expired", screens.contains(screen6ExpiredNoResults));
assertFalse(
"screen7ExpiredDropped should not be expired", screens.contains(screen7ExpiredDropped));
assertFalse(
"screen8ExpiredTransferred should not be expired",
screens.contains(screen8ExpiredTransferred));
// just a little test here to see if we get a null or an empty list, find none
screens =
screenDataSharingLevelUpdater.findNewExpiredNotNotified(
date.minusYears(20), ScreenType.SMALL_MOLECULE);
log.info("empty result: " + screens);
assertNotNull(screens);
assertTrue(screens.isEmpty());
screens = screenDataSharingLevelUpdater.findNewExpiredNotNotified(date, ScreenType.RNAI);
assertFalse("no expired screens", screens.isEmpty());
assertTrue(
"only the RNAi screen should be returned (no Small Molecule): " + screens,
screens.size() == 1);
assertTrue(
"screen5RnaiExpired should NOT be expired (unless setting screenType=RNAi)",
screens.contains(screen5RnaiExpired));
}
/**
* If this test is run by itself, it leaves the database in a state that is convenient for testing
* from the command line.
*/
@Rollback(value = false)
public void testThatSetsUpForCommandLineTest() throws Exception {
initializeData();
int daysToNofify = 60;
int daysToExpire =
790; // 2 years, 2months (technically, a month is variable, using 30 days for all
// calculations)
LocalDate today = new LocalDate();
LocalDate activityDateToExpireToday = today.minusDays(daysToExpire);
LocalDate activityDateToNotifyToday = today.minusDays(daysToExpire).plusDays(daysToNofify);
Screen screen1ToExpireTodayAfterAdjust =
createScreen("is testing for expiration (760 days after lab activity) today");
screen1ToExpireTodayAfterAdjust.createScreenResult();
screen1ToExpireTodayAfterAdjust.createLibraryScreening(
admin, leadScreener, activityDateToExpireToday);
Screen screen2ToNotifyTodayAfterAdjust =
createScreen("is testing for notification (60 days before expiration) today");
screen2ToNotifyTodayAfterAdjust.createScreenResult();
screen2ToNotifyTodayAfterAdjust.createLibraryScreening(
admin, leadScreener, activityDateToNotifyToday);
Screen screen3AjustementOverridden =
createScreen("is testing for max/min DPED override - Adjustment to the allowed value");
screen3AjustementOverridden.createScreenResult();
screen3AjustementOverridden.createLibraryScreening(
admin, leadScreener, activityDateToExpireToday);
screen3AjustementOverridden.setDataPrivacyExpirationDate(today.plusDays(2));
screen3AjustementOverridden.setMinAllowedDataPrivacyExpirationDate(today.plusDays(1));
Screen screen3aAjustementOverridden =
createScreen("is testing for max/min DPED override - adjustment not allowed - overridden");
screen3aAjustementOverridden.createScreenResult();
screen3aAjustementOverridden.createLibraryScreening(
admin, leadScreener, activityDateToExpireToday);
screen3aAjustementOverridden.setMinAllowedDataPrivacyExpirationDate(today.plusDays(1));
screen3aAjustementOverridden.setDataPrivacyExpirationDate(today.plusDays(1));
Screen screen4Published = createScreen("is testing a published Screen");
screen4Published.createScreenResult();
screen4Published.createLibraryScreening(admin, leadScreener, activityDateToNotifyToday);
screen4Published.addPublication(new Publication());
genericEntityDao.persistEntity(screen1ToExpireTodayAfterAdjust);
genericEntityDao.persistEntity(screen2ToNotifyTodayAfterAdjust);
genericEntityDao.persistEntity(screen3AjustementOverridden);
genericEntityDao.persistEntity(screen3aAjustementOverridden);
genericEntityDao.persistEntity(screen4Published);
genericEntityDao.flush();
}
public void testFindNewPublishedPrivate() throws Exception {
initializeData();
Screen screen1NotPublished = createScreen("SDSL TEST1 Not Published");
genericEntityDao.persistEntity(screen1NotPublished);
Screen screen2Published = createScreen("SDSL TEST2 Published");
screen2Published.createScreenResult();
Publication publication = new Publication();
publication.setAuthors("Test Authors");
publication.setJournal("Test Journal");
publication.setTitle("Test Publication Title");
screen2Published.addPublication(publication);
genericEntityDao.persistEntity(screen2Published);
Screen screen3Mutual = createScreen("SDSL screen3Mutual");
screen3Mutual.createScreenResult();
screen3Mutual.setDataSharingLevel(ScreenDataSharingLevel.MUTUAL_SCREENS);
publication = new Publication();
publication.setAuthors("Test Authors x");
publication.setJournal("Test Journal x");
publication.setTitle("Test Publication Title x");
screen3Mutual.addPublication(publication);
genericEntityDao.persistEntity(screen3Mutual);
Screen screen4Private = createScreen("SDSL private");
screen4Private.createScreenResult();
screen4Private.setDataSharingLevel(ScreenDataSharingLevel.PRIVATE);
publication = new Publication();
publication.setAuthors("Test Authors x");
publication.setJournal("Test Journal x");
publication.setTitle("Test Publication Title x");
screen4Private.addPublication(publication);
genericEntityDao.persistEntity(screen4Private);
Screen screenPrivatePublishedTransferred =
createScreen("SDSL screenPrivatePublishedTransferred");
screenPrivatePublishedTransferred.createScreenResult();
screenPrivatePublishedTransferred.setDataSharingLevel(ScreenDataSharingLevel.PRIVATE);
publication = new Publication();
publication.setAuthors("Test Authors x");
publication.setJournal("Test Journal x");
publication.setTitle("Test Publication Title x");
screenPrivatePublishedTransferred.createStatusItem(
new LocalDate(), ScreenStatus.TRANSFERRED_TO_BROAD_INSTITUTE);
screenPrivatePublishedTransferred.addPublication(publication);
genericEntityDao.persistEntity(screenPrivatePublishedTransferred);
Screen screen4Public = createScreen("SDSL screen4Public");
screen4Public.createScreenResult();
screen4Public.setDataSharingLevel(ScreenDataSharingLevel.SHARED);
publication = new Publication();
publication.setAuthors("Test Authors xx");
publication.setJournal("Test Journal xx");
publication.setTitle("Test Publication Title xx");
screen4Public.addPublication(publication);
genericEntityDao.persistEntity(screen4Public);
flushAndClear();
screen2Published = genericEntityDao.reloadEntity(screen2Published);
screen3Mutual = genericEntityDao.reloadEntity(screen3Mutual);
screen4Private = genericEntityDao.reloadEntity(screen4Private);
Set<Screen> publishedScreens =
Sets.newHashSet(
screenDataSharingLevelUpdater.findNewPublishedPrivate(
ScreenType.SMALL_MOLECULE)); // TODO: Test RNAi as well
assertNotNull(publishedScreens);
assertEquals(
Sets.newHashSet(screen2Published, screen3Mutual, screen4Private), publishedScreens);
}
public void testAdjustDataPrivacyExpirationByActivities() throws Exception {
initializeData();
// as of [#2175] expiration services to become notification services only
// the DPED will be set separately from the ScreenResultImport (the old way).
// It will now be set by batch process, SCREEN_ACTIVITY_DATA_PRIVACY_EXPIRATION_AGE_DAYS from
// the last ScreeningActivity date for a screen:
// Meaning:
// DPED will be set in one step (this test)
// DPED will be used in separate step to find and expire screens (next test)
// 1. create some screens
Screen screen1NoActivities = createScreen("SDSL TEST1");
Screen screen2HasActivity = createScreen("SDSL TEST2");
Screen screen5TransferredHasActivity = createScreen("SDSL TEST5");
screen5TransferredHasActivity.createStatusItem(
new LocalDate(), ScreenStatus.TRANSFERRED_TO_BROAD_INSTITUTE);
Screen screen3RnaiHasActivity = createScreen("SDSL TEST RNAI", ScreenType.RNAI);
Screen screen4HasNoLibraryScreeningActivity =
createScreen("screen4HasNoLibraryScreeningActivity");
Screen screen6MinMaxSet = createScreen("screen6MinMaxSet");
// 2. add some activities
LocalDate newActivityDate = new LocalDate();
screen2HasActivity.createLibraryScreening(admin, leadScreener, newActivityDate);
screen2HasActivity.createLibraryScreening(admin, leadScreener, newActivityDate);
screen2HasActivity.createLibraryScreening(admin, leadScreener, newActivityDate);
screen2HasActivity.createLibraryScreening(admin, leadScreener, newActivityDate);
// create a screening for user provided plates
LibraryScreening ls =
screen2HasActivity.createLibraryScreening(
admin, leadScreener, newActivityDate.plusDays(100));
ls.setForExternalLibraryPlates(true);
// create a non-library-screening activity too
screen2HasActivity.createCherryPickRequest(admin, leadScreener, newActivityDate.plusDays(100));
screen4HasNoLibraryScreeningActivity.createCherryPickRequest(
admin, leadScreener, newActivityDate.plusDays(100));
screen3RnaiHasActivity.createLibraryScreening(admin, leadScreener, newActivityDate);
screen5TransferredHasActivity.createLibraryScreening(admin, leadScreener, newActivityDate);
screen5TransferredHasActivity.createLibraryScreening(admin, leadScreener, newActivityDate);
screen5TransferredHasActivity.createLibraryScreening(admin, leadScreener, newActivityDate);
screen5TransferredHasActivity.createLibraryScreening(admin, leadScreener, newActivityDate);
// create a screening for user provided plates
ls =
screen5TransferredHasActivity.createLibraryScreening(
admin, leadScreener, newActivityDate.plusDays(100));
ls.setForExternalLibraryPlates(true);
// 3. add some results
screen2HasActivity.createScreenResult();
screen5TransferredHasActivity.createScreenResult();
screen4HasNoLibraryScreeningActivity.createScreenResult();
LocalDate maxAllowedDataPrivacyExpirationDate = newActivityDate.minusDays(10);
LocalDate minAllowedDataPrivacyExpirationDate = newActivityDate.minusDays(20);
screen6MinMaxSet.setMinAllowedDataPrivacyExpirationDate(minAllowedDataPrivacyExpirationDate);
screen6MinMaxSet.setMaxAllowedDataPrivacyExpirationDate(maxAllowedDataPrivacyExpirationDate);
screen6MinMaxSet.createLibraryScreening(admin, leadScreener, newActivityDate);
screen6MinMaxSet.createScreenResult();
genericEntityDao.persistEntity(screen1NoActivities);
genericEntityDao.persistEntity(screen2HasActivity);
genericEntityDao.persistEntity(screen3RnaiHasActivity);
genericEntityDao.persistEntity(screen4HasNoLibraryScreeningActivity);
genericEntityDao.persistEntity(screen5TransferredHasActivity);
genericEntityDao.persistEntity(screen6MinMaxSet);
flushAndClear();
// 4. find the ones with "old" activities (activity age >
// SCREEN_ACTIVITY_DATA_PRIVACY_EXPIRATION_AGE_DAYS)
int ageToExpireFromActivityDateInDays = 760;
ScreenDataSharingLevelUpdater.DataPrivacyAdjustment adjustment =
screenDataSharingLevelUpdater.adjustDataPrivacyExpirationByActivities(
ageToExpireFromActivityDateInDays, admin, ScreenType.SMALL_MOLECULE);
flushAndClear();
screen1NoActivities = genericEntityDao.reloadEntity(screen1NoActivities);
screen2HasActivity = genericEntityDao.reloadEntity(screen2HasActivity);
screen3RnaiHasActivity = genericEntityDao.reloadEntity(screen3RnaiHasActivity);
screen4HasNoLibraryScreeningActivity =
genericEntityDao.reloadEntity(screen4HasNoLibraryScreeningActivity);
screen5TransferredHasActivity = genericEntityDao.reloadEntity(screen5TransferredHasActivity);
screen6MinMaxSet = genericEntityDao.reloadEntity(screen6MinMaxSet);
boolean containsFirst = false,
containsSecond = false,
containsThird = false,
containsFourth = false,
containsFifth = false,
containsSixth = false;
for (Pair<Screen, AdministrativeActivity> result : adjustment.screensAdjusted) {
log.info("entry: " + result.getSecond());
if (result.getFirst().equals(screen1NoActivities)) containsFirst = true;
if (result.getFirst().equals(screen2HasActivity)) containsSecond = true;
if (result.getFirst().equals(screen3RnaiHasActivity)) containsThird = true;
if (result.getFirst().equals(screen4HasNoLibraryScreeningActivity)) containsFourth = true;
if (result.getFirst().equals(screen5TransferredHasActivity)) containsFifth = true;
if (result.getFirst().equals(screen6MinMaxSet)) containsSixth = true;
}
// TODO: update test for this
assertTrue(
"no screens should not be allowed", adjustment.screenPrivacyAdjustmentNotAllowed.isEmpty());
assertFalse(
"the sixth screen should adjusted to allowed",
adjustment.screensAdjustedToAllowed.isEmpty());
assertFalse("screen1NoActivities should not have been adjusted", containsFirst);
assertTrue("screen2HasActivity should have been adjusted", containsSecond);
assertFalse("screen3RnaiHasActivity should not have been adjusted", containsThird);
assertFalse(
"screen4HasNoLibraryScreeningActivity should not have been adjusted", containsFourth);
assertFalse("screen5TransferredHasActivity should not have been adjusted", containsFifth);
assertFalse("screen6MinMaxSet should not have been adjusted", containsSixth);
assertEquals(
"new screen2HasActivity dataPrivacyExpirationDate() wrong: ",
newActivityDate.plusDays(ageToExpireFromActivityDateInDays),
screen2HasActivity.getDataPrivacyExpirationDate());
}
