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use db id of person to fix mapping for two persons of same name (#34)
* use db id of person to fix mapping for two persons of same name * small fixes * remove debug * rework Person class * refactor ProjectInfo * add equals and hashcode * version 2.0.1
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12 files changed

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-184
lines changed

12 files changed

+534
-184
lines changed

‎pom.xml‎

Lines changed: 1 addition & 1 deletion
Original file line numberDiff line numberDiff line change
@@ -9,7 +9,7 @@
99
<version>3.1.4</version>
1010
</parent>
1111
<artifactId>user-db-portlet</artifactId>
12-
<version>2.0.0</version>
12+
<version>2.0.1</version>
1313
<name>User Database Portlet</name>
1414
<url>http://github.com/qbicsoftware/user-db-portlet</url>
1515
<packaging>war</packaging>

‎src/main/java/life/qbic/portal/portlet/UserDBPortletUI.java‎

Lines changed: 40 additions & 92 deletions
Original file line numberDiff line numberDiff line change
@@ -28,8 +28,6 @@
2828
import java.util.Set;
2929
import life.qbic.datamodel.persons.Affiliation;
3030
import life.qbic.datamodel.persons.CollaboratorWithResponsibility;
31-
import life.qbic.datamodel.persons.Person;
32-
import life.qbic.datamodel.projects.ProjectInfo;
3331
import life.qbic.openbis.openbisclient.IOpenBisClient;
3432
import life.qbic.openbis.openbisclient.OpenBisClient;
3533
import life.qbic.portal.Styles;
@@ -39,6 +37,10 @@
3937
import life.qbic.portal.utils.PortalUtils;
4038
import life.qbic.userdb.Config;
4139
import life.qbic.userdb.DBManager;
40+
import life.qbic.userdb.model.Person;
41+
import life.qbic.userdb.model.Person.PersonBuilder;
42+
import life.qbic.userdb.model.ProjectInfo;
43+
import life.qbic.userdb.model.ProjectInfo.ProjectInfoBuilder;
4244
import life.qbic.userdb.views.AffiliationInput;
4345
import life.qbic.userdb.views.AffiliationVIPTab;
4446
import life.qbic.userdb.views.MultiAffiliationTab;
@@ -55,19 +57,17 @@
5557
* found in the {@code portal-utils-lib} library.
5658
*/
5759
@Theme("mytheme")
58-
@SuppressWarnings("serial")
5960
@Widgetset("life.qbic.portlet.AppWidgetSet")
6061
public class UserDBPortletUI extends QBiCPortletUI {
6162

6263
private static final Logger logger = LogManager.getLogger(UserDBPortletUI.class);
6364
private DBManager dbControl;
6465
private Map<String, Integer> affiMap;
65-
private Map<String, Integer> personMap;
66+
private Map<String, Person> personMap;
6667
private Map<String, ProjectInfo> projectMap;
6768

6869
private TabSheet options;
6970

70-
private ConfigurationManager manager;
7171
private Config config;
7272
public static String tmpFolder;
7373

@@ -84,7 +84,7 @@ protected Layout getPortletContent(final VaadinRequest request) {
8484

8585
String userID = "";
8686
boolean success = true;
87-
manager = ConfigurationManagerFactory.getInstance();
87+
ConfigurationManager manager = ConfigurationManagerFactory.getInstance();
8888
tmpFolder = manager.getTmpFolder();
8989
if (PortalUtils.isLiferayPortlet()) {
9090
// read in the configuration file
@@ -151,47 +151,6 @@ private void initTabs() {
151151
} else {
152152
personMap = dbControl.getPersonMap();
153153

154-
/*
155-
* Removed since 1.8.0 as most of the functionality moved to offer-manager-portlet 2
156-
*
157-
*
158-
* affiMap = dbControl.getAffiliationMap();
159-
*
160-
* Map<String, Integer> colNamesToMaxLength = fillMaxInputLengthMap();
161-
*
162-
* Set<String> instituteNames = dbControl.getInstituteNames(); List<String> facultyEnums =
163-
* dbControl.getPossibleEnumsForColumnsInTable("organizations", "faculty"); List<String>
164-
* affiliationRoles = dbControl.getPossibleEnumsForColumnsInTable("persons_organizations",
165-
* "occupation"); List<String> titleEnums =
166-
* dbControl.getPossibleEnumsForColumnsInTable("persons", "title");
167-
*
168-
* PersonInput addUserTab = new PersonInput(titleEnums, affiMap, affiliationRoles,
169-
* colNamesToMaxLength, new AffiliationInput(instituteNames, facultyEnums, personMap,
170-
* colNamesToMaxLength)); options.addTab(addUserTab, "New Person");
171-
*
172-
* AffiliationInput addAffilTab = new AffiliationInput(instituteNames, facultyEnums,
173-
* personMap, colNamesToMaxLength); options.addTab(addAffilTab, "New Affiliation");
174-
*
175-
* SearchView searchView = new SearchView(); options.addTab(searchView, "Search Entries");
176-
*
177-
* List<Affiliation> affiTable = dbControl.getAffiliationTable(); Map<Integer, Pair<String,
178-
* String>> affiPeople = new HashMap<Integer, Pair<String, String>>(); for (Affiliation a :
179-
* affiTable) { int id = a.getID(); affiPeople.put(id, new ImmutablePair<String,
180-
* String>(a.getContactPerson(), a.getHeadName())); } PersonBatchUpload batchTab = new
181-
* PersonBatchUpload(titleEnums, affiliationRoles, affiMap); options.addTab(batchTab,
182-
* "Upload Person Table");
183-
*
184-
* AffiliationVIPTab vipTab = new AffiliationVIPTab(personMap, affiMap, affiPeople);
185-
* options.addTab(vipTab, "Edit Affiliation VIPs");
186-
*
187-
* MultiAffiliationTab multiAffilTab = new MultiAffiliationTab(personMap, affiMap,
188-
* affiliationRoles); options.addTab(multiAffilTab, "Additional Person-Affiliations");
189-
*
190-
* if (!admin) { options.getTab(multiAffilTab).setEnabled(false);
191-
* options.getTab(vipTab).setEnabled(false);
192-
*
193-
* options.getTab(3).setEnabled(false); options.getTab(4).setEnabled(false); }
194-
*/
195154
String userID = "";
196155
if (PortalUtils.isLiferayPortlet()) {
197156
logger.info("DB Tools running on Liferay, fetching user ID.");
@@ -202,9 +161,9 @@ private void initTabs() {
202161
userID = "admin";
203162
}
204163
}
205-
Map<String, ProjectInfo> userProjects = new HashMap<String, ProjectInfo>();
164+
Map<String, ProjectInfo> userProjects = new HashMap<>();
206165

207-
List<Project> openbisProjectsForUser = new ArrayList<Project>();
166+
List<Project> openbisProjectsForUser = new ArrayList<>();
208167
Set<String> spaces = new HashSet<>(openbis.getUserSpaces(userID));
209168

210169
List<Project> allOpenbisProjects = openbis.listProjects();
@@ -221,8 +180,10 @@ private void initTabs() {
221180
desc = desc.replaceAll("\n+", ". ");
222181
String projectID = p.getIdentifier().getIdentifier();
223182
String code = p.getCode();
224-
if (dbProjects.get(projectID) == null)
225-
userProjects.put(projectID, new ProjectInfo(p.getSpace().getCode(), code, desc, "", -1));
183+
if (dbProjects.get(projectID) == null) {
184+
ProjectInfoBuilder infoBuilder = new ProjectInfoBuilder().createProjectInfo(p.getSpace().getCode(), code, desc, "").withId(-1);
185+
userProjects.put(projectID, infoBuilder.getProjectInfo());
186+
}
226187
else {
227188
ProjectInfo info = dbProjects.get(projectID);
228189
info.setDescription(desc);
@@ -243,7 +204,7 @@ private void initTabs() {
243204
// searchView, projectView);
244205
projectView.getProjectTable().addValueChangeListener(new ValueChangeListener() {
245206

246-
private Map<String, String> expTypeCodeTranslation = new HashMap<String, String>() {
207+
private final Map<String, String> expTypeCodeTranslation = new HashMap<String, String>() {
247208
{
248209
put("Q_EXPERIMENTAL_DESIGN", "Patients/Sources");
249210
put("Q_SAMPLE_EXTRACTION", "Sample Extracts");
@@ -262,7 +223,7 @@ public void valueChange(ValueChangeEvent event) {
262223
List<CollaboratorWithResponsibility> collaborators =
263224
dbControl.getCollaboratorsOfProject(project);
264225
// get openbis experiments and type
265-
Map<String, String> existingExps = new HashMap<String, String>();
226+
Map<String, String> existingExps = new HashMap<>();
266227
for (Experiment e : openbis.getExperimentsOfProjectByCode(project)) {
267228
String type = expTypeCodeTranslation.get(e.getType().getCode());
268229
String id = e.getIdentifier().getIdentifier();
@@ -285,22 +246,14 @@ public void valueChange(ValueChangeEvent event) {
285246
}
286247
projectView.setCollaboratorsOfProject(collaborators);
287248

288-
Person investigator = getPersonOrNull(projectMap.get(item).getInvestigator());
289-
Person manager = getPersonOrNull(projectMap.get(item).getManager());
290-
Person contact = getPersonOrNull(projectMap.get(item).getContact());
249+
ProjectInfo info = projectMap.get(item);
291250

292-
projectView.handleProjectValueChange(item, investigator, contact, manager);
251+
projectView.handleProjectValueChange(item, info.getInvestigator(), info.getContact(), info.getManager());
293252
} else {
294253
projectView.handleProjectDeselect();
295254
}
296255
}
297256

298-
private Person getPersonOrNull(String name) {
299-
if (personMap.get(name) != null) {
300-
return dbControl.getPersonWithAffiliations(personMap.get(name)).get(0);
301-
}
302-
return null;
303-
}
304257
});
305258

306259
projectView.getInfoCommitButton().addClickListener(new ClickListener() {
@@ -316,18 +269,18 @@ public void buttonClick(ClickEvent event) {
316269
info.getSecondaryName());
317270
else
318271
dbControl.addOrChangeSecondaryNameForProject(id, info.getSecondaryName());
319-
if (info.getInvestigator() == null || info.getInvestigator().isEmpty())
272+
if (info.getInvestigator() == null)
320273
dbControl.removePersonFromProject(id, "PI");
321274
else
322-
dbControl.addOrUpdatePersonToProject(id, personMap.get(info.getInvestigator()), "PI");
323-
if (info.getContact() == null || info.getContact().isEmpty())
275+
dbControl.addOrUpdatePersonToProject(id, info.getInvestigator().getId(), "PI");
276+
if (info.getContact() == null)
324277
dbControl.removePersonFromProject(id, "Contact");
325278
else
326-
dbControl.addOrUpdatePersonToProject(id, personMap.get(info.getContact()), "Contact");
327-
if (info.getManager() == null || info.getManager().isEmpty())
279+
dbControl.addOrUpdatePersonToProject(id, info.getContact().getId(), "Contact");
280+
if (info.getManager() == null)
328281
dbControl.removePersonFromProject(id, "Manager");
329282
else
330-
dbControl.addOrUpdatePersonToProject(id, personMap.get(info.getManager()), "Manager");
283+
dbControl.addOrUpdatePersonToProject(id, info.getManager().getId(), "Manager");
331284
projectView.updateChangedInfo(info);
332285
}
333286
}
@@ -344,7 +297,7 @@ public void buttonClick(ClickEvent event) {
344297
String name = c.getPerson();
345298
int personID = -1;
346299
if (personMap.get(name) != null)
347-
personID = personMap.get(name);
300+
personID = personMap.get(name).getId();
348301
if (personID < 1)
349302
dbControl.removePersonFromExperiment(experimentID);
350303
else
@@ -424,7 +377,7 @@ private void initPortletToDBFunctionality(final AffiliationInput addAffilTab,
424377
@Override
425378
public void buttonClick(ClickEvent event) {
426379
if (batchUpload.isValid()) {
427-
List<String> registered = new ArrayList<String>();
380+
List<String> registered = new ArrayList<>();
428381
batchUpload.setRegEnabled(false);
429382
for (Person p : batchUpload.getPeople()) {
430383
if (dbControl.personExists(p)) {
@@ -453,18 +406,18 @@ public void buttonClick(ClickEvent event) {
453406
if (affi != null && !affi.isEmpty()) {
454407
search.setAffiliations(dbControl.getAffiliationsContaining(affi));
455408
} else
456-
search.setAffiliations(new ArrayList<Affiliation>());
409+
search.setAffiliations(new ArrayList<>());
457410
}
458411
});
459412

460413
search.getSearchPersonButton().addClickListener(new Button.ClickListener() {
461414
@Override
462415
public void buttonClick(ClickEvent event) {
463-
String person = search.getPersonSearchField().getValue();
464-
if (person != null && !person.isEmpty()) {
465-
search.setPersons(dbControl.getPersonsContaining(person));
416+
String personName = search.getPersonSearchField().getValue();
417+
if (personName != null && !personName.isEmpty()) {
418+
search.setPersons(dbControl.getPersonsContaining(personName));
466419
} else
467-
search.setPersons(new ArrayList<Person>());
420+
search.setPersons(new ArrayList<>());
468421
}
469422
});
470423

@@ -550,7 +503,7 @@ public void buttonClick(ClickEvent event) {
550503
public void buttonClick(ClickEvent event) {
551504
if (multiAffilTab.isValid()) {
552505
if (dbControl.addOrUpdatePersonAffiliationConnections(
553-
personMap.get(multiAffilTab.getPersonBox().getValue()),
506+
personMap.get(multiAffilTab.getPersonBox().getValue()).getId(),
554507
multiAffilTab.getChangedAndNewConnections()))
555508
successfulCommit();
556509
else
@@ -565,12 +518,16 @@ public void buttonClick(ClickEvent event) {
565518
@Override
566519
public void buttonClick(ClickEvent event) {
567520
String personName = multiAffilTab.getPersonBox().getValue().toString();
568-
Person p = dbControl.getPerson(personMap.get(personName));
521+
Person p = personMap.get(personName);
569522

570523
String affiName = multiAffilTab.getOrganizationBox().getValue().toString();
571-
Person newP = new Person(p.getUsername(), p.getTitle(), p.getFirstName(), p.getLastName(),
572-
p.getEmail(), p.getPhone(), affiMap.get(affiName), affiName, "");
573-
multiAffilTab.addDataToTable(new ArrayList<Person>(Arrays.asList(newP)));
524+
PersonBuilder personBuilder = new PersonBuilder();
525+
personBuilder.createPerson(p.getTitle(), p.getFirstName(), p.getLastName(),
526+
p.getEmail())
527+
.withUsername(p.getUsername())
528+
.withPhoneNumber(p.getPhone())
529+
.withRoleAtAffiliation(affiMap.get(affiName), affiName, "");
530+
multiAffilTab.addDataToTable(new ArrayList<>(Arrays.asList(personBuilder.getPerson())));
574531
multiAffilTab.getAddButton().setEnabled(false);
575532
}
576533
});
@@ -582,7 +539,7 @@ public void valueChange(ValueChangeEvent event) {
582539
if (multiAffilTab.getPersonBox().getValue() != null) {
583540
String personName = multiAffilTab.getPersonBox().getValue().toString();
584541
multiAffilTab.reactToPersonSelection(personName,
585-
dbControl.getPersonWithAffiliations(personMap.get(personName)));
542+
dbControl.getPersonWithAffiliations(personMap.get(personName).getId()));
586543
multiAffilTab.getAddButton().setEnabled(multiAffilTab.newAffiliationPossible());
587544
}
588545
}
@@ -621,14 +578,5 @@ private void inputError() {
621578
private void commitError(String reason) {
622579
Styles.notification("There has been an error.", reason, NotificationType.ERROR);
623580
}
624-
//
625-
// private String getPortletContextName(VaadinRequest request) {
626-
// WrappedPortletSession wrappedPortletSession =
627-
// (WrappedPortletSession) request.getWrappedSession();
628-
// PortletSession portletSession = wrappedPortletSession.getPortletSession();
629-
//
630-
// final PortletContext context = portletSession.getPortletContext();
631-
// final String portletContextName = context.getPortletContextName();
632-
// return portletContextName;
633-
// }
581+
634582
}

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