Examples with Curator uk.ac.ebi.spot.goci.model.Curator used on opensource projects

Example 1 with Curator

use of uk.ac.ebi.spot.goci.model.Curator in project goci by EBISPOT.

the class HousekeepingOperationsService method createHousekeeping.

/**
     * Create study housekeeping
     */
public Housekeeping createHousekeeping() {
    // Create housekeeping object and create the study added date
    Housekeeping housekeeping = new Housekeeping();
    java.util.Date studyAddedDate = new java.util.Date();
    housekeeping.setStudyAddedDate(studyAddedDate);
    // Set status
    CurationStatus status = curationStatusRepository.findByStatus("Awaiting Curation");
    housekeeping.setCurationStatus(status);
    // Set curator
    Curator curator = curatorRepository.findByLastName("Level 1 Curator");
    housekeeping.setCurator(curator);
    // Save housekeeping
    housekeepingRepository.save(housekeeping);
    // Save housekeeping
    return housekeeping;
}

Example 2 with Curator

use of uk.ac.ebi.spot.goci.model.Curator in project goci by EBISPOT.

the class StudyNoteOperationsService method createEmptyStudyNote.

public StudyNote createEmptyStudyNote(Study study, SecureUser user) {
    StudyNote note = new StudyNote();
    note.setStudy(study);
    //defult curator will be the one who is currently adding the note
    //#xintodo this needs to be change when a forgin key is added the curator table from the user table
    Curator curator = curatorService.getCuratorIdByEmail(user.getEmail());
    note.setCurator(curator);
    note.setStatus(false);
    note.setGenericId(study.getId());
    return note;
}

Example 3 with Curator

use of uk.ac.ebi.spot.goci.model.Curator in project goci by EBISPOT.

the class StudyOperationsService method updateHousekeeping.

/**
     * Update housekeeping
     */
public String updateHousekeeping(Housekeeping housekeeping, Study study, SecureUser user) {
    CurationStatus newStatus = housekeeping.getCurationStatus();
    CurationStatus currentStudyStatus = study.getHousekeeping().getCurationStatus();
    Curator newCurator = housekeeping.getCurator();
    Curator currentCurator = study.getHousekeeping().getCurator();
    // If curator has changed, record the curator change event
    if (newCurator != null && newCurator != currentCurator) {
        recordStudyCuratorChange(study, user, newCurator);
    }
    // If the current and new status are different
    String message = null;
    if (newStatus != null && newStatus != currentStudyStatus) {
        if (newStatus.getStatus().equals("Publish study")) {
            // Run pre-publish checks first
            Collection<Association> associations = associationRepository.findByStudyId(study.getId());
            message = publishStudyCheckService.runChecks(study, associations);
            // if checks pass then update the status
            if (message == null) {
                updateStatus(study, housekeeping, user);
            } else // restore old status
            {
                housekeeping.setCurationStatus(currentStudyStatus);
                housekeepingOperationsService.saveHousekeeping(study, housekeeping);
            }
        } else {
            updateStatus(study, housekeeping, user);
        }
    } else {
        // Save housekeeping returned from form
        housekeepingOperationsService.saveHousekeeping(study, housekeeping);
    }
    return message;
}

Example 4 with Curator

use of uk.ac.ebi.spot.goci.model.Curator in project goci by EBISPOT.

the class HousekeepingOperationsServiceTest method createHousekeeping.

@Test
public void createHousekeeping() throws Exception {
    // Stubbing
    when(curationStatusRepository.findByStatus("Awaiting Curation")).thenReturn(AWAITING_CURATION);
    when(curatorRepository.findByLastName("Level 1 Curator")).thenReturn(LEVEL_1_CURATOR);
    Housekeeping housekeeping = housekeepingOperationsService.createHousekeeping();
    verify(curationStatusRepository, times(1)).findByStatus("Awaiting Curation");
    verify(curatorRepository, times(1)).findByLastName("Level 1 Curator");
    verify(housekeepingRepository, times(1)).save(Matchers.any(Housekeeping.class));
    verifyZeroInteractions(studyRepository);
    // Assertions
    assertThat(housekeeping).extracting(curator -> curator.getCurator().getLastName()).contains("Level 1 Curator");
    assertThat(housekeeping).extracting(curationStatus -> curationStatus.getCurationStatus().getStatus()).contains("Awaiting Curation");
    assertThat(housekeeping.getStudyAddedDate()).isToday();
}

Example 5 with Curator

use of uk.ac.ebi.spot.goci.model.Curator in project goci by EBISPOT.

the class StudyOperationsService method assignStudyCurator.

/**
     * Assign curator to a study
     */
public void assignStudyCurator(Study study, Assignee assignee, SecureUser user) {
    Long curatorId = assignee.getCuratorId();
    Curator curator = curatorRepository.findOne(curatorId);
    // Set new curator on the study housekeeping
    Housekeeping housekeeping = study.getHousekeeping();
    housekeeping.setCurator(curator);
    housekeepingOperationsService.saveHousekeeping(study, housekeeping);
    // Add event
    recordStudyCuratorChange(study, user, curator);
}