Examples with Study org.obiba.mica.study.domain.Study used on opensource projects

Example 36 with Study

use of org.obiba.mica.study.domain.Study in project mica2 by obiba.

the class StudySummaryDtos method asDtoFromDceUid.

Mica.StudySummaryDto asDtoFromDceUid(String dceUid) {
    String[] splitId = dceUid.split(":");
    String studyId = splitId[0];
    String populationId = splitId[1];
    String dceId = splitId[2];
    EntityState studyState = studyService.getEntityState(studyId);
    BaseStudy study = null;
    Mica.StudySummaryDto.Builder builder = Mica.StudySummaryDto.newBuilder();
    if (studyState.isPublished()) {
        study = publishedStudyService.findById(studyId);
    } else {
        study = studyService.findStudy(studyId);
    }
    builder.setPublished(studyState.isPublished()).setId(study.getId()).setTimestamps(TimestampsDtos.asDto(study)).addAllName(localizedStringDtos.asDto(study.getName())).addAllAcronym(localizedStringDtos.asDto(study.getAcronym())).addAllObjectives(localizedStringDtos.asDto(study.getObjectives())).setStudyResourcePath(study.getResourcePath());
    Optional<Population> optionalPopulation = study.getPopulations().stream().filter(population -> population.getId().equals(populationId)).findFirst();
    if (optionalPopulation.isPresent()) {
        Population population = optionalPopulation.get();
        Mica.PopulationSummaryDto.Builder populationBuilder = Mica.PopulationSummaryDto.newBuilder().setId(population.getId()).addAllName(localizedStringDtos.asDto(population.getName()));
        if (population.getDescription() != null)
            populationBuilder.addAllDescription(localizedStringDtos.asDto(population.getDescription()));
        Optional<DataCollectionEvent> optionalDce = population.getDataCollectionEvents().stream().filter(dce -> dce.getId().equals(dceId)).findFirst();
        if (optionalDce.isPresent()) {
            DataCollectionEvent dce = optionalDce.get();
            Mica.DataCollectionEventSummaryDto.Builder dceBuilder = Mica.DataCollectionEventSummaryDto.newBuilder().setId(dceUid).addAllName(localizedStringDtos.asDto(dce.getName()));
            if (dce.getDescription() != null)
                dceBuilder.addAllDescription(localizedStringDtos.asDto(dce.getDescription()));
            if (dce.hasStart())
                dceBuilder.setStart(dce.getStart().getYearMonth());
            if (dce.hasEnd())
                dceBuilder.setEnd(dce.getEnd().getYearMonth());
            populationBuilder.addDataCollectionEventSummaries(dceBuilder.build());
        }
        builder.addPopulationSummaries(populationBuilder.build());
    }
    return builder.build();
}

Example 37 with Study

use of org.obiba.mica.study.domain.Study in project mica2 by obiba.

the class TestDataCollectionEventSort method test_study_populations_sort_with_duplicate_events.

@Test
public void test_study_populations_sort_with_duplicate_events() {
    Study study = new Study();
    study.setId("01234567889");
    study.addPopulation(createPopulation("Population001", createEvent("A", "A", 2010, 1, 2020, 12)));
    study.addPopulation(createPopulation("Population002", createEvent("A", "A", 2010, 1, 2020, 12)));
    study.addPopulation(createPopulation("Population003", createEvent("A", "A", 2010, 1, 2020, 12)));
    SortedSet<Population> populations = study.getPopulations();
    assertThat(populations.size()).isEqualTo(3);
    assertThat(Iterables.get(Iterables.get(populations, 0).getDataCollectionEvents(), 0).getStart()).isEqualTo(of(2010, 1));
    assertThat(Iterables.get(Iterables.get(populations, 1).getDataCollectionEvents(), 0).getStart()).isEqualTo(of(2010, 1));
    assertThat(Iterables.get(Iterables.get(populations, 2).getDataCollectionEvents(), 0).getStart()).isEqualTo(of(2010, 1));
}

Example 38 with Study

use of org.obiba.mica.study.domain.Study in project mica2 by obiba.

the class IndividualStudyServiceTest method test_loosing_git_base_repo.

@Test
public void test_loosing_git_base_repo() throws IOException {
    Study study = new Study();
    Stream.of("a", "b", "c").forEach(name -> {
        study.setName(en(name + " en").forFr(name + " fr"));
        individualStudyService.save(study);
        individualStudyService.publish(study.getId(), true);
    });
    FileUtil.delete(Config.BASE_REPO);
    Study draft = individualStudyService.findDraft(study.getId());
    draft.setName(en("d en").forFr("d fr"));
    individualStudyService.save(draft);
    individualStudyService.publish(draft.getId(), true);
    StudyState studyState = individualStudyService.findStateById(draft.getId());
    assertThat(studyState.isPublished()).isTrue();
    assertThat(studyState.getPublishedTag()).isEqualTo("4");
}

Example 39 with Study

use of org.obiba.mica.study.domain.Study in project mica2 by obiba.

the class IndividualStudyServiceTest method test_publish_current.

@Test
public void test_publish_current() throws Exception {
    Study study = new Study();
    study.setName(en("name en").forFr("name fr"));
    individualStudyService.save(study);
    assertThat(individualStudyService.findAllStates()).hasSize(1);
    assertThat(individualStudyService.findPublishedStates()).isEmpty();
    individualStudyService.publish(study.getId(), true);
    List<StudyState> publishedStates = individualStudyService.findPublishedStates();
    assertThat(publishedStates).hasSize(1);
    StudyState publishedState = publishedStates.get(0);
    assertThat(publishedState.getId()).isEqualTo(study.getId());
    assertThat(publishedState.getPublishedTag()).isEqualTo("1");
    Study draft = individualStudyService.findDraft(study.getId());
    draft.setName(en("new name en").forFr("new name fr"));
    individualStudyService.save(draft);
    assertThat(individualStudyService.findDraft(study.getId())).areFieldsEqualToEachOther(draft);
}

Example 40 with Study

use of org.obiba.mica.study.domain.Study in project mica2 by obiba.

the class IndividualStudyServiceTest method test_delete_study.

@Test
public void test_delete_study() {
    Study study = new Study();
    study.setName(en("name en").forFr("name fr"));
    individualStudyService.save(study);
    assertThat(studyStateRepository.findAll()).hasSize(1);
    individualStudyService.delete(study.getId());
    assertThat(studyRepository.findAll()).hasSize(0);
    assertThat(studyStateRepository.findAll()).hasSize(0);
}