Examples with StudyDTO com.odysseusinc.arachne.portal.api.v1.dto.StudyDTO used on opensource projects

Example 11 with StudyDTO

use of com.odysseusinc.arachne.portal.api.v1.dto.StudyDTO in project ArachneCentralAPI by OHDSI.

the class SubmissionInsightToSubmissionInsightDTOConverter method analysisConverter.

private AnalysisDTO analysisConverter(final Analysis analysis) {
    final AnalysisDTO analysisDTO = new AnalysisDTO();
    analysisDTO.setId(analysis.getId());
    analysisDTO.setTitle(analysis.getTitle());
    final StudyShortDTO studyDTO = new StudyShortDTO();
    final Study study = analysis.getStudy();
    studyDTO.setId(study.getId());
    studyDTO.setTitle(study.getTitle());
    analysisDTO.setStudy(studyDTO);
    return analysisDTO;
}

Example 12 with StudyDTO

use of com.odysseusinc.arachne.portal.api.v1.dto.StudyDTO in project ArachneCentralAPI by OHDSI.

the class BasePaperToPaperDTOConverter method convert.

@Override
public PD convert(P paper) {
    final PD paperDTO = createResultObject();
    paperDTO.setId(paper.getId());
    final Study study = paper.getStudy();
    final StudyMediumDTO studyDTO = conversionService.convert(study, StudyMediumDTO.class);
    paperDTO.setStudy(studyDTO);
    paperDTO.setPublishState(paper.getPublishState());
    paperDTO.setPublishedDate(paper.getPublishedDate());
    final List<PaperFileDTO> protocols = paper.getProtocols().stream().map(protocolFile -> conversionService.convert(protocolFile, PaperFileDTO.class)).collect(Collectors.toList());
    paperDTO.setProtocols(protocols);
    final List<PaperFileDTO> paperFileDTOs = paper.getPapers().stream().map(paperFile -> conversionService.convert(paperFile, PaperFileDTO.class)).collect(Collectors.toList());
    paperDTO.setPapers(paperFileDTOs);
    paperDTO.setPermissions(conversionService.convert(paper, PermissionsDTO.class));
    proceedAdditionalFields(paperDTO, paper);
    return paperDTO;
}

Example 13 with StudyDTO

use of com.odysseusinc.arachne.portal.api.v1.dto.StudyDTO in project ArachneCentralAPI by OHDSI.

the class BasePaperToShortPaperDTOConverter method convert.

@Override
public SPD convert(P paper) {
    final SPD paperDTO = createResultObject();
    paperDTO.setId(paper.getId());
    paperDTO.setPublishState(paper.getPublishState());
    paperDTO.setPublishedDate(paper.getPublishedDate());
    final Study study = paper.getStudy();
    final StudyMediumDTO studyDTO = conversionService.convert(study, StudyMediumDTO.class);
    paperDTO.setStudy(studyDTO);
    proceedAdditionalFields(paperDTO, paper);
    return paperDTO;
}

Example 14 with StudyDTO

use of com.odysseusinc.arachne.portal.api.v1.dto.StudyDTO in project ArachneCentralAPI by OHDSI.

the class BaseStudyToStudyDTOConverter method convert.

@Override
public DTO convert(final S source) {
    final DTO studyDTO = createResultObject();
    studyDTO.setStatus(conversionService.convert(source.getStatus(), StudyStatusDTO.class));
    studyDTO.setTitle(source.getTitle());
    studyDTO.setType(conversionService.convert(source.getType(), StudyTypeDTO.class));
    studyDTO.setEndDate(source.getEndDate());
    studyDTO.setStartDate(source.getStartDate());
    studyDTO.setDescription(source.getDescription());
    if (!CollectionUtils.isEmpty(source.getParticipants())) {
        studyDTO.setParticipants(source.getParticipants().stream().map(link -> conversionService.convert(link, ParticipantDTO.class)).collect(Collectors.toList()));
    }
    final List<StudyDataSourceLink> foundLinks = studyService.getLinksByStudyId(source.getId(), EntityUtils.fromAttributePaths("dataSource.dataNode.dataNodeUsers.user"));
    for (final StudyDataSourceLink studyDataSourceLink : foundLinks) {
        final DataSourceDTO dataSourceDTO = conversionService.convert(studyDataSourceLink, DataSourceDTO.class);
        studyDTO.getDataSources().add(dataSourceDTO);
    }
    List<Analysis> analyses = getAnalyses(source);
    for (final Analysis analysis : analyses) {
        studyDTO.getAnalyses().add(conversionService.convert(analysis, BaseAnalysisDTO.class));
    }
    List<StudyFile> files = studyService.getFilesByStudyId(source.getId(), EntityUtils.fromAttributePaths("author"));
    for (final StudyFile studyFile : files) {
        studyDTO.getFiles().add(conversionService.convert(studyFile, StudyFileDTO.class));
    }
    studyDTO.setCreated(source.getCreated());
    studyDTO.setUpdated(source.getUpdated());
    studyDTO.setId(source.getId());
    studyDTO.setPermissions(conversionService.convert(source, PermissionsDTO.class));
    studyDTO.setPaperId(source.getPaper() == null ? null : source.getPaper().getId());
    studyDTO.setPrivacy(source.getPrivacy());
    proceedAdditionalFields(studyDTO, source);
    return studyDTO;
}

Example 15 with StudyDTO

use of com.odysseusinc.arachne.portal.api.v1.dto.StudyDTO in project ArachneCentralAPI by OHDSI.

the class StudyControllerTests method testUpdateStudyType.

@Test
@WithUserDetails(value = ADMIN_EMAIL)
@DatabaseSetup("/data/study/study-before-updating.xml")
@ExpectedDatabases({ @ExpectedDatabase(value = "/data/study/study-after-updating-type.xml", assertionMode = NON_STRICT_UNORDERED) })
public void testUpdateStudyType() throws Exception {
    StudyDTO updatedStudyDTO = new StudyDTO();
    updatedStudyDTO.setId(STUDY_ID);
    updatedStudyDTO.setDescription("description");
    StudyTypeDTO type = new StudyTypeDTO(1L);
    type.setName("type1");
    updatedStudyDTO.setType(type);
    StudyStatusDTO status = new StudyStatusDTO(STUDY_STATUS_ID, "Initiate");
    updatedStudyDTO.setStatus(status);
    testUpdate(updatedStudyDTO, UPDATED_STUDY_TYPE_JSON_OBJECT, "type1");
}