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

Example 1 with StudyDTO

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

the class BaseStudyController method suggest.

@ApiOperation("Suggest study.")
@RequestMapping(value = "/api/v1/study-management/studies/search", method = GET)
public JsonResult<List<StudyDTO>> suggest(Principal principal, @RequestParam("id") String requestId, @RequestParam("query") String query, @RequestParam("region") SuggestSearchRegion region) throws PermissionDeniedException {
    JsonResult<List<StudyDTO>> result;
    IUser owner = getUser(principal);
    Long id;
    switch(region) {
        case DATASOURCE:
            id = Long.valueOf(requestId);
            break;
        case PARTICIPANT:
            IUser participant = Optional.ofNullable(userService.getByUuid(requestId)).orElseThrow(() -> new NotExistException(EX_USER_NOT_EXISTS, User.class));
            id = participant.getId();
            break;
        default:
            id = 0L;
            break;
    }
    Iterable<T> studies = studyService.suggestStudy(query, owner, id, region);
    result = new JsonResult<>(JsonResult.ErrorCode.NO_ERROR);
    List<StudyDTO> studiesDTOs = new LinkedList<>();
    for (Study study : studies) {
        studiesDTOs.add(conversionService.convert(study, StudyDTO.class));
    }
    result.setResult(studiesDTOs);
    return result;
}

Example 2 with StudyDTO

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

the class StudyToStudyShortDTOConverter method convert.

@Override
public StudyShortDTO convert(Study source) {
    final StudyShortDTO studyDTO = new StudyShortDTO();
    studyDTO.setId(source.getId());
    studyDTO.setTitle(source.getTitle());
    studyDTO.setKind(source.getKind());
    return studyDTO;
}

Example 3 with StudyDTO

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

the class StudyToStudyMediumDTOConverter method convert.

@Override
public StudyMediumDTO convert(Study source) {
    final StudyMediumDTO studyDTO = new StudyMediumDTO();
    studyDTO.setId(source.getId());
    studyDTO.setTitle(source.getTitle());
    studyDTO.setDescription(source.getDescription());
    studyDTO.setCreated(source.getCreated());
    studyDTO.setStartDate(source.getStartDate());
    studyDTO.setEndDate(source.getEndDate());
    studyDTO.setStatus(conversionService.convert(source.getStatus(), StudyStatusDTO.class));
    final Map<ParticipantRole, List<UserStudyExtended>> studyParticipants = source.getParticipants().stream().collect(Collectors.groupingBy(link -> link.getRole() == ParticipantRole.LEAD_INVESTIGATOR ? LEAD_INVESTIGATOR : CONTRIBUTOR));
    final List<UserStudyExtended> studyLeads = studyParticipants.get(LEAD_INVESTIGATOR);
    if (!CollectionUtils.isEmpty(studyLeads)) {
        studyDTO.setStudyLeads(studyLeads.stream().filter(distinctByKey(p -> p.getUser().getId())).map(studyParticipant -> conversionService.convert(studyParticipant, ParticipantDTO.class)).collect(Collectors.toList()));
    }
    final List<UserStudyExtended> studyContributors = studyParticipants.get(CONTRIBUTOR);
    if (!CollectionUtils.isEmpty(studyContributors)) {
        studyDTO.setStudyParticipants(studyContributors.stream().filter(distinctByKey(p -> p.getUser().getId())).map(studyParticipant -> conversionService.convert(studyParticipant, ParticipantExtendedDTO.class)).collect(Collectors.toList()));
    }
    final List<StudyDataSourceLink> studyDataSources = source.getDataSources();
    studyDTO.setStudyDataSources(studyDataSources.stream().map(studyDataSource -> conversionService.convert(studyDataSource.getDataSource(), DataSourceDTO.class)).collect(Collectors.toList()));
    return studyDTO;
}

Example 4 with StudyDTO

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

the class BaseStudyToStudyListDTOConverter method convert.

@Override
public DTO convert(S userStudyExtendedLink) {
    DTO studyDTO = createResultObject();
    Study source = userStudyExtendedLink.getStudy();
    List<IUser> studyLeadList = studyService.findLeads(source);
    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());
    studyDTO.setCreated(source.getCreated());
    studyDTO.setUpdated(source.getUpdated());
    studyDTO.setId(source.getId());
    StringBuilder stringBuilder = new StringBuilder();
    for (String participantRole : userStudyExtendedLink.getRole() != null ? userStudyExtendedLink.getRole().split(",") : new String[] {}) {
        stringBuilder.append(ParticipantRole.valueOf(participantRole).toString()).append(", ");
    }
    stringBuilder.delete(stringBuilder.length() - 2, stringBuilder.length());
    studyDTO.setRole(stringBuilder.toString());
    studyDTO.setPermissions(conversionService.convert(source, PermissionsDTO.class));
    studyDTO.setFavourite(userStudyExtendedLink.getFavourite());
    studyDTO.setLeadList(studyLeadList.stream().map(studyLead -> conversionService.convert(studyLead, ShortUserDTO.class)).collect(Collectors.toList()));
    studyDTO.setPrivacy(source.getPrivacy());
    proceedAdditionalFields(studyDTO, userStudyExtendedLink);
    return studyDTO;
}

Example 5 with StudyDTO

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

the class BaseUserStudyItemToStudyDTOConverter method convert.

@Override
public S convert(AbstractUserStudyListItem source) {
    final Study study = source.getStudy();
    S studyDto = createResultObject();
    StudyDTO baseObject = conversionService.convert(study, getDtoClass());
    baseObject.setFavourite(source.getFavourite());
    List<StudyDataSourceLink> links = study.getDataSources().stream().filter(ds -> DataSourceStatus.DELETED.equals(ds.getStatus())).collect(Collectors.toList());
    // this list won't be empty only in case when we intentionally get all (include those with deleted_at != NULL) StudyDataSourceLinks from repository
    if (!links.isEmpty()) {
        List<DataSourceDTO> dataSourceDTOS = converterUtils.convertList(links, DataSourceDTO.class);
        baseObject.getDataSources().addAll(dataSourceDTOS);
    }
    converterUtils.shallowCopy(studyDto, baseObject);
    studyDto.setPrivacy(study.getPrivacy());
    proceedAdditionalFields(studyDto, source);
    return studyDto;
}