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Example 1 with POST

use of org.springframework.web.bind.annotation.RequestMethod.POST in project ArachneCentralAPI by OHDSI.

the class BaseAnalysisController method addCommonEntityToAnalysis.

@ApiOperation("Add common entity to analysis")
@RequestMapping(value = "/api/v1/analysis-management/analyses/{analysisId}/entities", method = POST)
public JsonResult addCommonEntityToAnalysis(@PathVariable("analysisId") Long analysisId, @RequestBody @Valid DataReferenceDTO entityReference, @RequestParam(value = "type", required = false, defaultValue = "COHORT") CommonAnalysisType analysisType, Principal principal) throws NotExistException, JMSException, IOException, PermissionDeniedException, URISyntaxException {
    final IUser user = getUser(principal);
    final DataNode dataNode = dataNodeService.getById(entityReference.getDataNodeId());
    final T analysis = analysisService.getById(analysisId);
    final DataReference dataReference = dataReferenceService.addOrUpdate(entityReference.getEntityGuid(), dataNode);
    final List<MultipartFile> entityFiles = getEntityFiles(entityReference, dataNode, analysisType);
    doAddCommonEntityToAnalysis(analysis, dataReference, user, analysisType, entityFiles);
    return new JsonResult(NO_ERROR);
}
Also used : MockMultipartFile(org.springframework.mock.web.MockMultipartFile) MultipartFile(org.springframework.web.multipart.MultipartFile) PUT(org.springframework.web.bind.annotation.RequestMethod.PUT) GET(org.springframework.web.bind.annotation.RequestMethod.GET) POST(org.springframework.web.bind.annotation.RequestMethod.POST) DataNode(com.odysseusinc.arachne.portal.model.DataNode) IUser(com.odysseusinc.arachne.portal.model.IUser) DataReference(com.odysseusinc.arachne.portal.model.DataReference) JsonResult(com.odysseusinc.arachne.commons.api.v1.dto.util.JsonResult) ApiOperation(io.swagger.annotations.ApiOperation) RequestMapping(org.springframework.web.bind.annotation.RequestMapping)

Example 2 with POST

use of org.springframework.web.bind.annotation.RequestMethod.POST in project ArachneCentralAPI by OHDSI.

the class BaseAnalysisController method uploadFile.

@ApiOperation("Upload file to attach to analysis.")
@RequestMapping(value = "/api/v1/analysis-management/analyses/{analysisId}/upload", method = POST)
public JsonResult<List<AnalysisFileDTO>> uploadFile(Principal principal, @Valid UploadFileDTO uploadFileDTO, @PathVariable("analysisId") Long id) throws PermissionDeniedException, NotExistException, IOException {
    IUser user = getUser(principal);
    T analysis = analysisService.getById(id);
    JsonResult<List<AnalysisFileDTO>> result = new JsonResult<>(NO_ERROR);
    List<AnalysisFileDTO> createdFiles = new ArrayList<>();
    if (uploadFileDTO.getFile() != null) {
        AnalysisFile createdFile = analysisService.saveFile(uploadFileDTO.getFile(), user, analysis, uploadFileDTO.getLabel(), uploadFileDTO.getExecutable(), null);
        createdFiles.add(conversionService.convert(createdFile, AnalysisFileDTO.class));
    } else {
        if (StringUtils.hasText(uploadFileDTO.getLink())) {
            AnalysisFile createdFile = analysisService.saveFile(uploadFileDTO.getLink(), user, analysis, uploadFileDTO.getLabel(), uploadFileDTO.getExecutable());
            createdFiles.add(conversionService.convert(createdFile, AnalysisFileDTO.class));
        } else {
            result.setErrorCode(VALIDATION_ERROR.getCode());
        }
    }
    result.setResult(createdFiles);
    return result;
}
Also used : PUT(org.springframework.web.bind.annotation.RequestMethod.PUT) GET(org.springframework.web.bind.annotation.RequestMethod.GET) POST(org.springframework.web.bind.annotation.RequestMethod.POST) ArrayList(java.util.ArrayList) AnalysisFile(com.odysseusinc.arachne.portal.model.AnalysisFile) IUser(com.odysseusinc.arachne.portal.model.IUser) ArrayList(java.util.ArrayList) List(java.util.List) LinkedList(java.util.LinkedList) AnalysisFileDTO(com.odysseusinc.arachne.portal.api.v1.dto.AnalysisFileDTO) JsonResult(com.odysseusinc.arachne.commons.api.v1.dto.util.JsonResult) ApiOperation(io.swagger.annotations.ApiOperation) RequestMapping(org.springframework.web.bind.annotation.RequestMapping)

Example 3 with POST

use of org.springframework.web.bind.annotation.RequestMethod.POST in project ArachneCentralAPI by OHDSI.

the class BaseStudyController method create.

@ApiOperation("Create study.")
@RequestMapping(value = "/api/v1/study-management/studies", method = POST)
public JsonResult<SD> create(Principal principal, @RequestBody @Valid CreateStudyDTO studyDTO, BindingResult binding) throws NotExistException, NotUniqueException {
    JsonResult<SD> result;
    IUser user = userService.getByEmail(principal.getName());
    if (user != null) {
        if (binding.hasErrors()) {
            result = setValidationErrors(binding);
        } else {
            T study = convert(studyDTO);
            study = studyService.create(user, study);
            result = new JsonResult<>(NO_ERROR);
            result.setResult(convert(study));
        }
    } else {
        result = new JsonResult<>(PERMISSION_DENIED);
    }
    return result;
}
Also used : PUT(org.springframework.web.bind.annotation.RequestMethod.PUT) GET(org.springframework.web.bind.annotation.RequestMethod.GET) POST(org.springframework.web.bind.annotation.RequestMethod.POST) IUser(com.odysseusinc.arachne.portal.model.IUser) ApiOperation(io.swagger.annotations.ApiOperation) RequestMapping(org.springframework.web.bind.annotation.RequestMapping)

Example 4 with POST

use of org.springframework.web.bind.annotation.RequestMethod.POST in project ArachneCentralAPI by OHDSI.

the class BaseSubmissionController method createSubmission.

@ApiOperation("Create and send submission.")
@RequestMapping(value = "/api/v1/analysis-management/{analysisId}/submissions", method = POST)
public JsonResult<List<DTO>> createSubmission(Principal principal, @RequestBody @Validated CreateSubmissionsDTO createSubmissionsDTO, @PathVariable("analysisId") Long analysisId) throws PermissionDeniedException, NotExistException, IOException, NoExecutableFileException, ValidationException {
    final JsonResult<List<DTO>> result;
    if (principal == null) {
        throw new PermissionDeniedException();
    }
    IUser user = userService.getByEmail(principal.getName());
    if (user == null) {
        throw new PermissionDeniedException();
    }
    Analysis analysis = analysisService.getById(analysisId);
    final List<Submission> submissions = AnalysisHelper.createSubmission(submissionService, createSubmissionsDTO.getDataSources(), user, analysis);
    final List<DTO> submissionDTOs = submissions.stream().map(s -> conversionService.convert(s, getSubmissionDTOClass())).collect(Collectors.toList());
    result = new JsonResult<>(NO_ERROR);
    result.setResult(submissionDTOs);
    return result;
}
Also used : PathVariable(org.springframework.web.bind.annotation.PathVariable) RequestParam(org.springframework.web.bind.annotation.RequestParam) AnalysisHelper(com.odysseusinc.arachne.portal.util.AnalysisHelper) Date(java.util.Date) PUT(org.springframework.web.bind.annotation.RequestMethod.PUT) ResultFile(com.odysseusinc.arachne.portal.model.ResultFile) LoggerFactory(org.slf4j.LoggerFactory) Valid(javax.validation.Valid) ApiOperation(io.swagger.annotations.ApiOperation) Analysis(com.odysseusinc.arachne.portal.model.Analysis) ResultFileSearch(com.odysseusinc.arachne.portal.model.search.ResultFileSearch) SubmissionFile(com.odysseusinc.arachne.portal.model.SubmissionFile) Path(java.nio.file.Path) SubmissionStatusHistoryElement(com.odysseusinc.arachne.portal.model.SubmissionStatusHistoryElement) ToPdfConverter(com.odysseusinc.arachne.portal.service.ToPdfConverter) BaseSubmissionService(com.odysseusinc.arachne.portal.service.submission.BaseSubmissionService) BaseAnalysisService(com.odysseusinc.arachne.portal.service.analysis.BaseAnalysisService) ContentStorageService(com.odysseusinc.arachne.storage.service.ContentStorageService) ResultFileDTO(com.odysseusinc.arachne.portal.api.v1.dto.ResultFileDTO) HttpUtils(com.odysseusinc.arachne.portal.util.HttpUtils) ArachneFileMeta(com.odysseusinc.arachne.storage.model.ArachneFileMeta) Collectors(java.util.stream.Collectors) FileNotFoundException(java.io.FileNotFoundException) IUser(com.odysseusinc.arachne.portal.model.IUser) FileDTO(com.odysseusinc.arachne.portal.api.v1.dto.FileDTO) IOUtils(org.apache.commons.io.IOUtils) List(java.util.List) Principal(java.security.Principal) BaseSubmissionDTO(com.odysseusinc.arachne.portal.api.v1.dto.BaseSubmissionDTO) SubmissionStatus(com.odysseusinc.arachne.portal.model.SubmissionStatus) FileDtoContentHandler(com.odysseusinc.arachne.portal.api.v1.dto.converters.FileDtoContentHandler) RequestMapping(org.springframework.web.bind.annotation.RequestMapping) GET(org.springframework.web.bind.annotation.RequestMethod.GET) Submission(com.odysseusinc.arachne.portal.model.Submission) ValidationException(com.odysseusinc.arachne.portal.exception.ValidationException) ArrayList(java.util.ArrayList) JsonResult(com.odysseusinc.arachne.commons.api.v1.dto.util.JsonResult) RequestBody(org.springframework.web.bind.annotation.RequestBody) NoExecutableFileException(com.odysseusinc.arachne.portal.exception.NoExecutableFileException) ApproveDTO(com.odysseusinc.arachne.portal.api.v1.dto.ApproveDTO) NO_ERROR(com.odysseusinc.arachne.commons.api.v1.dto.util.JsonResult.ErrorCode.NO_ERROR) SubmissionStatusHistoryElementDTO(com.odysseusinc.arachne.portal.api.v1.dto.SubmissionStatusHistoryElementDTO) POST(org.springframework.web.bind.annotation.RequestMethod.POST) LinkedList(java.util.LinkedList) UploadFileDTO(com.odysseusinc.arachne.portal.api.v1.dto.UploadFileDTO) BaseController(com.odysseusinc.arachne.portal.api.v1.controller.BaseController) Validated(org.springframework.validation.annotation.Validated) Logger(org.slf4j.Logger) DELETE(org.springframework.web.bind.annotation.RequestMethod.DELETE) HttpServletResponse(javax.servlet.http.HttpServletResponse) IOException(java.io.IOException) CommonAnalysisExecutionStatusDTO(com.odysseusinc.arachne.commons.api.v1.dto.CommonAnalysisExecutionStatusDTO) CreateSubmissionsDTO(com.odysseusinc.arachne.portal.api.v1.dto.CreateSubmissionsDTO) SubmissionFileDTO(com.odysseusinc.arachne.portal.api.v1.dto.SubmissionFileDTO) PermissionDeniedException(com.odysseusinc.arachne.portal.exception.PermissionDeniedException) ContentStorageHelper(com.odysseusinc.arachne.portal.util.ContentStorageHelper) HttpStatus(org.springframework.http.HttpStatus) NotExistException(com.odysseusinc.arachne.portal.exception.NotExistException) SubmissionDTO(com.odysseusinc.arachne.portal.api.v1.dto.SubmissionDTO) BaseSubmissionAndAnalysisTypeDTO(com.odysseusinc.arachne.portal.api.v1.dto.BaseSubmissionAndAnalysisTypeDTO) SubmissionInsightService(com.odysseusinc.arachne.portal.service.submission.SubmissionInsightService) StringUtils(org.springframework.util.StringUtils) Submission(com.odysseusinc.arachne.portal.model.Submission) Analysis(com.odysseusinc.arachne.portal.model.Analysis) IUser(com.odysseusinc.arachne.portal.model.IUser) List(java.util.List) ArrayList(java.util.ArrayList) LinkedList(java.util.LinkedList) PermissionDeniedException(com.odysseusinc.arachne.portal.exception.PermissionDeniedException) ResultFileDTO(com.odysseusinc.arachne.portal.api.v1.dto.ResultFileDTO) FileDTO(com.odysseusinc.arachne.portal.api.v1.dto.FileDTO) BaseSubmissionDTO(com.odysseusinc.arachne.portal.api.v1.dto.BaseSubmissionDTO) ApproveDTO(com.odysseusinc.arachne.portal.api.v1.dto.ApproveDTO) SubmissionStatusHistoryElementDTO(com.odysseusinc.arachne.portal.api.v1.dto.SubmissionStatusHistoryElementDTO) UploadFileDTO(com.odysseusinc.arachne.portal.api.v1.dto.UploadFileDTO) CommonAnalysisExecutionStatusDTO(com.odysseusinc.arachne.commons.api.v1.dto.CommonAnalysisExecutionStatusDTO) CreateSubmissionsDTO(com.odysseusinc.arachne.portal.api.v1.dto.CreateSubmissionsDTO) SubmissionFileDTO(com.odysseusinc.arachne.portal.api.v1.dto.SubmissionFileDTO) SubmissionDTO(com.odysseusinc.arachne.portal.api.v1.dto.SubmissionDTO) BaseSubmissionAndAnalysisTypeDTO(com.odysseusinc.arachne.portal.api.v1.dto.BaseSubmissionAndAnalysisTypeDTO) ApiOperation(io.swagger.annotations.ApiOperation) RequestMapping(org.springframework.web.bind.annotation.RequestMapping)

Example 5 with POST

use of org.springframework.web.bind.annotation.RequestMethod.POST in project ArachneCentralAPI by OHDSI.

the class BaseAnalysisController method create.

@ApiOperation("Create analysis.")
@RequestMapping(value = "/api/v1/analysis-management/analyses", method = POST)
public JsonResult<D> create(Principal principal, @RequestBody @Valid A_C_DTO analysisDTO, BindingResult bindingResult) throws PermissionDeniedException, NotExistException, NotUniqueException {
    JsonResult<D> result;
    IUser user = getUser(principal);
    if (bindingResult.hasErrors()) {
        return setValidationErrors(bindingResult);
    } else {
        T analysis = conversionService.convert(analysisDTO, getAnalysisClass());
        analysis.setAuthor(user);
        analysis = analysisService.create(analysis);
        afterCreate(analysis, analysisDTO);
        result = new JsonResult<>(NO_ERROR);
        result.setResult(conversionService.convert(analysis, getAnalysisDTOClass()));
    }
    return result;
}
Also used : PERMISSION_DENIED(com.odysseusinc.arachne.commons.api.v1.dto.util.JsonResult.ErrorCode.PERMISSION_DENIED) UUID(java.util.UUID) PUT(org.springframework.web.bind.annotation.RequestMethod.PUT) GET(org.springframework.web.bind.annotation.RequestMethod.GET) POST(org.springframework.web.bind.annotation.RequestMethod.POST) IUser(com.odysseusinc.arachne.portal.model.IUser) ApiOperation(io.swagger.annotations.ApiOperation) RequestMapping(org.springframework.web.bind.annotation.RequestMapping)

Aggregations

ApiOperation (io.swagger.annotations.ApiOperation)8 RequestMapping (org.springframework.web.bind.annotation.RequestMapping)8 GET (org.springframework.web.bind.annotation.RequestMethod.GET)8 POST (org.springframework.web.bind.annotation.RequestMethod.POST)8 PUT (org.springframework.web.bind.annotation.RequestMethod.PUT)8 IUser (com.odysseusinc.arachne.portal.model.IUser)7 JsonResult (com.odysseusinc.arachne.commons.api.v1.dto.util.JsonResult)5 ArrayList (java.util.ArrayList)3 CommonAnalysisExecutionStatusDTO (com.odysseusinc.arachne.commons.api.v1.dto.CommonAnalysisExecutionStatusDTO)2 ApproveDTO (com.odysseusinc.arachne.portal.api.v1.dto.ApproveDTO)2 BaseSubmissionAndAnalysisTypeDTO (com.odysseusinc.arachne.portal.api.v1.dto.BaseSubmissionAndAnalysisTypeDTO)2 BaseSubmissionDTO (com.odysseusinc.arachne.portal.api.v1.dto.BaseSubmissionDTO)2 CreateSubmissionsDTO (com.odysseusinc.arachne.portal.api.v1.dto.CreateSubmissionsDTO)2 FileDTO (com.odysseusinc.arachne.portal.api.v1.dto.FileDTO)2 ResultFileDTO (com.odysseusinc.arachne.portal.api.v1.dto.ResultFileDTO)2 SubmissionDTO (com.odysseusinc.arachne.portal.api.v1.dto.SubmissionDTO)2 SubmissionFileDTO (com.odysseusinc.arachne.portal.api.v1.dto.SubmissionFileDTO)2 SubmissionStatusHistoryElementDTO (com.odysseusinc.arachne.portal.api.v1.dto.SubmissionStatusHistoryElementDTO)2 UploadFileDTO (com.odysseusinc.arachne.portal.api.v1.dto.UploadFileDTO)2 SubmissionStatus (com.odysseusinc.arachne.portal.model.SubmissionStatus)2