Examples with Submission com.odysseusinc.arachne.portal.model.Submission used on opensource projects

Example 6 with Submission

use of com.odysseusinc.arachne.portal.model.Submission in project ArachneCentralAPI by OHDSI.

the class SubmissionInsightToSubmissionInsightDTOConverter method convert.

@Override
public SubmissionInsightDTO convert(SubmissionInsight source) {
    final Submission submission = source.getSubmission();
    final SubmissionInsightDTO dto = new SubmissionInsightDTO();
    SubmissionDTO shortSubmissionDTO = new SubmissionDTO();
    shortSubmissionDTO.setId(submission.getId());
    shortSubmissionDTO.setCreatedAt(submission.getCreated());
    shortSubmissionDTO.setStatus(conversionService.convert(submission.getStatus(), SubmissionStatusDTO.class));
    shortSubmissionDTO.setAuthor(conversionService.convert(submission.getAuthor(), ShortUserDTO.class));
    dto.setCreated(source.getCreated());
    dto.setName(source.getName());
    dto.setDescription(source.getDescription());
    dto.setSubmission(shortSubmissionDTO);
    final List<Commentable> submissionFileDTOS = source.getSubmissionInsightSubmissionFiles().stream().map(submissionFile -> conversionService.convert(submissionFile, CommentableSubmissionFileDTO.class)).collect(Collectors.toList());
    dto.setCodeFiles(submissionFileDTOS);
    final List<Commentable> resultFileDTOS = submission.getResultFiles().stream().map(resultFile -> conversionService.convert(resultFile, CommentableResultFileDTO.class)).collect(Collectors.toList());
    dto.setResultFiles(resultFileDTOS);
    dto.setDataSource(conversionService.convert(submission.getDataSource(), DataSourceDTO.class));
    final AnalysisDTO analysisDTO = analysisConverter(source.getSubmission().getAnalysis());
    dto.setAnalysis(analysisDTO);
    dto.setCommentsCount(source.getCommentsCount());
    dto.setPermissions(conversionService.convert(source, PermissionsDTO.class));
    return dto;
}

Example 7 with Submission

use of com.odysseusinc.arachne.portal.model.Submission in project ArachneCentralAPI by OHDSI.

the class BaseSubmissionInsightServiceImpl method extractCommentTopics.

private Set<CommentTopic> extractCommentTopics(SubmissionInsight insight) {
    final Stream<CommentTopic> submissionFilesTopics = insight.getSubmissionInsightSubmissionFiles().stream().map(SubmissionInsightSubmissionFile::getCommentTopic);
    final Submission submission = insight.getSubmission();
    final Stream<CommentTopic> resultFileTopics = submission.getResultFiles().stream().map(ResultFile::getCommentTopic);
    return Stream.concat(submissionFilesTopics, resultFileTopics).map(commentTopic -> {
        commentTopic.setComments(new LinkedList<>());
        return commentTopic;
    }).collect(Collectors.toSet());
}

Example 8 with Submission

use of com.odysseusinc.arachne.portal.model.Submission in project ArachneCentralAPI by OHDSI.

the class BaseSubmissionInsightServiceImpl method deleteSubmissionInsight.

@Override
@PreAuthorize("hasPermission(#submissionId,  'Submission', " + "T(com.odysseusinc.arachne.portal.security.ArachnePermission).EDIT_ANALYSIS)")
public void deleteSubmissionInsight(Long submissionId) throws NotExistException {
    LOGGER.info(DELETING_INSIGHT_LOG, submissionId);
    final Submission submission = submissionService.getSubmissionById(submissionId, EntityUtils.fromAttributePaths("submissionInsight", "resultFiles"));
    throwNotExistExceptionIfNull(submission, submissionId);
    throwNotExistExceptionIfNull(submission.getSubmissionInsight(), submissionId);
    final List<ResultFile> resultFiles = submission.getResultFiles();
    resultFiles.forEach(resultFile -> resultFile.setCommentTopic(null));
    submissionResultFileRepository.save(resultFiles);
    submissionInsightRepository.deleteBySubmissionId(submissionId);
}

Example 9 with Submission

use of com.odysseusinc.arachne.portal.model.Submission in project ArachneCentralAPI by OHDSI.

the class BaseSubmissionServiceImpl method getResultFiles.

@Override
public List<ArachneFileMeta> getResultFiles(IUser user, Long submissionId, ResultFileSearch resultFileSearch) throws PermissionDeniedException {
    Submission submission = submissionRepository.findById(submissionId, EntityUtils.fromAttributePaths("dataSource", "dataSource.dataNode"));
    checkSubmissionPermission(user, submission);
    String resultFilesPath = contentStorageHelper.getResultFilesDir(submission, resultFileSearch.getPath());
    QuerySpec querySpec = new QuerySpec();
    querySpec.setName(resultFileSearch.getRealName());
    querySpec.setPath(resultFilesPath);
    return contentStorageService.searchFiles(querySpec);
}

Example 10 with Submission

use of com.odysseusinc.arachne.portal.model.Submission in project ArachneCentralAPI by OHDSI.

the class BaseAnalysisController method getSubmissionGroups.

@ApiOperation("Get submission groups.")
@RequestMapping(value = "/api/v1/analysis-management/analyses/{analysisId}/submission-groups", method = GET)
public Page<SubmissionGroupDTO> getSubmissionGroups(@PathVariable("analysisId") Long id, @ModelAttribute SubmissionGroupSearch submissionGroupSearch) {
    submissionGroupSearch.setAnalysisId(id);
    return submissionService.getSubmissionGroups(submissionGroupSearch).map(sg -> {
        SubmissionGroupDTO sgDTO = conversionService.convert(sg, SubmissionGroupDTO.class);
        sgDTO.getSubmissions().forEach(sd -> {
            Submission s = ((Submission) sd.getConversionSource());
            sd.setAvailableActionList(submissionService.getSubmissionActions(s));
        });
        return sgDTO;
    });
}