Examples with BaseStudyTable org.obiba.mica.core.domain.BaseStudyTable used on opensource projects

Example 6 with BaseStudyTable

use of org.obiba.mica.core.domain.BaseStudyTable in project mica2 by obiba.

the class RQLCriteriaOpalConverter method parseField.

private RQLFieldReferences parseField(String path) {
    DatasetVariable.IdResolver resolver = DatasetVariable.IdResolver.from(path);
    if (resolver.getType() == null || DatasetVariable.Type.Collected.equals(resolver.getType())) {
        StudyDataset ds = collectedDatasetService.findById(resolver.getDatasetId());
        BaseStudyTable studyTable = ds.getStudyTable();
        BaseStudy study = studyService.findStudy(studyTable.getStudyId());
        return new RQLFieldReferences(path, ds, studyTable, study, getDatasetVariableInternal(Indexer.PUBLISHED_VARIABLE_INDEX, Indexer.VARIABLE_TYPE, path));
    } else if (DatasetVariable.Type.Dataschema.equals(resolver.getType())) {
        HarmonizationDataset ds = harmonizedDatasetService.findById(resolver.getDatasetId());
        BaseStudy study = studyService.findStudy(ds.getHarmonizationTable().getStudyId());
        return new RQLFieldReferences(path, ds, ds.getBaseStudyTables(), study, getDatasetVariableInternal(Indexer.PUBLISHED_VARIABLE_INDEX, Indexer.VARIABLE_TYPE, path));
    } else if (DatasetVariable.Type.Harmonized.equals(resolver.getType())) {
        HarmonizationDataset ds = harmonizedDatasetService.findById(resolver.getDatasetId());
        Optional<BaseStudyTable> studyTable = ds.getBaseStudyTables().stream().filter(st -> st.getStudyId().equals(resolver.getStudyId()) && st.getProject().equals(resolver.getProject()) && st.getTable().equals(resolver.getTable())).findFirst();
        if (!studyTable.isPresent())
            throw new IllegalArgumentException("Not a valid variable: " + path);
        BaseStudy study = studyService.findStudy(studyTable.get().getStudyId());
        return new RQLFieldReferences(path, ds, studyTable.get(), study, getDatasetVariableInternal(Indexer.PUBLISHED_HVARIABLE_INDEX, Indexer.HARMONIZED_VARIABLE_TYPE, path));
    }
    throw new IllegalArgumentException("Not a valid variable: " + path);
}

Example 7 with BaseStudyTable

use of org.obiba.mica.core.domain.BaseStudyTable in project mica2 by obiba.

the class DraftHarmonizedDatasetResource method getFacets.

@POST
@Path("/facets")
public List<Search.QueryResultDto> getFacets(Search.QueryTermsDto query) {
    checkPermission("/draft/harmonized-dataset", "VIEW");
    ImmutableList.Builder<Search.QueryResultDto> builder = ImmutableList.builder();
    HarmonizationDataset dataset = getDataset();
    for (BaseStudyTable table : dataset.getBaseStudyTables()) {
        builder.add(datasetService.getFacets(query, table));
    }
    return builder.build();
}