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

Example 1 with OpalTable

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

the class DatasetDtos method asContingencyDto.

public Mica.DatasetVariableContingencyDto.Builder asContingencyDto(@NotNull OpalTable opalTable, DatasetVariable variable, DatasetVariable crossVariable, @Nullable Search.QueryResultDto results) {
    Mica.DatasetVariableContingencyDto.Builder crossDto = Mica.DatasetVariableContingencyDto.newBuilder();
    if (opalTable instanceof StudyTable)
        crossDto.setStudyTable(asDto((StudyTable) opalTable, true));
    else if (opalTable instanceof HarmonizationStudyTable)
        crossDto.setHarmonizationStudyTable(asDto((HarmonizationStudyTable) opalTable));
    Mica.DatasetVariableAggregationDto.Builder allAggBuilder = Mica.DatasetVariableAggregationDto.newBuilder();
    if (results == null) {
        allAggBuilder.setN(0);
        allAggBuilder.setTotal(0);
        crossDto.setAll(allAggBuilder);
        return crossDto;
    }
    allAggBuilder.setTotal(results.getTotalHits());
    MicaConfig micaConfig = micaConfigService.getConfig();
    int privacyThreshold = micaConfig.getPrivacyThreshold();
    crossDto.setPrivacyThreshold(privacyThreshold);
    boolean privacyChecks = crossVariable.hasCategories() ? validatePrivacyThreshold(results, privacyThreshold) : true;
    boolean totalPrivacyChecks = validateTotalPrivacyThreshold(results, privacyThreshold);
    // add facet results in the same order as the variable categories
    variable.getCategories().forEach(cat -> results.getFacetsList().stream().filter(facet -> facet.hasFacet() && cat.getName().equals(facet.getFacet())).forEach(facet -> {
        boolean privacyCheck = privacyChecks && checkPrivacyThreshold(facet.getFilters(0).getCount(), privacyThreshold);
        Mica.DatasetVariableAggregationDto.Builder aggBuilder = Mica.DatasetVariableAggregationDto.newBuilder();
        aggBuilder.setTotal(totalPrivacyChecks ? results.getTotalHits() : 0);
        aggBuilder.setTerm(facet.getFacet());
        DatasetCategory category = variable.getCategory(facet.getFacet());
        aggBuilder.setMissing(category != null && category.isMissing());
        addSummaryStatistics(crossVariable, aggBuilder, facet, privacyCheck, totalPrivacyChecks);
        crossDto.addAggregations(aggBuilder);
    }));
    // add total facet for all variable categories
    results.getFacetsList().stream().filter(facet -> facet.hasFacet() && "_total".equals(facet.getFacet())).forEach(facet -> {
        boolean privacyCheck = privacyChecks && facet.getFilters(0).getCount() > micaConfig.getPrivacyThreshold();
        addSummaryStatistics(crossVariable, allAggBuilder, facet, privacyCheck, totalPrivacyChecks);
    });
    crossDto.setAll(allAggBuilder);
    return crossDto;
}