Examples with Taxonomy org.obiba.opal.core.domain.taxonomy.Taxonomy used on opensource projects

Example 1 with Taxonomy

use of org.obiba.opal.core.domain.taxonomy.Taxonomy in project mica2 by obiba.

the class MicaConfigService method getTaxonomyNode.

private JsonNode getTaxonomyNode(TaxonomyTarget taxonomyTarget, String locale) {
    Taxonomy taxonomy = taxonomyConfigService.findByTarget(taxonomyTarget);
    ObjectNode vocabularies = new ObjectNode(JsonNodeFactory.instance);
    for (Vocabulary vocabulary : taxonomy.getVocabularies()) {
        ObjectNode vocabularyNode = createObjectNode(vocabulary, locale);
        vocabularyNode = addTerms(vocabularyNode, vocabulary.getTerms(), locale);
        vocabularies.set(vocabulary.getName(), vocabularyNode);
    }
    ObjectNode taxonomyNode = createObjectNode(taxonomy, locale);
    taxonomyNode.set("vocabulary", vocabularies);
    return taxonomyNode;
}

Example 2 with Taxonomy

use of org.obiba.opal.core.domain.taxonomy.Taxonomy in project mica2 by obiba.

the class TaxonomyService method copy.

private Taxonomy copy(Taxonomy source) {
    Taxonomy target = new Taxonomy();
    BeanUtils.copyProperties(source, target, "vocabularies");
    if (source.hasVocabularies()) {
        source.getVocabularies().forEach(sourceVoc -> {
            Vocabulary targetVoc = new Vocabulary();
            BeanUtils.copyProperties(sourceVoc, targetVoc, "terms");
            if (sourceVoc.hasTerms()) {
                sourceVoc.getTerms().forEach(sourceTerm -> {
                    Term targetTerm = new Term();
                    BeanUtils.copyProperties(sourceTerm, targetTerm);
                    targetVoc.addTerm(targetTerm);
                });
            }
            target.addVocabulary(targetVoc);
        });
    }
    return target;
}

Example 3 with Taxonomy

use of org.obiba.opal.core.domain.taxonomy.Taxonomy in project mica2 by obiba.

the class OpalServiceHelper method fromDto.

/**
 * Decorate the variable taxonomies with some Mica specific attributes.
 *
 * @param dto
 * @return
 */
private Taxonomy fromDto(Opal.TaxonomyDto dto) {
    Taxonomy taxonomy = Dtos.fromDto(dto);
    taxonomy.getVocabularies().forEach(vocabulary -> {
        String field = vocabulary.getAttributeValue("field");
        if (Strings.isNullOrEmpty(field)) {
            vocabulary.addAttribute("field", "attributes." + AttributeKey.getMapKey(vocabulary.getName(), taxonomy.getName()) + ".und");
        }
        String alias = vocabulary.getAttributeValue("alias");
        if (Strings.isNullOrEmpty(alias)) {
            vocabulary.addAttribute("alias", "attributes-" + AttributeKey.getMapKey(vocabulary.getName(), taxonomy.getName()) + "-und");
        }
    });
    return taxonomy;
}

Example 4 with Taxonomy

use of org.obiba.opal.core.domain.taxonomy.Taxonomy in project mica2 by obiba.

the class ConfigurationTaxonomyMetaDataProvider method getAllLocalizedMetadata.

private Map<String, LocalizedMetaData> getAllLocalizedMetadata(String aggregation) {
    Taxonomy taxonomy = getTaxonomy();
    Vocabulary v = taxonomyVocabularyWithAlias(taxonomy, aggregation);
    if (v == null && taxonomy.hasVocabulary(aggregation)) {
        log.debug("Found in taxonomy {} a vocabulary with name: {}", taxonomy.getName(), aggregation);
        v = taxonomy.getVocabulary(aggregation);
    }
    return populateMetadataMap(v);
}

Example 5 with Taxonomy

use of org.obiba.opal.core.domain.taxonomy.Taxonomy in project mica2 by obiba.

the class TaxonomyConfigServiceTest method validateTaxonomyDuplicateAliasRange.

@Test(expected = VocabularyDuplicateAliasException.class)
public void validateTaxonomyDuplicateAliasRange() {
    Taxonomy taxonomy = new Taxonomy("tax001");
    taxonomy.addVocabulary(createVocabulary("voc001", createTerms("term001", "term002"), AttributeBuilder.newBuilder().field("tax.voc").alias("tax-voc-range").range("true").build()));
    taxonomy.addVocabulary(createVocabulary("voc002", createTerms("term001", "term002"), AttributeBuilder.newBuilder().field("tax.voc").alias("tax-voc-range").range("true").build()));
    new TaxonomyConfigService().validateTaxonomy(taxonomy);
}