Examples with TaxonomyTarget org.obiba.mica.spi.search.TaxonomyTarget used on opensource projects

Example 1 with TaxonomyTarget

use of org.obiba.mica.spi.search.TaxonomyTarget in project mica2 by obiba.

the class AbstractTaxonomySearchResource method filterTerms.

protected List<String> filterTerms(TaxonomyTarget target, String query, String locale, List<String> vocabularies) {
    try {
        if (vocabularies != null && vocabularies.size() > 0) {
            // filter on vocabulary names; remove taxonomy prefixes ('Mica_study:')
            String vocabulariesQuery = vocabularies.stream().map(v -> String.format("vocabularyName:%s", v.replaceAll("^([^\\:]+):", ""))).collect(Collectors.joining(" AND "));
            query = Strings.isNullOrEmpty(query) ? vocabulariesQuery : query + " " + vocabulariesQuery;
        }
        return esTaxonomyTermService.find(0, MAX_SIZE, DEFAULT_SORT, "asc", null, getTargettedQuery(target, query), getFields(locale, TERM_FIELDS)).getList();
    } catch (Exception e) {
        initTaxonomies();
        // for a 404 response
        throw new NoSuchElementException();
    }
}

Example 2 with TaxonomyTarget

use of org.obiba.mica.spi.search.TaxonomyTarget in project mica2 by obiba.

the class TaxonomiesSearchResource method filter.

@GET
@Path("/_filter")
@Timed
public List<Opal.TaxonomyDto> filter(@QueryParam("target") @DefaultValue("variable") String target, @QueryParam("query") String query, @QueryParam("locale") String locale) {
    TaxonomyTarget taxonomyTarget = getTaxonomyTarget(target);
    List<String> filteredVocabularies = filterVocabularies(taxonomyTarget, query, locale);
    Map<String, Map<String, List<String>>> taxoNamesMap = TaxonomyResolver.asMap(filteredVocabularies, filterTerms(taxonomyTarget, query, locale, filteredVocabularies));
    List<Opal.TaxonomyDto> results = Lists.newArrayList();
    getTaxonomies(taxonomyTarget).stream().filter(t -> taxoNamesMap.containsKey(t.getName())).forEach(taxo -> {
        Opal.TaxonomyDto.Builder tBuilder = Dtos.asDto(taxo, false).toBuilder();
        populate(tBuilder, taxo, taxoNamesMap);
        results.add(tBuilder.build());
    });
    return results;
}

Example 3 with TaxonomyTarget

use of org.obiba.mica.spi.search.TaxonomyTarget in project mica2 by obiba.

the class TaxonomySearchResource method filterVocabulary.

@GET
@Path("/vocabulary/{vocabulary}/_filter")
@Timed
public Opal.VocabularyDto filterVocabulary(@PathParam("name") String name, @PathParam("vocabulary") String vocabularyName, @QueryParam("target") @DefaultValue("variable") String target, @QueryParam("query") String query, @QueryParam("locale") String locale) {
    TaxonomyTarget taxonomyTarget = getTaxonomyTarget(target);
    if (taxonomyTarget.equals(TaxonomyTarget.TAXONOMY))
        return Dtos.asDto(getTaxonomy(taxonomyTarget, name).getVocabulary(vocabularyName));
    List<String> foundVocabularies = filterVocabularies(taxonomyTarget, String.format("name:%s", vocabularyName), locale);
    if (foundVocabularies.isEmpty()) {
        throw new NoSuchVocabularyException(name, vocabularyName);
    }
    Taxonomy taxonomy = getTaxonomy(taxonomyTarget, name);
    Vocabulary vocabulary = taxonomy.getVocabulary(vocabularyName);
    Opal.VocabularyDto.Builder tBuilder = Dtos.asDto(vocabulary, false).toBuilder();
    String filteredQuery = String.format(Strings.isNullOrEmpty(query) ? "taxonomyName:%s AND vocabularyName:%s" : "taxonomyName:%s AND vocabularyName:%s AND (%s)", name, vocabularyName, query);
    Map<String, Map<String, List<String>>> taxoNamesMap = asMap(filterTerms(taxonomyTarget, filteredQuery, locale, null));
    if (taxoNamesMap.isEmpty() || !taxoNamesMap.containsKey(name) || taxoNamesMap.get(name).isEmpty() || taxoNamesMap.get(name).get(vocabularyName).isEmpty())
        return tBuilder.build();
    taxoNamesMap.get(name).get(vocabularyName).forEach(term -> tBuilder.addTerms(Dtos.asDto(vocabulary.getTerm(term))));
    return tBuilder.build();
}

Example 4 with TaxonomyTarget

use of org.obiba.mica.spi.search.TaxonomyTarget in project mica2 by obiba.

the class TaxonomySearchResource method filterTaxonomy.

@GET
@Path("/_filter")
@Timed
public Opal.TaxonomyDto filterTaxonomy(@PathParam("name") String name, @QueryParam("target") @DefaultValue("variable") String target, @QueryParam("query") String query, @QueryParam("locale") String locale) {
    TaxonomyTarget taxonomyTarget = getTaxonomyTarget(target);
    if (taxonomyTarget.equals(TaxonomyTarget.TAXONOMY))
        return Dtos.asDto(getTaxonomy(taxonomyTarget, name));
    List<String> filteredVocabularies = filterVocabularies(taxonomyTarget, query, locale);
    Map<String, Map<String, List<String>>> taxoNamesMap = asMap(filteredVocabularies, filterTerms(taxonomyTarget, query, locale, filteredVocabularies));
    Taxonomy taxonomy = getTaxonomy(taxonomyTarget, name);
    Opal.TaxonomyDto.Builder tBuilder = Dtos.asDto(taxonomy, false).toBuilder();
    if (taxoNamesMap.isEmpty() || !taxoNamesMap.containsKey(name) || taxoNamesMap.get(name).isEmpty())
        return tBuilder.build();
    populate(tBuilder, taxonomy, taxoNamesMap);
    return tBuilder.build();
}