Examples with SnomedConcept com.b2international.snowowl.snomed.core.domain.SnomedConcept used on opensource projects

Example 71 with SnomedConcept

use of com.b2international.snowowl.snomed.core.domain.SnomedConcept in project snow-owl by b2ihealthcare.

the class SnomedSimpleTypeRefSetDSVExporter method computeHeader.

private void computeHeader(SnomedConcepts chunk) {
    for (SnomedConcept concept : chunk) {
        for (AbstractSnomedDsvExportItem exportItem : exportItems) {
            switch(exportItem.getType()) {
                case DESCRIPTION:
                    ComponentIdSnomedDsvExportItem descriptionItem = (ComponentIdSnomedDsvExportItem) exportItem;
                    String descriptionTypeId = descriptionItem.getComponentId();
                    Integer matchingDescriptions = concept.getDescriptions().stream().filter(d -> descriptionTypeId.equals(d.getTypeId())).collect(Collectors.reducing(0, description -> 1, Integer::sum));
                    descriptionCount.merge(descriptionTypeId, matchingDescriptions, Math::max);
                    break;
                case RELATIONSHIP:
                    ComponentIdSnomedDsvExportItem relationshipItem = (ComponentIdSnomedDsvExportItem) exportItem;
                    String relationshipTypeId = relationshipItem.getComponentId();
                    Map<Integer, Integer> matchingRelationships = concept.getRelationships().stream().filter(r -> relationshipTypeId.equals(r.getTypeId()) && (Concepts.INFERRED_RELATIONSHIP.equals(r.getCharacteristicTypeId()) || Concepts.ADDITIONAL_RELATIONSHIP.equals(r.getCharacteristicTypeId()))).collect(Collectors.groupingBy(SnomedRelationship::getRelationshipGroup, Collectors.reducing(0, relationship -> 1, Integer::sum)));
                    matchingRelationships.entrySet().stream().forEach(entry -> {
                        propertyCountByGroup.compute(entry.getKey(), (key, oldValue) -> {
                            Map<String, Integer> propertyCountForGroup = ofNullable(oldValue).orElseGet(HashMap::new);
                            propertyCountForGroup.merge(relationshipTypeId, entry.getValue(), Math::max);
                            return propertyCountForGroup;
                        });
                    });
                    break;
                case DATAYPE:
                    ComponentIdSnomedDsvExportItem dataTypeItem = (ComponentIdSnomedDsvExportItem) exportItem;
                    String dataTypeId = dataTypeItem.getComponentId();
                    Map<Integer, Integer> matchingMembers = concept.getMembers().stream().filter(m -> SnomedRefSetType.CONCRETE_DATA_TYPE.equals(m.type()) && m.isActive() && dataTypeId.equals(m.getProperties().get(SnomedRf2Headers.FIELD_TYPE_ID)) && (Concepts.INFERRED_RELATIONSHIP.equals(m.getProperties().get(SnomedRf2Headers.FIELD_CHARACTERISTIC_TYPE_ID)) || Concepts.ADDITIONAL_RELATIONSHIP.equals(m.getProperties().get(SnomedRf2Headers.FIELD_CHARACTERISTIC_TYPE_ID)))).collect(Collectors.groupingBy(m -> (Integer) m.getProperties().get(SnomedRf2Headers.FIELD_RELATIONSHIP_GROUP), Collectors.reducing(0, relationship -> 1, Integer::sum)));
                    matchingMembers.entrySet().stream().forEach(entry -> {
                        propertyCountByGroup.compute(entry.getKey(), (key, oldValue) -> {
                            Map<String, Integer> propertyCountForGroup = ofNullable(oldValue).orElseGet(HashMap::new);
                            propertyCountForGroup.merge(dataTypeId, entry.getValue(), Math::max);
                            return propertyCountForGroup;
                        });
                    });
                    break;
                default:
                    // Single-use fields don't need to be counted in advance
                    break;
            }
        }
    }
}

Example 72 with SnomedConcept

use of com.b2international.snowowl.snomed.core.domain.SnomedConcept in project snow-owl by b2ihealthcare.

the class Rf2OwlExpressionRefSetContentType method resolve.

@Override
public void resolve(SnomedReferenceSetMember component, String[] values) {
    component.setRefsetId(values[4]);
    if (Concepts.REFSET_OWL_AXIOM.equals(component.getRefsetId())) {
        component.setType(SnomedRefSetType.OWL_AXIOM);
    } else if (Concepts.REFSET_OWL_ONTOLOGY.equals(component.getRefsetId())) {
        component.setType(SnomedRefSetType.OWL_ONTOLOGY);
    } else {
        throw new UnsupportedOperationException("Unrecognized OWL Reference Set " + component.getRefsetId());
    }
    // XXX actual type is not relevant here
    component.setReferencedComponent(new SnomedConcept(values[5]));
    component.setProperties(ImmutableMap.of(FIELD_OWL_EXPRESSION, values[6]));
}

Example 73 with SnomedConcept

use of com.b2international.snowowl.snomed.core.domain.SnomedConcept in project snow-owl by b2ihealthcare.

the class Rf2SimpleRefSetContentType method resolve.

@Override
public void resolve(SnomedReferenceSetMember component, String[] values) {
    component.setType(SnomedRefSetType.SIMPLE);
    component.setRefsetId(values[4]);
    // XXX actual type is not relevant here
    component.setReferencedComponent(new SnomedConcept(values[5]));
}

Example 74 with SnomedConcept

use of com.b2international.snowowl.snomed.core.domain.SnomedConcept in project snow-owl by b2ihealthcare.

the class SnomedQueryMemberCreateDelegate method createWithNewRefSet.

private String createWithNewRefSet(SnomedReferenceSet refSet, TransactionContext context) {
    checkNonEmptyProperty(REFERENCED_COMPONENT);
    checkComponentExists(refSet, context, SnomedRf2Headers.FIELD_MODULE_ID, getModuleId());
    // create new simple type reference set
    final SnomedConcept referencedComponent = getProperty(REFERENCED_COMPONENT, SnomedConcept.class);
    final String referencedComponentId = new IdRequest<>(referencedComponent.toCreateRequest()).execute(context);
    // write the generated ID back to the request
    setReferencedComponentId(referencedComponentId);
    // add all matching members
    final SnomedConcepts queryResults = SnomedRequests.prepareSearchConcept().all().filterByEcl(getProperty(SnomedRf2Headers.FIELD_QUERY)).build().execute(context);
    for (SnomedConcept queryResult : queryResults) {
        SnomedComponents.newSimpleMember().withActive(isActive()).withReferencedComponent(queryResult.getId()).withModuleId(getModuleId()).withRefSet(referencedComponentId).addTo(context);
    }
    return createWithExistingRefSet(refSet, context);
}

Example 75 with SnomedConcept

use of com.b2international.snowowl.snomed.core.domain.SnomedConcept in project snow-owl by b2ihealthcare.

the class Rf2AttributeValueRefSetContentType method resolve.

@Override
public void resolve(SnomedReferenceSetMember component, String[] values) {
    component.setType(SnomedRefSetType.ATTRIBUTE_VALUE);
    component.setRefsetId(values[4]);
    // XXX actual type is not relevant here
    component.setReferencedComponent(new SnomedConcept(values[5]));
    component.setProperties(ImmutableMap.of(SnomedRf2Headers.FIELD_VALUE_ID, values[6]));
}