use of org.hl7.fhir.r4b.model.Property in project org.hl7.fhir.core by hapifhir.
the class FHIRPathEngine method funcResolve.
private List<Base> funcResolve(ExecutionContext context, List<Base> focus, ExpressionNode exp) throws FHIRException {
List<Base> result = new ArrayList<Base>();
Base refContext = null;
for (Base item : focus) {
String s = convertToString(item);
if (item.fhirType().equals("Reference")) {
refContext = item;
Property p = item.getChildByName("reference");
if (p != null && p.hasValues()) {
s = convertToString(p.getValues().get(0));
} else {
// a reference without any valid actual reference (just identifier or display, but we can't resolve it)
s = null;
}
}
if (item.fhirType().equals("canonical")) {
s = item.primitiveValue();
refContext = item;
}
if (s != null) {
Base res = null;
if (s.startsWith("#")) {
Property p = context.rootResource.getChildByName("contained");
if (p != null) {
for (Base c : p.getValues()) {
if (chompHash(s).equals(chompHash(c.getIdBase()))) {
res = c;
break;
}
}
}
} else if (hostServices != null) {
res = hostServices.resolveReference(context.appInfo, s, refContext);
}
if (res != null) {
result.add(res);
}
}
}
return result;
}
use of org.hl7.fhir.r4b.model.Property in project org.hl7.fhir.core by hapifhir.
the class ValueSetExpanderSimple method includeCodes.
private void includeCodes(ConceptSetComponent inc, List<ValueSetExpansionParameterComponent> params, ExpansionProfile profile) throws ETooCostly, FileNotFoundException, IOException, FHIRException {
List<ValueSet> imports = new ArrayList<ValueSet>();
for (UriType imp : inc.getValueSet()) imports.add(importValueSet(imp.getValue(), params, profile));
if (!inc.hasSystem()) {
if (// though this is not supposed to be the case
imports.isEmpty())
return;
ValueSet base = imports.get(0);
imports.remove(0);
copyImportContains(base.getExpansion().getContains(), null, profile, imports);
} else {
CodeSystem cs = context.fetchCodeSystem(inc.getSystem());
if ((cs == null || cs.getContent() != CodeSystemContentMode.COMPLETE) && context.supportsSystem(inc.getSystem())) {
addCodes(context.expandVS(inc, canBeHeirarchy), params, profile, imports);
return;
}
if (cs == null) {
if (context.isNoTerminologyServer())
throw new NoTerminologyServiceException("unable to find code system " + inc.getSystem().toString());
else
throw new TerminologyServiceException("unable to find code system " + inc.getSystem().toString());
}
if (cs.getContent() != CodeSystemContentMode.COMPLETE)
throw new TerminologyServiceException("Code system " + inc.getSystem().toString() + " is incomplete");
if (cs.hasVersion())
if (!existsInParams(params, "version", new UriType(cs.getUrl() + "|" + cs.getVersion())))
params.add(new ValueSetExpansionParameterComponent().setName("version").setValue(new UriType(cs.getUrl() + "|" + cs.getVersion())));
if (inc.getConcept().size() == 0 && inc.getFilter().size() == 0) {
// special case - add all the code system
for (ConceptDefinitionComponent def : cs.getConcept()) {
addCodeAndDescendents(cs, inc.getSystem(), def, null, profile, imports);
}
}
if (!inc.getConcept().isEmpty()) {
canBeHeirarchy = false;
for (ConceptReferenceComponent c : inc.getConcept()) {
addCode(inc.getSystem(), c.getCode(), Utilities.noString(c.getDisplay()) ? getCodeDisplay(cs, c.getCode()) : c.getDisplay(), null, convertDesignations(c.getDesignation()), profile, false, CodeSystemUtilities.isInactive(cs, c.getCode()), imports);
}
}
if (inc.getFilter().size() > 1) {
// which will bt the case if we get around to supporting this
canBeHeirarchy = false;
// need to and them, and this isn't done yet. But this shouldn't arise in non loinc and snomed value sets
throw new TerminologyServiceException("Multiple filters not handled yet");
}
if (inc.getFilter().size() == 1) {
ConceptSetFilterComponent fc = inc.getFilter().get(0);
if ("concept".equals(fc.getProperty()) && fc.getOp() == FilterOperator.ISA) {
// special: all codes in the target code system under the value
ConceptDefinitionComponent def = getConceptForCode(cs.getConcept(), fc.getValue());
if (def == null)
throw new TerminologyServiceException("Code '" + fc.getValue() + "' not found in system '" + inc.getSystem() + "'");
addCodeAndDescendents(cs, inc.getSystem(), def, null, profile, imports);
} else if ("concept".equals(fc.getProperty()) && fc.getOp() == FilterOperator.DESCENDENTOF) {
// special: all codes in the target code system under the value
ConceptDefinitionComponent def = getConceptForCode(cs.getConcept(), fc.getValue());
if (def == null)
throw new TerminologyServiceException("Code '" + fc.getValue() + "' not found in system '" + inc.getSystem() + "'");
for (ConceptDefinitionComponent c : def.getConcept()) addCodeAndDescendents(cs, inc.getSystem(), c, null, profile, imports);
} else if ("display".equals(fc.getProperty()) && fc.getOp() == FilterOperator.EQUAL) {
// gg; note: wtf is this: if the filter is display=v, look up the code 'v', and see if it's diplsay is 'v'?
canBeHeirarchy = false;
ConceptDefinitionComponent def = getConceptForCode(cs.getConcept(), fc.getValue());
if (def != null) {
if (isNotBlank(def.getDisplay()) && isNotBlank(fc.getValue())) {
if (def.getDisplay().contains(fc.getValue())) {
addCode(inc.getSystem(), def.getCode(), def.getDisplay(), null, def.getDesignation(), profile, CodeSystemUtilities.isNotSelectable(cs, def), CodeSystemUtilities.isInactive(cs, def), imports);
}
}
}
} else
throw new NotImplementedException("Search by property[" + fc.getProperty() + "] and op[" + fc.getOp() + "] is not supported yet");
}
}
}
use of org.hl7.fhir.r4b.model.Property in project org.hl7.fhir.core by hapifhir.
the class RdfParser method composeTerminologyCapabilitiesTerminologyCapabilitiesCodeSystemVersionComponent.
protected void composeTerminologyCapabilitiesTerminologyCapabilitiesCodeSystemVersionComponent(Complex parent, String parentType, String name, TerminologyCapabilities.TerminologyCapabilitiesCodeSystemVersionComponent element, int index) {
if (element == null)
return;
Complex t;
if (Utilities.noString(parentType))
t = parent;
else {
t = parent.predicate("fhir:" + parentType + '.' + name);
}
composeBackboneElement(t, "version", name, element, index);
if (element.hasCodeElement())
composeString(t, "TerminologyCapabilities", "code", element.getCodeElement(), -1);
if (element.hasIsDefaultElement())
composeBoolean(t, "TerminologyCapabilities", "isDefault", element.getIsDefaultElement(), -1);
if (element.hasCompositionalElement())
composeBoolean(t, "TerminologyCapabilities", "compositional", element.getCompositionalElement(), -1);
for (int i = 0; i < element.getLanguage().size(); i++) composeCode(t, "TerminologyCapabilities", "language", element.getLanguage().get(i), i);
for (int i = 0; i < element.getFilter().size(); i++) composeTerminologyCapabilitiesTerminologyCapabilitiesCodeSystemVersionFilterComponent(t, "TerminologyCapabilities", "filter", element.getFilter().get(i), i);
for (int i = 0; i < element.getProperty().size(); i++) composeCode(t, "TerminologyCapabilities", "property", element.getProperty().get(i), i);
}
use of org.hl7.fhir.r4b.model.Property in project org.hl7.fhir.core by hapifhir.
the class RdfParser method composeValueSetConceptSetFilterComponent.
protected void composeValueSetConceptSetFilterComponent(Complex parent, String parentType, String name, ValueSet.ConceptSetFilterComponent element, int index) {
if (element == null)
return;
Complex t;
if (Utilities.noString(parentType))
t = parent;
else {
t = parent.predicate("fhir:" + parentType + '.' + name);
}
composeBackboneElement(t, "filter", name, element, index);
if (element.hasPropertyElement())
composeCode(t, "ValueSet", "property", element.getPropertyElement(), -1);
if (element.hasOpElement())
composeEnum(t, "ValueSet", "op", element.getOpElement(), -1);
if (element.hasValueElement())
composeString(t, "ValueSet", "value", element.getValueElement(), -1);
}
use of org.hl7.fhir.r4b.model.Property in project org.hl7.fhir.core by hapifhir.
the class VerticalBarParser method parse.
@Override
public Element parse(InputStream stream) throws IOException, FHIRFormatError, DefinitionException, FHIRException {
StructureDefinition sd = context.fetchResource(StructureDefinition.class, "http://hl7.org/fhir/v2/StructureDefinition/Message");
Element message = new Element("Message", new Property(context, sd.getSnapshot().getElementFirstRep(), sd));
VerticalBarParserReader reader = new VerticalBarParserReader(new BufferedInputStream(stream), charset);
preDecode(reader);
while (// && (getOptions().getSegmentLimit() == 0 || getOptions().getSegmentLimit() > message.getSegments().size()))
!reader.isFinished()) readSegment(message, reader);
return message;
}
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