use of org.hl7.fhir.r5.model.ValueSet.ValueSetExpansionComponent in project org.hl7.fhir.core by hapifhir.
the class ValueSetExpanderSimple method includeCodes.
private void includeCodes(ConceptSetComponent inc, ValueSetExpansionComponent exp, Parameters expParams, boolean heirarchical, boolean noInactive, List<Extension> extensions, ValueSet valueSet) throws ETooCostly, FileNotFoundException, IOException, FHIRException {
inc.checkNoModifiers("Compose.include", "expanding");
List<ValueSet> imports = new ArrayList<ValueSet>();
for (UriType imp : inc.getValueSet()) {
imports.add(importValueSet(imp.getValue(), exp, expParams, noInactive, valueSet));
}
if (!inc.hasSystem()) {
if (// though this is not supposed to be the case
imports.isEmpty())
return;
ValueSet base = imports.get(0);
imports.remove(0);
base.checkNoModifiers("Imported ValueSet", "expanding");
copyImportContains(base.getExpansion().getContains(), null, expParams, imports, noInactive);
} else {
CodeSystem cs = context.fetchCodeSystem(inc.getSystem());
if (isServerSide(inc.getSystem()) || (cs == null || (cs.getContent() != CodeSystemContentMode.COMPLETE && cs.getContent() != CodeSystemContentMode.FRAGMENT))) {
doServerIncludeCodes(inc, heirarchical, exp, imports, expParams, extensions, noInactive);
} else {
doInternalIncludeCodes(inc, exp, expParams, imports, cs, noInactive);
}
}
}
use of org.hl7.fhir.r5.model.ValueSet.ValueSetExpansionComponent in project org.hl7.fhir.core by hapifhir.
the class ValueSetExpanderSimple method handleCompose.
private void handleCompose(ValueSetComposeComponent compose, ValueSetExpansionComponent exp, Parameters expParams, String ctxt, List<Extension> extensions, ValueSet valueSet) throws ETooCostly, FileNotFoundException, IOException, FHIRException {
compose.checkNoModifiers("ValueSet.compose", "expanding");
// Exclude comes first because we build up a map of things to exclude
for (ConceptSetComponent inc : compose.getExclude()) excludeCodes(inc, exp.getParameter(), ctxt);
canBeHeirarchy = !expParams.getParameterBool("excludeNested") && excludeKeys.isEmpty() && excludeSystems.isEmpty();
includeAbstract = !expParams.getParameterBool("excludeNotForUI");
boolean first = true;
for (ConceptSetComponent inc : compose.getInclude()) {
if (first == true)
first = false;
else
canBeHeirarchy = false;
includeCodes(inc, exp, expParams, canBeHeirarchy, compose.hasInactive() && !compose.getInactive(), extensions, valueSet);
}
}
use of org.hl7.fhir.r5.model.ValueSet.ValueSetExpansionComponent in project org.hl7.fhir.core by hapifhir.
the class ValueSetExpanderSimple method doInternalIncludeCodes.
public void doInternalIncludeCodes(ConceptSetComponent inc, ValueSetExpansionComponent exp, Parameters expParams, List<ValueSet> imports, CodeSystem cs, boolean noInactive) throws NoTerminologyServiceException, TerminologyServiceException, FHIRException {
if (cs == null) {
if (context.isNoTerminologyServer())
throw failTSE("Unable to find code system " + inc.getSystem().toString());
else
throw failTSE("Unable to find code system " + inc.getSystem().toString());
}
cs.checkNoModifiers("Code System", "expanding");
if (cs.getContent() != CodeSystemContentMode.COMPLETE && cs.getContent() != CodeSystemContentMode.FRAGMENT)
throw failTSE("Code system " + inc.getSystem().toString() + " is incomplete");
if (cs.hasVersion())
if (!existsInParams(exp.getParameter(), "version", new UriType(cs.getUrl() + "|" + cs.getVersion())))
exp.getParameter().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, expParams, imports, null, new AllConceptsFilter(), noInactive);
}
if (cs.getContent() == CodeSystemContentMode.FRAGMENT) {
addFragmentWarning(exp, cs);
}
if (cs.getContent() == CodeSystemContentMode.EXAMPLE) {
addExampleWarning(exp, cs);
}
}
if (!inc.getConcept().isEmpty()) {
canBeHeirarchy = false;
for (ConceptReferenceComponent c : inc.getConcept()) {
c.checkNoModifiers("Code in Code System", "expanding");
ConceptDefinitionComponent def = CodeSystemUtilities.findCode(cs.getConcept(), c.getCode());
// default is true if we're a fragment and
Boolean inactive = false;
if (def == null) {
if (cs.getContent() == CodeSystemContentMode.FRAGMENT) {
addFragmentWarning(exp, cs);
} else if (cs.getContent() == CodeSystemContentMode.EXAMPLE) {
addExampleWarning(exp, cs);
} else {
if (checkCodesWhenExpanding) {
throw failTSE("Unable to find code '" + c.getCode() + "' in code system " + cs.getUrl());
}
}
} else {
inactive = CodeSystemUtilities.isInactive(cs, def);
}
addCode(inc.getSystem(), c.getCode(), !Utilities.noString(c.getDisplay()) ? c.getDisplay() : def == null ? null : def.getDisplay(), null, convertDesignations(c.getDesignation()), expParams, false, inactive, imports, noInactive);
}
}
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 failTSE("Multiple filters not handled yet");
}
if (inc.getFilter().size() == 1) {
if (cs.getContent() == CodeSystemContentMode.FRAGMENT) {
addFragmentWarning(exp, cs);
}
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 failTSE("Code '" + fc.getValue() + "' not found in system '" + inc.getSystem() + "'");
addCodeAndDescendents(cs, inc.getSystem(), def, null, expParams, imports, null, new AllConceptsFilter(), noInactive);
} else if ("concept".equals(fc.getProperty()) && fc.getOp() == FilterOperator.ISNOTA) {
// special: all codes in the target code system that are not under the value
ConceptDefinitionComponent defEx = getConceptForCode(cs.getConcept(), fc.getValue());
if (defEx == null)
throw failTSE("Code '" + fc.getValue() + "' not found in system '" + inc.getSystem() + "'");
for (ConceptDefinitionComponent def : cs.getConcept()) {
addCodeAndDescendents(cs, inc.getSystem(), def, null, expParams, imports, defEx, new AllConceptsFilter(), noInactive);
}
} 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 failTSE("Code '" + fc.getValue() + "' not found in system '" + inc.getSystem() + "'");
for (ConceptDefinitionComponent c : def.getConcept()) addCodeAndDescendents(cs, inc.getSystem(), c, null, expParams, imports, null, new AllConceptsFilter(), noInactive);
if (def.hasUserData(CodeSystemUtilities.USER_DATA_CROSS_LINK)) {
List<ConceptDefinitionComponent> children = (List<ConceptDefinitionComponent>) def.getUserData(CodeSystemUtilities.USER_DATA_CROSS_LINK);
for (ConceptDefinitionComponent c : children) addCodeAndDescendents(cs, inc.getSystem(), c, null, expParams, imports, null, new AllConceptsFilter(), noInactive);
}
} 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(), expParams, CodeSystemUtilities.isNotSelectable(cs, def), CodeSystemUtilities.isInactive(cs, def), imports, noInactive);
}
}
}
} else if (isDefinedProperty(cs, fc.getProperty())) {
for (ConceptDefinitionComponent def : cs.getConcept()) {
addCodeAndDescendents(cs, inc.getSystem(), def, null, expParams, imports, null, new PropertyFilter(fc, getPropertyDefinition(cs, fc.getProperty())), noInactive);
}
} else {
throw fail("Search by property[" + fc.getProperty() + "] and op[" + fc.getOp() + "] is not supported yet");
}
}
}
use of org.hl7.fhir.r5.model.ValueSet.ValueSetExpansionComponent in project org.hl7.fhir.core by hapifhir.
the class ValueSetExpanderSimple method addExampleWarning.
private void addExampleWarning(ValueSetExpansionComponent exp, CodeSystem cs) {
String url = cs.getVersionedUrl();
for (ValueSetExpansionParameterComponent p : exp.getParameter()) {
if ("example".equals(p.getName()) && p.hasValueUriType() && url.equals(p.getValue().primitiveValue())) {
return;
}
}
exp.addParameter().setName("example").setValue(new UriType(url));
}
use of org.hl7.fhir.r5.model.ValueSet.ValueSetExpansionComponent in project org.hl7.fhir.core by hapifhir.
the class QuestionnaireBuilder method makeTypeList.
private ValueSet makeTypeList(StructureDefinition profile, List<TypeRefComponent> types, String path) {
ValueSet vs = new ValueSet();
vs.setName("Type options for " + path);
vs.setDescription(vs.present());
vs.setStatus(PublicationStatus.ACTIVE);
vs.setExpansion(new ValueSetExpansionComponent());
vs.getExpansion().setIdentifier(Factory.createUUID());
vs.getExpansion().setTimestampElement(DateTimeType.now());
for (TypeRefComponent t : types) {
if (t.hasTarget()) {
for (UriType u : t.getTargetProfile()) {
if (u.getValue().startsWith("http://hl7.org/fhir/StructureDefinition/")) {
ValueSetExpansionContainsComponent cc = vs.getExpansion().addContains();
cc.setCode(u.getValue().substring(40));
cc.setSystem("http://hl7.org/fhir/resource-types");
cc.setDisplay(cc.getCode());
}
}
} else if (!t.hasProfile()) {
ValueSetExpansionContainsComponent cc = vs.getExpansion().addContains();
cc.setCode(t.getWorkingCode());
cc.setDisplay(t.getWorkingCode());
cc.setSystem("http://hl7.org/fhir/data-types");
} else
for (UriType u : t.getProfile()) {
ProfileUtilities pu = new ProfileUtilities(context, null, null);
StructureDefinition ps = pu.getProfile(profile, u.getValue());
if (ps != null) {
ValueSetExpansionContainsComponent cc = vs.getExpansion().addContains();
cc.setCode(u.getValue());
cc.setDisplay(ps.getType());
cc.setSystem("http://hl7.org/fhir/resource-types");
}
}
}
return vs;
}
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