use of org.hl7.fhir.r4.model.StructureMap in project org.hl7.fhir.core by hapifhir.
the class StructureMapUtilities method updateProfile.
private PropertyWithType updateProfile(VariableForProfiling var, String element, TypeDetails type, StructureMap map, List<StructureDefinition> profiles, String sliceName, DataType fixed, StructureMapGroupRuleTargetComponent tgt) throws FHIRException {
if (var == null) {
assert (Utilities.noString(element));
// 1. start the new structure definition
StructureDefinition sdn = worker.fetchResource(StructureDefinition.class, type.getType());
if (sdn == null)
throw new FHIRException("Unable to find definition for " + type.getType());
ElementDefinition edn = sdn.getSnapshot().getElementFirstRep();
PropertyWithType pn = createProfile(map, profiles, new PropertyWithType(sdn.getId(), new Property(worker, edn, sdn), null, type), sliceName, tgt);
return pn;
} else {
assert (!Utilities.noString(element));
Property pvb = var.getProperty().getBaseProperty();
Property pvd = var.getProperty().getProfileProperty();
Property pc = pvb.getChild(element, var.getProperty().getTypes());
if (pc == null)
throw new DefinitionException("Unable to find a definition for " + pvb.getDefinition().getPath() + "." + element);
// the profile structure definition (derived)
StructureDefinition sd = var.getProperty().getProfileProperty().getStructure();
ElementDefinition ednew = sd.getDifferential().addElement();
ednew.setPath(var.getProperty().getProfileProperty().getDefinition().getPath() + "." + pc.getName());
ednew.setUserData("slice-name", sliceName);
ednew.setFixed(fixed);
for (ProfiledType pt : type.getProfiledTypes()) {
if (pt.hasBindings())
ednew.setBinding(pt.getBindings().get(0));
if (pt.getUri().startsWith("http://hl7.org/fhir/StructureDefinition/")) {
String t = pt.getUri().substring(40);
t = checkType(t, pc, pt.getProfiles());
if (t != null) {
if (pt.hasProfiles()) {
for (String p : pt.getProfiles()) if (t.equals("Reference"))
ednew.getType(t).addTargetProfile(p);
else
ednew.getType(t).addProfile(p);
} else
ednew.getType(t);
}
}
}
return new PropertyWithType(var.getProperty().getPath() + "." + element, pc, new Property(worker, ednew, sd), type);
}
}
use of org.hl7.fhir.r4.model.StructureMap in project org.hl7.fhir.core by hapifhir.
the class StructureMapUtilities method createProfile.
private PropertyWithType createProfile(StructureMap map, List<StructureDefinition> profiles, PropertyWithType prop, String sliceName, Base ctxt) throws FHIRException {
if (prop.getBaseProperty().getDefinition().getPath().contains("."))
throw new DefinitionException("Unable to process entry point");
String type = prop.getBaseProperty().getDefinition().getPath();
String suffix = "";
if (ids.containsKey(type)) {
int id = ids.get(type);
id++;
ids.put(type, id);
suffix = "-" + id;
} else
ids.put(type, 0);
StructureDefinition profile = new StructureDefinition();
profiles.add(profile);
profile.setDerivation(TypeDerivationRule.CONSTRAINT);
profile.setType(type);
profile.setBaseDefinition(prop.getBaseProperty().getStructure().getUrl());
profile.setName("Profile for " + profile.getType() + " for " + sliceName);
profile.setUrl(map.getUrl().replace("StructureMap", "StructureDefinition") + "-" + profile.getType() + suffix);
// then we can easily assign this profile url for validation later when we actually transform
ctxt.setUserData("profile", profile.getUrl());
profile.setId(map.getId() + "-" + profile.getType() + suffix);
profile.setStatus(map.getStatus());
profile.setExperimental(map.getExperimental());
profile.setDescription("Generated automatically from the mapping by the Java Reference Implementation");
for (ContactDetail c : map.getContact()) {
ContactDetail p = profile.addContact();
p.setName(c.getName());
for (ContactPoint cc : c.getTelecom()) p.addTelecom(cc);
}
profile.setDate(map.getDate());
profile.setCopyright(map.getCopyright());
profile.setFhirVersion(FHIRVersion.fromCode(Constants.VERSION));
profile.setKind(prop.getBaseProperty().getStructure().getKind());
profile.setAbstract(false);
ElementDefinition ed = profile.getDifferential().addElement();
ed.setPath(profile.getType());
prop.setProfileProperty(new Property(worker, ed, profile));
return prop;
}
use of org.hl7.fhir.r4.model.StructureMap in project org.hl7.fhir.core by hapifhir.
the class StructureMapUtilities method executeDependency.
private void executeDependency(String indent, TransformContext context, StructureMap map, Variables vin, StructureMapGroupComponent group, StructureMapGroupRuleDependentComponent dependent) throws FHIRException {
ResolvedGroup rg = resolveGroupReference(map, group, dependent.getName());
if (rg.target.getInput().size() != dependent.getParameter().size()) {
throw new FHIRException("Rule '" + dependent.getName() + "' has " + rg.target.getInput().size() + " but the invocation has " + dependent.getParameter().size() + " variables");
}
Variables v = new Variables();
for (int i = 0; i < rg.target.getInput().size(); i++) {
StructureMapGroupInputComponent input = rg.target.getInput().get(i);
StructureMapGroupRuleTargetParameterComponent rdp = dependent.getParameter().get(i);
String var = rdp.getValue().primitiveValue();
VariableMode mode = input.getMode() == StructureMapInputMode.SOURCE ? VariableMode.INPUT : VariableMode.OUTPUT;
Base vv = vin.get(mode, var);
if (// * once source, always source. but target can be treated as source at user convenient
vv == null && mode == VariableMode.INPUT)
vv = vin.get(VariableMode.OUTPUT, var);
if (vv == null)
throw new FHIRException("Rule '" + dependent.getName() + "' " + mode.toString() + " variable '" + input.getName() + "' named as '" + var + "' has no value (vars = " + vin.summary() + ")");
v.add(mode, input.getName(), vv);
}
executeGroup(indent + " ", context, rg.targetMap, v, rg.target, false);
}
use of org.hl7.fhir.r4.model.StructureMap in project org.hl7.fhir.core by hapifhir.
the class StructureMapUtilities method translate.
public Base translate(TransformContext context, StructureMap map, Base source, String conceptMapUrl, String fieldToReturn) throws FHIRException {
Coding src = new Coding();
if (source.isPrimitive()) {
src.setCode(source.primitiveValue());
} else if ("Coding".equals(source.fhirType())) {
Base[] b = source.getProperty("system".hashCode(), "system", true);
if (b.length == 1)
src.setSystem(b[0].primitiveValue());
b = source.getProperty("code".hashCode(), "code", true);
if (b.length == 1)
src.setCode(b[0].primitiveValue());
} else if ("CE".equals(source.fhirType())) {
Base[] b = source.getProperty("codeSystem".hashCode(), "codeSystem", true);
if (b.length == 1)
src.setSystem(b[0].primitiveValue());
b = source.getProperty("code".hashCode(), "code", true);
if (b.length == 1)
src.setCode(b[0].primitiveValue());
} else
throw new FHIRException("Unable to translate source " + source.fhirType());
String su = conceptMapUrl;
if (conceptMapUrl.equals("http://hl7.org/fhir/ConceptMap/special-oid2uri")) {
String uri = worker.oid2Uri(src.getCode());
if (uri == null)
uri = "urn:oid:" + src.getCode();
if ("uri".equals(fieldToReturn))
return new UriType(uri);
else
throw new FHIRException("Error in return code");
} else {
ConceptMap cmap = null;
if (conceptMapUrl.startsWith("#")) {
for (Resource r : map.getContained()) {
if (r instanceof ConceptMap && r.getId().equals(conceptMapUrl.substring(1))) {
cmap = (ConceptMap) r;
su = map.getUrl() + "#" + conceptMapUrl;
}
}
if (cmap == null)
throw new FHIRException("Unable to translate - cannot find map " + conceptMapUrl);
} else {
if (conceptMapUrl.contains("#")) {
String[] p = conceptMapUrl.split("\\#");
StructureMap mapU = worker.fetchResource(StructureMap.class, p[0]);
for (Resource r : mapU.getContained()) {
if (r instanceof ConceptMap && r.getId().equals(p[1])) {
cmap = (ConceptMap) r;
su = conceptMapUrl;
}
}
}
if (cmap == null)
cmap = worker.fetchResource(ConceptMap.class, conceptMapUrl);
}
Coding outcome = null;
boolean done = false;
String message = null;
if (cmap == null) {
if (services == null)
message = "No map found for " + conceptMapUrl;
else {
outcome = services.translate(context.getAppInfo(), src, conceptMapUrl);
done = true;
}
} else {
List<SourceElementComponentWrapper> list = new ArrayList<SourceElementComponentWrapper>();
for (ConceptMapGroupComponent g : cmap.getGroup()) {
for (SourceElementComponent e : g.getElement()) {
if (!src.hasSystem() && src.getCode().equals(e.getCode()))
list.add(new SourceElementComponentWrapper(g, e));
else if (src.hasSystem() && src.getSystem().equals(g.getSource()) && src.getCode().equals(e.getCode()))
list.add(new SourceElementComponentWrapper(g, e));
}
}
if (list.size() == 0)
done = true;
else if (list.get(0).getComp().getTarget().size() == 0)
message = "Concept map " + su + " found no translation for " + src.getCode();
else {
for (TargetElementComponent tgt : list.get(0).getComp().getTarget()) {
if (tgt.getRelationship() == null || EnumSet.of(ConceptMapRelationship.RELATEDTO, ConceptMapRelationship.EQUIVALENT, ConceptMapRelationship.SOURCEISNARROWERTHANTARGET).contains(tgt.getRelationship())) {
if (done) {
message = "Concept map " + su + " found multiple matches for " + src.getCode();
done = false;
} else {
done = true;
outcome = new Coding().setCode(tgt.getCode()).setSystem(list.get(0).getGroup().getTarget());
}
}
}
if (!done)
message = "Concept map " + su + " found no usable translation for " + src.getCode();
}
}
if (!done)
throw new FHIRException(message);
if (outcome == null)
return null;
if ("code".equals(fieldToReturn))
return new CodeType(outcome.getCode());
else
return outcome;
}
}
use of org.hl7.fhir.r4.model.StructureMap in project org.hl7.fhir.core by hapifhir.
the class StructureMapUtilities method resolveGroupByTypes.
private ResolvedGroup resolveGroupByTypes(StructureMap map, String ruleid, StructureMapGroupComponent source, String srcType, String tgtType) throws FHIRException {
String kn = "types^" + srcType + ":" + tgtType;
if (source.hasUserData(kn))
return (ResolvedGroup) source.getUserData(kn);
ResolvedGroup res = new ResolvedGroup();
res.targetMap = null;
res.target = null;
for (StructureMapGroupComponent grp : map.getGroup()) {
if (matchesByType(map, grp, srcType, tgtType)) {
if (res.targetMap == null) {
res.targetMap = map;
res.target = grp;
} else
throw new FHIRException("Multiple possible matches looking for rule for '" + srcType + "/" + tgtType + "', from rule '" + ruleid + "'");
}
}
if (res.targetMap != null) {
source.setUserData(kn, res);
return res;
}
for (UriType imp : map.getImport()) {
List<StructureMap> impMapList = findMatchingMaps(imp.getValue());
if (impMapList.size() == 0)
throw new FHIRException("Unable to find map(s) for " + imp.getValue());
for (StructureMap impMap : impMapList) {
if (!impMap.getUrl().equals(map.getUrl())) {
for (StructureMapGroupComponent grp : impMap.getGroup()) {
if (matchesByType(impMap, grp, srcType, tgtType)) {
if (res.targetMap == null) {
res.targetMap = impMap;
res.target = grp;
} else
throw new FHIRException("Multiple possible matches for rule for '" + srcType + "/" + tgtType + "' in " + res.targetMap.getUrl() + " and " + impMap.getUrl() + ", from rule '" + ruleid + "'");
}
}
}
}
}
if (res.target == null)
throw new FHIRException("No matches found for rule for '" + srcType + " to " + tgtType + "' from " + map.getUrl() + ", from rule '" + ruleid + "'");
source.setUserData(kn, res);
return res;
}
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