use of org.hl7.fhir.r4.elementmodel.Property 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 = "-" + Integer.toString(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.profileProperty = new Property(worker, ed, profile);
return prop;
}
use of org.hl7.fhir.r4.elementmodel.Property in project org.hl7.fhir.core by hapifhir.
the class StructureMapUtilities method analyseSource.
private VariablesForProfiling analyseSource(String ruleId, TransformContext context, VariablesForProfiling vars, StructureMapGroupRuleSourceComponent src, XhtmlNode td) throws FHIRException {
VariableForProfiling var = vars.get(VariableMode.INPUT, src.getContext());
if (var == null)
throw new FHIRException("Rule \"" + ruleId + "\": Unknown input variable " + src.getContext());
PropertyWithType prop = var.getProperty();
boolean optional = false;
boolean repeating = false;
if (src.hasCondition()) {
optional = true;
}
if (src.hasElement()) {
Property element = prop.getBaseProperty().getChild(prop.types.getType(), src.getElement());
if (element == null)
throw new FHIRException("Rule \"" + ruleId + "\": Unknown element name " + src.getElement());
if (element.getDefinition().getMin() == 0)
optional = true;
if (element.getDefinition().getMax().equals("*"))
repeating = true;
VariablesForProfiling result = vars.copy(optional, repeating);
TypeDetails type = new TypeDetails(CollectionStatus.SINGLETON);
for (TypeRefComponent tr : element.getDefinition().getType()) {
if (!tr.hasCode())
throw new Error("Rule \"" + ruleId + "\": Element has no type");
ProfiledType pt = new ProfiledType(tr.getWorkingCode());
if (tr.hasProfile())
pt.addProfiles(tr.getProfile());
if (element.getDefinition().hasBinding())
pt.addBinding(element.getDefinition().getBinding());
type.addType(pt);
}
td.addText(prop.getPath() + "." + src.getElement());
if (src.hasVariable())
result.add(VariableMode.INPUT, src.getVariable(), new PropertyWithType(prop.getPath() + "." + src.getElement(), element, null, type));
return result;
} else {
// ditto!
td.addText(prop.getPath());
return vars.copy(optional, repeating);
}
}
use of org.hl7.fhir.r4.elementmodel.Property 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, Type 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.property.types);
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().profileProperty.getStructure();
ElementDefinition ednew = sd.getDifferential().addElement();
ednew.setPath(var.getProperty().profileProperty.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.property.path + "." + element, pc, new Property(worker, ednew, sd), type);
}
}
use of org.hl7.fhir.r4.elementmodel.Property in project org.hl7.fhir.core by hapifhir.
the class SHCParser method parse.
public List<NamedElement> parse(InputStream stream) throws IOException, FHIRFormatError, DefinitionException, FHIRException {
List<NamedElement> res = new ArrayList<>();
String src = TextFile.streamToString(stream).trim();
List<String> list = new ArrayList<>();
String pfx = null;
if (src.startsWith("{")) {
JsonObject json = JsonTrackingParser.parseJson(src);
if (checkProperty(json, "$", "verifiableCredential", true, "Array")) {
pfx = "verifiableCredential";
JsonArray arr = json.getAsJsonArray("verifiableCredential");
int i = 0;
for (JsonElement e : arr) {
if (!(e instanceof JsonPrimitive)) {
logError(line(e), col(e), "$.verifiableCredential[" + i + "]", IssueType.STRUCTURE, "Wrong Property verifiableCredential in JSON Payload. Expected : String but found " + JSONUtil.type(e), IssueSeverity.ERROR);
} else {
list.add(e.getAsString());
}
i++;
}
} else {
return res;
}
} else {
list.add(src);
}
int c = 0;
for (String ssrc : list) {
String prefix = pfx == null ? "" : pfx + "[" + Integer.toString(c) + "].";
c++;
JWT jwt = null;
try {
jwt = decodeJWT(ssrc);
} catch (Exception e) {
logError(1, 1, prefix + "JWT", IssueType.INVALID, "Unable to decode JWT token", IssueSeverity.ERROR);
return res;
}
map = jwt.map;
checkNamedProperties(jwt.getPayload(), prefix + "payload", "iss", "nbf", "vc");
checkProperty(jwt.getPayload(), prefix + "payload", "iss", true, "String");
logError(1, 1, prefix + "JWT", IssueType.INFORMATIONAL, "The FHIR Validator does not check the JWT signature " + "(see https://demo-portals.smarthealth.cards/VerifierPortal.html or https://github.com/smart-on-fhir/health-cards-dev-tools) (Issuer = '" + jwt.getPayload().get("iss").getAsString() + "')", IssueSeverity.INFORMATION);
checkProperty(jwt.getPayload(), prefix + "payload", "nbf", true, "Number");
JsonObject vc = jwt.getPayload().getAsJsonObject("vc");
if (vc == null) {
logError(1, 1, "JWT", IssueType.STRUCTURE, "Unable to find property 'vc' in the payload", IssueSeverity.ERROR);
return res;
}
String path = prefix + "payload.vc";
checkNamedProperties(vc, path, "type", "credentialSubject");
if (!checkProperty(vc, path, "type", true, "Array")) {
return res;
}
JsonArray type = vc.getAsJsonArray("type");
int i = 0;
for (JsonElement e : type) {
if (!(e instanceof JsonPrimitive)) {
logError(line(e), col(e), path + ".type[" + i + "]", IssueType.STRUCTURE, "Wrong Property Type in JSON Payload. Expected : String but found " + JSONUtil.type(e), IssueSeverity.ERROR);
} else {
types.add(e.getAsString());
}
i++;
}
if (!types.contains("https://smarthealth.cards#health-card")) {
logError(line(vc), col(vc), path, IssueType.STRUCTURE, "Card does not claim to be of type https://smarthealth.cards#health-card, cannot validate", IssueSeverity.ERROR);
return res;
}
if (!checkProperty(vc, path, "credentialSubject", true, "Object")) {
return res;
}
JsonObject cs = vc.getAsJsonObject("credentialSubject");
path = path + ".credentialSubject";
if (!checkProperty(cs, path, "fhirVersion", true, "String")) {
return res;
}
JsonElement fv = cs.get("fhirVersion");
if (!VersionUtilities.versionsCompatible(context.getVersion(), fv.getAsString())) {
logError(line(fv), col(fv), path + ".fhirVersion", IssueType.STRUCTURE, "Card claims to be of version " + fv.getAsString() + ", cannot be validated against version " + context.getVersion(), IssueSeverity.ERROR);
return res;
}
if (!checkProperty(cs, path, "fhirBundle", true, "Object")) {
return res;
}
// ok. all checks passed, we can now validate the bundle
Element e = jsonParser.parse(cs.getAsJsonObject("fhirBundle"), map);
if (e != null) {
res.add(new NamedElement(path, e));
}
}
return res;
}
use of org.hl7.fhir.r4.elementmodel.Property in project org.hl7.fhir.core by hapifhir.
the class TurtleParser method parseChildren.
private void parseChildren(Turtle src, String path, TTLComplex object, Element element, boolean primitive) throws FHIRException {
List<Property> properties = element.getProperty().getChildProperties(element.getName(), null);
Set<String> processed = new HashSet<String>();
if (primitive)
processed.add(FHIR_URI_BASE + "value");
// first pass: process the properties
for (Property property : properties) {
if (property.isChoice()) {
for (TypeRefComponent type : property.getDefinition().getType()) {
String eName = property.getName().substring(0, property.getName().length() - 3) + Utilities.capitalize(type.getCode());
parseChild(src, object, element, processed, property, path, getFormalName(property, eName));
}
} else {
parseChild(src, object, element, processed, property, path, getFormalName(property));
}
}
// second pass: check for things not processed
if (policy != ValidationPolicy.NONE) {
for (String u : object.getPredicates().keySet()) {
if (!processed.contains(u)) {
TTLObject n = object.getPredicates().get(u);
logError(n.getLine(), n.getCol(), path, IssueType.STRUCTURE, context.formatMessage(I18nConstants.UNRECOGNISED_PREDICATE_, u), IssueSeverity.ERROR);
}
}
}
}
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