use of org.hl7.elm.r1.Slice in project beneficiary-fhir-data by CMSgov.
the class TransformerUtilsV2 method addIdentifierSlice.
/**
* Looks up or adds a contained {@link Identifier} object to the current {@link Patient}. This is
* used to store Identifier slices related to the Provider organization.
*
* @param patient The {@link Patient} to Patient.identifier details to
* @param codeable The {@link CodeableConcept} of the identifier slice
* @param value The value of the identifier. If empty, this call is a no-op
* @param systemUri optional system namespace for thee value
*/
static void addIdentifierSlice(Patient patient, CodeableConcept codeable, Optional<String> value, Optional<String> systemUri) {
if (value.isPresent()) {
Identifier id = new Identifier().setType(codeable).setValue(value.get());
if (systemUri.isPresent()) {
id.setSystem(systemUri.get());
}
patient.addIdentifier(id);
}
}
use of org.hl7.elm.r1.Slice in project beneficiary-fhir-data by CMSgov.
the class TransformerUtilsV2 method createInformationAdmPeriodSlice.
/**
* Optionally creates an `admissionperiod` {@link SupportingInformationComponent} slice.
*
* @param periodStart Period start
* @param periodEnd Period end
* @return The created {@link SupportingInformationComponent}
*/
static Optional<SupportingInformationComponent> createInformationAdmPeriodSlice(ExplanationOfBenefit eob, Optional<LocalDate> periodStart, Optional<LocalDate> periodEnd) {
// Create a range if we can
if (periodStart.isPresent() || periodEnd.isPresent()) {
validatePeriodDates(periodStart, periodEnd);
// Create the period
Period period = new Period();
periodStart.ifPresent(start -> period.setStart(convertToDate(start), TemporalPrecisionEnum.DAY));
periodEnd.ifPresent(end -> period.setEnd(convertToDate(end), TemporalPrecisionEnum.DAY));
int maxSequence = eob.getSupportingInfo().stream().mapToInt(i -> i.getSequence()).max().orElse(0);
// Create the SupportingInfo element
return Optional.of(new SupportingInformationComponent().setSequence(maxSequence + 1).setCategory(new CodeableConcept().addCoding(createC4BBSupportingInfoCoding(C4BBSupportingInfoType.ADMISSION_PERIOD))).setTiming(period));
} else {
return Optional.empty();
}
}
use of org.hl7.elm.r1.Slice in project beneficiary-fhir-data by CMSgov.
the class TransformerUtilsV2 method addInformationSliceWithCode.
static Optional<SupportingInformationComponent> addInformationSliceWithCode(ExplanationOfBenefit eob, C4BBSupportingInfoType slice, CcwCodebookInterface categoryVariable, CcwCodebookInterface codeSystemVariable, Optional<?> codeValue) {
if (codeValue.isPresent()) {
SupportingInformationComponent infoComponent = addInformationSlice(eob, slice);
CodeableConcept infoCode = new CodeableConcept().addCoding(createCoding(eob, codeSystemVariable, codeValue));
infoComponent.setCode(infoCode);
return Optional.of(infoComponent);
} else {
return Optional.empty();
}
}
use of org.hl7.elm.r1.Slice in project LivingLogic.Java.ul4 by LivingLogic.
the class Encoder method dump.
/**
* Writes the object {@code obj} to the writer in the UL4ON object serialization format.
* This is called by implementations of {@link UL4ONSerializable}, but should
* not be called from outside, as {@code writer} may not be set in this case.
*
* @param obj the object to be dumped.
* @throws IOException if writing to the stream fails
*/
public void dump(Object obj) throws IOException {
// Have we serialized this object before?
obj = internString(obj);
Integer index = object2id.get(obj);
if (index != null) {
// Yes -> output a backreference
String indexStr = index.toString();
line("^" + indexStr);
} else {
// No -> write the real object
if (obj == null)
line("n");
else if (obj instanceof Boolean)
line(((Boolean) obj).booleanValue() ? "bT" : "bF");
else if (obj instanceof Integer || obj instanceof Long || obj instanceof Byte || obj instanceof Short || obj instanceof BigInteger)
line("i" + obj.toString());
else if (obj instanceof Float || obj instanceof Double || obj instanceof BigDecimal)
line("f" + obj.toString());
else if (obj instanceof String) {
record(obj);
String dump = FunctionRepr.call((String) obj);
dump = dump.replace("<", "\\x3c");
line("S" + dump);
} else if (obj instanceof Date) {
record(obj);
Date date = (Date) obj;
line("Z", DateTime.year(date), DateTime.month(date), DateTime.day(date), DateTime.hour(date), DateTime.minute(date), DateTime.second(date), DateTime.microsecond(date));
} else if (obj instanceof LocalDate) {
record(obj);
LocalDate date = (LocalDate) obj;
line("X", date.getYear(), date.getMonthValue(), date.getDayOfMonth());
} else if (obj instanceof LocalDateTime) {
record(obj);
LocalDateTime datetime = (LocalDateTime) obj;
line("Z", datetime.getYear(), datetime.getMonthValue(), datetime.getDayOfMonth(), datetime.getHour(), datetime.getMinute(), datetime.getSecond(), datetime.getNano() / 1000);
} else if (obj instanceof TimeDelta) {
record(obj);
TimeDelta td = (TimeDelta) obj;
line("T", td.getDays(), td.getSeconds(), td.getMicroseconds());
} else if (obj instanceof MonthDelta) {
record(obj);
line("M", ((MonthDelta) obj).getMonths());
} else if (obj instanceof Color) {
record(obj);
Color color = (Color) obj;
line("C", color.getR(), color.getG(), color.getB(), color.getA());
} else if (obj instanceof Slice) {
line("r", ((Slice) obj).getStart(), ((Slice) obj).getStop());
} else if (// check this before Collection and Map
obj instanceof UL4ONSerializable) {
record(obj);
UL4ONSerializable serObj = (UL4ONSerializable) obj;
String type = serObj.getUL4ONName();
String id = serObj.getUL4ONID();
if (id != null)
line("P", internString(type), internString(id));
else
line("O", internString(type));
++level;
serObj.dumpUL4ON(this);
--level;
line(")");
} else if (obj instanceof Set) {
record(obj);
line("Y");
++level;
for (Object item : (Set<Object>) obj) {
dump(item);
}
--level;
line("}");
} else if (obj instanceof Collection) {
record(obj);
line("L");
++level;
for (Object o : (Collection) obj) dump(o);
--level;
line("]");
} else if (obj instanceof Object[]) {
record(obj);
line("L");
++level;
for (Object o : (Object[]) obj) dump(o);
--level;
line("]");
} else if (obj instanceof Map) {
record(obj);
line(obj instanceof LinkedHashMap ? "E" : "D");
++level;
for (Map.Entry entry : ((Map<Object, Object>) obj).entrySet()) {
dump(entry.getKey());
dump(entry.getValue());
}
--level;
line("}");
} else {
throw new RuntimeException("unknown type " + obj.getClass());
}
}
}
use of org.hl7.elm.r1.Slice in project kindling by HL7.
the class ProfileGenerator method defineElement.
/**
* note: snapshot implies that we are generating a resource or a data type; for other profiles, the snapshot is generated elsewhere
* @param isInterface
*/
private ElementDefinition defineElement(Profile ap, StructureDefinition p, List<ElementDefinition> elements, ElementDefn e, String path, Set<String> slices, List<SliceHandle> parentSlices, SnapShotMode snapshot, boolean root, String defType, String inheritedType, boolean defaults) throws Exception {
boolean handleDiscriminator = true;
if (!Utilities.noString(e.getProfileName()) && !e.getDiscriminator().isEmpty() && !slices.contains(path)) {
handleDiscriminator = false;
// hey, we jumped straight into the slices with setting up the slicing (allowed in the spreadsheets, but not otherwise)
ElementDefinition slicer = new ElementDefinition();
elements.add(slicer);
slicer.setId(path);
slicer.setPath(path);
processDiscriminator(e, path, slicer);
if (e.getMaxCardinality() != null)
slicer.setMax(e.getMaxCardinality() == Integer.MAX_VALUE ? "*" : e.getMaxCardinality().toString());
slices.add(path);
}
// todo for task 12259
// if (ap != null) {
// String base = isImplicitTypeConstraint(path);
// if (base != null) {
// ElementDefinition typeConstrainer = new ElementDefinition(ElementDefinition.NOT_MODIFIER, ElementDefinition.NOT_IN_SUMMARY);
// elements.add(typeConstrainer);
// typeConstrainer.setId(base);
// typeConstrainer.setPath(base);
// String type = path.substring(base.length()-3);
// if (definitions.hasPrimitiveType(Utilities.uncapitalize(type)))
// type = Utilities.uncapitalize(type);
// typeConstrainer.addType().setCode(type);
// }
// }
ElementDefinition ce = new ElementDefinition(defaults, ElementDefinition.NOT_MODIFIER, ElementDefinition.NOT_IN_SUMMARY);
elements.add(ce);
if (e.getStandardsStatus() != null)
ToolingExtensions.setStandardsStatus(ce, e.getStandardsStatus(), e.getNormativeVersion());
ce.setId(path);
ce.setPath(path);
if (e.isXmlAttribute())
ce.addRepresentation(PropertyRepresentation.XMLATTR);
List<SliceHandle> myParents = new ArrayList<ProfileGenerator.SliceHandle>();
myParents.addAll(parentSlices);
// which holds Slicing information)
if (e.hasDescriminator() || !Utilities.noString(e.getProfileName())) {
if (e.getDiscriminator().size() > 0 && !slices.contains(path) && handleDiscriminator) {
processDiscriminator(e, path, ce);
slices.add(path);
}
if (!Utilities.noString(e.getProfileName())) {
SliceHandle hnd = new SliceHandle();
// though this it not used?
hnd.name = path;
myParents.add(hnd);
if (path.contains(".")) {
// We don't want a slice name on the root
ce.setSliceName(e.getProfileName());
ce.setId(ce.getId() + ":" + e.getProfileName());
}
}
}
if (e.isTranslatable()) {
ce.addExtension(BuildExtensions.EXT_TRANSLATABLE, new BooleanType(true));
}
if (Utilities.existsInList(ce.getPath(), "Element.extension", "DomainResource.extension", "DomainResource.modifierExtension") && !ce.hasSlicing() && !ce.hasSliceName()) {
ce.getSlicing().setDescription("Extensions are always sliced by (at least) url").setRules(SlicingRules.OPEN).addDiscriminator().setType(DiscriminatorType.VALUE).setPath("url");
}
if (!Utilities.noString(inheritedType) && snapshot != SnapShotMode.None) {
ElementDefn inh = definitions.getElementDefn(inheritedType);
buildDefinitionFromElement(path, ce, inh, ap, p, inheritedType, definitions.getBaseResources().containsKey(inheritedType) && definitions.getBaseResources().get(inheritedType).isInterface());
} else if (path.contains(".") && Utilities.noString(e.typeCode()) && snapshot != SnapShotMode.None) {
addElementConstraints(defType, ce);
}
buildDefinitionFromElement(path, ce, e, ap, p, null, false);
if (!Utilities.noString(e.getStatedType())) {
ToolingExtensions.addStringExtension(ce, "http://hl7.org/fhir/StructureDefinition/structuredefinition-explicit-type-name", e.getStatedType());
}
if (e.isNoBindingAllowed()) {
ToolingExtensions.addBooleanExtension(ce, BuildExtensions.EXT_NO_BINDING, true);
}
if (!root) {
if (e.typeCode().startsWith("@")) {
ce.setContentReference("#" + getIdForPath(elements, e.typeCode().substring(1)));
} else if (Utilities.existsInList(path, "Element.id", "Extension.url") || path.endsWith(".id")) {
TypeRefComponent tr = ce.addType();
tr.getFormatCommentsPre().add("Note: special primitive values have a FHIRPath system type. e.g. this is compiler magic (j)");
tr.setCode(Constants.NS_SYSTEM_TYPE + "String");
if (path.equals("Extension.url")) {
ToolingExtensions.addUriExtension(tr, ToolingExtensions.EXT_FHIR_TYPE, "uri");
} else if (p.getKind() == StructureDefinitionKind.RESOURCE) {
ToolingExtensions.addUriExtension(tr, ToolingExtensions.EXT_FHIR_TYPE, "id");
} else {
ToolingExtensions.addUriExtension(tr, ToolingExtensions.EXT_FHIR_TYPE, "string");
}
} else {
List<TypeRef> expandedTypes = new ArrayList<TypeRef>();
for (TypeRef t : e.getTypes()) {
// Expand any Resource(A|B|C) references
if (t.hasParams() && !Utilities.existsInList(t.getName(), "Reference", "canonical", "CodeableReference")) {
throw new Exception("Only resource types can specify parameters. Path " + path + " in profile " + p.getName());
}
if (t.getParams().size() > 1) {
if (t.getProfile() != null && t.getParams().size() != 1) {
throw new Exception("Cannot declare profile on a resource reference declaring multiple resource types. Path " + path + " in profile " + p.getName());
}
for (String param : t.getParams()) {
if (definitions.hasLogicalModel(param)) {
for (String pn : definitions.getLogicalModel(param).getImplementations()) {
TypeRef childType = new TypeRef(t.getName());
childType.getParams().add(pn);
childType.getAggregations().addAll(t.getAggregations());
expandedTypes.add(childType);
}
} else {
TypeRef childType = new TypeRef(t.getName());
childType.getParams().add(param);
childType.getAggregations().addAll(t.getAggregations());
expandedTypes.add(childType);
}
}
} else if (t.isWildcardType()) {
// this list is filled out manually because it may be running before the types referred to have been loaded
for (String n : TypesUtilities.wildcardTypes(version.toString())) expandedTypes.add(new TypeRef(n));
} else if (!t.getName().startsWith("=")) {
if (definitions.isLoaded() && (!definitions.hasResource(t.getName()) && !definitions.hasType(t.getName()) && !definitions.hasElementDefn(t.getName()) && !definitions.getBaseResources().containsKey(t.getName()) && !t.getName().equals("xhtml"))) {
throw new Exception("Bad Type '" + t.getName() + "' at " + path + " in profile " + p.getUrl());
}
expandedTypes.add(t);
}
}
if (expandedTypes.isEmpty()) {
if (defType != null)
ce.addType().setCode(defType);
} else
for (TypeRef t : expandedTypes) {
String profile = null;
String tc = null;
if (definitions.getConstraints().containsKey(t.getName())) {
ProfiledType pt = definitions.getConstraints().get(t.getName());
tc = pt.getBaseType();
profile = "http://hl7.org/fhir/StructureDefinition/" + pt.getName();
} else {
tc = t.getName();
profile = t.getProfile();
}
TypeRefComponent type = ce.getType(tc);
if (profile == null && t.hasParams()) {
profile = t.getParams().get(0);
}
if (t.getPatterns() != null) {
for (String s : t.getPatterns()) {
type.addExtension("http://hl7.org/fhir/StructureDefinition/elementdefinition-pattern", new CanonicalType("http://hl7.org/fhir/StructureDefinition/" + s));
}
}
if (profile != null) {
if (type.getWorkingCode().equals("Extension")) {
// check that the extension is being used correctly:
StructureDefinition ext = context.getExtensionStructure(null, profile);
if (ext == null) {
throw new Exception("Unable to resolve extension definition: " + profile);
}
boolean srcMod = ext.getSnapshot().getElement().get(0).getIsModifier();
boolean tgtMod = e.isModifier();
if (srcMod && !tgtMod)
throw new Exception("The extension '" + profile + "' is a modifier extension, but is being used as if it is not a modifier extension");
if (!srcMod && tgtMod)
throw new Exception("The extension '" + profile + "' is not a modifier extension, but is being used as if it is a modifier extension");
}
List<String> pr = new ArrayList<>();
if (profile.startsWith("http:") || profile.startsWith("#")) {
pr.add(profile);
} else if (definitions.hasLogicalModel(profile)) {
for (String pn : definitions.getLogicalModel(profile).getImplementations()) pr.add("http://hl7.org/fhir/StructureDefinition/" + pn);
} else
pr.add("http://hl7.org/fhir/StructureDefinition/" + (profile.equals("Any") ? "Resource" : profile));
if (type.getWorkingCode().equals("Reference") || type.getWorkingCode().equals("canonical") || type.getWorkingCode().equals("CodeableReference")) {
for (String pn : pr) {
type.addTargetProfile(pn);
if (e.hasHierarchy())
ToolingExtensions.addBooleanExtension(type, ToolingExtensions.EXT_HIERARCHY, e.getHierarchy());
}
} else
for (String pn : pr) {
type.addProfile(pn);
}
}
for (String aggregation : t.getAggregations()) {
type.addAggregation(AggregationMode.fromCode(aggregation));
}
}
}
}
String w5 = translateW5(e.getW5());
if (w5 != null)
addMapping(p, ce, "http://hl7.org/fhir/fivews", w5, ap);
if (e.isTranslatable())
ce.addExtension("http://hl7.org/fhir/StructureDefinition/elementdefinition-translatable", new BooleanType(true));
if (!Utilities.noString(e.getOrderMeaning()))
ce.setOrderMeaning(e.getOrderMeaning());
if (e.hasBinding()) {
ce.setBinding(generateBinding(e.getBinding()));
}
if (snapshot != SnapShotMode.None && !e.getElements().isEmpty()) {
// makeExtensionSlice("extension", p, c, e, path);
// if (snapshot == SnapShotMode.Resource) {
// makeExtensionSlice("modifierExtension", p, c, e, path);
// if (!path.contains(".")) {
// c.getElement().add(createBaseDefinition(p, path, definitions.getBaseResources().get("Resource").getRoot().getElementByName("language")));
// c.getElement().add(createBaseDefinition(p, path, definitions.getBaseResources().get("DomainResource").getRoot().getElementByName("text")));
// c.getElement().add(createBaseDefinition(p, path, definitions.getBaseResources().get("DomainResource").getRoot().getElementByName("contained")));
// }
// }
}
if (defaults)
ce.makeBase();
Set<String> containedSlices = new HashSet<String>();
if (snapshot != SnapShotMode.None) {
if (!root && Utilities.noString(e.typeCode())) {
if (snapshot == SnapShotMode.Resource)
defineAncestorElements("BackboneElement", path, snapshot, containedSlices, p, elements, defType, defaults);
else
defineAncestorElements("Element", path, snapshot, containedSlices, p, elements, defType, defaults);
} else if (root && !Utilities.noString(e.typeCode()))
defineAncestorElements(e.typeCode(), path, snapshot, containedSlices, p, elements, defType, defaults);
}
for (ElementDefn child : e.getElements()) defineElement(ap, p, elements, child, path + "." + child.getName(), containedSlices, myParents, snapshot, false, defType, null, defaults);
return ce;
}
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