use of org.hl7.fhir.r4.model.Encounter.EncounterStatus.UNKNOWN in project beneficiary-fhir-data by CMSgov.
the class BeneficiaryTransformerV2 method transform.
/**
* @param beneficiary the CCW {@link Beneficiary} to transform
* @param requestHeader {@link RequestHeaders} the holder that contains all supported resource
* request headers
* @return a FHIR {@link Patient} resource that represents the specified {@link Beneficiary}
*/
private static Patient transform(Beneficiary beneficiary, RequestHeaders requestHeader) {
Objects.requireNonNull(beneficiary);
Patient patient = new Patient();
/*
* Notify end users when they receive Patient records impacted by
* https://jira.cms.gov/browse/BFD-1566. See the documentation on
* LoadAppOptions.isFilteringNonNullAndNon2022Benes() for details.
*/
if (!beneficiary.getSkippedRifRecords().isEmpty()) {
patient.getMeta().addTag(TransformerConstants.CODING_SYSTEM_BFD_TAGS, TransformerConstants.CODING_BFD_TAGS_DELAYED_BACKDATED_ENROLLMENT, TransformerConstants.CODING_BFD_TAGS_DELAYED_BACKDATED_ENROLLMENT_DISPLAY);
}
// Required values not directly mapped
patient.getMeta().addProfile(ProfileConstants.C4BB_PATIENT_URL);
patient.setId(beneficiary.getBeneficiaryId());
// BENE_ID => patient.identifier
TransformerUtilsV2.addIdentifierSlice(patient, TransformerUtilsV2.createCodeableConcept(TransformerConstants.CODING_SYSTEM_HL7_IDENTIFIER_TYPE, null, TransformerConstants.PATIENT_MB_ID_DISPLAY, "MB"), Optional.of(beneficiary.getBeneficiaryId()), Optional.of(TransformerConstants.CODING_BBAPI_BENE_ID));
// Unhashed MBI
if (beneficiary.getMedicareBeneficiaryId().isPresent()) {
Period mbiPeriod = new Period();
if (beneficiary.getMbiEffectiveDate().isPresent()) {
TransformerUtilsV2.setPeriodStart(mbiPeriod, beneficiary.getMbiEffectiveDate().get());
}
if (beneficiary.getMbiObsoleteDate().isPresent()) {
TransformerUtilsV2.setPeriodEnd(mbiPeriod, beneficiary.getMbiObsoleteDate().get());
}
addUnhashedIdentifier(patient, beneficiary.getMedicareBeneficiaryId().get(), TransformerConstants.CODING_BBAPI_MEDICARE_BENEFICIARY_ID_UNHASHED, TransformerUtilsV2.createIdentifierCurrencyExtension(CurrencyIdentifier.CURRENT), mbiPeriod);
}
// Add lastUpdated
TransformerUtilsV2.setLastUpdated(patient, beneficiary.getLastUpdated());
/**
* The following logic attempts to distill {@link MedicareBeneficiaryIdHistory} data into only
* those records which have an endDate present. This is due to the fact that it includes the
* CURRENT MBI record which was handle previously. Also, the {@link
* MedicareBeneficiaryIdHistory} table appears to contain spurious records with the only
* difference is the generated surrogate key identifier.
*/
if (requestHeader.isMBIinIncludeIdentifiers()) {
HashMap<LocalDate, MedicareBeneficiaryIdHistory> mbiHistMap = new HashMap<LocalDate, MedicareBeneficiaryIdHistory>();
for (MedicareBeneficiaryIdHistory mbiHistory : beneficiary.getMedicareBeneficiaryIdHistories()) {
// and will have been previously provided as the CURRENT rcd.
if (mbiHistory.getMbiEndDate().isPresent()) {
mbiHistMap.put(mbiHistory.getMbiEndDate().get(), mbiHistory);
}
// would come in ascending order, so any rcd would have a later
// update date than prev rcd.
TransformerUtilsV2.updateMaxLastUpdated(patient, mbiHistory.getLastUpdated());
}
if (mbiHistMap.size() > 0) {
Extension historicalIdentifier = TransformerUtilsV2.createIdentifierCurrencyExtension(CurrencyIdentifier.HISTORIC);
for (MedicareBeneficiaryIdHistory mbi : mbiHistMap.values()) {
addUnhashedIdentifier(patient, mbi.getMedicareBeneficiaryId().get(), TransformerConstants.CODING_BBAPI_MEDICARE_BENEFICIARY_ID_UNHASHED, historicalIdentifier, null);
}
}
}
// support header includeAddressFields from downstream components e.g. BB2
// per requirement of BFD-379, BB2 always send header includeAddressFields = False
Boolean addrHdrVal = requestHeader.getValue(R4PatientResourceProvider.HEADER_NAME_INCLUDE_ADDRESS_FIELDS);
if (addrHdrVal != null && addrHdrVal) {
patient.addAddress().setState(beneficiary.getStateCode()).setPostalCode(beneficiary.getPostalCode()).setCity(beneficiary.getDerivedCityName().orElse(null)).addLine(beneficiary.getDerivedMailingAddress1().orElse(null)).addLine(beneficiary.getDerivedMailingAddress2().orElse(null)).addLine(beneficiary.getDerivedMailingAddress3().orElse(null)).addLine(beneficiary.getDerivedMailingAddress4().orElse(null)).addLine(beneficiary.getDerivedMailingAddress5().orElse(null)).addLine(beneficiary.getDerivedMailingAddress6().orElse(null));
} else {
patient.addAddress().setState(beneficiary.getStateCode()).setPostalCode(beneficiary.getPostalCode());
}
if (beneficiary.getBirthDate() != null) {
patient.setBirthDate(TransformerUtilsV2.convertToDate(beneficiary.getBirthDate()));
}
// "Patient.deceased[x]": ["boolean", "dateTime"],
if (beneficiary.getBeneficiaryDateOfDeath().isPresent()) {
patient.setDeceased(new DateTimeType(TransformerUtilsV2.convertToDate(beneficiary.getBeneficiaryDateOfDeath().get()), TemporalPrecisionEnum.DAY));
} else {
patient.setDeceased(new BooleanType(false));
}
char sex = beneficiary.getSex();
if (sex == Sex.MALE.getCode())
patient.setGender((AdministrativeGender.MALE));
else if (sex == Sex.FEMALE.getCode())
patient.setGender((AdministrativeGender.FEMALE));
else
patient.setGender((AdministrativeGender.UNKNOWN));
if (beneficiary.getRace().isPresent()) {
patient.addExtension(TransformerUtilsV2.createExtensionCoding(patient, CcwCodebookVariable.RACE, beneficiary.getRace().get()));
// for race category, v2 will just treat all race codes as Unknown (UNK);
// thus we'll simply pass in the Unknown race code .
RaceCategory raceCategory = TransformerUtilsV2.getRaceCategory('0');
Extension raceChildOMBExt1 = new Extension().setValue(new Coding().setCode(raceCategory.toCode()).setSystem(raceCategory.getSystem()).setDisplay(raceCategory.getDisplay())).setUrl("ombCategory");
Extension raceChildOMBExt2 = new Extension().setValue(new StringType().setValue(raceCategory.getDisplay())).setUrl("text");
Extension parentOMBRace = new Extension().setUrl(TransformerConstants.CODING_RACE_US);
parentOMBRace.addExtension(raceChildOMBExt1);
parentOMBRace.addExtension(raceChildOMBExt2);
patient.addExtension(parentOMBRace);
}
HumanName name = patient.addName().addGiven(beneficiary.getNameGiven()).setFamily(beneficiary.getNameSurname()).setUse(HumanName.NameUse.USUAL);
if (beneficiary.getNameMiddleInitial().isPresent()) {
name.addGiven(String.valueOf(beneficiary.getNameMiddleInitial().get()));
}
// The reference year of the enrollment data
if (beneficiary.getBeneEnrollmentReferenceYear().isPresent()) {
patient.addExtension(TransformerUtilsV2.createExtensionDate(CcwCodebookVariable.RFRNC_YR, beneficiary.getBeneEnrollmentReferenceYear()));
}
// Monthly Medicare-Medicaid dual eligibility codes
if (beneficiary.getMedicaidDualEligibilityJanCode().isPresent()) {
patient.addExtension(TransformerUtilsV2.createExtensionCoding(patient, CcwCodebookVariable.DUAL_01, beneficiary.getMedicaidDualEligibilityJanCode()));
}
if (beneficiary.getMedicaidDualEligibilityFebCode().isPresent()) {
patient.addExtension(TransformerUtilsV2.createExtensionCoding(patient, CcwCodebookVariable.DUAL_02, beneficiary.getMedicaidDualEligibilityFebCode()));
}
if (beneficiary.getMedicaidDualEligibilityMarCode().isPresent()) {
patient.addExtension(TransformerUtilsV2.createExtensionCoding(patient, CcwCodebookVariable.DUAL_03, beneficiary.getMedicaidDualEligibilityMarCode()));
}
if (beneficiary.getMedicaidDualEligibilityAprCode().isPresent()) {
patient.addExtension(TransformerUtilsV2.createExtensionCoding(patient, CcwCodebookVariable.DUAL_04, beneficiary.getMedicaidDualEligibilityAprCode()));
}
if (beneficiary.getMedicaidDualEligibilityMayCode().isPresent()) {
patient.addExtension(TransformerUtilsV2.createExtensionCoding(patient, CcwCodebookVariable.DUAL_05, beneficiary.getMedicaidDualEligibilityMayCode()));
}
if (beneficiary.getMedicaidDualEligibilityJunCode().isPresent()) {
patient.addExtension(TransformerUtilsV2.createExtensionCoding(patient, CcwCodebookVariable.DUAL_06, beneficiary.getMedicaidDualEligibilityJunCode()));
}
if (beneficiary.getMedicaidDualEligibilityJulCode().isPresent()) {
patient.addExtension(TransformerUtilsV2.createExtensionCoding(patient, CcwCodebookVariable.DUAL_07, beneficiary.getMedicaidDualEligibilityJulCode()));
}
if (beneficiary.getMedicaidDualEligibilityAugCode().isPresent()) {
patient.addExtension(TransformerUtilsV2.createExtensionCoding(patient, CcwCodebookVariable.DUAL_08, beneficiary.getMedicaidDualEligibilityAugCode()));
}
if (beneficiary.getMedicaidDualEligibilitySeptCode().isPresent()) {
patient.addExtension(TransformerUtilsV2.createExtensionCoding(patient, CcwCodebookVariable.DUAL_09, beneficiary.getMedicaidDualEligibilitySeptCode()));
}
if (beneficiary.getMedicaidDualEligibilityOctCode().isPresent()) {
patient.addExtension(TransformerUtilsV2.createExtensionCoding(patient, CcwCodebookVariable.DUAL_10, beneficiary.getMedicaidDualEligibilityOctCode()));
}
if (beneficiary.getMedicaidDualEligibilityNovCode().isPresent()) {
patient.addExtension(TransformerUtilsV2.createExtensionCoding(patient, CcwCodebookVariable.DUAL_11, beneficiary.getMedicaidDualEligibilityNovCode()));
}
if (beneficiary.getMedicaidDualEligibilityDecCode().isPresent()) {
patient.addExtension(TransformerUtilsV2.createExtensionCoding(patient, CcwCodebookVariable.DUAL_12, beneficiary.getMedicaidDualEligibilityDecCode()));
}
// Last Updated => Patient.meta.lastUpdated
TransformerUtilsV2.setLastUpdated(patient, beneficiary.getLastUpdated());
return patient;
}
use of org.hl7.fhir.r4.model.Encounter.EncounterStatus.UNKNOWN in project kindling by HL7.
the class PageProcessor method profileDictionaryLink.
private String profileDictionaryLink(ConstraintStructure profile) {
String uri = ToolingExtensions.readStringExtension(profile.getResource(), "http://hl7.org/fhir/StructureDefinition/datadictionary");
if (Utilities.noString(uri))
return "<!-- no uri -->";
Dictionary dict = definitions.getDictionaries().get(uri);
if (dict == null)
return "<p>This profile specifies that the value of the " + profile.getResource().getSnapshot().getElement().get(0).getPath() + " resource must be a valid Observation as defined in the data dictionary (Unknown? - " + uri + ").</p>";
else
return "<p>This profile specifies that the value of the " + profile.getResource().getSnapshot().getElement().get(0).getPath() + " resource must be a valid Observation as defined in the data dictionary <a href=\"" + uri + ".html\">" + dict.getName() + "</a>.</p>";
}
use of org.hl7.fhir.r4.model.Encounter.EncounterStatus.UNKNOWN in project kindling by HL7.
the class CDAGenerator method checkType.
private void checkType(TypeRefComponent t) {
String id = t.getWorkingCode();
if (Utilities.existsInList(id, "string", "Element", "code", "boolean", "Resource"))
return;
for (StructureDefinition sd : structures) {
if (sd.getId().equals(fix(id)))
return;
}
if (id.equals("http://hl7.org/fhir/cda/StructureDefinition/PN") || id.equals("http://hl7.org/fhir/cda/StructureDefinition/ON"))
t.setCode("http://hl7.org/fhir/cda/StructureDefinition/EN");
else if (id.equals("NARRATIVE"))
t.setCode("xhtml");
else
System.out.println("Unknown data type " + id);
}
use of org.hl7.fhir.r4.model.Encounter.EncounterStatus.UNKNOWN in project kindling by HL7.
the class TypeParser method convert.
public List<TypeRefComponent> convert(IWorkerContext context, String path, List<TypeRef> types, boolean resource, ElementDefinition ed) throws Exception {
List<TypeRefComponent> list = new ArrayList<TypeRefComponent>();
for (TypeRef t : types) {
// Expand any Resource(A|B|C) references
if (t.hasParams() && !("Reference".equals(t.getName()) || "canonical".equals(t.getName()))) {
throw new Exception("Only resource references can specify parameters. Path " + path);
}
if (t.getParams().size() > 0) {
if (t.getProfile() != null && t.getParams().size() != 1) {
throw new Exception("Cannot declare profile on a resource reference declaring multiple resource types. Path " + path);
}
if (t.getProfile() != null) {
TypeRefComponent childType = getTypeComponent(list, t.getName());
if (t.getVersioning() != null)
childType.setVersioning(t.getVersioning());
if (t.getName().equals("Reference") || t.getName().equals("canonical"))
childType.addTargetProfile(t.getProfile());
else
childType.addProfile(t.getProfile());
} else
for (String param : t.getParams()) {
TypeRefComponent childType = getTypeComponent(list, t.getName());
if (t.getVersioning() != null)
childType.setVersioning(t.getVersioning());
String p = "Any".equals(param) ? "Resource" : param;
if (t.getName().equals("Reference") || t.getName().equals("canonical"))
childType.addTargetProfile("http://hl7.org/fhir/StructureDefinition/" + p);
else
childType.addProfile("http://hl7.org/fhir/StructureDefinition/" + p);
}
} 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)) {
TypeRefComponent tc = new TypeRefComponent().setCode(n);
if (t.getVersioning() != null)
tc.setVersioning(t.getVersioning());
list.add(tc);
}
} else if (Utilities.noString(t.getName()) && t.getProfile() != null) {
StructureDefinition sd = context.fetchResource(StructureDefinition.class, t.getProfile());
TypeRefComponent tc = getTypeComponent(list, sd != null ? sd.getType() : t.getName());
if (t.getVersioning() != null)
tc.setVersioning(t.getVersioning());
if (t.getName().equals("Reference"))
tc.addTargetProfile(t.getProfile());
else
tc.addProfile(t.getProfile());
} else if (t.getName().startsWith("=")) {
if (resource)
list.add(new TypeRefComponent().setCode("BackboneElement"));
else
list.add(new TypeRefComponent().setCode("Element"));
ToolingExtensions.addStringExtension(ed, "http://hl7.org/fhir/StructureDefinition/structuredefinition-explicit-type-name", t.getName().substring(1));
} else {
StructureDefinition sd = context.fetchTypeDefinition(t.getName());
if (sd == null)
throw new Exception("Unknown type '" + t.getName() + "'");
TypeRefComponent tc = getTypeComponent(list, sd.getType());
if (t.getVersioning() != null)
tc.setVersioning(t.getVersioning());
if (t.getName().equals("Reference")) {
if (t.hasProfile())
tc.addTargetProfile(t.getProfile());
} else if (t.hasProfile())
tc.addProfile(t.getProfile());
}
}
// no duplicates
for (TypeRefComponent tr1 : list) {
for (TypeRefComponent tr2 : list) {
if (tr1 != tr2) {
if (tr1.getWorkingCode().equals(tr2.getWorkingCode()))
throw new Exception("duplicate code " + tr1.getWorkingCode());
}
}
}
return list;
}
use of org.hl7.fhir.r4.model.Encounter.EncounterStatus.UNKNOWN in project kindling by HL7.
the class OldSpreadsheetParser method readOperations.
private void readOperations(List<Operation> oplist, Sheet sheet) throws Exception {
Map<String, Operation> ops = new HashMap<String, Operation>();
Map<String, OperationParameter> params = new HashMap<String, OperationParameter>();
if (sheet != null) {
for (int row = 0; row < sheet.rows.size(); row++) {
String name = sheet.getColumn(row, "Name");
String use = sheet.getColumn(row, "Use");
String doco = sheet.getColumn(row, "Documentation");
String type = sheet.getColumn(row, "Type");
List<OperationExample> examples = loadOperationExamples(sheet.getColumn(row, "Example.Request"), sheet.getColumn(row, "Example.Response"));
List<OperationExample> examples2 = loadOperationExamples(sheet.getColumn(row, "Example2.Request"), sheet.getColumn(row, "Example2.Response"));
if (name != null && !name.equals("") && !name.startsWith("!")) {
if (!name.contains(".")) {
if (!type.equals("operation"))
throw new Exception("Invalid type on operation " + type + " at " + getLocation(row));
if (!name.toLowerCase().equals(name))
throw new Exception("Invalid name on operation " + name + " - must be all lower case (use dashes) at " + getLocation(row));
params.clear();
boolean system = false;
boolean istype = false;
boolean instance = false;
for (String c : use.split("\\|")) {
c = c.trim();
if ("system".equalsIgnoreCase(c))
system = true;
else if ("resource".equalsIgnoreCase(c))
istype = true;
else if ("instance".equalsIgnoreCase(c))
instance = true;
else
throw new Exception("unknown operation use code " + c + " at " + getLocation(row));
}
Operation op = new Operation(name, system, istype, instance, sheet.getColumn(row, "Type"), sheet.getColumn(row, "Title"), doco, sheet.getColumn(row, "Footer"), examples, parseBoolean(sheet.getColumn(row, "Idempotent"), row, false));
op.setStandardsStatus(StandardsStatus.fromCode(sheet.getColumn(row, "Standards-Status")));
op.setNormativeVersion(sheet.getColumn(row, "Normative-Version"));
op.setFooter2(sheet.getColumn(row, "Footer2"));
op.setFmm(sheet.getColumn(row, "fmm"));
op.getExamples2().addAll(examples2);
oplist.add(op);
ops.put(name, op);
} else {
String context = name.substring(0, name.lastIndexOf('.'));
String pname = name.substring(name.lastIndexOf('.') + 1);
Operation operation;
List<OperationParameter> plist;
if (context.contains(".")) {
String opname = name.substring(0, name.indexOf('.'));
// inside of a tuple
if (!Utilities.noString(use))
throw new Exception("Tuple parameters: use must be blank at " + getLocation(row));
operation = ops.get(opname);
if (operation == null)
throw new Exception("Unknown Operation '" + opname + "' at " + getLocation(row));
OperationParameter param = params.get(context);
if (param == null)
throw new Exception("Tuple parameter '" + context + "' not found at " + getLocation(row));
if (!param.getFhirType().equals("Tuple"))
throw new Exception("Tuple parameter '" + context + "' type must be Tuple at " + getLocation(row));
plist = param.getParts();
} else {
if (!use.equals("in") && !use.equals("out"))
throw new Exception("Only allowed use is 'in' or 'out' at " + getLocation(row));
operation = ops.get(context);
if (operation == null)
throw new Exception("Unknown Operation '" + context + "' at " + getLocation(row));
plist = operation.getParameters();
}
String profile = sheet.getColumn(row, "Profile");
String min = sheet.getColumn(row, "Min");
String max = sheet.getColumn(row, "Max");
OperationParameter p = new OperationParameter(pname, use, doco, Integer.parseInt(min), max, type, sheet.getColumn(row, "Search Type"), profile);
String bs = sheet.getColumn(row, "Binding");
if (!Utilities.noString(bs))
p.setBs(bindings.get(bs));
plist.add(p);
params.put(name, p);
}
}
}
}
}
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