use of org.hl7.fhir.r4b.model.Annotation in project beneficiary-fhir-data by CMSgov.
the class R4CoverageResourceProvider method searchByBeneficiary.
/**
* Adds support for the FHIR "search" operation for {@link Coverage}s, allowing users to search by
* {@link Coverage#getBeneficiary()}.
*
* <p>The {@link Search} annotation indicates that this method supports the search operation.
* There may be many different methods annotated with this {@link Search} annotation, to support
* many different search criteria.
*
* @param beneficiary a {@link ReferenceParam} for the {@link Coverage#getBeneficiary()} to try
* and find matches for
* @param startIndex an {@link OptionalParam} for the startIndex (or offset) used to determine
* pagination
* @param lastUpdated an {@link OptionalParam} to filter the results based on the passed date
* range
* @param requestDetails a {@link RequestDetails} containing the details of the request URL, used
* to parse out pagination values
* @return Returns a {@link List} of {@link Coverage}s, which may contain multiple matching
* resources, or may also be empty.
*/
@Search
@Trace
public Bundle searchByBeneficiary(@RequiredParam(name = Coverage.SP_BENEFICIARY) @Description(shortDefinition = "The patient identifier to search for") ReferenceParam beneficiary, @OptionalParam(name = "startIndex") @Description(shortDefinition = "The offset used for result pagination") String startIndex, @OptionalParam(name = "_lastUpdated") @Description(shortDefinition = "Include resources last updated in the given range") DateRangeParam lastUpdated, RequestDetails requestDetails) {
List<IBaseResource> coverages;
try {
Beneficiary beneficiaryEntity = findBeneficiaryById(beneficiary.getIdPart(), lastUpdated);
if (!beneficiaryEntity.getBeneEnrollmentReferenceYear().isPresent()) {
throw new ResourceNotFoundException("Cannot find coverage for non present enrollment year");
}
coverages = CoverageTransformerV2.transform(metricRegistry, beneficiaryEntity);
} catch (NoResultException e) {
coverages = new LinkedList<IBaseResource>();
}
OffsetLinkBuilder paging = new OffsetLinkBuilder(requestDetails, "/Coverage?");
Operation operation = new Operation(Operation.Endpoint.V2_COVERAGE);
operation.setOption("by", "beneficiary");
operation.setOption("pageSize", paging.isPagingRequested() ? "" + paging.getPageSize() : "*");
operation.setOption("_lastUpdated", Boolean.toString(lastUpdated != null && !lastUpdated.isEmpty()));
operation.publishOperationName();
// Add bene_id to MDC logs
TransformerUtilsV2.logBeneIdToMdc(Arrays.asList(beneficiary.getIdPart()));
return TransformerUtilsV2.createBundle(paging, coverages, loadedFilterManager.getTransactionTime());
}
use of org.hl7.fhir.r4b.model.Annotation in project beneficiary-fhir-data by CMSgov.
the class R4ExplanationOfBenefitResourceProvider method read.
/**
* Adds support for the FHIR "read" operation, for {@link ExplanationOfBenefit}s. The {@link Read}
* annotation indicates that this method supports the read operation.
*
* <p>Read operations take a single parameter annotated with {@link IdParam}, and should return a
* single resource instance.
*
* @param eobId The read operation takes one parameter, which must be of type {@link IdType} and
* must be annotated with the {@link IdParam} annotation.
* @param requestDetails the request details for the read
* @return Returns a resource matching the specified {@link IdDt}, or <code>null</code> if none
* exists.
*/
@SuppressWarnings({ "rawtypes", "unchecked" })
@Read(version = false)
@Trace
public ExplanationOfBenefit read(@IdParam IdType eobId, RequestDetails requestDetails) {
if (eobId == null)
throw new IllegalArgumentException();
if (eobId.getVersionIdPartAsLong() != null)
throw new IllegalArgumentException();
String eobIdText = eobId.getIdPart();
if (eobIdText == null || eobIdText.trim().isEmpty())
throw new IllegalArgumentException();
Matcher eobIdMatcher = EOB_ID_PATTERN.matcher(eobIdText);
if (!eobIdMatcher.matches())
throw new IllegalArgumentException("Unsupported ID pattern: " + eobIdText);
String eobIdTypeText = eobIdMatcher.group(1);
Optional<ClaimTypeV2> eobIdType = ClaimTypeV2.parse(eobIdTypeText);
if (!eobIdType.isPresent())
throw new ResourceNotFoundException(eobId);
String eobIdClaimIdText = eobIdMatcher.group(2);
boolean includeTaxNumbers = returnIncludeTaxNumbers(requestDetails);
Operation operation = new Operation(Operation.Endpoint.V2_EOB);
operation.setOption("IncludeTaxNumbers", "" + includeTaxNumbers);
operation.setOption("by", "id");
operation.publishOperationName();
Class<?> entityClass = eobIdType.get().getEntityClass();
CriteriaBuilder builder = entityManager.getCriteriaBuilder();
CriteriaQuery criteria = builder.createQuery(entityClass);
Root root = criteria.from(entityClass);
eobIdType.get().getEntityLazyAttributes().stream().forEach(a -> root.fetch(a));
criteria.select(root);
criteria.where(builder.equal(root.get(eobIdType.get().getEntityIdAttribute()), eobIdClaimIdText));
Object claimEntity = null;
Long eobByIdQueryNanoSeconds = null;
Timer.Context timerEobQuery = metricRegistry.timer(MetricRegistry.name(getClass().getSimpleName(), "query", "eob_by_id")).time();
try {
claimEntity = entityManager.createQuery(criteria).getSingleResult();
} catch (NoResultException e) {
throw new ResourceNotFoundException(eobId);
} finally {
eobByIdQueryNanoSeconds = timerEobQuery.stop();
TransformerUtilsV2.recordQueryInMdc("eob_by_id", eobByIdQueryNanoSeconds, claimEntity == null ? 0 : 1);
}
ExplanationOfBenefit eob = eobIdType.get().getTransformer().transform(metricRegistry, claimEntity, Optional.of(includeTaxNumbers));
return eob;
}
use of org.hl7.fhir.r4b.model.Annotation in project beneficiary-fhir-data by CMSgov.
the class R4PatientResourceProvider method searchByIdentifier.
/**
* Adds support for the FHIR "search" operation for {@link Patient}s, allowing users to search by
* {@link Patient#getIdentifier()}. Specifically, the following criteria are supported:
*
* <p>Searches that don't match one of the above forms are not supported.
*
* <p>The {@link Search} annotation indicates that this method supports the search operation.
* There may be many different methods annotated with this {@link Search} annotation, to support
* many different search criteria.
*
* @param identifier an {@link Identifier} {@link TokenParam} for the {@link
* Patient#getIdentifier()} to try and find a matching {@link Patient} for
* @param startIndex an {@link OptionalParam} for the startIndex (or offset) used to determine
* pagination
* @param lastUpdated an {@link OptionalParam} to filter the results based on the passed date
* range
* @param requestDetails a {@link RequestDetails} containing the details of the request URL, used
* to parse out pagination values
* @return Returns a {@link List} of {@link Patient}s, which may contain multiple matching
* resources, or may also be empty.
*/
@Search
@Trace
public Bundle searchByIdentifier(@RequiredParam(name = Patient.SP_IDENTIFIER) @Description(shortDefinition = "The patient identifier to search for") TokenParam identifier, @OptionalParam(name = "startIndex") @Description(shortDefinition = "The offset used for result pagination") String startIndex, @OptionalParam(name = "_lastUpdated") @Description(shortDefinition = "Include resources last updated in the given range") DateRangeParam lastUpdated, RequestDetails requestDetails) {
if (identifier.getQueryParameterQualifier() != null) {
throw new InvalidRequestException("Unsupported query parameter qualifier: " + identifier.getQueryParameterQualifier());
}
if (!SUPPORTED_HASH_IDENTIFIER_SYSTEMS.contains(identifier.getSystem()))
throw new InvalidRequestException("Unsupported identifier system: " + identifier.getSystem());
RequestHeaders requestHeader = RequestHeaders.getHeaderWrapper(requestDetails);
Operation operation = new Operation(Operation.Endpoint.V2_PATIENT);
operation.setOption("by", "identifier");
requestHeader.getNVPairs().forEach((n, v) -> operation.setOption(n, v.toString()));
operation.setOption("_lastUpdated", Boolean.toString(lastUpdated != null && !lastUpdated.isEmpty()));
operation.publishOperationName();
List<IBaseResource> patients;
try {
Patient patient;
switch(identifier.getSystem()) {
case TransformerConstants.CODING_BBAPI_BENE_MBI_HASH:
patient = queryDatabaseByMbiHash(identifier.getValue(), requestHeader);
break;
case TransformerConstants.CODING_BBAPI_BENE_HICN_HASH:
case TransformerConstants.CODING_BBAPI_BENE_HICN_HASH_OLD:
patient = queryDatabaseByHicnHash(identifier.getValue(), requestHeader);
break;
default:
throw new InvalidRequestException("Unsupported identifier system: " + identifier.getSystem());
}
patients = QueryUtils.isInRange(patient.getMeta().getLastUpdated().toInstant(), lastUpdated) ? Collections.singletonList(patient) : Collections.emptyList();
} catch (NoResultException e) {
patients = new LinkedList<>();
}
OffsetLinkBuilder paging = new OffsetLinkBuilder(requestDetails, "/Patient?");
return TransformerUtilsV2.createBundle(paging, patients, loadedFilterManager.getTransactionTime());
}
use of org.hl7.fhir.r4b.model.Annotation in project beneficiary-fhir-data by CMSgov.
the class R4PatientResourceProvider method searchByLogicalId.
/**
* Adds support for the FHIR "search" operation for {@link Patient}s, allowing users to search by
* {@link Patient#getId()}.
*
* <p>The {@link Search} annotation indicates that this method supports the search operation.
* There may be many different methods annotated with this {@link Search} annotation, to support
* many different search criteria.
*
* @param logicalId a {@link TokenParam} (with no system, per the spec) for the {@link
* Patient#getId()} to try and find a matching {@link Patient} for
* @param startIndex an {@link OptionalParam} for the startIndex (or offset) used to determine
* pagination
* @param lastUpdated an {@link OptionalParam} to filter the results based on the passed date
* range
* @param requestDetails a {@link RequestDetails} containing the details of the request URL, used
* to parse out pagination values
* @return Returns a {@link List} of {@link Patient}s, which may contain multiple matching
* resources, or may also be empty.
*/
@Search
@Trace
public Bundle searchByLogicalId(@RequiredParam(name = Patient.SP_RES_ID) @Description(shortDefinition = "The patient identifier to search for") TokenParam logicalId, @OptionalParam(name = "startIndex") @Description(shortDefinition = "The offset used for result pagination") String startIndex, @OptionalParam(name = "_lastUpdated") @Description(shortDefinition = "Include resources last updated in the given range") DateRangeParam lastUpdated, RequestDetails requestDetails) {
if (logicalId.getQueryParameterQualifier() != null)
throw new InvalidRequestException("Unsupported query parameter qualifier: " + logicalId.getQueryParameterQualifier());
if (logicalId.getSystem() != null && !logicalId.getSystem().isEmpty())
throw new InvalidRequestException("Unsupported query parameter system: " + logicalId.getSystem());
if (logicalId.getValueNotNull().isEmpty())
throw new InvalidRequestException("Unsupported query parameter value: " + logicalId.getValue());
List<IBaseResource> patients;
if (loadedFilterManager.isResultSetEmpty(logicalId.getValue(), lastUpdated)) {
patients = Collections.emptyList();
} else {
try {
patients = Optional.of(read(new IdType(logicalId.getValue()), requestDetails)).filter(p -> QueryUtils.isInRange(p.getMeta().getLastUpdated().toInstant(), lastUpdated)).map(p -> Collections.singletonList((IBaseResource) p)).orElse(Collections.emptyList());
} catch (ResourceNotFoundException e) {
patients = Collections.emptyList();
}
}
/*
* Publish the operation name. Note: This is a bit later than we'd normally do this, as we need
* to override the operation name that was published by the possible call to read(...), above.
*/
RequestHeaders requestHeader = RequestHeaders.getHeaderWrapper(requestDetails);
Operation operation = new Operation(Operation.Endpoint.V2_PATIENT);
operation.setOption("by", "id");
// track all api hdrs
requestHeader.getNVPairs().forEach((n, v) -> operation.setOption(n, v.toString()));
operation.setOption("_lastUpdated", Boolean.toString(lastUpdated != null && !lastUpdated.isEmpty()));
operation.publishOperationName();
OffsetLinkBuilder paging = new OffsetLinkBuilder(requestDetails, "/Patient?");
Bundle bundle = TransformerUtilsV2.createBundle(paging, patients, loadedFilterManager.getTransactionTime());
return bundle;
}
use of org.hl7.fhir.r4b.model.Annotation in project kindling by HL7.
the class Publisher method stripXsd.
private InputStream stripXsd(InputStream source) throws Exception {
byte[] src = IOUtils.toByteArray(source);
try {
byte[] xslt = IOUtils.toByteArray(new FileInputStream(Utilities.path(page.getFolders().rootDir, "implementations", "xmltools", "AnnotationStripper.xslt")));
String scrs = new String(src);
String xslts = new String(xslt);
return new ByteArrayInputStream(XsltUtilities.transform(new HashMap<String, byte[]>(), src, xslt));
} catch (Exception e) {
if (web) {
e.printStackTrace();
throw e;
} else
return new ByteArrayInputStream(src);
}
// DocumentBuilderFactory factory = DocumentBuilderFactory.newInstance();
// factory.setNamespaceAware(false);
// DocumentBuilder builder = factory.newDocumentBuilder();
// Document doc = builder.parse(source);
// stripElement(doc.getDocumentElement(), "annotation");
// TransformerFactory transformerFactory = TransformerFactory.newInstance();
// Transformer transformer = transformerFactory.newTransformer();
// ByteArrayOutputStream bo = new ByteArrayOutputStream();
// DOMSource src = new DOMSource(doc);erent
// StreamResult streamResult = new StreamResult(bo);
// transformer.transform(src, streamResult);
// bo.close();
// return new ByteArrayInputStream(bo.toByteArray());
}
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