use of org.hl7.fhir.r4.model.Identifier in project BridgeServer2 by Sage-Bionetworks.
the class CRCControllerTest method procedureWrongIdentifier.
@Test(expectedExceptions = BadRequestException.class, expectedExceptionsMessageRegExp = "Could not find Bridge user ID.")
public void procedureWrongIdentifier() throws Exception {
when(mockRequest.getHeader(AUTHORIZATION)).thenReturn(AUTHORIZATION_HEADER_VALUE);
when(mockAccountService.authenticate(any(), any())).thenReturn(account);
when(mockAccountService.getAccount(ACCOUNT_ID)).thenReturn(Optional.of(account));
Identifier identifier = new Identifier();
identifier.setSystem("wrong-system");
identifier.setValue(TEST_USER_ID);
ProcedureRequest procedure = new ProcedureRequest();
procedure.addIdentifier(identifier);
String json = FHIR_CONTEXT.newJsonParser().encodeResourceToString(procedure);
mockRequestBody(mockRequest, json);
controller.postProcedureRequest();
}
use of org.hl7.fhir.r4.model.Identifier in project BridgeServer2 by Sage-Bionetworks.
the class CRCControllerTest method operationWrongIdentifier.
@Test(expectedExceptions = BadRequestException.class, expectedExceptionsMessageRegExp = "Could not find Bridge user ID.")
public void operationWrongIdentifier() throws Exception {
when(mockRequest.getHeader(AUTHORIZATION)).thenReturn(AUTHORIZATION_HEADER_VALUE);
when(mockAccountService.authenticate(any(), any())).thenReturn(account);
when(mockAccountService.getAccount(ACCOUNT_ID)).thenReturn(Optional.of(account));
Identifier identifier = new Identifier();
identifier.setSystem("wrong-system");
identifier.setValue(TEST_USER_ID);
Observation observation = new Observation();
observation.addIdentifier(identifier);
String json = FHIR_CONTEXT.newJsonParser().encodeResourceToString(observation);
mockRequestBody(mockRequest, json);
controller.postObservation();
}
use of org.hl7.fhir.r4.model.Identifier in project quality-measure-and-cohort-service by Alvearie.
the class CohortEngineRestHandler method getMeasureParameters.
@POST
@Path("/fhir/measure/identifier/{measure_identifier_value}/parameters")
@Produces(MediaType.APPLICATION_JSON)
@Consumes(MediaType.MULTIPART_FORM_DATA)
@ApiOperation(value = "Get measure parameters", notes = CohortEngineRestHandler.MEASURE_API_NOTES, response = MeasureParameterInfoList.class, authorizations = { @Authorization(value = "BasicAuth") }, responseContainer = "List", tags = { "FHIR Measures" })
@ApiImplicitParams({ @ApiImplicitParam(name = FHIR_DATA_SERVER_CONFIG_PART, value = CohortEngineRestHandler.EXAMPLE_DATA_SERVER_CONFIG_JSON, dataTypeClass = FhirServerConfig.class, required = true, paramType = "form", type = "file") })
@ApiResponses(value = { @ApiResponse(code = 200, message = "Successful Operation", response = MeasureParameterInfoList.class), @ApiResponse(code = 400, message = "Bad Request", response = ServiceErrorList.class), @ApiResponse(code = 500, message = "Server Error", response = ServiceErrorList.class) })
public Response getMeasureParameters(@ApiParam(value = ServiceBaseConstants.MINOR_VERSION_DESCRIPTION, required = true, defaultValue = ServiceBuildConstants.DATE) @QueryParam(CohortEngineRestHandler.VERSION) String version, @ApiParam(hidden = true, type = "file", required = true) IMultipartBody multipartBody, @ApiParam(value = CohortEngineRestHandler.MEASURE_IDENTIFIER_VALUE_DESC, required = true) @PathParam(CohortEngineRestHandler.MEASURE_IDENTIFIER_VALUE) String measureIdentifierValue, @ApiParam(value = CohortEngineRestHandler.MEASURE_IDENTIFIER_SYSTEM_DESC, required = false) @QueryParam(CohortEngineRestHandler.MEASURE_IDENTIFIER_SYSTEM) String measureIdentifierSystem, @ApiParam(value = CohortEngineRestHandler.MEASURE_VERSION_DESC, required = false) @QueryParam(CohortEngineRestHandler.MEASURE_VERSION) String measureVersion) {
final String methodName = MethodNames.GET_MEASURE_PARAMETERS.getName();
Response response = null;
try {
// Perform api setup
Response errorResponse = ServiceBaseUtility.apiSetup(version, logger, methodName);
if (errorResponse != null) {
return errorResponse;
}
IAttachment dataSourceAttachment = multipartBody.getAttachment(FHIR_DATA_SERVER_CONFIG_PART);
if (dataSourceAttachment == null) {
throw new IllegalArgumentException(String.format("Missing '%s' MIME attachment", FHIR_DATA_SERVER_CONFIG_PART));
}
// deserialize the MeasuresEvaluation request
ObjectMapper om = new ObjectMapper();
FhirServerConfig fhirServerConfig = om.readValue(dataSourceAttachment.getDataHandler().getInputStream(), FhirServerConfig.class);
// validate the contents of the fhirServerConfig
validateBean(fhirServerConfig);
// get the fhir client object used to call to FHIR
FhirClientBuilder clientBuilder = FhirClientBuilderFactory.newInstance().newFhirClientBuilder();
IGenericClient measureClient = clientBuilder.createFhirClient(fhirServerConfig);
// build the identifier object which is used by the fhir client
// to find the measure
Identifier identifier = new Identifier().setValue(measureIdentifierValue).setSystem(measureIdentifierSystem);
// resolve the measure, and return the parameter info for all the libraries linked to by the measure
FhirResourceResolver<Measure> measureResolver = R4FhirServerResourceResolverFactory.createMeasureResolver(measureClient);
List<MeasureParameterInfo> parameterInfoList = FHIRRestUtils.getParametersForMeasureIdentifier(measureResolver, identifier, measureVersion);
// return the results
MeasureParameterInfoList status = new MeasureParameterInfoList().measureParameterInfoList(parameterInfoList);
response = Response.ok(status).build();
} catch (Throwable e) {
// map any exceptions caught into the proper REST error response objects
return new CohortServiceExceptionMapper().toResponse(e);
} finally {
// Perform api cleanup
Response errorResponse = ServiceBaseUtility.apiCleanup(logger, methodName);
if (errorResponse != null) {
response = errorResponse;
}
}
return response;
}
use of org.hl7.fhir.r4.model.Identifier in project quality-measure-and-cohort-service by Alvearie.
the class MeasureHelperTest method testResolveByIdentifier_getLatestMeasure.
@Test
public void testResolveByIdentifier_getLatestMeasure() throws Exception {
String identifierSystem = "system1";
String identifierValue = "val1";
Measure measure1 = getCohortMeasure("Test", getLibrary("123", DEFAULT_VERSION, "cql/basic/Test-1.0.0.xml"), "Female");
Measure measure2 = getCohortMeasure("Test", getLibrary("123", DEFAULT_VERSION, "cql/basic/Test-1.0.0.xml"), "Female");
Measure measure3 = getCohortMeasure("Test", getLibrary("123", DEFAULT_VERSION, "cql/basic/Test-1.0.0.xml"), "Female");
measure1.setVersion("1.0.0");
measure2.setVersion("2.0.0");
org.hl7.fhir.r4.model.Identifier identifier = new IdentifierBuilder().buildValue(identifierValue).buildSystem(identifierSystem).build();
measure1.setIdentifier(Collections.singletonList(identifier));
measure2.setIdentifier(Collections.singletonList(identifier));
measure3.setIdentifier(Collections.singletonList(identifier));
MappingBuilder builder = get(urlPathEqualTo("/Measure")).withQueryParam("identifier", new EqualToPattern(identifierSystem + '|' + identifierValue)).withQueryParam("_format", new EqualToPattern("json"));
mockFhirResourceRetrieval(builder, getBundle(measure1, measure2, measure3));
Measure actual = MeasureHelper.loadMeasure(new Identifier(identifierSystem, identifierValue), null, resolver);
assertNotNull(actual);
assertEquals("Test", actual.getName());
assertEquals("2.0.0", actual.getVersion());
}
use of org.hl7.fhir.r4.model.Identifier in project quality-measure-and-cohort-service by Alvearie.
the class RestFhirMeasureResolverIntegrationTest method mockMultipleSearchResults.
protected Identifier mockMultipleSearchResults(String measureName, String version1, String version2) throws Exception {
Identifier identifier = new Identifier().setSystem("http://alvearie.io/health/Measure/id").setValue(measureName);
mockMultipleSearchResults(measureName, version1, version2, identifier);
return identifier;
}
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