use of org.hl7.fhir.dstu2016may.model.Attachment in project cqf-ruler by DBCG.
the class ActivityDefinitionApplyProvider method resolveDiagnosticReport.
private DiagnosticReport resolveDiagnosticReport(ActivityDefinition activityDefinition, String patientId) {
DiagnosticReport diagnosticReport = new DiagnosticReport();
diagnosticReport.setStatus(DiagnosticReport.DiagnosticReportStatus.UNKNOWN);
diagnosticReport.setSubject(new Reference(patientId));
if (activityDefinition.hasCode()) {
diagnosticReport.setCode(activityDefinition.getCode());
} else {
throw new ActivityDefinitionApplyException("Missing required ActivityDefinition.code property for DiagnosticReport");
}
if (activityDefinition.hasRelatedArtifact()) {
List<Attachment> presentedFormAttachments = new ArrayList<>();
for (RelatedArtifact artifact : activityDefinition.getRelatedArtifact()) {
Attachment attachment = new Attachment();
if (artifact.hasUrl()) {
attachment.setUrl(artifact.getUrl());
}
if (artifact.hasDisplay()) {
attachment.setTitle(artifact.getDisplay());
}
presentedFormAttachments.add(attachment);
}
diagnosticReport.setPresentedForm(presentedFormAttachments);
}
return diagnosticReport;
}
use of org.hl7.fhir.dstu2016may.model.Attachment in project cqf-ruler by DBCG.
the class ActivityDefinitionApplyProvider method resolveCommunication.
private Communication resolveCommunication(ActivityDefinition activityDefinition, String patientId) {
Communication communication = new Communication();
communication.setStatus(Communication.CommunicationStatus.UNKNOWN);
communication.setSubject(new Reference(patientId));
if (activityDefinition.hasCode()) {
communication.setReasonCode(Collections.singletonList(activityDefinition.getCode()));
}
if (activityDefinition.hasRelatedArtifact()) {
for (RelatedArtifact artifact : activityDefinition.getRelatedArtifact()) {
if (artifact.hasUrl()) {
Attachment attachment = new Attachment().setUrl(artifact.getUrl());
if (artifact.hasDisplay()) {
attachment.setTitle(artifact.getDisplay());
}
Communication.CommunicationPayloadComponent payload = new Communication.CommunicationPayloadComponent();
payload.setContent(artifact.hasDisplay() ? attachment.setTitle(artifact.getDisplay()) : attachment);
communication.setPayload(Collections.singletonList(payload));
}
// TODO - other relatedArtifact types
}
}
return communication;
}
use of org.hl7.fhir.dstu2016may.model.Attachment in project cqf-ruler by DBCG.
the class ActivityDefinitionApplyProvider method resolveCommunication.
private Communication resolveCommunication(ActivityDefinition activityDefinition, String patientId) {
Communication communication = new Communication();
communication.setStatus(Communication.CommunicationStatus.UNKNOWN);
communication.setSubject(new Reference(patientId));
if (activityDefinition.hasCode()) {
communication.setReasonCode(Collections.singletonList(activityDefinition.getCode()));
}
if (activityDefinition.hasRelatedArtifact()) {
for (RelatedArtifact artifact : activityDefinition.getRelatedArtifact()) {
if (artifact.hasUrl()) {
Attachment attachment = new Attachment().setUrl(artifact.getUrl());
if (artifact.hasDisplay()) {
attachment.setTitle(artifact.getDisplay());
}
Communication.CommunicationPayloadComponent payload = new Communication.CommunicationPayloadComponent();
payload.setContent(artifact.hasDisplay() ? attachment.setTitle(artifact.getDisplay()) : attachment);
communication.setPayload(Collections.singletonList(payload));
}
// TODO - other relatedArtifact types
}
}
return communication;
}
use of org.hl7.fhir.dstu2016may.model.Attachment in project quality-measure-and-cohort-service by Alvearie.
the class CohortEngineRestHandler method getMeasureParametersById.
@POST
@Path("/fhir/measure/{measure_id}/parameters")
@Produces(MediaType.APPLICATION_JSON)
@Consumes(MediaType.MULTIPART_FORM_DATA)
@ApiOperation(value = "Get measure parameters by id", notes = CohortEngineRestHandler.MEASURE_API_NOTES, response = MeasureParameterInfoList.class, nickname = "get_measure_parameters_by_id", 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 getMeasureParametersById(@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_ID_DESC, required = true) @PathParam(CohortEngineRestHandler.MEASURE_ID) String measureId) {
final String methodName = MethodNames.GET_MEASURE_PARAMETERS_BY_ID.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);
// 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.getParametersForMeasureId(measureResolver, measureId);
// 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.dstu2016may.model.Attachment in project quality-measure-and-cohort-service by Alvearie.
the class CohortEngineRestHandler method evaluateMeasure.
@POST
@Path("/evaluation")
@Consumes(MediaType.MULTIPART_FORM_DATA)
@Produces({ MediaType.APPLICATION_JSON })
@ApiOperation(value = "Evaluates a measure bundle for a single patient", notes = EVALUATION_API_NOTES, response = String.class, tags = { "Measure Evaluation" }, nickname = "evaluate_measure", extensions = { @Extension(properties = { @ExtensionProperty(name = DarkFeatureSwaggerFilter.DARK_FEATURE_NAME, value = CohortEngineRestConstants.DARK_LAUNCHED_MEASURE_EVALUATION) }) })
@ApiImplicitParams({ // This is necessary for the dark launch feature
@ApiImplicitParam(access = DarkFeatureSwaggerFilter.DARK_FEATURE_CONTROLLED, paramType = "header", dataType = "string"), // These are necessary to create a proper view of the request body that is all wrapped up in the Liberty IMultipartBody parameter
@ApiImplicitParam(name = REQUEST_DATA_PART, value = EXAMPLE_REQUEST_DATA_JSON, dataTypeClass = MeasureEvaluation.class, required = true, paramType = "form", type = "file"), @ApiImplicitParam(name = MEASURE_PART, value = EXAMPLE_MEASURE_ZIP, dataTypeClass = File.class, required = true, paramType = "form", type = "file") })
@ApiResponses(value = { @ApiResponse(code = 200, message = "Successful Operation: This API returns the JSON representation of a FHIR MeasureReport. A full example can be found at https://www.hl7.org/fhir/measurereport-cms146-cat1-example.html"), @ApiResponse(code = 400, message = "Bad Request", response = ServiceErrorList.class), @ApiResponse(code = 500, message = "Server Error", response = ServiceErrorList.class) })
public Response evaluateMeasure(@Context HttpServletRequest request, @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) {
final String methodName = MethodNames.EVALUATE_MEASURE.getName();
Response response = null;
// Error out if feature is not enabled
ServiceBaseUtility.isDarkFeatureEnabled(CohortEngineRestConstants.DARK_LAUNCHED_MEASURE_EVALUATION);
try {
// Perform api setup
Response errorResponse = ServiceBaseUtility.apiSetup(version, logger, methodName);
if (errorResponse != null) {
return errorResponse;
}
if (multipartBody == null) {
throw new IllegalArgumentException("A multipart/form-data body is required");
}
IAttachment metadataAttachment = multipartBody.getAttachment(REQUEST_DATA_PART);
if (metadataAttachment == null) {
throw new IllegalArgumentException(String.format("Missing '%s' MIME attachment", REQUEST_DATA_PART));
}
IAttachment measureAttachment = multipartBody.getAttachment(MEASURE_PART);
if (measureAttachment == null) {
throw new IllegalArgumentException(String.format("Missing '%s' MIME attachment", MEASURE_PART));
}
// deserialize the MeasuresEvaluation request
ObjectMapper om = new ObjectMapper();
MeasureEvaluation evaluationRequest = om.readValue(metadataAttachment.getDataHandler().getInputStream(), MeasureEvaluation.class);
// validate the contents of the evaluationRequest
validateBean(evaluationRequest);
FhirContext fhirContext = FhirContext.forR4();
try (InputStream is = measureAttachment.getDataHandler().getInputStream();
RetrieveCacheContext retrieveCacheContext = new DefaultRetrieveCacheContext()) {
MeasureEvaluator evaluator = createMeasureEvaluator(is, evaluationRequest.getDataServerConfig(), evaluationRequest.getTerminologyServerConfig(), evaluationRequest.isExpandValueSets(), evaluationRequest.getSearchPageSize(), retrieveCacheContext, fhirContext);
MeasureReport report = evaluator.evaluatePatientMeasure(evaluationRequest.getPatientId(), evaluationRequest.getMeasureContext(), evaluationRequest.getEvidenceOptions());
// The default serializer gets into an infinite loop when trying to serialize MeasureReport, so we use the
// HAPI encoder instead.
IParser parser = fhirContext.newJsonParser();
ResponseBuilder responseBuilder = Response.status(Response.Status.OK).header("Content-Type", "application/json").entity(parser.encodeResourceToString(report));
response = responseBuilder.build();
}
} catch (Throwable e) {
// map any exceptions caught into the proper REST error response objects
response = new CohortServiceExceptionMapper().toResponse(e);
} finally {
// Perform api cleanup
Response errorResponse = ServiceBaseUtility.apiCleanup(logger, methodName);
if (errorResponse != null) {
response = errorResponse;
}
}
return response;
}
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