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Example 11 with Library

use of org.hl7.fhir.r5.model.Library in project cqf-ruler by DBCG.

the class CdsHooksServlet method doPost.

@Override
@SuppressWarnings("deprecation")
protected void doPost(HttpServletRequest request, HttpServletResponse response) throws ServletException, IOException {
    logger.info(request.getRequestURI());
    try {
        // validate that we are dealing with JSON
        if (request.getContentType() == null || !request.getContentType().startsWith("application/json")) {
            throw new ServletException(String.format("Invalid content type %s. Please use application/json.", request.getContentType()));
        }
        String baseUrl = this.myAppProperties.getServer_address();
        String service = request.getPathInfo().replace("/", "");
        JsonParser parser = new JsonParser();
        JsonObject requestJson = parser.parse(request.getReader()).getAsJsonObject();
        logger.info(requestJson.toString());
        Request cdsHooksRequest = new Request(service, requestJson, JsonHelper.getObjectRequired(getService(service), "prefetch"));
        Hook hook = HookFactory.createHook(cdsHooksRequest);
        String hookName = hook.getRequest().getHook();
        logger.info("cds-hooks hook: {}", hookName);
        logger.info("cds-hooks hook instance: {}", hook.getRequest().getHookInstance());
        logger.info("cds-hooks maxCodesPerQuery: {}", this.getProviderConfiguration().getMaxCodesPerQuery());
        logger.info("cds-hooks expandValueSets: {}", this.getProviderConfiguration().getExpandValueSets());
        logger.info("cds-hooks searchStyle: {}", this.getProviderConfiguration().getSearchStyle());
        logger.info("cds-hooks prefetch maxUriLength: {}", this.getProviderConfiguration().getMaxUriLength());
        logger.info("cds-hooks local server address: {}", baseUrl);
        logger.info("cds-hooks fhir server address: {}", hook.getRequest().getFhirServerUrl());
        logger.info("cds-hooks cql_logging_enabled: {}", this.getProviderConfiguration().getCqlLoggingEnabled());
        PlanDefinition planDefinition = read(Ids.newId(PlanDefinition.class, hook.getRequest().getServiceName()));
        AtomicBoolean planDefinitionHookMatchesRequestHook = new AtomicBoolean(false);
        planDefinition.getAction().forEach(action -> {
            action.getTriggerDefinition().forEach(triggerDefn -> {
                if (hookName.equals(triggerDefn.getEventName())) {
                    planDefinitionHookMatchesRequestHook.set(true);
                    return;
                }
            });
            if (planDefinitionHookMatchesRequestHook.get()) {
                return;
            }
        });
        if (!planDefinitionHookMatchesRequestHook.get()) {
            throw new ServletException("ERROR: Request hook does not match the service called.");
        }
        // No tenant information available, so create local system request
        RequestDetails requestDetails = new SystemRequestDetails();
        LibraryLoader libraryLoader = libraryLoaderFactory.create(Lists.newArrayList(jpaLibraryContentProviderFactory.create(requestDetails)));
        Reference reference = planDefinition.getLibrary().get(0);
        Library library = read(reference.getReferenceElement());
        org.cqframework.cql.elm.execution.Library elm = libraryLoader.load(new VersionedIdentifier().withId(library.getName()).withVersion(library.getVersion()));
        Context context = new Context(elm);
        context.setDebugMap(this.getDebugMap());
        // provider case
        // No tenant information available for cds-hooks
        TerminologyProvider serverTerminologyProvider = myJpaTerminologyProviderFactory.create(requestDetails);
        // TODO make sure tooling handles remote
        context.registerDataProvider("http://hl7.org/fhir", fhirRetrieveProviderFactory.create(requestDetails, serverTerminologyProvider));
        context.registerTerminologyProvider(serverTerminologyProvider);
        context.registerLibraryLoader(libraryLoader);
        context.setContextValue("Patient", hook.getRequest().getContext().getPatientId().replace("Patient/", ""));
        context.setExpressionCaching(true);
        EvaluationContext<PlanDefinition> evaluationContext = new Stu3EvaluationContext(hook, FhirContext.forCached(FhirVersionEnum.DSTU3).newRestfulGenericClient(baseUrl), context, elm, planDefinition, this.getProviderConfiguration(), this.modelResolver);
        this.setAccessControlHeaders(response);
        response.setHeader("Content-Type", ContentType.APPLICATION_JSON.getMimeType());
        Stu3HookEvaluator evaluator = new Stu3HookEvaluator(this.modelResolver);
        String jsonResponse = toJsonResponse(evaluator.evaluate(evaluationContext));
        logger.info(jsonResponse);
        response.getWriter().println(jsonResponse);
    } catch (BaseServerResponseException e) {
        this.setAccessControlHeaders(response);
        // This will be overwritten with the correct status code downstream if needed.
        response.setStatus(500);
        response.getWriter().println("ERROR: Exception connecting to remote server.");
        this.printMessageAndCause(e, response);
        this.handleServerResponseException(e, response);
        this.printStackTrack(e, response);
        logger.error(e.toString());
    } catch (DataProviderException e) {
        this.setAccessControlHeaders(response);
        // This will be overwritten with the correct status code downstream if needed.
        response.setStatus(500);
        response.getWriter().println("ERROR: Exception in DataProvider.");
        this.printMessageAndCause(e, response);
        if (e.getCause() != null && (e.getCause() instanceof BaseServerResponseException)) {
            this.handleServerResponseException((BaseServerResponseException) e.getCause(), response);
        }
        this.printStackTrack(e, response);
        logger.error(e.toString());
    } catch (CqlException e) {
        this.setAccessControlHeaders(response);
        // This will be overwritten with the correct status code downstream if needed.
        response.setStatus(500);
        response.getWriter().println("ERROR: Exception in CQL Execution.");
        this.printMessageAndCause(e, response);
        if (e.getCause() != null && (e.getCause() instanceof BaseServerResponseException)) {
            this.handleServerResponseException((BaseServerResponseException) e.getCause(), response);
        }
        this.printStackTrack(e, response);
        logger.error(e.toString());
    } catch (Exception e) {
        logger.error(e.toString());
        throw new ServletException("ERROR: Exception in cds-hooks processing.", e);
    }
}
Also used : JsonObject(com.google.gson.JsonObject) LibraryLoader(org.opencds.cqf.cql.engine.execution.LibraryLoader) ServletException(javax.servlet.ServletException) Stu3EvaluationContext(org.opencds.cqf.ruler.cdshooks.evaluation.Stu3EvaluationContext) VersionedIdentifier(org.cqframework.cql.elm.execution.VersionedIdentifier) SystemRequestDetails(ca.uhn.fhir.jpa.partition.SystemRequestDetails) DataProviderException(org.opencds.cqf.cql.engine.fhir.exception.DataProviderException) JsonParser(com.google.gson.JsonParser) FhirContext(ca.uhn.fhir.context.FhirContext) EvaluationContext(org.opencds.cqf.ruler.cdshooks.evaluation.EvaluationContext) Stu3EvaluationContext(org.opencds.cqf.ruler.cdshooks.evaluation.Stu3EvaluationContext) Context(org.opencds.cqf.cql.engine.execution.Context) Hook(org.opencds.cqf.ruler.cdshooks.hooks.Hook) Reference(org.hl7.fhir.dstu3.model.Reference) AtomicReference(java.util.concurrent.atomic.AtomicReference) Request(org.opencds.cqf.ruler.cdshooks.request.Request) HttpServletRequest(javax.servlet.http.HttpServletRequest) Stu3HookEvaluator(org.opencds.cqf.ruler.cdshooks.hooks.Stu3HookEvaluator) BaseServerResponseException(ca.uhn.fhir.rest.server.exceptions.BaseServerResponseException) RequestDetails(ca.uhn.fhir.rest.api.server.RequestDetails) SystemRequestDetails(ca.uhn.fhir.jpa.partition.SystemRequestDetails) ServletException(javax.servlet.ServletException) CqlException(org.opencds.cqf.cql.engine.exception.CqlException) InvalidRequestException(ca.uhn.fhir.rest.server.exceptions.InvalidRequestException) DataProviderException(org.opencds.cqf.cql.engine.fhir.exception.DataProviderException) BaseServerResponseException(ca.uhn.fhir.rest.server.exceptions.BaseServerResponseException) IOException(java.io.IOException) AtomicBoolean(java.util.concurrent.atomic.AtomicBoolean) TerminologyProvider(org.opencds.cqf.cql.engine.terminology.TerminologyProvider) PlanDefinition(org.hl7.fhir.dstu3.model.PlanDefinition) Library(org.hl7.fhir.dstu3.model.Library) CqlException(org.opencds.cqf.cql.engine.exception.CqlException)

Example 12 with Library

use of org.hl7.fhir.r5.model.Library in project cqf-ruler by DBCG.

the class CdsHooksServlet method doPost.

@Override
@SuppressWarnings("deprecation")
protected void doPost(HttpServletRequest request, HttpServletResponse response) throws ServletException, IOException {
    logger.info(request.getRequestURI());
    try {
        // validate that we are dealing with JSON
        if (request.getContentType() == null || !request.getContentType().startsWith("application/json")) {
            throw new ServletException(String.format("Invalid content type %s. Please use application/json.", request.getContentType()));
        }
        String baseUrl = this.myAppProperties.getServer_address();
        String service = request.getPathInfo().replace("/", "");
        JsonParser parser = new JsonParser();
        Request cdsHooksRequest = new Request(service, parser.parse(request.getReader()).getAsJsonObject(), JsonHelper.getObjectRequired(getService(service), "prefetch"));
        logger.info(cdsHooksRequest.getRequestJson().toString());
        Hook hook = HookFactory.createHook(cdsHooksRequest);
        String hookName = hook.getRequest().getHook();
        logger.info("cds-hooks hook: {}", hookName);
        logger.info("cds-hooks hook instance: {}", hook.getRequest().getHookInstance());
        logger.info("cds-hooks maxCodesPerQuery: {}", this.getProviderConfiguration().getMaxCodesPerQuery());
        logger.info("cds-hooks expandValueSets: {}", this.getProviderConfiguration().getExpandValueSets());
        logger.info("cds-hooks searchStyle: {}", this.getProviderConfiguration().getSearchStyle());
        logger.info("cds-hooks prefetch maxUriLength: {}", this.getProviderConfiguration().getMaxUriLength());
        logger.info("cds-hooks local server address: {}", baseUrl);
        logger.info("cds-hooks fhir server address: {}", hook.getRequest().getFhirServerUrl());
        logger.info("cds-hooks cql_logging_enabled: {}", this.getProviderConfiguration().getCqlLoggingEnabled());
        PlanDefinition planDefinition = read(Ids.newId(PlanDefinition.class, hook.getRequest().getServiceName()));
        AtomicBoolean planDefinitionHookMatchesRequestHook = new AtomicBoolean(false);
        planDefinition.getAction().forEach(action -> {
            action.getTrigger().forEach(trigger -> {
                if (hookName.equals(trigger.getName())) {
                    planDefinitionHookMatchesRequestHook.set(true);
                    return;
                }
            });
            if (planDefinitionHookMatchesRequestHook.get()) {
                return;
            }
        });
        if (!planDefinitionHookMatchesRequestHook.get()) {
            throw new ServletException("ERROR: Request hook does not match the service called.");
        }
        // No tenant information available, so create local system request
        RequestDetails requestDetails = new SystemRequestDetails();
        LibraryLoader libraryLoader = libraryLoaderFactory.create(Lists.newArrayList(jpaLibraryContentProviderFactory.create(requestDetails)));
        CanonicalType canonical = planDefinition.getLibrary().get(0);
        Library library = search(Library.class, Searches.byCanonical(canonical)).single();
        org.cqframework.cql.elm.execution.Library elm = libraryLoader.load(new VersionedIdentifier().withId(library.getName()).withVersion(library.getVersion()));
        Context context = new Context(elm);
        context.setDebugMap(this.getDebugMap());
        // provider case
        // No tenant information available for cds-hooks
        TerminologyProvider serverTerminologyProvider = myJpaTerminologyProviderFactory.create(requestDetails);
        context.registerDataProvider("http://hl7.org/fhir", // TODO make sure tooling
        fhirRetrieveProviderFactory.create(requestDetails, serverTerminologyProvider));
        // handles remote
        context.registerTerminologyProvider(serverTerminologyProvider);
        context.registerLibraryLoader(libraryLoader);
        context.setContextValue("Patient", hook.getRequest().getContext().getPatientId().replace("Patient/", ""));
        context.setExpressionCaching(true);
        EvaluationContext<PlanDefinition> evaluationContext = new R4EvaluationContext(hook, FhirContext.forCached(FhirVersionEnum.R4).newRestfulGenericClient(baseUrl), context, elm, planDefinition, this.getProviderConfiguration(), this.modelResolver);
        this.setAccessControlHeaders(response);
        response.setHeader("Content-Type", ContentType.APPLICATION_JSON.getMimeType());
        R4HookEvaluator evaluator = new R4HookEvaluator(this.modelResolver);
        String jsonResponse = toJsonResponse(evaluator.evaluate(evaluationContext));
        logger.info(jsonResponse);
        response.getWriter().println(jsonResponse);
    } catch (BaseServerResponseException e) {
        this.setAccessControlHeaders(response);
        // This will be overwritten with the correct status code downstream if needed.
        response.setStatus(500);
        response.getWriter().println("ERROR: Exception connecting to remote server.");
        this.printMessageAndCause(e, response);
        this.handleServerResponseException(e, response);
        this.printStackTrack(e, response);
        logger.error(e.toString());
    } catch (DataProviderException e) {
        this.setAccessControlHeaders(response);
        // This will be overwritten with the correct status code downstream if needed.
        response.setStatus(500);
        response.getWriter().println("ERROR: Exception in DataProvider.");
        this.printMessageAndCause(e, response);
        if (e.getCause() != null && (e.getCause() instanceof BaseServerResponseException)) {
            this.handleServerResponseException((BaseServerResponseException) e.getCause(), response);
        }
        this.printStackTrack(e, response);
        logger.error(e.toString());
    } catch (CqlException e) {
        this.setAccessControlHeaders(response);
        // This will be overwritten with the correct status code downstream if needed.
        response.setStatus(500);
        response.getWriter().println("ERROR: Exception in CQL Execution.");
        this.printMessageAndCause(e, response);
        if (e.getCause() != null && (e.getCause() instanceof BaseServerResponseException)) {
            this.handleServerResponseException((BaseServerResponseException) e.getCause(), response);
        }
        this.printStackTrack(e, response);
        logger.error(e.toString());
    } catch (Exception e) {
        logger.error(e.toString());
        throw new ServletException("ERROR: Exception in cds-hooks processing.", e);
    }
}
Also used : LibraryLoader(org.opencds.cqf.cql.engine.execution.LibraryLoader) CanonicalType(org.hl7.fhir.r4.model.CanonicalType) ServletException(javax.servlet.ServletException) VersionedIdentifier(org.cqframework.cql.elm.execution.VersionedIdentifier) SystemRequestDetails(ca.uhn.fhir.jpa.partition.SystemRequestDetails) DataProviderException(org.opencds.cqf.cql.engine.fhir.exception.DataProviderException) JsonParser(com.google.gson.JsonParser) FhirContext(ca.uhn.fhir.context.FhirContext) EvaluationContext(org.opencds.cqf.ruler.cdshooks.evaluation.EvaluationContext) Context(org.opencds.cqf.cql.engine.execution.Context) R4EvaluationContext(org.opencds.cqf.ruler.cdshooks.evaluation.R4EvaluationContext) Hook(org.opencds.cqf.ruler.cdshooks.hooks.Hook) Request(org.opencds.cqf.ruler.cdshooks.request.Request) HttpServletRequest(javax.servlet.http.HttpServletRequest) R4EvaluationContext(org.opencds.cqf.ruler.cdshooks.evaluation.R4EvaluationContext) BaseServerResponseException(ca.uhn.fhir.rest.server.exceptions.BaseServerResponseException) RequestDetails(ca.uhn.fhir.rest.api.server.RequestDetails) SystemRequestDetails(ca.uhn.fhir.jpa.partition.SystemRequestDetails) ServletException(javax.servlet.ServletException) CqlException(org.opencds.cqf.cql.engine.exception.CqlException) InvalidRequestException(ca.uhn.fhir.rest.server.exceptions.InvalidRequestException) DataProviderException(org.opencds.cqf.cql.engine.fhir.exception.DataProviderException) BaseServerResponseException(ca.uhn.fhir.rest.server.exceptions.BaseServerResponseException) IOException(java.io.IOException) AtomicBoolean(java.util.concurrent.atomic.AtomicBoolean) TerminologyProvider(org.opencds.cqf.cql.engine.terminology.TerminologyProvider) PlanDefinition(org.hl7.fhir.r4.model.PlanDefinition) Library(org.hl7.fhir.r4.model.Library) R4HookEvaluator(org.opencds.cqf.ruler.cdshooks.hooks.R4HookEvaluator) CqlException(org.opencds.cqf.cql.engine.exception.CqlException)

Example 13 with Library

use of org.hl7.fhir.r5.model.Library in project cqf-ruler by DBCG.

the class ReflectionsTest method testGetName.

@Test
public void testGetName() {
    Library library = new Library().setName("test");
    Function<Library, String> getName = Reflections.getNameFunction(library.getClass());
    String name = getName.apply(library);
    assertEquals("test", name);
}
Also used : Library(org.hl7.fhir.dstu3.model.Library) Test(org.junit.jupiter.api.Test)

Example 14 with Library

use of org.hl7.fhir.r5.model.Library in project cqf-ruler by DBCG.

the class ReflectionsTest method testGetUrl.

@Test
public void testGetUrl() {
    Library library = new Library().setUrl("http://test.com");
    Function<Library, String> getVersion = Reflections.getUrlFunction(library.getClass());
    String version = getVersion.apply(library);
    assertEquals("http://test.com", version);
}
Also used : Library(org.hl7.fhir.dstu3.model.Library) Test(org.junit.jupiter.api.Test)

Example 15 with Library

use of org.hl7.fhir.r5.model.Library in project cqf-ruler by DBCG.

the class VersionsTest method testSelectFromList.

@Test
public void testSelectFromList() {
    List<Library> libraries = Arrays.asList(new Library().setVersion("1.0.0"), new Library().setVersion("0.0.1"), new Library());
    Function<Library, String> getVersion = l -> l.getVersion();
    // Gets matching version
    Library lib = Versions.selectByVersion(libraries, "1.0.0", getVersion);
    assertEquals("1.0.0", lib.getVersion());
    // Gets max version (null version on library is considered max version)
    lib = Versions.selectByVersion(libraries, "2.0.0", getVersion);
    assertNull(lib.getVersion());
    // Null version max version (null input gets max version)
    lib = Versions.selectByVersion(libraries, null, getVersion);
    assertNull(lib.getVersion());
}
Also used : Test(org.junit.jupiter.api.Test) Arrays(java.util.Arrays) List(java.util.List) Assertions.assertNull(org.junit.jupiter.api.Assertions.assertNull) Assertions.assertEquals(org.junit.jupiter.api.Assertions.assertEquals) Library(org.hl7.fhir.dstu3.model.Library) Function(java.util.function.Function) Library(org.hl7.fhir.dstu3.model.Library) Test(org.junit.jupiter.api.Test)

Aggregations

Library (org.hl7.fhir.r4.model.Library)130 Test (org.junit.Test)85 Measure (org.hl7.fhir.r4.model.Measure)60 Patient (org.hl7.fhir.r4.model.Patient)41 HashMap (java.util.HashMap)36 Test (org.junit.jupiter.api.Test)34 ArrayList (java.util.ArrayList)32 Library (org.hl7.fhir.dstu3.model.Library)23 ObjectMapper (com.fasterxml.jackson.databind.ObjectMapper)21 ByteArrayOutputStream (java.io.ByteArrayOutputStream)21 CapabilityStatement (org.hl7.fhir.r4.model.CapabilityStatement)21 MeasureReport (org.hl7.fhir.r4.model.MeasureReport)21 StringType (org.hl7.fhir.r4.model.StringType)21 IOException (java.io.IOException)20 VersionedIdentifier (org.cqframework.cql.elm.execution.VersionedIdentifier)20 FhirContext (ca.uhn.fhir.context.FhirContext)19 IParser (ca.uhn.fhir.parser.IParser)19 MeasureEvidenceOptions (com.ibm.cohort.engine.measure.evidence.MeasureEvidenceOptions)19 Bundle (org.hl7.fhir.r4.model.Bundle)19 Parameter (com.ibm.cohort.cql.evaluation.parameters.Parameter)18