Personal-Twin/hapi-fhir-jpaserver-starter
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add factory loader

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This commit is contained in:
justin.mckelvy
2023-06-12 16:36:11 -06:00
parent 77c0e89668
commit 27e250f930
9 changed files with 221 additions and 65 deletions
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7
src/main/java/ca/uhn/fhir/jpa/starter/Application.java
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@@ -5,6 +5,8 @@ import ca.uhn.fhir.cr.config.CrR4Config;
import ca.uhn.fhir.jpa.batch2.JpaBatch2Config;
import ca.uhn.fhir.jpa.starter.annotations.OnEitherVersion;
import ca.uhn.fhir.jpa.starter.common.FhirTesterConfig;
import ca.uhn.fhir.jpa.starter.cr.CrProviderConfig;
import ca.uhn.fhir.jpa.starter.cr.StarterCrDstu3Config;
import ca.uhn.fhir.jpa.starter.cr.StarterCrR4Config;
import ca.uhn.fhir.jpa.starter.mdm.MdmConfig;
import ca.uhn.fhir.jpa.subscription.channel.config.SubscriptionChannelConfig;
@@ -37,7 +39,10 @@ import org.springframework.web.servlet.DispatcherServlet;
WebsocketDispatcherConfig.class,
MdmConfig.class,
JpaBatch2Config.class,
Batch2JobsConfig.class
Batch2JobsConfig.class,
StarterCrR4Config.class,
StarterCrDstu3Config.class,
CrProviderConfig.class
})
public class Application extends SpringBootServletInitializer {

1
src/main/java/ca/uhn/fhir/jpa/starter/common/FhirServerConfigCommon.java
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@@ -9,7 +9,6 @@ import ca.uhn.fhir.jpa.model.config.PartitionSettings.CrossPartitionReferenceMod
import ca.uhn.fhir.jpa.model.entity.StorageSettings;
import ca.uhn.fhir.jpa.starter.AppProperties;
import ca.uhn.fhir.jpa.starter.util.JpaHibernatePropertiesProvider;
import ca.uhn.fhir.jpa.subscription.channel.subscription.SubscriptionDeliveryHandlerFactory;
import ca.uhn.fhir.jpa.subscription.match.deliver.email.EmailSenderImpl;
import ca.uhn.fhir.jpa.subscription.match.deliver.email.IEmailSender;
import ca.uhn.fhir.rest.server.mail.IMailSvc;

82
src/main/java/ca/uhn/fhir/jpa/starter/common/StarterJpaConfig.java
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@@ -9,9 +9,6 @@ import ca.uhn.fhir.context.ConfigurationException;
import ca.uhn.fhir.context.FhirContext;
import ca.uhn.fhir.context.FhirVersionEnum;
import ca.uhn.fhir.context.support.IValidationSupport;
import ca.uhn.fhir.cr.config.CrProperties;
import ca.uhn.fhir.cr.r4.measure.CareGapsOperationProvider;
import ca.uhn.fhir.cr.r4.measure.SubmitDataProvider;
import ca.uhn.fhir.interceptor.api.IInterceptorBroadcaster;
import ca.uhn.fhir.jpa.api.IDaoRegistry;
import ca.uhn.fhir.jpa.api.config.JpaStorageSettings;
@@ -45,6 +42,7 @@ import ca.uhn.fhir.jpa.starter.AppProperties;
import ca.uhn.fhir.jpa.starter.annotations.OnCorsPresent;
import ca.uhn.fhir.jpa.starter.annotations.OnImplementationGuidesPresent;
import ca.uhn.fhir.jpa.starter.common.validation.IRepositoryValidationInterceptorFactory;
import ca.uhn.fhir.jpa.starter.cr.CrOperationLoader;
import ca.uhn.fhir.jpa.starter.util.EnvironmentHelper;
import ca.uhn.fhir.jpa.subscription.util.SubscriptionDebugLogInterceptor;
import ca.uhn.fhir.jpa.util.ResourceCountCache;
@@ -64,10 +62,7 @@ import ca.uhn.fhir.validation.IValidatorModule;
import ca.uhn.fhir.validation.ResultSeverityEnum;
import com.google.common.base.Strings;
import com.google.common.collect.ImmutableList;
import org.cqframework.cql.cql2elm.model.Model;
import org.hl7.cql.model.ModelIdentifier;
import org.hl7.fhir.common.hapi.validation.support.CachingValidationSupport;
import org.opencds.cqf.cql.evaluator.CqlOptions;
import org.opencds.cqf.cql.evaluator.library.EvaluationSettings;
import org.springframework.beans.factory.NoSuchBeanDefinitionException;
import org.springframework.beans.factory.annotation.Autowired;
@@ -80,8 +75,6 @@ import org.springframework.http.HttpHeaders;
import org.springframework.orm.jpa.JpaTransactionManager;
import org.springframework.orm.jpa.LocalContainerEntityManagerFactoryBean;
import org.springframework.web.cors.CorsConfiguration;
import ca.uhn.fhir.cr.common.IRepositoryFactory;
import ca.uhn.fhir.cr.repo.HapiFhirRepository;
import javax.persistence.EntityManagerFactory;
import javax.sql.DataSource;
@@ -175,6 +168,12 @@ public class StarterJpaConfig {
return new HSearchSortHelperImpl(mySearchParamRegistry);
}
@Bean
@ConditionalOnProperty(prefix = "hapi.fhir", name = ENABLE_REPOSITORY_VALIDATING_INTERCEPTOR, havingValue = "true")
public RepositoryValidatingInterceptor repositoryValidatingInterceptor(
IRepositoryValidationInterceptorFactory factory) {
return factory.buildUsingStoredStructureDefinitions();
}
@Bean
public ca.uhn.fhir.cr.r4.questionnaire.QuestionnaireOperationsProvider myR4QuestionnaireOperationsProvider() {
return new ca.uhn.fhir.cr.r4.questionnaire.QuestionnaireOperationsProvider();
@@ -217,16 +216,16 @@ public class StarterJpaConfig {
@Bean
ca.uhn.fhir.cr.dstu3.IActivityDefinitionProcessorFactory myDstu3ActivityDefinitionProcessorFactory(
EvaluationSettings theEvaluationSettings) {
EvaluationSettings theEvaluationSettings) {
return r -> new org.opencds.cqf.cql.evaluator.activitydefinition.dstu3.ActivityDefinitionProcessor(r,
theEvaluationSettings);
theEvaluationSettings);
}
@Bean
ca.uhn.fhir.cr.r4.IActivityDefinitionProcessorFactory myR4ActivityDefinitionProcessorFactory(
EvaluationSettings theEvaluationSettings) {
EvaluationSettings theEvaluationSettings) {
return r -> new org.opencds.cqf.cql.evaluator.activitydefinition.r4.ActivityDefinitionProcessor(r,
theEvaluationSettings);
theEvaluationSettings);
}
@Bean
@@ -251,50 +250,16 @@ public class StarterJpaConfig {
@Bean
ca.uhn.fhir.cr.r4.IPlanDefinitionProcessorFactory myR4PlanDefinitionProcessorFactory(
EvaluationSettings theEvaluationSettings) {
EvaluationSettings theEvaluationSettings) {
return r -> new org.opencds.cqf.cql.evaluator.plandefinition.r4.PlanDefinitionProcessor(r, theEvaluationSettings);
}
@Bean
ca.uhn.fhir.cr.dstu3.IPlanDefinitionProcessorFactory myDstu3PlanDefinitionProcessorFactory(
EvaluationSettings theEvaluationSettings) {
EvaluationSettings theEvaluationSettings) {
return r -> new org.opencds.cqf.cql.evaluator.plandefinition.dstu3.PlanDefinitionProcessor(r,
theEvaluationSettings);
theEvaluationSettings);
}
@Bean
@ConditionalOnProperty(prefix = "hapi.fhir", name = ENABLE_REPOSITORY_VALIDATING_INTERCEPTOR, havingValue = "true")
public RepositoryValidatingInterceptor repositoryValidatingInterceptor(
IRepositoryValidationInterceptorFactory factory) {
return factory.buildUsingStoredStructureDefinitions();
}
@Bean
IRepositoryFactory repositoryFactory(DaoRegistry theDaoRegistry) {
return rd -> new HapiFhirRepository(theDaoRegistry, rd, (RestfulServer) rd.getServer());
}
@Bean
EvaluationSettings evaluationSettings(CqlOptions theCqlOptions, Map<ModelIdentifier, Model> theGlobalModelCache,
Map<org.cqframework.cql.elm.execution.VersionedIdentifier, org.cqframework.cql.elm.execution.Library> theGlobalLibraryCache) {
var evaluationSettings = new EvaluationSettings();
evaluationSettings.setCqlOptions(theCqlOptions);
evaluationSettings.setModelCache(theGlobalModelCache);
evaluationSettings.setLibraryCache(theGlobalLibraryCache);
return evaluationSettings;
}
@Bean
public CqlOptions cqlOptions(CrProperties theCrProperties) {
return theCrProperties.getCqlProperties().getCqlOptions();
}
@Bean
public CrProperties crProperties() {
return new CrProperties();
}
@Bean
public LoggingInterceptor loggingInterceptor(AppProperties appProperties) {
@@ -387,18 +352,7 @@ public class StarterJpaConfig {
IPackageInstallerSvc packageInstallerSvc, ThreadSafeResourceDeleterSvc theThreadSafeResourceDeleterSvc,
ApplicationContext appContext,
Optional<IpsOperationProvider> theIpsOperationProvider,
Optional<ca.uhn.fhir.cr.r4.measure.MeasureOperationsProvider> theR4MeasureOperationProvider,
Optional<ca.uhn.fhir.cr.dstu3.measure.MeasureOperationsProvider> theDstu3MeasureOperationProvider,
Optional<ca.uhn.fhir.cr.dstu3.activitydefinition.ActivityDefinitionOperationsProvider> theDstu3ActivityDefinitionProvider,
Optional<ca.uhn.fhir.cr.r4.activitydefinition.ActivityDefinitionOperationsProvider> theR4ActivityDefinitionProvider,
Optional<ca.uhn.fhir.cr.r4.plandefinition.PlanDefinitionOperationsProvider> theR4PlanDefinitionOperationProvider,
Optional<ca.uhn.fhir.cr.dstu3.plandefinition.PlanDefinitionOperationsProvider> theDstu3PlanDefinitionOperationProvider,
Optional<CareGapsOperationProvider> theR4CareGapsOperationProvider,
Optional<SubmitDataProvider> theR4SubmitDataProvider,
Optional<ca.uhn.fhir.cr.r4.questionnaireresponse.QuestionnaireResponseOperationsProvider> theR4QuestionnaireResponseOperationProvider,
Optional<ca.uhn.fhir.cr.dstu3.questionnaireresponse.QuestionnaireResponseOperationsProvider> theDstu3QuestionnaireResponseOperationProvider,
Optional<ca.uhn.fhir.cr.r4.questionnaire.QuestionnaireOperationsProvider> theR4QuestionnaireOperationsProvider,
Optional<ca.uhn.fhir.cr.dstu3.questionnaire.QuestionnaireOperationsProvider> theDstu3QuestionnaireOperationsProvider) {
Optional<CrOperationLoader> theCrProviderLoader){
RestfulServer fhirServer = new RestfulServer(fhirSystemDao.getContext());
List<String> supportedResourceTypes = appProperties.getSupported_resource_types();
@@ -418,8 +372,9 @@ public class StarterJpaConfig {
if (appProperties.getMdm_enabled()) {
mdmProviderProvider.get().loadProvider();
// theCrProviderLoader.get().loadProvider();
}
if (appProperties.getCr_enabled()){
theCrProviderLoader.get().loadProvider();
}
fhirServer.registerProviders(resourceProviderFactory.createProviders());
@@ -584,6 +539,7 @@ public class StarterJpaConfig {
fhirServer.registerProvider(theIpsOperationProvider.get());
}
return fhirServer;
}

103
src/main/java/ca/uhn/fhir/jpa/starter/cr/CrOperationFactory.java Normal file
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@@ -0,0 +1,103 @@
package ca.uhn.fhir.jpa.starter.cr;
import org.springframework.beans.factory.annotation.Autowired;
import org.springframework.context.ApplicationContext;
import ca.uhn.fhir.context.ConfigurationException;
import ca.uhn.fhir.context.FhirContext;
import ca.uhn.fhir.cr.r4.measure.CareGapsOperationProvider;
import ca.uhn.fhir.cr.r4.measure.SubmitDataProvider;
import ca.uhn.fhir.cr.dstu3.activitydefinition.ActivityDefinitionOperationsProvider;
import ca.uhn.fhir.cr.dstu3.measure.MeasureOperationsProvider;
import ca.uhn.fhir.cr.dstu3.plandefinition.PlanDefinitionOperationsProvider;
import ca.uhn.fhir.cr.dstu3.questionnaire.QuestionnaireOperationsProvider;
import ca.uhn.fhir.cr.dstu3.questionnaireresponse.QuestionnaireResponseOperationsProvider;
public class CrOperationFactory {
@Autowired
private FhirContext myFhirContext;
@Autowired
private ApplicationContext myApplicationContext;
public Object getMeasureOperationsProvider() {
switch (myFhirContext.getVersion().getVersion()) {
case DSTU3:
return myApplicationContext.getBean(MeasureOperationsProvider.class);
case R4:
return myApplicationContext.getBean(ca.uhn.fhir.cr.r4.measure.MeasureOperationsProvider.class);
default:
throw new ConfigurationException("Measure operations are not supported for FHIR version "
+ myFhirContext.getVersion().getVersion());
}
}
public Object getActivityDefinitionProvider() {
switch (myFhirContext.getVersion().getVersion()) {
case DSTU3:
return myApplicationContext.getBean(ActivityDefinitionOperationsProvider.class);
case R4:
return myApplicationContext
.getBean(ca.uhn.fhir.cr.r4.activitydefinition.ActivityDefinitionOperationsProvider.class);
default:
throw new ConfigurationException("ActivityDefinition operations are not supported for FHIR version "
+ myFhirContext.getVersion().getVersion());
}
}
public Object getPlanDefinitionProvider() {
switch (myFhirContext.getVersion().getVersion()) {
case DSTU3:
return myApplicationContext.getBean(PlanDefinitionOperationsProvider.class);
case R4:
return myApplicationContext
.getBean(ca.uhn.fhir.cr.r4.plandefinition.PlanDefinitionOperationsProvider.class);
default:
throw new ConfigurationException("PlanDefinition operations are not supported for FHIR version "
+ myFhirContext.getVersion().getVersion());
}
}
public Object getCareGapsProvider() {
switch (myFhirContext.getVersion().getVersion()) {
case R4:
return myApplicationContext.getBean(CareGapsOperationProvider.class);
default:
throw new ConfigurationException("PlanDefinition operations are not supported for FHIR version "
+ myFhirContext.getVersion().getVersion());
}
}
public Object getSubmitDataProvider() {
switch (myFhirContext.getVersion().getVersion()) {
case R4:
return myApplicationContext.getBean(SubmitDataProvider.class);
default:
throw new ConfigurationException("PlanDefinition operations are not supported for FHIR version "
+ myFhirContext.getVersion().getVersion());
}
}
public Object getQuestionnaireResponseOperationProvider() {
switch (myFhirContext.getVersion().getVersion()) {
case DSTU3:
return myApplicationContext.getBean(QuestionnaireResponseOperationsProvider.class);
case R4:
return myApplicationContext
.getBean(ca.uhn.fhir.cr.r4.questionnaireresponse.QuestionnaireResponseOperationsProvider.class);
default:
throw new ConfigurationException("PlanDefinition operations are not supported for FHIR version "
+ myFhirContext.getVersion().getVersion());
}
}
public Object getQuestionnaireOperationProvider() {
switch (myFhirContext.getVersion().getVersion()) {
case DSTU3:
return myApplicationContext.getBean(QuestionnaireOperationsProvider.class);
case R4:
return myApplicationContext
.getBean(ca.uhn.fhir.cr.r4.questionnaire.QuestionnaireOperationsProvider.class);
default:
throw new ConfigurationException("PlanDefinition operations are not supported for FHIR version "
+ myFhirContext.getVersion().getVersion());
}
}
}

52
src/main/java/ca/uhn/fhir/jpa/starter/cr/CrOperationLoader.java Normal file
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@@ -0,0 +1,52 @@
package ca.uhn.fhir.jpa.starter.cr;
import org.slf4j.Logger;
import org.slf4j.LoggerFactory;
import org.springframework.context.event.ContextRefreshedEvent;
import org.springframework.context.event.EventListener;
import ca.uhn.fhir.context.ConfigurationException;
import ca.uhn.fhir.context.FhirContext;
import ca.uhn.fhir.rest.server.provider.ResourceProviderFactory;
public class CrOperationLoader {
private static final Logger myLogger = LoggerFactory.getLogger(CrOperationLoader.class);
private final FhirContext myFhirContext;
private final ResourceProviderFactory myResourceProviderFactory;
private final CrOperationFactory myCrProviderFactory;
public CrOperationLoader(FhirContext theFhirContext, ResourceProviderFactory theResourceProviderFactory,
CrOperationFactory theCrProviderFactory) {
myFhirContext = theFhirContext;
myResourceProviderFactory = theResourceProviderFactory;
myCrProviderFactory = theCrProviderFactory;
}
@EventListener(ContextRefreshedEvent.class)
public void loadProvider() {
switch (myFhirContext.getVersion().getVersion()) {
case DSTU3:
myLogger.info("Registering DSTU3 Clinical Reasoning Providers");
myResourceProviderFactory.addSupplier(myCrProviderFactory::getMeasureOperationsProvider);
myResourceProviderFactory.addSupplier(myCrProviderFactory::getActivityDefinitionProvider);
myResourceProviderFactory.addSupplier(myCrProviderFactory::getPlanDefinitionProvider);
myResourceProviderFactory.addSupplier(myCrProviderFactory::getQuestionnaireResponseOperationProvider);
myResourceProviderFactory.addSupplier(myCrProviderFactory::getQuestionnaireOperationProvider);
break;
case R4:
myLogger.info("Registering R4 Clinical Reasoning Providers");
myResourceProviderFactory.addSupplier(myCrProviderFactory::getMeasureOperationsProvider);
myResourceProviderFactory.addSupplier(myCrProviderFactory::getActivityDefinitionProvider);
myResourceProviderFactory.addSupplier(myCrProviderFactory::getPlanDefinitionProvider);
myResourceProviderFactory.addSupplier(myCrProviderFactory::getCareGapsProvider);
myResourceProviderFactory.addSupplier(myCrProviderFactory::getSubmitDataProvider);
myResourceProviderFactory.addSupplier(myCrProviderFactory::getQuestionnaireResponseOperationProvider);
myResourceProviderFactory.addSupplier(myCrProviderFactory::getQuestionnaireOperationProvider);
break;
default:
throw new ConfigurationException("Clinical Reasoning not supported for FHIR version "
+ myFhirContext.getVersion().getVersion());
}
}
}

26
src/main/java/ca/uhn/fhir/jpa/starter/cr/CrProviderConfig.java Normal file
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@@ -0,0 +1,26 @@
package ca.uhn.fhir.jpa.starter.cr;
import org.springframework.context.annotation.Bean;
import org.springframework.context.annotation.Conditional;
import org.springframework.context.annotation.Configuration;
import ca.uhn.fhir.context.FhirContext;
import ca.uhn.fhir.rest.server.provider.ResourceProviderFactory;
@Configuration
@Conditional(CrConfigCondition.class)
public class CrProviderConfig {
@Bean
CrOperationFactory crOperationFactory() {
return new CrOperationFactory();
}
@Bean
CrOperationLoader crOperationLoader(FhirContext theFhirContext, ResourceProviderFactory theResourceProviderFactory,
CrOperationFactory theCrlProviderFactory) {
return new CrOperationLoader(theFhirContext, theResourceProviderFactory, theCrlProviderFactory);
}
}

13
src/main/java/ca/uhn/fhir/jpa/starter/cr/StarterCrDstu3Config.java
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@@ -1,7 +1,10 @@
package ca.uhn.fhir.jpa.starter.cr;
import ca.uhn.fhir.context.FhirContext;
import ca.uhn.fhir.cr.config.CrDstu3Config;
import ca.uhn.fhir.jpa.starter.annotations.OnDSTU3Condition;
import ca.uhn.fhir.rest.server.provider.ResourceProviderFactory;
import org.springframework.context.annotation.Bean;
import org.springframework.context.annotation.Conditional;
import org.springframework.context.annotation.Configuration;
import org.springframework.context.annotation.Import;
@@ -10,4 +13,14 @@ import org.springframework.context.annotation.Import;
@Conditional({OnDSTU3Condition.class, CrConfigCondition.class})
@Import({CrDstu3Config.class})
public class StarterCrDstu3Config {
@Bean
CrOperationFactory crOperationFactory() {
return new CrOperationFactory();
}
@Bean
CrOperationLoader crOperationLoader(FhirContext theFhirContext, ResourceProviderFactory theResourceProviderFactory,
CrOperationFactory theCrlProviderFactory) {
return new CrOperationLoader(theFhirContext, theResourceProviderFactory, theCrlProviderFactory);
}
}

1
src/test/java/ca/uhn/fhir/jpa/starter/ExampleServerDstu2IT.java
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@@ -11,6 +11,7 @@ import org.junit.jupiter.api.Test;
import org.junit.jupiter.api.extension.ExtendWith;
import org.springframework.boot.test.context.SpringBootTest;
import org.springframework.boot.web.server.LocalServerPort;
import org.springframework.test.annotation.DirtiesContext;
import org.springframework.test.context.junit.jupiter.SpringExtension;
import static org.junit.jupiter.api.Assertions.assertEquals;

1
src/test/java/ca/uhn/fhir/jpa/starter/ExampleServerDstu3IT.java
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@@ -22,6 +22,7 @@ import org.springframework.beans.factory.annotation.Autowired;
import org.springframework.boot.test.context.SpringBootTest;
import org.springframework.boot.web.server.LocalServerPort;
import org.springframework.core.io.ClassPathResource;
import org.springframework.test.annotation.DirtiesContext;
import org.springframework.test.context.junit.jupiter.SpringExtension;
import java.io.File;