No DAO exists for resource type class Patient/Task > JPA server (v8.2.0) forcefully requires Patient and Task in supported_resource_types

[PietroG93]

Hi!

Limiting the loaded resource types via supported_resource_types in application.yml causes a startup failure unless both Patient and Task are included.

Adding Patient to supported_resource_types immediately triggers the same error for Task, forcing me to include both to start the server. It worked well with version 7.6.0 .

I just downloaded the code base from master branch (version 8.2.0) and set up only the following lines in application.yml:

DB Config:

Supported Resources Config:

The selected version is Fhir R4, if I set R5, the problem does not occur and the server works fine without Patient and Task enabled.

The error is:

org.springframework.beans.factory.BeanCreationException: Error creating bean with name 'resourceMergeService' defined in class path resource [ca/uhn/fhir/jpa/config/r4/JpaR4Config.class]: Failed to instantiate [ca.uhn.fhir.jpa.provider.merge.ResourceMergeService]: Factory method 'resourceMergeService' threw exception with message: No DAO exists for resource type class org.hl7.fhir.r4.model.Patient - Have: {AuditEvent=ca.uhn.fhir.jpa.dao.JpaResourceDao@3c5955bc, ConceptMap=ca.uhn.fhir.jpa.dao.JpaResourceDaoConceptMap@16606fc6, SearchParameter=ca.uhn.fhir.jpa.dao.JpaResourceDaoSearchParameter@6c23df23, CodeSystem=ca.uhn.fhir.jpa.dao.JpaResourceDaoCodeSystem@1f2127ad, ValueSet=ca.uhn.fhir.jpa.dao.JpaResourceDaoValueSet@2485a231}
        at org.springframework.beans.factory.support.ConstructorResolver.instantiate(ConstructorResolver.java:648)
        at org.springframework.beans.factory.support.ConstructorResolver.instantiateUsingFactoryMethod(ConstructorResolver.java:636)
        at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.instantiateUsingFactoryMethod(AbstractAutowireCapableBeanFactory.java:1355)
        at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.createBeanInstance(AbstractAutowireCapableBeanFactory.java:1185)
        at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.doCreateBean(AbstractAutowireCapableBeanFactory.java:562)
        at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.createBean(AbstractAutowireCapableBeanFactory.java:522)
        at org.springframework.beans.factory.support.AbstractBeanFactory.lambda$doGetBean$0(AbstractBeanFactory.java:337)
        at org.springframework.beans.factory.support.DefaultSingletonBeanRegistry.getSingleton(DefaultSingletonBeanRegistry.java:234)
        at org.springframework.beans.factory.support.AbstractBeanFactory.doGetBean(AbstractBeanFactory.java:335)
        at org.springframework.beans.factory.support.AbstractBeanFactory.getBean(AbstractBeanFactory.java:200)
        at org.springframework.beans.factory.support.DefaultListableBeanFactory.preInstantiateSingletons(DefaultListableBeanFactory.java:975)
        at org.springframework.context.support.AbstractApplicationContext.finishBeanFactoryInitialization(AbstractApplicationContext.java:971)
        at org.springframework.context.support.AbstractApplicationContext.refresh(AbstractApplicationContext.java:625)
        at org.springframework.boot.web.servlet.context.ServletWebServerApplicationContext.refresh(ServletWebServerApplicationContext.java:146)
        at org.springframework.boot.SpringApplication.refresh(SpringApplication.java:755)
        at org.springframework.boot.SpringApplication.refreshContext(SpringApplication.java:456)
        at org.springframework.boot.SpringApplication.run(SpringApplication.java:335)
        at org.springframework.boot.SpringApplication.run(SpringApplication.java:1364)
        at org.springframework.boot.SpringApplication.run(SpringApplication.java:1353)
        at ca.uhn.fhir.jpa.starter.Application.main(Application.java:46)
Caused by: org.springframework.beans.BeanInstantiationException: Failed to instantiate [ca.uhn.fhir.jpa.provider.merge.ResourceMergeService]: Factory method 'resourceMergeService' threw exception with message: No DAO exists for resource type class org.hl7.fhir.r4.model.Patient - Have: {AuditEvent=ca.uhn.fhir.jpa.dao.JpaResourceDao@3c5955bc, ConceptMap=ca.uhn.fhir.jpa.dao.JpaResourceDaoConceptMap@16606fc6, SearchParameter=ca.uhn.fhir.jpa.dao.JpaResourceDaoSearchParameter@6c23df23, CodeSystem=ca.uhn.fhir.jpa.dao.JpaResourceDaoCodeSystem@1f2127ad, ValueSet=ca.uhn.fhir.jpa.dao.JpaResourceDaoValueSet@2485a231}
        at org.springframework.beans.factory.support.SimpleInstantiationStrategy.instantiate(SimpleInstantiationStrategy.java:178)
        at org.springframework.beans.factory.support.ConstructorResolver.instantiate(ConstructorResolver.java:644)
        ... 19 common frames omitted

Caused by: java.lang.NullPointerException: No DAO exists for resource type class org.hl7.fhir.r4.model.Patient - Have: {AuditEvent=ca.uhn.fhir.jpa.dao.JpaResourceDao@3c5955bc, ConceptMap=ca.uhn.fhir.jpa.dao.JpaResourceDaoConceptMap@16606fc6, SearchParameter=ca.uhn.fhir.jpa.dao.JpaResourceDaoSearchParameter@6c23df23, CodeSystem=ca.uhn.fhir.jpa.dao.JpaResourceDaoCodeSystem@1f2127ad, ValueSet=ca.uhn.fhir.jpa.dao.JpaResourceDaoValueSet@2485a231}
        at java.base/java.util.Objects.requireNonNull(Objects.java:334)
        at org.apache.commons.lang3.Validate.notNull(Validate.java:1037)
        at ca.uhn.fhir.jpa.api.dao.DaoRegistry.getResourceDao(DaoRegistry.java:116)
        at ca.uhn.fhir.jpa.provider.merge.ResourceMergeService.<init>(ResourceMergeService.java:79)
        at ca.uhn.fhir.jpa.config.r4.JpaR4Config.resourceMergeService(JpaR4Config.java:119)
        at ca.uhn.fhir.jpa.config.r4.JpaR4Config$$SpringCGLIB$$0.CGLIB$resourceMergeService$0(<generated>)
        at ca.uhn.fhir.jpa.config.r4.JpaR4Config$$SpringCGLIB$$FastClass$$1.invoke(<generated>)
        at org.springframework.cglib.proxy.MethodProxy.invokeSuper(MethodProxy.java:258)
        at org.springframework.context.annotation.ConfigurationClassEnhancer$BeanMethodInterceptor.intercept(ConfigurationClassEnhancer.java:348)
        at ca.uhn.fhir.jpa.config.r4.JpaR4Config$$SpringCGLIB$$0.resourceMergeService(<generated>)
        at java.base/jdk.internal.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
        at java.base/jdk.internal.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:77)
        at java.base/jdk.internal.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
        at java.base/java.lang.reflect.Method.invoke(Method.java:568)
        at org.springframework.beans.factory.support.SimpleInstantiationStrategy.instantiate(SimpleInstantiationStrategy.java:146)
        ... 20 common frames omitted

A Strange behavior that i saw but i don't know if it is related to, is that the server logs the initialization of both R4 and R5 context but on 7.6.0 this didn't happen.

What can i do?
Is this a bug?

[PietroG93]

Hi all, do you have any news about this issue?

[XcrigX]

You might need to submit this with the parent HAPI project?

It's trying to instantiate the ResourceMergeService here:
https://github.com/hapifhir/hapi-fhir/blob/00320595fc7941f70e1887d0c03ecd562e6fbb8c/hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/config/r4/JpaR4Config.java#L136

That service is trying to load the Patient and Task DAOs via the DaoRegistry here:
https://github.com/hapifhir/hapi-fhir/blob/00320595fc7941f70e1887d0c03ecd562e6fbb8c/hapi-fhir-jpaserver-base/src/main/java/ca/uhn/fhir/jpa/provider/merge/ResourceMergeService.java#L92-L93

The DaoRegistry however, is sensitive to the supported resource types:
https://github.com/hapifhir/hapi-fhir/blob/00320595fc7941f70e1887d0c03ecd562e6fbb8c/hapi-fhir-storage/src/main/java/ca/uhn/fhir/jpa/api/dao/DaoRegistry.java

I don't see any easy workaround off the bat.