SpringBoot HAPI FHIR JPA Server

[kevin.m...@xml-solutions.com]

Hi,

Has anyone got this working? What I want to do is configure JPA server to run in an embedded tomcat. 

I've found this http://stackoverflow.com/questions/41033123/how-can-i-base-my-spring-boot-app-on-an-external-servlet

but I couldn't get it to work. 

I have springBoot working with hawtio, Swagger, Apache Camel and HAPI FHIR Libs here https://github.com/KevinMayfield/FHIRTest/tree/master/eRSSwagger but I want to replace the external server calls with an embedded one.

Kev

[mcc...@gmail.com]

This doesn't use the Hapi JPA server, but does illustrate the Spring Config to register a Hapi server to run in embedded Tomcat with SpringBoot. 

import java.util.Map;

import javax.servlet.ServletException;

import org.springframework.beans.factory.annotation.Autowired;

import org.springframework.boot.autoconfigure.EnableAutoConfiguration;

import org.springframework.boot.context.embedded.FilterRegistrationBean;

import org.springframework.boot.context.embedded.ServletRegistrationBean;

import org.springframework.context.ApplicationContext;

import org.springframework.context.annotation.Bean;

import org.springframework.context.annotation.ComponentScan;

import org.springframework.context.annotation.Configuration;

import org.springframework.web.cors.CorsConfiguration;

import org.springframework.web.cors.UrlBasedCorsConfigurationSource;

import org.springframework.web.filter.CorsFilter;

import ca.uhn.fhir.context.FhirContext;

import ca.uhn.fhir.rest.server.IResourceProvider;

import ca.uhn.fhir.rest.server.RestfulServer;

@Configuration

@EnableAutoConfiguration

//comp scan to find package of resource providers; if you want to auto detect them

@ComponentScan(basePackageClasses = { path.to.package.resourceproviers.myPatientProvider.class })

public class FhirServerV1Config {

@Autowired

private ApplicationContext appContext;

@Bean

public FhirServer fhirServlet(FhirContext fhirCtx) {

return new FhirServer(fhirCtx) {

private static final long serialVersionUID = 1L;

@Override

protected void initialize() throws ServletException {

        //register resource providers manually or by discovering them through component scanning

        Map<String, IResourceProvider> resourceProviders = appContext.getBeansOfType(IResourceProvider.class);

setResourceProviders(resourceProviders.values());

Map<String, IServerBaseAware> serverAwares = appContext.getBeansOfType(IServerBaseAware.class);

for (IServerBaseAware serverAware : serverAwares.values())

serverAware.setServerBase(this);

}

};

}

@Bean

public ServletRegistrationBean fhirServletRegistrationBean(RestfulServer fhirServlet) {

ServletRegistrationBean s = new ServletRegistrationBean(fhirServlet, "/fhir/mybase/*");

s.setName("my server");

return s;

}

/**

* This enables CORS support

* source: https://spring.io/blog/2015/06/08/cors-support-in-spring-framework

*/

@Bean

public FilterRegistrationBean corsFilter() {

UrlBasedCorsConfigurationSource source = new UrlBasedCorsConfigurationSource();

CorsConfiguration config = new CorsConfiguration();

config.setAllowCredentials(true);

//config.addAllowedOrigin("http://example.com");

config.addAllowedOrigin("*");

config.addAllowedHeader("*");

config.addAllowedMethod("*");

source.registerCorsConfiguration("/**", config);

FilterRegistrationBean bean = new FilterRegistrationBean(new CorsFilter(source));

bean.setOrder(0);

return bean;

}

}

 

[contac...@gmail.com]

Hi,

I tried both the method documented in the above link and also tried what  mcc suggested, I keep getting the error:

org.springframework.beans.factory.NoSuchBeanDefinitionException: No bean named 'myResourceProvidersDstu3' available

at org.springframework.beans.factory.support.DefaultListableBeanFactory.getBeanDefinition(DefaultListableBeanFactory.java:687) ~[spring-beans-4.3.7.RELEASE.jar:4.3.7.RELEASE]

at org.springframework.beans.factory.support.AbstractBeanFactory.getMergedLocalBeanDefinition(AbstractBeanFactory.java:1207) ~[spring-beans-4.3.7.RELEASE.jar:4.3.7.RELEASE]

Can someone post the config we need to do to make it work in spring boot.

Thanks

Ravi Kuchi

[kevin.m...@xml-solutions.com]

I managed to get past that part. I'll look at getting my code on github tomorrow, it's not working as I had problems with web application context.  Hopefully mccraig's post has the missing link

thanks

[mcc...@gmail.com]

NOTE: My code above is missing a Bean definition for the FhirContext. You will need to create a Bean to define it. 

And the fhirServlet bean initialization will need to be customized to fit your needs. In my case, I am defining components for all the ResourceProviders elsewhere in the codebase, so the code above dynamically discovers all the ResourceProviders and registers them to the FhirServer. Other use cases will likely be different, and I assume the JPAServer code has it's own ResouceProviders which are likely not annotated such that Spring can discover them in the same way. 

[kevin.m...@xml-solutions.com]

Many many thanks, that worked.

Seems the problem I had was how coded the servlet registration bean.

So this section fixed it

@Bean

public ServletRegistrationBean fhirServletRegistrationBean(RestfulServer fhirServlet) {

ServletRegistrationBean s = new ServletRegistrationBean(fhirServlet, "/fhir/mybase/*");

s.setName("my server");

return s;

}

[kevin.m...@xml-solutions.com]

Had the same problem with providers which I resolved by dropping my HAPI FHIR version to 2.2 (need to investigate but it seems to be related to Hibernate Search 5.7 and spring boot 1.5.2

See 

 

http://stackoverflow.com/questions/43018832/spring-boot-with-hibernate-search-cant-find-org-hibernate-query-parametermetada

I've put my code on GitHub https://github.com/KevinMayfield/careconnect-hapi-jpa-dstu2-springboot

Which uses Apache Derby, Hawtio, embedded tomcat and a Dstu2 HAPI JPA Server. It doesn't include the HAPI FHIR overlay. 

 

Kev