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ahdis / matchbox

Apache License 2.0
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FHIR Validation problem #135

Closed oliveregger closed 1 year ago

oliveregger commented 1 year ago

NP exception with Bundle-2Doc-ChlamydiaTrachomatis.json

Validate ServiceRequest against http://fhir.ch/ig/ch-elm/StructureDefinition/ch-elm-servicerequest-laboratory-order 1.0.0-trialuse.Validate ServiceRequest against http://hl7.eu/fhir/laboratory/StructureDefinition/ServiceRequest-eu-lab current..........20..........40..........60..........80.........

...2023-09-18 11:38:12.267 [http-nio-8080-exec-1] ERROR c.a.f.h.j.v.ValidationProvider [ValidationProvider.java:230] Unknown FHIRVersion code '0.0.13' org.hl7.fhir.exceptions.FHIRException: Unknown FHIRVersion code '0.0.13' at org.hl7.fhir.r5.model.Enumerations$FHIRVersion.fromCode(Enumerations.java:12157) at org.hl7.fhir.r5.utils.XVerExtensionManager.makeDefinition(XVerExtensionManager.java:97) at org.hl7.fhir.validation.BaseValidator.xverDefn(BaseValidator.java:1105) at org.hl7.fhir.validation.BaseValidator.getXverExt(BaseValidator.java:1155) at org.hl7.fhir.validation.instance.InstanceValidator.checkExtension(InstanceValidator.java:1884) at org.hl7.fhir.validation.instance.InstanceValidator.checkChildByDefinition(InstanceValidator.java:5664) at org.hl7.fhir.validation.instance.InstanceValidator.checkChild(InstanceValidator.java:5491) at org.hl7.fhir.validation.instance.InstanceValidator.validateElement(InstanceValidator.java:5439) at org.hl7.fhir.validation.instance.InstanceValidator.startInner(InstanceValidator.java:5091) at org.hl7.fhir.validation.instance.InstanceValidator.start(InstanceValidator.java:4884) at org.hl7.fhir.validation.instance.InstanceValidator.validateResource(InstanceValidator.java:6347) at org.hl7.fhir.validation.instance.InstanceValidator.validateContains(InstanceValidator.java:5315) at org.hl7.fhir.validation.instance.InstanceValidator.checkChildByDefinition(InstanceValidator.java:5673) at org.hl7.fhir.validation.instance.InstanceValidator.checkChild(InstanceValidator.java:5491) at org.hl7.fhir.validation.instance.InstanceValidator.validateElement(InstanceValidator.java:5439) at org.hl7.fhir.validation.instance.InstanceValidator.checkChildByDefinition(InstanceValidator.java:5691) at org.hl7.fhir.validation.instance.InstanceValidator.checkChild(InstanceValidator.java:5491) at org.hl7.fhir.validation.instance.InstanceValidator.validateElement(InstanceValidator.java:5439) at org.hl7.fhir.validation.instance.InstanceValidator.startInner(InstanceValidator.java:5091) at org.hl7.fhir.validation.instance.InstanceValidator.start(InstanceValidator.java:4884) at org.hl7.fhir.validation.instance.InstanceValidator.validateResource(InstanceValidator.java:6347) at org.hl7.fhir.validation.instance.InstanceValidator.validate(InstanceValidator.java:908) at org.hl7.fhir.validation.instance.InstanceValidator.validate(InstanceValidator.java:742) at ch.ahdis.matchbox.engine.MatchboxEngine.validate(MatchboxEngine.java:450) at ch.ahdis.fhir.hapi.jpa.validation.ValidationProvider.validateWithResult(ValidationProvider.java:194) at ch.ahdis.fhir.hapi.jpa.validation.ValidationProvider.validate(ValidationProvider.java:184) at java.base/jdk.internal.reflect.DirectMethodHandleAccessor.invoke(DirectMethodHandleAccessor.java:104) at java.base/java.lang.reflect.Method.invoke(Method.java:578) at ca.uhn.fhir.rest.server.method.BaseMethodBinding.invokeServerMethod(BaseMethodBinding.java:264) at ca.uhn.fhir.rest.server.method.OperationMethodBinding.invokeServer(OperationMethodBinding.java:399) at ca.uhn.fhir.rest.server.method.BaseResourceReturningMethodBinding.doInvokeServer(BaseResourceReturningMethodBinding.java:146) at ca.uhn.fhir.rest.server.method.BaseResourceReturningMethodBinding.invokeServer(BaseResourceReturningMethodBinding.java:275) at ca.uhn.fhir.rest.server.method.OperationMethodBinding.invokeServer(OperationMethodBinding.java:356) at ca.uhn.fhir.rest.server.RestfulServer.handleRequest(RestfulServer.java:1190) at ch.ahdis.matchbox.MatchboxRestfulServer.handleRequest(MatchboxRestfulServer.java:33) at ca.uhn.fhir.rest.server.RestfulServer.doPost(RestfulServer.java:432) at ca.uhn.fhir.rest.server.RestfulServer.service(RestfulServer.java:1921) at javax.servlet.http.HttpServlet.service(HttpServlet.java:750) at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:209) at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:153) at org.apache.tomcat.websocket.server.WsFilter.doFilter(WsFilter.java:51) at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:178) at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:153) at org.springframework.web.servlet.resource.ResourceUrlEncodingFilter.doFilter(ResourceUrlEncodingFilter.java:67) at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:178) at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:153) at org.springframework.web.filter.RequestContextFilter.doFilterInternal(RequestContextFilter.java:100) at org.springframework.web.filter.OncePerRequestFilter.doFilter(OncePerRequestFilter.java:117) at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:178) at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:153) at org.springframework.web.filter.FormContentFilter.doFilterInternal(FormContentFilter.java:93) at org.springframework.web.filter.OncePerRequestFilter.doFilter(OncePerRequestFilter.java:117) at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:178) at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:153) at org.springframework.boot.actuate.metrics.web.servlet.WebMvcMetricsFilter.doFilterInternal(WebMvcMetricsFilter.java:96) at org.springframework.web.filter.OncePerRequestFilter.doFilter(OncePerRequestFilter.java:117) at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:178) at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:153) at org.springframework.web.filter.CharacterEncodingFilter.doFilterInternal(CharacterEncodingFilter.java:201) at org.springframework.web.filter.OncePerRequestFilter.doFilter(OncePerRequestFilter.java:117) at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:178) at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:153) at org.apache.catalina.core.StandardWrapperValve.invoke(StandardWrapperValve.java:167) at org.apache.catalina.core.StandardContextValve.invoke(StandardContextValve.java:90) at org.apache.catalina.authenticator.AuthenticatorBase.invoke(AuthenticatorBase.java:481) at org.apache.catalina.core.StandardHostValve.invoke(StandardHostValve.java:130) at org.apache.catalina.valves.ErrorReportValve.invoke(ErrorReportValve.java:93) at org.apache.catalina.core.StandardEngineValve.invoke(StandardEngineValve.java:74) at org.apache.catalina.valves.RemoteIpValve.invoke(RemoteIpValve.java:768) at org.apache.catalina.connector.CoyoteAdapter.service(CoyoteAdapter.java:343) at org.apache.coyote.http11.Http11Processor.service(Http11Processor.java:390) at org.apache.coyote.AbstractProcessorLight.process(AbstractProcessorLight.java:63) at org.apache.coyote.AbstractProtocol$ConnectionHandler.process(AbstractProtocol.java:926) at org.apache.tomcat.util.net.NioEndpoint$SocketProcessor.doRun(NioEndpoint.java:1791) at org.apache.tomcat.util.net.SocketProcessorBase.run(SocketProcessorBase.java:52) at org.apache.tomcat.util.threads.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1191) at org.apache.tomcat.util.threads.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:659) at org.apache.tomcat.util.threads.TaskThread$WrappingRunnable.run(TaskThread.java:61) at java.base/java.lang.Thread.run(Thread.java:1623) 2023-09-18 11:38:12.268 [http-nio-8080-exec-1] INFO c.a.f.h.j.v.ValidationProvider [ValidationProvider.java:273] Validation time: 00:00:53.654 2023-09-18 11:38:12.276 [http-nio-8080-exec-1] ERROR c.u.f.r.s.i.ExceptionHandlingInterceptor [ExceptionHandlingInterceptor.java:198] Failure during REST processing ca.uhn.fhir.rest.server.exceptions.InternalErrorException: HAPI-0389: Failed to call access method: java.lang.NullPointerException: Cannot invoke "ca.uhn.fhir.validation.ValidationResult.getMessages()" because "result" is null at ca.uhn.fhir.rest.server.method.BaseMethodBinding.invokeServerMethod(BaseMethodBinding.java:272) at ca.uhn.fhir.rest.server.method.OperationMethodBinding.invokeServer(OperationMethodBinding.java:399) at ca.uhn.fhir.rest.server.method.BaseResourceReturningMethodBinding.doInvokeServer(BaseResourceReturningMethodBinding.java:146) at ca.uhn.fhir.rest.server.method.BaseResourceReturningMethodBinding.invokeServer(BaseResourceReturningMethodBinding.java:275) at ca.uhn.fhir.rest.server.method.OperationMethodBinding.invokeServer(OperationMethodBinding.java:356) at ca.uhn.fhir.rest.server.RestfulServer.handleRequest(RestfulServer.java:1190) at ch.ahdis.matchbox.MatchboxRestfulServer.handleRequest(MatchboxRestfulServer.java:33) at ca.uhn.fhir.rest.server.RestfulServer.doPost(RestfulServer.java:432) at ca.uhn.fhir.rest.server.RestfulServer.service(RestfulServer.java:1921) at javax.servlet.http.HttpServlet.service(HttpServlet.java:750) at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:209) at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:153) at org.apache.tomcat.websocket.server.WsFilter.doFilter(WsFilter.java:51) at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:178) at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:153) at org.springframework.web.servlet.resource.ResourceUrlEncodingFilter.doFilter(ResourceUrlEncodingFilter.java:67) at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:178) at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:153) at org.springframework.web.filter.RequestContextFilter.doFilterInternal(RequestContextFilter.java:100) at org.springframework.web.filter.OncePerRequestFilter.doFilter(OncePerRequestFilter.java:117) at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:178) at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:153) at org.springframework.web.filter.FormContentFilter.doFilterInternal(FormContentFilter.java:93) at org.springframework.web.filter.OncePerRequestFilter.doFilter(OncePerRequestFilter.java:117) at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:178) at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:153) at org.springframework.boot.actuate.metrics.web.servlet.WebMvcMetricsFilter.doFilterInternal(WebMvcMetricsFilter.java:96) at org.springframework.web.filter.OncePerRequestFilter.doFilter(OncePerRequestFilter.java:117) at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:178) at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:153) at org.springframework.web.filter.CharacterEncodingFilter.doFilterInternal(CharacterEncodingFilter.java:201) at org.springframework.web.filter.OncePerRequestFilter.doFilter(OncePerRequestFilter.java:117) at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:178) at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:153) at org.apache.catalina.core.StandardWrapperValve.invoke(StandardWrapperValve.java:167) at org.apache.catalina.core.StandardContextValve.invoke(StandardContextValve.java:90) at org.apache.catalina.authenticator.AuthenticatorBase.invoke(AuthenticatorBase.java:481) at org.apache.catalina.core.StandardHostValve.invoke(StandardHostValve.java:130) at org.apache.catalina.valves.ErrorReportValve.invoke(ErrorReportValve.java:93) at org.apache.catalina.core.StandardEngineValve.invoke(StandardEngineValve.java:74) at org.apache.catalina.valves.RemoteIpValve.invoke(RemoteIpValve.java:768) at org.apache.catalina.connector.CoyoteAdapter.service(CoyoteAdapter.java:343) at org.apache.coyote.http11.Http11Processor.service(Http11Processor.java:390) at org.apache.coyote.AbstractProcessorLight.process(AbstractProcessorLight.java:63) at org.apache.coyote.AbstractProtocol$ConnectionHandler.process(AbstractProtocol.java:926) at org.apache.tomcat.util.net.NioEndpoint$SocketProcessor.doRun(NioEndpoint.java:1791) at org.apache.tomcat.util.net.SocketProcessorBase.run(SocketProcessorBase.java:52) at org.apache.tomcat.util.threads.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1191) at org.apache.tomcat.util.threads.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:659) at org.apache.tomcat.util.threads.TaskThread$WrappingRunnable.run(TaskThread.java:61) at java.base/java.lang.Thread.run(Thread.java:1623) Caused by: java.lang.reflect.InvocationTargetException: null at java.base/jdk.internal.reflect.DirectMethodHandleAccessor.invoke(DirectMethodHandleAccessor.java:116) at java.base/java.lang.reflect.Method.invoke(Method.java:578) at ca.uhn.fhir.rest.server.method.BaseMethodBinding.invokeServerMethod(BaseMethodBinding.java:264) ... 50 common frames omitted Caused by: java.lang.NullPointerException: Cannot invoke "ca.uhn.fhir.validation.ValidationResult.getMessages()" because "result" is null at ch.ahdis.fhir.hapi.jpa.validation.ValidationProvider.getOperationOutcome(ValidationProvider.java:291) at ch.ahdis.fhir.hapi.jpa.validation.ValidationProvider.validate(ValidationProvider.java:185) at java.base/jdk.internal.reflect.DirectMethodHandleAccessor.invoke(DirectMethodHandleAccessor.java:104) ... 52 common frames omitted

oliveregger commented 1 year ago

powered by matchbox-engine 3.4.2, hapi-fhir 6.8.0 and org.hl7.fhir.core 6.0.22

oliveregger commented 1 year ago

issue is 

      "id" : "2f69f609-e3bf-4863-bc42-3cbf0568cab1",
      "extension" : [{
        "url" : "http://hl7.org/fhir/5.0/StructureDefinition/extension-DiagnosticReport.composition",
        "valueReference" : {
          "reference" : "urn:uuid:da065461-34df-4e2e-b69f-4181908575d0",
          "type" : "Composition"
        }
      }],
oliveregger commented 1 year ago

over the API the following error is transmitted:

"resourceType": "OperationOutcome", "issue": [ { "severity": "error", "code": "processing", "diagnostics": "HAPI-0389: Failed to call access method: java.lang.NullPointerException: Cannot invoke \"ca.uhn.fhir.validation.ValidationResult.getMessages()\" because \"result\" is null" } ] }