Stream: hapi
Topic: Stackoverflow JPA-Starter
David Meyers (Feb 14 2022 at 09:14):
Hello all,
I am reliably getting stackoverflow errors (see log) on a transaction import of just under 7000 resources using the HAPI-FHIR-JPA starter 5.5 and a mysql database. Batch imports are no problem. But what surprises me is that the overflow error occurs directly after a few seconds and not as expected after some time, once the server is at the limit.
Any idea how I can fix this?
The server on which the HAPI is running has only 8 GB Ram, in addition the mentioned Mysql-Db is running there.
I already tried to increase the Java heapsize with:
export MAVEN_OPTS="-Xmx4096m -Xms1024m" && mvn jetty:run
but without noticeable success.
Here is the top of my stacktrace:
2022-02-14 10:13:18.346 [qtp37590923-18] ERROR c.u.f.r.s.i.ExceptionHandlingInterceptor [ExceptionHandlingInterceptor.java:140] Failure during REST processing
ca.uhn.fhir.rest.server.exceptions.InternalErrorException: Failed to call access method: java.lang.StackOverflowError
at ca.uhn.fhir.rest.server.method.BaseMethodBinding.invokeServerMethod(BaseMethodBinding.java:272)
at ca.uhn.fhir.rest.server.method.TransactionMethodBinding.invokeServer(TransactionMethodBinding.java:116)
at ca.uhn.fhir.rest.server.method.BaseResourceReturningMethodBinding.doInvokeServer(BaseResourceReturningMethodBinding.java:326)
at ca.uhn.fhir.rest.server.method.BaseResourceReturningMethodBinding.invokeServer(BaseResourceReturningMethodBinding.java:434)
at ca.uhn.fhir.rest.server.RestfulServer.handleRequest(RestfulServer.java:1152)
at ca.uhn.fhir.rest.server.RestfulServer.doPost(RestfulServer.java:423)
at ca.uhn.fhir.rest.server.RestfulServer.service(RestfulServer.java:1861)
at javax.servlet.http.HttpServlet.service(HttpServlet.java:790)
at org.eclipse.jetty.servlet.ServletHolder.handle(ServletHolder.java:799)
at org.eclipse.jetty.servlet.ServletHandler$ChainEnd.doFilter(ServletHandler.java:1626)
at org.eclipse.jetty.websocket.server.WebSocketUpgradeFilter.doFilter(WebSocketUpgradeFilter.java:228)
at org.eclipse.jetty.servlet.FilterHolder.doFilter(FilterHolder.java:193)
at org.eclipse.jetty.servlet.ServletHandler$Chain.doFilter(ServletHandler.java:1601)
at org.springframework.boot.web.servlet.support.ErrorPageFilter.doFilter(ErrorPageFilter.java:126)
at org.springframework.boot.web.servlet.support.ErrorPageFilter.access$000(ErrorPageFilter.java:64)
at org.springframework.boot.web.servlet.support.ErrorPageFilter$1.doFilterInternal(ErrorPageFilter.java:101)
at org.springframework.web.filter.OncePerRequestFilter.doFilter(OncePerRequestFilter.java:119)
at org.springframework.boot.web.servlet.support.ErrorPageFilter.doFilter(ErrorPageFilter.java:119)
at org.eclipse.jetty.servlet.FilterHolder.doFilter(FilterHolder.java:193)
at org.eclipse.jetty.servlet.ServletHandler$Chain.doFilter(ServletHandler.java:1601)
at org.springframework.web.filter.CharacterEncodingFilter.doFilterInternal(CharacterEncodingFilter.java:201)
at org.springframework.web.filter.OncePerRequestFilter.doFilter(OncePerRequestFilter.java:119)
at org.eclipse.jetty.servlet.FilterHolder.doFilter(FilterHolder.java:193)
at org.eclipse.jetty.servlet.ServletHandler$Chain.doFilter(ServletHandler.java:1601)
at org.eclipse.jetty.servlet.ServletHandler.doHandle(ServletHandler.java:548)
at org.eclipse.jetty.server.handler.ScopedHandler.handle(ScopedHandler.java:143)
at org.eclipse.jetty.security.SecurityHandler.handle(SecurityHandler.java:602)
at org.eclipse.jetty.server.handler.HandlerWrapper.handle(HandlerWrapper.java:127)
at org.eclipse.jetty.server.handler.ScopedHandler.nextHandle(ScopedHandler.java:235)
at org.eclipse.jetty.server.session.SessionHandler.doHandle(SessionHandler.java:1624)
at org.eclipse.jetty.server.handler.ScopedHandler.nextHandle(ScopedHandler.java:233)
at org.eclipse.jetty.server.handler.ContextHandler.doHandle(ContextHandler.java:1434)
at org.eclipse.jetty.server.handler.ScopedHandler.nextScope(ScopedHandler.java:188)
at org.eclipse.jetty.servlet.ServletHandler.doScope(ServletHandler.java:501)
at org.eclipse.jetty.server.session.SessionHandler.doScope(SessionHandler.java:1594)
at org.eclipse.jetty.server.handler.ScopedHandler.nextScope(ScopedHandler.java:186)
at org.eclipse.jetty.server.handler.ContextHandler.doScope(ContextHandler.java:1349)
at org.eclipse.jetty.server.handler.ScopedHandler.handle(ScopedHandler.java:141)
at org.eclipse.jetty.server.handler.ContextHandlerCollection.handle(ContextHandlerCollection.java:191)
at org.eclipse.jetty.server.handler.HandlerCollection.handle(HandlerCollection.java:146)
at org.eclipse.jetty.server.handler.HandlerWrapper.handle(HandlerWrapper.java:127)
at org.eclipse.jetty.server.Server.handle(Server.java:516)
at org.eclipse.jetty.server.HttpChannel.lambda$handle$1(HttpChannel.java:388)
at org.eclipse.jetty.server.HttpChannel.dispatch(HttpChannel.java:633)
at org.eclipse.jetty.server.HttpChannel.handle(HttpChannel.java:380)
at org.eclipse.jetty.server.HttpConnection.onFillable(HttpConnection.java:277)
at org.eclipse.jetty.io.AbstractConnection$ReadCallback.succeeded(AbstractConnection.java:311)
at org.eclipse.jetty.io.FillInterest.fillable(FillInterest.java:105)
at org.eclipse.jetty.io.ChannelEndPoint$1.run(ChannelEndPoint.java:104)
at org.eclipse.jetty.util.thread.QueuedThreadPool.runJob(QueuedThreadPool.java:883)
at org.eclipse.jetty.util.thread.QueuedThreadPool$Runner.run(QueuedThreadPool.java:1034)
at java.base/java.lang.Thread.run(Thread.java:829)
Caused by: java.lang.reflect.InvocationTargetException: null
at java.base/jdk.internal.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
at java.base/jdk.internal.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:62)
at java.base/jdk.internal.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
at java.base/java.lang.reflect.Method.invoke(Method.java:566)
at ca.uhn.fhir.rest.server.method.BaseMethodBinding.invokeServerMethod(BaseMethodBinding.java:264)
... 51 common frames omitted
Caused by: java.lang.StackOverflowError: null
at java.base/java.lang.Class.newInstance(Class.java:576)
at org.hibernate.hql.internal.ast.SqlASTFactory.create(SqlASTFactory.java:249)
at antlr.ASTFactory.create(ASTFactory.java:153)
at antlr.ASTFactory.create(ASTFactory.java:186)
Last updated: Apr 12 2022 at 19:14 UTC
