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UpdateLimsSampleLevelSequencingQcTask: Difficult to determine cause of Server Error #198

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DavidStreid opened this issue Nov 9, 2020 · 0 comments
Open

UpdateLimsSampleLevelSequencingQcTask: Difficult to determine cause of Server Error #198

DavidStreid opened this issue Nov 9, 2020 · 0 comments

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@DavidStreid
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DavidStreid commented Nov 9, 2020 •
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TODO: Catch and handle specific exceptions instead of catching all exceptions in one line (

LimsRest/src/main/java/org/mskcc/limsrest/service/sequencingqc/UpdateLimsSampleLevelSequencingQcTask.java

Line 116 in 0cd3da9

} catch (Exception e) {
)

2020-11-09 10:26:03.595  INFO 2748 --- [-8443-exec-7595] .s.UpdateLimsSampleLevelSequencingQcTask : Adding new SeqAnalysisSampleQC child record to Sample with SampleId 09525_V_1_1_1, values are : {MeanTargetCoverag
e=0.0, AltId=A6M-37W, SequencerRunFolder=MICHELLE_0285_BHVKJWDRXX, PercentIntronicBases=0.0, Mskq=0.0, PercentTarget30X=0.0, UnmappedDupes=187059606, PercentRibosomalBases=0.0, PercentUtrBases=0.0, PercentIntergeni
cBases=0.0, PercentTarget10X=0.0, PercentExcDupe=0.0, PercentExcTotal=0.0, OtherSampleId=DS055, TotalReads=374754452, PercentCodingBases=0.0, PercentTarget100X=0.0, GRefOxoQ=0.0, PercentOffBait=0.0, ReadPairDupes=5
76233, SampleId=09525_V_1_1_1, PercentAdapters=1.84E-4, PercentExcMapQ=0.0, ZeroCoveragePercent=0.0, GenomeTerritory=0, BaitSet=null, Request=09525_V, PercentDuplication=0.741695, MeanCoverage=0.0, SeqQCStatus=Unde
r-Review, PercentExcBaseQ=0.0, PercentMrnaBases=0.0, UnpairedReads=184712766, ReadsExamined=2664460}
2020-11-09 10:26:03.795 ERROR 2748 --- [-8443-exec-7595] .s.UpdateLimsSampleLevelSequencingQcTask : Error while querying ngs-stats endpoint using runId MICHELLE_0285_BHVKJWDRXX.
ServerException: :
        at com.velox.server.plugin.ServerPluginManagerImpl.runEventPlugins(oi:647)
        at com.velox.datarecord.DataRecordTransactionManager.i(taa:381)
        at com.velox.datarecord.DataRecordTransactionManager.storeDataFieldChanges(taa:1039)
        at com.velox.datarecord.DataRecordTransactionManager.storeAndCommit(taa:869)
        at com.velox.datarecord.DataRecordManagerImpl.storeAndCommit(ika:895)
        at sun.reflect.GeneratedMethodAccessor316.invoke(Unknown Source)
        at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
        at java.lang.reflect.Method.invoke(Method.java:498)
        at sun.rmi.server.UnicastServerRef.dispatch(UnicastServerRef.java:357)
        at sun.rmi.transport.Transport$1.run(Transport.java:200)
        at sun.rmi.transport.Transport$1.run(Transport.java:197)
        at java.security.AccessController.doPrivileged(Native Method)
        at sun.rmi.transport.Transport.serviceCall(Transport.java:196)
        at sun.rmi.transport.tcp.TCPTransport.handleMessages(TCPTransport.java:573)
        at sun.rmi.transport.tcp.TCPTransport$ConnectionHandler.run0(TCPTransport.java:834)
        at sun.rmi.transport.tcp.TCPTransport$ConnectionHandler.lambda$run$0(TCPTransport.java:688)
        at java.security.AccessController.doPrivileged(Native Method)
        at sun.rmi.transport.tcp.TCPTransport$ConnectionHandler.run(TCPTransport.java:687)
        at java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1149)
        at java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:624)
        at java.lang.Thread.run(Thread.java:748)
        at sun.rmi.transport.StreamRemoteCall.exceptionReceivedFromServer(StreamRemoteCall.java:283)
        at sun.rmi.transport.StreamRemoteCall.executeCall(StreamRemoteCall.java:260)
        at sun.rmi.server.UnicastRef.invoke(UnicastRef.java:161)
        at java.rmi.server.RemoteObjectInvocationHandler.invokeRemoteMethod(RemoteObjectInvocationHandler.java:227)
        at java.rmi.server.RemoteObjectInvocationHandler.invoke(RemoteObjectInvocationHandler.java:179)
        at com.sun.proxy.$Proxy7825.storeAndCommit(Unknown Source)
        at org.mskcc.limsrest.service.sequencingqc.UpdateLimsSampleLevelSequencingQcTask.execute(UpdateLimsSampleLevelSequencingQcTask.java:113)
        at org.mskcc.limsrest.controller.sequencingqc.UpdateLimsSampleLevelSequencingQc.getContent(UpdateLimsSampleLevelSequencingQc.java:44)
        at sun.reflect.GeneratedMethodAccessor24144.invoke(Unknown Source)
        at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
        at java.lang.reflect.Method.invoke(Method.java:498)
        at org.springframework.web.method.support.InvocableHandlerMethod.doInvoke(InvocableHandlerMethod.java:190)
        at org.springframework.web.method.support.InvocableHandlerMethod.invokeForRequest(InvocableHandlerMethod.java:138)
        at org.springframework.web.servlet.mvc.method.annotation.ServletInvocableHandlerMethod.invokeAndHandle(ServletInvocableHandlerMethod.java:104)
        at org.springframework.web.servlet.mvc.method.annotation.RequestMappingHandlerAdapter.invokeHandlerMethod(RequestMappingHandlerAdapter.java:892)
        at org.springframework.web.servlet.mvc.method.annotation.RequestMappingHandlerAdapter.handleInternal(RequestMappingHandlerAdapter.java:797)
        at org.springframework.web.servlet.mvc.method.AbstractHandlerMethodAdapter.handle(AbstractHandlerMethodAdapter.java:87)
        at org.springframework.web.servlet.DispatcherServlet.doDispatch(DispatcherServlet.java:1039)
        at org.springframework.web.servlet.DispatcherServlet.doService(DispatcherServlet.java:942)
        at org.springframework.web.servlet.FrameworkServlet.processRequest(FrameworkServlet.java:1005)
        at org.springframework.web.servlet.FrameworkServlet.doGet(FrameworkServlet.java:897)
        at javax.servlet.http.HttpServlet.service(HttpServlet.java:635)
        at org.springframework.web.servlet.FrameworkServlet.service(FrameworkServlet.java:882)
        at javax.servlet.http.HttpServlet.service(HttpServlet.java:742)
        at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:231)
        at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:166)
        at org.apache.tomcat.websocket.server.WsFilter.doFilter(WsFilter.java:52)
        at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:193)
        at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:166)
        at org.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:320)
        at org.springframework.security.web.access.intercept.FilterSecurityInterceptor.invoke(FilterSecurityInterceptor.java:127)
        at org.springframework.security.web.access.intercept.FilterSecurityInterceptor.doFilter(FilterSecurityInterceptor.java:91)
        at org.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:334)
        at org.springframework.security.web.access.ExceptionTranslationFilter.doFilter(ExceptionTranslationFilter.java:119)
        at org.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:334)
        at org.springframework.security.web.session.SessionManagementFilter.doFilter(SessionManagementFilter.java:137)
        at org.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:334)
        at org.springframework.security.web.authentication.AnonymousAuthenticationFilter.doFilter(AnonymousAuthenticationFilter.java:111)
        at org.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:334)
        at org.springframework.security.web.servletapi.SecurityContextHolderAwareRequestFilter.doFilter(SecurityContextHolderAwareRequestFilter.java:170)
        at org.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:334)
        at org.springframework.security.web.savedrequest.RequestCacheAwareFilter.doFilter(RequestCacheAwareFilter.java:63)
        at org.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:334)
        at org.springframework.security.web.authentication.www.BasicAuthenticationFilter.doFilterInternal(BasicAuthenticationFilter.java:158)
        at org.springframework.web.filter.OncePerRequestFilter.doFilter(OncePerRequestFilter.java:109)
        at org.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:334)
        at org.springframework.security.web.authentication.logout.LogoutFilter.doFilter(LogoutFilter.java:116)
        at org.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:334)
        at org.springframework.security.web.header.HeaderWriterFilter.doFilterInternal(HeaderWriterFilter.java:74)
        at org.springframework.web.filter.OncePerRequestFilter.doFilter(OncePerRequestFilter.java:109)
        at org.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:334)
        at org.springframework.security.web.context.SecurityContextPersistenceFilter.doFilter(SecurityContextPersistenceFilter.java:105)
        at org.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:334)
        at org.springframework.security.web.context.request.async.WebAsyncManagerIntegrationFilter.doFilterInternal(WebAsyncManagerIntegrationFilter.java:56)
        at org.springframework.web.filter.OncePerRequestFilter.doFilter(OncePerRequestFilter.java:109)
        at org.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:334)
        at org.springframework.security.web.FilterChainProxy.doFilterInternal(FilterChainProxy.java:215)
        at org.springframework.security.web.FilterChainProxy.doFilter(FilterChainProxy.java:178)
        at org.springframework.web.filter.DelegatingFilterProxy.invokeDelegate(DelegatingFilterProxy.java:357)
        at org.springframework.web.filter.DelegatingFilterProxy.doFilter(DelegatingFilterProxy.java:270)
        at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:193)
        at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:166)
        at org.springframework.web.filter.RequestContextFilter.doFilterInternal(RequestContextFilter.java:99)
        at org.springframework.web.filter.OncePerRequestFilter.doFilter(OncePerRequestFilter.java:109)
        at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:193)
        at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:166)
        at org.springframework.web.filter.FormContentFilter.doFilterInternal(FormContentFilter.java:92)
        at org.springframework.web.filter.OncePerRequestFilter.doFilter(OncePerRequestFilter.java:109)
        at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:193)
        at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:166)
        at org.springframework.web.filter.HiddenHttpMethodFilter.doFilterInternal(HiddenHttpMethodFilter.java:93)
        at org.springframework.web.filter.OncePerRequestFilter.doFilter(OncePerRequestFilter.java:109)
        at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:193)
        at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:166)
        at org.springframework.boot.web.servlet.support.ErrorPageFilter.doFilter(ErrorPageFilter.java:128)
        at org.springframework.boot.web.servlet.support.ErrorPageFilter.access$000(ErrorPageFilter.java:66)
        at org.springframework.boot.web.servlet.support.ErrorPageFilter$1.doFilterInternal(ErrorPageFilter.java:103)
        at org.springframework.web.filter.OncePerRequestFilter.doFilter(OncePerRequestFilter.java:109)
        at org.springframework.boot.web.servlet.support.ErrorPageFilter.doFilter(ErrorPageFilter.java:121)
        at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:193)
        at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:166)
        at org.springframework.web.filter.CharacterEncodingFilter.doFilterInternal(CharacterEncodingFilter.java:200)
        at org.springframework.web.filter.OncePerRequestFilter.doFilter(OncePerRequestFilter.java:109)
        at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:193)
        at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:166)
        at org.apache.catalina.core.StandardWrapperValve.invoke(StandardWrapperValve.java:198)
        at org.apache.catalina.core.StandardContextValve.invoke(StandardContextValve.java:96)
        at org.apache.catalina.authenticator.AuthenticatorBase.invoke(AuthenticatorBase.java:496)
        at org.apache.catalina.core.StandardHostValve.invoke(StandardHostValve.java:140)
        at org.apache.catalina.valves.ErrorReportValve.invoke(ErrorReportValve.java:81)
        at org.apache.catalina.valves.AbstractAccessLogValve.invoke(AbstractAccessLogValve.java:650)
        at org.apache.catalina.core.StandardEngineValve.invoke(StandardEngineValve.java:87)
        at org.apache.catalina.connector.CoyoteAdapter.service(CoyoteAdapter.java:342)
        at org.apache.coyote.http11.Http11Processor.service(Http11Processor.java:803)
        at org.apache.coyote.AbstractProcessorLight.process(AbstractProcessorLight.java:66)
        at org.apache.coyote.AbstractProtocol$ConnectionHandler.process(AbstractProtocol.java:790)
        at org.apache.tomcat.util.net.NioEndpoint$SocketProcessor.doRun(NioEndpoint.java:1468)
        at org.apache.tomcat.util.net.SocketProcessorBase.run(SocketProcessorBase.java:49)
2020-11-09 10:26:03.381  INFO 2748 --- [-8443-exec-7595] .s.UpdateLimsSampleLevelSequencingQcTask : Found Library Sample with Sample ID : 09525_V_1_1_1
2020-11-09 10:26:03.382  INFO 2748 --- [-8443-exec-7595] .s.UpdateLimsSampleLevelSequencingQcTask : Searching for existing SeqAnalysisSampleQC records for 09525_V_1_1_1, DS055 and MICHELLE_0285_BHVKJWDRXX combinati
on
2020-11-09 10:26:03.594  INFO 2748 --- [-8443-exec-7595] .s.UpdateLimsSampleLevelSequencingQcTask : Existing qc records: 0
2020-11-09 10:26:03.594  INFO 2748 --- [-8443-exec-7595] .s.UpdateLimsSampleLevelSequencingQcTask : Existing SeqAnalysisSampleQC record not found for Sample with Id 09525_V_1_1_1
2020-11-09 10:26:03.595  INFO 2748 --- [-8443-exec-7595] .s.UpdateLimsSampleLevelSequencingQcTask : Adding new SeqAnalysisSampleQC child record to Sample with SampleId 09525_V_1_1_1, values are : {MeanTargetCoverag
e=0.0, AltId=A6M-37W, SequencerRunFolder=MICHELLE_0285_BHVKJWDRXX, PercentIntronicBases=0.0, Mskq=0.0, PercentTarget30X=0.0, UnmappedDupes=187059606, PercentRibosomalBases=0.0, PercentUtrBases=0.0, PercentIntergeni
cBases=0.0, PercentTarget10X=0.0, PercentExcDupe=0.0, PercentExcTotal=0.0, OtherSampleId=DS055, TotalReads=374754452, PercentCodingBases=0.0, PercentTarget100X=0.0, GRefOxoQ=0.0, PercentOffBait=0.0, ReadPairDupes=5
76233, SampleId=09525_V_1_1_1, PercentAdapters=1.84E-4, PercentExcMapQ=0.0, ZeroCoveragePercent=0.0, GenomeTerritory=0, BaitSet=null, Request=09525_V, PercentDuplication=0.741695, MeanCoverage=0.0, SeqQCStatus=Unde
r-Review, PercentExcBaseQ=0.0, PercentMrnaBases=0.0, UnpairedReads=184712766, ReadsExamined=2664460}
2020-11-09 10:26:03.795 ERROR 2748 --- [-8443-exec-7595] .s.UpdateLimsSampleLevelSequencingQcTask : Error while querying ngs-stats endpoint using runId MICHELLE_0285_BHVKJWDRXX.
ServerException: :
        at com.velox.server.plugin.ServerPluginManagerImpl.runEventPlugins(oi:647)
        at com.velox.datarecord.DataRecordTransactionManager.i(taa:381)
        at com.velox.datarecord.DataRecordTransactionManager.storeDataFieldChanges(taa:1039)
        at com.velox.datarecord.DataRecordTransactionManager.storeAndCommit(taa:869)
        at com.velox.datarecord.DataRecordManagerImpl.storeAndCommit(ika:895)
        at sun.reflect.GeneratedMethodAccessor316.invoke(Unknown Source)
        at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
        at java.lang.reflect.Method.invoke(Method.java:498)
        at sun.rmi.server.UnicastServerRef.dispatch(UnicastServerRef.java:357)
        at sun.rmi.transport.Transport$1.run(Transport.java:200)
        at sun.rmi.transport.Transport$1.run(Transport.java:197)
        at java.security.AccessController.doPrivileged(Native Method)
        at sun.rmi.transport.Transport.serviceCall(Transport.java:196)
        at sun.rmi.transport.tcp.TCPTransport.handleMessages(TCPTransport.java:573)
        at sun.rmi.transport.tcp.TCPTransport$ConnectionHandler.run0(TCPTransport.java:834)
        at sun.rmi.transport.tcp.TCPTransport$ConnectionHandler.lambda$run$0(TCPTransport.java:688)
        at java.security.AccessController.doPrivileged(Native Method)
        at sun.rmi.transport.tcp.TCPTransport$ConnectionHandler.run(TCPTransport.java:687)
        at java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1149)
        at java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:624)
        at java.lang.Thread.run(Thread.java:748)
        at sun.rmi.transport.StreamRemoteCall.exceptionReceivedFromServer(StreamRemoteCall.java:283)
        at sun.rmi.transport.StreamRemoteCall.executeCall(StreamRemoteCall.java:260)
        at sun.rmi.server.UnicastRef.invoke(UnicastRef.java:161)
        at java.rmi.server.RemoteObjectInvocationHandler.invokeRemoteMethod(RemoteObjectInvocationHandler.java:227)
        at java.rmi.server.RemoteObjectInvocationHandler.invoke(RemoteObjectInvocationHandler.java:179)
        at com.sun.proxy.$Proxy7825.storeAndCommit(Unknown Source)
        at org.mskcc.limsrest.service.sequencingqc.UpdateLimsSampleLevelSequencingQcTask.execute(UpdateLimsSampleLevelSequencingQcTask.java:113)
        at org.mskcc.limsrest.controller.sequencingqc.UpdateLimsSampleLevelSequencingQc.getContent(UpdateLimsSampleLevelSequencingQc.java:44)
        at sun.reflect.GeneratedMethodAccessor24144.invoke(Unknown Source)
        at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
        at java.lang.reflect.Method.invoke(Method.java:498)
        at org.springframework.web.method.support.InvocableHandlerMethod.doInvoke(InvocableHandlerMethod.java:190)
        at org.springframework.web.method.support.InvocableHandlerMethod.invokeForRequest(InvocableHandlerMethod.java:138)
        at org.springframework.web.servlet.mvc.method.annotation.ServletInvocableHandlerMethod.invokeAndHandle(ServletInvocableHandlerMethod.java:104)
        at org.springframework.web.servlet.mvc.method.annotation.RequestMappingHandlerAdapter.invokeHandlerMethod(RequestMappingHandlerAdapter.java:892)
        at org.springframework.web.servlet.mvc.method.annotation.RequestMappingHandlerAdapter.handleInternal(RequestMappingHandlerAdapter.java:797)
        at org.springframework.web.servlet.mvc.method.AbstractHandlerMethodAdapter.handle(AbstractHandlerMethodAdapter.java:87)
        at org.springframework.web.servlet.DispatcherServlet.doDispatch(DispatcherServlet.java:1039)
        at org.springframework.web.servlet.DispatcherServlet.doService(DispatcherServlet.java:942)
        at org.springframework.web.servlet.FrameworkServlet.processRequest(FrameworkServlet.java:1005)
        at org.springframework.web.servlet.FrameworkServlet.doGet(FrameworkServlet.java:897)
        at javax.servlet.http.HttpServlet.service(HttpServlet.java:635)
        at org.springframework.web.servlet.FrameworkServlet.service(FrameworkServlet.java:882)
        at javax.servlet.http.HttpServlet.service(HttpServlet.java:742)
        at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:231)
        at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:166)
        at org.apache.tomcat.websocket.server.WsFilter.doFilter(WsFilter.java:52)
        at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:193)
        at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:166)
        at org.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:320)
        at org.springframework.security.web.access.intercept.FilterSecurityInterceptor.invoke(FilterSecurityInterceptor.java:127)
        at org.springframework.security.web.access.intercept.FilterSecurityInterceptor.doFilter(FilterSecurityInterceptor.java:91)
        at org.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:334)
        at org.springframework.security.web.access.ExceptionTranslationFilter.doFilter(ExceptionTranslationFilter.java:119)
        at org.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:334)
        at org.springframework.security.web.session.SessionManagementFilter.doFilter(SessionManagementFilter.java:137)
        at org.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:334)
        at org.springframework.security.web.authentication.AnonymousAuthenticationFilter.doFilter(AnonymousAuthenticationFilter.java:111)
        at org.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:334)
        at org.springframework.security.web.servletapi.SecurityContextHolderAwareRequestFilter.doFilter(SecurityContextHolderAwareRequestFilter.java:170)
        at org.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:334)
        at org.springframework.security.web.savedrequest.RequestCacheAwareFilter.doFilter(RequestCacheAwareFilter.java:63)
        at org.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:334)
        at org.springframework.security.web.authentication.www.BasicAuthenticationFilter.doFilterInternal(BasicAuthenticationFilter.java:158)
        at org.springframework.web.filter.OncePerRequestFilter.doFilter(OncePerRequestFilter.java:109)
        at org.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:334)
        at org.springframework.security.web.authentication.logout.LogoutFilter.doFilter(LogoutFilter.java:116)
        at org.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:334)
        at org.springframework.security.web.header.HeaderWriterFilter.doFilterInternal(HeaderWriterFilter.java:74)
        at org.springframework.web.filter.OncePerRequestFilter.doFilter(OncePerRequestFilter.java:109)
        at org.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:334)
        at org.springframework.security.web.context.SecurityContextPersistenceFilter.doFilter(SecurityContextPersistenceFilter.java:105)
        at org.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:334)
        at org.springframework.security.web.context.request.async.WebAsyncManagerIntegrationFilter.doFilterInternal(WebAsyncManagerIntegrationFilter.java:56)
        at org.springframework.web.filter.OncePerRequestFilter.doFilter(OncePerRequestFilter.java:109)
        at org.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:334)
        at org.springframework.security.web.FilterChainProxy.doFilterInternal(FilterChainProxy.java:215)
        at org.springframework.security.web.FilterChainProxy.doFilter(FilterChainProxy.java:178)
        at org.springframework.web.filter.DelegatingFilterProxy.invokeDelegate(DelegatingFilterProxy.java:357)
        at org.springframework.web.filter.DelegatingFilterProxy.doFilter(DelegatingFilterProxy.java:270)
        at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:193)
        at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:166)
        at org.springframework.web.filter.RequestContextFilter.doFilterInternal(RequestContextFilter.java:99)
        at org.springframework.web.filter.OncePerRequestFilter.doFilter(OncePerRequestFilter.java:109)
        at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:193)
        at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:166)
        at org.springframework.web.filter.FormContentFilter.doFilterInternal(FormContentFilter.java:92)
        at org.springframework.web.filter.OncePerRequestFilter.doFilter(OncePerRequestFilter.java:109)
        at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:193)
        at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:166)
        at org.springframework.web.filter.HiddenHttpMethodFilter.doFilterInternal(HiddenHttpMethodFilter.java:93)
        at org.springframework.web.filter.OncePerRequestFilter.doFilter(OncePerRequestFilter.java:109)
        at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:193)
        at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:166)
        at org.springframework.boot.web.servlet.support.ErrorPageFilter.doFilter(ErrorPageFilter.java:128)
        at org.springframework.boot.web.servlet.support.ErrorPageFilter.access$000(ErrorPageFilter.java:66)
        at org.springframework.boot.web.servlet.support.ErrorPageFilter$1.doFilterInternal(ErrorPageFilter.java:103)
        at org.springframework.web.filter.OncePerRequestFilter.doFilter(OncePerRequestFilter.java:109)
        at org.springframework.boot.web.servlet.support.ErrorPageFilter.doFilter(ErrorPageFilter.java:121)
        at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:193)
        at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:166)
        at org.springframework.web.filter.CharacterEncodingFilter.doFilterInternal(CharacterEncodingFilter.java:200)
        at org.springframework.web.filter.OncePerRequestFilter.doFilter(OncePerRequestFilter.java:109)
        at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:193)
        at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:166)
        at org.apache.catalina.core.StandardWrapperValve.invoke(StandardWrapperValve.java:198)
        at org.apache.catalina.core.StandardContextValve.invoke(StandardContextValve.java:96)
        at org.apache.catalina.authenticator.AuthenticatorBase.invoke(AuthenticatorBase.java:496)
        at org.apache.catalina.core.StandardHostValve.invoke(StandardHostValve.java:140)
        at org.apache.catalina.valves.ErrorReportValve.invoke(ErrorReportValve.java:81)
        at org.apache.catalina.valves.AbstractAccessLogValve.invoke(AbstractAccessLogValve.java:650)
        at org.apache.catalina.core.StandardEngineValve.invoke(StandardEngineValve.java:87)
        at org.apache.catalina.connector.CoyoteAdapter.service(CoyoteAdapter.java:342)
        at org.apache.coyote.http11.Http11Processor.service(Http11Processor.java:803)
        at org.apache.coyote.AbstractProcessorLight.process(AbstractProcessorLight.java:66)
        at org.apache.coyote.AbstractProtocol$ConnectionHandler.process(AbstractProtocol.java:790)
        at org.apache.tomcat.util.net.NioEndpoint$SocketProcessor.doRun(NioEndpoint.java:1468)
        at org.apache.tomcat.util.net.SocketProcessorBase.run(SocketProcessorBase.java:49)
        at java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1149)
        at org.apache.catalina.valves.ErrorReportValve.invoke(ErrorReportValve.java:81)
        at org.apache.catalina.valves.AbstractAccessLogValve.invoke(AbstractAccessLogValve.java:650)
        at org.apache.catalina.core.StandardEngineValve.invoke(StandardEngineValve.java:87)
        at org.apache.catalina.connector.CoyoteAdapter.service(CoyoteAdapter.java:342)
        at org.apache.coyote.http11.Http11Processor.service(Http11Processor.java:803)
        at org.apache.coyote.AbstractProcessorLight.process(AbstractProcessorLight.java:66)
        at org.apache.coyote.AbstractProtocol$ConnectionHandler.process(AbstractProtocol.java:790)
        at org.apache.tomcat.util.net.NioEndpoint$SocketProcessor.doRun(NioEndpoint.java:1468)
        at org.apache.tomcat.util.net.SocketProcessorBase.run(SocketProcessorBase.java:49)
        at java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1149)
        at java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:624)
        at org.apache.tomcat.util.threads.TaskThread$WrappingRunnable.run(TaskThread.java:61)
        at java.lang.Thread.run(Thread.java:748)

2020-11-09 10:26:03.796  INFO 2748 --- [-8443-exec-7595] .s.UpdateLimsSampleLevelSequencingQcTask : Added/Updated total 5 SeqAnalysisSampleQC records for Sequencing Run MICHELLE_0285_BHVKJWDRXX
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@DavidStreid