java.io.IOException: Error executing cvs server on server.\\nSet CVS_SERVER environment variable properly.

Server Fault | monknomo | 4 years ago
  1. 0

    Jenkins CVS Configuration

    Server Fault | 4 years ago | monknomo
    java.io.IOException: Error executing cvs server on server.\\nSet CVS_SERVER environment variable properly.
  2. 0

    Error Report: Server Error

    GitHub | 1 year ago | rastating
    java.io.IOException: Server Error
  3. 0

    Error Report: Server Error

    GitHub | 1 year ago | rastating
    java.io.IOException: Server Error
  4. Speed up your debug routine!

    Automated exception search integrated into your IDE

  5. 0

    We get export errors sometimes (IOException). The following is one example are they occurring because of some conflict in Opal? The Onyx error and Opal error occurred at the same time so assume they are related. (Hour difference because of the local time for Dalhousie) catalina.log: {code} 2014-12-11 18:37:15,313 - [http-8443-4] - INFO - tithreadedDatasourceCopier - Copy 1% complete. 2014-12-11 18:38:15,731 - [http-8443-4] - ERROR - page.ParticipantSearchPage - Error on data export. java.lang.RuntimeException: java.io.IOException: Server Error at org.obiba.magma.support.MultithreadedDatasourceCopier$ConcurrentValueSetWriter.run(MultithreadedDatasourceCopier.java:317) at org.obiba.magma.support.MultithreadedDatasourceCopier.write(MultithreadedDatasourceCopier.java:161) at org.obiba.magma.support.MultithreadedDatasourceCopier.copy(MultithreadedDatasourceCopier.java:149) at org.obiba.onyx.engine.variable.export.OnyxDataExport.internalExport(OnyxDataExport.java:209) at org.obiba.onyx.engine.variable.export.OnyxDataExport.exportInterviews(OnyxDataExport.java:143) at org.obiba.onyx.engine.variable.export.OnyxDataExport$$FastClassByCGLIB$$c7571da3.invoke(<generated>) at net.sf.cglib.proxy.MethodProxy.invoke(MethodProxy.java:149) at org.springframework.aop.framework.Cglib2AopProxy$CglibMethodInvocation.invokeJoinpoint(Cglib2AopProxy.java:689) at org.springframework.aop.framework.ReflectiveMethodInvocation.proceed(ReflectiveMethodInvocation.java:150) at org.springframework.transaction.interceptor.TransactionInterceptor.invoke(TransactionInterceptor.java:110) at org.springframework.aop.framework.ReflectiveMethodInvocation.proceed(ReflectiveMethodInvocation.java:172) at org.springframework.aop.framework.Cglib2AopProxy$DynamicAdvisedInterceptor.intercept(Cglib2AopProxy.java:622) at org.obiba.onyx.engine.variable.export.OnyxDataExport$$EnhancerByCGLIB$$3f62bd99.exportInterviews(<generated>) at org.obiba.onyx.engine.variable.export.OnyxDataExport$$FastClassByCGLIB$$c7571da3.invoke(<generated>) at net.sf.cglib.proxy.MethodProxy.invoke(MethodProxy.java:149) at org.apache.wicket.proxy.LazyInitProxyFactory$CGLibInterceptor.intercept(LazyInitProxyFactory.java:317) at WICKET_org.obiba.onyx.engine.variable.export.OnyxDataExport$$EnhancerByCGLIB$$e8962fa.exportInterviews(<generated>) at org.obiba.onyx.webapp.participant.page.ParticipantSearchPage$ActionFragment$7$1.onYesButtonClicked(ParticipantSearchPage.java:668) at org.obiba.onyx.wicket.reusable.ConfirmationDialog$1.onClose(ConfirmationDialog.java:45) at org.obiba.onyx.wicket.reusable.Dialog$7.onClose(Dialog.java:405) at org.apache.wicket.extensions.ajax.markup.html.modal.ModalWindow$WindowClosedBehavior.respond(ModalWindow.java:966) at org.apache.wicket.ajax.AbstractDefaultAjaxBehavior.onRequest(AbstractDefaultAjaxBehavior.java:302) at org.apache.wicket.request.target.component.listener.BehaviorRequestTarget.processEvents(BehaviorRequestTarget.java:157) at org.apache.wicket.request.AbstractRequestCycleProcessor.processEvents(AbstractRequestCycleProcessor.java:92) at org.apache.wicket.RequestCycle.processEventsAndRespond(RequestCycle.java:1250) at org.apache.wicket.RequestCycle.step(RequestCycle.java:1329) at org.apache.wicket.RequestCycle.steps(RequestCycle.java:1436) at org.apache.wicket.RequestCycle.request(RequestCycle.java:545) at org.apache.wicket.protocol.http.WicketFilter.doGet(WicketFilter.java:486) at org.apache.wicket.protocol.http.WicketFilter.doFilter(WicketFilter.java:319) at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:235) at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:206) at org.springframework.orm.hibernate3.support.OpenSessionInViewFilter.doFilterInternal(OpenSessionInViewFilter.java:198) at org.springframework.web.filter.OncePerRequestFilter.doFilter(OncePerRequestFilter.java:76) at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:235) at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:206) at org.apache.catalina.core.StandardWrapperValve.invoke(StandardWrapperValve.java:233) at org.apache.catalina.core.StandardContextValve.invoke(StandardContextValve.java:191) at org.apache.catalina.core.StandardHostValve.invoke(StandardHostValve.java:127) at org.apache.catalina.valves.ErrorReportValve.invoke(ErrorReportValve.java:102) at org.apache.catalina.core.StandardEngineValve.invoke(StandardEngineValve.java:109) at org.apache.catalina.connector.CoyoteAdapter.service(CoyoteAdapter.java:298) at org.apache.coyote.http11.Http11Processor.process(Http11Processor.java:859) at org.apache.coyote.http11.Http11Protocol$Http11ConnectionHandler.process(Http11Protocol.java:588) at org.apache.tomcat.util.net.JIoEndpoint$Worker.run(JIoEndpoint.java:489) at java.lang.Thread.run(Thread.java:679) Caused by: java.io.IOException: Server Error at org.obiba.opal.rest.client.magma.RestValueTableWriter.checkResponse(RestValueTableWriter.java:101) at org.obiba.opal.rest.client.magma.RestValueTableWriter.access$100(RestValueTableWriter.java:32) at org.obiba.opal.rest.client.magma.RestValueTableWriter$2.close(RestValueTableWriter.java:87) at org.obiba.magma.support.MultithreadedDatasourceCopier$ConcurrentValueSetWriter.run(MultithreadedDatasourceCopier.java:315) ... 45 more 2014-12-12 06:30:52, … {code} opal.log: {code} 2014-12-11 17:38:09,227 [qtp95230463-28737] INFO org.obiba.magma.support.DatasourceCopier - Copying ValueTable 'ContraIndications' to 'clsa-dcs.ContraIndications' (copyMetadata=true, copyValues=false). 2014-12-11 17:38:13,899 [qtp95230463-28737] INFO org.hibernate.event.internal.DefaultLoadEventListener - HHH000327: Error performing load command : org.hibernate.StaleObjectStateException: Row was updated or deleted by another transaction (or unsaved-value mapping was incorrect) : [org.obiba.magma.datasource.hibernate.domain.ValueTableState#138] 2014-12-11 17:38:13,903 [qtp95230463-28913] INFO org.obiba.magma.support.DatasourceCopier - Copying ValueTable 'LateralBoneDensity' to 'clsa-dcs.LateralBoneDensity' (copyMetadata=true, copyValues=false). 2014-12-11 17:38:13,907 [qtp95230463-28737] WARN org.obiba.opal.web.magma.ClientErrorDtos - DatasourceCopierIOException java.lang.RuntimeException: org.hibernate.StaleObjectStateException: Row was updated or deleted by another transaction (or unsaved-value mapping was incorrect) : [org.obiba.magma.datasource.hibernate.domain.ValueTableState#138] at org.obiba.opal.core.service.DataImportServiceImpl.copyValueTables(DataImportServiceImpl.java:142) ~[opal-core-2.2.15.jar:na] at org.obiba.opal.core.service.DataImportServiceImpl.importData(DataImportServiceImpl.java:105) ~[opal-core-2.2.15.jar:na] at org.obiba.opal.web.magma.TableResourceImpl.updateValueSet(TableResourceImpl.java:170) ~[opal-core-ws-2.2.15.jar:na] at sun.reflect.GeneratedMethodAccessor225.invoke(Unknown Source) ~[na:na] at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43) ~[na:1.7.0_51] at java.lang.reflect.Method.invoke(Method.java:606) ~[na:1.7.0_51] at org.springframework.aop.support.AopUtils.invokeJoinpointUsingReflection(AopUtils.java:317) [spring-aop-4.0.3.RELEASE.jar:4.0.3.RELEASE] at org.springframework.aop.framework.ReflectiveMethodInvocation.invokeJoinpoint(ReflectiveMethodInvocation.java:190) [spring-aop-4.0.3.RELEASE.jar:4.0.3.RELEASE] at org.springframework.aop.framework.ReflectiveMethodInvocation.proceed(ReflectiveMethodInvocation.java:157) [spring-aop-4.0.3.RELEASE.jar:4.0.3.RELEASE] at org.springframework.transaction.interceptor.TransactionInterceptor$1.proceedWithInvocation(TransactionInterceptor.java:98) [spring-tx-4.0.3.RELEASE.jar:4.0.3.RELEASE] at org.springframework.transaction.interceptor.TransactionAspectSupport.invokeWithinTransaction(TransactionAspectSupport.java:262) [spring-tx-4.0.3.RELEASE.jar:4.0.3.RELEASE] at org.springframework.transaction.interceptor.TransactionInterceptor.invoke(TransactionInterceptor.java:95) [spring-tx-4.0.3.RELEASE.jar:4.0.3.RELEASE] at org.springframework.aop.framework.ReflectiveMethodInvocation.proceed(ReflectiveMethodInvocation.java:179) [spring-aop-4.0.3.RELEASE.jar:4.0.3.RELEASE] at org.springframework.aop.framework.JdkDynamicAopProxy.invoke(JdkDynamicAopProxy.java:207) [spring-aop-4.0.3.RELEASE.jar:4.0.3.RELEASE] at com.sun.proxy.$Proxy149.updateValueSet(Unknown Source) [na:na] at sun.reflect.GeneratedMethodAccessor225.invoke(Unknown Source) ~[na:na] at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43) ~[na:1.7.0_51] at java.lang.reflect.Method.invoke(Method.java:606) ~[na:1.7.0_51] at org.jboss.resteasy.core.MethodInjectorImpl.invoke(MethodInjectorImpl.java:137) [resteasy-jaxrs-3.0.6.Final.jar:na] at org.jboss.resteasy.core.ResourceMethodInvoker.invokeOnTarget(ResourceMethodInvoker.java:280) [resteasy-jaxrs-3.0.6.Final.jar:na] at org.jboss.resteasy.core.ResourceMethodInvoker.invoke(ResourceMethodInvoker.java:234) [resteasy-jaxrs-3.0.6.Final.jar:na] at org.jboss.resteasy.core.ResourceLocatorInvoker.invokeOnTargetObject(ResourceLocatorInvoker.java:140) [resteasy-jaxrs-3.0.6.Final.jar:na] at org.jboss.resteasy.core.ResourceLocatorInvoker.invoke(ResourceLocatorInvoker.java:103) [resteasy-jaxrs-3.0.6.Final.jar:na] at org.jboss.resteasy.core.SynchronousDispatcher.invoke(SynchronousDispatcher.java:356) [resteasy-jaxrs-3.0.6.Final.jar:na] at org.jboss.resteasy.core.SynchronousDispatcher.invoke(SynchronousDispatcher.java:179) [resteasy-jaxrs-3.0.6.Final.jar:na] at org.jboss.resteasy.plugins.server.servlet.ServletContainerDispatcher.service(ServletContainerDispatcher.java:220) [resteasy-jaxrs-3.0.6.Final.jar:na] at org.jboss.resteasy.plugins.server.servlet.HttpServletDispatcher.service(HttpServletDispatcher.java:56) [resteasy-jaxrs-3.0.6.Final.jar:na] at org.jboss.resteasy.plugins.server.servlet.HttpServletDispatcher.service(HttpServletDispatcher.java:51) [resteasy-jaxrs-3.0.6.Final.jar:na] at javax.servlet.http.HttpServlet.service(HttpServlet.java:848) [javax.servlet-3.0.0.v201112011016.jar:na] at org.eclipse.jetty.servlet.ServletHolder.handle(ServletHolder.java:684) [jetty-servlet-8.1.14.v20131031.jar:8.1.14.v20131031] at org.eclipse.jetty.servlet.ServletHandler$CachedChain.doFilter(ServletHandler.java:1496) [jetty-servlet-8.1.14.v20131031.jar:8.1.14.v20131031] at org.obiba.shiro.web.filter.AuthenticationFilter.doFilterInternal(AuthenticationFilter.java:88) [obiba-shiro-web-1.6.1.jar:na] at org.springframework.web.filter.OncePerRequestFilter.doFilter(OncePerRequestFilter.java:108) [spring-web-4.0.3.RELEASE.jar:4.0.3.RELEASE] at org.springframework.web.filter.DelegatingFilterProxy.invokeDelegate(DelegatingFilterProxy.java:344) [spring-web-4.0.3.RELEASE.jar:4.0.3.RELEASE] … {code} stdout.log from opal: {code} 2014-12-11 17:38:13,918 ERROR org.obiba.opal.web.provider.ErrorDtoExceptionMapper - System error Internal Server Error: org.springframework.transaction.UnexpectedRollbackException org.springframework.transaction.UnexpectedRollbackException: JTA transaction unexpectedly rolled back (maybe due to a timeout); nested exception is javax.transaction.RollbackException at org.springframework.transaction.jta.JtaTransactionManager.doCommit(JtaTransactionManager.java:1024) ~[spring-tx-4.0.3.RELEASE.jar:4.0.3.RELEASE] at org.springframework.transaction.support.AbstractPlatformTransactionManager.processCommit(AbstractPlatformTransactionManager.java:757) ~[spring-tx-4.0.3.RELEASE.jar:4.0.3.RELEASE] at org.springframework.transaction.support.AbstractPlatformTransactionManager.commit(AbstractPlatformTransactionManager.java:726) ~[spring-tx-4.0.3.RELEASE.jar:4.0.3.RELEASE] at org.springframework.transaction.interceptor.TransactionAspectSupport.commitTransactionAfterReturning(TransactionAspectSupport.java:478) ~[spring-tx-4.0.3.RELEASE.jar:4.0.3.RELEASE] at org.springframework.transaction.interceptor.TransactionAspectSupport.invokeWithinTransaction(TransactionAspectSupport.java:272) ~[spring-tx-4.0.3.RELEASE.jar:4.0.3.RELEASE] at org.springframework.transaction.interceptor.TransactionInterceptor.invoke(TransactionInterceptor.java:95) ~[spring-tx-4.0.3.RELEASE.jar:4.0.3.RELEASE] at org.springframework.aop.framework.ReflectiveMethodInvocation.proceed(ReflectiveMethodInvocation.java:179) ~[spring-aop-4.0.3.RELEASE.jar:4.0.3.RELEASE] at org.springframework.aop.framework.JdkDynamicAopProxy.invoke(JdkDynamicAopProxy.java:207) ~[spring-aop-4.0.3.RELEASE.jar:4.0.3.RELEASE] at com.sun.proxy.$Proxy149.updateValueSet(Unknown Source) ~[na:na] at sun.reflect.GeneratedMethodAccessor225.invoke(Unknown Source) ~[na:na] at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43) ~[na:1.7.0_51] at java.lang.reflect.Method.invoke(Method.java:606) ~[na:1.7.0_51] at org.jboss.resteasy.core.MethodInjectorImpl.invoke(MethodInjectorImpl.java:137) ~[resteasy-jaxrs-3.0.6.Final.jar:na] at org.jboss.resteasy.core.ResourceMethodInvoker.invokeOnTarget(ResourceMethodInvoker.java:280) ~[resteasy-jaxrs-3.0.6.Final.jar:na] at org.jboss.resteasy.core.ResourceMethodInvoker.invoke(ResourceMethodInvoker.java:234) ~[resteasy-jaxrs-3.0.6.Final.jar:na] .... {code}

    JIRA | 2 years ago | Dwain Elson
    java.lang.RuntimeException: java.io.IOException: Server Error
  6. 0

    We get export errors sometimes (IOException). The following is one example are they occurring because of some conflict in Opal? The Onyx error and Opal error occurred at the same time so assume they are related. (Hour difference because of the local time for Dalhousie) catalina.log: {code} 2014-12-11 18:37:15,313 - [http-8443-4] - INFO - tithreadedDatasourceCopier - Copy 1% complete. 2014-12-11 18:38:15,731 - [http-8443-4] - ERROR - page.ParticipantSearchPage - Error on data export. java.lang.RuntimeException: java.io.IOException: Server Error at org.obiba.magma.support.MultithreadedDatasourceCopier$ConcurrentValueSetWriter.run(MultithreadedDatasourceCopier.java:317) at org.obiba.magma.support.MultithreadedDatasourceCopier.write(MultithreadedDatasourceCopier.java:161) at org.obiba.magma.support.MultithreadedDatasourceCopier.copy(MultithreadedDatasourceCopier.java:149) at org.obiba.onyx.engine.variable.export.OnyxDataExport.internalExport(OnyxDataExport.java:209) at org.obiba.onyx.engine.variable.export.OnyxDataExport.exportInterviews(OnyxDataExport.java:143) at org.obiba.onyx.engine.variable.export.OnyxDataExport$$FastClassByCGLIB$$c7571da3.invoke(<generated>) at net.sf.cglib.proxy.MethodProxy.invoke(MethodProxy.java:149) at org.springframework.aop.framework.Cglib2AopProxy$CglibMethodInvocation.invokeJoinpoint(Cglib2AopProxy.java:689) at org.springframework.aop.framework.ReflectiveMethodInvocation.proceed(ReflectiveMethodInvocation.java:150) at org.springframework.transaction.interceptor.TransactionInterceptor.invoke(TransactionInterceptor.java:110) at org.springframework.aop.framework.ReflectiveMethodInvocation.proceed(ReflectiveMethodInvocation.java:172) at org.springframework.aop.framework.Cglib2AopProxy$DynamicAdvisedInterceptor.intercept(Cglib2AopProxy.java:622) at org.obiba.onyx.engine.variable.export.OnyxDataExport$$EnhancerByCGLIB$$3f62bd99.exportInterviews(<generated>) at org.obiba.onyx.engine.variable.export.OnyxDataExport$$FastClassByCGLIB$$c7571da3.invoke(<generated>) at net.sf.cglib.proxy.MethodProxy.invoke(MethodProxy.java:149) at org.apache.wicket.proxy.LazyInitProxyFactory$CGLibInterceptor.intercept(LazyInitProxyFactory.java:317) at WICKET_org.obiba.onyx.engine.variable.export.OnyxDataExport$$EnhancerByCGLIB$$e8962fa.exportInterviews(<generated>) at org.obiba.onyx.webapp.participant.page.ParticipantSearchPage$ActionFragment$7$1.onYesButtonClicked(ParticipantSearchPage.java:668) at org.obiba.onyx.wicket.reusable.ConfirmationDialog$1.onClose(ConfirmationDialog.java:45) at org.obiba.onyx.wicket.reusable.Dialog$7.onClose(Dialog.java:405) at org.apache.wicket.extensions.ajax.markup.html.modal.ModalWindow$WindowClosedBehavior.respond(ModalWindow.java:966) at org.apache.wicket.ajax.AbstractDefaultAjaxBehavior.onRequest(AbstractDefaultAjaxBehavior.java:302) at org.apache.wicket.request.target.component.listener.BehaviorRequestTarget.processEvents(BehaviorRequestTarget.java:157) at org.apache.wicket.request.AbstractRequestCycleProcessor.processEvents(AbstractRequestCycleProcessor.java:92) at org.apache.wicket.RequestCycle.processEventsAndRespond(RequestCycle.java:1250) at org.apache.wicket.RequestCycle.step(RequestCycle.java:1329) at org.apache.wicket.RequestCycle.steps(RequestCycle.java:1436) at org.apache.wicket.RequestCycle.request(RequestCycle.java:545) at org.apache.wicket.protocol.http.WicketFilter.doGet(WicketFilter.java:486) at org.apache.wicket.protocol.http.WicketFilter.doFilter(WicketFilter.java:319) at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:235) at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:206) at org.springframework.orm.hibernate3.support.OpenSessionInViewFilter.doFilterInternal(OpenSessionInViewFilter.java:198) at org.springframework.web.filter.OncePerRequestFilter.doFilter(OncePerRequestFilter.java:76) at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:235) at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:206) at org.apache.catalina.core.StandardWrapperValve.invoke(StandardWrapperValve.java:233) at org.apache.catalina.core.StandardContextValve.invoke(StandardContextValve.java:191) at org.apache.catalina.core.StandardHostValve.invoke(StandardHostValve.java:127) at org.apache.catalina.valves.ErrorReportValve.invoke(ErrorReportValve.java:102) at org.apache.catalina.core.StandardEngineValve.invoke(StandardEngineValve.java:109) at org.apache.catalina.connector.CoyoteAdapter.service(CoyoteAdapter.java:298) at org.apache.coyote.http11.Http11Processor.process(Http11Processor.java:859) at org.apache.coyote.http11.Http11Protocol$Http11ConnectionHandler.process(Http11Protocol.java:588) at org.apache.tomcat.util.net.JIoEndpoint$Worker.run(JIoEndpoint.java:489) at java.lang.Thread.run(Thread.java:679) Caused by: java.io.IOException: Server Error at org.obiba.opal.rest.client.magma.RestValueTableWriter.checkResponse(RestValueTableWriter.java:101) at org.obiba.opal.rest.client.magma.RestValueTableWriter.access$100(RestValueTableWriter.java:32) at org.obiba.opal.rest.client.magma.RestValueTableWriter$2.close(RestValueTableWriter.java:87) at org.obiba.magma.support.MultithreadedDatasourceCopier$ConcurrentValueSetWriter.run(MultithreadedDatasourceCopier.java:315) ... 45 more 2014-12-12 06:30:52, … {code} opal.log: {code} 2014-12-11 17:38:09,227 [qtp95230463-28737] INFO org.obiba.magma.support.DatasourceCopier - Copying ValueTable 'ContraIndications' to 'clsa-dcs.ContraIndications' (copyMetadata=true, copyValues=false). 2014-12-11 17:38:13,899 [qtp95230463-28737] INFO org.hibernate.event.internal.DefaultLoadEventListener - HHH000327: Error performing load command : org.hibernate.StaleObjectStateException: Row was updated or deleted by another transaction (or unsaved-value mapping was incorrect) : [org.obiba.magma.datasource.hibernate.domain.ValueTableState#138] 2014-12-11 17:38:13,903 [qtp95230463-28913] INFO org.obiba.magma.support.DatasourceCopier - Copying ValueTable 'LateralBoneDensity' to 'clsa-dcs.LateralBoneDensity' (copyMetadata=true, copyValues=false). 2014-12-11 17:38:13,907 [qtp95230463-28737] WARN org.obiba.opal.web.magma.ClientErrorDtos - DatasourceCopierIOException java.lang.RuntimeException: org.hibernate.StaleObjectStateException: Row was updated or deleted by another transaction (or unsaved-value mapping was incorrect) : [org.obiba.magma.datasource.hibernate.domain.ValueTableState#138] at org.obiba.opal.core.service.DataImportServiceImpl.copyValueTables(DataImportServiceImpl.java:142) ~[opal-core-2.2.15.jar:na] at org.obiba.opal.core.service.DataImportServiceImpl.importData(DataImportServiceImpl.java:105) ~[opal-core-2.2.15.jar:na] at org.obiba.opal.web.magma.TableResourceImpl.updateValueSet(TableResourceImpl.java:170) ~[opal-core-ws-2.2.15.jar:na] at sun.reflect.GeneratedMethodAccessor225.invoke(Unknown Source) ~[na:na] at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43) ~[na:1.7.0_51] at java.lang.reflect.Method.invoke(Method.java:606) ~[na:1.7.0_51] at org.springframework.aop.support.AopUtils.invokeJoinpointUsingReflection(AopUtils.java:317) [spring-aop-4.0.3.RELEASE.jar:4.0.3.RELEASE] at org.springframework.aop.framework.ReflectiveMethodInvocation.invokeJoinpoint(ReflectiveMethodInvocation.java:190) [spring-aop-4.0.3.RELEASE.jar:4.0.3.RELEASE] at org.springframework.aop.framework.ReflectiveMethodInvocation.proceed(ReflectiveMethodInvocation.java:157) [spring-aop-4.0.3.RELEASE.jar:4.0.3.RELEASE] at org.springframework.transaction.interceptor.TransactionInterceptor$1.proceedWithInvocation(TransactionInterceptor.java:98) [spring-tx-4.0.3.RELEASE.jar:4.0.3.RELEASE] at org.springframework.transaction.interceptor.TransactionAspectSupport.invokeWithinTransaction(TransactionAspectSupport.java:262) [spring-tx-4.0.3.RELEASE.jar:4.0.3.RELEASE] at org.springframework.transaction.interceptor.TransactionInterceptor.invoke(TransactionInterceptor.java:95) [spring-tx-4.0.3.RELEASE.jar:4.0.3.RELEASE] at org.springframework.aop.framework.ReflectiveMethodInvocation.proceed(ReflectiveMethodInvocation.java:179) [spring-aop-4.0.3.RELEASE.jar:4.0.3.RELEASE] at org.springframework.aop.framework.JdkDynamicAopProxy.invoke(JdkDynamicAopProxy.java:207) [spring-aop-4.0.3.RELEASE.jar:4.0.3.RELEASE] at com.sun.proxy.$Proxy149.updateValueSet(Unknown Source) [na:na] at sun.reflect.GeneratedMethodAccessor225.invoke(Unknown Source) ~[na:na] at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43) ~[na:1.7.0_51] at java.lang.reflect.Method.invoke(Method.java:606) ~[na:1.7.0_51] at org.jboss.resteasy.core.MethodInjectorImpl.invoke(MethodInjectorImpl.java:137) [resteasy-jaxrs-3.0.6.Final.jar:na] at org.jboss.resteasy.core.ResourceMethodInvoker.invokeOnTarget(ResourceMethodInvoker.java:280) [resteasy-jaxrs-3.0.6.Final.jar:na] at org.jboss.resteasy.core.ResourceMethodInvoker.invoke(ResourceMethodInvoker.java:234) [resteasy-jaxrs-3.0.6.Final.jar:na] at org.jboss.resteasy.core.ResourceLocatorInvoker.invokeOnTargetObject(ResourceLocatorInvoker.java:140) [resteasy-jaxrs-3.0.6.Final.jar:na] at org.jboss.resteasy.core.ResourceLocatorInvoker.invoke(ResourceLocatorInvoker.java:103) [resteasy-jaxrs-3.0.6.Final.jar:na] at org.jboss.resteasy.core.SynchronousDispatcher.invoke(SynchronousDispatcher.java:356) [resteasy-jaxrs-3.0.6.Final.jar:na] at org.jboss.resteasy.core.SynchronousDispatcher.invoke(SynchronousDispatcher.java:179) [resteasy-jaxrs-3.0.6.Final.jar:na] at org.jboss.resteasy.plugins.server.servlet.ServletContainerDispatcher.service(ServletContainerDispatcher.java:220) [resteasy-jaxrs-3.0.6.Final.jar:na] at org.jboss.resteasy.plugins.server.servlet.HttpServletDispatcher.service(HttpServletDispatcher.java:56) [resteasy-jaxrs-3.0.6.Final.jar:na] at org.jboss.resteasy.plugins.server.servlet.HttpServletDispatcher.service(HttpServletDispatcher.java:51) [resteasy-jaxrs-3.0.6.Final.jar:na] at javax.servlet.http.HttpServlet.service(HttpServlet.java:848) [javax.servlet-3.0.0.v201112011016.jar:na] at org.eclipse.jetty.servlet.ServletHolder.handle(ServletHolder.java:684) [jetty-servlet-8.1.14.v20131031.jar:8.1.14.v20131031] at org.eclipse.jetty.servlet.ServletHandler$CachedChain.doFilter(ServletHandler.java:1496) [jetty-servlet-8.1.14.v20131031.jar:8.1.14.v20131031] at org.obiba.shiro.web.filter.AuthenticationFilter.doFilterInternal(AuthenticationFilter.java:88) [obiba-shiro-web-1.6.1.jar:na] at org.springframework.web.filter.OncePerRequestFilter.doFilter(OncePerRequestFilter.java:108) [spring-web-4.0.3.RELEASE.jar:4.0.3.RELEASE] at org.springframework.web.filter.DelegatingFilterProxy.invokeDelegate(DelegatingFilterProxy.java:344) [spring-web-4.0.3.RELEASE.jar:4.0.3.RELEASE] … {code} stdout.log from opal: {code} 2014-12-11 17:38:13,918 ERROR org.obiba.opal.web.provider.ErrorDtoExceptionMapper - System error Internal Server Error: org.springframework.transaction.UnexpectedRollbackException org.springframework.transaction.UnexpectedRollbackException: JTA transaction unexpectedly rolled back (maybe due to a timeout); nested exception is javax.transaction.RollbackException at org.springframework.transaction.jta.JtaTransactionManager.doCommit(JtaTransactionManager.java:1024) ~[spring-tx-4.0.3.RELEASE.jar:4.0.3.RELEASE] at org.springframework.transaction.support.AbstractPlatformTransactionManager.processCommit(AbstractPlatformTransactionManager.java:757) ~[spring-tx-4.0.3.RELEASE.jar:4.0.3.RELEASE] at org.springframework.transaction.support.AbstractPlatformTransactionManager.commit(AbstractPlatformTransactionManager.java:726) ~[spring-tx-4.0.3.RELEASE.jar:4.0.3.RELEASE] at org.springframework.transaction.interceptor.TransactionAspectSupport.commitTransactionAfterReturning(TransactionAspectSupport.java:478) ~[spring-tx-4.0.3.RELEASE.jar:4.0.3.RELEASE] at org.springframework.transaction.interceptor.TransactionAspectSupport.invokeWithinTransaction(TransactionAspectSupport.java:272) ~[spring-tx-4.0.3.RELEASE.jar:4.0.3.RELEASE] at org.springframework.transaction.interceptor.TransactionInterceptor.invoke(TransactionInterceptor.java:95) ~[spring-tx-4.0.3.RELEASE.jar:4.0.3.RELEASE] at org.springframework.aop.framework.ReflectiveMethodInvocation.proceed(ReflectiveMethodInvocation.java:179) ~[spring-aop-4.0.3.RELEASE.jar:4.0.3.RELEASE] at org.springframework.aop.framework.JdkDynamicAopProxy.invoke(JdkDynamicAopProxy.java:207) ~[spring-aop-4.0.3.RELEASE.jar:4.0.3.RELEASE] at com.sun.proxy.$Proxy149.updateValueSet(Unknown Source) ~[na:na] at sun.reflect.GeneratedMethodAccessor225.invoke(Unknown Source) ~[na:na] at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43) ~[na:1.7.0_51] at java.lang.reflect.Method.invoke(Method.java:606) ~[na:1.7.0_51] at org.jboss.resteasy.core.MethodInjectorImpl.invoke(MethodInjectorImpl.java:137) ~[resteasy-jaxrs-3.0.6.Final.jar:na] at org.jboss.resteasy.core.ResourceMethodInvoker.invokeOnTarget(ResourceMethodInvoker.java:280) ~[resteasy-jaxrs-3.0.6.Final.jar:na] at org.jboss.resteasy.core.ResourceMethodInvoker.invoke(ResourceMethodInvoker.java:234) ~[resteasy-jaxrs-3.0.6.Final.jar:na] .... {code}

    JIRA | 2 years ago | Dwain Elson
    java.lang.RuntimeException: java.io.IOException: Server Error

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    Root Cause Analysis

    1. java.io.IOException

      Error executing cvs server on server.\\nSet CVS_SERVER environment variable properly.

      at org.netbeans.lib.cvsclient.connection.SSHConnection$SshChannelInputStream.checkChannelState()
    2. org.netbeans.lib
      SSHConnection$SshChannelInputStream.available
      1. org.netbeans.lib.cvsclient.connection.SSHConnection$SshChannelInputStream.checkChannelState(SSHConnection.java:294)
      2. org.netbeans.lib.cvsclient.connection.SSHConnection$SshChannelInputStream.available(SSHConnection.java:288)
      2 frames