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<title>Logback Log Messages</title>
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TD.Logger { text-align: left; }
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<p>Log session start time Tue Sep 02 03:45:17 UTC 2025</p><p></p>
<table cellspacing="0">
<tr class="header">
<td class="Date">Date</td>
<td class="Thread">Thread</td>
<td class="Level">Level</td>
<td class="Logger">Logger</td>
<td class="MDC">MDC</td>
<td class="Message">Message</td>
</tr>
<tr class="error odd">
<td class="Date">2025-09-02 03:44:08,668</td>
<td class="Thread">http-nio-8080-exec-107</td>
<td class="Level">ERROR</td>
<td class="Logger">onlyEmailLogger</td>
<td class="MDC"></td>
<td class="Message">NullPointerException was caught for request: http://localhost:8080/ContentService/exporter/sbml/9030769.xml</td>
</tr>
<tr><td class="Exception" colspan="6">java.lang.NullPointerException: null
<br /> at org.reactome.server.tools.WriteSBML.addSpecies(WriteSBML.java:598)
<br /> at org.reactome.server.tools.WriteSBML.addParticipant(WriteSBML.java:531)
<br /> at org.reactome.server.tools.WriteSBML.addReaction(WriteSBML.java:469)
<br /> at org.reactome.server.tools.WriteSBML.addReaction(WriteSBML.java:447)
<br /> at org.reactome.server.tools.WriteSBML.addAllReactions(WriteSBML.java:413)
<br /> at org.reactome.server.tools.WriteSBML.addAllReactions(WriteSBML.java:416)
<br /> at org.reactome.server.tools.WriteSBML.addAllReactions(WriteSBML.java:416)
<br /> at org.reactome.server.tools.WriteSBML.addAllReactions(WriteSBML.java:396)
<br /> at org.reactome.server.tools.WriteSBML.createModel(WriteSBML.java:179)
<br /> at org.reactome.server.tools.SBMLFactory.getSBML(SBMLFactory.java:9)
<br /> at org.reactome.server.service.controller.exporter.DiagramExporterController.toSBML(DiagramExporterController.java:117)
<br /> at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
<br /> at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:62)
<br /> at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
<br /> at java.lang.reflect.Method.invoke(Method.java:498)
<br /> at org.springframework.web.method.support.InvocableHandlerMethod.doInvoke(InvocableHandlerMethod.java:205)
<br /> at org.springframework.web.method.support.InvocableHandlerMethod.invokeForRequest(InvocableHandlerMethod.java:133)
<br /> at org.springframework.web.servlet.mvc.method.annotation.ServletInvocableHandlerMethod.invokeAndHandle(ServletInvocableHandlerMethod.java:97)
<br /> at org.springframework.web.servlet.mvc.method.annotation.RequestMappingHandlerAdapter.invokeHandlerMethod(RequestMappingHandlerAdapter.java:827)
<br /> at org.springframework.web.servlet.mvc.method.annotation.RequestMappingHandlerAdapter.handleInternal(RequestMappingHandlerAdapter.java:738)
<br /> at org.springframework.web.servlet.mvc.method.AbstractHandlerMethodAdapter.handle(AbstractHandlerMethodAdapter.java:85)
<br /> at org.springframework.web.servlet.DispatcherServlet.doDispatch(DispatcherServlet.java:967)
<br /> at org.springframework.web.servlet.DispatcherServlet.doService(DispatcherServlet.java:901)
<br /> at org.springframework.web.servlet.FrameworkServlet.processRequest(FrameworkServlet.java:970)
<br /> at org.springframework.web.servlet.FrameworkServlet.doGet(FrameworkServlet.java:861)
<br /> at javax.servlet.http.HttpServlet.service(HttpServlet.java:488)
<br /> at org.springframework.web.servlet.FrameworkServlet.service(FrameworkServlet.java:846)
<br /> at javax.servlet.http.HttpServlet.service(HttpServlet.java:582)
<br /> at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:212)
<br /> at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:156)
<br /> at org.apache.tomcat.websocket.server.WsFilter.doFilter(WsFilter.java:52)
<br /> at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:181)
<br /> at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:156)
<br /> at org.springframework.web.filter.CharacterEncodingFilter.doFilterInternal(CharacterEncodingFilter.java:197)
<br /> at org.springframework.web.filter.OncePerRequestFilter.doFilter(OncePerRequestFilter.java:107)
<br /> at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:181)
<br /> at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:156)
<br /> at org.reactome.server.service.utils.CustomRequestFilter.doFilterInternal(CustomRequestFilter.java:30)
<br /> at org.springframework.web.filter.OncePerRequestFilter.doFilter(OncePerRequestFilter.java:107)
<br /> at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:181)
<br /> at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:156)
<br /> at org.apache.catalina.core.StandardWrapperValve.invoke(StandardWrapperValve.java:167)
<br /> at org.apache.catalina.core.StandardContextValve.invoke(StandardContextValve.java:90)
<br /> at org.apache.catalina.authenticator.AuthenticatorBase.invoke(AuthenticatorBase.java:494)
<br /> at org.apache.catalina.core.StandardHostValve.invoke(StandardHostValve.java:130)
<br /> at org.apache.catalina.valves.ErrorReportValve.invoke(ErrorReportValve.java:93)
<br /> at org.apache.catalina.valves.AbstractAccessLogValve.invoke(AbstractAccessLogValve.java:682)
<br /> at org.apache.catalina.core.StandardEngineValve.invoke(StandardEngineValve.java:74)
<br /> at org.apache.catalina.connector.CoyoteAdapter.service(CoyoteAdapter.java:343)
<br /> at org.apache.coyote.http11.Http11Processor.service(Http11Processor.java:617)
<br /> at org.apache.coyote.AbstractProcessorLight.process(AbstractProcessorLight.java:63)
<br /> at org.apache.coyote.AbstractProtocol$ConnectionHandler.process(AbstractProtocol.java:932)
<br /> at org.apache.tomcat.util.net.NioEndpoint$SocketProcessor.doRun(NioEndpoint.java:1695)
<br /> at org.apache.tomcat.util.net.SocketProcessorBase.run(SocketProcessorBase.java:49)
<br /> at org.apache.tomcat.util.threads.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1191)
<br /> at org.apache.tomcat.util.threads.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:659)
<br /> at org.apache.tomcat.util.threads.TaskThread$WrappingRunnable.run(TaskThread.java:61)
<br /> at java.lang.Thread.run(Thread.java:750)
</td></tr>
<tr class="error even">
<td class="Date">2025-09-02 03:45:17,116</td>
<td class="Thread">http-nio-8080-exec-28</td>
<td class="Level">ERROR</td>
<td class="Logger">onlyEmailLogger</td>
<td class="MDC"></td>
<td class="Message">NullPointerException was caught for request: http://localhost:8080/ContentService/exporter/sbml/2894886.xml</td>
</tr>
<tr><td class="Exception" colspan="6">java.lang.NullPointerException: null
<br /> at org.reactome.server.tools.WriteSBML.addSpecies(WriteSBML.java:598)
<br /> at org.reactome.server.tools.WriteSBML.addParticipant(WriteSBML.java:531)
<br /> at org.reactome.server.tools.WriteSBML.addReaction(WriteSBML.java:469)
<br /> at org.reactome.server.tools.WriteSBML.addReaction(WriteSBML.java:447)
<br /> at org.reactome.server.tools.WriteSBML.addAllReactions(WriteSBML.java:413)
<br /> at org.reactome.server.tools.WriteSBML.addAllReactions(WriteSBML.java:416)
<br /> at org.reactome.server.tools.WriteSBML.addAllReactions(WriteSBML.java:396)
<br /> at org.reactome.server.tools.WriteSBML.createModel(WriteSBML.java:179)
<br /> at org.reactome.server.tools.SBMLFactory.getSBML(SBMLFactory.java:9)
<br /> at org.reactome.server.service.controller.exporter.DiagramExporterController.toSBML(DiagramExporterController.java:117)
<br /> at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
<br /> at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:62)
<br /> at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
<br /> at java.lang.reflect.Method.invoke(Method.java:498)
<br /> at org.springframework.web.method.support.InvocableHandlerMethod.doInvoke(InvocableHandlerMethod.java:205)
<br /> at org.springframework.web.method.support.InvocableHandlerMethod.invokeForRequest(InvocableHandlerMethod.java:133)
<br /> at org.springframework.web.servlet.mvc.method.annotation.ServletInvocableHandlerMethod.invokeAndHandle(ServletInvocableHandlerMethod.java:97)
<br /> at org.springframework.web.servlet.mvc.method.annotation.RequestMappingHandlerAdapter.invokeHandlerMethod(RequestMappingHandlerAdapter.java:827)
<br /> at org.springframework.web.servlet.mvc.method.annotation.RequestMappingHandlerAdapter.handleInternal(RequestMappingHandlerAdapter.java:738)
<br /> at org.springframework.web.servlet.mvc.method.AbstractHandlerMethodAdapter.handle(AbstractHandlerMethodAdapter.java:85)
<br /> at org.springframework.web.servlet.DispatcherServlet.doDispatch(DispatcherServlet.java:967)
<br /> at org.springframework.web.servlet.DispatcherServlet.doService(DispatcherServlet.java:901)
<br /> at org.springframework.web.servlet.FrameworkServlet.processRequest(FrameworkServlet.java:970)
<br /> at org.springframework.web.servlet.FrameworkServlet.doGet(FrameworkServlet.java:861)
<br /> at javax.servlet.http.HttpServlet.service(HttpServlet.java:488)
<br /> at org.springframework.web.servlet.FrameworkServlet.service(FrameworkServlet.java:846)
<br /> at javax.servlet.http.HttpServlet.service(HttpServlet.java:582)
<br /> at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:212)
<br /> at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:156)
<br /> at org.apache.tomcat.websocket.server.WsFilter.doFilter(WsFilter.java:52)
<br /> at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:181)
<br /> at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:156)
<br /> at org.springframework.web.filter.CharacterEncodingFilter.doFilterInternal(CharacterEncodingFilter.java:197)
<br /> at org.springframework.web.filter.OncePerRequestFilter.doFilter(OncePerRequestFilter.java:107)
<br /> at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:181)
<br /> at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:156)
<br /> at org.reactome.server.service.utils.CustomRequestFilter.doFilterInternal(CustomRequestFilter.java:30)
<br /> at org.springframework.web.filter.OncePerRequestFilter.doFilter(OncePerRequestFilter.java:107)
<br /> at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:181)
<br /> at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:156)
<br /> at org.apache.catalina.core.StandardWrapperValve.invoke(StandardWrapperValve.java:167)
<br /> at org.apache.catalina.core.StandardContextValve.invoke(StandardContextValve.java:90)
<br /> at org.apache.catalina.authenticator.AuthenticatorBase.invoke(AuthenticatorBase.java:494)
<br /> at org.apache.catalina.core.StandardHostValve.invoke(StandardHostValve.java:130)
<br /> at org.apache.catalina.valves.ErrorReportValve.invoke(ErrorReportValve.java:93)
<br /> at org.apache.catalina.valves.AbstractAccessLogValve.invoke(AbstractAccessLogValve.java:682)
<br /> at org.apache.catalina.core.StandardEngineValve.invoke(StandardEngineValve.java:74)
<br /> at org.apache.catalina.connector.CoyoteAdapter.service(CoyoteAdapter.java:343)
<br /> at org.apache.coyote.http11.Http11Processor.service(Http11Processor.java:617)
<br /> at org.apache.coyote.AbstractProcessorLight.process(AbstractProcessorLight.java:63)
<br /> at org.apache.coyote.AbstractProtocol$ConnectionHandler.process(AbstractProtocol.java:932)
<br /> at org.apache.tomcat.util.net.NioEndpoint$SocketProcessor.doRun(NioEndpoint.java:1695)
<br /> at org.apache.tomcat.util.net.SocketProcessorBase.run(SocketProcessorBase.java:49)
<br /> at org.apache.tomcat.util.threads.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1191)
<br /> at org.apache.tomcat.util.threads.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:659)
<br /> at org.apache.tomcat.util.threads.TaskThread$WrappingRunnable.run(TaskThread.java:61)
<br /> at java.lang.Thread.run(Thread.java:750)
</td></tr></table>
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