Hi Tim,
Thanks for the info. FYI, we are running DSpace 5.8 on Ubuntu 14.04 LTS and
PostgreSQL. We run Apache and Tomcat7.
I tried to view the logs while my colleague did a deposit through the UI. The
/dspace/log/solr.log file didn’t show any errors.
However, I did notice some errors/warnings in our
/dspace/log/cocoon.log.2017-10-04 during the time frame of the deposit.
2017-10-04 10:39:32,176 WARN cocoon.access -
org.apache.cocoon.ConnectionResetException: Connection reset by peer
at <map:select type="browser"> - jndi:/localhost/sitemap.xmap:256:68
at <map:match type="request-parameter"> -
jndi:/localhost/sitemap.xmap:255:88
at <map:match> - jndi:/localhost/sitemap.xmap:254:70
2017-10-04 10:39:38,951 ERROR cocoon.handled - Could not read resource
cocoon://DRI/1/handle/10012/9972/workflow
at <map:serialize type="xml"> -
jndi:/localhost/aspects/aspects.xmap:85:34
at <map:transform type="PageNotFound"> -
jndi:/localhost/aspects/aspects.xmap:84:43
at <map:generate> - jndi:/localhost/aspects/aspects.xmap:83:22
at <map:serialize type="html-no-doctype"> -
jndi:/localhost/themes/Mirage2/sitemap.xmap:198:56
at <map:transform type="strip-namespaces"> -
jndi:/localhost/themes/Mirage2/sitemap.xmap:108:54
at <map:transform type="i18n"> -
jndi:/localhost/themes/Mirage2/sitemap.xmap:102:44
at <map:transform> - jndi:/localhost/themes/Mirage2/sitemap.xmap:98:49
at <map:transform type="IncludePageMeta"> -
jndi:/localhost/themes/Mirage2/sitemap.xmap:85:51
at <map:transform> - jndi:/localhost/themes/Mirage2/sitemap.xmap:82:54
at <map:generate type="file"> -
jndi:/localhost/themes/Mirage2/sitemap.xmap:190:67
at <map:match> - jndi:/localhost/themes/Mirage2/sitemap.xmap:185:37
org.apache.cocoon.ProcessingException: Could not read resource
cocoon://DRI/1/handle/10012/9972/workflow
at <map:serialize type="xml"> -
jndi:/localhost/aspects/aspects.xmap:85:34
at <map:transform type="PageNotFound"> -
jndi:/localhost/aspects/aspects.xmap:84:43
at <map:generate> - jndi:/localhost/aspects/aspects.xmap:83:22
at <map:serialize type="html-no-doctype"> -
jndi:/localhost/themes/Mirage2/sitemap.xmap:198:56
at <map:transform type="strip-namespaces"> -
jndi:/localhost/themes/Mirage2/sitemap.xmap:108:54
at <map:transform type="i18n"> -
jndi:/localhost/themes/Mirage2/sitemap.xmap:102:44
at <map:transform> - jndi:/localhost/themes/Mirage2/sitemap.xmap:98:49
at <map:transform type="IncludePageMeta"> -
jndi:/localhost/themes/Mirage2/sitemap.xmap:85:51
at <map:transform> - jndi:/localhost/themes/Mirage2/sitemap.xmap:82:54
at <map:generate type="file"> -
jndi:/localhost/themes/Mirage2/sitemap.xmap:190:67
at <map:match> - jndi:/localhost/themes/Mirage2/sitemap.xmap:185:37
at
org.apache.cocoon.components.source.util.SourceUtil.handleSAXException(SourceUtil.java:409)
at
org.apache.cocoon.generation.FileGenerator.generate(FileGenerator.java:138)
at sun.reflect.GeneratedMethodAccessor150.invoke(Unknown Source)
at
sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
at java.lang.reflect.Method.invoke(Method.java:606)
at
org.apache.cocoon.core.container.spring.avalon.PoolableProxyHandler.invoke(PoolableProxyHandler.java:71)
at com.sun.proxy.$Proxy92.generate(Unknown Source)
at
org.apache.cocoon.components.pipeline.AbstractProcessingPipeline.processXMLPipeline(AbstractProcessingPipeline.java:544)
at
org.apache.cocoon.components.pipeline.impl.AbstractCachingProcessingPipeline.processXMLPipeline(AbstractCachingProcessingPipeline.java:273)
at
org.apache.cocoon.components.pipeline.AbstractProcessingPipeline.process(AbstractProcessingPipeline.java:750)
at sun.reflect.GeneratedMethodAccessor151.invoke(Unknown Source)
at
sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
at java.lang.reflect.Method.invoke(Method.java:606)
at
org.apache.cocoon.core.container.spring.avalon.PoolableProxyHandler.invoke(PoolableProxyHandler.java:71)
at com.sun.proxy.$Proxy91.process(Unknown Source)
at
org.apache.cocoon.components.source.impl.SitemapSource.toSAX(SitemapSource.java:362)
at
org.apache.cocoon.components.source.util.SourceUtil.toSAX(SourceUtil.java:111)
at
org.apache.cocoon.components.source.util.SourceUtil.parse(SourceUtil.java:294)
at
org.apache.cocoon.generation.FileGenerator.generate(FileGenerator.java:136)
at sun.reflect.GeneratedMethodAccessor150.invoke(Unknown Source)
at
sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
at java.lang.reflect.Method.invoke(Method.java:606)
at
org.apache.cocoon.core.container.spring.avalon.PoolableProxyHandler.invoke(PoolableProxyHandler.java:71)
at com.sun.proxy.$Proxy92.generate(Unknown Source)
at
org.apache.cocoon.components.pipeline.AbstractProcessingPipeline.processXMLPipeline(AbstractProcessingPipeline.java:544)
at
org.apache.cocoon.components.pipeline.impl.AbstractCachingProcessingPipeline.processXMLPipeline(AbstractCachingProcessingPipeline.java:273)
at
org.apache.cocoon.components.pipeline.AbstractProcessingPipeline.process(AbstractProcessingPipeline.java:439)
at sun.reflect.GeneratedMethodAccessor85.invoke(Unknown Source)
at
sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
at java.lang.reflect.Method.invoke(Method.java:606)
at
org.apache.cocoon.core.container.spring.avalon.PoolableProxyHandler.invoke(PoolableProxyHandler.java:71)
at com.sun.proxy.$Proxy91.process(Unknown Source)
at
org.apache.cocoon.components.treeprocessor.sitemap.SerializeNode.invoke(SerializeNode.java:147)
at
org.apache.cocoon.components.treeprocessor.AbstractParentProcessingNode.invokeNodes(AbstractParentProcessingNode.java:55)
at
org.apache.cocoon.components.treeprocessor.sitemap.MatchNode.invoke(MatchNode.java:87)
at
org.apache.cocoon.components.treeprocessor.AbstractParentProcessingNode.invokeNodes(AbstractParentProcessingNode.java:78)
at
org.apache.cocoon.components.treeprocessor.sitemap.PipelineNode.invoke(PipelineNode.java:143)
at
org.apache.cocoon.components.treeprocessor.AbstractParentProcessingNode.invokeNodes(AbstractParentProcessingNode.java:78)
at
org.apache.cocoon.components.treeprocessor.sitemap.PipelinesNode.invoke(PipelinesNode.java:81)
at
org.apache.cocoon.components.treeprocessor.ConcreteTreeProcessor.process(ConcreteTreeProcessor.java:239)
at
org.apache.cocoon.components.treeprocessor.ConcreteTreeProcessor.process(ConcreteTreeProcessor.java:171)
at
org.apache.cocoon.components.treeprocessor.TreeProcessor.process(TreeProcessor.java:247)
at
org.apache.cocoon.components.treeprocessor.sitemap.MountNode.invoke(MountNode.java:117)
at
org.apache.cocoon.components.treeprocessor.AbstractParentProcessingNode.invokeNodes(AbstractParentProcessingNode.java:55)
at
org.apache.cocoon.components.treeprocessor.sitemap.MatchNode.invoke(MatchNode.java:87)
at
org.apache.cocoon.components.treeprocessor.AbstractParentProcessingNode.invokeNodes(AbstractParentProcessingNode.java:78)
at
org.apache.cocoon.components.treeprocessor.sitemap.PipelineNode.invoke(PipelineNode.java:143)
at
org.apache.cocoon.components.treeprocessor.AbstractParentProcessingNode.invokeNodes(AbstractParentProcessingNode.java:78)
at
org.apache.cocoon.components.treeprocessor.sitemap.PipelinesNode.invoke(PipelinesNode.java:81)
at
org.apache.cocoon.components.treeprocessor.ConcreteTreeProcessor.process(ConcreteTreeProcessor.java:239)
at
org.apache.cocoon.components.treeprocessor.ConcreteTreeProcessor.process(ConcreteTreeProcessor.java:171)
at
org.apache.cocoon.components.treeprocessor.TreeProcessor.process(TreeProcessor.java:247)
at
org.apache.cocoon.components.treeprocessor.sitemap.MountNode.invoke(MountNode.java:117)
at
org.apache.cocoon.components.treeprocessor.AbstractParentProcessingNode.invokeNodes(AbstractParentProcessingNode.java:78)
at
org.apache.cocoon.components.treeprocessor.sitemap.PipelineNode.invoke(PipelineNode.java:143)
at
org.apache.cocoon.components.treeprocessor.AbstractParentProcessingNode.invokeNodes(AbstractParentProcessingNode.java:78)
at
org.apache.cocoon.components.treeprocessor.sitemap.PipelinesNode.invoke(PipelinesNode.java:81)
at
org.apache.cocoon.components.treeprocessor.ConcreteTreeProcessor.process(ConcreteTreeProcessor.java:239)
at
org.apache.cocoon.components.treeprocessor.ConcreteTreeProcessor.process(ConcreteTreeProcessor.java:171)
at
org.apache.cocoon.components.treeprocessor.TreeProcessor.process(TreeProcessor.java:247)
at
org.apache.cocoon.servlet.RequestProcessor.process(RequestProcessor.java:351)
at
org.apache.cocoon.servlet.RequestProcessor.service(RequestProcessor.java:169)
at
org.apache.cocoon.sitemap.SitemapServlet.service(SitemapServlet.java:84)
at javax.servlet.http.HttpServlet.service(HttpServlet.java:727)
at
org.apache.cocoon.servletservice.ServletServiceContext$PathDispatcher.forward(ServletServiceContext.java:468)
at
org.apache.cocoon.servletservice.ServletServiceContext$PathDispatcher.forward(ServletServiceContext.java:443)
at
org.apache.cocoon.servletservice.spring.ServletFactoryBean$ServiceInterceptor.invoke(ServletFactoryBean.java:264)
at
org.springframework.aop.framework.ReflectiveMethodInvocation.proceed(ReflectiveMethodInvocation.java:172)
at
org.springframework.aop.framework.JdkDynamicAopProxy.invoke(JdkDynamicAopProxy.java:202)
at com.sun.proxy.$Proxy86.service(Unknown Source)
at org.dspace.springmvc.CocoonView.render(CocoonView.java:113)
at
org.springframework.web.servlet.DispatcherServlet.render(DispatcherServlet.java:1180)
at
org.springframework.web.servlet.DispatcherServlet.doDispatch(DispatcherServlet.java:950)
at
org.springframework.web.servlet.DispatcherServlet.doService(DispatcherServlet.java:852)
at
org.springframework.web.servlet.FrameworkServlet.processRequest(FrameworkServlet.java:882)
at
org.springframework.web.servlet.FrameworkServlet.doPost(FrameworkServlet.java:789)
at javax.servlet.http.HttpServlet.service(HttpServlet.java:646)
at javax.servlet.http.HttpServlet.service(HttpServlet.java:727)
at
org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:303)
at
org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:208)
at
org.dspace.app.xmlui.cocoon.SetCharacterEncodingFilter.doFilter(SetCharacterEncodingFilter.java:111)
at
org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:241)
at
org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:208)
at
org.dspace.app.xmlui.cocoon.DSpaceCocoonServletFilter.doFilter(DSpaceCocoonServletFilter.java:274)
at
org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:241)
at
org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:208)
at
org.dspace.app.xmlui.cocoon.servlet.multipart.DSpaceMultipartFilter.doFilter(DSpaceMultipartFilter.java:119)
at
org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:241)
at
org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:208)
at
org.dspace.rdf.negotiation.NegotiationFilter.doFilter(NegotiationFilter.java:50)
at
org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:241)
at
org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:208)
at
org.dspace.utils.servlet.DSpaceWebappServletFilter.doFilter(DSpaceWebappServletFilter.java:78)
at
org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:241)
at
org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:208)
at
org.apache.catalina.core.StandardWrapperValve.invoke(StandardWrapperValve.java:220)
at
org.apache.catalina.core.StandardContextValve.invoke(StandardContextValve.java:122)
at
org.apache.catalina.authenticator.AuthenticatorBase.invoke(AuthenticatorBase.java:501)
at
org.apache.catalina.core.StandardHostValve.invoke(StandardHostValve.java:170)
at
org.apache.catalina.valves.ErrorReportValve.invoke(ErrorReportValve.java:98)
at
org.apache.catalina.valves.CrawlerSessionManagerValve.invoke(CrawlerSessionManagerValve.java:180)
at
org.apache.catalina.valves.AccessLogValve.invoke(AccessLogValve.java:950)
at
org.apache.catalina.core.StandardEngineValve.invoke(StandardEngineValve.java:116)
at
org.apache.catalina.connector.CoyoteAdapter.service(CoyoteAdapter.java:408)
at org.apache.coyote.ajp.AjpProcessor.process(AjpProcessor.java:193)
at
org.apache.coyote.AbstractProtocol$AbstractConnectionHandler.process(AbstractProtocol.java:607)
at
org.apache.tomcat.util.net.JIoEndpoint$SocketProcessor.run(JIoEndpoint.java:313)
at
java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1145)
at
java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:615)
at java.lang.Thread.run(Thread.java:745)
Caused by: java.lang.NullPointerException
at
org.apache.cocoon.components.source.impl.SitemapSource.init(SitemapSource.java:292)
at
org.apache.cocoon.components.source.impl.SitemapSource.<init>(SitemapSource.java:148)
at
org.apache.cocoon.components.source.impl.SitemapSourceFactory.getSource(SitemapSourceFactory.java:62)
at
org.apache.cocoon.components.source.CocoonSourceResolver.resolveURI(CocoonSourceResolver.java:153)
at
org.apache.cocoon.components.source.CocoonSourceResolver.resolveURI(CocoonSourceResolver.java:183)
at
org.apache.cocoon.generation.FileGenerator.setup(FileGenerator.java:99)
at
org.dspace.app.xmlui.cocoon.AspectGenerator.setup(AspectGenerator.java:81)
at sun.reflect.GeneratedMethodAccessor86.invoke(Unknown Source)
at
sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
at java.lang.reflect.Method.invoke(Method.java:606)
at
org.apache.cocoon.core.container.spring.avalon.PoolableProxyHandler.invoke(PoolableProxyHandler.java:71)
at com.sun.proxy.$Proxy92.setup(Unknown Source)
at
org.apache.cocoon.components.pipeline.AbstractProcessingPipeline.setupPipeline(AbstractProcessingPipeline.java:343)
at
org.apache.cocoon.components.pipeline.impl.AbstractCachingProcessingPipeline.setupPipeline(AbstractCachingProcessingPipeline.java:710)
at
org.apache.cocoon.components.pipeline.AbstractProcessingPipeline.preparePipeline(AbstractProcessingPipeline.java:466)
at
org.apache.cocoon.components.pipeline.AbstractProcessingPipeline.prepareInternal(AbstractProcessingPipeline.java:480)
at sun.reflect.GeneratedMethodAccessor91.invoke(Unknown Source)
at
sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
at java.lang.reflect.Method.invoke(Method.java:606)
at
org.apache.cocoon.core.container.spring.avalon.PoolableProxyHandler.invoke(PoolableProxyHandler.java:71)
at com.sun.proxy.$Proxy91.prepareInternal(Unknown Source)
at
org.apache.cocoon.components.source.impl.SitemapSource.init(SitemapSource.java:292)
at
org.apache.cocoon.components.source.impl.SitemapSource.<init>(SitemapSource.java:148)
at
org.apache.cocoon.components.source.impl.SitemapSourceFactory.getSource(SitemapSourceFactory.java:62)
at
org.apache.cocoon.components.source.CocoonSourceResolver.resolveURI(CocoonSourceResolver.java:153)
at
org.apache.cocoon.components.source.CocoonSourceResolver.resolveURI(CocoonSourceResolver.java:183)
at
org.apache.cocoon.generation.FileGenerator.setup(FileGenerator.java:99)
at sun.reflect.GeneratedMethodAccessor86.invoke(Unknown Source)
at
sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
at java.lang.reflect.Method.invoke(Method.java:606)
at
org.apache.cocoon.core.container.spring.avalon.PoolableProxyHandler.invoke(PoolableProxyHandler.java:71)
at com.sun.proxy.$Proxy92.setup(Unknown Source)
at
org.apache.cocoon.components.pipeline.AbstractProcessingPipeline.setupPipeline(AbstractProcessingPipeline.java:343)
at
org.apache.cocoon.components.pipeline.impl.AbstractCachingProcessingPipeline.setupPipeline(AbstractCachingProcessingPipeline.java:710)
at
org.apache.cocoon.components.pipeline.AbstractProcessingPipeline.preparePipeline(AbstractProcessingPipeline.java:466)
at
org.apache.cocoon.components.pipeline.AbstractProcessingPipeline.process(AbstractProcessingPipeline.java:411)
... 83 more
2017-10-04 10:39:57,659 ERROR cocoon.handled - Unable to locate bitstream
at <map:read type="BitstreamReader"> -
jndi:/localhost/sitemap.xmap:284:70
at <map:select type="browser"> - jndi:/localhost/sitemap.xmap:275:60
at <map:match> - jndi:/localhost/sitemap.xmap:254:70
Here are some Apache-related errors that happened around the time of the
deposit.
e.g. /var/log/apache2/error.log
[Wed Oct 04 09:28:09.544782 2017] [proxy_ajp:error] [pid 24170:tid
139621576918784] (70007)The timeout specified has expired: AH01030:
ajp_ilink_receive() can't receive header
[Wed Oct 04 09:30:09.404180 2017] [proxy_ajp:error] [pid 24170:tid
139621694416640] (70007)The timeout specified has expired: AH01030:
ajp_ilink_receive() can't receive header
[Wed Oct 04 09:32:54.984955 2017] [proxy_ajp:error] [pid 24170:tid
139621830248192] (70007)The timeout specified has expired: AH01030:
ajp_ilink_receive() can't receive header
[Wed Oct 04 09:33:16.772086 2017] [proxy_ajp:error] [pid 24139:tid
139621686023936] (70007)The timeout specified has expired: AH01030:
ajp_ilink_receive() can't receive header
[Wed Oct 04 09:36:38.703150 2017] [proxy_ajp:error] [pid 24139:tid
139621635667712] (70007)The timeout specified has expired: AH01030:
ajp_ilink_receive() can't receive header
[Wed Oct 04 10:15:49.539011 2017] [proxy_ajp:error] [pid 24139:tid
139621736380160] (70007)The timeout specified has expired: AH01030:
ajp_ilink_receive() can't receive header
[Wed Oct 04 10:23:35.159806 2017] [proxy_ajp:error] [pid 24139:tid
139621830248192] (70007)The timeout specified has expired: AH01030:
ajp_ilink_receive() can't receive header
[Wed Oct 04 10:24:00.120814 2017] [proxy_ajp:error] [pid 24170:tid
139621719594752] (70007)The timeout specified has expired: AH01030:
ajp_ilink_receive() can't receive header
e.g. /var/log/apache2/uwspace.uwaterloo.ca-error.log
[Wed Oct 04 10:15:49.539068 2017] [proxy_ajp:error] [pid 24139:tid
139621736380160] [client 129.97.138.124:64987] AH00992: ajp_read_header:
ajp_ilink_receive failed, referer:
https://uwspace.uwaterloo.ca/handle/10012/9972/submit/711e23062a241d6553614a206f6b528c15586d01.continue
[Wed Oct 04 10:15:49.539182 2017] [proxy_ajp:error] [pid 24139:tid
139621736380160] (70007)The timeout specified has expired: [client
129.97.138.124:64987] AH00878: read response failed from [::1]:8009
(localhost), referer:
https://uwspace.uwaterloo.ca/handle/10012/9972/submit/711e23062a241d6553614a206f6b528c15586d01.continue
[Wed Oct 04 10:23:35.159848 2017] [proxy_ajp:error] [pid 24139:tid
139621830248192] [client 129.97.138.124:65336] AH00992: ajp_read_header:
ajp_ilink_receive failed, referer: https://uwspace.uwaterloo.ca/submissions
[Wed Oct 04 10:23:35.159927 2017] [proxy_ajp:error] [pid 24139:tid
139621830248192] (70007)The timeout specified has expired: [client
129.97.138.124:65336] AH00878: read response failed from [::1]:8009
(localhost), referer: https://uwspace.uwaterloo.ca/submissions
[Wed Oct 04 10:24:00.120859 2017] [proxy_ajp:error] [pid 24170:tid
139621719594752] [client 129.97.138.124:65345] AH00992: ajp_read_header:
ajp_ilink_receive failed, referer: https://uwspace.uwaterloo.ca/submissions
[Wed Oct 04 10:24:00.120879 2017] [proxy_ajp:error] [pid 24170:tid
139621719594752] (70007)The timeout specified has expired: [client
129.97.138.124:65345] AH00878: read response failed from [::1]:8009
(localhost), referer: https://uwspace.uwaterloo.ca/submissions
I also noticed the following in the /var/log/tomcat7/localhost.2017-10-04.log
file from earlier today:
Oct 04, 2017 7:00:06 AM org.apache.catalina.core.ApplicationContext log
INFO: Closing Spring root WebApplicationContext
Oct 04, 2017 7:00:09 AM org.apache.catalina.core.StandardContext listenerStop
SEVERE: Exception sending context destroyed event to listener instance of class
org.dspace.app.util.DSpaceContextListener
java.lang.NullPointerException
at
org.dspace.app.util.DSpaceContextListener.contextDestroyed(DSpaceContextListener.java:146)
at
org.apache.catalina.core.StandardContext.listenerStop(StandardContext.java:5051)
at
org.apache.catalina.core.StandardContext.stopInternal(StandardContext.java:5696)
at org.apache.catalina.util.LifecycleBase.stop(LifecycleBase.java:232)
at
org.apache.catalina.core.ContainerBase$StopChild.call(ContainerBase.java:1575)
at
org.apache.catalina.core.ContainerBase$StopChild.call(ContainerBase.java:1564)
at java.util.concurrent.FutureTask.run(FutureTask.java:262)
at
java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1145)
at
java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:615)
at java.lang.Thread.run(Thread.java:745)
Oct 04, 2017 7:00:10 AM org.apache.catalina.core.StandardContext listenerStop
SEVERE: Exception sending context destroyed event to listener instance of class
websocket.drawboard.DrawboardContextListener
java.lang.NoClassDefFoundError: javax/websocket/Endpoint
at java.lang.ClassLoader.defineClass1(Native Method)
at java.lang.ClassLoader.defineClass(ClassLoader.java:803)
at
java.security.SecureClassLoader.defineClass(SecureClassLoader.java:142)
at
org.apache.catalina.loader.WebappClassLoader.findClassInternal(WebappClassLoader.java:2966)
at
org.apache.catalina.loader.WebappClassLoader.findClass(WebappClassLoader.java:1209)
at
org.apache.catalina.loader.WebappClassLoader.loadClass(WebappClassLoader.java:1689)
at
org.apache.catalina.loader.WebappClassLoader.loadClass(WebappClassLoader.java:1570)
at
websocket.drawboard.DrawboardContextListener.contextDestroyed(DrawboardContextListener.java:32)
at
org.apache.catalina.core.StandardContext.listenerStop(StandardContext.java:5051)
at
org.apache.catalina.core.StandardContext.stopInternal(StandardContext.java:5696)
at org.apache.catalina.util.LifecycleBase.stop(LifecycleBase.java:232)
at
org.apache.catalina.core.ContainerBase$StopChild.call(ContainerBase.java:1575)
at
org.apache.catalina.core.ContainerBase$StopChild.call(ContainerBase.java:1564)
at java.util.concurrent.FutureTask.run(FutureTask.java:262)
at
java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1145)
at
java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:615)
at java.lang.Thread.run(Thread.java:745)
Caused by: java.lang.ClassNotFoundException: javax.websocket.Endpoint
at
org.apache.catalina.loader.WebappClassLoader.loadClass(WebappClassLoader.java:1719)
at
org.apache.catalina.loader.WebappClassLoader.loadClass(WebappClassLoader.java:1570)
... 17 more
I’m not an Apache and Tomcat expert by any stretch, so any pointers in the
right direction are appreciated. It seems like we need to optimize our Apache
and Tomcat configs so that the timeout issues are handled, but I’m not sure
where to begin.
Another observation: we get a lot of traffic from various bots/crawlers, which
may be affecting our performance.
Cheers,
Graham
From: [email protected] [mailto:[email protected]] On
Behalf Of Tim Donohue
Sent: October 3, 2017 10:33 AM
To: Graham Faulkner <[email protected]>; [email protected]
Subject: Re: [dspace-tech] RE: submissions time out but still work
Hi Graham,
I'd recommend checking your log files for any errors that may occur when you
add a new item. It's possible your Apache Solr webapp is not responding
properly or an error occurs when it attempts to index the new author. Solr is
where all browse/search indexes are stored, and it sounds like your index is
not being updated properly when you add new items. (As a sidenote, those
"context.turnOffAuthorizationSystem()" and similar calls are likely unrelated
to your issue...they exist in the Java code to perform administrative backend
functions)
Please, take a look at our guide on Troubleshooting Errors, which provides
useful information about where to find error messages, where to search for
answers, and what to send along to mailing lists for help:
https://wiki.duraspace.org/display/DSPACE/Troubleshoot+an+error
- Tim
On Mon, Oct 2, 2017 at 3:32 PM Graham Faulkner
<[email protected]<mailto:[email protected]>> wrote:
Hello again,
I wanted to provide a follow-up to this issue in case anyone has further
insight. In order to address the issues outlined below, we ended up doing a
full upgrade from our 5.5 code base (with 5.6 and 5.7 security patches) to 5.8.
After the rebuild everything seemed to work as expected, and the timeouts
during submissions didn’t occur.
However, the day after, my colleague realized that new items are not showing up
in author browse. The new author(s) information is indeed available in Solr,
but when you try to browse by author in DSpace, nothing comes up. Authors that
were available before the upgrade are still viewable via author browse.
Any idea as to what is causing the problem, in the migration from 5.5 to 5.8?
I notice a lot of “context.turnOffAuthorisationSystem()” and
“context.restoreAuthSystemState()” calls in 5.8 – are they possibly related?
Again, any pointers in the right direction are greatly appreciated!
Cheers,
Graham
From: [email protected]<mailto:[email protected]>
[mailto:[email protected]<mailto:[email protected]>] On
Behalf Of Graham Faulkner
Sent: September 25, 2017 11:17 AM
To: [email protected]<mailto:[email protected]>
Subject: [dspace-tech] submissions time out but still work
Hi all,
Starting around last Tuesday users have been experiencing problems with
submitting their theses to our DSpace (v5.5, PostgreSQL, Ubuntu 14.04 with DS
5.6 and 5.7 patches). What happens is they complete the submission information
(name, abstract, file upload, license agreement, etc.) but when they press the
final submit button after the last step it takes 1-2 minutes to either submit
successfully or, most frequently, to get a 500 error.
We haven’t touched the source code in the last month, so we’re not sure what
happened as of last week. Looking at the logs, I have noticed a few things:
- We are/were getting lots of traffic from Google, Bing and Baidu
spiders – I have since implemented the Crawler Session Manager Valve in
Tomcat7, which was mentioned by Alan Orth at
https://wiki.duraspace.org/display/cmtygp/DCAT+Meeting+April+2017. We are now
getting fewer sessions reported in Tomcat, but the upload/submission problem
persists.
- In /dspace/log/dspace.log.<date> we are getting lots of “Failed DNS
Lookup for IP:<IP address>”.
- In /dspace/log/dspace.log.<date> were are getting lots of “ERROR
org.dspace.app.xmlui.cocoon.DSpaceCocoonServletFilter @ Client closed the
connection before file download was complete”
- In /dspace/log/cocoon.log.<date> we are getting lots of errors like
“Caused by: org.xml.sax.SAXException: An error was encountered while processing
the 'aspect.general.PageNotFoundTransformer' Wing based component:
org.dspace.app.xmlui.aspect.general.PageNotFoundTransformer”
The odd thing is that the user’s submission usually does go through
successfully, even if the “Internal Server Error” page comes up. If they return
to the home page, logout and login and go to their submissions they will set it
there. Unfortunately, most people don’t know to do that and keep resubmitting
their thesis.
Any pointers in the right direction are greatly appreciated!
Cheers,
Graham
-----------------------------------------
Graham Faulkner
Information Technology Specialist/Developer
Digital Initiatives, Library
University of Waterloo
Waterloo, Ontario N2L 3G1 CANADA
519-888-4567 x32461<tel:(519)%20888-4567>
[email protected]<mailto:[email protected]>
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