org.fcrepo.server.errors.StreamWriteException

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  • PHP stat cache becomes inconsistent, leading to Tuque failures. This long-standing bug appears to have been uncovered with the Drupal 7.42 release, in which [static caching was added to {{module_load_include()}}|https://github.com/drupal/drupal/commit/f0d59102f528a9c66b1c3355bb6b2ee48f8b0282]. The general flow of code necessary to make this happen, is: # {{fopen()}} a file # Perform an operation which performs a "stat" on the file ({{filesize()}}, among others). # Change the content of the file, which will change the previously stat'd value (deleting from the file, reducing its length). # Stat the file again; the value will match that from before. A small test script, to see the error happen: https://gist.github.com/adam-vessey/386494830670a19e0f97 It so happens this flow would occur when generating HOCR, when we strip out the HTML DOCTYPE declarations; however, it appears that the {{is_file()}} check which would always be performed prior to the static caching in {{module_load_include()}} would result in a general wipe of the stat cache, masking the issue. With HOCR in particular: # {{fopen()}} a file: https://github.com/Islandora/islandora_ocr/blob/8c1248bdc29324cee7863d835b22832085763d1d/includes/hocr.inc#L584-L585 # Perform an operation which performs a "stat" on the file: https://github.com/Islandora/islandora_ocr/blob/8c1248bdc29324cee7863d835b22832085763d1d/includes/hocr.inc#L587 (the {{filesize()}} call) # Change the content of the file, which will change the previously stat'd value: https://github.com/Islandora/islandora_ocr/blob/8c1248bdc29324cee7863d835b22832085763d1d/includes/hocr.inc#L588-L591 # Stat the file again; the value will match that from before: https://github.com/Islandora/tuque/blob/5c6bb1c831f52d9bc014729e325a7f731d772d0f/HttpConnection.php#L657 This caused Tuque to tell Fedora that it would be sending more bytes then Tuque had to send, so it would end up with errors as Fedora waits for the rest of the bytes to come in: {noformat} WARN 2016-03-08 08:49:48.807 [http-bio-8080-exec-29] (DatastreamResource) Error writing temp stream org.fcrepo.server.errors.StreamWriteException: Error writing temp stream at org.fcrepo.server.management.DefaultManagement.putTempStream(DefaultManagement.java:1344) ~[fcrepo-server-3.8.1.jar:na] at sun.reflect.GeneratedMethodAccessor206.invoke(Unknown Source) ~[na:na] at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43) ~[na:1.8.0_60] at java.lang.reflect.Method.invoke(Method.java:497) ~[na:1.8.0_60] at org.fcrepo.server.messaging.NotificationInvocationHandler.invoke(NotificationInvocationHandler.java:71) ~[fcrepo-server-3.8.1.jar:na] at com.sun.proxy.$Proxy11.putTempStream(Unknown Source) ~[na:na] at org.fcrepo.server.management.ManagementModule.putTempStream(ManagementModule.java:536) ~[fcrepo-server-3.8.1.jar:na] at org.fcrepo.server.rest.DatastreamResource.addOrUpdateDatastream(DatastreamResource.java:572) [fcrepo-server-3.8.1.jar:na] at org.fcrepo.server.rest.DatastreamResource.modifyDatastream(DatastreamResource.java:351) [fcrepo-server-3.8.1.jar:na] at sun.reflect.GeneratedMethodAccessor205.invoke(Unknown Source) ~[na:na] at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43) ~[na:1.8.0_60] at java.lang.reflect.Method.invoke(Method.java:497) ~[na:1.8.0_60] at org.apache.cxf.service.invoker.AbstractInvoker.performInvocation(AbstractInvoker.java:180) [cxf-api-2.7.7.jar:2.7.7] at org.apache.cxf.service.invoker.AbstractInvoker.invoke(AbstractInvoker.java:96) [cxf-api-2.7.7.jar:2.7.7] at org.apache.cxf.jaxrs.JAXRSInvoker.invoke(JAXRSInvoker.java:192) [cxf-rt-frontend-jaxrs-2.7.7.jar:2.7.7] at org.apache.cxf.jaxrs.JAXRSInvoker.invoke(JAXRSInvoker.java:100) [cxf-rt-frontend-jaxrs-2.7.7.jar:2.7.7] at org.apache.cxf.interceptor.ServiceInvokerInterceptor$1.run(ServiceInvokerInterceptor.java:57) [cxf-api-2.7.7.jar:2.7.7] at org.apache.cxf.interceptor.ServiceInvokerInterceptor.handleMessage(ServiceInvokerInterceptor.java:93) [cxf-api-2.7.7.jar:2.7.7] at org.apache.cxf.phase.PhaseInterceptorChain.doIntercept(PhaseInterceptorChain.java:272) [cxf-api-2.7.7.jar:2.7.7] at org.apache.cxf.transport.ChainInitiationObserver.onMessage(ChainInitiationObserver.java:121) [cxf-api-2.7.7.jar:2.7.7] at org.apache.cxf.transport.http.AbstractHTTPDestination.invoke(AbstractHTTPDestination.java:239) [cxf-rt-transports-http-2.7.7.jar:2.7.7] at org.apache.cxf.transport.servlet.ServletController.invokeDestination(ServletController.java:248) [cxf-rt-transports-http-2.7.7.jar:2.7.7] at org.apache.cxf.transport.servlet.ServletController.invoke(ServletController.java:222) [cxf-rt-transports-http-2.7.7.jar:2.7.7] at org.apache.cxf.transport.servlet.ServletController.invoke(ServletController.java:153) [cxf-rt-transports-http-2.7.7.jar:2.7.7] at org.apache.cxf.transport.servlet.CXFNonSpringServlet.invoke(CXFNonSpringServlet.java:167) [cxf-rt-transports-http-2.7.7.jar:2.7.7] at org.apache.cxf.transport.servlet.AbstractHTTPServlet.handleRequest(AbstractHTTPServlet.java:286) [cxf-rt-transports-http-2.7.7.jar:2.7.7] at org.apache.cxf.transport.servlet.AbstractHTTPServlet.doPut(AbstractHTTPServlet.java:223) [cxf-rt-transports-http-2.7.7.jar:2.7.7] at javax.servlet.http.HttpServlet.service(HttpServlet.java:653) [tomcat-servlet-3.0-api.jar:na] at org.apache.cxf.transport.servlet.AbstractHTTPServlet.service(AbstractHTTPServlet.java:262) [cxf-rt-transports-http-2.7.7.jar:2.7.7] at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:303) [catalina.jar:7.0.65] at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:208) [catalina.jar:7.0.65] at org.apache.tomcat.websocket.server.WsFilter.doFilter(WsFilter.java:52) [tomcat7-websocket.jar:7.0.65] at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:241) [catalina.jar:7.0.65] at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:208) [catalina.jar:7.0.65] at org.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:369) [spring-security-web-3.0.7.RELEASE.jar:3.0.7.RELEASE] at org.fcrepo.server.security.jaas.AuthFilterJAAS.doFilter(AuthFilterJAAS.java:329) [fcrepo-security-jaas-3.8.1.jar:na] at org.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:381) [spring-security-web-3.0.7.RELEASE.jar:3.0.7.RELEASE] at org.springframework.security.web.access.channel.ChannelProcessingFilter.doFilter(ChannelProcessingFilter.java:109) [spring-security-web-3.0.7.RELEASE.jar:3.0.7.RELEASE] at org.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:381) [spring-security-web-3.0.7.RELEASE.jar:3.0.7.RELEASE] at org.springframework.security.web.FilterChainProxy.doFilter(FilterChainProxy.java:168) [spring-security-web-3.0.7.RELEASE.jar:3.0.7.RELEASE] at org.springframework.web.filter.DelegatingFilterProxy.invokeDelegate(DelegatingFilterProxy.java:237) [spring-web-3.0.7.RELEASE.jar:3.0.7.RELEASE] at org.springframework.web.filter.DelegatingFilterProxy.doFilter(DelegatingFilterProxy.java:167) [spring-web-3.0.7.RELEASE.jar:3.0.7.RELEASE] at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:241) [catalina.jar:7.0.65] at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:208) [catalina.jar:7.0.65] at org.apache.catalina.core.StandardWrapperValve.invoke(StandardWrapperValve.java:220) [catalina.jar:7.0.65] at org.apache.catalina.core.StandardContextValve.invoke(StandardContextValve.java:122) [catalina.jar:7.0.65] at org.apache.catalina.authenticator.AuthenticatorBase.invoke(AuthenticatorBase.java:505) [catalina.jar:7.0.65] at org.apache.catalina.core.StandardHostValve.invoke(StandardHostValve.java:170) [catalina.jar:7.0.65] at org.apache.catalina.valves.ErrorReportValve.invoke(ErrorReportValve.java:103) [catalina.jar:7.0.65] at org.apache.catalina.valves.AccessLogValve.invoke(AccessLogValve.java:956) [catalina.jar:7.0.65] at org.apache.catalina.core.StandardEngineValve.invoke(StandardEngineValve.java:116) [catalina.jar:7.0.65] at org.apache.catalina.connector.CoyoteAdapter.service(CoyoteAdapter.java:423) [catalina.jar:7.0.65] at org.apache.coyote.http11.AbstractHttp11Processor.process(AbstractHttp11Processor.java:1079) [tomcat-coyote.jar:7.0.65] at org.apache.coyote.AbstractProtocol$AbstractConnectionHandler.process(AbstractProtocol.java:625) [tomcat-coyote.jar:7.0.65] at org.apache.tomcat.util.net.JIoEndpoint$SocketProcessor.run(JIoEndpoint.java:318) [tomcat-coyote.jar:7.0.65] at java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1142) [na:1.8.0_60] at java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:617) [na:1.8.0_60] at org.apache.tomcat.util.threads.TaskThread$WrappingRunnable.run(TaskThread.java:61) [tomcat-coyote.jar:7.0.65] at java.lang.Thread.run(Thread.java:745) [na:1.8.0_60] Caused by: java.net.SocketTimeoutException: Read timed out at java.net.SocketInputStream.socketRead0(Native Method) ~[na:1.8.0_60] at java.net.SocketInputStream.socketRead(SocketInputStream.java:116) ~[na:1.8.0_60] at java.net.SocketInputStream.read(SocketInputStream.java:170) ~[na:1.8.0_60] at java.net.SocketInputStream.read(SocketInputStream.java:141) ~[na:1.8.0_60] at org.apache.coyote.http11.InternalInputBuffer.fill(InternalInputBuffer.java:535) ~[tomcat-coyote.jar:7.0.65] at org.apache.coyote.http11.InternalInputBuffer.fill(InternalInputBuffer.java:504) ~[tomcat-coyote.jar:7.0.65] at org.apache.coyote.http11.InternalInputBuffer$InputStreamInputBuffer.doRead(InternalInputBuffer.java:566) ~[tomcat-coyote.jar:7.0.65] at org.apache.coyote.http11.filters.IdentityInputFilter.doRead(IdentityInputFilter.java:137) ~[tomcat-coyote.jar:7.0.65] at org.apache.coyote.http11.AbstractInputBuffer.doRead(AbstractInputBuffer.java:341) ~[tomcat-coyote.jar:7.0.65] at org.apache.coyote.Request.doRead(Request.java:431) ~[tomcat-coyote.jar:7.0.65] at org.apache.catalina.connector.InputBuffer.realReadBytes(InputBuffer.java:290) ~[catalina.jar:7.0.65] at org.apache.tomcat.util.buf.ByteChunk.substract(ByteChunk.java:449) ~[tomcat-coyote.jar:7.0.65] at org.apache.catalina.connector.InputBuffer.read(InputBuffer.java:315) ~[catalina.jar:7.0.65] at org.apache.catalina.connector.CoyoteInputStream.read(CoyoteInputStream.java:167) ~[catalina.jar:7.0.65] at org.fcrepo.server.utilities.StreamUtility.pipeStream(StreamUtility.java:255) ~[fcrepo-server-3.8.1.jar:na] at org.fcrepo.server.management.DefaultManagement.putTempStream(DefaultManagement.java:1335) ~[fcrepo-server-3.8.1.jar:na] ... 58 common frames omitted {noformat} h2. Steps to Reproduce Attempt to regenerate HOCR on an object, running Drupal 7.42 (or a newer 7). h2. Test Case HOCR is regenerated successfully. ---- Adam Vessey Developer discoverygarden inc. | Managing Digital Content
    via by Adam Vessey,
  • PHP stat cache becomes inconsistent, leading to Tuque failures. This long-standing bug appears to have been uncovered with the Drupal 7.42 release, in which [static caching was added to {{module_load_include()}}|https://github.com/drupal/drupal/commit/f0d59102f528a9c66b1c3355bb6b2ee48f8b0282]. The general flow of code necessary to make this happen, is: # {{fopen()}} a file # Perform an operation which performs a "stat" on the file ({{filesize()}}, among others). # Change the content of the file, which will change the previously stat'd value (deleting from the file, reducing its length). # Stat the file again; the value will match that from before. A small test script, to see the error happen: https://gist.github.com/adam-vessey/386494830670a19e0f97 It so happens this flow would occur when generating HOCR, when we strip out the HTML DOCTYPE declarations; however, it appears that the {{is_file()}} check which would always be performed prior to the static caching in {{module_load_include()}} would result in a general wipe of the stat cache, masking the issue. With HOCR in particular: # {{fopen()}} a file: https://github.com/Islandora/islandora_ocr/blob/8c1248bdc29324cee7863d835b22832085763d1d/includes/hocr.inc#L584-L585 # Perform an operation which performs a "stat" on the file: https://github.com/Islandora/islandora_ocr/blob/8c1248bdc29324cee7863d835b22832085763d1d/includes/hocr.inc#L587 (the {{filesize()}} call) # Change the content of the file, which will change the previously stat'd value: https://github.com/Islandora/islandora_ocr/blob/8c1248bdc29324cee7863d835b22832085763d1d/includes/hocr.inc#L588-L591 # Stat the file again; the value will match that from before: https://github.com/Islandora/tuque/blob/5c6bb1c831f52d9bc014729e325a7f731d772d0f/HttpConnection.php#L657 This caused Tuque to tell Fedora that it would be sending more bytes then Tuque had to send, so it would end up with errors as Fedora waits for the rest of the bytes to come in: {noformat} WARN 2016-03-08 08:49:48.807 [http-bio-8080-exec-29] (DatastreamResource) Error writing temp stream org.fcrepo.server.errors.StreamWriteException: Error writing temp stream at org.fcrepo.server.management.DefaultManagement.putTempStream(DefaultManagement.java:1344) ~[fcrepo-server-3.8.1.jar:na] at sun.reflect.GeneratedMethodAccessor206.invoke(Unknown Source) ~[na:na] at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43) ~[na:1.8.0_60] at java.lang.reflect.Method.invoke(Method.java:497) ~[na:1.8.0_60] at org.fcrepo.server.messaging.NotificationInvocationHandler.invoke(NotificationInvocationHandler.java:71) ~[fcrepo-server-3.8.1.jar:na] at com.sun.proxy.$Proxy11.putTempStream(Unknown Source) ~[na:na] at org.fcrepo.server.management.ManagementModule.putTempStream(ManagementModule.java:536) ~[fcrepo-server-3.8.1.jar:na] at org.fcrepo.server.rest.DatastreamResource.addOrUpdateDatastream(DatastreamResource.java:572) [fcrepo-server-3.8.1.jar:na] at org.fcrepo.server.rest.DatastreamResource.modifyDatastream(DatastreamResource.java:351) [fcrepo-server-3.8.1.jar:na] at sun.reflect.GeneratedMethodAccessor205.invoke(Unknown Source) ~[na:na] at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43) ~[na:1.8.0_60] at java.lang.reflect.Method.invoke(Method.java:497) ~[na:1.8.0_60] at org.apache.cxf.service.invoker.AbstractInvoker.performInvocation(AbstractInvoker.java:180) [cxf-api-2.7.7.jar:2.7.7] at org.apache.cxf.service.invoker.AbstractInvoker.invoke(AbstractInvoker.java:96) [cxf-api-2.7.7.jar:2.7.7] at org.apache.cxf.jaxrs.JAXRSInvoker.invoke(JAXRSInvoker.java:192) [cxf-rt-frontend-jaxrs-2.7.7.jar:2.7.7] at org.apache.cxf.jaxrs.JAXRSInvoker.invoke(JAXRSInvoker.java:100) [cxf-rt-frontend-jaxrs-2.7.7.jar:2.7.7] at org.apache.cxf.interceptor.ServiceInvokerInterceptor$1.run(ServiceInvokerInterceptor.java:57) [cxf-api-2.7.7.jar:2.7.7] at org.apache.cxf.interceptor.ServiceInvokerInterceptor.handleMessage(ServiceInvokerInterceptor.java:93) [cxf-api-2.7.7.jar:2.7.7] at org.apache.cxf.phase.PhaseInterceptorChain.doIntercept(PhaseInterceptorChain.java:272) [cxf-api-2.7.7.jar:2.7.7] at org.apache.cxf.transport.ChainInitiationObserver.onMessage(ChainInitiationObserver.java:121) [cxf-api-2.7.7.jar:2.7.7] at org.apache.cxf.transport.http.AbstractHTTPDestination.invoke(AbstractHTTPDestination.java:239) [cxf-rt-transports-http-2.7.7.jar:2.7.7] at org.apache.cxf.transport.servlet.ServletController.invokeDestination(ServletController.java:248) [cxf-rt-transports-http-2.7.7.jar:2.7.7] at org.apache.cxf.transport.servlet.ServletController.invoke(ServletController.java:222) [cxf-rt-transports-http-2.7.7.jar:2.7.7] at org.apache.cxf.transport.servlet.ServletController.invoke(ServletController.java:153) [cxf-rt-transports-http-2.7.7.jar:2.7.7] at org.apache.cxf.transport.servlet.CXFNonSpringServlet.invoke(CXFNonSpringServlet.java:167) [cxf-rt-transports-http-2.7.7.jar:2.7.7] at org.apache.cxf.transport.servlet.AbstractHTTPServlet.handleRequest(AbstractHTTPServlet.java:286) [cxf-rt-transports-http-2.7.7.jar:2.7.7] at org.apache.cxf.transport.servlet.AbstractHTTPServlet.doPut(AbstractHTTPServlet.java:223) [cxf-rt-transports-http-2.7.7.jar:2.7.7] at javax.servlet.http.HttpServlet.service(HttpServlet.java:653) [tomcat-servlet-3.0-api.jar:na] at org.apache.cxf.transport.servlet.AbstractHTTPServlet.service(AbstractHTTPServlet.java:262) [cxf-rt-transports-http-2.7.7.jar:2.7.7] at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:303) [catalina.jar:7.0.65] at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:208) [catalina.jar:7.0.65] at org.apache.tomcat.websocket.server.WsFilter.doFilter(WsFilter.java:52) [tomcat7-websocket.jar:7.0.65] at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:241) [catalina.jar:7.0.65] at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:208) [catalina.jar:7.0.65] at org.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:369) [spring-security-web-3.0.7.RELEASE.jar:3.0.7.RELEASE] at org.fcrepo.server.security.jaas.AuthFilterJAAS.doFilter(AuthFilterJAAS.java:329) [fcrepo-security-jaas-3.8.1.jar:na] at org.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:381) [spring-security-web-3.0.7.RELEASE.jar:3.0.7.RELEASE] at org.springframework.security.web.access.channel.ChannelProcessingFilter.doFilter(ChannelProcessingFilter.java:109) [spring-security-web-3.0.7.RELEASE.jar:3.0.7.RELEASE] at org.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:381) [spring-security-web-3.0.7.RELEASE.jar:3.0.7.RELEASE] at org.springframework.security.web.FilterChainProxy.doFilter(FilterChainProxy.java:168) [spring-security-web-3.0.7.RELEASE.jar:3.0.7.RELEASE] at org.springframework.web.filter.DelegatingFilterProxy.invokeDelegate(DelegatingFilterProxy.java:237) [spring-web-3.0.7.RELEASE.jar:3.0.7.RELEASE] at org.springframework.web.filter.DelegatingFilterProxy.doFilter(DelegatingFilterProxy.java:167) [spring-web-3.0.7.RELEASE.jar:3.0.7.RELEASE] at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:241) [catalina.jar:7.0.65] at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:208) [catalina.jar:7.0.65] at org.apache.catalina.core.StandardWrapperValve.invoke(StandardWrapperValve.java:220) [catalina.jar:7.0.65] at org.apache.catalina.core.StandardContextValve.invoke(StandardContextValve.java:122) [catalina.jar:7.0.65] at org.apache.catalina.authenticator.AuthenticatorBase.invoke(AuthenticatorBase.java:505) [catalina.jar:7.0.65] at org.apache.catalina.core.StandardHostValve.invoke(StandardHostValve.java:170) [catalina.jar:7.0.65] at org.apache.catalina.valves.ErrorReportValve.invoke(ErrorReportValve.java:103) [catalina.jar:7.0.65] at org.apache.catalina.valves.AccessLogValve.invoke(AccessLogValve.java:956) [catalina.jar:7.0.65] at org.apache.catalina.core.StandardEngineValve.invoke(StandardEngineValve.java:116) [catalina.jar:7.0.65] at org.apache.catalina.connector.CoyoteAdapter.service(CoyoteAdapter.java:423) [catalina.jar:7.0.65] at org.apache.coyote.http11.AbstractHttp11Processor.process(AbstractHttp11Processor.java:1079) [tomcat-coyote.jar:7.0.65] at org.apache.coyote.AbstractProtocol$AbstractConnectionHandler.process(AbstractProtocol.java:625) [tomcat-coyote.jar:7.0.65] at org.apache.tomcat.util.net.JIoEndpoint$SocketProcessor.run(JIoEndpoint.java:318) [tomcat-coyote.jar:7.0.65] at java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1142) [na:1.8.0_60] at java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:617) [na:1.8.0_60] at org.apache.tomcat.util.threads.TaskThread$WrappingRunnable.run(TaskThread.java:61) [tomcat-coyote.jar:7.0.65] at java.lang.Thread.run(Thread.java:745) [na:1.8.0_60] Caused by: java.net.SocketTimeoutException: Read timed out at java.net.SocketInputStream.socketRead0(Native Method) ~[na:1.8.0_60] at java.net.SocketInputStream.socketRead(SocketInputStream.java:116) ~[na:1.8.0_60] at java.net.SocketInputStream.read(SocketInputStream.java:170) ~[na:1.8.0_60] at java.net.SocketInputStream.read(SocketInputStream.java:141) ~[na:1.8.0_60] at org.apache.coyote.http11.InternalInputBuffer.fill(InternalInputBuffer.java:535) ~[tomcat-coyote.jar:7.0.65] at org.apache.coyote.http11.InternalInputBuffer.fill(InternalInputBuffer.java:504) ~[tomcat-coyote.jar:7.0.65] at org.apache.coyote.http11.InternalInputBuffer$InputStreamInputBuffer.doRead(InternalInputBuffer.java:566) ~[tomcat-coyote.jar:7.0.65] at org.apache.coyote.http11.filters.IdentityInputFilter.doRead(IdentityInputFilter.java:137) ~[tomcat-coyote.jar:7.0.65] at org.apache.coyote.http11.AbstractInputBuffer.doRead(AbstractInputBuffer.java:341) ~[tomcat-coyote.jar:7.0.65] at org.apache.coyote.Request.doRead(Request.java:431) ~[tomcat-coyote.jar:7.0.65] at org.apache.catalina.connector.InputBuffer.realReadBytes(InputBuffer.java:290) ~[catalina.jar:7.0.65] at org.apache.tomcat.util.buf.ByteChunk.substract(ByteChunk.java:449) ~[tomcat-coyote.jar:7.0.65] at org.apache.catalina.connector.InputBuffer.read(InputBuffer.java:315) ~[catalina.jar:7.0.65] at org.apache.catalina.connector.CoyoteInputStream.read(CoyoteInputStream.java:167) ~[catalina.jar:7.0.65] at org.fcrepo.server.utilities.StreamUtility.pipeStream(StreamUtility.java:255) ~[fcrepo-server-3.8.1.jar:na] at org.fcrepo.server.management.DefaultManagement.putTempStream(DefaultManagement.java:1335) ~[fcrepo-server-3.8.1.jar:na] ... 58 common frames omitted {noformat} h2. Steps to Reproduce Attempt to regenerate HOCR on an object, running Drupal 7.42 (or a newer 7). h2. Test Case HOCR is regenerated successfully. ---- Adam Vessey Developer discoverygarden inc. | Managing Digital Content
    via by Adam Vessey,
  • ServletRequest getInputStream - read timed out
    via Stack Overflow by B T
    ,
  • java.net.SocketTimeoutException: Read timed out
    via by Unknown author,
    • org.fcrepo.server.errors.StreamWriteException: Error writing temp stream at org.fcrepo.server.management.DefaultManagement.putTempStream(DefaultManagement.java:1344)[fcrepo-server-3.8.1.jar:na] at sun.reflect.GeneratedMethodAccessor206.invoke(Unknown Source)[na:na] at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)[na:1.8.0_60] at java.lang.reflect.Method.invoke(Method.java:497)[na:1.8.0_60] at org.fcrepo.server.messaging.NotificationInvocationHandler.invoke(NotificationInvocationHandler.java:71)[fcrepo-server-3.8.1.jar:na] at com.sun.proxy.$Proxy11.putTempStream(Unknown Source)[na:na] at org.fcrepo.server.management.ManagementModule.putTempStream(ManagementModule.java:536)[fcrepo-server-3.8.1.jar:na] at org.fcrepo.server.rest.DatastreamResource.addOrUpdateDatastream(DatastreamResource.java:572)[fcrepo-server-3.8.1.jar:na] at org.fcrepo.server.rest.DatastreamResource.modifyDatastream(DatastreamResource.java:351)[fcrepo-server-3.8.1.jar:na] at sun.reflect.GeneratedMethodAccessor205.invoke(Unknown Source)[na:na] at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)[na:1.8.0_60] at java.lang.reflect.Method.invoke(Method.java:497)[na:1.8.0_60] at org.apache.cxf.service.invoker.AbstractInvoker.performInvocation(AbstractInvoker.java:180)[cxf-api-2.7.7.jar:2.7.7] at org.apache.cxf.service.invoker.AbstractInvoker.invoke(AbstractInvoker.java:96)[cxf-api-2.7.7.jar:2.7.7] at org.apache.cxf.jaxrs.JAXRSInvoker.invoke(JAXRSInvoker.java:192)[cxf-rt-frontend-jaxrs-2.7.7.jar:2.7.7] at org.apache.cxf.jaxrs.JAXRSInvoker.invoke(JAXRSInvoker.java:100)[cxf-rt-frontend-jaxrs-2.7.7.jar:2.7.7] at org.apache.cxf.interceptor.ServiceInvokerInterceptor$1.run(ServiceInvokerInterceptor.java:57)[cxf-api-2.7.7.jar:2.7.7] at org.apache.cxf.interceptor.ServiceInvokerInterceptor.handleMessage(ServiceInvokerInterceptor.java:93)[cxf-api-2.7.7.jar:2.7.7] at org.apache.cxf.phase.PhaseInterceptorChain.doIntercept(PhaseInterceptorChain.java:272)[cxf-api-2.7.7.jar:2.7.7] at org.apache.cxf.transport.ChainInitiationObserver.onMessage(ChainInitiationObserver.java:121)[cxf-api-2.7.7.jar:2.7.7] at org.apache.cxf.transport.http.AbstractHTTPDestination.invoke(AbstractHTTPDestination.java:239)[cxf-rt-transports-http-2.7.7.jar:2.7.7] at org.apache.cxf.transport.servlet.ServletController.invokeDestination(ServletController.java:248)[cxf-rt-transports-http-2.7.7.jar:2.7.7] at org.apache.cxf.transport.servlet.ServletController.invoke(ServletController.java:222)[cxf-rt-transports-http-2.7.7.jar:2.7.7] at org.apache.cxf.transport.servlet.ServletController.invoke(ServletController.java:153)[cxf-rt-transports-http-2.7.7.jar:2.7.7] at org.apache.cxf.transport.servlet.CXFNonSpringServlet.invoke(CXFNonSpringServlet.java:167)[cxf-rt-transports-http-2.7.7.jar:2.7.7] at org.apache.cxf.transport.servlet.AbstractHTTPServlet.handleRequest(AbstractHTTPServlet.java:286)[cxf-rt-transports-http-2.7.7.jar:2.7.7] at org.apache.cxf.transport.servlet.AbstractHTTPServlet.doPut(AbstractHTTPServlet.java:223)[cxf-rt-transports-http-2.7.7.jar:2.7.7] at javax.servlet.http.HttpServlet.service(HttpServlet.java:653)[tomcat-servlet-3.0-api.jar:na] at org.apache.cxf.transport.servlet.AbstractHTTPServlet.service(AbstractHTTPServlet.java:262)[cxf-rt-transports-http-2.7.7.jar:2.7.7] at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:303)[catalina.jar:7.0.65] at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:208)[catalina.jar:7.0.65] at org.apache.tomcat.websocket.server.WsFilter.doFilter(WsFilter.java:52)[tomcat7-websocket.jar:7.0.65] at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:241)[catalina.jar:7.0.65] at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:208)[catalina.jar:7.0.65] at org.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:369)[spring-security-web-3.0.7.RELEASE.jar:3.0.7.RELEASE] at org.fcrepo.server.security.jaas.AuthFilterJAAS.doFilter(AuthFilterJAAS.java:329)[fcrepo-security-jaas-3.8.1.jar:na] at org.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:381)[spring-security-web-3.0.7.RELEASE.jar:3.0.7.RELEASE] at org.springframework.security.web.access.channel.ChannelProcessingFilter.doFilter(ChannelProcessingFilter.java:109)[spring-security-web-3.0.7.RELEASE.jar:3.0.7.RELEASE] at org.springframework.security.web.FilterChainProxy$VirtualFilterChain.doFilter(FilterChainProxy.java:381)[spring-security-web-3.0.7.RELEASE.jar:3.0.7.RELEASE] at org.springframework.security.web.FilterChainProxy.doFilter(FilterChainProxy.java:168)[spring-security-web-3.0.7.RELEASE.jar:3.0.7.RELEASE] at org.springframework.web.filter.DelegatingFilterProxy.invokeDelegate(DelegatingFilterProxy.java:237)[spring-web-3.0.7.RELEASE.jar:3.0.7.RELEASE] at org.springframework.web.filter.DelegatingFilterProxy.doFilter(DelegatingFilterProxy.java:167)[spring-web-3.0.7.RELEASE.jar:3.0.7.RELEASE] at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:241)[catalina.jar:7.0.65] at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:208)[catalina.jar:7.0.65] at org.apache.catalina.core.StandardWrapperValve.invoke(StandardWrapperValve.java:220)[catalina.jar:7.0.65] at org.apache.catalina.core.StandardContextValve.invoke(StandardContextValve.java:122)[catalina.jar:7.0.65] at org.apache.catalina.authenticator.AuthenticatorBase.invoke(AuthenticatorBase.java:505)[catalina.jar:7.0.65] at org.apache.catalina.core.StandardHostValve.invoke(StandardHostValve.java:170)[catalina.jar:7.0.65] at org.apache.catalina.valves.ErrorReportValve.invoke(ErrorReportValve.java:103)[catalina.jar:7.0.65] at org.apache.catalina.valves.AccessLogValve.invoke(AccessLogValve.java:956)[catalina.jar:7.0.65] at org.apache.catalina.core.StandardEngineValve.invoke(StandardEngineValve.java:116)[catalina.jar:7.0.65] at org.apache.catalina.connector.CoyoteAdapter.service(CoyoteAdapter.java:423)[catalina.jar:7.0.65] at org.apache.coyote.http11.AbstractHttp11Processor.process(AbstractHttp11Processor.java:1079)[tomcat-coyote.jar:7.0.65] at org.apache.coyote.AbstractProtocol$AbstractConnectionHandler.process(AbstractProtocol.java:625)[tomcat-coyote.jar:7.0.65] at org.apache.tomcat.util.net.JIoEndpoint$SocketProcessor.run(JIoEndpoint.java:318)[tomcat-coyote.jar:7.0.65] at java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1142)[na:1.8.0_60] at java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:617)[na:1.8.0_60] at org.apache.tomcat.util.threads.TaskThread$WrappingRunnable.run(TaskThread.java:61)[tomcat-coyote.jar:7.0.65] at java.lang.Thread.run(Thread.java:745)[na:1.8.0_60] Caused by: java.net.SocketTimeoutException: Read timed out at java.net.SocketInputStream.socketRead0(Native Method)[na:1.8.0_60] at java.net.SocketInputStream.socketRead(SocketInputStream.java:116)[na:1.8.0_60] at java.net.SocketInputStream.read(SocketInputStream.java:170)[na:1.8.0_60] at java.net.SocketInputStream.read(SocketInputStream.java:141)[na:1.8.0_60] at org.apache.coyote.http11.InternalInputBuffer.fill(InternalInputBuffer.java:535)[tomcat-coyote.jar:7.0.65] at org.apache.coyote.http11.InternalInputBuffer.fill(InternalInputBuffer.java:504)[tomcat-coyote.jar:7.0.65] at org.apache.coyote.http11.InternalInputBuffer$InputStreamInputBuffer.doRead(InternalInputBuffer.java:566)[tomcat-coyote.jar:7.0.65] at org.apache.coyote.http11.filters.IdentityInputFilter.doRead(IdentityInputFilter.java:137)[tomcat-coyote.jar:7.0.65] at org.apache.coyote.http11.AbstractInputBuffer.doRead(AbstractInputBuffer.java:341)[tomcat-coyote.jar:7.0.65] at org.apache.coyote.Request.doRead(Request.java:431)[tomcat-coyote.jar:7.0.65] at org.apache.catalina.connector.InputBuffer.realReadBytes(InputBuffer.java:290)[catalina.jar:7.0.65] at org.apache.tomcat.util.buf.ByteChunk.substract(ByteChunk.java:449)[tomcat-coyote.jar:7.0.65] at org.apache.catalina.connector.InputBuffer.read(InputBuffer.java:315)[catalina.jar:7.0.65] at org.apache.catalina.connector.CoyoteInputStream.read(CoyoteInputStream.java:167)[catalina.jar:7.0.65] at org.fcrepo.server.utilities.StreamUtility.pipeStream(StreamUtility.java:255)[fcrepo-server-3.8.1.jar:na] at org.fcrepo.server.management.DefaultManagement.putTempStream(DefaultManagement.java:1335)[fcrepo-server-3.8.1.jar:na] ... 58 more

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