Protege Out Of Memory Error
get "out of memory" errors. If you set it too high then your system will hang or you will suffer poor how to increase java heap size in windows performance because parts of the jvm will be swapped in and out how to check java heap size in linux of memory. A rule of thumb is that you should not set this parameter larger than about 80% of your free physical memory. On Windows XP machines you can determine your free physical memory from the Performance tab of the Task Manager application. On Mac machines, click the apple (upper left hand corner and "about this mac"). On Linux machines, you can use the wonderful proc filesystem and look at the meminfo "file". Boosting the heap size parameter will allow you to read in larger file-based projects. It will also improve the performance of the database back-end since more memory is available for caching. The most common source of very slow performance on older systems (or laptops) is having the heap size set too large. If your system does not have 100MB of free memory then even the Protege default value is too big and you should make it smaller (or buy more memory). The best way to know if you have succeeded in changing the memory settings is to look at the console when Protege starts up. Both Protege 3 and Protege 4 will print out the memory settings as they start. The format is slightly different for Protege 3 and Protege 4 but the console during startup will look something like this: Starting Protege 4 OWL Editor (Version 4.1.0, Build = 231) Platform: Java: JVM 1.6.0_18-b07 Memory: 2229M Language: en, Country: US Framework: Apache Software Foundation (1.5) OS: linux (2.6.38-8-generic) Processor: x86 There are several ways of setting the heap size depending on how you run Protege. Note that for 64 bit windows machines there is a but in InstallAnywhere that prevents the user from setting the heap size over something like 1.5G. So in this case you will
this post in threaded view ♦ ♦ | Report Content as Inappropriate ♦ ♦ out of Memory detected issue on protege 3.5 Can someone help me please i m using Protege 3.5 for my master research and when i run my ontology i receive an error: "out of Memory detected please increase the Heap " my PC is 3G of RAM , i have increase the maximum to the below number but i still not working. your help will be highly http://protegewiki.stanford.edu/wiki/Setting_Heap_Size appreciated. lax.nl.java.option.java.heap.size.initialXms256mlax.nl.java.option.java.heap.size.max Xmx512m _______________________________________________ protege-owl mailing list [hidden email] https://mailman.stanford.edu/mailman/listinfo/protege-owlInstructions for unsubscribing: http://protege.stanford.edu/doc/faq.html#01a.03 Matthew Horridge-2 Reply | Threaded Open this post in threaded view ♦ ♦ | Report Content as Inappropriate ♦ ♦ Re: out of Memory detected issue on protege 3.5 Administrator Can you increase it some more? If you have 3GB, try something likeXmx2000MCheers,MatthewOn 10 http://protege-project.136.n4.nabble.com/out-of-Memory-detected-issue-on-protege-3-5-td4659169.html Oct 2013, at 07:26, Danny Ngenzi <[hidden email]> wrote:Can someone help me please i m using Protege 3.5 for my master research and when i run my ontology i receive an error: "out of Memory detected please increase the Heap " my PC is 3G of RAM , i have increase the maximum to the below number but i still not working. your help will be highly appreciated. lax.nl.java.option.java.heap.size.initialXms256mlax.nl.java.option.java.heap.size.max Xmx512m _______________________________________________protege-owl mailing list[hidden email]https://mailman.stanford.edu/mailman/listinfo/protege-owlInstructions for unsubscribing: http://protege.stanford.edu/doc/faq.html#01a.03_______________________________________________ protege-owl mailing list [hidden email] https://mailman.stanford.edu/mailman/listinfo/protege-owlInstructions for unsubscribing: http://protege.stanford.edu/doc/faq.html#01a.03 Danny Ngenzi Reply | Threaded Open this post in threaded view ♦ ♦ | Report Content as Inappropriate ♦ ♦ Re: out of Memory detected issue on protege 3.5 Thank Mathew for your replybut i still get the same error , can you please check the screenshot of my setting below ThanksRegard On Thu, Oct 10, 2013 at 9:14 PM, Matthew Horridge <[hidden email]> wrote: Can you increase it some more? If you have 3GB, try something like Xmx2000MCheers,MatthewOn 10 Oct 2013, at 07:26, Danny Ngenzi <[hidden
in threaded view https://groups.google.com/d/msg/pellet-users/Ut6Hn7jBAT0/gB5BU5syljsJ ♦ ♦ | Report Content as Inappropriate ♦ ♦ Out of memory error with big uploads Hello, We want to upload an ontology of how to 228 MB to Webprotégé but had an out of error memory. Would you know which parameters we could change to get the ontology uploaded? Thanks in advance. Eddy P.S.: The stderr.log extract java heap size from Tomcat looks as such: 12 sept. 2013 12:14:38 org.apache.catalina.core.ApplicationContext log GRAVE: Exception while dispatching incoming RPC call com.google.gwt.user.server.rpc.UnexpectedException: Service method 'public abstract edu.stanford.bmir.protege.web.shared.project.ProjectDetails edu.stanford.bmir.protege.web.client.rpc.ProjectManagerService.createNewProject(edu.stanford.bmir.protege.web.client.rpc.data.NewProjectSettings) throws edu.stanford.bmir.protege.web.client.rpc.data.NotSignedInException,edu.stanford.bmir.protege.web.shared.project.ProjectAlreadyRegisteredException,edu.stanford.bmir.protege.web.shared.project.ProjectDocumentExistsException' threw an unexpected exception: java.lang.OutOfMemoryError: GC overhead limit exceeded at com.google.gwt.user.server.rpc.RPC.encodeResponseForFailure(RPC.java:389) at com.google.gwt.user.server.rpc.RPC.invokeAndEncodeResponse(RPC.java:579) at com.google.gwt.user.server.rpc.RemoteServiceServlet.processCall(RemoteServiceServlet.java:208) at edu.stanford.bmir.protege.web.server.WebProtegeRemoteServiceServlet.processCall(WebProtegeRemoteServiceServlet.java:136) at com.google.gwt.user.server.rpc.RemoteServiceServlet.processPost(RemoteServiceServlet.java:248) at com.google.gwt.user.server.rpc.AbstractRemoteServiceServlet.doPost(AbstractRemoteServiceServlet.java:62) at javax.servlet.http.HttpServlet.service(HttpServlet.java:637) at javax.servlet.http.HttpServlet.service(HttpServlet.java:717) at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:290)
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