Protege Out Memory Error
get "out of memory" errors. If you set it too high then your system will hang or you will suffer poor performance because parts of the jvm will be swapped in and out of memory. A rule of thumb is that you should how to increase java heap size in windows not set this parameter larger than about 80% of your free physical memory. On Windows XP how to check java heap size in linux 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 have to set up the run.bat script method of starting Protege. Contents 1 Start Protege by Protege.exe/Protege or by double-cliking on the Protege icon (Windows/Linux) 2 Start Protege by double-clicking on the Protege icon (Mac) 3 Start Protege by double-clicking on the applescript file (Mac) 4 Start Protege from the command line Start Protege by Protege.exe/Protege or by double-cliking on the Protege icon (Windows/Linux) If you start Protege on a Windows/Linux machine by double clicking on the Protege.exe/Protege or the Protege icon, you need to update the Protege.lax file. By default the Protege.lax file specifies a heap of 100MB for Protege 3.x and 200MB for Protege 4. For Protege 3.x you can do this in the Protege UI. Go to File -> Preferences menu -> Protege.lax Update the second c
Open this post in threaded view ♦ ♦ | Report Content as Inappropriate ♦ ♦ How to increase Java heap size for Protege Editor? Hi, I am a newbie with regards to ontology. I have been using Protégé Editor to build and edit ontologies. However, I always experience problems with not able to load my ontology due to memory problems. The error messages look like this: > SEVERE: Error at loading file file:/C:/Documents%20and%20Settings/ > g0600208/Desktop/go_daily-termdb.owl/go_daily-terrmb.owl - > java.lang.OutOfMemoryError: Java heap space > > > > Exception occurred during event dispatching: http://protegewiki.stanford.edu/wiki/Setting_Heap_Size > > Java.lang.OutOfMemoryError: Java heap space Can anyone help me? I need to know how to configure the Protégé Editor to claim more memory. Thank you very much, Hong-Sang. _______________________________________________ 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 hms Reply | Threaded Open this post in threaded view ♦ ♦ | Report Content as Inappropriate ♦ ♦ Re: How to increase Java http://protege-project.136.n4.nabble.com/How-to-increase-Java-heap-size-for-Protege-Editor-td6229.html heap size for Protege Editor? welcome if you can configure the Protégé Editor to claim more memory.do the following: 1- There is a file in your Protege installation directory called 'Protege.lax'. Find this file. On windows it is usually located at: C:\Program Files\Protege\Protege.lax. 2- Open this file for edit. Somewhere in the file there is a property that looks like this: # LAX.NL.JAVA.OPTION.JAVA.HEAP.SIZE.MAX# -------------------------------------# maximum heap sizelax.nl.java.option.java.heap.size.max=8000000003- Set the number to whatever you want. I usually set mine to 800M because my system only has 1G of RAM. thanka a lot, Regards, h-m-s Ahhh...imagining that irresistible "new car" smell? Check out new cars at Yahoo! Autos. _______________________________________________ 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 Gerhard Austaller Reply | Threaded Open this post in threaded view ♦ ♦ | Report Content as Inappropriate ♦ ♦ Re: How to increase Java heap size for Protege Editor? Hi File -> Properties -> Property Files -> Protege.lax Gerhard "h-m-s ALkhamash" <[hidden email]> schrieb = im Newsbeitrag news:185110.28412.qm@...... welcome if you can configure the Protégé Editor to claim more memory.do the follo
in Atlassian Cloud apps, the contents of this article cannot be applied to Atlassian Cloud applications. Purpose Java applications like JIRA, Crowd and Confluence run in a "Java virtual machine" (JVM), instead of https://confluence.atlassian.com/confkb/how-to-fix-out-of-memory-errors-by-increasing-available-memory-154071.html directly within an operating system. When started, the Java virtual machine is allocated a certain amount of memory, which it makes available to applications like Confluence. By default, Java virtual machines are allocated 64Mb of memory, no matter how many gigabytes of memory your server may actually have available. 64Mb is inadequate for most Confluence installations, and so this needs to be increased. Diagnosis Expand to see how to diagnosis section Determine type of error message Look in the atlassian-confluence.log to see which type of OutOfMemory Error you're receiving. There are three common messages: Heap Space Perm Gen Space GC Overhead This document discusses increasing memory to address PermGen and Heap space errors. Follow the links above to assess root causes for each issue. For GC Overhead, refer to Confluence Crashes Due to 'java.lang.OutOfMemoryError GC overhead limit java heap size exceeded'. Determine Confluence's usage patterns In Confluence, go to Confluence Administration > System Information , and look at the memory graph during times of peak usage: This server has been allocated a maximum of 650Mb and a minimum of 256m. You can see the minimum displayed here; if you're trying to see whether your settings are being picked up, this is where to look. Determine available system memory On Windows From the Close Programs Dialogue (Press ctrl-alt-delete), select the Performance tab: The amount marked Available is the amount in kilobytes you have free to allocate to Confluence. On this server we should allocate at most 214Mb. On Linux Run cat /proc/meminfo to view the memory usage. Setting the -Xmx above the available amount on the server runs the risk of OutOfMemoryErrors due to lack of physical memory. If that occurs the system will use swap space, which greatly decreases performance. Guidance The default values supplied with Confluence stand-alone are sufficient for most installations. Please refer to Managing Application Server Memory Settings and Server Hardware Requirements Guide for a discussion. Solution Step 1: Increase Available Memory We aren't really able to give a concrete recommendation for the amount of memory to allocate, becau