![]() Probe-based detection from single to 5-plex with the QIAcuity Probe PCR Kit The unique combination of QIAGEN's proprietary and well-proven buffer technology optimized for the Nanoplate microfluidic along with the new QuantiNova DNA Polymerase delivers highly consistent results in terms of sensitivity, reproducibility and efficiency. 1 For releases before CLC Genomics Workbench 8.0, Biomedical Genomics Workbench 2.1 and CLC Main Workbench 7.6, the -Xmx setting for macOS was in the ist file, which is also under the Contents folder.The QIAcuity Master Mixes for hydrolysis probe-based dPCR use the latest versions of QIAGEN’s high-quality DNA Polymerase. Thus, the suggested 50% limit for the heap space setting for the Java Virtual Machine (JVM) is to try to ensure that the machine will have sufficient free memory to run the external binaries.įootnotes. They request memory from the OS, just like any other executable. These external binaries are not affected by the maximum heap space limit. The suggestion to limit memory use to a maximum of 50% of the physical RAM is made because most CLC Workbenches and CLC Servers have some optimized external binaries responsible for compute-heavy tasks such as read mapping and de novo assembly. The result of this caching system means that there will not be any noticeable performance improvement with a Java heap space larger than 50GB, while GC pauses may become more noticeable. In combination with the GC subystem of the JVM, the CLC Workbenches and Servers use a sophisticated caching system, moving unneeded data out of memory and into temporary disk storage. These suspensions are normally on the scale of milliseconds to a few seconds, and in this range, they are generally not noticeable. The JVM has to suspend all other activities while running the GC. The larger the maximum heap, which is what this memory setting is affecting, the longer each check through the heap will take. The GC is a memory handling subsystem of the JVM that scans through the currently used heap and frees up memory by removing contents no longer in use. We suggest an upper limit of 50GB for the memory allocation because there are generally limited gains if the value is increased beyond this, and this limit helps ensure that the JVM does not spend too much time running garbage collection (GC) processes. file.ĭefault memory setting recommendations explained If this is not done, this "-Xmx" value will overwrite the setting in the ist. Remove the -Xmx setting from within the vmoptions.txt.Add the following line into the ist file, under the 'VMOptionArray' section: -Xmx4100m, adjusting the numeric value to the amount of memory you want.This can be done using the following steps: If you prefer this sort of information to be configured within the ist file, also available under the Contents folder. The vmoptions.txt is within the Contents folder 9. Right click on it, or click on it while holding the Ctrl key down (Ctrl + click), and choose "Show Package Contents" from the menu that appears. To find this file in the application bundle, open a Finder window and navigate to the Workbench application. MacOS The property file is called vmoptions.txt and can be found in the application bundle. For example, on Windows, this would be a location like:Ĭ:\Program Files\CLC Main Workbench 8\clcmainwb.vmoptions. It is found under the installation area of the Workbench. vmoptions, so for a CLC Main Workbench installation, this would be clcmainwb.vmoptions. Windows and Linux The property file is called. The location of the relevant property file depends on the operating system being used: If a new memory limit is configured, it will be applied the next time the Workbench is started up. With 8000m indicating that the maximum amount of memory the Workbench java process is allowed to use is 8000Mb. The memory limit is configured in a property file by giving a numeric value and unit after the setting -Xmx. If you plan install Workbenches on multiple machines using an image, then either all the target computers should have the same amount of RAM, or the memory value specified should be set to 50% of the RAM on the computer with the smallest amount of memory.Ĭhanging the memory setting for the Workbench JVM We recommend sticking with the default value for reasons described later in this chapter. This is determined during Workbench installation. The default value is 50% of the computer's RAM or 50GB, whichever is smaller. The Workbench Java Virtual Machine (JVM) needs to know how much memory it can use. ![]() Setting the amount of memory available for the JVM
0 Comments
Leave a Reply. |
AuthorWrite something about yourself. No need to be fancy, just an overview. ArchivesCategories |