![]() ![]() This has to be done only once and the following steps describe this process. For best performance it is recommended that users copy this container to their individual /scratch storage location. The CellProfiler container image file is provided in a shared user space. The interactive GUI mode is used to define image analysis pipelines the non-interactive mode is used for image batch processing based on previosuly configured image analysis pipelines. Please contact us for help with this package.ĬellProfiler can be run interactively with a graphical user interface (GUI) or non-interactively without any user interface. We recommend using the latest CellProfiler container version whenever possible. The basic concepts of software containers, and Singularity container in particular, are explained here. Containers encapsulate applications, in this case CellProfiler, and all their required libraries isolated from the application and libraries provided by the system. The latest version of CellProfiler is available as a Singularity container. Module load singularity/3.7.1 cellprofiler/4.2.1 Module load singularity/3.7.1 cellprofiler/3.1.8 For example: module spider cellprofiler/3.1.8 Module, including how to load the module, run the module spider command with the module’s full version label. The output of the command shows the available CellProfilerįor detailed information about a particular CellProfiler To find the available versions and learn how to load them, run: module spider cellprofiler CellProfiler is an image processing package to generate morphometric measurements.įor detailed information, visit the CellProfiler
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