r scripting home - Gregor-Mendel-Institute/PhenoBox-System GitHub Wiki
The phenopipe infrastructure enables its users to upload custom R scripts which can be used to process the analysis results exported by IAP.
The scripts are grouped into so called 'Postprocessing Stacks'. Such a stack can contain any number of scripts which will be executed sequentially. Different stacks will be executed in parallel and are not connected in any way.
The Scripts are executed inside the JVM (Java Virtual Machine) with Renjin so you can only use packages which work with Renjin. But using Renjin gives us a lot of possibilities to get the most out of the scripts (e.g: sending status messages to let a user know what the script is doing at the moment via a defined interface)