I’m new to CellProfiler and currently trying to set up pipeline for processing of images using cluster. The problem I run into is setting path to images in batch file. In particular my problem is that when I create batch file I use windows OS, while Linux is run on the cluster. Thus my image paths in batch file would look like D:/Images while I need to have /home/user/images for batch to access images on cluster.
Is there a way to solve that? Would I have to create batch file using the cluster version of CellProfiler?