I have cloned the cellprofiler repo and set up a conda environment from which I can launch cellprofiler. I am running it from the master branch with python 3 on linux.
When I change some preferences (like not showing the startup message or the maximum java heap size) the change is not persisted. So when I launch the program again my previous changes to the preferences are lost.
Is there a way to fix this? Can I specify the preferences in some config file?