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This issue is resolved. Root Folder can be changed for each study manually by administrator.
I've changed the root folder to "xyz" in project "Tod Hing Test Project", study "Paris Study". I'm still in the process of figuring out how to change the label though.
It is possible to allow the users of the study to use any folder name besides "subject". At this time, I would need to manually change a variable for each study. So the owner of the study can let us know what they want to change it to. I'll look into what it will take to make allow owner of study to do this without contacting us.