It will result in a crash, because we assume at least a depth of 2 subfolders. If you simply add a few dummy subfolders in front of the actual datafolder you should be fine.
However, now we seem to ahve found another one - something to do with the water files. Only happening for one of the students, so we think their data may have gotten corrupted. Other MSc student with same data doesn’t have this issue, although they found another bug with the GUIwhere it inserts spaces into file names. I know you suggest avoiding using the GUI for building Job files, but it is an easy way for inexperienced people to get started. (and so the way students tend to gravitate if they are not to used to working with scripts etc.)