So I tried the new version of the e-tube project software, but that didn't change anything. Having tried all the suggestions here, I ended up taking the bike to my local shop where they diagnosed it and determined that the rear derailleur was not functional. Given that it was a brand new derailleur, Shimano is replacing it under warranty.
This problem is solved and I thank everyone for their help!
Unfortunately, I am now aware of another problem I will need to resolve which I will post as a new thread.