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Sounds like you may have gone into crash protection mode. This piece tells you how to clear it.
https://www.google.co.uk/amp/s/road.cc/content/forum/193805-di2-crash-mode-bluffers-guide%3famp
Alan_tbt
@atz
I've got a bit of a problem. Di2 6800 and the bike worked fine Friday barring the front mech twisting a little due to some lazy maintenance. Yesterday I gave it a clean and when I went to sort the front mech, the rear shifted to the small cog but when I'd sorted the front out, it seemed the rear had stopped working (there's a small amount of movement on the mech when I press the shifter but not enough to move it far). Any idea what the issue might be.