You're ok. We fixed our Tyr's Hand and the Thor's Hammer test code (I think, anyway?) so that they don't flash when the controller is powered off - you do need to check that allow configuration word programming box at least once.
If you went with the Duo/Odin' sRaven install, we never fixed that test code, so it will try to perform the test when the controller is powered off (but when the battery is present), so you can just ignore the codes it's spitting out if the controller is not powered on.
If, when the controller is powered on, the test code runs fine, then you are good to go!