If you receive an offer to your second-choice program, you are advised to accept it, even if your evaluation for your first-choice program is still pending. You will still have the option to accept an offer to your first-choice program later, should you receive one.
In many cases, you can still get admitted to your first-choice program, even if you were at first deemed ineligible, and/or you have accepted an offer to your second-choice program. Check your admission status and official correspondences in Bear Tracks to find out if and how you can be reconsidered for your first-choice program (i.e. what outstanding requirements you still need to meet).