The Veroa Mite has really hurt the beekeeping industry here in Michigan. The bees can usually handle them, until winter. Heavy losses occure then. Most commercial beekeepers take their bees south for the winter.
As to getting the bees out of the log. There is a one way bee gate that the suppliers sell. Seal up the log and install it with the end leading into your hive. The queen most likely won't follow. So, you will need to purchase a queen from the supplier. Which is a good idea anyway as the queen offspring is where the temperment of the hive comes from.