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EKS-LM4F232

How do you send control  messages from the companion application (logger) to the board EKS-LM4F232 (qs-logger) ?
I am aware that it is a one way communication from the board to the application, but I am trying to establish two-way communication.  In order to accomplish this I am trying to modify the source code that came with the logger and the qs-logger.
Please help with examples or references to other boards that will help with this issue.