This message was posted on behalf of Intel Corporation
I'll try to help you with this issue. Could you please let us know if Flash Tool Lite eventually show an error message stating that the flashing failed? If so, could you please post a screenshot of the error message?
Flash Tool Lite is no longer recommended to flash the board, you should try the Setup Tool. You can find a guide on how to use it in https://software.intel.com/en-us/get-started-edison-linux-step2.
If the Setup Tool still doesn't manage to flash your board, you could try using the flashall.sh method. You can find instructions on how to do it in https://communities.intel.com/docs/DOC-25154.