In principle you can use the Build Environment for STM32F769 Discovery board and follow the instructions of the Getting Started on STM32F769 Discovery. Nevertheless, it will be necessary to make some adaptations within the makefiles and board configuration files, in order to use the BSP of the Eval board instead of the Discovery board.
From Embedded Wizard point of view or from Platform Package point of view there is no difference.
In order to get everything up and running very quickly, it might be the easiest way to use the Discovery board first.