Although it is a command prompt program, it does not run in DOS so you cannot have it go in your autoexe.bat file. However, if you write it into a batch file and stick it into the startup folder, it'll work, but your clients will have to wait for the server/router to start up (1 min 30 seconds) - not ideal but better than nothing.I imagine it would be a bit of a nightmare sortign out a program that could find your network card in DOS and then make it send the wake-up.
Also, remember to remove the '-' dashes from the ethernet/MAC addresses otherwise it will not work.