Again great move in going with megasquirt. There are many many ways to do megasquirt on a 4a, thats the beauty of megasquirt. the variations in setups are usually in the type of ignition hardware one choses when squirtin their 4a.
I am not sure which megasquirt you will get but this manual has all the info you will need.
http://msextra.com/doc/index.html
it will all seem like alot but with enough reading it will make sense. Thats the beauty of megasquirt diy standalone, you get to learn as you go along.
Are you going to be using stock wiring harness or building one from scratch ?