Adding a drill to a 3D Printer

Hello,

I have a dual extruder 3D printer and I aim to remove the 2nd extruder and mount a spindle to it. The goal is to have the capability to pause the printer mid print, and do some subtractive manufacturing process, and then resume the print and repeat. I am wondering what changes to the software need to be made to accomplish this task. or if this can be done by the slicer