While running a program, can you run a separate program at the beginning?

[[Ju...]]

I have a program that runs in AutoRun on a pallet, and I'd like to run a separate program at the beginning using something like a batch file (which I know very little about).  The reason why, is I'd like to check a centrally located artifact for probe breakage (0.3mm).  If I were to just put the check at the beginning of the program, I believe I would need an artifact at each station of the pallet.  My thought is if I have a separate program that only references the pallet alignment, then I should be able to just have one artifact at a fixed location.  I could be way off on this approach, but it would still be nice to know if this is possible for other potential applications.  Thanks in advance!