difining parameters in a big system

Hi! I have a problem that you maybe will have a good answer. I have a big system written on matlab in the area of machine_learning. The code of system (which includes trainnig,testing,performance measurement) uses many parameters in many different functions.

First I used structs to define those parameters and tranfered the struct to each function. Then I tried to use classes with persistant variable, but then all the parallel toolbox doesn't work (the persistent variable is not persistent)

Do you have any idea how to solve this problem? Thanks