Initialize a counter used Simulink For iterator block

Here's a simple algorithm :

index = 0
innerIndex = 0
M = a 2d matrix with zeros everywhere
for index going from 1 to 10
    do some stuff involving the use of index
    if a certain condition is met
        increment innerIndex
        append some stuff in M with something like M[innerIndex,:]=some stuff 
    end
end
do some stuff with M and the final value of innerIndex

I want to set this up as a Simulink model 'A' with a for iterator and Matlab embedded functions and delay blocks to do most of the work. This model will itself be called within a loop by a parent model 'B'.

I'm having a hard time making sure that lines 2 and 3 of my algorithm are done properly. I thought that the delay blocks would take care of this initialization, but apparently it doesn't. I want innerIndex and M to go back to their initial values (zero) each time model B calls model A.

Do you have suggestions, even general guide lines, as to how to tackle this in Simulink?