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editing programs with looping in them.

I have several programs with looping in them. When I run the program some of my feature values show as being shifted by some amount of the looping value at the end of the program. If I repeated rerun the program everything seems to work. If I make editing change like the name of dimension and save. It now uses those values as my first loop location and the program gives out of volume errors. Only the feature Theoretical and target vales seem affected by this the move to values never index. What procedure do i need to follow to make sure that my edited program runs from its first nest location for all values?

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