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Application Builder and thread settings

Hello everybody,
I have created a VI which uses multithreading. Necessary was for me to set the threading properties of the LabView by running the threadconfig.vi tool. This tool wrote a line into the Labview config ini file (LabView.ini in LabView 6 directory). My program worked fine, then I wanted to compile it to exe version using Application Builder. I did it but now exe file doesn't work with threads. Seems the parameters which were set to LabView ini file doesn't present in exe file. And my question is: how can I set the same thread properties to exe file, like it is in LabView environement?
TIA,
Yazilim.
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Each exe has its own ini file. Try making the changes there.
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