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Normally you don't need to do anything...you can just finish with your last run command.
In rare cases, I've needed to force output buffers to be flushed with ioflush.
And in very rare cases, with problematic user written models, I've needed to unload dlls and reload them before the next run to properly reset the model memory.

dropmodellibrary(full model dll path),
then
addmodellibrary(just file name, assuming the working directory has been set correctly)