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Here I list out the general differences between the canonical and the Java implementations of ACT-R. Since jACT-R has been coded largely in isolation from the canonical code, there are many design decision differences.

I am fully committed to theoretical compatibility, but not implementation. In other words, equations and key behaviors are the primary goal (i.e. activation equations and chunk immutability), not consistency in trivial areas (i.e. exact chunk structures, slot names, or visual search priorities). But, I will endeavor to ensure minimal hassle when migrating models from one version to another (i.e. automatic translation/transformation).