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alien is a GPU-based physics engine focused on demands for artificial life computations. It contains a software tool designed to simulate digital organisms embedded in artificial ecosystems and to mimic conditions for (pre-)biotic evolution.
The Noble Ape Simulation was started in 1996. It features a number of autonomous simulation components including: landscape, biological, weather, sentient creature, a simple intelligent-agent scripting language (ApeScript). http://www.nobleape.com/