We describe our use of the CoSMoS process to structure an incremental change of a biological simulation. The domain is auxin transport canalisation. An existing simulator is refactored to handle aspects of 2D and 3D space more efficiently, and enhanced to include more realistically-shaped plant cells. The CoSMoS process supports clear separation of concerns, allowing us to concentrate on the biological model and the implementation decisions separately. This gives a clear and well-justi fied simulator design that can be validated by biologists, yet still allows efficient implementation.
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@inproceedings(SS-CoSMoS10,
author = "Philip Garnett and Susan Stepney and Francesca Day and Ottoline Leyser",
title = "Using the {CoSMoS} Process to Enhance an
Executable Model of Auxin Transport Canalisation",
pages = "9-32",
crossref = "CoSMoS10"
)
@proceedings(CoSMoS10,
editor = "Susan Stepney and Peter Welch and Paul S. Andrews and Adam T. Sampson",
title = "Proceedings of the 2010 Workshop on Complex Systems Modelling and Simulation,
Odense, Denmark, August 2010",
booktitle = "Proceedings of the 2010 Workshop on Complex Systems Modelling and Simulation,
Odense, Denmark, August 2010",
publisher = "Luniver Press",
year = 2010
)