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23 April 2024 |
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Unit Testing, Model Validation, and Biological Simulation | | Gopal P. Sarma
; Travis W. Jacobs
; Mark D. Watts
; Vahid Ghayoomi
; Richard C. Gerkin
; Stephen D. Larson
; | | Date: |
19 Aug 2015 | | Abstract: | The growth of the software industry has gone hand in hand with the
development of tools and cultural practices for ensuring the reliability of
complex pieces of software. These tools and practices are now acknowledged to
be essential to the management of modern software. As computational models and
methods have become increasingly common in the biological sciences, it is
important to examine how these practices can accelerate biological software
development and improve research quality. In this article, we give a focused
case study of our experience with the practices of unit testing and test-driven
development in OpenWorm, an open-science project aimed at modeling
Caenorhabditis elegans. We identify and discuss the challenges of incorporating
test-driven development into a heterogeneous, data-driven project, as well as
the role of model validation tests, a category of tests unique to software
which expresses scientific models. | | Source: | arXiv, 1508.4635 | | Services: | Forum | Review | PDF | Favorites | |
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