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A Domain-Specific Language for Programming in the Tile Assembly Model

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DNA Computing and Molecular Programming (DNA 2009)

Part of the book series: Lecture Notes in Computer Science ((LNTCS,volume 5877))

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Abstract

We introduce a domain-specific language (DSL) for creating sets of tile types for simulations of the abstract Tile Assembly Model. The language defines objects known as tile templates, which represent related groups of tiles, and a small number of basic operations on tile templates that help to eliminate the error-prone drudgery of enumerating such tile types manually or with low-level constructs of general-purpose programming languages. The language is implemented as a class library in Python (a so-called internal DSL), but is presented independently of Python or object-oriented programming, with emphasis on support for a visual editing tool for creating large sets of complex tile types.

This research was partially supported by NSF grants 0652569 and 0728806.

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Authors and Affiliations

  1. Department of Computer Science, Iowa State University, Ames, IA, 50011, USA

    David Doty & Matthew J. Patitz

Authors
  1. David Doty
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  2. Matthew J. Patitz
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Editors and Affiliations

  1. Dept. of Computer Science and Computer Engineering, JBHT - CSCE 504, 1 University of Arkansas, 72701, Fayetteville, AR, USA

    Russell Deaton

  2. Department of Life Science and Institute of Physics Graduate school of Arts and Sciences, The University of Tokyo, 3-8-1 Komaba, Meguro-ku, 153-8902, Tokyo, Japan

    Akira Suyama

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Doty, D., Patitz, M.J. (2009). A Domain-Specific Language for Programming in the Tile Assembly Model. In: Deaton, R., Suyama, A. (eds) DNA Computing and Molecular Programming. DNA 2009. Lecture Notes in Computer Science, vol 5877. Springer, Berlin, Heidelberg. https://doi.org/10.1007/978-3-642-10604-0_3

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  • DOI: https://doi.org/10.1007/978-3-642-10604-0_3

  • Publisher Name: Springer, Berlin, Heidelberg

  • Print ISBN: 978-3-642-10603-3

  • Online ISBN: 978-3-642-10604-0

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