Cargando…
L-Py: An L-System Simulation Framework for Modeling Plant Architecture Development Based on a Dynamic Language
The study of plant development requires increasingly powerful modeling tools to help understand and simulate the growth and functioning of plants. In the last decade, the formalism of L-systems has emerged as a major paradigm for modeling plant development. Previous implementations of this formalism...
Autores principales: | , , , , |
---|---|
Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Frontiers Research Foundation
2012
|
Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3362793/ https://www.ncbi.nlm.nih.gov/pubmed/22670147 http://dx.doi.org/10.3389/fpls.2012.00076 |
_version_ | 1782234260582694912 |
---|---|
author | Boudon, Frédéric Pradal, Christophe Cokelaer, Thomas Prusinkiewicz, Przemyslaw Godin, Christophe |
author_facet | Boudon, Frédéric Pradal, Christophe Cokelaer, Thomas Prusinkiewicz, Przemyslaw Godin, Christophe |
author_sort | Boudon, Frédéric |
collection | PubMed |
description | The study of plant development requires increasingly powerful modeling tools to help understand and simulate the growth and functioning of plants. In the last decade, the formalism of L-systems has emerged as a major paradigm for modeling plant development. Previous implementations of this formalism were made based on static languages, i.e., languages that require explicit definition of variable types before using them. These languages are often efficient but involve quite a lot of syntactic overhead, thus restricting the flexibility of use for modelers. In this work, we present an adaptation of L-systems to the Python language, a popular and powerful open-license dynamic language. We show that the use of dynamic language properties makes it possible to enhance the development of plant growth models: (i) by keeping a simple syntax while allowing for high-level programming constructs, (ii) by making code execution easy and avoiding compilation overhead, (iii) by allowing a high-level of model reusability and the building of complex modular models, and (iv) by providing powerful solutions to integrate MTG data-structures (that are a common way to represent plants at several scales) into L-systems and thus enabling to use a wide spectrum of computer tools based on MTGs developed for plant architecture. We then illustrate the use of L-Py in real applications to build complex models or to teach plant modeling in the classroom. |
format | Online Article Text |
id | pubmed-3362793 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2012 |
publisher | Frontiers Research Foundation |
record_format | MEDLINE/PubMed |
spelling | pubmed-33627932012-06-05 L-Py: An L-System Simulation Framework for Modeling Plant Architecture Development Based on a Dynamic Language Boudon, Frédéric Pradal, Christophe Cokelaer, Thomas Prusinkiewicz, Przemyslaw Godin, Christophe Front Plant Sci Plant Science The study of plant development requires increasingly powerful modeling tools to help understand and simulate the growth and functioning of plants. In the last decade, the formalism of L-systems has emerged as a major paradigm for modeling plant development. Previous implementations of this formalism were made based on static languages, i.e., languages that require explicit definition of variable types before using them. These languages are often efficient but involve quite a lot of syntactic overhead, thus restricting the flexibility of use for modelers. In this work, we present an adaptation of L-systems to the Python language, a popular and powerful open-license dynamic language. We show that the use of dynamic language properties makes it possible to enhance the development of plant growth models: (i) by keeping a simple syntax while allowing for high-level programming constructs, (ii) by making code execution easy and avoiding compilation overhead, (iii) by allowing a high-level of model reusability and the building of complex modular models, and (iv) by providing powerful solutions to integrate MTG data-structures (that are a common way to represent plants at several scales) into L-systems and thus enabling to use a wide spectrum of computer tools based on MTGs developed for plant architecture. We then illustrate the use of L-Py in real applications to build complex models or to teach plant modeling in the classroom. Frontiers Research Foundation 2012-05-30 /pmc/articles/PMC3362793/ /pubmed/22670147 http://dx.doi.org/10.3389/fpls.2012.00076 Text en Copyright © 2012 Boudon, Pradal, Cokelaer, Prusinkiewicz and Godin. http://www.frontiersin.org/licenseagreement This is an open-access article distributed under the terms of the Creative Commons Attribution Non Commercial License, which permits non-commercial use, distribution, and reproduction in other forums, provided the original authors and source are credited. |
spellingShingle | Plant Science Boudon, Frédéric Pradal, Christophe Cokelaer, Thomas Prusinkiewicz, Przemyslaw Godin, Christophe L-Py: An L-System Simulation Framework for Modeling Plant Architecture Development Based on a Dynamic Language |
title | L-Py: An L-System Simulation Framework for Modeling Plant Architecture Development Based on a Dynamic Language |
title_full | L-Py: An L-System Simulation Framework for Modeling Plant Architecture Development Based on a Dynamic Language |
title_fullStr | L-Py: An L-System Simulation Framework for Modeling Plant Architecture Development Based on a Dynamic Language |
title_full_unstemmed | L-Py: An L-System Simulation Framework for Modeling Plant Architecture Development Based on a Dynamic Language |
title_short | L-Py: An L-System Simulation Framework for Modeling Plant Architecture Development Based on a Dynamic Language |
title_sort | l-py: an l-system simulation framework for modeling plant architecture development based on a dynamic language |
topic | Plant Science |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3362793/ https://www.ncbi.nlm.nih.gov/pubmed/22670147 http://dx.doi.org/10.3389/fpls.2012.00076 |
work_keys_str_mv | AT boudonfrederic lpyanlsystemsimulationframeworkformodelingplantarchitecturedevelopmentbasedonadynamiclanguage AT pradalchristophe lpyanlsystemsimulationframeworkformodelingplantarchitecturedevelopmentbasedonadynamiclanguage AT cokelaerthomas lpyanlsystemsimulationframeworkformodelingplantarchitecturedevelopmentbasedonadynamiclanguage AT prusinkiewiczprzemyslaw lpyanlsystemsimulationframeworkformodelingplantarchitecturedevelopmentbasedonadynamiclanguage AT godinchristophe lpyanlsystemsimulationframeworkformodelingplantarchitecturedevelopmentbasedonadynamiclanguage |