Rule-based integration of GreenLab into GroIMP with GUI aided parameter input

GreenLab is a functional-structural plant model that has already been applied to a number of various plant species. Plant organogenesis is described by the dual-scale automaton formalism and growth is driven by source-sink relations between plant organs. The paper presents how the formalism of GreenLab and the growth process can be translated into the rule-based language XL. Currently essential parts of the deterministic and stochastic version of the GreenLab model are included. To provide a user-friendly way for parameter input, an additional graphical user interface was developed as part of the modelling platform GroIMP. Furthermore, the features provided by GroIMP can now be coupled with GreenLab, e.g., the integrated radiation model, based on Monte Carlo ray tracing, for computing the light distribution in the canopy.

[1]  Paul C. Struik,et al.  Functional-Structural Plant Modelling in Crop Production , 2007 .

[2]  Bao-Gang Hu,et al.  Stochastic 3D tree simulation using substructure instancing , 2003 .

[3]  Bao-Gang Hu,et al.  GreenLab: A New Methodology Towards Plant Functional-Structural Model -- Structural Part , 2003 .

[4]  G. Buck-Sorlin,et al.  Towards a functional-structural plant model of cut-rose: simulation of light environment, light absorption, photosynthesis and interference with the plant structure. , 2011, Annals of botany.

[5]  Bao-Gang Hu,et al.  GreenScilab:A toolbox simulating plant growth in the Scilab environment , 2006 .

[6]  P. de Reffye,et al.  A dynamic, architectural plant model simulating resource-dependent growth. , 2004, Annals of botany.

[7]  Paul-Henry Courn,et al.  Dynamic System of Plant Growth , 2009 .

[8]  Bruno Andrieu,et al.  ADEL-Wheat: a 3D Architectural Model of wheat development , 2003 .

[9]  Przemyslaw Prusinkiewicz,et al.  Towards aspect-oriented functional--structural plant modelling. , 2011, Annals of botany.

[10]  P. de Reffye,et al.  Parameter optimization and field validation of the functional-structural model GREENLAB for maize. , 2006, Annals of botany.

[11]  Hervé Rey,et al.  Estimation of light interception in research environments: a joint approach using directional light sensors and 3D virtual plants applied to sunflower (Helianthus annuus) and Arabidopsis thaliana in natural and artificial conditions. , 2008, Functional plant biology : FPB.

[12]  Jan Vos,et al.  Using functional–structural plant models to study, understand and integrate plant development and ecophysiology. , 2011, Annals of botany.

[13]  Przemyslaw Prusinkiewicz,et al.  MAppleT: simulation of apple tree development using mixed stochastic and biomechanical models. , 2008, Functional plant biology : FPB.

[14]  Gerhard Buck-Sorlin,et al.  The rule-based language XL and the modelling environment GroIMP illustrated with simulated tree competition. , 2008, Functional plant biology : FPB.

[15]  Winfried Kurth,et al.  Enhanced possibilities for analyzing tree structure as provided by an interface between different modelling systems , 2003 .

[16]  Amélie Rostand-Mathieu.  Essai sur la modélisation des interactions entre la croissance et le développement d'une plante cas du modèle Greenlab , 2006 .

[17]  Michael Renton,et al.  Modelling seagrass growth and development to evaluate transplanting strategies for restoration. , 2011, Annals of botany.

[18]  Gerhard Buck-Sorlin,et al.  GroIMP as a platform for functional-structural modelling of plants , 2007 .

[19]  Przemyslaw Prusinkiewicz,et al.  The Algorithmic Beauty of Plants , 1990, The Virtual Laboratory.

[20]  Jari Perttunen,et al.  The LIGNUM functional-structural tree model , 2009 .

[21]  Hervé Sinoquet,et al.  SIMWAL: A structural-functional model simulating single walnut tree growth in response to climate and pruning , 2000 .

[22]  Gerhard Buck-Sorlin,et al.  PART OF A SPECIAL ISSUE ON GROWTH AND ARCHITECTURAL MODELLING A functional-structural model of rice linking quantitative genetic information with morphological development and physiological processes , 2011 .

[23]  W. Diepenbrock,et al.  The virtual crop-modelling system 'VICA' specified for barley , 2007 .

[24]  Winfried Kurth,et al.  Barley morphology, genetics and hormonal regulation of internode elongation modelled by a relational growth grammar. , 2005, The New phytologist.

[25]  Paul-Henry Cournède,et al.  Analytical study of a stochastic plant growth model: Application to the GreenLab model , 2008, Math. Comput. Simul..

[26]  Paul-Henry Cournède,et al.  Structural Factorization of Plants to Compute Their Functional and Architectural Growth , 2006, Simul..

[27]  Philippe de Reffye,et al.  GreenScilab-Crop, an open source software for plant simulation and parameter estimation , 2009, 2009 IEEE International Workshop on Open-source Software for Scientific Computation (OSSC).

[28]  Ole Kniemeyer.  Design and implementation of a graph grammar based language for functional-structural plant modelling , 2008 .

[29]  Amélie Mathieu,et al.  Essai sur la modélisation des interactions entre la croissance et le développement d'une plante- Cas du modèle GreenLab , 2006 .

[30]  Raffaello Giannini,et al.  Influence of Light and Competition on Crown and Shoot Morphological Parameters of Norway Spruce and Silver Fir Saplings , 2005 .

[31]  H. M. Rauscher,et al.  ECOPHYS: An ecophysiological growth process model for juvenile poplar. , 1990, Tree physiology.

[32]  G A Ritchie,et al.  Evidence for red:far red signaling and photomorphogenic growth response in Douglas-fir (Pseudotsuga menziesii) seedlings. , 1997, Tree physiology.

[33]  Philippe de Reffye,et al.  Simulation of the topological development of young eucalyptus using a stochastic model and sampling measurement strategy , 2012 .

[34]  P. Prusinkiewicz,et al.  Using L-systems for modeling source-sink interactions, architecture and physiology of growing trees: the L-PEACH model. , 2005, The New phytologist.

[35]  D. Barthélémy,et al.  Plant architecture: a dynamic, multilevel and comprehensive approach to plant form, structure and ontogeny. , 2007, Annals of botany.

[36]  B. Andrieu,et al.  Cessation of tillering in spring wheat in relation to light interception and red : far-red ratio. , 2006, Annals of botany.

[37]  C. Fournier,et al.  OpenAlea: a visual programming and component-based software platform for plant modelling. , 2008, Functional plant biology : FPB.

[38]  Jing Hua,et al.  QingYuana GreenLab based plant simulator and solver , 2010 .

[39]  François Houllier,et al.  Fitting a Functional-Structural growth model with plant architectural data , 2003 .

[40]  Hervé Sinoquet,et al.  Short term interactions between tree foliage and the aerial environment: An overview of modelling approaches available for tree structure-function models , 2000 .

[41]  Loïc Pagès,et al.  GRAAL: a model of GRowth, Architecture and carbon ALlocation during the vegetative phase of the whole maize plant: Model description and parameterisation , 2003 .

[42]  D. Barthélémy,et al.  Computing competition for light in the GREENLAB model of plant growth: a contribution to the study of the effects of density on resource acquisition and architectural development. , 2007, Annals of botany.

[43]  Jari Perttunen,et al.  Incorporating Lindenmayer systems for architectural development in a functional-structural tree model , 2005 .