Concepts and tools for collaborative weed demographic modeling

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Concepts and toolsfor collaborative weed
demographic modeling

• Niels Holst
• Århus University
• Denmark

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Acknowledgments

• European Network for the Durable Exploitation 0f
  Crop Protection Strategies (ENDURE)
• International Centre for Research in Organic Food
  Systems (ICROFS)

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Weed modeling Why?

• Proximate
• fun
• profitable
• Ultimate
• science (research, education)
• technology (tactics, strategy, policy)

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Models are thinking tools

• Models help us formulate notions about the
  dynamics of the different species that an
  ecosystem comprises.
• AP Gutierrez 1996

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Modeling for weed science

• Research
• integration
• analysis
• idea generation
• Education
• theory
• practice

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Models make you think

• The purpose of models is not to fit data but to
  sharpen the questions.
• S Karlin

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A diversity of models

• 134 scientific papers
• 60 weed species
• 40 crops
• Holst et al. (2007). Weed Research 47 1-14.

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Modeling life cycle

1. Formulate
2. Implement
3. Test
4. Publish

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WeedML components
annualweed
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WeedML components
GALAP
STEME
SETVI
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WeedML components
GALAP
STEME
SETVI
crop


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WeedML components
GALAP
STEME
SETVI
winter wheat
maize
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WeedML components
GALAP
STEME
SETVI
winter wheat
maize
maize
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WeedML components
GALAP
STEME
SETVI
winter wheat
maize
maize
competition


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WeedML components
GALAP
STEME
SETVI
winter wheat
maize
maize
hyperbolic
INTERCOM
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WeedML ancestry

• WeedML
• Weed Markup Language
• SBML
• Systems Biology Markup Language
• XML
• eXtensible Markup Language

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• ltweedml version1.0gt
• ltmodel classannual_weed namegalapgt
• ltmodel classcrop namewinter_wheatgt
• ltmodel classcompetitionhyperbolicgt
• ltmodel classweatherlog_filegt
• ltoutput classxy_plotgt
• lt/weedmlgt

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• ltweedml version1.0gt
• ltmodel classannual_weed namegalapgt
• ltmodel classcrop namewinter_wheatgt
• ltmodel classcompetitionhyperbolicgt
• ltmodel classweatherlog_filegt
• ltoutput classxy_plotgt
• lt/weedmlgt

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• ltweedml version1.0gt
• ltmodel classannual_weed namegalapgt
• ltmodel classcrop namewinter_wheatgt
• ltmodel classcompetitionhyperbolicgt
• ltmodel classweatherlog_filegt
• ltoutput classxy_plotgt
• lt/weedmlgt

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• ltweedml version1.0gt
• ltmodel classannual_weed namegalapgt
• ltmodel classcrop namewinter_wheatgt
• ltmodel classcompetitionhyperbolicgt
• ltmodel classweatherlog_filegt
• ltoutput classxy_plotgt
• lt/weedmlgt

/
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• ltweedml version1.0gt
• ltmodel classannual_weed namegalapgt
• ltmodel classcrop namewinter_wheatgt
• ltmodel classcompetitionhyperbolicgt
• ltmodel classweatherlog_filegt
• ltoutput classxy_plotgt
• lt/weedmlgt

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• ltweedml version1.0gt
• ltmodel classannual_weed namegalapgt
• ltmodel classcrop namewinter_wheatgt
• ltmodel classcompetitionhyperbolicgt
• ltmodel classweatherlog_filegt
• ltoutput classxy_plotgt
• lt/weedmlgt

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• ltweedml version1.0gt
• ltmodel classannual_weed namegalapgt
• ltmodel classcrop namewinter_wheatgt
• ltmodel classcompetitionhyperbolicgt
• ltmodel classweatherlog_filegt
• ltoutput classxy_plotgt
• lt/weedmlgt

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• ltweedml version1.0gt
• . . .
• ltmodel classweatherlog_filegt
• ltparameter namefile valueparis01.txt /gt
• ltparameter namedate col1 /gt
• ltparameter nametemperature col2 /gt
• ltparameter nameirradiation col4 /gt
• lt/modelgt
• ...
• lt/weedmlgt

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• ltweedml version1.0gt
• ltmodel classannual_weed namegalapgt
• ltmodel classcrop namewinter_wheatgt
• ltmodel classcompetitionhyperbolicgt
• ltmodel classweatherlog_filegt
• ltoutput classxy_plotgt
• lt/weedmlgt

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• ltweedml version1.0gt
• . . .
• ltmodel classcrop namewinter_wheat
• fromdoc(www.weedml.org/models/simple-winter-whea
  t.xml) /gt
• . . .
• lt/weedmlgt

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• ltweedml version1.0gt
• ltmodel classannual_weed namegalapgt
• ltmodel classcrop namewinter_wheatgt
• ltmodel classcompetitionhyperbolicgt
• ltmodel classweatherlog_filegt
• ltoutput classxy_plotgt
• lt/weedmlgt

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• ltweedml version1.0gt
• ltmodel classannual_weed namegalapgt
• ltmodel classstage nameseedgt
• ltmodel classstage namejuvenilegt
• ltmodel classstage namefloweringgt
• ltmodel classreproductiongt
• . . .
• lt/model
• lt/modelgt
• . . .
• lt/weedmlgt

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WeedML architecture
Base library
Engine library
Plug-ins
Applications
WeedML
Output
30
WeedML architecture
Base library
Engine library
Plug-ins
Applications
WeedML
Output
31
WeedML architecture
Base library
Engine library
Plug-ins
Applications
WeedML
Output
32
WeedML architecture
Base library
Engine library
Plug-ins
Applications
WeedML
Output
33
WeedML organisation

• www.weedml.org
• applications
• plug-ins
• models
• annual meetings
• weedml.sourceforge.net
• source code

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