concepts and tools for collaborative weed demographic modeling niels holst Århus university denmark
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Concepts and toolsfor collaborative weed demographic modeling
Niels HolstÅrhus 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 cycle1. Formulate
2. Implement
3. Test
4. Publish
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annualweed
WeedML components
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GALAP
WeedML components
STEMESETVI
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GALAP
WeedML components
STEMESETVI
crop
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GALAP
WeedML components
STEMESETVI
winter wheatmaize
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GALAP
WeedML components
STEMESETVI
winter wheatmaize maize
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GALAP
WeedML components
STEMESETVI
winter wheatmaize maize
competition
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GALAP
WeedML components
STEMESETVI
winter wheatmaize
hyperbolic INTERCOM
maize
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WeedML ancestry
WeedMLWeed Markup Language
SBMLSystems Biology Markup Language
XMLeXtensible Markup Language
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<weedml version=“1.0”>
+ <model class=“annual_weed” name=“galap”>
+ <model class=“crop” name=“winter_wheat”>
+ <model class=“competition::hyperbolic”>
+ <model class=“weather::log_file”>
+ <output class=“xy_plot”>
</weedml>
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<weedml version=“1.0”>
+ <model class=“annual_weed” name=“galap”>
+ <model class=“crop” name=“winter_wheat”>
+ <model class=“competition::hyperbolic”>
+ <model class=“weather::log_file”>
+ <output class=“xy_plot”>
</weedml>
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<weedml version=“1.0”>
+ <model class=“annual_weed” name=“galap”>
+ <model class=“crop” name=“winter_wheat”>
+ <model class=“competition::hyperbolic”>
+ <model class=“weather::log_file”>
+ <output class=“xy_plot”>
</weedml>
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<weedml version=“1.0”>
+ <model class=“annual_weed” name=“galap”>
+ <model class=“crop” name=“winter_wheat”>
+ <model class=“competition::hyperbolic”>
+ <model class=“weather::log_file”>
+ <output class=“xy_plot”>
</weedml>
/
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<weedml version=“1.0”>
+ <model class=“annual_weed” name=“galap”>
+ <model class=“crop” name=“winter_wheat”>
+ <model class=“competition::hyperbolic”>
+ <model class=“weather::log_file”>
+ <output class=“xy_plot”>
</weedml>
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<weedml version=“1.0”>
+ <model class=“annual_weed” name=“galap”>
+ <model class=“crop” name=“winter_wheat”>
+ <model class=“competition::hyperbolic”>
+ <model class=“weather::log_file”>
+ <output class=“xy_plot”>
</weedml>
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<weedml version=“1.0”>
+ <model class=“annual_weed” name=“galap”>
+ <model class=“crop” name=“winter_wheat”>
+ <model class=“competition::hyperbolic”>
+ <model class=“weather::log_file”>
+ <output class=“xy_plot”>
</weedml>
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<weedml version=“1.0”>
+ . . .
<model class=“weather::log_file”><parameter name=“file”
value=“paris01.txt“ /> <parameter name=“date” col=“1“ /> <parameter name=“temperature”
col=“2” /> <parameter name=“irradiation” col=“4” />
</model>
+ ...
</weedml>
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<weedml version=“1.0”>
+ <model class=“annual_weed” name=“galap”>
+ <model class=“crop” name=“winter_wheat”>
+ <model class=“competition::hyperbolic”>
+ <model class=“weather::log_file”>
+ <output class=“xy_plot”>
</weedml>
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<weedml version=“1.0”>
+ . . .
<model class=“crop” name=“winter_wheat”from=“doc(www.weedml.org/models/
simple-winter-wheat.xml)” />
+ . . .
</weedml>
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<weedml version=“1.0”>
+ <model class=“annual_weed” name=“galap”>
+ <model class=“crop” name=“winter_wheat”>
+ <model class=“competition::hyperbolic”>
+ <model class=“weather::log_file”>
+ <output class=“xy_plot”>
</weedml>
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<weedml version=“1.0”>
<model class=“annual_weed” name=“galap”>+ <model class=“stage” name=“seed”>+ <model class=“stage” name=“juvenile”> <model class=“stage” name=“flowering”>
+ <model class=“reproduction”> + . . .
</model
</model>
+ . . .
</weedml>
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WeedML architecture
Base library Engine library
Plug-ins Applications WeedML
Output
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WeedML architecture
Base library Engine library
Plug-ins Applications WeedML
Output
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WeedML architecture
Base library Engine library
Plug-ins Applications WeedML
Output
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WeedML architecture
Base library Engine library
Plug-ins Applications WeedML
Output
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WeedML organisation www.weedml.org
– applications– plug-ins– models– annual meetings
weedml.sourceforge.net– source code
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