Serving many at once: How a database approach can create unity in dynamical ecosystem modelling

Research output: Contribution to journalResearch articleContributedpeer-review

Contributors

  • Wolf M. Mooij - , Netherlands Institute of Ecology (NIOO-KNAW), Wageningen University & Research (WUR) (Author)
  • Robert J. Brederveld - , Witteveen+Bos (Author)
  • Jeroen J.M. de Klein - , Wageningen University & Research (WUR) (Author)
  • Don L. DeAngelis - , University of Miami (Author)
  • Andrea S. Downing - , Stockholm University (Author)
  • Michiel Faber - , Witteveen+Bos (Author)
  • Daan J. Gerla - , Wageningen University & Research (WUR), Royal Netherlands Institute for Sea Research - NIOZ (Author)
  • Matthew R. Hipsey - , University of Western Australia (Author)
  • Jochem 't Hoen - , Wageningen University & Research (WUR) (Author)
  • Jan H. Janse - , PBL Netherlands Environmental Assessment Agency (Author)
  • Annette B.G. Janssen - , Netherlands Institute of Ecology (NIOO-KNAW), Wageningen University & Research (WUR) (Author)
  • Michel Jeuken - , Deltares (Author)
  • Bob W. Kooi - , Vrije Universiteit Amsterdam (VU) (Author)
  • Betty Lischke - , University of Potsdam (Author)
  • Thomas Petzoldt - , Chair of Limnology (Author)
  • Leo Postma - , PBL Netherlands Environmental Assessment Agency (Author)
  • Sebastiaan A. Schep - , Witteveen+Bos (Author)
  • Huub Scholten - , Wageningen University & Research (WUR) (Author)
  • Sven Teurlincx - , Netherlands Institute of Ecology (NIOO-KNAW) (Author)
  • Christophe Thiange - , PBL Netherlands Environmental Assessment Agency (Author)
  • Dennis Trolle - , Aarhus University (Author)
  • Anne A. van Dam - , IHE Delft Institute for Water Education (Author)
  • Luuk P.A. van Gerven - , Netherlands Institute of Ecology (NIOO-KNAW), Wageningen University & Research (WUR) (Author)
  • Egbert H. van Nes - , Wageningen University & Research (WUR) (Author)
  • Jan J. Kuiper - , Netherlands Institute of Ecology (NIOO-KNAW), Wageningen University & Research (WUR) (Author)

Abstract

Simulation modelling in ecology is a field that is becoming increasingly compartmentalized. Here we propose a Database Approach To Modelling (DATM) to create unity in dynamical ecosystem modelling with differential equations. In this approach the storage of ecological knowledge is independent of the language and platform in which the model will be run. To create an instance of the model, the information in the database is translated and augmented with the language and platform specifics. This process is automated so that a new instance can be created each time the database is updated. We describe the approach using the simple Lotka-Volterra model and the complex ecosystem model for shallow lakes PCLake, which we automatically implement in the frameworks OSIRIS, GRIND for MATLAB, ACSL, R, DUFLOW and DELWAQ. A clear advantage of working in a database is the overview it provides. The simplicity of the approach only adds to its elegance.

Details

Original languageEnglish
Pages (from-to)266-273
Number of pages8
JournalEnvironmental Modelling and Software
Volume61
Publication statusPublished - 1 Nov 2014
Peer-reviewedYes

External IDs

Scopus 84908097388
ORCID /0000-0002-4951-6468/work/142256747

Keywords

Research priority areas of TU Dresden

Keywords

  • modelling framework, programming language, differential equation, database approach to modelling, DATM, community-based modelling