Articles | Volume 9, issue 6
https://doi.org/10.5194/gmd-9-2271-2016
https://doi.org/10.5194/gmd-9-2271-2016
Model description paper
 | 
01 Jul 2016
Model description paper |  | 01 Jul 2016

FABM-PCLake – linking aquatic ecology with hydrodynamics

Fenjuan Hu, Karsten Bolding, Jorn Bruggeman, Erik Jeppesen, Morgens R. Flindt, Luuk van Gerven, Jan H. Janse, Annette B. G. Janssen, Jan J. Kuiper, Wolf M. Mooij, and Dennis Trolle

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Cited articles

Ahrens, R. N., Walters, C. J., and Christensen, V.: Foraging arena theory, Fish Fisheries, 13, 41–59, 2012.
Bruggeman, J. and Bolding, K.: A general framework for aquatic biogeochemical models, Environ. Model. Softw., 61, 249–265, 2014.
Bruggeman, J. and Bolding, K.: The Framework for Aquatic Biogeochemical Models (FABM): a Fortran 2003 programming framework for biogeochemical models of marine and freshwater systems, available at: http://fabm.net, last access: 29 June 2016.
Butenschön, M., Clark, J., Aldridge, J. N., Allen, J. I., Artioli, Y., Blackford, J., Bruggeman, J., Cazenave, P., Ciavatta, S., Kay, S., Lessin, G., van Leeuwen, S., van der Molen, J., de Mora, L., Polimene, L., Sailley, S., Stephens, N., and Torres, R.: ERSEM 15.06: a generic model for marine biogeochemistry and the ecosystem dynamics of the lower trophic levels, Geosci. Model Dev., 9, 1293–1339, https://doi.org/10.5194/gmd-9-1293-2016, 2016.
Christensen, V. and Pauly, D.: ECOPATH II – a software for balancing steady-state ecosystem models and calculating network characteristics, Ecol. Model., 61, 169–185, 1992.
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Short summary
We present a redesign and further development of a complex and well-known aquatic ecosystem model (PCLake) into the Framework for Aquatic Biogeochemical Models (FABM). So PCLake can run in different hydrodynamic environments, ranging from 0-D to 3-D. We introduce the methods and technical details about how the model was re-designed into a modular structure and the new features of PCLake enabled by FABM. We further present a benchmark test case to verify the new model implementation.