Articles | Volume 9, issue 6
https://doi.org/10.5194/gmd-9-2115-2016
© Author(s) 2016. This work is distributed under
the Creative Commons Attribution 3.0 License.
the Creative Commons Attribution 3.0 License.
Special issue:
https://doi.org/10.5194/gmd-9-2115-2016
© Author(s) 2016. This work is distributed under
the Creative Commons Attribution 3.0 License.
the Creative Commons Attribution 3.0 License.
Development and technical paper
| 
10 Jun 2016
Development and technical paper |
| 10 Jun 2016
Performance and results of the high-resolution biogeochemical model PELAGOS025 v1.0 within NEMO v3.4
Italo Epicoco
CORRESPONDING AUTHOR
Department of Innovation Engineering, University of Salento, via per Monteroni, 73100 Lecce, Italy
Euro-Mediterranean Centre on Climate Change Foundation, via Augusto Imperatore 16, 73100 Lecce, Italy
Silvia Mocavero
Euro-Mediterranean Centre on Climate Change Foundation, via Augusto Imperatore 16, 73100 Lecce, Italy
Francesca Macchia
Euro-Mediterranean Centre on Climate Change Foundation, via Augusto Imperatore 16, 73100 Lecce, Italy
Marcello Vichi
Department of Oceanography, University of Cape Town, Cape Town, South Africa
Tomas Lovato
Euro-Mediterranean Centre on Climate Change Foundation, via Augusto Imperatore 16, 73100 Lecce, Italy
Simona Masina
Euro-Mediterranean Centre on Climate Change Foundation, via Augusto Imperatore 16, 73100 Lecce, Italy
Giovanni Aloisio
Department of Innovation Engineering, University of Salento, via per Monteroni, 73100 Lecce, Italy
Euro-Mediterranean Centre on Climate Change Foundation, via Augusto Imperatore 16, 73100 Lecce, Italy
Related authors
Giorgio Micaletto, Ivano Barletta, Silvia Mocavero, Ivan Federico, Italo Epicoco, Giorgia Verri, Giovanni Coppini, Pasquale Schiano, Giovanni Aloisio, and Nadia Pinardi
Geosci. Model Dev., 15, 6025–6046, https://doi.org/10.5194/gmd-15-6025-2022, https://doi.org/10.5194/gmd-15-6025-2022, 2022
Short summary
Short summary
The full exploitation of supercomputing architectures requires a deep revision of the current climate models. This paper presents the parallelization of the three-dimensional hydrodynamic model SHYFEM (System of HydrodYnamic Finite Element Modules). Optimized numerical libraries were used to partition the model domain and solve the sparse linear system of equations in parallel. The performance assessment demonstrates a good level of scalability with a realistic configuration used as a benchmark.
Ronan McAdam, Giulia Bonino, Emanuela Clementi, and Simona Masina
State Planet, 4-osr8, 13, https://doi.org/10.5194/sp-4-osr8-13-2024, https://doi.org/10.5194/sp-4-osr8-13-2024, 2024
Short summary
Short summary
In the summer of 2022, a regional short-term forecasting system was able to predict the onset, spread, peaks, and decay of a record-breaking marine heatwave in the Mediterranean Sea up to 10 d in advance. Satellite data show that the event was record-breaking in terms of basin-wide intensity and duration. This study demonstrates the potential of state-of-the-art forecasting systems to provide early warning of marine heatwaves for marine activities (e.g. conservation and aquaculture).
Dimitra Denaxa, Gerasimos Korres, Giulia Bonino, Simona Masina, and Maria Hatzaki
State Planet, 4-osr8, 11, https://doi.org/10.5194/sp-4-osr8-11-2024, https://doi.org/10.5194/sp-4-osr8-11-2024, 2024
Short summary
Short summary
We investigate the air–sea heat flux during marine heatwaves (MHWs) in the Mediterranean Sea. Surface heat flux drives 44 % of the onset and only 17 % of the declining MHW phases, suggesting a key role of oceanic processes. Heat flux is more important in warmer months and onset phases, with latent heat dominating. Shorter events show a weaker heat flux contribution. In most cases, mixed layer shoaling occurs over the entire MHW duration, followed by vertical mixing after the MHW end day.
Karina von Schuckmann, Lorena Moreira, Mathilde Cancet, Flora Gues, Emmanuelle Autret, Jonathan Baker, Clément Bricaud, Romain Bourdalle-Badie, Lluis Castrillo, Lijing Cheng, Frederic Chevallier, Daniele Ciani, Alvaro de Pascual-Collar, Vincenzo De Toma, Marie Drevillon, Claudia Fanelli, Gilles Garric, Marion Gehlen, Rianne Giesen, Kevin Hodges, Doroteaciro Iovino, Simon Jandt-Scheelke, Eric Jansen, Melanie Juza, Ioanna Karagali, Thomas Lavergne, Simona Masina, Ronan McAdam, Audrey Minière, Helen Morrison, Tabea Rebekka Panteleit, Andrea Pisano, Marie-Isabelle Pujol, Ad Stoffelen, Sulian Thual, Simon Van Gennip, Pierre Veillard, Chunxue Yang, and Hao Zuo
State Planet, 4-osr8, 1, https://doi.org/10.5194/sp-4-osr8-1-2024, https://doi.org/10.5194/sp-4-osr8-1-2024, 2024
Karina von Schuckmann, Lorena Moreira, Mathilde Cancet, Flora Gues, Emmanuelle Autret, Ali Aydogdu, Lluis Castrillo, Daniele Ciani, Andrea Cipollone, Emanuela Clementi, Gianpiero Cossarini, Alvaro de Pascual-Collar, Vincenzo De Toma, Marion Gehlen, Rianne Giesen, Marie Drevillon, Claudia Fanelli, Kevin Hodges, Simon Jandt-Scheelke, Eric Jansen, Melanie Juza, Ioanna Karagali, Priidik Lagemaa, Vidar Lien, Leonardo Lima, Vladyslav Lyubartsev, Ilja Maljutenko, Simona Masina, Ronan McAdam, Pietro Miraglio, Helen Morrison, Tabea Rebekka Panteleit, Andrea Pisano, Marie-Isabelle Pujol, Urmas Raudsepp, Roshin Raj, Ad Stoffelen, Simon Van Gennip, Pierre Veillard, and Chunxue Yang
State Planet, 4-osr8, 2, https://doi.org/10.5194/sp-4-osr8-2-2024, https://doi.org/10.5194/sp-4-osr8-2-2024, 2024
Martin Juckes, Karl E. Taylor, Fabrizio Antonio, David Brayshaw, Carlo Buontempo, Jian Cao, Paul J. Durack, Michio Kawamiya, Hyungjun Kim, Tomas Lovato, Chloe Mackallah, Matthew Mizielinski, Alessandra Nuzzo, Martina Stockhause, Daniele Visioni, Jeremy Walton, Briony Turner, Eleanor O’Rourke, and Beth Dingley
EGUsphere, https://doi.org/10.5194/egusphere-2024-2363, https://doi.org/10.5194/egusphere-2024-2363, 2024
Short summary
Short summary
The Baseline Climate Variables for Earth System Modelling (ESM-BCVs) are defined as a list of 132 variables which have high utility for the evaluation and exploitation of climate simulations. The list reflects the most heavily used variables from Earth System Models, based on an assessment of data publication and download records from the largest archive of global climate projects.
Elena Bianco, Doroteaciro Iovino, Simona Masina, Stefano Materia, and Paolo Ruggieri
The Cryosphere, 18, 2357–2379, https://doi.org/10.5194/tc-18-2357-2024, https://doi.org/10.5194/tc-18-2357-2024, 2024
Short summary
Short summary
Changes in ocean heat transport and surface heat fluxes in recent decades have altered the Arctic Ocean heat budget and caused warming of the upper ocean. Using two eddy-permitting ocean reanalyses, we show that this has important implications for sea ice variability. In the Arctic regional seas, upper-ocean heat content acts as an important precursor for sea ice anomalies on sub-seasonal timescales, and this link has strengthened since the 2000s.
Giulia Bonino, Giuliano Galimberti, Simona Masina, Ronan McAdam, and Emanuela Clementi
Ocean Sci., 20, 417–432, https://doi.org/10.5194/os-20-417-2024, https://doi.org/10.5194/os-20-417-2024, 2024
Short summary
Short summary
This study employs machine learning to predict marine heatwaves (MHWs) in the Mediterranean Sea. MHWs have far-reaching impacts on society and ecosystems. Using data from ESA and ECMWF, the research develops accurate prediction models for sea surface temperature (SST) and MHWs across the region. Notably, machine learning methods outperform existing forecasting systems, showing promise in early MHW predictions. The study also highlights the importance of solar radiation as a predictor of SST.
Ashleigh Womack, Alberto Alberello, Marc de Vos, Alessandro Toffoli, Robyn Verrinder, and Marcello Vichi
The Cryosphere, 18, 205–229, https://doi.org/10.5194/tc-18-205-2024, https://doi.org/10.5194/tc-18-205-2024, 2024
Short summary
Short summary
Synoptic events have a significant influence on the evolution of Antarctic sea ice. Our current understanding of the interactions between cyclones and sea ice remains limited. Using two ensembles of buoys, deployed in the north-eastern Weddell Sea region during winter and spring of 2019, we show how the evolution and spatial pattern of sea ice drift and deformation in the Antarctic marginal ice zone were affected by the balance between atmospheric and oceanic forcing and the local ice.
Doroteaciro Iovino, Pier Giuseppe Fogli, and Simona Masina
Geosci. Model Dev., 16, 6127–6159, https://doi.org/10.5194/gmd-16-6127-2023, https://doi.org/10.5194/gmd-16-6127-2023, 2023
Short summary
Short summary
This paper describes the model performance of three global ocean–sea ice configurations, from non-eddying (1°) to eddy-rich (1/16°) resolutions. Model simulations are obtained following the Ocean Model Intercomparison Project phase 2 (OMIP2) protocol. We compare key global climate variables across the three models and against observations, emphasizing the relative advantages and disadvantages of running forced ocean–sea ice models at higher resolution.
Giovanni Coppini, Emanuela Clementi, Gianpiero Cossarini, Stefano Salon, Gerasimos Korres, Michalis Ravdas, Rita Lecci, Jenny Pistoia, Anna Chiara Goglio, Massimiliano Drudi, Alessandro Grandi, Ali Aydogdu, Romain Escudier, Andrea Cipollone, Vladyslav Lyubartsev, Antonio Mariani, Sergio Cretì, Francesco Palermo, Matteo Scuro, Simona Masina, Nadia Pinardi, Antonio Navarra, Damiano Delrosso, Anna Teruzzi, Valeria Di Biagio, Giorgio Bolzon, Laura Feudale, Gianluca Coidessa, Carolina Amadio, Alberto Brosich, Arnau Miró, Eva Alvarez, Paolo Lazzari, Cosimo Solidoro, Charikleia Oikonomou, and Anna Zacharioudaki
Ocean Sci., 19, 1483–1516, https://doi.org/10.5194/os-19-1483-2023, https://doi.org/10.5194/os-19-1483-2023, 2023
Short summary
Short summary
The paper presents the Mediterranean Forecasting System evolution and performance developed in the framework of the Copernicus Marine Service.
Ali Aydogdu, Pietro Miraglio, Romain Escudier, Emanuela Clementi, and Simona Masina
State Planet, 1-osr7, 6, https://doi.org/10.5194/sp-1-osr7-6-2023, https://doi.org/10.5194/sp-1-osr7-6-2023, 2023
Short summary
Short summary
This paper investigates the salt content, salinity anomaly and trend in the Mediterranean Sea using observational and reanalysis products. The salt content increases overall, while negative salinity anomalies appear in the western basin, especially around the upwelling regions. There is a large spread in the salinity estimates that is reduced with the emergence of the Argo profilers.
Andrea Cipollone, Deep Sankar Banerjee, Doroteaciro Iovino, Ali Aydogdu, and Simona Masina
Ocean Sci., 19, 1375–1392, https://doi.org/10.5194/os-19-1375-2023, https://doi.org/10.5194/os-19-1375-2023, 2023
Short summary
Short summary
Sea-ice volume is characterized by low predictability compared to the sea ice area or the extent. A joint initialization of the thickness and concentration using satellite data could improve the predictive power, although it is still absent in the present global analysis–reanalysis systems. This study shows a scheme to correct the two features together that can be easily extended to include ocean variables. The impact of such a joint initialization is shown and compared among different set-ups.
Alban Planchat, Lester Kwiatkowski, Laurent Bopp, Olivier Torres, James R. Christian, Momme Butenschön, Tomas Lovato, Roland Séférian, Matthew A. Chamberlain, Olivier Aumont, Michio Watanabe, Akitomo Yamamoto, Andrew Yool, Tatiana Ilyina, Hiroyuki Tsujino, Kristen M. Krumhardt, Jörg Schwinger, Jerry Tjiputra, John P. Dunne, and Charles Stock
Biogeosciences, 20, 1195–1257, https://doi.org/10.5194/bg-20-1195-2023, https://doi.org/10.5194/bg-20-1195-2023, 2023
Short summary
Short summary
Ocean alkalinity is critical to the uptake of atmospheric carbon and acidification in surface waters. We review the representation of alkalinity and the associated calcium carbonate cycle in Earth system models. While many parameterizations remain present in the latest generation of models, there is a general improvement in the simulated alkalinity distribution. This improvement is related to an increase in the export of biotic calcium carbonate, which closer resembles observations.
Giulia Bonino, Simona Masina, Giuliano Galimberti, and Matteo Moretti
Earth Syst. Sci. Data, 15, 1269–1285, https://doi.org/10.5194/essd-15-1269-2023, https://doi.org/10.5194/essd-15-1269-2023, 2023
Short summary
Short summary
We present a unique observational dataset of marine heat wave (MHW) macroevents and their characteristics over southern Europe and western Asian (SEWA) basins in the SEWA-MHW dataset. This dataset is the first effort in the literature to archive extremely hot sea surface temperature macroevents. The advantages of the availability of SEWA-MHWs are avoiding the waste of computational resources to detect MHWs and building a consistent framework which would increase comparability among MHW studies.
Marcello Vichi
The Cryosphere, 16, 4087–4106, https://doi.org/10.5194/tc-16-4087-2022, https://doi.org/10.5194/tc-16-4087-2022, 2022
Short summary
Short summary
The marginal ice zone (MIZ) in the Antarctic is the largest in the world ocean. Antarctic sea ice has large year-to-year changes, and the MIZ represents its most variable component. Processes typical of the MIZ have also been observed in fully ice-covered ocean and are not captured by existing diagnostics. A new statistical method has been shown to address previous limitations in assessing the seasonal cycle of MIZ extent and to provide a probability map of sea ice state in the Southern Ocean.
Giulia Bonino, Doroteaciro Iovino, Laurent Brodeau, and Simona Masina
Geosci. Model Dev., 15, 6873–6889, https://doi.org/10.5194/gmd-15-6873-2022, https://doi.org/10.5194/gmd-15-6873-2022, 2022
Short summary
Short summary
The sea surface temperature (SST) is highly influenced by the transfer of energy driven by turbulent air–sea fluxes (TASFs). In the NEMO ocean general circulation model, TASFs are computed by means of bulk formulas. Bulk formulas require the choice of a given bulk parameterization, which influences the magnitudes of the TASFs. Our results show that parameterization-related SST differences are primarily sensitive to the wind stress differences across parameterizations.
Laique M. Djeutchouang, Nicolette Chang, Luke Gregor, Marcello Vichi, and Pedro M. S. Monteiro
Biogeosciences, 19, 4171–4195, https://doi.org/10.5194/bg-19-4171-2022, https://doi.org/10.5194/bg-19-4171-2022, 2022
Short summary
Short summary
Based on observing system simulation experiments using a mesoscale-resolving model, we found that to significantly improve uncertainties and biases in carbon dioxide (CO2) mapping in the Southern Ocean, it is essential to resolve the seasonal cycle (SC) of the meridional gradient of CO2 through high frequency (at least daily) observations that also span the region's meridional axis. We also showed that the estimated SC anomaly and mean annual CO2 are highly sensitive to seasonal sampling biases.
Marco Reale, Gianpiero Cossarini, Paolo Lazzari, Tomas Lovato, Giorgio Bolzon, Simona Masina, Cosimo Solidoro, and Stefano Salon
Biogeosciences, 19, 4035–4065, https://doi.org/10.5194/bg-19-4035-2022, https://doi.org/10.5194/bg-19-4035-2022, 2022
Short summary
Short summary
Future projections under the RCP8.5 and RCP4.5 emission scenarios of the Mediterranean Sea biogeochemistry at the end of the 21st century show different levels of decline in nutrients, oxygen and biomasses and an acidification of the water column. The signal intensity is stronger under RCP8.5 and in the eastern Mediterranean. Under RCP4.5, after the second half of the 21st century, biogeochemical variables show a recovery of the values observed at the beginning of the investigated period.
Giorgio Micaletto, Ivano Barletta, Silvia Mocavero, Ivan Federico, Italo Epicoco, Giorgia Verri, Giovanni Coppini, Pasquale Schiano, Giovanni Aloisio, and Nadia Pinardi
Geosci. Model Dev., 15, 6025–6046, https://doi.org/10.5194/gmd-15-6025-2022, https://doi.org/10.5194/gmd-15-6025-2022, 2022
Short summary
Short summary
The full exploitation of supercomputing architectures requires a deep revision of the current climate models. This paper presents the parallelization of the three-dimensional hydrodynamic model SHYFEM (System of HydrodYnamic Finite Element Modules). Optimized numerical libraries were used to partition the model domain and solve the sparse linear system of equations in parallel. The performance assessment demonstrates a good level of scalability with a realistic configuration used as a benchmark.
Sebastian Skatulla, Riesna R. Audh, Andrea Cook, Ehlke Hepworth, Siobhan Johnson, Doru C. Lupascu, Keith MacHutchon, Rutger Marquart, Tommy Mielke, Emmanuel Omatuku, Felix Paul, Tokoloho Rampai, Jörg Schröder, Carina Schwarz, and Marcello Vichi
The Cryosphere, 16, 2899–2925, https://doi.org/10.5194/tc-16-2899-2022, https://doi.org/10.5194/tc-16-2899-2022, 2022
Short summary
Short summary
First-year sea ice has been sampled at the advancing outer edge of the Antarctic marginal ice zone (MIZ) along the Good Hope Line. Ice cores were extracted from five pancake ice floes and subsequently analysed for their physical and mechanical properties. Of particular interest was elucidating the transition of ice composition within the MIZ in terms of differences in mechanical stiffness and strength properties as linked to physical and textural characteristics at early-stage ice formation.
Wayne de Jager and Marcello Vichi
The Cryosphere, 16, 925–940, https://doi.org/10.5194/tc-16-925-2022, https://doi.org/10.5194/tc-16-925-2022, 2022
Short summary
Short summary
Ice motion can be used to better understand how weather and climate change affect the ice. Antarctic sea ice extent has shown large variability over the observed period, and dynamical features may also have changed. Our method allows for the quantification of rotational motion caused by wind and how this may have changed with time. Cyclonic motion dominates the Atlantic sector, particularly from 2015 onwards, while anticyclonic motion has remained comparatively small and unchanged.
Enrico Scoccimarro, Daniele Peano, Silvio Gualdi, Alessio Bellucci, Tomas Lovato, Pier Giuseppe Fogli, and Antonio Navarra
Geosci. Model Dev., 15, 1841–1854, https://doi.org/10.5194/gmd-15-1841-2022, https://doi.org/10.5194/gmd-15-1841-2022, 2022
Short summary
Short summary
This study evaluated the ability of the CMCC-CM2 climate model participating to the last CMIP6 effort, in representing extreme events of precipitation and temperature at the daily and 6-hourly frequencies. The 1/4° resolution version of the atmospheric model provides better results than the version at 1° resolution for temperature extremes, at both time frequencies. For precipitation extremes, especially at the daily time frequency, the higher resolution does not improve model results.
Giulia Bonino, Elisa Lovecchio, Nicolas Gruber, Matthias Münnich, Simona Masina, and Doroteaciro Iovino
Biogeosciences, 18, 2429–2448, https://doi.org/10.5194/bg-18-2429-2021, https://doi.org/10.5194/bg-18-2429-2021, 2021
Short summary
Short summary
Seasonal variations of processes such as upwelling and biological production that happen along the northwestern African coast can modulate the temporal variability of the biological activity of the adjacent open North Atlantic hundreds of kilometers away from the coast thanks to the lateral transport of coastal organic carbon. This happens with a temporal delay, which is smaller than a season up to roughly 500 km from the coast due to the intense transport by small-scale filaments.
Felix Paul, Tommy Mielke, Carina Nisters, Jörg Schröder, Tokoloho Rampai, Sebastian Skatulla, Riesna Audh, Ehlke Hepworth, Marcello Vichi, and Doru C. Lupascu
The Cryosphere Discuss., https://doi.org/10.5194/tc-2020-362, https://doi.org/10.5194/tc-2020-362, 2021
Preprint withdrawn
Short summary
Short summary
Frazil ice, consisting of loose disc-shaped ice crystals, is the very first sea ice that forms in the annual cycle in the marginal ice zone (MIZ) of the Antarctic. A sufficient number of frazil ice crystals forms the surface grease ice layer taking a fundamental role in the freezing processes in the MIZ. As soon as the ocean waves are damped, a closed ice cover can form. The viscous properties of frazil ice, which have a crucial influence on the growth of sea ice in the MIZ are investigated.
Mark Hague and Marcello Vichi
Biogeosciences, 18, 25–38, https://doi.org/10.5194/bg-18-25-2021, https://doi.org/10.5194/bg-18-25-2021, 2021
Short summary
Short summary
This paper examines the question of what causes the rapid spring growth of microscopic marine algae (phytoplankton) in the ice-covered ocean surrounding Antarctica. One prominent hypothesis proposes that the melting of sea ice is the primary cause, while our results suggest that this is only part of the explanation. In particular, we show that phytoplankton are able to start growing before the sea ice melts appreciably, much earlier than previously thought.
Hiroyuki Tsujino, L. Shogo Urakawa, Stephen M. Griffies, Gokhan Danabasoglu, Alistair J. Adcroft, Arthur E. Amaral, Thomas Arsouze, Mats Bentsen, Raffaele Bernardello, Claus W. Böning, Alexandra Bozec, Eric P. Chassignet, Sergey Danilov, Raphael Dussin, Eleftheria Exarchou, Pier Giuseppe Fogli, Baylor Fox-Kemper, Chuncheng Guo, Mehmet Ilicak, Doroteaciro Iovino, Who M. Kim, Nikolay Koldunov, Vladimir Lapin, Yiwen Li, Pengfei Lin, Keith Lindsay, Hailong Liu, Matthew C. Long, Yoshiki Komuro, Simon J. Marsland, Simona Masina, Aleksi Nummelin, Jan Klaus Rieck, Yohan Ruprich-Robert, Markus Scheinert, Valentina Sicardi, Dmitry Sidorenko, Tatsuo Suzuki, Hiroaki Tatebe, Qiang Wang, Stephen G. Yeager, and Zipeng Yu
Geosci. Model Dev., 13, 3643–3708, https://doi.org/10.5194/gmd-13-3643-2020, https://doi.org/10.5194/gmd-13-3643-2020, 2020
Short summary
Short summary
The OMIP-2 framework for global ocean–sea-ice model simulations is assessed by comparing multi-model means from 11 CMIP6-class global ocean–sea-ice models calculated separately for the OMIP-1 and OMIP-2 simulations. Many features are very similar between OMIP-1 and OMIP-2 simulations, and yet key improvements in transitioning from OMIP-1 to OMIP-2 are also identified. Thus, the present assessment justifies that future ocean–sea-ice model development and analysis studies use the OMIP-2 framework.
Veronika Eyring, Lisa Bock, Axel Lauer, Mattia Righi, Manuel Schlund, Bouwe Andela, Enrico Arnone, Omar Bellprat, Björn Brötz, Louis-Philippe Caron, Nuno Carvalhais, Irene Cionni, Nicola Cortesi, Bas Crezee, Edouard L. Davin, Paolo Davini, Kevin Debeire, Lee de Mora, Clara Deser, David Docquier, Paul Earnshaw, Carsten Ehbrecht, Bettina K. Gier, Nube Gonzalez-Reviriego, Paul Goodman, Stefan Hagemann, Steven Hardiman, Birgit Hassler, Alasdair Hunter, Christopher Kadow, Stephan Kindermann, Sujan Koirala, Nikolay Koldunov, Quentin Lejeune, Valerio Lembo, Tomas Lovato, Valerio Lucarini, François Massonnet, Benjamin Müller, Amarjiit Pandde, Núria Pérez-Zanón, Adam Phillips, Valeriu Predoi, Joellen Russell, Alistair Sellar, Federico Serva, Tobias Stacke, Ranjini Swaminathan, Verónica Torralba, Javier Vegas-Regidor, Jost von Hardenberg, Katja Weigel, and Klaus Zimmermann
Geosci. Model Dev., 13, 3383–3438, https://doi.org/10.5194/gmd-13-3383-2020, https://doi.org/10.5194/gmd-13-3383-2020, 2020
Short summary
Short summary
The Earth System Model Evaluation Tool (ESMValTool) is a community diagnostics and performance metrics tool designed to improve comprehensive and routine evaluation of earth system models (ESMs) participating in the Coupled Model Intercomparison Project (CMIP). It has undergone rapid development since the first release in 2016 and is now a well-tested tool that provides end-to-end provenance tracking to ensure reproducibility.
Alberto Alberello, Miguel Onorato, Luke Bennetts, Marcello Vichi, Clare Eayrs, Keith MacHutchon, and Alessandro Toffoli
The Cryosphere, 13, 41–48, https://doi.org/10.5194/tc-13-41-2019, https://doi.org/10.5194/tc-13-41-2019, 2019
Short summary
Short summary
Existing observations do not provide quantitative descriptions of the floe size distribution for pancake ice floes. This is important during the Antarctic winter sea ice expansion, when hundreds of kilometres of ice cover around the Antarctic continent are composed of pancake floes (D = 0.3–3 m). Here, a new set of images from the Antarctic marginal ice zone is used to measure the shape of individual pancakes for the first time and to infer their size distribution.
N. Precious Mongwe, Marcello Vichi, and Pedro M. S. Monteiro
Biogeosciences, 15, 2851–2872, https://doi.org/10.5194/bg-15-2851-2018, https://doi.org/10.5194/bg-15-2851-2018, 2018
Short summary
Short summary
Here we analyze seasonal cycle of CO2 biases in 10 CMIP5 models in the SO. We find two main model biases; exaggeration of primary production such that biologically driven DIC changes mainly regulates FCO2 variability, and an overestimation of the role of solubility, such that changes in temperature dominantly drive FCO2 seasonal changes to an extent of opposing biological CO2 uptake in spring. CMIP5 models show greater zonal homogeneity in the seasonal cycle of FCO2 than observational products.
Verena Haid, Doroteaciro Iovino, and Simona Masina
The Cryosphere, 11, 1387–1402, https://doi.org/10.5194/tc-11-1387-2017, https://doi.org/10.5194/tc-11-1387-2017, 2017
Short summary
Short summary
Since the Antarctic sea ice extent shows a recent increase, we investigate the sea ice response to changed amount and distribution of surface freshwater addition in the Southern Ocean with the ocean–sea ice model NEMO/LIM2. We find that freshwater addition within the range of current estimates increases the ice extent, but higher amounts could have an opposing effect. The freshwater distribution is of great influence on the ice dynamics and the ice thickness is strongly influenced by it.
Alessandro D'Anca, Laura Conte, Paola Nassisi, Cosimo Palazzo, Rita Lecci, Sergio Cretì, Marco Mancini, Alessandra Nuzzo, Maria Mirto, Gianandrea Mannarini, Giovanni Coppini, Sandro Fiore, and Giovanni Aloisio
Nat. Hazards Earth Syst. Sci., 17, 171–184, https://doi.org/10.5194/nhess-17-171-2017, https://doi.org/10.5194/nhess-17-171-2017, 2017
Short summary
Short summary
Updated situational sea awareness requires an advanced technological system to make data available for decision makers, improving the capacity of intervention and supporting users in managing emergency situations due to natural hazards. The TESSA data platform meets the request of near-real-time access to heterogeneous data with different accuracy, resolution or degrees of aggregation providing efficient and secure data access and strong support to operational oceanographic high-level services.
Venkatramani Balaji, Eric Maisonnave, Niki Zadeh, Bryan N. Lawrence, Joachim Biercamp, Uwe Fladrich, Giovanni Aloisio, Rusty Benson, Arnaud Caubel, Jeffrey Durachta, Marie-Alice Foujols, Grenville Lister, Silvia Mocavero, Seth Underwood, and Garrett Wright
Geosci. Model Dev., 10, 19–34, https://doi.org/10.5194/gmd-10-19-2017, https://doi.org/10.5194/gmd-10-19-2017, 2017
Short summary
Short summary
Climate models are among the most computationally expensive scientific applications in the world. We present a set of measures of computational performance that can be used to compare models that are independent of underlying hardware and the model formulation. They are easy to collect and reflect performance actually achieved in practice. We are preparing a systematic effort to collect these metrics for the world's climate models during CMIP6, the next Climate Model Intercomparison Project.
Stephen M. Griffies, Gokhan Danabasoglu, Paul J. Durack, Alistair J. Adcroft, V. Balaji, Claus W. Böning, Eric P. Chassignet, Enrique Curchitser, Julie Deshayes, Helge Drange, Baylor Fox-Kemper, Peter J. Gleckler, Jonathan M. Gregory, Helmuth Haak, Robert W. Hallberg, Patrick Heimbach, Helene T. Hewitt, David M. Holland, Tatiana Ilyina, Johann H. Jungclaus, Yoshiki Komuro, John P. Krasting, William G. Large, Simon J. Marsland, Simona Masina, Trevor J. McDougall, A. J. George Nurser, James C. Orr, Anna Pirani, Fangli Qiao, Ronald J. Stouffer, Karl E. Taylor, Anne Marie Treguier, Hiroyuki Tsujino, Petteri Uotila, Maria Valdivieso, Qiang Wang, Michael Winton, and Stephen G. Yeager
Geosci. Model Dev., 9, 3231–3296, https://doi.org/10.5194/gmd-9-3231-2016, https://doi.org/10.5194/gmd-9-3231-2016, 2016
Short summary
Short summary
The Ocean Model Intercomparison Project (OMIP) aims to provide a framework for evaluating, understanding, and improving the ocean and sea-ice components of global climate and earth system models contributing to the Coupled Model Intercomparison Project Phase 6 (CMIP6). This document defines OMIP and details a protocol both for simulating global ocean/sea-ice models and for analysing their output.
C. Laufkötter, M. Vogt, N. Gruber, M. Aita-Noguchi, O. Aumont, L. Bopp, E. Buitenhuis, S. C. Doney, J. Dunne, T. Hashioka, J. Hauck, T. Hirata, J. John, C. Le Quéré, I. D. Lima, H. Nakano, R. Seferian, I. Totterdell, M. Vichi, and C. Völker
Biogeosciences, 12, 6955–6984, https://doi.org/10.5194/bg-12-6955-2015, https://doi.org/10.5194/bg-12-6955-2015, 2015
Short summary
Short summary
We analyze changes in marine net primary production (NPP) and its drivers for the 21st century in 9 marine ecosystem models under the RCP8.5 scenario. NPP decreases in 5 models and increases in 1 model; 3 models show no significant trend. The main drivers include stronger nutrient limitation, but in many models warming-induced increases in phytoplankton growth outbalance the nutrient effect. Temperature-driven increases in grazing and other loss processes cause a net decrease in biomass and NPP.
L. Visinelli, S. Masina, M. Vichi, and A. Storto
Biogeosciences Discuss., https://doi.org/10.5194/bgd-11-5399-2014, https://doi.org/10.5194/bgd-11-5399-2014, 2014
Revised manuscript not accepted
L. Bopp, L. Resplandy, J. C. Orr, S. C. Doney, J. P. Dunne, M. Gehlen, P. Halloran, C. Heinze, T. Ilyina, R. Séférian, J. Tjiputra, and M. Vichi
Biogeosciences, 10, 6225–6245, https://doi.org/10.5194/bg-10-6225-2013, https://doi.org/10.5194/bg-10-6225-2013, 2013
Related subject area
Biogeosciences
Including the phosphorus cycle into the LPJ-GUESS dynamic global vegetation model (v4.1, r10994) – global patterns and temporal trends of N and P primary production limitation
A comprehensive land-surface vegetation model for multi-stream data assimilation, D&B v1.0
Sources of uncertainty in the SPITFIRE global fire model: development of LPJmL-SPITFIRE1.9 and directions for future improvements
The unicellular NUM v.0.91: a trait-based plankton model evaluated in two contrasting biogeographic provinces
FESOM2.1-REcoM3-MEDUSA2: an ocean–sea ice–biogeochemistry model coupled to a sediment model
Satellite-based modeling of wetland methane emissions on a global scale (SatWetCH4 1.0)
Systematic underestimation of type-specific ecosystem process variability in the Community Land Model v5 over Europe
Soil nitrous oxide emissions from global land ecosystems and their drivers within the LPJ-GUESS model (v4.1)
Lambda-PFLOTRAN 1.0: a workflow for incorporating organic matter chemistry informed by ultra high resolution mass spectrometry into biogeochemical modeling
An improved model for air–sea exchange of elemental mercury in MITgcm-ECCOv4-Hg: the role of surfactants and waves
BOATSv2: new ecological and economic features improve simulations of high seas catch and effort
A dynamical process-based model for quantifying global agricultural ammonia emissions – AMmonia–CLIMate v1.0 (AMCLIM v1.0) – Part 1: Land module for simulating emissions from synthetic fertilizer use
Simulating Ips typographus L. outbreak dynamics and their influence on carbon balance estimates with ORCHIDEE r8627
Biological nitrogen fixation of natural and agricultural vegetation simulated with LPJmL 5.7.9
Learning from conceptual models – a study of the emergence of cooperation towards resource protection in a social–ecological system
The biogeochemical model Biome-BGCMuSo v6.2 provides plausible and accurate simulations of the carbon cycle in central European beech forests
Parameterisation toolbox for physical-biogeochemical model compatible with FABM. Case study: the coupled 1D GOTM-ECOSMO E2E for the Sylt-Romo Bight, North Sea
China Wildfire Emission (ChinaWED v1) for the period 2012–2022
Estimation of above- and below-ground ecosystem parameters for the DVM-DOS-TEM v0.7.0 model using MADS v1.7.3: a synthetic case study
H2MV (v1.0): Global Physically-Constrained Deep Learning Water Cycle Model with Vegetation
DeepPhenoMem V1.0: deep learning modelling of canopy greenness dynamics accounting for multi-variate meteorological memory effects on vegetation phenology
Impacts of land-use change on biospheric carbon: an oriented benchmark using the ORCHIDEE land surface model
Implementing the iCORAL (version 1.0) coral reef CaCO3 production module in the iLOVECLIM climate model
Assimilation of carbonyl sulfide (COS) fluxes within the adjoint-based data assimilation system – Nanjing University Carbon Assimilation System (NUCAS v1.0)
ML4Fire-XGBv1.0: Improving North American wildfire prediction by integrating a machine-learning fire model in a land surface model
Alquimia v1.0: A generic interface to biogeochemical codes – A tool for interoperable development, prototyping and benchmarking for multiphysics simulators
Quantifying the role of ozone-caused damage to vegetation in the Earth system: a new parameterization scheme for photosynthetic and stomatal responses
Radiocarbon analysis reveals underestimation of soil organic carbon persistence in new-generation soil models
Exploring the potential of history matching for land surface model calibration
EAT v1.0.0: a 1D test bed for physical–biogeochemical data assimilation in natural waters
Using deep learning to integrate paleoclimate and global biogeochemistry over the Phanerozoic Eon
Modelling boreal forest's mineral soil and peat C dynamics with the Yasso07 model coupled with the Ricker moisture modifier
Process-based Modeling of Solar-induced Chlorophyll Fluorescence with VISIT-SIF version 1.0
Dynamic ecosystem assembly and escaping the “fire trap” in the tropics: insights from FATES_15.0.0
NN-TOC v1: global prediction of total organic carbon in marine sediments using deep neural networks
In silico calculation of soil pH by SCEPTER v1.0
Simple process-led algorithms for simulating habitats (SPLASH v.2.0): robust calculations of water and energy fluxes
A global behavioural model of human fire use and management: WHAM! v1.0
Terrestrial Ecosystem Model in R (TEMIR) version 1.0: simulating ecophysiological responses of vegetation to atmospheric chemical and meteorological changes
biospheremetrics v1.0.2: an R package to calculate two complementary terrestrial biosphere integrity indicators – human colonization of the biosphere (BioCol) and risk of ecosystem destabilization (EcoRisk)
Modeling boreal forest soil dynamics with the microbially explicit soil model MIMICS+ (v1.0)
Optimal enzyme allocation leads to the constrained enzyme hypothesis: the Soil Enzyme Steady Allocation Model (SESAM; v3.1)
Implementing a dynamic representation of fire and harvest including subgrid-scale heterogeneity in the tile-based land surface model CLASSIC v1.45
Inferring the tree regeneration niche from inventory data using a dynamic forest model
Optimising CH4 simulations from the LPJ-GUESS model v4.1 using an adaptive Markov chain Monte Carlo algorithm
The XSO framework (v0.1) and Phydra library (v0.1) for a flexible, reproducible, and integrated plankton community modeling environment in Python
AgriCarbon-EO v1.0.1: large-scale and high-resolution simulation of carbon fluxes by assimilation of Sentinel-2 and Landsat-8 reflectances using a Bayesian approach
SAMM version 1.0: a numerical model for microbial- mediated soil aggregate formation
A model of the within-population variability of budburst in forest trees
Computationally efficient parameter estimation for high-dimensional ocean biogeochemical models
Mateus Dantas de Paula, Matthew Forrest, David Warlind, João Paulo Darela Filho, Katrin Fleischer, Anja Rammig, and Thomas Hickler
Geosci. Model Dev., 18, 2249–2274, https://doi.org/10.5194/gmd-18-2249-2025, https://doi.org/10.5194/gmd-18-2249-2025, 2025
Short summary
Short summary
Our study maps global nitrogen (N) and phosphorus (P) availability and how they changed from 1901 to 2018. We find that tropical regions are mostly P-limited, while temperate and boreal areas face N limitations. Over time, P limitation increased, especially in the tropics, while N limitation decreased. These shifts are key to understanding global plant growth and carbon storage, highlighting the importance of including P dynamics in ecosystem models.
Wolfgang Knorr, Matthew Williams, Tea Thum, Thomas Kaminski, Michael Voßbeck, Marko Scholze, Tristan Quaife, T. Luke Smallman, Susan C. Steele-Dunne, Mariette Vreugdenhil, Tim Green, Sönke Zaehle, Mika Aurela, Alexandre Bouvet, Emanuel Bueechi, Wouter Dorigo, Tarek S. El-Madany, Mirco Migliavacca, Marika Honkanen, Yann H. Kerr, Anna Kontu, Juha Lemmetyinen, Hannakaisa Lindqvist, Arnaud Mialon, Tuuli Miinalainen, Gaétan Pique, Amanda Ojasalo, Shaun Quegan, Peter J. Rayner, Pablo Reyes-Muñoz, Nemesio Rodríguez-Fernández, Mike Schwank, Jochem Verrelst, Songyan Zhu, Dirk Schüttemeyer, and Matthias Drusch
Geosci. Model Dev., 18, 2137–2159, https://doi.org/10.5194/gmd-18-2137-2025, https://doi.org/10.5194/gmd-18-2137-2025, 2025
Short summary
Short summary
When it comes to climate change, the land surface is where the vast majority of impacts happen. The task of monitoring those impacts across the globe is formidable and must necessarily rely on satellites – at a significant cost: the measurements are only indirect and require comprehensive physical understanding. We have created a comprehensive modelling system that we offer to the research community to explore how satellite data can be better exploited to help us capture the changes that happen on our lands.
Luke Oberhagemann, Maik Billing, Werner von Bloh, Markus Drüke, Matthew Forrest, Simon P. K. Bowring, Jessica Hetzer, Jaime Ribalaygua Batalla, and Kirsten Thonicke
Geosci. Model Dev., 18, 2021–2050, https://doi.org/10.5194/gmd-18-2021-2025, https://doi.org/10.5194/gmd-18-2021-2025, 2025
Short summary
Short summary
Under climate change, the conditions necessary for wildfires to form are occurring more frequently in many parts of the world. To help predict how wildfires will change in future, global fire models are being developed. We analyze and further develop one such model, SPITFIRE. Our work identifies and corrects sources of substantial bias in the model that are important to the global fire modelling field. With this analysis and these developments, we help to provide a basis for future improvements.
Trine Frisbæk Hansen, Donald Eugene Canfield, Ken Haste Andersen, and Christian Jannik Bjerrum
Geosci. Model Dev., 18, 1895–1916, https://doi.org/10.5194/gmd-18-1895-2025, https://doi.org/10.5194/gmd-18-1895-2025, 2025
Short summary
Short summary
We describe and test the size-based Nutrient-Unicellular-Multicellular model, which defines unicellular plankton using a single set of parameters, on a eutrophic and oligotrophic ecosystem. The results demonstrate that both sites can be modeled with similar parameters and robust performance over a wide range of parameters. The study shows that the model is useful for non-experts and applicable for modeling ecosystems with limited data. It holds promise for evolutionary and deep-time climate models.
Ying Ye, Guy Munhoven, Peter Köhler, Martin Butzin, Judith Hauck, Özgür Gürses, and Christoph Völker
Geosci. Model Dev., 18, 977–1000, https://doi.org/10.5194/gmd-18-977-2025, https://doi.org/10.5194/gmd-18-977-2025, 2025
Short summary
Short summary
Many biogeochemistry models assume all material reaching the seafloor is remineralized and returned to solution, which is sufficient for studies on short-term climate change. Under long-term climate change, the carbon storage in sediments slows down carbon cycling and influences feedbacks in the atmosphere–ocean–sediment system. This paper describes the coupling of a sediment model to an ocean biogeochemistry model and presents results under the pre-industrial climate and under CO2 perturbation.
Juliette Bernard, Elodie Salmon, Marielle Saunois, Shushi Peng, Penélope Serrano-Ortiz, Antoine Berchet, Palingamoorthy Gnanamoorthy, Joachim Jansen, and Philippe Ciais
Geosci. Model Dev., 18, 863–883, https://doi.org/10.5194/gmd-18-863-2025, https://doi.org/10.5194/gmd-18-863-2025, 2025
Short summary
Short summary
Despite their importance, uncertainties remain in the evaluation of the drivers of temporal variability of methane emissions from wetlands on a global scale. Here, a simplified global model is developed, taking advantage of advances in remote-sensing data and in situ observations. The model reproduces the large spatial and temporal patterns of emissions, albeit with limitations in the tropics due to data scarcity. This model, while simple, can provide valuable insights into sensitivity analyses.
Christian Poppe Terán, Bibi S. Naz, Harry Vereecken, Roland Baatz, Rosie A. Fisher, and Harrie-Jan Hendricks Franssen
Geosci. Model Dev., 18, 287–317, https://doi.org/10.5194/gmd-18-287-2025, https://doi.org/10.5194/gmd-18-287-2025, 2025
Short summary
Short summary
Carbon and water exchanges between the atmosphere and the land surface contribute to water resource availability and climate change mitigation. Land surface models, like the Community Land Model version 5 (CLM5), simulate these. This study finds that CLM5 and other data sets underestimate the magnitudes of and variability in carbon and water exchanges for the most abundant plant functional types compared to observations. It provides essential insights for further research into these processes.
Jianyong Ma, Almut Arneth, Benjamin Smith, Peter Anthoni, Xu-Ri, Peter Eliasson, David Wårlind, Martin Wittenbrink, and Stefan Olin
Geosci. Model Dev. Discuss., https://doi.org/10.5194/gmd-2024-223, https://doi.org/10.5194/gmd-2024-223, 2024
Revised manuscript accepted for GMD
Short summary
Short summary
Nitrous oxide (N2O) is a powerful greenhouse gas mainly released from natural and agricultural soils. This study examines how global soil N2O emissions have changed from 1961 to 2020 and identifies key factors driving these changes using an ecological model. The findings highlight croplands as the largest source, with factors like fertilizer use and climate change enhancing emissions. Rising CO2 levels, however, can partially mitigate N2O emissions through increased plant nitrogen uptake.
Katherine A. Muller, Peishi Jiang, Glenn Hammond, Tasneem Ahmadullah, Hyun-Seob Song, Ravi Kukkadapu, Nicholas Ward, Madison Bowe, Rosalie K. Chu, Qian Zhao, Vanessa A. Garayburu-Caruso, Alan Roebuck, and Xingyuan Chen
Geosci. Model Dev., 17, 8955–8968, https://doi.org/10.5194/gmd-17-8955-2024, https://doi.org/10.5194/gmd-17-8955-2024, 2024
Short summary
Short summary
The new Lambda-PFLOTRAN workflow incorporates organic matter chemistry into reaction networks to simulate aerobic respiration and biogeochemistry. Lambda-PFLOTRAN is a Python-based workflow in a Jupyter notebook interface that digests raw organic matter chemistry data via Fourier transform ion cyclotron resonance mass spectrometry, develops a representative reaction network, and completes a biogeochemical simulation with the open-source, parallel-reactive-flow, and transport code PFLOTRAN.
Ling Li, Peipei Wu, Peng Zhang, Shaojian Huang, and Yanxu Zhang
Geosci. Model Dev., 17, 8683–8695, https://doi.org/10.5194/gmd-17-8683-2024, https://doi.org/10.5194/gmd-17-8683-2024, 2024
Short summary
Short summary
In this study, we incorporate sea surfactants and wave-breaking processes into MITgcm-ECCOv4-Hg. The updated model shows increased fluxes in high-wind-speed and high-wave regions and vice versa, enhancing spatial heterogeneity. It shows that elemental mercury (Hg0) transfer velocity is more sensitive to wind speed. These findings may elucidate the discrepancies in previous estimations and offer insights into global Hg cycling.
Jerome Guiet, Daniele Bianchi, Kim J. N. Scherrer, Ryan F. Heneghan, and Eric D. Galbraith
Geosci. Model Dev., 17, 8421–8454, https://doi.org/10.5194/gmd-17-8421-2024, https://doi.org/10.5194/gmd-17-8421-2024, 2024
Short summary
Short summary
The BiOeconomic mArine Trophic Size-spectrum (BOATSv2) model dynamically simulates global commercial fish populations and their coupling with fishing activity, as emerging from environmental and economic drivers. New features, including separate pelagic and demersal populations, iron limitation, and spatial variation of fishing costs and management, improve the accuracy of high seas fisheries. The updated model code is available to simulate both historical and future scenarios.
Jize Jiang, David S. Stevenson, and Mark A. Sutton
Geosci. Model Dev., 17, 8181–8222, https://doi.org/10.5194/gmd-17-8181-2024, https://doi.org/10.5194/gmd-17-8181-2024, 2024
Short summary
Short summary
A special model called AMmonia–CLIMate (AMCLIM) has been developed to understand and calculate NH3 emissions from fertilizer use and also taking into account how the environment influences these NH3 emissions. It is estimated that about 17 % of applied N in fertilizers was lost due to NH3 emissions. Hot and dry conditions and regions with high-pH soils can expect higher NH3 emissions.
Guillaume Marie, Jina Jeong, Hervé Jactel, Gunnar Petter, Maxime Cailleret, Matthew J. McGrath, Vladislav Bastrikov, Josefine Ghattas, Bertrand Guenet, Anne Sofie Lansø, Kim Naudts, Aude Valade, Chao Yue, and Sebastiaan Luyssaert
Geosci. Model Dev., 17, 8023–8047, https://doi.org/10.5194/gmd-17-8023-2024, https://doi.org/10.5194/gmd-17-8023-2024, 2024
Short summary
Short summary
This research looks at how climate change influences forests, and particularly how altered wind and insect activities could make forests emit instead of absorb carbon. We have updated a land surface model called ORCHIDEE to better examine the effect of bark beetles on forest health. Our findings suggest that sudden events, such as insect outbreaks, can dramatically affect carbon storage, offering crucial insights into tackling climate change.
Stephen Björn Wirth, Johanna Braun, Jens Heinke, Sebastian Ostberg, Susanne Rolinski, Sibyll Schaphoff, Fabian Stenzel, Werner von Bloh, Friedhelm Taube, and Christoph Müller
Geosci. Model Dev., 17, 7889–7914, https://doi.org/10.5194/gmd-17-7889-2024, https://doi.org/10.5194/gmd-17-7889-2024, 2024
Short summary
Short summary
We present a new approach to modelling biological nitrogen fixation (BNF) in the Lund–Potsdam–Jena managed Land dynamic global vegetation model. While in the original approach BNF depended on actual evapotranspiration, the new approach considers soil water content and temperature, vertical root distribution, the nitrogen (N) deficit and carbon (C) costs. The new approach improved simulated BNF compared to the scientific literature and the model ability to project future C and N cycle dynamics.
Saeed Harati-Asl, Liliana Perez, and Roberto Molowny-Horas
Geosci. Model Dev., 17, 7423–7443, https://doi.org/10.5194/gmd-17-7423-2024, https://doi.org/10.5194/gmd-17-7423-2024, 2024
Short summary
Short summary
Social–ecological systems are the subject of many sustainability problems. Because of the complexity of these systems, we must be careful when intervening in them; otherwise we may cause irreversible damage. Using computer models, we can gain insight about these complex systems without harming them. In this paper we describe how we connected an ecological model of forest insect infestation with a social model of cooperation and simulated an intervention measure to save a forest from infestation.
Katarína Merganičová, Ján Merganič, Laura Dobor, Roland Hollós, Zoltán Barcza, Dóra Hidy, Zuzana Sitková, Pavel Pavlenda, Hrvoje Marjanovic, Daniel Kurjak, Michal Bošel'a, Doroteja Bitunjac, Maša Zorana Ostrogović Sever, Jiří Novák, Peter Fleischer, and Tomáš Hlásny
Geosci. Model Dev., 17, 7317–7346, https://doi.org/10.5194/gmd-17-7317-2024, https://doi.org/10.5194/gmd-17-7317-2024, 2024
Short summary
Short summary
We developed a multi-objective calibration approach leading to robust parameter values aiming to strike a balance between their local precision and broad applicability. Using the Biome-BGCMuSo model, we tested the calibrated parameter sets for simulating European beech forest dynamics across large environmental gradients. Leveraging data from 87 plots and five European countries, the results demonstrated reasonable local accuracy and plausible large-scale productivity responses.
Hoa T. T. Nguyen, Ute Daewel, Neil Banas, and Corinna Schrum
EGUsphere, https://doi.org/10.5194/egusphere-2024-2710, https://doi.org/10.5194/egusphere-2024-2710, 2024
Short summary
Short summary
Parameterisation is key in modeling to reproduce observations well but is often done manually. This study presents a Particle Swarm Optimizer-based toolbox for marine ecosystem models, compatible with the Framework for Aquatic Biogeochemical Models, thus enhancing its reusability. Applied to the Sylt ecosystem, the toolbox effectively (1) identified multiple parameter sets that matched observations well, thus providing different insights into ecosystem dynamics, (2) optimized model complexity.
Zhengyang Lin, Ling Huang, Hanqin Tian, Anping Chen, and Xuhui Wang
Geosci. Model Dev. Discuss., https://doi.org/10.5194/gmd-2024-170, https://doi.org/10.5194/gmd-2024-170, 2024
Revised manuscript accepted for GMD
Short summary
Short summary
Wildfires release large amounts of greenhouse gases, contributing to global warming. We developed a new model that provides near-real-time estimates of wildfire emissions in China. Our model improves the accuracy of burned area measurements and incorporates advanced data in fuel loads and emission factors. We found that most emissions come from agricultural fires, while emissions from forests and grasslands are decreasing. This model will help reduce the environmental impacts of wildfires.
Elchin E. Jafarov, Helene Genet, Velimir V. Vesselinov, Valeria Briones, Aiza Kabeer, Andrew L. Mullen, Benjamin Maglio, Tobey Carman, Ruth Rutter, Joy Clein, Chu-Chun Chang, Dogukan Teber, Trevor Smith, Joshua M. Rady, Christina Schädel, Jennifer D. Watts, Brendan M. Rogers, and Susan M. Natali
Geosci. Model Dev. Discuss., https://doi.org/10.5194/gmd-2024-158, https://doi.org/10.5194/gmd-2024-158, 2024
Revised manuscript accepted for GMD
Short summary
Short summary
Thawing permafrost could greatly impact global climate. Our study improves modeling of carbon cycling in Arctic ecosystems. We developed an automated method to fine-tune a model that simulates carbon and nitrogen flows, using computer-generated data. Using computer-generated data, we tested our method and found it enhances accuracy and reduces the time needed for calibration. This work helps make climate predictions more reliable in sensitive permafrost regions.
Zavud Baghirov, Martin Jung, Markus Reichstein, Marco Körner, and Basil Kraft
EGUsphere, https://doi.org/10.5194/egusphere-2024-2044, https://doi.org/10.5194/egusphere-2024-2044, 2024
Short summary
Short summary
We use an innovative approach to study the Earth's water cycle by blending advanced computer learning techniques with a traditional water cycle model. We developed a model that learns from meteorological data, with a special focus on understanding how vegetation influences water movement. Our model closely aligns with real-world observations, yet there are areas that need improvement. This study opens up new possibilities to better understand the water cycle and its interactions with vegetation.
Guohua Liu, Mirco Migliavacca, Christian Reimers, Basil Kraft, Markus Reichstein, Andrew D. Richardson, Lisa Wingate, Nicolas Delpierre, Hui Yang, and Alexander J. Winkler
Geosci. Model Dev., 17, 6683–6701, https://doi.org/10.5194/gmd-17-6683-2024, https://doi.org/10.5194/gmd-17-6683-2024, 2024
Short summary
Short summary
Our study employs long short-term memory (LSTM) networks to model canopy greenness and phenology, integrating meteorological memory effects. The LSTM model outperforms traditional methods, enhancing accuracy in predicting greenness dynamics and phenological transitions across plant functional types. Highlighting the importance of multi-variate meteorological memory effects, our research pioneers unlock the secrets of vegetation phenology responses to climate change with deep learning techniques.
Thi Lan Anh Dinh, Daniel Goll, Philippe Ciais, and Ronny Lauerwald
Geosci. Model Dev., 17, 6725–6744, https://doi.org/10.5194/gmd-17-6725-2024, https://doi.org/10.5194/gmd-17-6725-2024, 2024
Short summary
Short summary
The study assesses the performance of the dynamic global vegetation model (DGVM) ORCHIDEE in capturing the impact of land-use change on carbon stocks across Europe. Comparisons with observations reveal that the model accurately represents carbon fluxes and stocks. Despite the underestimations in certain land-use conversions, the model describes general trends in soil carbon response to land-use change, aligning with the site observations.
Nathaelle Bouttes, Lester Kwiatkowski, Manon Berger, Victor Brovkin, and Guy Munhoven
Geosci. Model Dev., 17, 6513–6528, https://doi.org/10.5194/gmd-17-6513-2024, https://doi.org/10.5194/gmd-17-6513-2024, 2024
Short summary
Short summary
Coral reefs are crucial for biodiversity, but they also play a role in the carbon cycle on long time scales of a few thousand years. To better simulate the future and past evolution of coral reefs and their effect on the global carbon cycle, hence on atmospheric CO2 concentration, it is necessary to include coral reefs within a climate model. Here we describe the inclusion of coral reef carbonate production in a carbon–climate model and its validation in comparison to existing modern data.
Huajie Zhu, Mousong Wu, Fei Jiang, Michael Vossbeck, Thomas Kaminski, Xiuli Xing, Jun Wang, Weimin Ju, and Jing M. Chen
Geosci. Model Dev., 17, 6337–6363, https://doi.org/10.5194/gmd-17-6337-2024, https://doi.org/10.5194/gmd-17-6337-2024, 2024
Short summary
Short summary
In this work, we developed the Nanjing University Carbon Assimilation System (NUCAS v1.0). Data assimilation experiments were conducted to demonstrate the robustness and investigate the feasibility and applicability of NUCAS. The assimilation of ecosystem carbonyl sulfide (COS) fluxes improved the model performance in gross primary productivity, evapotranspiration, and sensible heat, showing that COS provides constraints on parameters relevant to carbon-, water-, and energy-related processes.
Ye Liu, Huilin Huang, Sing-Chun Wang, Tao Zhang, Donghui Xu, and Yang Chen
Geosci. Model Dev. Discuss., https://doi.org/10.5194/gmd-2024-151, https://doi.org/10.5194/gmd-2024-151, 2024
Revised manuscript accepted for GMD
Short summary
Short summary
This study integrates machine learning with a land surface model to improve wildfire predictions in North America. Traditional models struggle with accurately simulating burned areas due to simplified processes. By combining the predictive power of machine learning with a land model, our hybrid framework better captures fire dynamics. This approach enhances our understanding of wildfire behavior and aids in developing more effective climate and fire management strategies.
Sergi Molins, Benjamin Andre, Jeffrey Johnson, Glenn Hammond, Benjamin Sulman, Konstantin Lipnikov, Marcus Day, James Beisman, Daniil Svyatsky, Hang Deng, Peter Lichtner, Carl Steefel, and David Moulton
Geosci. Model Dev. Discuss., https://doi.org/10.5194/gmd-2024-108, https://doi.org/10.5194/gmd-2024-108, 2024
Revised manuscript accepted for GMD
Short summary
Short summary
Developing scientific software and making sure it functions properly requires a significant effort. As we advance our understanding of natural systems, however, there is the need to develop yet more complex models and codes. In this work, we present a piece of software that facilitates this work, specifically with regard to reactive processes. Existing tried-and-true codes are made available via this new interface, freeing up resources to focus on the new aspects of the problems at hand.
Fang Li, Zhimin Zhou, Samuel Levis, Stephen Sitch, Felicity Hayes, Zhaozhong Feng, Peter B. Reich, Zhiyi Zhao, and Yanqing Zhou
Geosci. Model Dev., 17, 6173–6193, https://doi.org/10.5194/gmd-17-6173-2024, https://doi.org/10.5194/gmd-17-6173-2024, 2024
Short summary
Short summary
A new scheme is developed to model the surface ozone damage to vegetation in regional and global process-based models. Based on 4210 data points from ozone experiments, it accurately reproduces statistically significant linear or nonlinear photosynthetic and stomatal responses to ozone in observations for all vegetation types. It also enables models to implicitly capture the variability in plant ozone tolerance and the shift among species within a vegetation type.
Alexander S. Brunmayr, Frank Hagedorn, Margaux Moreno Duborgel, Luisa I. Minich, and Heather D. Graven
Geosci. Model Dev., 17, 5961–5985, https://doi.org/10.5194/gmd-17-5961-2024, https://doi.org/10.5194/gmd-17-5961-2024, 2024
Short summary
Short summary
A new generation of soil models promises to more accurately predict the carbon cycle in soils under climate change. However, measurements of 14C (the radioactive carbon isotope) in soils reveal that the new soil models face similar problems to the traditional models: they underestimate the residence time of carbon in soils and may therefore overestimate the net uptake of CO2 by the land ecosystem. Proposed solutions include restructuring the models and calibrating model parameters with 14C data.
Nina Raoult, Simon Beylat, James M. Salter, Frédéric Hourdin, Vladislav Bastrikov, Catherine Ottlé, and Philippe Peylin
Geosci. Model Dev., 17, 5779–5801, https://doi.org/10.5194/gmd-17-5779-2024, https://doi.org/10.5194/gmd-17-5779-2024, 2024
Short summary
Short summary
We use computer models to predict how the land surface will respond to climate change. However, these complex models do not always simulate what we observe in real life, limiting their effectiveness. To improve their accuracy, we use sophisticated statistical and computational techniques. We test a technique called history matching against more common approaches. This method adapts well to these models, helping us better understand how they work and therefore how to make them more realistic.
Jorn Bruggeman, Karsten Bolding, Lars Nerger, Anna Teruzzi, Simone Spada, Jozef Skákala, and Stefano Ciavatta
Geosci. Model Dev., 17, 5619–5639, https://doi.org/10.5194/gmd-17-5619-2024, https://doi.org/10.5194/gmd-17-5619-2024, 2024
Short summary
Short summary
To understand and predict the ocean’s capacity for carbon sequestration, its ability to supply food, and its response to climate change, we need the best possible estimate of its physical and biogeochemical properties. This is obtained through data assimilation which blends numerical models and observations. We present the Ensemble and Assimilation Tool (EAT), a flexible and efficient test bed that allows any scientist to explore and further develop the state of the art in data assimilation.
Dongyu Zheng, Andrew S. Merdith, Yves Goddéris, Yannick Donnadieu, Khushboo Gurung, and Benjamin J. W. Mills
Geosci. Model Dev., 17, 5413–5429, https://doi.org/10.5194/gmd-17-5413-2024, https://doi.org/10.5194/gmd-17-5413-2024, 2024
Short summary
Short summary
This study uses a deep learning method to upscale the time resolution of paleoclimate simulations to 1 million years. This improved resolution allows a climate-biogeochemical model to more accurately predict climate shifts. The method may be critical in developing new fully continuous methods that are able to be applied over a moving continental surface in deep time with high resolution at reasonable computational expense.
Boris Ťupek, Aleksi Lehtonen, Alla Yurova, Rose Abramoff, Bertrand Guenet, Elisa Bruni, Samuli Launiainen, Mikko Peltoniemi, Shoji Hashimoto, Xianglin Tian, Juha Heikkinen, Kari Minkkinen, and Raisa Mäkipää
Geosci. Model Dev., 17, 5349–5367, https://doi.org/10.5194/gmd-17-5349-2024, https://doi.org/10.5194/gmd-17-5349-2024, 2024
Short summary
Short summary
Updating the Yasso07 soil C model's dependency on decomposition with a hump-shaped Ricker moisture function improved modelled soil organic C (SOC) stocks in a catena of mineral and organic soils in boreal forest. The Ricker function, set to peak at a rate of 1 and calibrated against SOC and CO2 data using a Bayesian approach, showed a maximum in well-drained soils. Using SOC and CO2 data together with the moisture only from the topsoil humus was crucial for accurate model estimates.
Tatsuya Miyauchi, Makoto Saito, Hibiki M. Noda, Akihiko Ito, Tomomichi Kato, and Tsuneo Matsunaga
EGUsphere, https://doi.org/10.5194/egusphere-2024-1542, https://doi.org/10.5194/egusphere-2024-1542, 2024
Short summary
Short summary
Solar-induced chlorophyll fluorescence (SIF) is an effective indicator for monitoring photosynthetic activity. This paper introduces VISIT-SIF, a biogeochemical process-based model developed to represent the global SIF observed by GOSAT. Our model simulation reproduced the global distribution and seasonal variations of GOSAT SIF. The model can be utilized to improve photosynthetic process through the combination of biogeochemical modeling and GOSAT SIF.
Jacquelyn K. Shuman, Rosie A. Fisher, Charles Koven, Ryan Knox, Lara Kueppers, and Chonggang Xu
Geosci. Model Dev., 17, 4643–4671, https://doi.org/10.5194/gmd-17-4643-2024, https://doi.org/10.5194/gmd-17-4643-2024, 2024
Short summary
Short summary
We adapt a fire behavior and effects module for use in a size-structured vegetation demographic model to test how climate, fire regime, and fire-tolerance plant traits interact to determine the distribution of tropical forests and grasslands. Our model captures the connection between fire disturbance and plant fire-tolerance strategies in determining plant distribution and provides a useful tool for understanding the vulnerability of these areas under changing conditions across the tropics.
Naveenkumar Parameswaran, Everardo González, Ewa Burwicz-Galerne, Malte Braack, and Klaus Wallmann
EGUsphere, https://doi.org/10.5194/egusphere-2024-1360, https://doi.org/10.5194/egusphere-2024-1360, 2024
Short summary
Short summary
Our research uses deep learning to predict organic carbon stocks in ocean sediments, crucial for understanding their role in the global carbon cycle. By analyzing over 22,000 samples and various seafloor characteristics, our model gives more accurate results than traditional methods. We estimate the top 10 cm of ocean sediments hold about 171 petagrams of carbon. This work enhances carbon stock estimates and helps plan future sampling strategies to better understand oceanic carbon burial.
Yoshiki Kanzaki, Isabella Chiaravalloti, Shuang Zhang, Noah J. Planavsky, and Christopher T. Reinhard
Geosci. Model Dev., 17, 4515–4532, https://doi.org/10.5194/gmd-17-4515-2024, https://doi.org/10.5194/gmd-17-4515-2024, 2024
Short summary
Short summary
Soil pH is one of the most commonly measured agronomical and biogeochemical indices, mostly reflecting exchangeable acidity. Explicit simulation of both porewater and bulk soil pH is thus crucial to the accurate evaluation of alkalinity required to counteract soil acidification and the resulting capture of anthropogenic carbon dioxide through the enhanced weathering technique. This has been enabled by the updated reactive–transport SCEPTER code and newly developed framework to simulate soil pH.
David Sandoval, Iain Colin Prentice, and Rodolfo L. B. Nóbrega
Geosci. Model Dev., 17, 4229–4309, https://doi.org/10.5194/gmd-17-4229-2024, https://doi.org/10.5194/gmd-17-4229-2024, 2024
Short summary
Short summary
Numerous estimates of water and energy balances depend on empirical equations requiring site-specific calibration, posing risks of "the right answers for the wrong reasons". We introduce novel first-principles formulations to calculate key quantities without requiring local calibration, matching predictions from complex land surface models.
Oliver Perkins, Matthew Kasoar, Apostolos Voulgarakis, Cathy Smith, Jay Mistry, and James D. A. Millington
Geosci. Model Dev., 17, 3993–4016, https://doi.org/10.5194/gmd-17-3993-2024, https://doi.org/10.5194/gmd-17-3993-2024, 2024
Short summary
Short summary
Wildfire is often presented in the media as a danger to human life. Yet globally, millions of people’s livelihoods depend on using fire as a tool. So, patterns of fire emerge from interactions between humans, land use, and climate. This complexity means scientists cannot yet reliably say how fire will be impacted by climate change. So, we developed a new model that represents globally how people use and manage fire. The model reveals the extent and diversity of how humans live with and use fire.
Amos P. K. Tai, David H. Y. Yung, and Timothy Lam
Geosci. Model Dev., 17, 3733–3764, https://doi.org/10.5194/gmd-17-3733-2024, https://doi.org/10.5194/gmd-17-3733-2024, 2024
Short summary
Short summary
We have developed the Terrestrial Ecosystem Model in R (TEMIR), which simulates plant carbon and pollutant uptake and predicts their response to varying atmospheric conditions. This model is designed to couple with an atmospheric chemistry model so that questions related to plant–atmosphere interactions, such as the effects of climate change, rising CO2, and ozone pollution on forest carbon uptake, can be addressed. The model has been well validated with both ground and satellite observations.
Fabian Stenzel, Johanna Braun, Jannes Breier, Karlheinz Erb, Dieter Gerten, Jens Heinke, Sarah Matej, Sebastian Ostberg, Sibyll Schaphoff, and Wolfgang Lucht
Geosci. Model Dev., 17, 3235–3258, https://doi.org/10.5194/gmd-17-3235-2024, https://doi.org/10.5194/gmd-17-3235-2024, 2024
Short summary
Short summary
We provide an R package to compute two biosphere integrity metrics that can be applied to simulations of vegetation growth from the dynamic global vegetation model LPJmL. The pressure metric BioCol indicates that we humans modify and extract > 20 % of the potential preindustrial natural biomass production. The ecosystems state metric EcoRisk shows a high risk of ecosystem destabilization in many regions as a result of climate change and land, water, and fertilizer use.
Elin Ristorp Aas, Heleen A. de Wit, and Terje K. Berntsen
Geosci. Model Dev., 17, 2929–2959, https://doi.org/10.5194/gmd-17-2929-2024, https://doi.org/10.5194/gmd-17-2929-2024, 2024
Short summary
Short summary
By including microbial processes in soil models, we learn how the soil system interacts with its environment and responds to climate change. We present a soil process model, MIMICS+, which is able to reproduce carbon stocks found in boreal forest soils better than a conventional land model. With the model we also find that when adding nitrogen, the relationship between soil microbes changes notably. Coupling the model to a vegetation model will allow for further study of these mechanisms.
Thomas Wutzler, Christian Reimers, Bernhard Ahrens, and Marion Schrumpf
Geosci. Model Dev., 17, 2705–2725, https://doi.org/10.5194/gmd-17-2705-2024, https://doi.org/10.5194/gmd-17-2705-2024, 2024
Short summary
Short summary
Soil microbes provide a strong link for elemental fluxes in the earth system. The SESAM model applies an optimality assumption to model those linkages and their adaptation. We found that a previous heuristic description was a special case of a newly developed more rigorous description. The finding of new behaviour at low microbial biomass led us to formulate the constrained enzyme hypothesis. We now can better describe how microbially mediated linkages of elemental fluxes adapt across decades.
Salvatore R. Curasi, Joe R. Melton, Elyn R. Humphreys, Txomin Hermosilla, and Michael A. Wulder
Geosci. Model Dev., 17, 2683–2704, https://doi.org/10.5194/gmd-17-2683-2024, https://doi.org/10.5194/gmd-17-2683-2024, 2024
Short summary
Short summary
Canadian forests are responding to fire, harvest, and climate change. Models need to quantify these processes and their carbon and energy cycling impacts. We develop a scheme that, based on satellite records, represents fire, harvest, and the sparsely vegetated areas that these processes generate. We evaluate model performance and demonstrate the impacts of disturbance on carbon and energy cycling. This work has implications for land surface modeling and assessing Canada’s terrestrial C cycle.
Yannek Käber, Florian Hartig, and Harald Bugmann
Geosci. Model Dev., 17, 2727–2753, https://doi.org/10.5194/gmd-17-2727-2024, https://doi.org/10.5194/gmd-17-2727-2024, 2024
Short summary
Short summary
Many forest models include detailed mechanisms of forest growth and mortality, but regeneration is often simplified. Testing and improving forest regeneration models is challenging. We address this issue by exploring how forest inventories from unmanaged European forests can be used to improve such models. We find that competition for light among trees is captured by the model, unknown model components can be informed by forest inventory data, and climatic effects are challenging to capture.
Jalisha T. Kallingal, Johan Lindström, Paul A. Miller, Janne Rinne, Maarit Raivonen, and Marko Scholze
Geosci. Model Dev., 17, 2299–2324, https://doi.org/10.5194/gmd-17-2299-2024, https://doi.org/10.5194/gmd-17-2299-2024, 2024
Short summary
Short summary
By unlocking the mysteries of CH4 emissions from wetlands, our work improved the accuracy of the LPJ-GUESS vegetation model using Bayesian statistics. Via assimilation of long-term real data from a wetland, we significantly enhanced CH4 emission predictions. This advancement helps us better understand wetland contributions to atmospheric CH4, which are crucial for addressing climate change. Our method offers a promising tool for refining global climate models and guiding conservation efforts
Benjamin Post, Esteban Acevedo-Trejos, Andrew D. Barton, and Agostino Merico
Geosci. Model Dev., 17, 1175–1195, https://doi.org/10.5194/gmd-17-1175-2024, https://doi.org/10.5194/gmd-17-1175-2024, 2024
Short summary
Short summary
Creating computational models of how phytoplankton grows in the ocean is a technical challenge. We developed a new tool set (Xarray-simlab-ODE) for building such models using the programming language Python. We demonstrate the tool set in a library of plankton models (Phydra). Our goal was to allow scientists to develop models quickly, while also allowing the model structures to be changed easily. This allows us to test many different structures of our models to find the most appropriate one.
Taeken Wijmer, Ahmad Al Bitar, Ludovic Arnaud, Remy Fieuzal, and Eric Ceschia
Geosci. Model Dev., 17, 997–1021, https://doi.org/10.5194/gmd-17-997-2024, https://doi.org/10.5194/gmd-17-997-2024, 2024
Short summary
Short summary
Quantification of carbon fluxes of crops is an essential building block for the construction of a monitoring, reporting, and verification approach. We developed an end-to-end platform (AgriCarbon-EO) that assimilates, through a Bayesian approach, high-resolution (10 m) optical remote sensing data into radiative transfer and crop modelling at regional scale (100 x 100 km). Large-scale estimates of carbon flux are validated against in situ flux towers and yield maps and analysed at regional scale.
Moritz Laub, Sergey Blagodatsky, Marijn Van de Broek, Samuel Schlichenmaier, Benjapon Kunlanit, Johan Six, Patma Vityakon, and Georg Cadisch
Geosci. Model Dev., 17, 931–956, https://doi.org/10.5194/gmd-17-931-2024, https://doi.org/10.5194/gmd-17-931-2024, 2024
Short summary
Short summary
To manage soil organic matter (SOM) sustainably, we need a better understanding of the role that soil microbes play in aggregate protection. Here, we propose the SAMM model, which connects soil aggregate formation to microbial growth. We tested it against data from a tropical long-term experiment and show that SAMM effectively represents the microbial growth, SOM, and aggregate dynamics and that it can be used to explore the importance of aggregate formation in SOM stabilization.
Jianhong Lin, Daniel Berveiller, Christophe François, Heikki Hänninen, Alexandre Morfin, Gaëlle Vincent, Rui Zhang, Cyrille Rathgeber, and Nicolas Delpierre
Geosci. Model Dev., 17, 865–879, https://doi.org/10.5194/gmd-17-865-2024, https://doi.org/10.5194/gmd-17-865-2024, 2024
Short summary
Short summary
Currently, the high variability of budburst between individual trees is overlooked. The consequences of this neglect when projecting the dynamics and functioning of tree communities are unknown. Here we develop the first process-oriented model to describe the difference in budburst dates between individual trees in plant populations. Beyond budburst, the model framework provides a basis for studying the dynamics of phenological traits under climate change, from the individual to the community.
Skyler Kern, Mary E. McGuinn, Katherine M. Smith, Nadia Pinardi, Kyle E. Niemeyer, Nicole S. Lovenduski, and Peter E. Hamlington
Geosci. Model Dev., 17, 621–649, https://doi.org/10.5194/gmd-17-621-2024, https://doi.org/10.5194/gmd-17-621-2024, 2024
Short summary
Short summary
Computational models are used to simulate the behavior of marine ecosystems. The models often have unknown parameters that need to be calibrated to accurately represent observational data. Here, we propose a novel approach to simultaneously determine a large set of parameters for a one-dimensional model of a marine ecosystem in the surface ocean at two contrasting sites. By utilizing global and local optimization techniques, we estimate many parameters in a computationally efficient manner.
Cited articles
Balaji, V., Redler, R., and Budich, R. G. P. (Eds.): Earth System Modelling Volume 4: IO and Postprocessing, Springer, Berlin, Heidelberg, Germany, published online, 2013.
Balay, S., Gropp, W. D., McInnes, L. C., and Smith, B. F.: Efficient management of parallelism in object oriented numerical software libraries, in: Modern Software Tools in Scientific Computing, edited by: Arge, E., Bruaset, A. M., and Langtangen, H. P., Springer Science and Business Media, LLC, 163–202, Boston, Massachusetts, USA, 1997.
Barnier, B., Madec, G., Penduff, T., Molines, J., Treguier, A., Le Sommer, J., Beckmann, A., Biastoch, A., Boening, C., Dengg, J., Derval, C., Durand, E., Gulev, S., Remy, E., Talandier, C., Theetten, S., Maltrud, M., McClean, J., De Cuevas, B. S., Morales Maqueda, M. Á., Legat, V., and Fichefet, T.: Impact of partial steps and momentum advection schemes in a global ocean circulation model at eddy-permitting resolution, Ocean Dynam., 56, 543–567, 2006.
Blackford, L. S., Choi, J., Cleary, A., Demmel, J., Dhillon, I., Dongarra, J., Hammarling, S., Henry, G., Petitet, A., Stanley, K., Walker, D., and Whaley, R. C.: ScaLAPACK: a portable linear algebra library for distributed memory computers – design issues and performance, in: Proceedings of the 1996 ACM/IEEE conference on Supercomputing, 17–22 November 1996, Pittsburgh, Pennsylvania, USA, 5 pp., 1996.
Claussen, M.: Earth system models, in: Understanding the Earth System: Compartments, Processes and Interactions, edited by: Ehlers, E. and Krafft, T., Springer, Heidelberg, Berlin, Germany, New York, USA, 147–162, 2000.
Dennis, J. M. and Loft, R. D.: Refactoring scientific applications for massive parallelism, in: Numerical Techniques for Global Atmospheric Models, Lecture Notes in Computational Science and Engineering, edited by: Lauritzen, P., Jablonowski, C., Taylor, M., and Nair, R., Springer, Berlin, Heidelberg, Germany, 539–556, 2011.
Dongarra, J., Du Croz, J., Hammarling, S., and Hanson, R. J.: An extended set of FORTRAN basic linear algebra subprograms, ACM T. Math. Software, 14, 1–17, https://doi.org/10.1145/42288.42291, 1988.
Dongarra, J., Du Croz, J., Hammarling, S., and Duff, I. S.: A set of level 3 basic linear algebra subprograms, ACM T. Math. Software, 16, 1–17, https://doi.org/10.1145/77626.79170, 1990.
Dongarra, J., Beckman, P., Moore, T., et al.: The International Exascale Software Project roadmap, Int. J. High Perform. C., 25, 3–60, https://doi.org/10.1177/1094342010391989, 2011.
Epicoco, I., Mocavero, S., and Aloisio, G.: A performance evaluation method for climate coupled models, in: Proceedings of the 2011 International Conference on Computational Science (ICCS), 1–3 June 2011, Singapore, 1526–1534, 2011.
Epicoco, I., Mocavero, S., Macchia, F., and Aloisio, G.: The roofline model for oceanic climate applications, in: Proceedings of International Conference on High Performance Computing & Simulation (HPCS), 21–25 July 2014, Bologna, Italy, 732–737, https://doi.org/10.1109/HPCSim.2014.6903762, 2014.
Lakner, G., Chung, I. H., Cong, G., Fadden, S., Goracke, N., Klepacki, D., Lien, J., Pospiech, C., Seelam, S. R., and Wen, H. F.: IBM System Blue Gene Solution: Performance Analysis Tools, IBM Redpaper Publication, available at: http://ibm.com/redbooks (last access: 8 June 2016), 2008.
McKiver, W., Vichi, M., Lovato, T., Storto, A., and Masina, S.: Impact of increased grid resolution on global marine biogeochemistry, J. Marine Syst., 147, 153–168, 2015.
Mirin, A. A. and Worley, P. H.: Improving the performance scalability of the community atmosphere model, Int. J. High Perform. C., 26, 17–30, https://doi.org/10.1177/1094342011412630, 2012.
Parashar, M., Li, X., and Chandra, S.: Advanced Computational Infrastructures for Parallel and Distributed Applications, Vol. 66, John Wiley and Sons, Hoboken, New Jersey, USA, 2010.
Pickles, S. M. and Porter, A. R.: Developing NEMO for Large Multi-core Scalar Systems, Technical Report of the dCSE NEMO project, DL-TR-2012-00, available at: https://epubs.stfc.ac.uk/work/63488 (last access: 8 June 2016), 2012.
Reid, F. J. L.: NEMO on HECToR – A dCSE Project, Report from the dCSE project, EPCC and University of Edinburgh, UK, 2009.
Schellnhuber, H. J.: Earth system analysis and the second Copernican revolution, Nature, 402, C19–C23, 1999.
Siedler, G., Griffies, S. M., Gould, J., and Church, J. A.: Ocean Circulation and Climate: A 21st century perspective, Vol. 103, Academic Press, Amsterdam, the Netherlands, 2013.
Vichi, M. and Masina, S.: Skill assessment of the PELAGOS global ocean biogeochemistry model over the period 1980–2000, Biogeosciences, 6, 2333–2353, https://doi.org/10.5194/bg-6-2333-2009, 2009.
Vichi, M., Pinardi, N., and Masina, S.: A generalized model of pelagic biogeochemistry for the global ocean ecosystem. Part I: Theory, J. Marine Syst., 64, 89–109, 2007.
Vichi, M., Gutierrez Mlot, G. C. E., Lazzari, P., Lovato, T., Mattia, G., McKiver, W., Masina, S., Pinardi, N., Solidoro, C., and Zavatarelli, M.: The Biogeochemical Flux Model (BFM): Equation Description and User Manual, BFM version 5.0 (BFM-V5), Release 1.0, BFM Report Series 1, Bologna, Italy, 2015a.
Vichi, M., Lovato, T., Gutierrez Mlot, E., and McKiver, W.: Coupling BFM with ocean models: the NEMO model (Nucleus for the European Modelling of the Ocean), Release 1.0, BFM Report Series 2, Bologna, Italy, https://doi.org/10.13140/RG.2.1.1652.6566, 2015b.
Washington, W. M.: The computational future for climate change research, J. Phys. Conf. Ser., 16, 317–324, https://doi.org/10.1088/1742-6596/16/1/044, 2005.
Washington, W. M.: Scientific grand challenges: challenges in climate change science and the role of computing at the extreme scale, Report from the DOE Workshop, 6–7 November 2008, Washington D.C., USA, 2008.
Worley, P. H., Craig, A. P., Dennis, J. M., Mirin, A. A., Taylor, M. A., and Vertenstein, M.: Performance and performance engineering of the community Earth system model, in: Proceedings of the 2011 ACM/IEEE Conference on Supercomputing, 12–18 November 2011, Seattle, WA, USA, Article 54, 2011.
XIOS: XIOS wiki page, available at: http://forge.ipsl.jussieu.fr/ioserver/, last access: 2 December 2013.
Short summary
The present work aims at evaluating the scalability performance of a high-resolution global ocean biogeochemistry model (PELAGOS025) on massive parallel architectures and the benefits in terms of the time-to-solution reduction. The outcome of the analysis demonstrated that the lack of scalability is due to several factors such as the I/O operations, the memory contention, and the load unbalancing due to the memory structure of the biogeochemistry model component.
The present work aims at evaluating the scalability performance of a high-resolution global...
Special issue