Articles | Volume 6, issue 3
https://doi.org/10.5194/gmd-6-583-2013
© Author(s) 2013. This work is distributed under
the Creative Commons Attribution 3.0 License.
the Creative Commons Attribution 3.0 License.
https://doi.org/10.5194/gmd-6-583-2013
© Author(s) 2013. This work is distributed under
the Creative Commons Attribution 3.0 License.
the Creative Commons Attribution 3.0 License.
Development and technical paper
| 
03 May 2013
Development and technical paper |
| 03 May 2013
Improving computational efficiency in large linear inverse problems: an example from carbon dioxide flux estimation
V. Yadav
Department of Global Ecology, Carnegie Institution for Science, Stanford, California, 94305, USA
A. M. Michalak
Department of Global Ecology, Carnegie Institution for Science, Stanford, California, 94305, USA
Related authors
J. M. Tadić, X. Qiu, V. Yadav, and A. M. Michalak
Geosci. Model Dev., 8, 3311–3319, https://doi.org/10.5194/gmd-8-3311-2015, https://doi.org/10.5194/gmd-8-3311-2015, 2015
J. Ray, J. Lee, V. Yadav, S. Lefantzi, A. M. Michalak, and B. van Bloemen Waanders
Geosci. Model Dev., 8, 1259–1273, https://doi.org/10.5194/gmd-8-1259-2015, https://doi.org/10.5194/gmd-8-1259-2015, 2015
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The paper presents a statistical method (shrinkage) that can be used to estimate rough emission fields, e.g., fossil fuel CO2 emissions, from measurements of concentrations. This method is demonstrated in a test case where the emissions are modeled using wavelets. We find that the method can eliminate unnecessary complexity from the wavelet model, ensures non-negativity of the emissions, is computationally efficient and is, by construction, insensitive to prior guesses of the total emission.
Y. Fang, A. M. Michalak, Y. P. Shiga, and V. Yadav
Biogeosciences, 11, 6985–6997, https://doi.org/10.5194/bg-11-6985-2014, https://doi.org/10.5194/bg-11-6985-2014, 2014
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Terrestrial biospheric models (TBMs) are used to assess carbon--climate interactions. We present a new and complementary approach for evaluating the spatiotemporal patterns, rather than magnitudes, of biosphere--atmosphere carbon exchange predicted by TBMs, based on atmospheric observations. Experiments demonstrate that the performance of TBMs varies substantially across seasons and biomes, with best performance during the growing season and more limited skill during transition seasons.
J. Ray, V. Yadav, A. M. Michalak, B. van Bloemen Waanders, and S. A. McKenna
Geosci. Model Dev., 7, 1901–1918, https://doi.org/10.5194/gmd-7-1901-2014, https://doi.org/10.5194/gmd-7-1901-2014, 2014
Kelsey T. Foster, Wu Sun, Yoichi P. Shiga, Jiafu Mao, and Anna M. Michalak
Biogeosciences Discuss., https://doi.org/10.5194/bg-2023-111, https://doi.org/10.5194/bg-2023-111, 2023
Preprint under review for BG
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Assessing agreement between bottom-up and top-down methods across spatial scales can provide insights into the relationship between ensemble spread (difference across models) and model accuracy (difference between model estimates and reality). We find that ensemble spread is unlikely to be a good indicator of actual uncertainty in the North American carbon balance. However, models that are consistent with atmospheric constraints show stronger agreement between top-down and bottom-up estimates.
Scot M. Miller and Anna M. Michalak
Atmos. Chem. Phys., 20, 323–331, https://doi.org/10.5194/acp-20-323-2020, https://doi.org/10.5194/acp-20-323-2020, 2020
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NASA's Orbiting Carbon Observatory 2 (OCO-2) satellite observes CO2 in the atmosphere. The satellite measures radiation, and these measurements are then converted to an estimate of atmospheric CO2. This conversion or retrieval algorithm has improved markedly since the satellite launch. We find that these improvements in the CO2 retrieval are having a potentially transformative effect on satellite-based estimates of the global biospheric carbon balance.
Peter J. Rayner, Anna M. Michalak, and Frédéric Chevallier
Atmos. Chem. Phys., 19, 13911–13932, https://doi.org/10.5194/acp-19-13911-2019, https://doi.org/10.5194/acp-19-13911-2019, 2019
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This paper describes the methods for combining models and data to understand how nutrients and pollutants move through natural systems. The methods are analogous to the process of weather forecasting in which previous information is combined with new observations and a model to improve our knowledge of the internal state of the physical system. The methods appear highly diverse but the paper shows that they are all examples of a single underlying formalism.
Ju-Mee Ryoo, Laura T. Iraci, Tomoaki Tanaka, Josette E. Marrero, Emma L. Yates, Inez Fung, Anna M. Michalak, Jovan Tadić, Warren Gore, T. Paul Bui, Jonathan M. Dean-Day, and Cecilia S. Chang
Atmos. Meas. Tech., 12, 2949–2966, https://doi.org/10.5194/amt-12-2949-2019, https://doi.org/10.5194/amt-12-2949-2019, 2019
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We designed cylindrical flights and computed the emission fluxes using a kriging method and Gauss's theorem over Sacramento, California. Differences in wind treatment and background affect the emission estimates by a factor of 1.5 to 7. The effects of the vertical layer average and the vertical mass transfer on the emission estimates are found to be small, esp. local scale. The result also suggests a closed-shape flight profile can better contain total emissions than a one-sided curtain flight.
Scot M. Miller, Anna M. Michalak, Vineet Yadav, and Jovan M. Tadić
Atmos. Chem. Phys., 18, 6785–6799, https://doi.org/10.5194/acp-18-6785-2018, https://doi.org/10.5194/acp-18-6785-2018, 2018
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NASA's Orbiting Carbon Observatory 2 (OCO-2) satellite observes CO2 in the atmosphere globally. We evaluate the extent to which current OCO-2 observations can inform scientific understanding of the biospheric carbon balance. We find that current observations are best-equipped to constrain the biospheric carbon balance across continental or hemispheric regions and provide limited information on smaller regions.
Anna M. Michalak, Nina A. Randazzo, and Frédéric Chevallier
Atmos. Chem. Phys., 17, 7405–7421, https://doi.org/10.5194/acp-17-7405-2017, https://doi.org/10.5194/acp-17-7405-2017, 2017
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The use of inverse modeling for quantifying emissions of greenhouse gases is increasing. Estimates are very difficult to evaluate objectively, however, due to limited atmospheric observations and the lack of direct emissions measurements at compatible scales. Diagnostic tools have been proposed to partially circumvent these limitations. This paper presents the first systematic review of the scope and applicability of these tools for atmospheric inversions of long-lived greenhouse gases.
Scot M. Miller and Anna M. Michalak
Atmos. Chem. Phys., 17, 3963–3985, https://doi.org/10.5194/acp-17-3963-2017, https://doi.org/10.5194/acp-17-3963-2017, 2017
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We reviewed recent efforts to estimate state- and national-scale carbon dioxide and methane emissions from individual anthropogenic source sectors in the United States. State and federal greenhouse gas regulations almost always target reductions from specific source sectors, and reliable emission estimates are important to support and evaluate these policies. We also describe a number of forward-looking opportunities that would improve sector-specific estimates.
Jovan M. Tadić, Xuemei Qiu, Scot Miller, and Anna M. Michalak
Geosci. Model Dev., 10, 709–720, https://doi.org/10.5194/gmd-10-709-2017, https://doi.org/10.5194/gmd-10-709-2017, 2017
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We developed a new method to create contiguous maps from sparse and/or noisy satellite observations. This approach could be used to produce retroactive or real-time estimates of environmental data observed by satellites which exhibit spatio-temporal autocorrelations. The method could be applied in a standalone mode or as part of a broader satellite data processing package. Maps produced in this way could then be incorporated into physical and biogeochemical models of the Earth system.
Sander Houweling, Peter Bergamaschi, Frederic Chevallier, Martin Heimann, Thomas Kaminski, Maarten Krol, Anna M. Michalak, and Prabir Patra
Atmos. Chem. Phys., 17, 235–256, https://doi.org/10.5194/acp-17-235-2017, https://doi.org/10.5194/acp-17-235-2017, 2017
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The aim of this paper is to present an overview of inverse modeling methods, developed over the years, for estimating the global sources and sinks of the greenhouse gas methane from atmospheric measurements. It provides insight into how techniques and estimates have evolved over time, what the remaining shortcomings are, new developments, and promising future directions.
Vineet Yadav and Anna M. Michalak
Geosci. Model Dev. Discuss., https://doi.org/10.5194/gmd-2016-204, https://doi.org/10.5194/gmd-2016-204, 2016
Revised manuscript has not been submitted
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Multiplication of two matrices that consists of few non-zero entries is a fundamental operation in problems that involve estimation of greenhouse gas fluxes from atmospheric measurements. To increase computational efficiency of estimating these quantities, modification of the standard matrix multiplication algorithm for multiplying these matrices is proposed in this research.
Bjorn-Gustaf J. Brooks, Ankur R. Desai, Britton B. Stephens, Anna M. Michalak, and Jakob Zscheischler
Biogeosciences Discuss., https://doi.org/10.5194/bg-2016-223, https://doi.org/10.5194/bg-2016-223, 2016
Manuscript not accepted for further review
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CO2 is the primary greenhouse gas, and its abundance in the atmosphere tends to increase during disturbances like drought. This paper demonstrates how CO2 measurements are combined with models to determine not only how strongly different locations influence CO2 measurement stations, but also the capacity of those measurement stations to detect drought effects. Understanding detection sensitivity will help assess what kinds of changes and turnings points can be monitored using atmospheric CO2.
Scot M. Miller, Roisin Commane, Joe R. Melton, Arlyn E. Andrews, Joshua Benmergui, Edward J. Dlugokencky, Greet Janssens-Maenhout, Anna M. Michalak, Colm Sweeney, and Doug E. J. Worthy
Biogeosciences, 13, 1329–1339, https://doi.org/10.5194/bg-13-1329-2016, https://doi.org/10.5194/bg-13-1329-2016, 2016
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We use atmospheric data from the US and Canada to examine seven wetland methane flux estimates. Relative to existing estimates, we find a methane source that is smaller in magnitude with a broader seasonal cycle. Furthermore, we estimate the largest fluxes over the Hudson Bay Lowlands, a spatial distribution that differs from commonly used remote sensing estimates of wetland location.
J. M. Tadić, X. Qiu, V. Yadav, and A. M. Michalak
Geosci. Model Dev., 8, 3311–3319, https://doi.org/10.5194/gmd-8-3311-2015, https://doi.org/10.5194/gmd-8-3311-2015, 2015
J. Ray, J. Lee, V. Yadav, S. Lefantzi, A. M. Michalak, and B. van Bloemen Waanders
Geosci. Model Dev., 8, 1259–1273, https://doi.org/10.5194/gmd-8-1259-2015, https://doi.org/10.5194/gmd-8-1259-2015, 2015
Short summary
Short summary
The paper presents a statistical method (shrinkage) that can be used to estimate rough emission fields, e.g., fossil fuel CO2 emissions, from measurements of concentrations. This method is demonstrated in a test case where the emissions are modeled using wavelets. We find that the method can eliminate unnecessary complexity from the wavelet model, ensures non-negativity of the emissions, is computationally efficient and is, by construction, insensitive to prior guesses of the total emission.
Y. Fang, A. M. Michalak, Y. P. Shiga, and V. Yadav
Biogeosciences, 11, 6985–6997, https://doi.org/10.5194/bg-11-6985-2014, https://doi.org/10.5194/bg-11-6985-2014, 2014
Short summary
Short summary
Terrestrial biospheric models (TBMs) are used to assess carbon--climate interactions. We present a new and complementary approach for evaluating the spatiotemporal patterns, rather than magnitudes, of biosphere--atmosphere carbon exchange predicted by TBMs, based on atmospheric observations. Experiments demonstrate that the performance of TBMs varies substantially across seasons and biomes, with best performance during the growing season and more limited skill during transition seasons.
Y. Wei, S. Liu, D. N. Huntzinger, A. M. Michalak, N. Viovy, W. M. Post, C. R. Schwalm, K. Schaefer, A. R. Jacobson, C. Lu, H. Tian, D. M. Ricciuto, R. B. Cook, J. Mao, and X. Shi
Geosci. Model Dev., 7, 2875–2893, https://doi.org/10.5194/gmd-7-2875-2014, https://doi.org/10.5194/gmd-7-2875-2014, 2014
J. Ray, V. Yadav, A. M. Michalak, B. van Bloemen Waanders, and S. A. McKenna
Geosci. Model Dev., 7, 1901–1918, https://doi.org/10.5194/gmd-7-1901-2014, https://doi.org/10.5194/gmd-7-1901-2014, 2014
S. M. Miller, A. M. Michalak, and P. J. Levi
Geosci. Model Dev., 7, 303–315, https://doi.org/10.5194/gmd-7-303-2014, https://doi.org/10.5194/gmd-7-303-2014, 2014
A. Chatterjee and A. M. Michalak
Atmos. Chem. Phys., 13, 11643–11660, https://doi.org/10.5194/acp-13-11643-2013, https://doi.org/10.5194/acp-13-11643-2013, 2013
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Effectiveness and computational efficiency of absorbing boundary conditions for full-waveform inversion
LAND-SUITE V1.0: a suite of tools for statistically based landslide susceptibility zonation
Towards physics-inspired data-driven weather forecasting: integrating data assimilation with a deep spatial-transformer-based U-NET in a case study with ERA5
Fast infrared radiative transfer calculations using graphics processing units: JURASSIC-GPU v2.0
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Geosci. Model Dev., 16, 5113–5129, https://doi.org/10.5194/gmd-16-5113-2023, https://doi.org/10.5194/gmd-16-5113-2023, 2023
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Scientific understandings of the distribution of coseismic landslides, followed by emergency and medium- and long-term risk assessment, can reduce landslide risk. The aim of this study is to propose an improved three-stage spatial prediction strategy and develop corresponding hazard assessment software called Mat.LShazard V1.0, which provides a new application tool for coseismic landslide disaster prevention and mitigation in different stages.
Qianqian Han, Yijian Zeng, Lijie Zhang, Calimanut-Ionut Cira, Egor Prikaziuk, Ting Duan, Chao Wang, Brigitta Szabó, Salvatore Manfreda, Ruodan Zhuang, and Bob Su
Geosci. Model Dev. Discuss., https://doi.org/10.5194/gmd-2023-83, https://doi.org/10.5194/gmd-2023-83, 2023
Revised manuscript accepted for GMD
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Using machine learning, we estimated global surface soil moisture for understanding water, energy, and carbon exchanges. Ensemble models outperformed individual algorithms in predicting soil moisture under different climates. The best performing ensemble model included K-nearest neighbors, random forest, and extreme gradient boosting. These findings have implications for hydrological and climatological applications such as water cycle monitoring, irrigation management, and crop yield prediction.
Junda Zhan, Sensen Wu, Jin Qi, Jindi Zeng, Mengjiao Qin, Yuanyuan Wang, and Zhenhong Du
Geosci. Model Dev., 16, 2777–2794, https://doi.org/10.5194/gmd-16-2777-2023, https://doi.org/10.5194/gmd-16-2777-2023, 2023
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We develop a generalized spatial autoregressive neural network model used for three-dimensional spatial interpolation. Taking the different changing trend of geographic elements along various directions into consideration, the model defines spatial distance in a generalized way and integrates it into the process of spatial interpolation with the theories of spatial autoregression and neural network. Compared with traditional methods, the model achieves better performance and is more adaptable.
Dominikus Heinzeller, Ligia Bernardet, Grant Firl, Man Zhang, Xia Sun, and Michael Ek
Geosci. Model Dev., 16, 2235–2259, https://doi.org/10.5194/gmd-16-2235-2023, https://doi.org/10.5194/gmd-16-2235-2023, 2023
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The Common Community Physics Package is a collection of physical atmospheric parameterizations for use in Earth system models and a framework that couples the physics to a host model’s dynamical core. A primary goal for this effort is to facilitate research and development of physical parameterizations and physics–dynamics coupling methods while offering capabilities for numerical weather prediction operations, for example in the upcoming implementation of the Global Forecast System (GFS) v17.
Danica L. Lombardozzi, William R. Wieder, Negin Sobhani, Gordon B. Bonan, David Durden, Dawn Lenz, Michael SanClements, Samantha Weintraub-Leff, Edward Ayres, Christopher R. Florian, Kyla Dahlin, Sanjiv Kumar, Abigail L. S. Swann, Claire Zarakas, Charles Vardeman, and Valerio Pascucci
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Catherine Odelia de Burgh-Day and Tennessee Leeuwenburg
EGUsphere, https://doi.org/10.5194/egusphere-2023-350, https://doi.org/10.5194/egusphere-2023-350, 2023
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Machine learning (ML) is an increasingly popular tool in the field of weather and climate modelling. It has been used to improve many components of these models, and even the entire model. While ML has been used in this space for a long time, it is only recently that ML approaches have become competitive with more traditional approaches. In this review, we have summarized the use of ML in weather and climate modelling over time, and have also provided an overview of key ML concepts and terms.
Yao Hu, Chirantan Ghosh, and Siamak Malakpour-Estalaki
Geosci. Model Dev., 16, 1925–1936, https://doi.org/10.5194/gmd-16-1925-2023, https://doi.org/10.5194/gmd-16-1925-2023, 2023
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Data-driven models (DDMs) gain popularity in earth and environmental systems, thanks in large part to advancements in data collection techniques and artificial intelligence (AI). The performance of these models is determined by the underlying machine learning (ML) algorithms. In this study, we develop a framework to improve the model performance by optimizing ML algorithms and demonstrate the effectiveness of the framework using a DDM to predict edge-of-field runoff in the Maumee domain, USA.
Ruidong Li, Ting Sun, Fuqiang Tian, and Guang-Heng Ni
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We developed SHAFTS (Simultaneous building Height And FootprinT extraction from Sentinel imagery), a multi-task deep-learning-based Python package, to estimate average building height and footprint from Sentinel imagery. Evaluation in 46 cities worldwide shows that SHAFTS achieves significant improvement over existing machine-learning-based methods.
Feng Yin, Philip E. Lewis, and Jose L. Gómez-Dans
Geosci. Model Dev., 15, 7933–7976, https://doi.org/10.5194/gmd-15-7933-2022, https://doi.org/10.5194/gmd-15-7933-2022, 2022
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The proposed SIAC atmospheric correction method provides consistent surface reflectance estimations from medium spatial-resolution satellites (Sentinel 2 and Landsat 8) with per-pixel uncertainty information. The outputs from SIAC have been validated against a wide range of ground measurements, and it shows that SIAC can provide accurate estimations of both surface reflectance and atmospheric parameters, with meaningful uncertainty information.
Martina Stockhause and Michael Lautenschlager
Geosci. Model Dev., 15, 6047–6058, https://doi.org/10.5194/gmd-15-6047-2022, https://doi.org/10.5194/gmd-15-6047-2022, 2022
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The Data Distribution Centre (DDC) of the Intergovernmental Panel on Climate Change (IPCC) celebrates its 25th anniversary in 2022. DDC Partner DKRZ has supported the IPCC Assessments and preserved the quality-assured, citable climate model data underpinning the Assessment Reports over these years over the long term. With the introduction of the IPCC FAIR Guidelines into the current AR6, the value of DDC services has been recognized. However, DDC sustainability remains unresolved.
Daiane Iglesia Dolci, Felipe A. G. Silva, Pedro S. Peixoto, and Ernani V. Volpe
Geosci. Model Dev., 15, 5857–5881, https://doi.org/10.5194/gmd-15-5857-2022, https://doi.org/10.5194/gmd-15-5857-2022, 2022
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We investigate and compare the theoretical and computational characteristics of several absorbing boundary conditions (ABCs) for the full-waveform inversion (FWI) problem. The different ABCs are implemented in an optimized computational framework called Devito. The computational efficiency and memory requirements of the ABC methods are evaluated in the forward and adjoint wave propagators, from simple to realistic velocity models.
Mauro Rossi, Txomin Bornaetxea, and Paola Reichenbach
Geosci. Model Dev., 15, 5651–5666, https://doi.org/10.5194/gmd-15-5651-2022, https://doi.org/10.5194/gmd-15-5651-2022, 2022
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LAND-SUITE is a software package designed to support landslide susceptibility zonation. The software integrates, extends, and completes LAND-SE (Rossi et al., 2010; Rossi and Reichenbach, 2016). The software is implemented in R, a free software environment for statistical computing and graphics, and gives expert users the possibility to perform easier, more flexible, and more informed statistically based landslide susceptibility applications and zonations.
Ashesh Chattopadhyay, Mustafa Mustafa, Pedram Hassanzadeh, Eviatar Bach, and Karthik Kashinath
Geosci. Model Dev., 15, 2221–2237, https://doi.org/10.5194/gmd-15-2221-2022, https://doi.org/10.5194/gmd-15-2221-2022, 2022
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There is growing interest in data-driven weather forecasting, i.e., to predict the weather by using a deep neural network that learns from the evolution of past atmospheric patterns. Here, we propose three components to add to the current data-driven weather forecast models to improve their performance. These components involve a feature that incorporates physics into the neural network, a method to add data assimilation, and an algorithm to use several different time intervals in the forecast.
Paul F. Baumeister and Lars Hoffmann
Geosci. Model Dev., 15, 1855–1874, https://doi.org/10.5194/gmd-15-1855-2022, https://doi.org/10.5194/gmd-15-1855-2022, 2022
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The efficiency of the numerical simulation of radiative transport is shown on modern server-class graphics cards (GPUs). The low-cost prefactor on GPUs compared to general-purpose processors (CPUs) enables future large retrieval campaigns for multi-channel data from infrared sounders aboard low-orbit satellites. The validated research software JURASSIC is available in the public domain.
Gregory E. Tucker, Eric W. H. Hutton, Mark D. Piper, Benjamin Campforts, Tian Gan, Katherine R. Barnhart, Albert J. Kettner, Irina Overeem, Scott D. Peckham, Lynn McCready, and Jaia Syvitski
Geosci. Model Dev., 15, 1413–1439, https://doi.org/10.5194/gmd-15-1413-2022, https://doi.org/10.5194/gmd-15-1413-2022, 2022
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Scientists use computer simulation models to understand how Earth surface processes work, including floods, landslides, soil erosion, river channel migration, ocean sedimentation, and coastal change. Research benefits when the software for simulation modeling is open, shared, and coordinated. The Community Surface Dynamics Modeling System (CSDMS) is a US-based facility that supports research by providing community support, computing tools and guidelines, and educational resources.
Danilo César de Mello, Gustavo Vieira Veloso, Marcos Guedes de Lana, Fellipe Alcantara de Oliveira Mello, Raul Roberto Poppiel, Diego Ribeiro Oquendo Cabrero, Luis Augusto Di Loreto Di Raimo, Carlos Ernesto Gonçalves Reynaud Schaefer, Elpídio Inácio Fernandes Filho, Emilson Pereira Leite, and José Alexandre Melo Demattê
Geosci. Model Dev., 15, 1219–1246, https://doi.org/10.5194/gmd-15-1219-2022, https://doi.org/10.5194/gmd-15-1219-2022, 2022
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We used soil parent material, terrain attributes, and geophysical data from the soil surface to test and compare different and unprecedented geophysical sensor combination, as well as different machine learning algorithms to model and predict several soil attributes. Also, we analyzed the importance of pedoenvironmental variables. The soil attributes were modeled throughout different machine learning algorithms and related to different geophysical sensor combinations.
Duncan Watson-Parris, Andrew Williams, Lucia Deaconu, and Philip Stier
Geosci. Model Dev., 14, 7659–7672, https://doi.org/10.5194/gmd-14-7659-2021, https://doi.org/10.5194/gmd-14-7659-2021, 2021
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The Earth System Emulator (ESEm) provides a fast and flexible framework for emulating a wide variety of Earth science datasets and tools for constraining (or tuning) models of any complexity. Three distinct use cases are presented that demonstrate the utility of ESEm and provide some insight into the use of machine learning for emulation in these different settings. The open-source Python package is freely available so that it might become a valuable tool for the community.
Chongyang Wang, Li Wang, Danni Wang, Dan Li, Chenghu Zhou, Hao Jiang, Qiong Zheng, Shuisen Chen, Kai Jia, Yangxiaoyue Liu, Ji Yang, Xia Zhou, and Yong Li
Geosci. Model Dev., 14, 6833–6846, https://doi.org/10.5194/gmd-14-6833-2021, https://doi.org/10.5194/gmd-14-6833-2021, 2021
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The turbidity maximum zone (TMZ) is a special phenomenon in estuaries worldwide. However, the extraction methods and criteria used to describe the TMZ vary significantly both spatially and temporally. This study proposes an new index, the turbidity maximum zone index, based on the corresponding relationship of total suspended solid concentration and Chl a concentration, which could better extract TMZs in different estuaries and on different dates.
Ranee Joshi, Kavitha Madaiah, Mark Jessell, Mark Lindsay, and Guillaume Pirot
Geosci. Model Dev., 14, 6711–6740, https://doi.org/10.5194/gmd-14-6711-2021, https://doi.org/10.5194/gmd-14-6711-2021, 2021
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We have developed a software that allows the user to extract and standardize drill hole information from legacy datasets and/or different drilling campaigns. It also provides functionality to upscale the lithological information. These functionalities were possible by developing thesauri to identify and group geological terminologies together.
David Meyer, Thomas Nagler, and Robin J. Hogan
Geosci. Model Dev., 14, 5205–5215, https://doi.org/10.5194/gmd-14-5205-2021, https://doi.org/10.5194/gmd-14-5205-2021, 2021
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A major limitation in training machine-learning emulators is often caused by the lack of data. This paper presents a cheap way to increase the size of training datasets using statistical techniques and thereby improve the performance of machine-learning emulators.
Mark Jessell, Vitaliy Ogarko, Yohan de Rose, Mark Lindsay, Ranee Joshi, Agnieszka Piechocka, Lachlan Grose, Miguel de la Varga, Laurent Ailleres, and Guillaume Pirot
Geosci. Model Dev., 14, 5063–5092, https://doi.org/10.5194/gmd-14-5063-2021, https://doi.org/10.5194/gmd-14-5063-2021, 2021
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We have developed software that allows the user to extract sufficient information from unmodified digital maps and associated datasets that we are able to use to automatically build 3D geological models. By automating the process we are able to remove human bias from the procedure, which makes the workflow reproducible.
Martí Bosch, Maxence Locatelli, Perrine Hamel, Roy P. Remme, Jérôme Chenal, and Stéphane Joost
Geosci. Model Dev., 14, 3521–3537, https://doi.org/10.5194/gmd-14-3521-2021, https://doi.org/10.5194/gmd-14-3521-2021, 2021
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The article presents a novel approach to simulate urban heat mitigation from land use/land cover data based on three biophysical mechanisms: tree shade, evapotranspiration and albedo. An automated procedure is proposed to calibrate the model parameters to best fit temperature observations from monitoring stations. A case study in Lausanne, Switzerland, shows that the approach outperforms regressions based on satellite data and provides valuable insights into design heat mitigation policies.
Quang-Van Doan, Hiroyuki Kusaka, Takuto Sato, and Fei Chen
Geosci. Model Dev., 14, 2097–2111, https://doi.org/10.5194/gmd-14-2097-2021, https://doi.org/10.5194/gmd-14-2097-2021, 2021
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This study proposes a novel structural self-organizing map (S-SOM) algorithm. The superiority of S-SOM is that it can better recognize the difference (or similarity) among spatial (or temporal) data used for training and thus improve the clustering quality compared to traditional SOM algorithms.
Batunacun, Ralf Wieland, Tobia Lakes, and Claas Nendel
Geosci. Model Dev., 14, 1493–1510, https://doi.org/10.5194/gmd-14-1493-2021, https://doi.org/10.5194/gmd-14-1493-2021, 2021
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Extreme gradient boosting (XGBoost) can provide alternative insights that conventional land-use models are unable to generate. Shapley additive explanations (SHAP) can interpret the results of the purely data-driven approach. XGBoost achieved similar and robust simulation results. SHAP values were useful for analysing the complex relationship between the different drivers of grassland degradation.
Juan A. Añel, Michael García-Rodríguez, and Javier Rodeiro
Geosci. Model Dev., 14, 923–934, https://doi.org/10.5194/gmd-14-923-2021, https://doi.org/10.5194/gmd-14-923-2021, 2021
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This work shows that it continues to be hard, if not impossible, to obtain some of the most used climate models worldwide. We reach this conclusion through a systematic study and encourage all development teams and research centres to make public the models they use to produce scientific results.
Prabhat, Karthik Kashinath, Mayur Mudigonda, Sol Kim, Lukas Kapp-Schwoerer, Andre Graubner, Ege Karaismailoglu, Leo von Kleist, Thorsten Kurth, Annette Greiner, Ankur Mahesh, Kevin Yang, Colby Lewis, Jiayi Chen, Andrew Lou, Sathyavat Chandran, Ben Toms, Will Chapman, Katherine Dagon, Christine A. Shields, Travis O'Brien, Michael Wehner, and William Collins
Geosci. Model Dev., 14, 107–124, https://doi.org/10.5194/gmd-14-107-2021, https://doi.org/10.5194/gmd-14-107-2021, 2021
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Detecting extreme weather events is a crucial step in understanding how they change due to climate change. Deep learning (DL) is remarkable at pattern recognition; however, it works best only when labeled datasets are available. We create
ClimateNet– an expert-labeled curated dataset – to train a DL model for detecting weather events and predicting changes in extreme precipitation. This work paves the way for DL-based automated, high-fidelity, and highly precise analytics of climate data.
Xiang Que, Xiaogang Ma, Chao Ma, and Qiyu Chen
Geosci. Model Dev., 13, 6149–6164, https://doi.org/10.5194/gmd-13-6149-2020, https://doi.org/10.5194/gmd-13-6149-2020, 2020
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This paper presents a spatiotemporal weighted regression (STWR) model for exploring nonstationary spatiotemporal processes in nature and socioeconomics. A value change rate is introduced in the temporal kernel, which presents significant model fitting and accuracy in both simulated and real-world data. STWR fully incorporates observed data in the past and outperforms geographic temporal weighted regression (GTWR) and geographic weighted regression (GWR) models in several experiments.
Sheri Mickelson, Alice Bertini, Gary Strand, Kevin Paul, Eric Nienhouse, John Dennis, and Mariana Vertenstein
Geosci. Model Dev., 13, 5567–5581, https://doi.org/10.5194/gmd-13-5567-2020, https://doi.org/10.5194/gmd-13-5567-2020, 2020
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Every generation of MIP exercises introduces new layers of complexity and an exponential growth in the amount of data requested. CMIP6 required us to develop a new tool chain and forced us to change our methodologies. The new methods discussed in this paper provided us with an 18 times faster speedup over our existing methods. This allowed us to meet our deadlines and we were able to publish more than half a million data sets on the Earth System Grid Federation (ESGF) for the CMIP6 project.
Benjamin Campforts, Charles M. Shobe, Philippe Steer, Matthias Vanmaercke, Dimitri Lague, and Jean Braun
Geosci. Model Dev., 13, 3863–3886, https://doi.org/10.5194/gmd-13-3863-2020, https://doi.org/10.5194/gmd-13-3863-2020, 2020
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Landslides shape the Earth’s surface and are a dominant source of terrestrial sediment. Rivers, then, act as conveyor belts evacuating landslide-produced sediment. Understanding the interaction among rivers and landslides is important to predict the Earth’s surface response to past and future environmental changes and for mitigating natural hazards. We develop HyLands, a new numerical model that provides a toolbox to explore how landslides and rivers interact over several timescales.
Jorge Vicent, Jochem Verrelst, Neus Sabater, Luis Alonso, Juan Pablo Rivera-Caicedo, Luca Martino, Jordi Muñoz-Marí, and José Moreno
Geosci. Model Dev., 13, 1945–1957, https://doi.org/10.5194/gmd-13-1945-2020, https://doi.org/10.5194/gmd-13-1945-2020, 2020
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The modeling of light propagation through the atmosphere is key to process satellite images and to understand atmospheric processes. However, existing atmospheric models can be complex to use in practical applications. Here we aim at providing a new software tool to facilitate using advanced models and to generate large databases of simulated data. As a test case, we use this tool to analyze differences between several atmospheric models, showing the capabilities of this open-source tool.
Jiali Wang, Prasanna Balaprakash, and Rao Kotamarthi
Geosci. Model Dev., 12, 4261–4274, https://doi.org/10.5194/gmd-12-4261-2019, https://doi.org/10.5194/gmd-12-4261-2019, 2019
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Parameterizations are frequently used in models representing physical phenomena and are often the computationally expensive portions of the code. Using model output from simulations performed using a weather model, we train deep neural networks to provide an accurate alternative to a physics-based parameterization. We demonstrate that a domain-aware deep neural network can successfully simulate the entire diurnal cycle of the boundary layer physics and the results are transferable.
Gianandrea Mannarini and Lorenzo Carelli
Geosci. Model Dev., 12, 3449–3480, https://doi.org/10.5194/gmd-12-3449-2019, https://doi.org/10.5194/gmd-12-3449-2019, 2019
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The VISIR ship-routing model is updated in order to deal with ocean currents.
The optimal tracks we computed through VISIR in the Atlantic ocean show great seasonal and regional variability, following a variable influence of surface gravity waves and currents. We assess how these tracks contribute to voyage energy-efficiency gains through a standard indicator (EEOI) of the International Maritime Organization. Also, the new model features are validated against an exact analytical benchmark.
Grzegorz Muszynski, Karthik Kashinath, Vitaliy Kurlin, Michael Wehner, and Prabhat
Geosci. Model Dev., 12, 613–628, https://doi.org/10.5194/gmd-12-613-2019, https://doi.org/10.5194/gmd-12-613-2019, 2019
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We present the automated method for recognizing atmospheric rivers in climate data, i.e., climate model output and reanalysis product. The method is based on topological data analysis and machine learning, both of which are powerful tools that the climate science community often does not use. An advantage of the proposed method is that it is free of selection of subjective threshold conditions on a physical variable. This method is also suitable for rapidly analyzing large amounts of data.
Christina Papagiannopoulou, Diego G. Miralles, Matthias Demuzere, Niko E. C. Verhoest, and Willem Waegeman
Geosci. Model Dev., 11, 4139–4153, https://doi.org/10.5194/gmd-11-4139-2018, https://doi.org/10.5194/gmd-11-4139-2018, 2018
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Common global land cover and climate classifications are based on vegetation–climatic characteristics derived from observational data, ignoring the interaction between the local climate and biome. Here, we model the interplay between vegetation and local climate by discovering spatial relationships among different locations. The resulting global
hydro-climatic biomescorrespond to regions of coherent climate–vegetation interactions that agree well with traditional global land cover maps.
Wendy Sharples, Ilya Zhukov, Markus Geimer, Klaus Goergen, Sebastian Luehrs, Thomas Breuer, Bibi Naz, Ketan Kulkarni, Slavko Brdar, and Stefan Kollet
Geosci. Model Dev., 11, 2875–2895, https://doi.org/10.5194/gmd-11-2875-2018, https://doi.org/10.5194/gmd-11-2875-2018, 2018
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Next-generation geoscientific models are based on complex model implementations and workflows. Next-generation HPC systems require new programming paradigms and code optimization. In order to meet the challenge of running complex simulations on new massively parallel HPC systems, we developed a run control framework that facilitates code portability, code profiling, and provenance tracking to reduce both the duration and the cost of code migration and development, while ensuring reproducibility.
Daojun Zhang, Na Ren, and Xianhui Hou
Geosci. Model Dev., 11, 2525–2539, https://doi.org/10.5194/gmd-11-2525-2018, https://doi.org/10.5194/gmd-11-2525-2018, 2018
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Geographically weighted regression is a widely used method to deal with spatial heterogeneity, which is common in geostatistics. However, most existing software does not support logistic regression and cannot deal with missing data, which exist extensively in mineral prospectivity mapping. This work generalized logistic regression to spatial statistics based on a spatially weighted technique. The new model also supports an anisotropic local window, which is another innovative point.
Thomas Block, Sabine Embacher, Christopher J. Merchant, and Craig Donlon
Geosci. Model Dev., 11, 2419–2427, https://doi.org/10.5194/gmd-11-2419-2018, https://doi.org/10.5194/gmd-11-2419-2018, 2018
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For calibration and validation purposes it is necessary to detect simultaneous data acquisitions from different spaceborne platforms. We present an algorithm and a software system which implements a general approach to resolve this problem. The multisensor matchup system (MMS) can detect simultaneous acquisitions in a large dataset (> 100 TB) and extract data for matching locations for further analysis. The MMS implements a flexible software infrastructure and allows for high parallelization.
David Hassell, Jonathan Gregory, Jon Blower, Bryan N. Lawrence, and Karl E. Taylor
Geosci. Model Dev., 10, 4619–4646, https://doi.org/10.5194/gmd-10-4619-2017, https://doi.org/10.5194/gmd-10-4619-2017, 2017
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We present a formal data model for version 1.6 of the CF (Climate and Forecast) metadata conventions that provide a description of the physical meaning of geoscientific data and their spatial and temporal properties. We describe the CF conventions and how they lead to our CF data model, and compare it other data models for storing data and metadata. We present cf-python version 2.1: a software implementation of the CF data model capable of manipulating any CF-compliant dataset.
Iulia Ilie, Peter Dittrich, Nuno Carvalhais, Martin Jung, Andreas Heinemeyer, Mirco Migliavacca, James I. L. Morison, Sebastian Sippel, Jens-Arne Subke, Matthew Wilkinson, and Miguel D. Mahecha
Geosci. Model Dev., 10, 3519–3545, https://doi.org/10.5194/gmd-10-3519-2017, https://doi.org/10.5194/gmd-10-3519-2017, 2017
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Accurate representation of land-atmosphere carbon fluxes is essential for future climate projections, although some of the responses of CO2 fluxes to climate often remain uncertain. The increase in available data allows for new approaches in their modelling. We automatically developed models for ecosystem and soil carbon respiration using a machine learning approach. When compared with established respiration models, we found that they are better in prediction as well as offering new insights.
Xinqiao Duan, Lin Li, Haihong Zhu, and Shen Ying
Geosci. Model Dev., 10, 239–253, https://doi.org/10.5194/gmd-10-239-2017, https://doi.org/10.5194/gmd-10-239-2017, 2017
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This article proposes an optimized transformation for topographic datasets. The resulting topographic grid exhibits good surface approximation and quasi-uniform high-quality. Both features of the processed topography build a concrete base from which improved endogenous or exogenous parameters can be derived, and makes it suitable for Earth and environmental simulations.
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
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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.
Massimiliano Alvioli, Ivan Marchesini, Paola Reichenbach, Mauro Rossi, Francesca Ardizzone, Federica Fiorucci, and Fausto Guzzetti
Geosci. Model Dev., 9, 3975–3991, https://doi.org/10.5194/gmd-9-3975-2016, https://doi.org/10.5194/gmd-9-3975-2016, 2016
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Slope units are morphological mapping units bounded by drainage and divide lines that maximize within-unit homogeneity and between-unit heterogeneity. We use r.slopeunits, a software for the automatic delination of slope units. We outline an objective procedure to optimize the software input parameters for landslide susceptibility (LS) zonation. Optimization is achieved by maximizing an objective function that simultaneously evaluates terrain aspect segmentation quality and LS model performance.
Duncan Watson-Parris, Nick Schutgens, Nicholas Cook, Zak Kipling, Philip Kershaw, Edward Gryspeerdt, Bryan Lawrence, and Philip Stier
Geosci. Model Dev., 9, 3093–3110, https://doi.org/10.5194/gmd-9-3093-2016, https://doi.org/10.5194/gmd-9-3093-2016, 2016
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In this paper we describe CIS, a new command line tool for the easy visualization, analysis and comparison of a wide variety of gridded and ungridded data sets used in Earth sciences. Users can now use a single tool to not only view plots of satellite, aircraft, station or model data, but also bring them onto the same spatio-temporal sampling. This allows robust, quantitative comparisons to be made easily. CIS is an open-source project and welcomes input from the community.
Benjamin F. Jamroz and Robert Klöfkorn
Geosci. Model Dev., 9, 2881–2892, https://doi.org/10.5194/gmd-9-2881-2016, https://doi.org/10.5194/gmd-9-2881-2016, 2016
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The scalability of computational applications on current and next-generation supercomputers is increasingly limited by the cost of inter-process communication. We implement communication hiding data exchange in the High-Order Methods Modeling Environment (HOMME) for the time integration of the hydrostatic fluid equations using both the spectral-element and discontinuous Galerkin methods. The presented approach produces significant performance and scalability gains in large-scale simulations.
T. Fischer, D. Naumov, S. Sattler, O. Kolditz, and M. Walther
Geosci. Model Dev., 8, 3681–3694, https://doi.org/10.5194/gmd-8-3681-2015, https://doi.org/10.5194/gmd-8-3681-2015, 2015
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We present a workflow to convert geological models into the open-source VTU format for usage in numerical simulation models. Tackling relevant scientific questions or engineering tasks often involves multidisciplinary approaches. Conversion workflows are needed between the diverse tools of the various disciplines. Our approach offers an open-source, platform-independent, robust, and comprehensible method that is potentially useful for a multitude of similar environmental studies.
S. Moulds, W. Buytaert, and A. Mijic
Geosci. Model Dev., 8, 3215–3229, https://doi.org/10.5194/gmd-8-3215-2015, https://doi.org/10.5194/gmd-8-3215-2015, 2015
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The contribution of lulcc is to provide a free and open-source framework for land use change modelling. The software, which is provided as an R package, addresses problems associated with the current paradigm of closed-source, specialised land use change modelling software which disrupt the scientific process. It is an attempt to move the discipline towards open and transparent science and to ensure land use change models are accessible to scientists working across the geosciences.
B. Poulter, N. MacBean, A. Hartley, I. Khlystova, O. Arino, R. Betts, S. Bontemps, M. Boettcher, C. Brockmann, P. Defourny, S. Hagemann, M. Herold, G. Kirches, C. Lamarche, D. Lederer, C. Ottlé, M. Peters, and P. Peylin
Geosci. Model Dev., 8, 2315–2328, https://doi.org/10.5194/gmd-8-2315-2015, https://doi.org/10.5194/gmd-8-2315-2015, 2015
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Land cover is an essential variable in earth system models and determines conditions driving biogeochemical, energy and water exchange between ecosystems and the atmosphere. A methodology is presented for mapping plant functional types used in global vegetation models from a updated land cover classification system and open-source conversion tool, resulting from a consultative process among map producers and modelers engaged in the European Space Agency’s Land Cover Climate Change Initiative.
J. Du, C. Chen, V. Lesur, and L. Wang
Geosci. Model Dev., 8, 1979–1990, https://doi.org/10.5194/gmd-8-1979-2015, https://doi.org/10.5194/gmd-8-1979-2015, 2015
D. C. Wong, C. E. Yang, J. S. Fu, K. Wong, and Y. Gao
Geosci. Model Dev., 8, 1033–1046, https://doi.org/10.5194/gmd-8-1033-2015, https://doi.org/10.5194/gmd-8-1033-2015, 2015
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