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GeophysicalFlows.jl Documentation

Overview

GeophysicalFlows.jl is a collection of modules which leverage the FourierFlows.jl framework to provide solvers for problems in Geophysical Fluid Dynamics, on periodic domains using Fourier-based pseudospectral methods.

Examples

Examples aim to demonstrate the main functionalities of each module. Have a look at our Examples collection!

Fourier transforms normalization

Fourier-based pseudospectral methods rely on Fourier expansions. Throughout the documentation we denote symbols with hat, e.g., $\hat{u}$, to be the Fourier transform of $u$ like, e.g.,

\[u(x) = \sum_{k_x} \hat{u}(k_x) \, e^{i k_x x} .\]

The convention used in the modules is that the Fourier transform of a variable, e.g., u is denoted with uh (where the trailing h is there to imply "hat"). Note, however, that uh is obtained via a FFT of u and due to different normalization factors that the FFT algorithm uses, uh is not exactly the same as $\hat{u}$ above. Instead,

\[\hat{u}(k_x) = \frac{𝚞𝚑}{n_x e^{i k_x x_0}} ,\]

where $n_x$ is the total number of grid points in $x$ and $x_0$ is the left-most point of our $x$-grid.

Read more in the FourierFlows.jl Documentation; see Grids section.

Unicode

Oftentimes unicode symbols are used in modules for certain variables or parameters. For example, ψ is commonly used to denote the streamfunction of the flow, or ∂ is used to denote partial differentiation. Unicode symbols can be entered in the Julia REPL by typing, e.g., \psi or \partial followed by the tab key.

Read more about Unicode symbols in the Julia Documentation.

Developers

The development of GeophysicalFlows.jl started during the 21st AOFD Meeting 2017 by Navid C. Constantinou and Gregory L. Wagner. Since then various people have contributed, including Lia Siegelman, Brodie Pearson, André Palóczy (see the example in FourierFlows.jl), and others.

Citing

If you use GeophysicalFlows.jl in research, teaching, or other activities, we would be grateful if you could mention GeophysicalFlows.jl and cite our paper in JOSS:

Constantinou et al., (2021). GeophysicalFlows.jl: Solvers for geophysical fluid dynamics problems in periodic domains on CPUs & GPUs. Journal of Open Source Software, 6(60), 3053, doi:10.21105/joss.03053.

The bibtex entry for the paper is:

@article{GeophysicalFlowsJOSS,
  doi = {10.21105/joss.03053},
  url = {https://doi.org/10.21105/joss.03053},
  year = {2021},
  publisher = {The Open Journal},
  volume = {6},
  number = {60},
  pages = {3053},
  author = {Navid C. Constantinou and Gregory LeClaire Wagner and Lia Siegelman and Brodie C. Pearson and André Palóczy},
  title = {GeophysicalFlows.jl: Solvers for geophysical fluid dynamics problems in periodic domains on CPUs \& GPUs},
  journal = {Journal of Open Source Software}
}

Papers using GeophysicalFlows.jl

  1. Lobo, M., Griffies, S. M., and Zhang, W. (2024) Vertical structure of baroclinic instability in a three-layer quasi-geostrophic model over a sloping bottom. ESS Open Archive, doi:10.22541/essoar.172166435.57577370/v1.

  2. Pudig, M. and Smith, K. S. (2024) Baroclinic turbulence above rough topography: The vortex gas and topographic turbulence regimes. ESS Open Archive, doi:10.22541/essoar.171995116.60993353/v1.

  3. Shokar, I. J. S., Haynes, P. H. and Kerswell, R. R. (2024) Extending deep learning emulation across parameter regimes to assess stochastically driven spontaneous transition events. In ICLR 2024 Workshop on AI4DifferentialEquations in Science. url: https://openreview.net/forum?id=7a5gUX4e5q.

  4. He, J. and Wang, Y. (2024) Multiple states of two-dimensional turbulence above topography. arXiv preprint arXiv:2405.10826, doi:10.48550/arXiv.2405.10826.

  5. Parfenyev, V., Blumenau, M., and Nikitin, I. (2024) Enhancing capabilities of particle image/tracking velocimetry with physics-informed neural networks. arXiv preprint arXiv:2404.01193, doi:10.48550/arXiv.2404.01193.

  6. Shokar, I. J. S., Kerswell, R. R., and Haynes, P. H. (2024) Stochastic latent transformer: Efficient modeling of stochastically forced zonal jets. Journal of Advances in Modeling Earth Systems, 16, e2023MS004177, doi:10.1029/2023MS004177.

  7. Bischoff, T., and Deck, K. (2024) Unpaired downscaling of fluid flows with diffusion bridges. Artificial Intelligence for the Earth Systems, doi:10.1175/AIES-D-23-0039.1, in press.

  8. Kolokolov, I. V., Lebedev, V. V., and Parfenyev, V. M. (2024) Correlations in a weakly interacting two-dimensional random flow. Physical Review E, 109(3), 035103, doi:10.1103/PhysRevE.109.035103.

  9. Parfenyev, V. (2024) Statistical analysis of vortex condensate motion in two-dimensional turbulence. Physics of Fluids, 36, 015148, doi:10.1063/5.0187030.

  10. LaCasce, J. H., Palóczy, A., and Trodahl, M. (2024). Vortices over bathymetry. Journal of Fluid Mechanics, 979, A32, doi:10.1017/jfm.2023.1084.

  11. Drivas, T. D. and Elgindi, T. M. (2023). Singularity formation in the incompressible Euler equation in finite and infinite time. EMS Surveys in Mathematical Sciences, 10(1), 1–100, doi:10.4171/emss/66.

  12. Siegelman, L. and Young, W. R. (2023). Two-dimensional turbulence above topography: Vortices and potential vorticity homogenization. Proceedings of the National Academy of Sciences, 120(44), e2308018120, doi:10.1073/pnas.2308018120.

  13. Bisits, J. I., Stanley G. J., and Zika, J. D. (2023). Can we accurately quantify a lateral diffusivity using a single tracer release? Journal of Physical Oceanography, 53(2), 647–659, doi:10.1175/JPO-D-22-0145.1.

  14. Parfenyev, V. (2022) Profile of a two-dimensional vortex condensate beyond the universal limit. Phys. Rev. E, 106, 025102, doi:10.1103/PhysRevE.106.025102.

  15. Siegelman, L., Young, W. R., and Ingersoll, A. P. (2022). Polar vortex crystals: Emergence and structure Proceedings of the National Academy of Sciences, 119(17), e2120486119, doi:10.1073/pnas.2120486119.

  16. Dolce, M. and Drivas, T. D. (2022). On maximally mixed equilibria of two-dimensional perfect fluids. Archive for Rational Mechanics and Analysis, 246, 735–770, doi:10.1007/s00205-022-01825-w.

  17. Palóczy, A. and LaCasce, J. H. (2022). Instability of a surface jet over rough topography. Journal of Physical Oceanography, 52(11), 2725-2740, doi:10.1175/JPO-D-22-0079.1.

  18. Karrasch, D. and Schilling, N. (2020). Fast and robust computation of coherent Lagrangian vortices on very large two-dimensional domains. The SMAI Journal of Computational Mathematics, 6, 101-124, doi:10.5802/smai-jcm.63.