Submitted articles
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[2] Online learning in idealized ocean gyres
James R. Maddison, submitted to Journal of Advances in Modeling Earth Systems (preprint, model, scripts, data)
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[1] Automatic differentiation for all-at-once systems arising in certain PDE-constrained optimization problems
Santolo Leveque, James R. Maddison, and John W. Pearson, submitted to ACM Transactions on Mathematical Software (preprint)
Published articles
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[32] Negative sensitivity of Southern Ocean circumpolar transport to increased wind stress controlled by residual overturning
Han Seul Lee, James R. Maddison, Julian Mak, David P. Marshall, and Yan Wang, Tellus A: Dynamic Meteorology and Oceanography 77(1), 199‒220, 2025
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[31] Mapping ice stream sensitivity in the Amundsen sector to changes in ice velocity observations
Beatriz Recinos, Daniel Goldberg, Noel Gourmelen, and James R. Maddison, Geophysical Research Letters 52(17), e2025GL117666, 2025
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[30] An energy- and enstrophy-constrained parameterization of barotropic eddy potential vorticity fluxes
Rosie E. Eaves, James R. Maddison, David P. Marshall, and Stephanie Waterman, Journal of Physical Oceanography 55(5), 573‒591, 2025
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[29] A two-dimensional model for eddy saturation and frictional control in the Southern Ocean
J. R. Maddison, D. P. Marshall, J. Mak, and K. Maurer-Song, Journal of Advances in Modeling Earth Systems 17(4), e2024MS004682, 2025
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[28] Step-based checkpointing with high-level algorithmic differentiation
James R. Maddison, Journal of Computational Science 82, 102405, 2024
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[27] checkpoint_schedules: schedules for incremental checkpointing of adjoint simulations
Daiane I. Dolci, James R. Maddison, David A. Ham, Guillaume Pallez, and Julien Herrmann, The Journal of Open Source Software 9(95), 6148, 2024
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[26] Scale-awareness in an eddy energy constrained mesoscale eddy parameterization
J. Mak, J. R. Maddison, D. P. Marshall, X. Ruan, Y. Wang, and L. Yeow, Journal of Advances in Modeling Earth Systems 15(12), e2023MS003886, 2023
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[25] A framework for time-dependent ice sheet uncertainty quantification, applied to three West Antarctic ice streams
Beatriz Recinos, Daniel Goldberg, James R. Maddison, and Joe Todd, The Cryosphere 17(10), 4241‒4266, 2023
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[24] Bayesian comparison of stochastic models of dispersion
M. T. Brolly, J. R. Maddison, A. L. Teckentrup, and J. Vanneste, Journal of Fluid Mechanics 944, A2, 2022
[23] Acute sensitivity of global ocean circulation and heat content to eddy energy dissipation timescale
J. Mak, D. P. Marshall, G. Madec, and J. R. Maddison, Geophysical Research Letters 49(8), e2021GL097259, 2022
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[22] fenics_ice 1.0: a framework for quantifying initialization uncertainty for time-dependent ice sheet models
C. P. Koziol, J. A. Todd, D. N. Goldberg, and J. R. Maddison, Geoscientific Model Development 14(9), 5843‒5861, 2021
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[21] A geometric interpretation of Southern Ocean eddy form stress
M. B. Poulsen, M. Jochum, J. R. Maddison, D. P. Marshall, and R. Nuterman, Journal of Physical Oceanography 49(10), 2553‒2570, 2019
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[20] Automated calculation of higher order partial differential equation constrained derivative information
J. R. Maddison, D. N. Goldberg, and B. D. Goddard, SIAM Journal on Scientific Computing 41(5), C417‒C445, 2019
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[19] Bayesian inference of ocean diffusivity from Lagrangian trajectory data
Y. K. Ying, J. R. Maddison, and J. Vanneste, Ocean Modelling 140, 101401, 2019
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[18] Implementation of a geometrically informed and energetically constrained mesoscale eddy parameterization in an ocean circulation model
J. Mak, J. R. Maddison, D. P. Marshall, and D. R. Munday, Journal of Physical Oceanography 48(10), 2363‒2382, 2018
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[17] Full wavefield inversion of ambient seismic noise
S. A. L. de Ridder and J. R. Maddison, Geophysical Journal International 215(2), 1215‒1230, 2018
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[16] Adapting and optimising Fluidity for high-fidelity coastal modelling
A. C. W. Creech, A. Jackson, and J. R. Maddison, Computers & Fluids 168, 46‒53, 2018
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[15] Optimal constrained interpolation in mesh-adaptive finite element modeling
J. R. Maddison and H. R. Hiester, SIAM Journal on Scientific Computing 39(5), A2257‒A2286, 2017
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[14] Emergent eddy saturation from an energy constrained eddy parameterisation
J. Mak, D. P. Marshall, J. R. Maddison, and S. D. Bachman, Ocean Modelling 112, 125‒138, 2017
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[13] Eddy saturation and frictional control of the Antarctic Circumpolar Current
D. P. Marshall, M. H. P. Ambaum, J. R. Maddison, D. R. Munday, and L. Novak, Geophysical Research Letters 44(1), 286‒292, 2017
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[12] Evaluation of a scalar eddy transport coefficient based on geometric constraints
S. D. Bachman, D. P. Marshall, J. R. Maddison, and J. Mak, Ocean Modelling 109, 44‒54, 2017
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[11] A geometric interpretation of eddy Reynolds stresses in barotropic ocean jets
T. Tamarin, J. R. Maddison, E. Heifetz, and D. P. Marshall, Journal of Physical Oceanography 46(8), 2285‒2307, 2016
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[10] A new gauge-invariant method for diagnosing eddy diffusivities
J. Mak, J. R. Maddison, and D. P. Marshall, Ocean Modelling 104, 252‒268, 2016
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[9] On the dynamical influence of ocean eddy potential vorticity fluxes
J. R. Maddison, D. P. Marshall, and J. Shipton, Ocean Modelling 92, 169‒182, 2015
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[8] Rapid development and adjoining of transient finite element models
J. R. Maddison and P. E. Farrell, Computer Methods in Applied Mechanics and Engineering 276, 95‒121, 2014
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[7] The Eliassen-Palm flux tensor
J. R. Maddison and D. P. Marshall, Journal of Fluid Mechanics 729, 69‒102, 2013
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[6] Directional integration on unstructured meshes via supermesh construction
J. R. Maddison and P. E. Farrell, Journal of Computational Physics 231(12), 4422‒4432, 2012
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[5] A framework for parameterizing eddy potential vorticity fluxes
D. P. Marshall, J. R. Maddison, and P. S. Berloff, Journal of Physical Oceanography 42(4), 539‒557, 2012
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[4] Accurate representation of geostrophic and hydrostatic balance in unstructured mesh finite element ocean modelling
J. R. Maddison, D. P. Marshall, C. C. Pain, and M. D. Piggott, Ocean Modelling 39(3-4), 248‒261, 2011
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[3] Geostrophic balance preserving interpolation in mesh adaptive linearised shallow-water ocean modelling
J. R. Maddison, C. J. Cotter, and P. E. Farrell, Ocean Modelling 37(1-2), 35‒48, 2011
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[2] Conservative interpolation between volume meshes by local Galerkin projection
P. E. Farrell and J. R. Maddison, Computer Methods in Applied Mechanics and Engineering 200(1-4), 89‒100, 2011
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[1] Spud 1.0: generalising and automating the user interfaces of scientific computer models
D. A. Ham, P. E. Farrell, G. J. Gorman, J. R. Maddison, C. R. Wilson, S. C. Kramer, J. Shipton, G. S. Collins, C. J. Cotter, and M. D. Piggott, Geoscientific Model Development 2, 33‒42, 2009
Conference Proceedings / Extended Abstracts / Related Publications
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[4] GEOMETRIC: Geometry and energetics of ocean mesoscale eddies and their representation in climate models
D. P. Marshall, J. R. Maddison, J. Mak, S. Bachman, and D. Munday, joint special edition: CLIVAR Exchanges No. 77 and US CLIVAR Variations Vol. 18, No. 1, 17‒22, 2020
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[3] Frequency-domain full-wavefield inversion for ambient seismic surface-wave noise
S. de Ridder, A. Curtis, J. Maddison, and A. Shaiban, SEG Technical Program Expanded Abstracts 2017, 2877‒2882, 2017
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[2] Wave field inversion of ambient seismic noise
S. A. L. de Ridder and J. R. Maddison, 79th EAGE Conference and Exhibition 2017 - Workshops, 2017
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[1] Interleaved parallel tetrahedral mesh optimisation and dynamic load-balancing
G. J. Gorman, C. C. Pain, M. D. Piggott, A. P. Umpleby, P. E. Farrell, and J. R. Maddison, International Conference on Adaptive Modeling and Simulation, 101‒104, 2009
Technical reports
Corrigenda