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Andy Nonaka

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Andy Nonaka
Staff Scientist and CCSE Group Lead
Web: https://ccse.lbl.gov/people/nonaka

Visit my personal website, or the CCSE group website to learn more!

I am a Staff Scientist and Group Lead of the Center for Computational Sciences and Engineering (CCSE) at Lawrence Berkeley National Laboratory. I am interested in HPC implementations of multiphysics and multiscale algorithms for PDEs using structured grid, adaptive mesh, particle/grid, and machine learning algorithms.

I am Co-Chair of the 2nd SIAM Northern and Central California Sectional Conference (NCC25) on October 27-28, 2025 at LBNL. Visit the conference website to learn more and submit your work!

I am Co-Chair of the SIAM Conference on Computational Science and Engineering (CSE27), to be held February 22-26, 2027 in Pittsburgh, PA. Visit the conference website to learn more!

Journal Articles

J. B. Bell, A. Nonaka, and A. L. Garcia, "A Study of Spherical and Sessile Droplet Dynamics by Fluctuating Hydrodynamics", Physics of Fluids, January 15, 2025, 37, doi: https://doi.org/10.1063/5.0249847

I. Srivastava, A. J. Nonaka, W. Zhang, A. L. Garcia, and J. B. Bell, "Molecular Fluctuations Inhibit Intermittency in Compressible Turbulence", Submitted for publication, January 11, 2025, doi: https://doi.org/10.48550/arXiv.2501.06396

M. Polimeno, C. Kim, F. Blanchette, I. Srivastava, A. Garcia, A. Nonaka, and J. Bell, "Thermodynamic consistency and fluctuations in mesoscopic stochastic simulations of reactive gas mixture", December 9, 2024, doi: https://doi.org/10.48550/arXiv.2412.07048

Y. Tang, R. Chen, M. Lou, J. Fan, C. Yu, A. Nonaka, Z. Yao., W. Gao, "Optical Neural Engine for Solving Scientific Partial Differential Equations", Submitted for publication, September 27, 2024, doi: https://doi.org/10.48550/arXiv.2409.06234

S. S. Sawant, F. Leonard, Z. Yao, A. Nonaka, "ELEQTRONeX: A GPU-Accelerated Exascale Framework for Non-Equilibrium Quantum Transport in Nanomaterials", Submitted for Publication, July 19, 2024, doi: https://doi.org/10.48550/arXiv.2407.14633

P. Kumar, M. Hoffmann, A. Nonaka, S. Salahuddin, and Z. Yao, "3D ferroelectric phase field simulations of polycrystalline multi-phase hafnia and zirconia based ultra-thin film", Advanced Electronic Materials, June 25, 2024, doi: https://doi.org/10.1002/aelm.202400085

J. B. Bell, A. Nonaka, and A. L. Garcia, "Comment on "Brownian motion of droplets induced by thermal noise"", Submitted for publication, April 1, 2024, doi: https://doi.org/10.48550/arXiv.2404.01444

J. L. Loffeld, A. J. Nonaka, D. R. Reynolds, D. J. Gardner, and C. S. Woodward, "Performance of explicit and IMEX MRI multirate methods on complex reactive flow problems within modern parallel adaptive structured grid frameworks", International Journal of High Performance Computing Applications, February 25, 2024, doi: https://doi.org/10.1177/10943420241227914

L. Esclapez, M. Day, J. Bell, A. Felden, C. Gilet, R. Grout, M. Henry de Frahan, E. Motheau, A. Nonaka, L. Owen, B. Perry, J. Rood, N. Wimer, and W. Zhang, "PeleLMeX: an AMR Low Mach Number Reactive Flow Simulation Code without level sub-cycling", Journal of Open Source Software, October 31, 2023, 8, doi: doi.org/10.21105/joss.05450

E. Mercado, H. T. Jung, C. Kim, A. L. Garcia, A. J. Nonaka, and J. B. Bell, "Surface Coverage Dynamics for Reversible Dissociative Adsorption on Finite Linear Lattices", J. Chem. Phys., October 12, 2023, 159:144107,

R. Jambunathan, Z. Yao, R. Lombardini, A. Rodriguez, and A. Nonaka, "Two-Fluid Physical Modeling of Superconducting Resonators in the ARTEMIS Framework", Computer Physics Communications, October 2, 2023, 291:108836,

P. Kumar, A. Nonaka, R. Jambunathan, G. Pahwa, S. Salahuddin, and Z. Yao, "FerroX: A GPU-accelerated, 3D Phase-Field Simulation Framework for Modeling Ferroelectric Devices", Computer Physics Communications, September 1, 2023, 290:108757,

J. G. Wang, D. R. Ladiges, I. Srivastava, S. P. Carney, A. J. Nonaka, A. L. Garcia, J. B. Bell, "Steric effects in induced-charge electro-osmosis for strong electric fields", Physical Review Fluids, August 29, 2023, 8:083702,

I. Srivastava, D. R. Ladiges, A. Nonaka, A. L. Garcia, J. B. Bell, "Staggered Scheme for the Compressible Fluctuating Hydrodynamics of Multispecies Fluid Mixtures", Physical Review E, January 24, 2023, 107:015305, doi: 10.1103/PhysRevE.107.015305

S. S. Sawant, Z. Yao, R. Jambunathan, A. Nonaka, "Characterization of Transmission Lines in Microelectronic Circuits Using the ARTEMIS Solver", IEEE Journal on Multiscale and Multiphysics Computational Techniques, December 12, 2022, 8:31-39,

D. Fan, D. E. Willcox, C. DeGrendele, M. Zingale, and A. Nonaka, "Neural Networks for Nuclear Reactions in MAESTROeX", he Astrophysical Journal, November 29, 2022, 940,

D. R. Ladiges, J. G. Wang, I. Srivastava, S. P. Carney, A. Nonaka, A. L. Garcia, A. Donev, J. B. Bell, "Modeling Electrokinetic Flows with the Discrete Ion Stochastic Continuum Overdamped Solvent Algorithm", Physical Review E, November 19, 2022, 106:035104, doi: 10.1103/PhysRevE.106.035104

M. Zingale, M. P. Katz, A. Nonaka, and M. Rasmussen, "An Improved Method for Coupling Hydrodynamics with Astrophysical Reaction Networks", Astrophysical Journal, August 25, 2022, 936,

J. Bell, A. Nonaka, A. L. Garcia, G. Eyink, "Thermal Fluctuations in the Dissipation Range of Homogeneous Isotropic Turbulence", J. Fluid Mech, March 24, 2022, 939,

Z. Yao, R. Jambunathan, Y. Zeng, and A. Nonaka, "A Massively Parallel Time-Domain Coupled Electrodynamics-Micromagnetics Solver", International Journal of High Performance Computing Applications, January 10, 2022, accepted,

Daniel R. Ladiges, Sean P. Carney, Andrew Nonaka, Katherine Klymko, Guy C. Moore, Alejandro L. Garcia, Sachin R. Natesh, Aleksandar Donev, John B. Bell, "A Discrete Ion Stochastic Continuum Overdamped Solvent Algorithm for Modeling Electrolytes", Physical Review Fluids, April 1, 2021, 6(4):044309,

K. Klymko, A. Nonaka, J. B. Bell, S. P. Carney, A. L. Garcia, "Low Mach number fluctuating hydrodynamics model for ionic liquids", Physical Review Fluids, September 8, 2020, 5, doi: https://doi.org/10.1103/PhysRevFluids.5.093701

D. Fan, A. Nonaka, A. S. Almgren, D. E. Willcox, A. Harpole, and M. Zingale, "MAESTROeX: A Massively Parallel Low Mach Number Astrophysical Solver", Journal of Open Source Software, December 19, 2019,

D. Fan, A. Nonaka, A.S. Almgren, A. Harpole, M. Zingale, "MAESTROeX: A Massively Parallel Low Mach Number Astrophysical Solver", The Astrophysical Journal, December 19, 2019,

M. Zingale, M.P. Katz, J.B. Bell, M.L. Minion, A.J. Nonaka, W. Zhang, "Improved Coupling of Hydrodynamics and Nuclear Reactions via Spectral Deferred Corrections", August 14, 2019,

A. Donev, A. J. Nonaka, C. Kim, A. L. Garcia, J. B. Bell, "Fluctuating hydrodynamics of electrolytes at electroneutral scales", August 10, 2019,

D. R. Ladiges, A. J. Nonaka, J. B. Bell, A. L. Garcia, "On the Suppression and Distortion of Non-Equilibrium Fluctuations by Transpiration", Physics of Fluids, August 10, 2019,

Weiqun Zhang, Ann Almgren, Vince Beckner, John Bell, Johannes Blashke, Cy Chan, Marcus Day, Brian Friesen, Kevin Gott, Daniel Graves, Max P. Katz, Andrew Myers, Tan Nguyen, Andrew Nonaka, Michele Rosso, Samuel Williams, Michael Zingale, "AMReX: a framework for block-structured adaptive mesh refinement", Journal of Open Source Software, May 2019, doi: 10.21105/joss.01370

Aleksandar Donev, Alejandro L. Garcia, Jean-Philippe Péraud, Andrew J. Nonaka, John B. Bell, "Fluctuating Hydrodynamics and Debye-Hückel-Onsager Theory for Electrolytes", Current Opinion in Electrochemistry, 2019, 13:1 - 10, doi: https://doi.org/10.1016/j.coelec.2018.09.004

Changho Kim, Andy Nonaka, John B. Bell, Alejandro L. Garcia, Aleksandar Donev, "Fluctuating hydrodynamics of reactive liquid mixtures", The Journal of Chemical Physics, 2018, 149:084113, doi: 10.1063/1.5043428

A Nonaka, MS Day, JB Bell, "A conservative, thermodynamically consistent numerical approach for low Mach number combustion. Part I: Single-level integration", Combustion Theory and Modelling, 2018, 22:156--184, doi: 10.1080/13647830.2017.1390610

Jean-Philippe Peraud, Andrew J. Nonaka, John B. Bell, Aleksandar Donev, Alejandro L. Garcia, "Fluctuation-enhanced electric conductivity in electrolyte solutions", Proceedings of the National Academy of Sciences, 2017, 114:10829--108, doi: 10.1073/pnas.1714464114

Changho Kim, Andy Nonaka, John B. Bell, Alejandro L. Garcia, Aleksandar Donev, "Stochastic simulation of reaction-diffusion systems: A fluctuating-hydrodynamics approach", The Journal of Chemical Physics, 2017, 146:124110, doi: 10.1063/1.4978775

WE Pazner, A Nonaka, JB Bell, MS Day, ML Minion, "A high-order spectral deferred correction strategy for low Mach number flow with complex chemistry", Combustion Theory and Modelling, 2016, 20:521--547, doi: 10.1080/13647830.2016.1150519

Jean-Philippe Peraud, Andy Nonaka, Anuj Chaudhri, John B. Bell, Aleksandar Donev, Alejandro L. Garcia, "Low Mach number fluctuating hydrodynamics for electrolytes", Phys. Rev. Fluids, 2016, 1:074103, doi: 10.1103/PhysRevFluids.1.074103

AM Jacobs, M Zingale, A Nonaka, AS Almgren, JB Bell, "Low Mach Number Modeling of Convection in Helium Shells on Sub-Chandrasekhar White Dwarfs. II. Bulk Properties of Simple Models", Astrophysical Journal, 2016, 827, doi: 10.3847/0004-637X/827/1/84

A. Donev, A. Nonaka, A. K. Bhattacharjee, A. L. Garcia, J. B. Bell, "Low Mach Number Fluctuating Hydrodynamics of Multispecies Liquid Mixtures", Phys. Fluids, 27, 2015,

A. Nonaka, Y. Sun, J. B. Bell, and A. Donev, "Low Mach Number Fluctuating Hydrodynamics of Binary Liquid Mixtures", Comm. App. Math. and Comp. Sci., vol. 10, 2015,

M. Zingale, C. M. Malone, A. Nonaka, A. S. Almgren, and J. B. Bell, "Comparisons of Two- and Three-Dimensional Convection in Type I X-ray Bursts", Astrophysical Journal, 807, 2015,

C. M. Malone, A. Nonaka, S. E. Woosley, A. S. Almgren, J. B. Bell, S. Dong, and M. Zingale, "The Deflagration Stage of Chandrasekhar Mass Models for Type Ia Supernovae: I. Early Evolution", Astrophysical Journal, 2014, 782:11,

C. M. Malone, M. Zingale, A. Nonaka, A. S. Almgren, and J. B. Bell, "Multidimensional Modeling of Type I X-ray Bursts. II. Two-Dimensional Convection in a Mixed H/He Accretor", Astrophysical Journal, 2014, 788:115,

A. Donev, A. Nonaka, Y. Sun, T. Fai, A. Garcia and J. Bell, "Low Mach Number Fluctuating Hydrodynamics of Diffusively Mixing Fluids", Comm. App. Math. and Comp. Sci., 2014, 9(1),

M. Cai, A. Nonaka, B. E. Griffith, J. B. Bell, and A. Donev, "Efficient Variable-Coefficient Finite-Volume Stokes Solvers", Commun. Comput. Phys., 2014, 16:1263-1297,

C. Gilet, A.S. Almgren, J.B. Bell, A. Nonaka, S.E. Woosley and M. Zingale, "Low-Mach Number Modeling of Core Convection in Massive Stars", Astrophysical Journal, 2013, 773:137,

M. Zingale, A. Nonaka, A. S. Almgren, J. B. Bell, C. Malone, and R. Orvedahl, "Low Mach Number Modeling of Convection in Helium Shells on Sub-Chandrasekhar White Dwarfs. I. Methodology", Astrophysical Journal, 2013, 764:97,

A Nonaka, JB Bell, MS Day, C Gilet, AS Almgren, ML Minion, "A deferred correction coupling strategy for low Mach number flow with complex chemistry", Combustion Theory and Modelling, 2012, 16:1053--1088, doi: 10.1080/13647830.2012.701019

A. Nonaka, A. J. Aspden, M. Zingale, A. S. Almgren, J. B. Bell, and S. E. Woosley, "High-Resolution Simulations of Convection Preceding Ignition in Type Ia Supernovae Using Adaptive Mesh Refinement", Astrophysical Journal, 745, 73, 2012,

C. M. Malone, A. Nonaka, A. S. Almgren, J. B. Bell, and M. Zingale, "Multidimensional Modeling of Type I X-ray Bursts. I. Two-Dimensional Convection Prior to the Outburst of a pure 4He Accretor", Astrophysical Journal, 728, 118, February 2011,

  • Download File: xrb.pdf (pdf: 6.6 MB)

S. May, A. Nonaka, A. S. Almgren, and J. B. Bell, "An Unsplit, Higher-Order Godunov Method Using Quadratic Reconstruction for Advection in Two Dimensions", Comm. App. Math. and Comp. Sci., vol. 6, no. 1, 2011,

A. Nonaka, S. May, A. S. Almgren, and J. B. Bell, "A Three-Dimensional, Unsplit Godunov Method for Scalar Conservation Laws", SIAM J. Sci. Comput., vol. 33, no. 4, 2011,

M. Zingale, A. Nonaka, A. S. Almgren, J. B. Bell, C. M. Malone, and S. E. Woosley, "The Convective Phase Preceding Type Ia Supernovae", Astrophysical Journal, 740, 8, 2011,

A. Nonaka, A.S. Almgren, J. B. Bell, M. J. Lijewski, C. M. Malone, and M. Zingale, "MAESTRO: An Adaptive Low Mach Number Hydrodynamics Algorithm for Stellar Flows", Astrophysical Journal Supplement Series, 188, 358-383, June 2010,

AS Almgren, VE Beckner, JB Bell, MS Day, LH Howell, CC Joggerst, MJ Lijewski, A Nonaka, M Singer, M Zingale, "Castro: A new compressible astrophysical solver. I. Hydrodynamics and self-gravity", Astrophysical Journal, January 2010, 715:1221--1238, doi: 10.1088/0004-637X/715/2/1221

[arxiv]

A. S. Almgren, J. B. Bell, A. Nonaka, M. Zingale, "A New Low Mach Number Approach in Astrophysics", Computing in Science and Engineering, vol. 11, no. 2, pp. 24-33, March/April, 2009,

M. Zingale, A. S. Almgren, J. B. Bell, A. Nonaka, and S. E. Woosley, "Low Mach Number Modeling of Type Ia Supernovae. IV. White Dwarf Convection", Astrophysical Journal, 704, 196-210, 2009,

A. Nonaka, D. Trebotich, G. H. Miller, D. T. Graves, and P. Colella, "A Higher-Order Upwind Method for Viscoelastic Flow", Comm. App. Math. and Comp. Sci., 4(1):57-83, 2009,

A. S. Almgren, J. B. Bell, A. Nonaka, and M. Zingale, "Low Mach Number Modeling of Type Ia Supernovae. III. Reactions", Astrophysical Journal, 684, 449-470, 2008, LBNL 58673,

Conference Papers

M. Zingale, K. Eiden, Y. Cavecchi, A. Harpole, J. B. Bell, M. Chang, I. Hawke, M. P. Katz, C.M. Malone, A. J. Nonaka, D. E. Willcox, W. Zhang, "Toward resolved simulations of burning fronts in thermonuclear X-ray bursts", Journal of Physics: Conference Series, 2019, 1225,

M. Zingale, A. S. Almgren, M. Barrios Sazo, J. B. Bell, K. Eiden, A. Harpole, M. P. Katz, A. J. Nonaka, D. E. Willcox, and W. Zhang, "The Castro AMR Simulation Code: Current and Future Developments", Proceedings of Astronum 2019, July 1, 2019,

A. Harpole, D. Fan, M. P. Katz, A. J. Nonaka, D. E. Willcox, and M. Zingale, "Modelling low Mach number stellar hydrodynamics with MAESTROeX", Proceedings of Astronum 2019, July 1, 2019,

M Zingale, AS Almgren, MG Barrios Sazo, VE Beckner, JB Bell, B Friesen, AM Jacobs, MP Katz, CM Malone, AJ Nonaka, DE Willcox, W Zhang, "Meeting the Challenges of Modeling Astrophysical Thermonuclear Explosions: Castro, Maestro, and the AMReX Astrophysics Suite", Journal of Physics: Conference Series, 2018, 1031, doi: 10.1088/1742-6596/1031/1/012024

M. Zingale, A. Jacobs, A. Almgren, J. Bell, A. Nonaka, C. Malone, S. Woosley, "Understanding Ignition in Type Ia Supernovae", 5rd International Colloquium on the Dynamics of Explosions and Reactive Systems, Leeds, UK, August 2, 2015,

R. Sisneros, C. Malone, A. Nonaka, and S. Woosley, "Investigation of Turbulence in the Early Stages of a High Resolution Supernova Simulation", Proceedings of the Supercomputing 2012 Conference, 2012,

A Nonaka, AS Almgren, JB Bell, H Ma, SE Woosley, M Zingale, "From Convection to Explosion: End-to-End Simulation of Type Ia Supernovae", Proceedings of SciDAC 2011, July 2011,

H. Ma, M. Zingale, S. E. Woosley, A. J. Aspden, J. B. Bell, A. S. Almgren, A. Nonaka, and S. Dong, "Type Ia Supernovae: Advances in Large Scale Simulation", Proceedings of SciDAC 2010, Chattanooga, Tennessee, July 2010,

A. Almgren, J. Bell, D. Kasen, M. Lijewski, A. Nonaka, P. Nugent, C. Rendleman, R. Thomas, and M. Zingale, "MAESTRO, CASTRO and SEDONA -- Petascale Codes for Astrophysical Applications", Proceedings of SciDAC 2010, Chattanooga, Tennessee, July 2010,

S.E. Woosley, A.S. Almgren, A.J. Aspden, J.B. Bell, D. Kasen, A.R. Kerstein, H. Ma, A. Nonaka and M. Zingale, "Type Ia Supernovae: Advances in Large Scale Simulation", SciDAC 2009, J. of Physics: Conference Series, 180, July 2009,

M. Zingale, A. S. Almgren, J. B. Bell, C. M. Malone and A. Nonaka, "Astrophysical Applications of the MAESTRO Code", SciDAC 2008, J. of Physics: Conference Series, 125, Seattle Washington, July 2008,

A. Nonaka, S. Gulati, D. Trebotich, G. H. Miller, S. J. Muller, and D. Liepmann, "A Computational Model with Experimental Validation for DNA Flow in Microchannels", Technical Proceedings of the 2005 NSTI Nanotechnology Conference and Trade Show,, May 1, 2005,

Trebotich, D., Colella, P., Miller, G.H., Nonaka, A., Marshall, T., Gulati, S., Liepmann, D., "A Numerical Algorithm for Complex Biological Flow in Irregular Microdevice Geometries", Technical Proceedings of the 2004 Nanotechnology Conference and Trade Show Vol.2 (2004), pp. 470-473, 2004,

Book Chapters

Ann Almgren, John Bell, Andy Nonaka and Michael Zingale, "Low Mach Number Modeling of Stratified Flows", Finite Volumes for Complex Applications VII -- Methods and Theoretical Aspects, Springer Proceedings in Mathematics and Statistics, edited by J. Fuhrmann, M. Ohlberger, C. Rohde, ( 2014)

Reports

A. L. Garcia, J. B. Bell, A. Nonaka, I. Srivastava, D. Ladiges, C. Kim, "An Introduction to Computational Fluctuating Hydrodynamics", June 18, 2024, doi: https://doi.org/10.48550/arXiv.2406.12157

Last edited: 02/20/2025
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