Mark Adams

I received my Ph.D. in Civil Engineering, from U.C. Berkeley in 1998 and am a former student and postdoc with Jim Demmel  in the Computer Science Division, at U.C. Berkeley.  I work in the Scalable Solvers Group at Lawrence Berkeley National Laboratory, and as an adjunct research scientist in the Applied Physics and Applied Mathematics Department at Columbia University.

Research Interests:

My research interests are in large scale simulations, extreme-scale multigrid equation solvers, adaptive mesh methods, and particle in cell methods for plasma physics applications.

I work as a developer in the PETSc numerical library - developing its algebraic multigrid (AMG) framework the advance Structure Preserving, Adaptive Discretizations for Extreme-scale Solver (SPADES) infrastructure in PETSc. I work with computational physicists at Princeton Plasma Physics Laboratory (PPPL) on kinetic and fluid models for magnetically confined fusion plasmas.

Selected Papers:

• A fast low-to-high confinement mode bifurcation dynamics in the boundary-plasma gyrokinetic code XGC1, Physics of Plasmas, 2018 (bibtex entry)
• Landau Collision Integral Solver with Adaptive Mesh Refinement on Emerging Architectures, SISC, 2017 (bibtex entry).
• Conservative discretization of the Landau Collision Integral, Physics of Plasmas, 2017 (bibtex entry).
• Segmental Refinement: A Multigrid Technique for Data Locality, SISC, 2016 (bibtex entry).
• Trabecular Plates and Rods Determine Elastic Modulus and Yield Strength of Human Trabecular Bone. Bone, 2013.
• Toward textbook multigrid efficiency for fully implicit resistive magnetohydrodynamics, JCP, 2010 (bibtex entry).
• Scaling to 150K cores: recent algorithm and performance engineering developments enabling XGC1 to run at scale, Journal of Physics: Conference series 2009 (bibtex entry).
• High-Resolution Peripheral Quantitative Computed Tomography Can Assess Microstructural and Mechanical Properties of Human Distal Tibial Bone, Journal of Bone and Mineral Research, 2009 (bibtex entry).
• The micromechanics of cortical shell removal in the human vertebral body, Comp. Meth. Appl. Mech. Engrg. 196, pp 3025-3032. 2007 (bibtex entry).
• Performance of particle in cell methods on highly concurrent computational architectures. Journal of Physics: Conference Series(2007) (bibtex entry)
• Algebraic multigrid techniques for strongly indefinite linear systems from direct frequency response analysis in solid mechanics. Computational Mechanics (2007) (bibtex entry)
• Algebraic multigrid methods for constrained linear systems with applications to contact problems in solid mechanics. Numerical Linear Algebra with Applications (2004) (bibtex entry).
• Cortical and trabecular load sharing in the human vertebral body, Journal of Bone and Mineral Research 21(2): 307-314 Feb 2006 (bibtex entry).
• Ultrascalable implicit finite element analyses in solid mechanics with over a half a billion degrees of freedom. Gordon Bell Award paper, Supercomputing 2004 (bibtex entry).
• Algebraic multigrid methods for constrained linear systems with applications to contact problems in solid mechanics. Numerical Linear Algebra with Applications (bibtex entry).
• Applications of Algebraic Multigrid to Large-Scale Finite Element Analysis of Whole Bone Micro-Mechanics on the IBM SP. Proceedings Supercomputing '03 (bibtex entry).
• Parallel Multigrid Smoothing: Polynomial versus Gauss-Seidel, J. Comp. Phys. (bibtex entry).
• Evaluation of Three Unstructured Multigrid Methods on 3D Finite Element Problems in Solid Mechanics. (long version) (bibtex entry).
• A Distributed Memory Unstructured Gauss-Seidel Algorithm for Multigrid Smoothers. Proceedings Supercomputing '01 (bibtex entry).
• Parallel Multigrid Solvers for 3D Unstructured Finite Element Problems in Large Deformation Elasticity and Plasticity,   International Journal for Numerical Methods in Engineering (bibtex entry).
• Parallel Multigrid Solver Algorithms and Implementations for 3D Unstructured Finite Element Problems, Proceedings Supercomputing '99, (bibtex entry).
• Multigrid equation solvers for large scale nonlinear finite element simulations, Ph.D. dissertation (bibtex entry).
• A Parallel Maximal Independent Set Algorithm, 5th Copper Mountain Conference on Iterative Methods, (bibtex entry). 

Awards:

• Gordon Bell Award, Special category, SuperComputing 2004, November 6-12, Pittsburgh PA.
• Carl Benz Award for the best industrial application in Mannheim SuParCup '99 at Mannheim Supercomputer '99 Conference, June 10-12, 1999.
• First prize in student paper competition at the 5th Copper Mountain Conference on Iterative Methods, March 30 - April 3,1998.

• CV