Efficient management of parallelism in object-oriented numerical software libraries

A nationwide parallel computing environment

Communications of the ACM

An Object-Oriented Toolbox for Spectral Element Analysis

Journal of Scientific Computing

OoLALA: an object oriented analysis and design of numerical linear algebra

OOPSLA '00 Proceedings of the 15th ACM SIGPLAN conference on Object-oriented programming, systems, languages, and applications

Parallel Krylov Methods for Econometric Model Simulation

Computational Economics - Special issue on computational studies at Cambridge

Real-time biomechanical simulation of volumetric brain deformation for image guided neurosurgery

Proceedings of the 2000 ACM/IEEE conference on Supercomputing

A parallel dynamic-mesh Lagrangian method for simulation of flows with dynamic interfaces

Proceedings of the 2000 ACM/IEEE conference on Supercomputing

A case study in the performance and scalability of optimization algorithms

ACM Transactions on Mathematical Software (TOMS)

Communication overlap in multi-tier parallel algorithms

SC '98 Proceedings of the 1998 ACM/IEEE conference on Supercomputing

Generic programming for high performance scientific applications

JGI '02 Proceedings of the 2002 joint ACM-ISCOPE conference on Java Grande

An implicit, nonlinear reduced resistive MHD solver

Journal of Computational Physics

Parallel restricted maximum likelihood estimation for linear models with a dense exogenous matrix

Parallel Computing - Parallel matrix algorithms and applications

Three parallel programming paradigms: comparisons on an archetypal PDE computation

Progress in computer research

A Generic C++ Framework for Parallel Mesh-Based Scientific Applications

HIPS '01 Proceedings of the 6th International Workshop on High-Level Parallel Programming Models and Supportive Environments

Parallel FEM Simulation of Crack Propagation - Challenges, Status, and Perspectives

IPDPS '00 Proceedings of the 15 IPDPS 2000 Workshops on Parallel and Distributed Processing

The Parallel Mathematical Libraries Project (PMLP): Overview, Design Innovations, and Preliminary Results

PaCT '999 Proceedings of the 5th International Conference on Parallel Computing Technologies

Cray T3E Performances of a Parallel Code for a Stochastic Dynamic Assets and Liabilities Management Model

Euro-Par '99 Proceedings of the 5th International Euro-Par Conference on Parallel Processing

Object-Oriented Design for Sparse Direct Solvers

ISCOPE '98 Proceedings of the Second International Symposium on Computing in Object-Oriented Parallel Environments

On Software Support for Finite Difference Schemes Based on Index Notation

ICCS '02 Proceedings of the International Conference on Computational Science-Part III

Asserting performance expectations

Proceedings of the 2002 ACM/IEEE conference on Supercomputing

Advanced environments for parallel and distributed applications: a view of current status

Parallel Computing - Special issue: Advanced environments for parallel and distributed computing

Parallel components for PDEs and optimization: some issues and experiences

Parallel Computing - Special issue: Advanced environments for parallel and distributed computing

References

Sourcebook of parallel computing

A fast solver for the Stokes equations with distributed forces in complex geometries

Journal of Computational Physics

Using Distributed Computers to Deterministically Approximate Higher Dimensional Convection Diffusion Equations

The Journal of Supercomputing

Faster PDE-based simulations using robust composite linear solvers

Future Generation Computer Systems - Special issue: Selected numerical algorithms

An algebraic multilevel preconditioner for field-circuit coupled problems

Journal of Computational and Applied Mathematics - Special issue: Selected papers from the 2nd international conference on advanced computational methods in engineering (ACOMEN2002) Liege University, Belgium, 27-31 May 2002

GrADSolve: a grid-based RPC system for parallel computing with application-level scheduling

Journal of Parallel and Distributed Computing - Special issue on middleware

A fast, higher-order solver for scattering by penetrable bodies in three dimensions

Journal of Computational Physics

Design of a Library of Parallel Preconditioners

International Journal of High Performance Computing Applications

Globalized Newton-Krylov-Schwarz Algorithms and Software for Parallel Implicit CFD

International Journal of High Performance Computing Applications

Parallel Compositional Reservoir Simulation on Clusters of PCs

International Journal of High Performance Computing Applications

The Cactus Worm: Experiments with Dynamic Resource Discovery and Allocation in a Grid Environment

International Journal of High Performance Computing Applications

On the order of accuracy of the immersed boundary method: Higher order convergence rates for sufficiently smooth problems

Journal of Computational Physics

An overview of the Advanced CompuTational Software (ACTS) collection

ACM Transactions on Mathematical Software (TOMS) - Special issue on the Advanced CompuTational Software (ACTS) Collection

An overview of the Trilinos project

ACM Transactions on Mathematical Software (TOMS) - Special issue on the Advanced CompuTational Software (ACTS) Collection

A comparison of algorithms for maximum entropy parameter estimation

COLING-02 proceedings of the 6th conference on Natural language learning - Volume 20

A Component Architecture for High-Performance Scientific Computing

International Journal of High Performance Computing Applications

Predicting risky modules in open-source software for high-performance computing

Proceedings of the second international workshop on Software engineering for high performance computing system applications

A compiler for variational forms

ACM Transactions on Mathematical Software (TOMS)

MPI performance analysis tools on Blue Gene/L

Proceedings of the 2006 ACM/IEEE conference on Supercomputing

MPI for Python

Journal of Parallel and Distributed Computing

Parallelization of an Euler-Lagrange model using mixed domain decomposition and a mirror domain technique: Application to dispersed gas-liquid two-phase flow

Journal of Computational Physics

An adaptive, formally second order accurate version of the immersed boundary method

Journal of Computational Physics

Using the GA and TAO toolkits for solving large-scale optimization problems on parallel computers

ACM Transactions on Mathematical Software (TOMS)

Parallel implementation of efficient preconditioned linear solver for grid-based applications in chemical physics: II: QMR linear solver

Journal of Computational Physics

Physically based simulation of cloth on distributed memory architectures

Parallel Computing

Efficient compilation of a class of variational forms

ACM Transactions on Mathematical Software (TOMS)

Tinkertoy parallel programming: a case study with Zoltan

International Journal of Computational Science and Engineering

Optimization of sparse matrix-vector multiplication on emerging multicore platforms

Proceedings of the 2007 ACM/IEEE conference on Supercomputing

Icetools: A full Stokes finite element model for glaciers

Computers & Geosciences

A methodology for the development of discrete adjoint solvers using automatic differentiation tools

International Journal of Computational Fluid Dynamics

Interval Subroutine Library Mission

Reliable Implementation of Real Number Algorithms: Theory and Practice

Simulation of directional solidification, thermochemical convection, and chimney formation in a Hele-Shaw cell

Journal of Computational Physics

A component infrastructure for performance and power modeling of parallel scientific applications

Proceedings of the 2008 compFrame/HPC-GECO workshop on Component based high performance

On the generic parallelisation of iterative solvers for the finite element method

International Journal of Computational Science and Engineering

A Standard and Software for Numerical Metadata

ACM Transactions on Mathematical Software (TOMS)

Optimization of sparse matrix-vector multiplication on emerging multicore platforms

Parallel Computing

A multilevel finite volume method with multiscale-based grid adaptation for steady compressible flows

Journal of Computational and Applied Mathematics

Parallel Simulations of Dynamic Fracture Using Extrinsic Cohesive Elements

Journal of Scientific Computing

Preconditioning methods for discontinuous Galerkin solutions of the Navier-Stokes equations

Journal of Computational Physics

A Parallel Algorithm To Solve Large Stiff ODE Systems On Grid Systems

International Journal of High Performance Computing Applications

Sharp interface immersed-boundary/level-set method for wave-body interactions

Journal of Computational Physics

From Silicon to Science: The Long Road to Production Reconfigurable Supercomputing

ACM Transactions on Reconfigurable Technology and Systems (TRETS)

An accurate and efficient method for the incompressible Navier-Stokes equations using the projection method as a preconditioner

Journal of Computational Physics

A parallel computer implementation of the Asymptotic Numerical Method to study thermal convection instabilities

Journal of Computational Physics

Efficient representation of computational meshes

International Journal of Computational Science and Engineering

Hierarchical parallelisation for the solution of stochastic finite element equations

Computers and Structures

CLOMP: accurately characterizing OpenMP application overheads

International Journal of Parallel Programming

EFCOSS: An interactive environment facilitating optimal experimental design

ACM Transactions on Mathematical Software (TOMS)

The role of multi-method linear solvers in PDE-based simulations

ICCSA'03 Proceedings of the 2003 international conference on Computational science and its applications: PartI

Self-adapting numerical software and automatic tuning of heuristics

ICCS'03 Proceedings of the 2003 international conference on Computational science

Self-adapting numerical software and automatic tuning of heuristics

ICCS'03 Proceedings of the 2003 international conference on Computational science

Capturing brain deformation

IS4TM'03 Proceedings of the 2003 international conference on Surgery simulation and soft tissue modeling

Sequential and parallel resolution of the two-group transient neutron diffusion equation using second-degree iterative methods

VECPAR'06 Proceedings of the 7th international conference on High performance computing for computational science

Distributed solution of high-order compact difference schemes for multidimensional convection-diffusion equations

ICCSA'03 Proceedings of the 2003 international conference on Computational science and its applications: PartIII

Geometry driven volumetric registration

IPMI'07 Proceedings of the 20th international conference on Information processing in medical imaging

A Component-Based Framework for Smoothed Particle Hydrodynamics Simulations of Reactive Fluid Flow in Porous Media

International Journal of High Performance Computing Applications

High-level user interfaces for the DOE ACTS collection

PARA'06 Proceedings of the 8th international conference on Applied parallel computing: state of the art in scientific computing

The immersed boundary method for advection-electrodiffusion with implicit timestepping and local mesh refinement

Journal of Computational Physics

CLOMP: accurately characterizing OpenMP application overheads

IWOMP'08 Proceedings of the 4th international conference on OpenMP in a new era of parallelism

BCYCLIC: A parallel block tridiagonal matrix cyclic solver

Journal of Computational Physics

A second order virtual node method for elliptic problems with interfaces and irregular domains

Journal of Computational Physics

A grid-based programming approach for distributed linear algebra applications

Multiagent and Grid Systems

An Interoperable, Data-Structure-Neutral Component for Mesh Query and Manipulation

ACM Transactions on Mathematical Software (TOMS)

Language virtualization for heterogeneous parallel computing

Proceedings of the ACM international conference on Object oriented programming systems languages and applications

Parallel Hybrid Preconditioning: Incomplete Factorization with Selective Sparse Approximate Inversion

SIAM Journal on Scientific Computing

Numerical library reuse in parallel and distributed platforms

VECPAR'10 Proceedings of the 9th international conference on High performance computing for computational science

Two-Level Additive Schwarz Preconditioners for a Weakly Over-Penalized Symmetric Interior Penalty Method

Journal of Scientific Computing

Improving CSE software through reproducibility requirements

Proceedings of the 4th International Workshop on Software Engineering for Computational Science and Engineering

Computationally efficient solution to the Cahn-Hilliard equation: Adaptive implicit time schemes, mesh sensitivity analysis and the 3D isoperimetric problem

Journal of Computational Physics

Algorithm-based recovery for iterative methods without checkpointing

Proceedings of the 20th international symposium on High performance distributed computing

Physalis method for heterogeneous mixtures of dielectrics and conductors: Accurately simulating one million particles using a PC

Journal of Computational Physics

Writing parallel libraries with MPI - common practice, issues, and extensions

EuroMPI'11 Proceedings of the 18th European MPI Users' Group conference on Recent advances in the message passing interface

Formal analysis of MPI-based parallel programs

Communications of the ACM

A parallel subdomain by subdomain implementation of the implicitly restarted Arnoldi/Lanczos method

Computational Mechanics

Liszt: a domain specific language for building portable mesh-based PDE solvers

Proceedings of 2011 International Conference for High Performance Computing, Networking, Storage and Analysis

Physis: an implicitly parallel programming model for stencil computations on large-scale GPU-accelerated supercomputers

Proceedings of 2011 International Conference for High Performance Computing, Networking, Storage and Analysis

Solitary Wave Benchmarks in Magma Dynamics

Journal of Scientific Computing

The Combinatorial BLAS: design, implementation, and applications

International Journal of High Performance Computing Applications

Particle simulations of space weather

Journal of Computational Physics

Fast Algorithms for Bayesian Uncertainty Quantification in Large-Scale Linear Inverse Problems Based on Low-Rank Partial Hessian Approximations

SIAM Journal on Scientific Computing

Data centric techniques for mapping performance data to program variables

Parallel Computing

A second order virtual node method for elliptic problems with interfaces and irregular domains in three dimensions

Journal of Computational Physics

Performance analysis of a cardiac simulation code using IPM

Proceedings of the second workshop on Scalable algorithms for large-scale systems

Model order reduction for large scale engineering models developed in ANSYS

PARA'04 Proceedings of the 7th international conference on Applied Parallel Computing: state of the Art in Scientific Computing

Block preconditioners for the incompressible stokes problem

LSSC'09 Proceedings of the 7th international conference on Large-Scale Scientific Computing

Object-oriented design to automate a high order non-linear solver based on asymptotic numerical method

Advances in Engineering Software

Pinpointing data locality problems using data-centric analysis

CGO '11 Proceedings of the 9th Annual IEEE/ACM International Symposium on Code Generation and Optimization

DAG-Based software frameworks for PDEs

Euro-Par'11 Proceedings of the 2011 international conference on Parallel Processing

MapReduce in MPI for Large-scale graph algorithms

Parallel Computing

Numerical simulation of four-field extended magnetohydrodynamics in dynamically adaptive curvilinear coordinates via Newton-Krylov-Schwarz

Journal of Computational Physics

Efficient parallel implementation of the fully algebraic multiplicative Aitken-RAS preconditioning technique

Advances in Engineering Software

FastMat: A C++ library for multi-index array computations

Advances in Engineering Software

Parallel implicit integration for cloth animations on distributed memory architectures

EG PGV'04 Proceedings of the 5th Eurographics conference on Parallel Graphics and Visualization

A Galerkin least squares method for time harmonic Maxwell equations using Nédélec elements

Journal of Computational Physics

A quantitative comparison between C0 and C1 elements for solving the Cahn-Hilliard equation

Journal of Computational Physics

High-order fluid-structure interaction in 2D and 3D application to blood flow in arteries

Journal of Computational and Applied Mathematics

Use of direct solvers in TFETI massively parallel implementation

PARA'12 Proceedings of the 11th international conference on Applied Parallel and Scientific Computing

Exascale workload characterization and architecture implications

Proceedings of the High Performance Computing Symposium

A unified mathematical framework and an adaptive numerical method for fluid-structure interaction with rigid, deforming, and elastic bodies

Journal of Computational Physics

A matrix free implicit scheme for solution of resistive magneto-hydrodynamics equations on unstructured grids

Journal of Computational Physics

Fully resolved immersed electrohydrodynamics for particle motion, electrolocation, and self-propulsion

Journal of Computational Physics

A parallel implementation of Davidson methods for large-scale eigenvalue problems in SLEPc

ACM Transactions on Mathematical Software (TOMS)

Multiphysics simulations: Challenges and opportunities

International Journal of High Performance Computing Applications

Parallel implicit DNS of temporally-evolving turbulent shear layer instability

Journal of Computational and Applied Mathematics

Hierarchical Krylov and nested Krylov methods for extreme-scale computing

Parallel Computing

An object-oriented framework for finite element analysis based on a compact topological data structure

Advances in Engineering Software

Tpetra, and the use of generic programming in scientific computing

Scientific Programming - A New Overview of the Trilinos Project --Part 1

Reprint of Efficient parallel implementation of the fully algebraic multiplicative Aitken-RAS preconditioning technique

Advances in Engineering Software