2,895 research outputs found
SPH-EXA: Enhancing the Scalability of SPH codes Via an Exascale-Ready SPH Mini-App
Numerical simulations of fluids in astrophysics and computational fluid
dynamics (CFD) are among the most computationally-demanding calculations, in
terms of sustained floating-point operations per second, or FLOP/s. It is
expected that these numerical simulations will significantly benefit from the
future Exascale computing infrastructures, that will perform 10^18 FLOP/s. The
performance of the SPH codes is, in general, adversely impacted by several
factors, such as multiple time-stepping, long-range interactions, and/or
boundary conditions. In this work an extensive study of three SPH
implementations SPHYNX, ChaNGa, and XXX is performed, to gain insights and to
expose any limitations and characteristics of the codes. These codes are the
starting point of an interdisciplinary co-design project, SPH-EXA, for the
development of an Exascale-ready SPH mini-app. We implemented a rotating square
patch as a joint test simulation for the three SPH codes and analyzed their
performance on a modern HPC system, Piz Daint. The performance profiling and
scalability analysis conducted on the three parent codes allowed to expose
their performance issues, such as load imbalance, both in MPI and OpenMP.
Two-level load balancing has been successfully applied to SPHYNX to overcome
its load imbalance. The performance analysis shapes and drives the design of
the SPH-EXA mini-app towards the use of efficient parallelization methods,
fault-tolerance mechanisms, and load balancing approaches.Comment: arXiv admin note: substantial text overlap with arXiv:1809.0801
Learning from the Success of MPI
The Message Passing Interface (MPI) has been extremely successful as a
portable way to program high-performance parallel computers. This success has
occurred in spite of the view of many that message passing is difficult and
that other approaches, including automatic parallelization and directive-based
parallelism, are easier to use. This paper argues that MPI has succeeded
because it addresses all of the important issues in providing a parallel
programming model.Comment: 12 pages, 1 figur
DART-MPI: An MPI-based Implementation of a PGAS Runtime System
A Partitioned Global Address Space (PGAS) approach treats a distributed
system as if the memory were shared on a global level. Given such a global view
on memory, the user may program applications very much like shared memory
systems. This greatly simplifies the tasks of developing parallel applications,
because no explicit communication has to be specified in the program for data
exchange between different computing nodes. In this paper we present DART, a
runtime environment, which implements the PGAS paradigm on large-scale
high-performance computing clusters. A specific feature of our implementation
is the use of one-sided communication of the Message Passing Interface (MPI)
version 3 (i.e. MPI-3) as the underlying communication substrate. We evaluated
the performance of the implementation with several low-level kernels in order
to determine overheads and limitations in comparison to the underlying MPI-3.Comment: 11 pages, International Conference on Partitioned Global Address
Space Programming Models (PGAS14
Reproducible and User-Controlled Software Environments in HPC with Guix
Support teams of high-performance computing (HPC) systems often find
themselves between a rock and a hard place: on one hand, they understandably
administrate these large systems in a conservative way, but on the other hand,
they try to satisfy their users by deploying up-to-date tool chains as well as
libraries and scientific software. HPC system users often have no guarantee
that they will be able to reproduce results at a later point in time, even on
the same system-software may have been upgraded, removed, or recompiled under
their feet, and they have little hope of being able to reproduce the same
software environment elsewhere. We present GNU Guix and the functional package
management paradigm and show how it can improve reproducibility and sharing
among researchers with representative use cases.Comment: 2nd International Workshop on Reproducibility in Parallel Computing
(RepPar), Aug 2015, Vienne, Austria. http://reppar.org
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