Related papers: Enabling parallel computing in CRASH
Computational systems biology has provided plenty of insights into cell biology. Early on, the focus was on reaction networks between molecular species. Spatial distribution only began to be considered mostly within the last decade.…
In this paper, we investigate the parallelization of $k$-core decomposition, a method used in graph analysis to identify cohesive substructures and assess node centrality. Although efficient sequential algorithms exist for this task, the…
We consider cosmic ray (CR) modified shocks with both streaming and diffusion in the two-fluid description. Previously, numerical codes were unable to incorporate streaming in this demanding regime, and have never been compared against…
A new parallel algorithm utilizing partitioned global address space (PGAS) programming model to achieve high scalability is reported for particle tracking in direct numerical simulations of turbulent flow. The work is motivated by the…
We present an algorithm for solving the radiative transfer problem on massively parallel computers using adaptive mesh refinement and domain decomposition. The solver is based on the method of characteristics which requires an adaptive…
An efficient algorithm for calculating radiative transfer on massively parallel computers using domain decomposition is presented. The integral formulation of the transfer equation is used to divide the problem into a local but…
The fundamental success of large language models hinges upon the efficacious implementation of large-scale distributed training techniques. Nevertheless, building a vast, high-performance cluster featuring high-speed communication…
Edge-centric distributed computations have appeared as a recent technique to improve the shortcomings of think-like-a-vertex algorithms on large scale-free networks. In order to increase parallelism on this model, edge partitioning -…
The Graph Convolutional Network (GCN) model and its variants are powerful graph embedding tools for facilitating classification and clustering on graphs. However, a major challenge is to reduce the complexity of layered GCNs and make them…
While performing distributed computations in today's cloud-based platforms, execution speed variations among compute nodes can significantly reduce the performance and create bottlenecks like stragglers. Coded computation techniques…
Quantum-based molecular dynamics (QMD) is a highly accurate and transferable method for material science simulations. However, the time scales and system sizes accessible to QMD are typically limited to picoseconds and a few hundred atoms.…
A novel parallelization paradigm has been developed for multi-GPU architectures. Classical multi-GPU parallelization for SPH rely on domain decomposition. In our approach each particle can be assigned to a GPU independently of its position…
The complex structure of interplanetary magnetic fields and their variability, due to solar activity, make it necessary to compute the Cosmic Ray (CR) modulation with numerical simulations. COde for a Speedy Monte Carlo (MC) Involving Cuda…
Calibrating statistical models using Bayesian inference often requires both accurate and timely estimates of parameters of interest. Particle Markov Chain Monte Carlo (p-MCMC) and Sequential Monte Carlo Squared (SMC$^2$) are two methods…
Multidimensional nucleosynthesis studies with hundreds of nuclei linked through thousands of nuclear processes are still computationally prohibitive. To date, most nucleosynthesis studies rely either on hydrostatic/hydrodynamic simulations…
Nucleus decompositions have been shown to be a useful tool for finding dense subgraphs. The coreness value of a clique represents its density based on the number of other cliques it is adjacent to. One useful output of nucleus decomposition…
We present a new open-source cosmological code, called SWIFT, designed to solve the equations of hydrodynamics using a particle-based approach (Smooth Particle Hydrodynamics) on hybrid shared/distributed-memory architectures. SWIFT was…
A numerical scheme that incorporates a thermal leakage injection model into a combined gas dynamics and cosmic ray (CR, hereafter) diffusion-convection code has been developed. The particle injection is followed numerically by filtering the…
Cosmological simulations of structures and galaxies formations have played a fundamental role in the study of the origin, formation and evolution of the Universe. These studies improved enormously with the use of supercomputers and parallel…
Understanding the isotopic composition of cosmic rays (CRs) observed near Earth represents a milestone towards the identification of their origin. Local fluxes contain all the known stable and long-lived isotopes, reflecting the complex…