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We implement a trust region method on the GPU for nonlinear least squares curve fitting problems using a new deep learning Python library called JAX. Our open source package, JAXFit, works for both unconstrained and constrained curve…

Machine Learning · Computer Science 2022-08-26 Lucas R. Hofer , Milan Krstajić , Robert P. Smith

The increasing use of microfluidics in industrial, biomedical, and clinical applications requires a more and more precise control of the microfluidic flows and suspended particles or cells. This leads to higher demands in three-dimensional…

Fluid Dynamics · Physics 2020-11-10 Massimiliano Rossi , Rune Barnkob

Rapid growth in scientific data and a widening gap between computational speed and I/O bandwidth make it increasingly infeasible to store and share all data produced by scientific simulations. Instead, we need methods for reducing data…

Distributed, Parallel, and Cluster Computing · Computer Science 2021-03-02 Jieyang Chen , Lipeng Wan , Xin Liang , Ben Whitney , Qing Liu , David Pugmire , Nicholas Thompson , Matthew Wolf , Todd Munson , Ian Foster , Scott Klasky

Rapid growth in scientific data and a widening gap between computational speed and I/O bandwidth makes it increasingly infeasible to store and share all data produced by scientific simulations. Instead, we need methods for reducing data…

Distributed, Parallel, and Cluster Computing · Computer Science 2021-05-28 Jieyang Chen , Lipeng Wan , Xin Liang , Ben Whitney , Qing Liu , Qian Gong , David Pugmire , Nicholas Thompson , Jong Youl Choi , Matthew Wolf , Todd Munson , Ian Foster , Scott Klasky

General-purpose multiprocessors (as, in our case, Intel IvyBridge and Intel Haswell) increasingly add GPU computing power to the former multicore architectures. When used for embedded applications (for us, Synthetic aperture radar) with…

Mathematical Software · Computer Science 2015-06-01 Mohamed Amine Bergach , Emilien Kofman , Robert de Simone , Serge Tissot , Michel Syska

While the advances in synchrotron light sources, together with the development of focusing optics and detectors, allow nanoscale ptychographic imaging of materials and biological specimens, the corresponding experiments can yield…

Distributed, Parallel, and Cluster Computing · Computer Science 2022-04-05 Xiaodong Yu , Viktor Nikitin , Daniel J. Ching , Selin Aslan , Doga Gursoy , Tekin Bicer

GPU-based fast Fourier transform (FFT) is extremely important for scientific computing and signal processing. However, we find the inefficiency of existing FFT libraries and the absence of fault tolerance against soft error. To address…

Distributed, Parallel, and Cluster Computing · Computer Science 2024-12-10 Shixun Wu , Yujia Zhai , Jinyang Liu , Jiajun Huang , Zizhe Jian , Huangliang Dai , Sheng Di , Franck Cappello , Zizhong Chen

Deep learning kernels exhibit predictable memory accesses and compute patterns, making GPUs' parallel architecture well-suited for their execution. Software and runtime systems for GPUs are optimized to better utilize the stream…

Machine Learning · Computer Science 2024-12-13 Seonho Lee , Amar Phanishayee , Divya Mahajan

For large-scale graph analytics on the GPU, the irregularity of data access and control flow, and the complexity of programming GPUs, have presented two significant challenges to developing a programmable high-performance graph library.…

Distributed, Parallel, and Cluster Computing · Computer Science 2017-01-06 Yangzihao Wang , Yuechao Pan , Andrew Davidson , Yuduo Wu , Carl Yang , Leyuan Wang , Muhammad Osama , Chenshan Yuan , Weitang Liu , Andy T. Riffel , John D. Owens

Solving the shallow water equations efficiently is critical to the study of natural hazards induced by tsunami and storm surge, since it provides more response time in an early warning system and allows more runs to be done for…

Computational Physics · Physics 2019-01-23 Xinsheng Qin , Randall LeVeque , Michael Motley

Continuing our previous studies on QED and QCD processes, we use the graphics processing unit (GPU) for fast calculations of helicity amplitudes for general Standard Model (SM) processes. Additional HEGET codes to handle all SM interactions…

Computational Physics · Physics 2015-06-15 K. Hagiwara , J. Kanzaki , Q. Li , N. Okamura , T. Stelzer

This article presents MuMFiM, an open source application for multiscale modeling of fibrous materials on massively parallel computers. MuMFiM uses two scales to represent fibrous materials such as biological network materials (extracellular…

Distributed, Parallel, and Cluster Computing · Computer Science 2026-05-04 Jacob Merson , Catalin Picu , Mark S. Shephard

With the growing reliance of modern supercomputers on accelerator-based architectures such a GPUs, the development and optimization of electronic structure methods to exploit these massively parallel resources has become a recent priority.…

The performance of graph programs depends highly on the algorithm, the size and structure of the input graphs, as well as the features of the underlying hardware. No single set of optimizations or one hardware platform works well across all…

Distributed, Parallel, and Cluster Computing · Computer Science 2021-01-11 Ajay Brahmakshatriya , Yunming Zhang , Changwan Hong , Shoaib Kamil , Julian Shun , Saman Amarasinghe

We introduce a GPU-accelerated multigrid Gaussian-Plane-Wave density fitting (FFTDF) approach for efficient Fock builds and nuclear gradient evaluations within Kohn-Sham density functional theory, as implemented in the GPU4PySCF module of…

Chemical Physics · Physics 2026-03-27 Rui Li , Xing Zhang , Qiming Sun , Yuanheng Wang , Junjie Yang , Garnet Kin-Lic Chan

Graphics Processing Units are high performance co-processors originally intended to improve the use and the acceleration of computer graphics applications. Because of their performance, researchers have extended their use beyond the…

Instrumentation and Detectors · Physics 2015-03-10 Bachir Bouhadef , Mauro Morganti , Giuseppe Terreni

We have developed several autotuning benchmarks in CUDA that take into account performance-relevant source-code parameters and reach near peak-performance on various GPU architectures. We have used them during the development and evaluation…

Distributed, Parallel, and Cluster Computing · Computer Science 2021-02-11 Jiří Filipovič , Jana Hozzová , Amin Nezarat , Jaroslav Oľha , Filip Petrovič

The emergence of artificial intelligence (AI) accelerators like NVIDIA Tensor Cores offers new opportunities to speed up tensor-heavy scientific computations. However, applying them to quantum chemistry is challenging due to strict accuracy…

Chemical Physics · Physics 2026-04-20 Hua Huang , Wenkai Shao , Jeff Hammond

Graph neural networks (GNNs) are gaining increasing popularity as a promising approach to machine learning on graphs. Unlike traditional graph workloads where each vertex/edge is associated with a scalar, GNNs attach a feature tensor to…

Machine Learning · Computer Science 2020-09-30 Yuwei Hu , Zihao Ye , Minjie Wang , Jiali Yu , Da Zheng , Mu Li , Zheng Zhang , Zhiru Zhang , Yida Wang

We describe the open-source global fitting package GAMBIT: the Global And Modular Beyond-the-Standard-Model Inference Tool. GAMBIT combines extensive calculations of observables and likelihoods in particle and astroparticle physics with a…

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