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Clustering is an effective method for data analysis and can be exploited to unknown features of data samples, its applications range from data mining to bioinformatics analysis. Several clustering approaches have been proposed in order to obtain a better trade-off between accuracy and efficiency of the clustering process. It is well-known that no existing clustering algorithm completely satisfies...
Alternating least squares (ALS) has been proved to be an effective solver of matrix factorization for recommender systems. To speedup factorizing performance, various parallel ALS solvers have been proposed to leverage modern multi-core CPUs and many-core GPUs/MICs. Existing implementations are limited in either speed or portability (constrained to certain platforms). In this paper, we present an...
Molecular dynamics (MD) is a computer simulation method of studying physical movements of atoms and molecules that provide detailed microscopic sampling on molecular scale. With the continuous efforts and improvements, MD simulation gained popularity in materials science, biochemistry and biophysics with various application areas and expanding data scale. Assisted Model Building with Energy Refinement...
Whole genome re-sequencing plays a crucial role in biomedical studies. The emergence of genomic big data calls for an enormous amount of computing power. However, current computational methods are inefficient in utilizing available computational resources. In this paper, we address this challenge by optimizing the utilization of the fastest supercomputer in the world - TH-2 supercomputer. TH-2 is...
MD5 Crypt is a cryptographic algorithm used commonly in UNIX system for authentication. By using the additional randomization of the salt and complexity of the scheme, it makes the traditional password cracking techniques invalid on common computing systems and the security of the system is guaranteed. Benefited from the thriving of petaflops heterogeneous supercomputer system recently, such as Tianhe-1A,...
In this paper, we describe our experiment developing an implementation of the Linpack benchmark for TianHe-1, a petascale CPU/GPU supercomputer system, the largest GPU-accelerated system ever attempted before. An adaptive optimization framework is presented to balance the workload distribution across the GPUs and CPUs with the negligible runtime overhead, resulting in the better performance than the...
Solving complex convection-diffusion equations is very important to many practical mathematical and physical problems. After the finite difference discretization, most of the time for equations solution is spent on sparse linear equation solvers. In this paper, our goal is to solve 2D Nonlinear Unsteady Convection-Diffusion Equations by accelerating an iterative algorithm named Jacobi-preconditioned...
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