However, the correctness of CUDA programs relies on the correctness of CUDA compilers, which is difficult to test due to its complexity. In this work, we propose CUDAsmith, a fuzzing framework for CUDA compilers. Our tool can randomly generate determ...
Liu Y, Schmidt B, Maskell DL (2010) CUDASW++2.0: enhanced Smith-Waterman protein database search on CUDA-enabled GPUs based on SIMT and virtualized SIMD abstractions . BMC Res Notes 3 : 93. 10.1186/1756-0500-3-93 PubMed: 20370891
Under the specific support of particular language CUDA, GUGPU can fully perform well. In this paper we use the GPGPU as the parallel computing platform. We present a parallel method of calculation and also provide the way of optimization of memory to improve the efficiency of Smith-Waterman ...
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Contributor cwsmith commented Nov 6, 2024 • edited This PR adds a new version 10.8.6-scorec that resolves the CUDA issue discussed in SCOREC/omega_h#116 and adds conflicts to avoid the CUDA build error for prior versions. cwsmith added 2 commits November 6, 2024 14:31 omegah: ad...
To tackle CUDA-based legacy codes, oneAPI provides a compatibility tool (dpct) that facilitates the migration to DPC++. Due to the large amount of existing CUDA-based software in the bioinformatics context, this paper presents our experiences porting SW#db, a well-known sequence alignment tool,...
It obtains significant performance improvement over CUDASW++ 1.0 using either the optimized SIMT algorithm or the partitioned vectorized algorithm for Smith-Waterman protein database searches by fully exploiting the compute capability of commonly used CUDA-enabled low-cost GPUs. 展开 ...
Improving the Mapping of the Smith-Waterman Sequence Database Search Algorithm onto CUDA GPUsSequence alignment is one of the most important methodologies in the field of computational biology. The most widely used sequence alignment algorithm may be the Smith-Waterman algorithm because of its high ...
Highly efficient mapping of the Smith-Waterman algorithm on CUDA-compatible GPUs. Dohi K,Benkridt K,Ling C, et al. Proceedings of the21stIEEEInternationalConferenceonApplication-specificSystemsArchitecturesandProcessors (ASAP) . 2010K. Dohi, K. Benkridt, C. Ling, T. Hamada, and Y. Shibata. ...
A. Akoglu and G. Striemer, "Scalable and highly parallel implementation of Smith-Waterman on graphics processing unit using CUDA", Cluster Computing, vol. 12, no. 3, pp. 341-352, 2009.Scalable and highly parallel implementation of Smith-Waterman on graphics processing unit using - Ali, ...