A Rabin-Karp Implementation for Handling Multiple Pattern-Matching on the GPU

Lucas Saad Nogueira NUNES  Jacir Luiz BORDIM  Yasuaki ITO  Koji NAKANO  

Publication
IEICE TRANSACTIONS on Information and Systems   Vol.E103-D   No.12   pp.2412-2420
Publication Date: 2020/12/01
Publicized: 2020/09/24
Online ISSN: 1745-1361
DOI: 10.1587/transinf.2020PAP0002
Type of Manuscript: Special Section PAPER (Special Section on Parallel, Distributed, and Reconfigurable Computing, and Networking)
Category: Fundamentals of Information Systems
Keyword: 
Rabin-Karp algorithm,  prefix-sums,  pattern matching,  GPGPU,  CUDA,  

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Summary: 
The volume of digital information is growing at an extremely fast pace which, in turn, exacerbates the need of efficient mechanisms to find the presence of a pattern in an input text or a set of input strings. Combining the processing power of Graphics Processing Unit (GPU) with matching algorithms seems a natural alternative to speedup the string-matching process. This work proposes a Parallel Rabin-Karp implementation (PRK) that encompasses a fast-parallel prefix-sums algorithm to maximize parallelization and accelerate the matching verification. Given an input text T of length n and p patterns of length m, the proposed implementation finds all occurrences of p in T in O(m+q+n/τ+nm/q) time, where q is a sufficiently large prime number and τ is the available number of threads. Sequential and parallel versions of the PRK have been implemented. Experiments have been executed on p≥1 patterns of length m comprising of m=10, 20, 30 characters which are compared against a text string of length n=227. The results show that the parallel implementation of the PRK algorithm on NVIDIA V100 GPU provides speedup surpassing 372 times when compared to the sequential implementation and speedup of 12.59 times against an OpenMP implementation running on a multi-core server with 128 threads. Compared to another prominent GPU implementation, the PRK implementation attained speedup surpassing 37 times.