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A Hybrid CPU-GPU System for Fourier-Based Stitching of Optical Microscopy Images

Published

Author(s)

Walid Keyrouz, Bertrand C. Stivalet, Timothy J. Blattner, Shujia Zhou, Joe Chalfoun, Mary C. Brady

Abstract

We present a high performance hybrid CPU-GPU implementation that accelerates the Fourier-based stitching of 2D optical microscopy images to less than 1-minute (end-to-end execution times). This implementation takes advantage of coarse-grained parallelism and organizes the computation into a pipeline architecture that spans available CPU and GPU resources and that overlaps computation and data movement. The implementation achieves a nearly 10x performance improvement over a simple approach to GPU-based acceleration. It stitches a 59 x 42 grid of images in 43 s. It also scales up with available GPUs and processes the same workload in 26 s on a system with two GPUs. For comparison purposes, an optimized single-threaded reference implementation takes nearly 10 min for the same workload while ImageJ/Fiji exceeds 3.5 hours!
Proceedings Title
Sixth Workshop on General Purpose Processing Using GPUs
Conference Dates
March 16-20, 2013
Conference Location
Houston, TX

Keywords

GPU Computing, Parallel Computing, Image Stitching, Optical Microscopy
Created March 15, 2013, Updated February 19, 2017