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SP-ChainMail: a GPU-based sparse parallel ChainMail algorithm for deforming medical volumes

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Abstract

ChainMail algorithm is a physically based deformation algorithm that has been successfully used in virtual surgery simulators, where time is a critical factor. In this paper, we present a parallel algorithm, based on ChainMail, and its efficient implementation that reduces the time required to compute deformations over large medical 3D datasets by means of modern GPU capabilities. We also present a 3D blocking scheme that reduces the amount of unnecessary processing threads. For this purpose, this paper describes a new parallel boolean reduction scheme, used to efficiently decide which blocks are computed. Finally, through an extensive analysis, we show the performance improvement achieved by our implementation of the proposed algorithm and the use of the proposed blocking scheme, due to the high spatial and temporal locality of our approach.

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Acknowledgments

This work was supported by the “Formación de Profesorado Universitario, Plan Propio de Investigación” program of the University of Granada. This work was also supported by the project TIN2014-60956-R of the Spanish Ministry of Economy and Competitiveness. JMM acknowledges the Spanish MINECO project MTM2014-52056-P.

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Authors and Affiliations

  1. University of Granada, Granada, Spain

    Alejandro Rodríguez, Alejandro León, Germán Arroyo & José Miguel Mantas

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  1. Alejandro Rodríguez
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  2. Alejandro León
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  3. Germán Arroyo
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  4. José Miguel Mantas
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Correspondence to Alejandro Rodríguez.

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Rodríguez, A., León, A., Arroyo, G. et al. SP-ChainMail: a GPU-based sparse parallel ChainMail algorithm for deforming medical volumes. J Supercomput 71, 3482–3499 (2015). https://doi.org/10.1007/s11227-015-1445-5

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  • DOI: https://doi.org/10.1007/s11227-015-1445-5

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