HIV modelling - parallel implementation strategies
Perrin, Dimitri and Ruskin, Heather J. and Crane, Martin (2006) HIV modelling - parallel implementation strategies. In: Third International Conference on Cluster and Grip Computing Systems, 24-26 November 2006, Venice, Italy.
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We report on the development of a model to
understand why the range of experience with respect to HIV
infection is so diverse, especially with respect to the latency period.
To investigate this, an agent-based approach is used to extract highlevel
behaviour which cannot be described analytically from the set
of interaction rules at the cellular level. A network of independent
matrices mimics the chain of lymph nodes. Dealing with massively
multi-agent systems requires major computational effort. However,
parallelisation methods are a natural consequence and advantage of
the multi-agent approach and, using the MPI library, are here
implemented, tested and optimized. Our current focus is on the
various implementations of the data transfer across the network.
Three communications strategies are proposed and tested, showing
that the most efficient approach is communication based on the
natural lymph-network connectivity.
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