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System and method for executing compute-intensive database user-defined programs on an attached high-performance parallel computer

The invention pertains to a system and method for dispatching and executing the compute-intensive parts of the workflow for database queries on an attached high-performance, parallel computing platform. The performance overhead for moving the required data and results between the database platform and the high-performance computing platform where the workload is executed is amortized in several ways, for example,
    • by exploiting the fine-grained parallelism and superior hardware performance on the parallel computing platform for speeding up compute-intensive calculations,
    • by using in-memory data structures on the parallel computing platform to cache data sets between a sequence of time-lagged queries on the same data, so that these queries can be processed without further data transfer overheads,
    • by replicating data within the parallel computing platform so that multiple independent queries on the same target data set can be simultaneously processed using independent parallel partitions of the high-performance computing platform.
A specific embodiment of this invention was used for deploying a bio-informatics application involving gene and protein sequence matching using the Smith-Waterman algorithm on a database system connected via an Ethernet local area network to a parallel supercomputer.
Owner:IBM CORP
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