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HPCG and Graph500 can be regarded as the two most relevant benchmarks for high-performance computing systems. Existing supercomputer designs, however, tend to focus on floating-point peak performance, a metric less relevant for these two benchmarks, leaving resources underutilized, and resulting in little performance improvements, for these benchmarks, over time. In this work, we analyze the implementation...
The fast decrease in cost of DNA sequencing has resulted in an enormous growth in available genome data, and hence led to an increasing demand for fast DNA analysis algorithms used for diagnostics of genetic disorders, such as cancer. One of the most computationally intensive steps in the analysis is represented by the DNA read alignment. In this paper, we present an accelerated version of BWA-MEM,...
Multicore architectures, especially hardware accelerator systems with heterogeneous processing elements, are being increasingly used due to the increasing processing demand of modern digital systems. However, data communication in multicore architectures is one of the main performance bottle-necks. Therefore, reducing data communication overhead is an important method to improve the speed-up of such...
Resource run-time managers have been shown particularly effective for coordinating the usage of the hardware resources by multiple applications, eliminating the necessity of a full-blown operating system. For this reason, we expect that this technology will be increasingly adopted in emerging multi-application reconfigurable systems.
In this paper, we propose a new heuristic for runtime task mapping of application(s) onto reconfigurable architectures. The heuristic is based on hardware configuration reuse, which tries to avoid the reconfiguration overhead of few selected tasks, by reusing the hardware configurations already available in the reconfigurable hardware. We evaluate our heuristic by performing a mapping of an extended...
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