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In the last decade, a considerable amount of effort was spent on raising the implementation level of hardware systems by automatically extracting the parallelism from input applications and using tools to generate Hardware/Software co-design solutions. However, the tools developed thus far either focus on particular application domains or they impose severe(More)
We present the first accelerated implementation of BWA-MEM, a popular genome sequence alignment algorithm widely used in next generation sequencing genomics pipelines. The Smith-Waterman-like sequence alignment kernel requires a significant portion of overall execution time. We propose and evaluate a number of FPGA-based systolic array architectures,(More)
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. This paper introduces(More)
In this paper, we present a runtime optimization targeting the speedup of applications running on a reconfigurable platform supporting the MOLEN programming paradigm. More specifically, for functions that have an execution time dependent on parameters, we propose an online adaptive decision algorithm to determine if the gain of running that function in(More)
High-level synthesis (HLS) is increasingly popular for the design of high-performance and energy-efficient heterogeneous systems, shortening time-to-market and addressing today's system complexity. HLS allows designers to work at a higher-level of abstraction by using a software program to specify the hardware functionality. Additionally, HLS is(More)
The aim of the hartes project is to facilitate and automate the rapid design and development of heterogeneous embedded systems, targeting a combination of a general purpose embedded processor, digital signal processing and reconfigurable hardware. In this paper, we evaluate three tools from the hartes toolchain supporting profiling, compilation, and HDL(More)
Multitasking reconfigurable computers with one or more reconfigurable processors are being used increasingly during the past few years. One of the major challenges in such systems is the scheduling and allocation of the tasks on the reconfigurable fabric. In this paper we present a two level scheduling mechanism for tightly coupled reconfigurable(More)
There has been a steady increase in the utilization of heterogeneous architectures to tackle the growing need for computing performance and low-power systems. The execution of computation-intensive functions on specialized hardware enables to achieve substantial speedups and power savings. However, with a large legacy code base and software engineering(More)
The hArtes project addresses optimal and rapid design of embedded systems from high-level descriptions, targeting a combination of embedded processors, digital signal processing, and reconfigurable hardware. In this paper, we present three tools from the hArtes toolchain, namely profiling, compilation, and HDL generation tools, that facilitate the HW/SW(More)