Vlad Mihai Sima

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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)
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)
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)
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)
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)
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(More)
Many of today’s embedded multiprocessor systems are implemented as heterogeneous systems, consisting of hardware and software components. To automate the composition and integration of multiprocessor systems, the IP-XACT standard was defined to describe hardware IP blocks and (sub)systems. However, the IP-XACT standard does not provide sufficient means to(More)