Biomimetic Design and Fabrication of Interior Architecture of Tissue Scaffolds Using Solid Freeform Fabrication

Modeling, design and fabrication of tissue scaffolds with intricate architecture, porosity and pore size for desired tissue properties presents a challenge in tissue engineering. This paper will present the details of our development in designing and fabrication of the interior architecture of scaffolds using a novel design approach. The Interior Architecture Design (IAD) approach seeks to generate scaffold layered freeform fabrication tool path without forming complicated 3D CAD scaffold models. This involves: applying the principle of layered manufacturing to determine the scaffold individual layered process planes and layered contour; defining the 2D characteristic patterns of the scaffold building blocks (unit cells) to form the Interior Scaffold Pattern; and the generation of process tool path for freeform fabrication of these scaffolds with the specified interior architecture. Feasibility studies applying the IAD algorithm to example models and the generation of fabrication planning instructions will be presented.Mechanical Engineerin

Enhancing the performance of Decoupled Software Pipeline through Backward Slicing

The rapidly increasing number of cores available in multicore processors does not necessarily lead directly to a commensurate increase in performance: programs written in conventional languages, such as C, need careful restructuring, preferably automatically, before the benefits can be observed in improved run-times. Even then, much depends upon the intrinsic capacity of the original program for concurrent execution. The subject of this paper is the performance gains from the combined effect of the complementary techniques of the Decoupled Software Pipeline (DSWP) and (backward) slicing. DSWP extracts threadlevel parallelism from the body of a loop by breaking it into stages which are then executed pipeline style: in effect cutting across the control chain. Slicing, on the other hand, cuts the program along the control chain, teasing out finer threads that depend on different variables (or locations). parts that depend on different variables. The main contribution of this paper is to demonstrate that the application of DSWP, followed by slicing offers notable improvements over DSWP alone, especially when there is a loop-carried dependence that prevents the application of the simpler DOALL optimization. Experimental results show an improvement of a factor of ?1.6 for DSWP + slicing over DSWP alone and a factor of ?2.4 for DSWP + slicing over the original sequential code

PyCUDA and PyOpenCL: A Scripting-Based Approach to GPU Run-Time Code Generation

High-performance computing has recently seen a surge of interest in heterogeneous systems, with an emphasis on modern Graphics Processing Units (GPUs). These devices offer tremendous potential for performance and efficiency in important large-scale applications of computational science. However, exploiting this potential can be challenging, as one must adapt to the specialized and rapidly evolving computing environment currently exhibited by GPUs. One way of addressing this challenge is to embrace better techniques and develop tools tailored to their needs. This article presents one simple technique, GPU run-time code generation (RTCG), along with PyCUDA and PyOpenCL, two open-source toolkits that support this technique. In introducing PyCUDA and PyOpenCL, this article proposes the combination of a dynamic, high-level scripting language with the massive performance of a GPU as a compelling two-tiered computing platform, potentially offering significant performance and productivity advantages over conventional single-tier, static systems. The concept of RTCG is simple and easily implemented using existing, robust infrastructure. Nonetheless it is powerful enough to support (and encourage) the creation of custom application-specific tools by its users. The premise of the paper is illustrated by a wide range of examples where the technique has been applied with considerable success.Comment: Submitted to Parallel Computing, Elsevie

Search-based amorphous slicing

Amorphous slicing is an automated source code extraction technique with applications in many areas of software engineering, including comprehension, reuse, testing and reverse engineering. Algorithms for syntax-preserving slicing are well established, but amorphous slicing is harder because it requires arbitrary transformation; finding good general purpose amorphous slicing algorithms therefore remains as hard as general program transformation. In this paper we show how amorphous slices can be computed using search techniques. The paper presents results from a set of experiments designed to explore the application of genetic algorithms, hill climbing, random search and systematic search to a set of six subject programs. As a benchmark, the results are compared to those from an existing analytical algorithm for amorphous slicing, which was written specifically to perform well with the sorts of program under consideration. The results, while tentative at this stage, do give grounds for optimism. The search techniques proved able to reduce the size of the programs under consideration in all cases, sometimes equaling the performance of the specifically-tailored analytic algorithm. In one case, the search techniques performed better, highlighting a fault in the existing algorith