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jmodeltest.org: selection of nucleotide substitution models on the cloud
(Oxford University Press, 2014)
[Abstract] The selection of models of nucleotide substitution is one of the major steps of modern phylogenetic analysis. Different tools exist to accomplish this task, among which jModelTest 2 (jMT2) is one of the most ...
FastMPJ: a scalable and efficient Java message-passing library
(Springer New York LLC, 2014)
[Abstract] The performance and scalability of communications are key for high performance computing (HPC) applications in the current multi-core era. Despite the significant benefits (e.g., productivity, portability, ...
Interactive Rendering of NURBS Surfaces
(Pergamon Press, 2014)
[Abstract] NURBS (Non-uniform rational B-splines) surfaces are one of the most useful primitives employed for high quality modeling in CAD/CAM tools and graphics software. Since direct evaluation of NURBS surfaces on the ...
High-performance computing selection of models of DNA substitution for multicore clusters
(Sage Publications Ltd., 2014)
[Abstract] This paper presents the high-performance computing (HPC) support of jModelTest2, the most popular bioinformatic tool for the statistical selection of models of DNA substitution. As this can demand vast computational ...
A 2D algorithm with asymmetric workload for the UPC conjugate gradient method
(Springer New York LLC, 2014)
[Abstract] This paper examines four different strategies, each one with its own data distribution, for implementing the parallel conjugate gradient (CG) method and how they impact communication and overall performance. ...
Scalable PGAS collective operations in NUMA clusters
(Springer New York LLC, 2014-12)
[Abstract] The increasing number of cores per processor is turning manycore-based systems in pervasive. This involves dealing with multiple levels of memory in non uniform memory access (NUMA) systems and processor cores ...
In-memory application-level checkpoint-based migration for MPI programs
(Springer New York LLC, 2014)
[Abstract] Process migration provides many benefits for parallel environments including dynamic load balancing, data access locality or fault tolerance. This paper describes an in-memory application-level checkpoint-based ...
Failure Avoidance in MPI Applications Using an Application-Level Approach
(Oxford University Press, 2014)
[Abstract] Execution times of large-scale computational science and engineering parallel applications are usually longer than the mean-time-between-failures. For this reason, hardware failures must be tolerated by the ...
Extending an Application-Level Checkpointing Tool to Provide Fault Tolerance Support to OpenMP Applications
(Technische Universitaet Graz * Institut fuer Informationssysteme und Computer Medien,Graz University of Technology, Institute for Information Systems and Computer Media, 2014-09)
[Abstract] Despite the increasing popularity of shared-memory systems, there is a lack of tools for providing fault tolerance support to shared-memory applications. CPPC (ComPiler for Portable Checkpointing) is an ...
Assessment, Design and Implementation of a Private Cloud for MapReduce Applications
(Stowarzyszenie Komputerowej Nauki o Materialach i Inzynierii Powierzchni,Association of Computational Materials Science and Surface Engineering, 2014)
[Abstract] Scientific computation and data intensive analyses are ever more frequent. On the one hand, the MapReduce programming model has gained a lot of attention for its applicability in large parallel data analyses and ...