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Resilient MPI applications using an application-level checkpointing framework and ULFM
(Springer New York LLC, 2017-01)
[Abstract] Future exascale systems, formed by millions of cores, will present high failure rates, and long-running applications will need to make use of new fault tolerance techniques to ensure successful execution completion. ...
Parameter estimation in large-scale systems biology models: a parallel and self-adaptive cooperative strategy
(BioMed Central Ltd., 2017)
[Abstract]
Background
The development of large-scale kinetic models is one of the current key issues in computational systems biology and bioinformatics. Here we consider the problem of parameter estimation in nonlinear ...
GVLiDAR: an interactive web-based visualization framework to support geospatial measures on lidar data
(Taylor & Francis, 2017)
[Abstract] In recent years lidar technology has experienced a noticeable increase in its relevance and usage in a number of scientific fields. Therefore, software capable of handling lidar data becomes a key point in those ...
A parallel metaheuristic for large mixed-integer dynamic optimization problems, with applications in computational biology
(Public Library of Science, 2017)
[Abstract]
Background:
We consider a general class of global optimization problems dealing with nonlinear dynamic models. Although this class is relevant to many areas of science and engineering, here we are interested ...
MarDRe: efficient MapReduce-based removal of duplicate DNA reads in the cloud
(Oxford University Press, 2017)
[Abstract] This article presents MarDRe, a de novo cloud-ready duplicate and near-duplicate removal tool that can process single- and paired-end reads from FASTQ/FASTA datasets. MarDRe takes advantage of the widely adopted ...
Assessing resilient versus stop-and-restart fault-tolerant solutions in MPI applications
(Springer New York LLC, 2017-01)
[Abstract] The Message Passing Interface (MPI) standard is the most popular parallel programming model for distributed systems. However, it lacks fault-tolerance support and, traditionally, failures are addressed with ...
BPLG–BMCS: GPU-sorting algorithm using a tuning skeleton library
(Springer New York LLC, 2017)
[Abstract] In this work, we present an efficient and portable sorting operator for GPUs. Specifically, we propose an algorithmic variant of the bitonic merge sort which reduces the number of processing stages and internal ...
Facilitating the development of stencil applications using the Heterogeneous Programming Library
(2017)
[Abstract] Stencil computations are very common in scientific codes. Heterogeneous systems achieve good results solving these problems, but their programming is complex because of the ghost regions required in multi-device ...
Parallel definition of tear film maps on distributed-memory clusters for the support of dry eye diagnosis
(Elsevier Ireland Ltd., 2017)
[Abstract] Background and objectives
The analysis of the interference patterns on the tear film lipid layer is a useful clinical test to diagnose dry eye syndrome. This task can be automated with a high degree of accuracy ...
Accelerating the HyperLogLog Cardinality Estimation Algorithm
(Hindawi, 2017)
[Abstract] In recent years, vast amounts of data of different kinds, from pictures and videos from our cameras to software logs from sensor networks and Internet routers operating day and night, are being generated. This ...