Parallel netCDF: A Scientific High-Performance I/O Interface

Dataset storage, exchange, and access play a critical role in scientific applications. For such purposes netCDF serves as a portable and efficient file format and programming interface, which is popular in numerous scientific application domains. However, the original interface does not provide an efficient mechanism for parallel data storage and access. In this work, we present a new parallel interface for writing and reading netCDF datasets. This interface is derived with minimum changes from the serial netCDF interface but defines semantics for parallel access and is tailored for high performance. The underlying parallel I/O is achieved through MPI-IO, allowing for dramatic performance gains through the use of collective I/O optimizations. We compare the implementation strategies with HDF5 and analyze both. Our tests indicate programming convenience and significant I/O performance improvement with this parallel netCDF interface.Comment: 10 pages,7 figure

Practical Sparse Matrices in C++ with Hybrid Storage and Template-Based Expression Optimisation

Despite the importance of sparse matrices in numerous fields of science, software implementations remain difficult to use for non-expert users, generally requiring the understanding of underlying details of the chosen sparse matrix storage format. In addition, to achieve good performance, several formats may need to be used in one program, requiring explicit selection and conversion between the formats. This can be both tedious and error-prone, especially for non-expert users. Motivated by these issues, we present a user-friendly and open-source sparse matrix class for the C++ language, with a high-level application programming interface deliberately similar to the widely used MATLAB language. This facilitates prototyping directly in C++ and aids the conversion of research code into production environments. The class internally uses two main approaches to achieve efficient execution: (i) a hybrid storage framework, which automatically and seamlessly switches between three underlying storage formats (compressed sparse column, Red-Black tree, coordinate list) depending on which format is best suited and/or available for specific operations, and (ii) a template-based meta-programming framework to automatically detect and optimise execution of common expression patterns. Empirical evaluations on large sparse matrices with various densities of non-zero elements demonstrate the advantages of the hybrid storage framework and the expression optimisation mechanism.Comment: extended and revised version of an earlier conference paper arXiv:1805.0338

Practical Sparse Matrices in C++ with Hybrid Storage and Template-Based Expression Optimisation

Despite the importance of sparse matrices in numerous fields of science, software implementations remain difficult to use for non-expert users, generally requiring the understanding of underlying details of the chosen sparse matrix storage format. In addition, to achieve good performance, several formats may need to be used in one program, requiring explicit selection and conversion between the formats. This can be both tedious and error-prone, especially for non-expert users. Motivated by these issues, we present a user-friendly and open-source sparse matrix class for the C++ language, with a high-level application programming interface deliberately similar to the widely used MATLAB language. This facilitates prototyping directly in C++ and aids the conversion of research code into production environments. The class internally uses two main approaches to achieve efficient execution: (i) a hybrid storage framework, which automatically and seamlessly switches between three underlying storage formats (compressed sparse column, Red-Black tree, coordinate list) depending on which format is best suited and/or available for specific operations, and (ii) a template-based meta-programming framework to automatically detect and optimise execution of common expression patterns. Empirical evaluations on large sparse matrices with various densities of non-zero elements demonstrate the advantages of the hybrid storage framework and the expression optimisation mechanism.Comment: extended and revised version of an earlier conference paper arXiv:1805.0338

A Reconfigurable Tile-Based Architecture to Compute FFT and FIR Functions in the Context of Software-Defined Radio

Software-defined radio (SDR) is the term used for flexible radio systems that can deal with multiple standards. For an efficient implementation, such systems require appropriate reconfigurable architectures. This paper targets the efficient implementation of the most computationally intensive kernels of two significantly different standards, viz. Bluetooth and HiperLAN/2, on the same reconfigurable hardware. These kernels are FIR filtering and FFT. The designed architecture is based on a two-dimensional arrangement of 17 tiles. Each tile contains a multiplier, an adder, local memory and multiplexers allowing flexible communication with the neighboring tiles. The tile-base data path is complemented with a global controller and various memories. The design has been implemented in SystemC and simulated extensively to prove equivalence with a reference all-software design. It has also been synthesized and turns out to outperform significantly other reconfigurable designs with respect to speed and area

Adaptive beamforming for large arrays in satellite communications systems with dispersed coverage

Conventional multibeam satellite communications systems ensure coverage of wide areas through multiple fixed beams where all users inside a beam share the same bandwidth. We consider a new and more flexible system where each user is assigned his own beam, and the users can be very geographically dispersed. This is achieved through the use of a large direct radiating array (DRA) coupled with adaptive beamforming so as to reject interferences and to provide a maximal gain to the user of interest. New fast-converging adaptive beamforming algorithms are presented, which allow to obtain good signal to interference and noise ratio (SINR) with a number of snapshots much lower than the number of antennas in the array. These beamformers are evaluated on reference scenarios

Alpha Entanglement Codes: Practical Erasure Codes to Archive Data in Unreliable Environments

Data centres that use consumer-grade disks drives and distributed peer-to-peer systems are unreliable environments to archive data without enough redundancy. Most redundancy schemes are not completely effective for providing high availability, durability and integrity in the long-term. We propose alpha entanglement codes, a mechanism that creates a virtual layer of highly interconnected storage devices to propagate redundant information across a large scale storage system. Our motivation is to design flexible and practical erasure codes with high fault-tolerance to improve data durability and availability even in catastrophic scenarios. By flexible and practical, we mean code settings that can be adapted to future requirements and practical implementations with reasonable trade-offs between security, resource usage and performance. The codes have three parameters. Alpha increases storage overhead linearly but increases the possible paths to recover data exponentially. Two other parameters increase fault-tolerance even further without the need of additional storage. As a result, an entangled storage system can provide high availability, durability and offer additional integrity: it is more difficult to modify data undetectably. We evaluate how several redundancy schemes perform in unreliable environments and show that alpha entanglement codes are flexible and practical codes. Remarkably, they excel at code locality, hence, they reduce repair costs and become less dependent on storage locations with poor availability. Our solution outperforms Reed-Solomon codes in many disaster recovery scenarios.Comment: The publication has 12 pages and 13 figures. This work was partially supported by Swiss National Science Foundation SNSF Doc.Mobility 162014, 2018 48th Annual IEEE/IFIP International Conference on Dependable Systems and Networks (DSN