State of the Art in Parallel Computing with R

R is a mature open-source programming language for statistical computing and graphics. Many areas of statistical research are experiencing rapid growth in the size of data sets. Methodological advances drive increased use of simulations. A common approach is to use parallel computing. This paper presents an overview of techniques for parallel computing with R on computer clusters, on multi-core systems, and in grid computing. It reviews sixteen different packages, comparing them on their state of development, the parallel technology used, as well as on usability, acceptance, and performance. Two packages (snow, Rmpi) stand out as particularly suited to general use on computer clusters. Packages for grid computing are still in development, with only one package currently available to the end user. For multi-core systems five different packages exist, but a number of issues pose challenges to early adopters. The paper concludes with ideas for further developments in high performance computing with R. Example code is available in the appendix.

Service-Oriented Ad Hoc Grid Computing

Subject of this thesis are the design and implementation of an ad hoc Grid infrastructure. The vision of an ad hoc Grid further evolves conventional service-oriented Grid systems into a more robust, more flexible and more usable environment that is still standards compliant and interoperable with other Grid systems. A lot of work in current Grid middleware systems is focused on providing transparent access to high performance computing (HPC) resources (e.g. clusters) in virtual organizations spanning multiple institutions. The ad hoc Grid vision presented in this thesis exceeds this view in combining classical Grid components with more flexible components and usage models, allowing to form an environment combining dedicated HPC-resources with a large number of personal computers forming a "Desktop Grid". Three examples from medical research, media research and mechanical engineering are presented as application scenarios for a service-oriented ad hoc Grid infrastructure. These sample applications are also used to derive requirements for the runtime environment as well as development tools for such an ad hoc Grid environment. These requirements form the basis for the design and implementation of the Marburg ad hoc Grid Environment (MAGE) and the Grid Development Tools for Eclipse (GDT). MAGE is an implementation of a WSRF-compliant Grid middleware, that satisfies the criteria for an ad hoc Grid middleware presented in the introduction to this thesis. GDT extends the popular Eclipse integrated development environment by components that support application development both for traditional service-oriented Grid middleware systems as well as ad hoc Grid infrastructures such as MAGE. These development tools represent the first fully model driven approach to Grid service development integrated with infrastructure management components in service-oriented Grid computing. This thesis is concluded by a quantitative discussion of the performance overhead imposed by the presented extensions to a service-oriented Grid middleware as well as a discussion of the qualitative improvements gained by the overall solution. The conclusion of this thesis also gives an outlook on future developments and areas for further research. One of these qualitative improvements is "hot deployment" the ability to install and remove Grid services in a running node without interrupt to other active services on the same node. Hot deployment has been introduced as a novelty in service-oriented Grid systems as a result of the research conducted for this thesis. It extends service-oriented Grid computing with a new paradigm, making installation of individual application components a functional aspect of the application. This thesis further explores the idea of using peer-to-peer (P2P networking for Grid computing by combining a general purpose P2P framework with a standard compliant Grid middleware. In previous work the application of P2P systems has been limited to replica location and use of P2P index structures for discovery purposes. The work presented in this thesis also uses P2P networking to realize seamless communication accross network barriers. Even though the web service standards have been designed for the internet, the two-way communication requirement introduced by the WSRF-standards and particularly the notification pattern is not well supported by the web service standards. This defficiency can be answered by mechanisms that are part of such general purpose P2P communication frameworks. Existing security infrastructures for Grid systems focus on protection of data during transmission and access control to individual resources or the overall Grid environment. This thesis focuses on security issues within a single node of a dynamically changing service-oriented Grid environment. To counter the security threads arising from the new capabilities of an ad hoc Grid, a number of novel isolation solutions are presented. These solutions address security issues and isolation on a fine-grained level providing a range of applicable basic mechanisms for isolation, ranging from lightweight system call interposition to complete para-virtualization of the operating systems

Reliable scientific service compositions

Abstract. Distributed service oriented architectures (SOAs) are increas-ingly used by users, who are insufficiently skilled in the art of distributed system programming. A good example are computational scientists who build large-scale distributed systems using service-oriented Grid comput-ing infrastructures. Computational scientists use these infrastructure to build scientific applications, which are composed from basic Web ser-vices into larger orchestrations using workflow languages, such as the Business Process Execution Language. For these users reliability of the infrastructure is of significant importance and that has to be provided in the presence of hardware or operational failures. The primitives avail-able to achieve such reliability currently leave much to be desired by users who do not necessarily have a strong education in distributed sys-tem construction. We characterise scientific service compositions and the environment they operate in by introducing the notion of global scien-tific BPEL workflows. We outline the threats to the reliability of such workflows and discuss the limited support that available specifications and mechanisms provide to achieve reliability. Furthermore, we propose a line of research to address the identified issues by investigating auto-nomic mechanisms that assist computational scientists in building, exe-cuting and maintaining reliable workflows.

Development and Initial testing of a Virtual Laboratory for the Build-up and Testing of Microgrid Management Algorithms

In a bid of facilitating the increasing penetration of intermittent and random renewable energies, microgrids along with their management algorithms are becoming crucial assets. To prove their effectiveness, these algorithms need to be tested in real environments and/or laboratories, which can be very difficult in many cases, especially at the initial development stages. To solve this issue, this article proposes the use of a laboratory digital twin, i.e., a virtual laboratory with a behaviour that is similar to that of real installations, aimed at facilitating the development, testing and debugging of microgrids management algorithms. The proposed solution is demonstrated to be safe and complete when it comes to test these algorithms.Acknowledgement This publication is part of the Sistemas energéticos aislados 100% renovables ENERISLA (exp. CER-20191002) Project which has received a grant from the Centre for Industrial Technological Development (CDTI, Centro para el Desarrollo Tecnológico Industrial in Spanish) under the Ministry of Science and Innovation in the call Acreditación y Concesión de Ayudas destinadas a Centros Tecnológicos de Excelencia “Cervera” in 2019. This research has received funding from the European Union’s Horizon 2020 Framework Program for Research and Innovation under grant agreement no. 893857

State-of-the-Art in Parallel Computing with R

R is a mature open-source programming language for statistical computing and graphics. Many areas of statistical research are experiencing rapid growth in the size of data sets. Methodological advances drive increased use of simulations. A common approach is to use parallel computing. This paper presents an overview of techniques for parallel computing with R on computer clusters, on multi-core systems, and in grid computing. It reviews sixteen different packages, comparing them on their state of development, the parallel technology used, as well as on usability, acceptance, and performance. Two packages (snow, Rmpi) stand out as particularly useful for general use on computer clusters. Packages for grid computing are still in development, with only one package currently available to the end user. For multi-core systems four different packages exist, but a number of issues pose challenges to early adopters. The paper concludes with ideas for further developments in high performance computing with R. Example code is available in the appendix