An extensible web interface for databases and its application to storing biochemical data

This paper presents a generic web-based database interface implemented in Prolog. We discuss the advantages of the implementation platform and demonstrate the system's applicability in providing access to integrated biochemical data. Our system exploits two libraries of SWI-Prolog to create a schema-transparent interface within a relational setting. As is expected in declarative programming, the interface was written with minimal programming effort due to the high level of the language and its suitability to the task. We highlight two of Prolog's features that are well suited to the task at hand: term representation of structured documents and relational nature of Prolog which facilitates transparent integration of relational databases. Although we developed the system for accessing in-house biochemical and genomic data the interface is generic and provides a number of extensible features. We describe some of these features with references to our research databases. Finally we outline an in-house library that facilitates interaction between Prolog and the R statistical package. We describe how it has been employed in the present context to store output from statistical analysis on to the database.Comment: Online proceedings of the Joint Workshop on Implementation of Constraint Logic Programming Systems and Logic-based Methods in Programming Environments (CICLOPS-WLPE 2010), Edinburgh, Scotland, U.K., July 15, 201

SAMP, the Simple Application Messaging Protocol: Letting applications talk to each other

SAMP, the Simple Application Messaging Protocol, is a hub-based communication standard for the exchange of data and control between participating client applications. It has been developed within the context of the Virtual Observatory with the aim of enabling specialised data analysis tools to cooperate as a loosely integrated suite, and is now in use by many and varied desktop and web-based applications dealing with astronomical data. This paper reviews the requirements and design principles that led to SAMP's specification, provides a high-level description of the protocol, and discusses some of its common and possible future usage patterns, with particular attention to those factors that have aided its success in practice.Comment: 12 pages, 3 figures. Accepted for Virtual Observatory special issue of Astronomy and Computin

An Extensible Timing Infrastructure for Adaptive Large-scale Applications

Real-time access to accurate and reliable timing information is necessary to profile scientific applications, and crucial as simulations become increasingly complex, adaptive, and large-scale. The Cactus Framework provides flexible and extensible capabilities for timing information through a well designed infrastructure and timing API. Applications built with Cactus automatically gain access to built-in timers, such as gettimeofday and getrusage, system-specific hardware clocks, and high-level interfaces such as PAPI. We describe the Cactus timer interface, its motivation, and its implementation. We then demonstrate how this timing information can be used by an example scientific application to profile itself, and to dynamically adapt itself to a changing environment at run time

Towards an aspect weaving BPEL engine

This position paper proposes the use of dynamic aspects and the visitor design pattern to obtain a highly configurable and extensible BPEL engine. Using these two techniques, the core of this infrastructural software can be customised to meet new requirements and add features such as debugging, execution monitoring, or changing to another Web Service selection policy. Additionally, it can easily be extended to cope with customer-specific BPEL extensions. We propose the use of dynamic aspects not only on the engine itself but also on the workflow in order to tackle the problems of Web Service hot deployment and hot fixes to long running processes. In this way, composing aWeb Service "on-the-fly" means weaving its choreography interface into the workflow

Analysis of current middleware used in peer-to-peer and grid implementations for enhancement by catallactic mechanisms

This deliverable describes the work done in task 3.1, Middleware analysis: Analysis of current middleware used in peer-to-peer and grid implementations for enhancement by catallactic mechanisms from work package 3, Middleware Implementation. The document is divided in four parts: The introduction with application scenarios and middleware requirements, Catnets middleware architecture, evaluation of existing middleware toolkits, and conclusions. -- Die Arbeit definiert Anforderungen an Grid und Peer-to-Peer Middleware Architekturen und analysiert diese auf ihre Eignung für die prototypische Umsetzung der Katallaxie. Eine Middleware-Architektur für die Umsetzung der Katallaxie in Application Layer Netzwerken wird vorgestellt.Grid Computing

Proof-of-Concept Application - Annual Report Year 1

In this document the Cat-COVITE Application for use in the CATNETS Project is introduced and motivated. Furthermore an introduction to the catallactic middleware and Web Services Agreement (WS-Agreement) concepts is given as a basis for the future work. Requirements for the application of Cat-COVITE with in catallactic systems are analysed. Finally the integration of the Cat-COVITE application and the catallactic middleware is described. --Grid Computing

The OCarePlatform : a context-aware system to support independent living

Background: Currently, healthcare services, such as institutional care facilities, are burdened with an increasing number of elderly people and individuals with chronic illnesses and a decreasing number of competent caregivers. Objectives: To relieve the burden on healthcare services, independent living at home could be facilitated, by offering individuals and their (in)formal caregivers support in their daily care and needs. With the rise of pervasive healthcare, new information technology solutions can assist elderly people ("residents") and their caregivers to allow residents to live independently for as long as possible. Methods: To this end, the OCarePlatform system was designed. This semantic, data-driven and cloud based back-end system facilitates independent living by offering information and knowledge-based services to the resident and his/her (in)formal caregivers. Data and context information are gathered to realize context-aware and personalized services and to support residents in meeting their daily needs. This body of data, originating from heterogeneous data and information sources, is sent to personalized services, where is fused, thus creating an overview of the resident's current situation. Results: The architecture of the OCarePlatform is proposed, which is based on a service-oriented approach, together with its different components and their interactions. The implementation details are presented, together with a running example. A scalability and performance study of the OCarePlatform was performed. The results indicate that the OCarePlatform is able to support a realistic working environment and respond to a trigger in less than 5 seconds. The system is highly dependent on the allocated memory. Conclusion: The data-driven character of the OCarePlatform facilitates easy plug-in of new functionality, enabling the design of personalized, context-aware services. The OCarePlatform leads to better support for elderly people and individuals with chronic illnesses, who live independently. (C) 2016 Elsevier Ireland Ltd. All rights reserved