Programming the Grid: Distributed Software Components, P2P and Grid Web Services for Scientific Applications

Computational Grids [17,25] have become an important asset in large-scale scientific and engineering research. By providing a set of services that allow a widely distributed collection of resources to be tied together into a relatively seamless computing framework, teams of researchers can collaborate to solve problems that they could not have attempted before. Unfortunately the task of building Grid applications remains extremely difficult because there are few tools available to support developers. To build reliable and re-usable Grid applications, programmers must be equipped with a programming framework that hides the details of most Grid services and allows the developer a consistent, non-complex model in which applications can be composed from well tested, reliable sub-units. This paper describes experiences with using a software component framework for building Grid applications. The framework, which is based on the DOE Common Component Architecture (CCA) [1,2,3,8], allows individual components to export function/service interfaces that can be remotely invoked by other components. The framework also provides a simple messaging/event system for asynchronous notification between application components. The paper also describes how the emerging Web-services [52] model fits with a component-oriented application design philosophy. To illustrate the connection between Web services and Grid application programming we describe a simple design pattern for application factory services which can be used to simplify the task of building reliable Grid programs. Finally we address several issues of Grid programming that better understood from the perspective of Peer-to-Peer (P2P) systems. In particular we describe how models for collaboration and resource sharing fit well with many Grid application scenarios.     

Software architecture definition for on-demand cloud provisioning

Cloud computing is a promising paradigm for the provisioning of IT services. Cloud computing infrastructures, such as those offered by the RESERVOIR project, aim to facilitate the deployment, management and execution of services across multiple physical locations in a seamless manner. In order for service providers to meet their quality of service objectives, it is important to examine how software architectures can be described to take full advantage of the capabilities introduced by such platforms. When dealing with software systems involving numerous loosely coupled components, architectural constraints need to be made explicit to ensure continuous operation when allocating and migrating services from one host in the Cloud to another. In addition, the need for optimising resources and minimising over-provisioning requires service providers to control the dynamic adjustment of capacity throughout the entire service lifecycle. We discuss the implications for software architecture definitions of distributed applications that are to be deployed on Clouds. In particular, we identify novel primitives to support service elasticity, co-location and other requirements, propose language abstractions for these primitives and define their behavioural semantics precisely by establishing constraints on the relationship between architecture definitions and Cloud management infrastructures using a model denotational approach in order to derive appropriate service management cycles. Using these primitives and semantic definition as a basis, we define a service management framework implementation that supports on demand cloud provisioning and present a novel monitoring framework that meets the demands of Cloud based applications.     

Interconnecting Federated Clouds by Using Publish-Subscribe Service

Cloud Federation is an emerging computing model where multiple resources from independent Cloud providers are leveraged to create large-scale distributed virtual computing clusters, operating as into a single Cloud organization. This model enables the implementation of environmental diversity for Cloud applications, and overcomes the provisioning and scalability limits of a single Cloud, by introducing minimal additional cost for the Cloud consumer. In such a scenario, it is necessary to leverage on specific networking technologies that enable the effective support of inter-Cloud communication services between Cloud providers. This paper proposes an interconnection solution for Cloud federations based on publish/subscribe services. Moreover, we discuss some fundamental concerns needed to satisfy the inter-Cloud communication requirements in terms of reliability and availability. Finally, we present some experimental results that highlight some key reliability and denial of service vulnerability concerns in this domain.     

Development of NPACI Grid Application Portals and Portal Web Services

Grid portals and services are emerging as convenient mechanisms for providing the scientific community with familiar and simplified interfaces to the Grid. Our experiences in implementing computational grid portals, and the services needed to support them, has led to the creation of GridPort: a unique, integrated, layered software system for building portals and hosting portal services that access Grid services. The usefulness of this system has been successfully demonstrated with the implementation of several application portals. This system has several unique features: the software is portable and runs on most webservers; written in Perl/CGI, it is easy to support and modify; a single API provides access to a host of Grid services; it is flexible and adaptable; it supports single login between multiple portals; and portals built with it may run across multiple sites and organizations. In this paper we summarize our experiences in building this system, including philosophy and design choices and we describe the software we are building that support portal development, portal services. Finally, we discuss our experiences in developing the GridPort Client Toolkit in support of remote Web client portals and Grid Web services.     

Power efficient virtual machine placement in cloud data centers with a discrete and chaotic hybrid optimization algorithm

Cluster Computing - Cloud computing is a new computation technology that provides services to consumers and businesses. The main idea of Cloud computing is to present software and hardware services...     

A Lightweight Distributed Framework for Computational Offloading in Mobile Cloud Computing

The latest developments in mobile computing technology have enabled intensive applications on the modern Smartphones. However, such applications are still constrained by limitations in processing potentials, storage capacity and battery lifetime of the Smart Mobile Devices (SMDs). Therefore, Mobile Cloud Computing (MCC) leverages the application processing services of computational clouds for mitigating resources limitations in SMDs. Currently, a number of computational offloading frameworks are proposed for MCC wherein the intensive components of the application are outsourced to computational clouds. Nevertheless, such frameworks focus on runtime partitioning of the application for computational offloading, which is time consuming and resources intensive. The resource constraint nature of SMDs require lightweight procedures for leveraging computational clouds. Therefore, this paper presents a lightweight framework which focuses on minimizing additional resources utilization in computational offloading for MCC. The framework employs features of centralized monitoring, high availability and on demand access services of computational clouds for computational offloading. As a result, the turnaround time and execution cost of the application are reduced. The framework is evaluated by testing prototype application in the real MCC environment. The lightweight nature of the proposed framework is validated by employing computational offloading for the proposed framework and the latest existing frameworks. Analysis shows that by employing the proposed framework for computational offloading, the size of data transmission is reduced by 91%, energy consumption cost is minimized by 81% and turnaround time of the application is decreased by 83.5% as compared to the existing offloading frameworks. Hence, the proposed framework minimizes additional resources utilization and therefore offers lightweight solution for computational offloading in MCC.     

SNB-index: a SkipNet and B+ tree based auxiliary Cloud index

Distributed data management plays an essential part in internet applications. With benefits of scalability and reliability, the Cloud storage systems have become an attractive choice for large-scale data processing. However, most Cloud storage systems currently adopt a hash-like approach to retrieve data that only support simple keyword-based enquiries, but lack various forms of information search. In this paper, we propose a novel SkipNet and B+ tree based index structure, called SNB-index, for Cloud computing systems. SNB-index adopts a two-layer architecture. In the lower layer, it uses the B+ tree to construct efficient local index. In the upper layer, it adaptively selects among local index nodes to form a SkipNet based global overlay. Our scalable auxiliary Cloud index can efficiently support a variety of types of queries (e.g. point-query, range-query, similarity-query), and provide high availability. Some new routing algorithms and mapping processing algorithms are designed to enhance performance. Experimental results show that SNB-index is valid and can be an alternative approach for constructing an auxiliary index in Cloud computing systems.     

Software quality in the clouds: a cloud-based solution

Cloud computing, an on-demand computation model that consists of large data-centers (Clouds) managed by cloud providers, offers storage and computation needs for cloud users based on service level agreements (SLAs). Services in cloud computing are offered at relatively low cost. The model, therefore, forms a great target for many applications, such as startup businesses and e-commerce applications. The area of cloud computing has grown rapidly in the last few years; yet, it still faces some obstacles. For example, there is a lack of mechanisms that guarantee for cloud users the quality that they are actually getting, compared to the quality of service that is specified in SLAs. Another example is the concern of security, privacy and trust, since users lose control over their data and programs once they are sent to cloud providers. In this paper, we introduce a new architecture that aids the design and implementation of attestation services. The services monitor cloud-based applications to ensure software quality, such as security, privacy, trust and usability of cloud-based applications. Our approach is a user-centric approach through which users have more control on their own data/applications. Further, the proposed approach is a cloud-based approach where the powers of the clouds are utilized. Simulation results show that many services can be designed based on our architecture, with limited performance overhead.     

The Synthetic Gene Designer: a flexible web platform to explore sequence manipulation for heterologous expression

"Codon optimization" is a general approach to improving heterologous expression where genes are moved from their native genomes into alternatives that exhibit different patterns of codon usage. However, despite reports of successful manipulations and the existence of stand-alone codon optimization software packages or commercial services that offer to redesign genes, the scientific community lacks any systematic understanding of what exactly it means to optimize codon usage. Thus we present a bona fide web application, the "Synthetic Gene Designer," which contrasts with existing software by providing a centralized, free, and transparent platform for the broader scientific community to develop knowledge about synthetic gene design. Consistent with this goal, our software is associated with a moderated e-forum that promotes discussion of synthetic gene design and offers technical support. In addition, the Synthetic Gene Designer presents enhanced functionality over existing software options: for example, it enables users to work with non-standard genetic codes, with user-defined patterns of codon usage and an expanded range of methods for codon optimization. The Synthetic Gene Designer, together with on-line tutorials and the forum, is available at .     

Self-configuring cloud application mashup with goals and capabilities

Cloud mashup is a technique for the seamless composition of SaaS applications from several sources into a single integrated solution. This paper presents a general approach for automatically composing applications and services deployed over the Cloud. The proposed approach implies to encapsulate distributed processes into smart and autonomic entities, namely cloud capabilities. Despite the lack of a central mashup server, these processes are able to autonomously organize in order to establish different ways to address the desired result. The approach uses a couple of languages for describing respectively the mashup logic in terms of goals and the available functionalities in terms of capabilities. The explicit decoupling between user’s goals and capabilities provides the system the freedom to generate the orchestration plan at run-time, according to the contextual state. An industrial case study, conducted in for a scientific project, has provided the conditions for evaluating the running example of a B2B business process for a fashion enterprise.     

DataSpaces: an interaction and coordination framework for?coupled simulation workflows

Emerging high-performance distributed computing environments are enabling new end-to-end formulations in science and engineering that involve multiple interacting processes and data-intensive application workflows. For example, current fusion simulation efforts are exploring coupled models and codes that simultaneously simulate separate application processes, such as the core and the edge turbulence. These components run on different high performance computing resources, need to interact at runtime with each other and with services for data monitoring, data analysis and visualization, and data archiving. As a result, they require efficient and scalable support for dynamic and flexible couplings and interactions, which remains a challenge. This paper presents DataSpaces a flexible interaction and coordination substrate that addresses this challenge. DataSpaces essentially implements a semantically specialized virtual shared space abstraction that can be associatively accessed by all components and services in the application workflow. It enables live data to be extracted from running simulation components, indexes this data online, and then allows it to be monitored, queried and accessed by other components and services via the space using semantically meaningful operators. The underlying data transport is asynchronous, low-overhead and largely memory-to-memory. The design, implementation, and experimental evaluation of DataSpaces using a coupled fusion simulation workflow is presented.     

iFlora科技领域云的建设构想

应对社会公众和国家相关行业和部门对植物物种认知的广泛需求,新一代植物志（iFlora）应运而生。为了服务于该研究计划,本文提出了iFlora科技领域云的建设构想,拟建设由云服务端(资源层、服务层)、植物志智能生成系统、客户端(应用层)和核心用户群组成的信息化协同工作环境和应用平台：即(1) 在云端搭建协同工作平台,用以整合植物DNA条形码标准数据库、植物多样性信息数据库、计算模型库等信息化资源;(2) 在虚拟化科研平台中嵌入智能生成系统,为终端用户生成和展示智能植物志;(3) 在客户端开发多平台移动应用程序,服务于终端用户和实际应用。该建设将遵循植物学发展的规律,在植物学与信息化融合的过程中,形成众多科学工作者能够共同参与的,可共享、无障碍、无缝链接的云工作环境。该环境将整合机器、网络和分类学家的认知能力,为公众认知植物世界提供智能的认知系统。     

CryptoGA: a cryptosystem based on genetic algorithm for cloud data security

Cluster Computing - Cloud Computing is referred to as a set of hardware and software that are being combined to deliver various services of computing. The cloud keeps the services for delivery of...     

SpeQuloS: a QoS service for hybrid and elastic computing infrastructures

The large choice of Distributed Computing Infrastructures (DCIs) available allows users to select and combine their preferred architectures amongst Clusters, Grids, Clouds, Desktop Grids and more. In these hybrid DCIs, elasticity is emerging as a key property. In elastic infrastructures, resources available to execute application continuously vary, either because of application requirements or because of constraints on the infrastructure, such as node volatility. In the former case, there is no guarantee that the computing resources will remain available during the entire execution of an application. In this paper, we show that Bag-of-Tasks (BoT) execution on these “Best-Effort” infrastructures suffer from a drop of the task completion rate at the end of the execution. The SpeQuloS service presented in this paper improves the Quality of Service (QoS) of BoT applications executed on hybrid and elastic infrastructures. SpeQuloS monitors the execution of the BoT, and dynamically supplies fast and reliable Cloud resources when the critical part of the BoT is executed. SpeQuloS offers several features to hybrid DCIs users, such as estimating completion time and execution speedup. Performance evaluation shows that BoT executions can be accelerated by a factor 2, while offloading less than 2.5 % of the workload to the Cloud. We report on several scenarios where SpeQuloS is deployed on hybrid infrastructures featuring a large variety of infrastructures combinations. In the context of the European Desktop Grid Initiative (EDGI), SpeQuloS is operated to improve QoS of Desktop Grids using resources from private Clouds. We present a use case where SpeQuloS uses both EC2 regular and spot instances to decrease the cost of computation while preserving a similar QoS level. Finally, in the last scenario SpeQuloS allows to optimize Grid5000 resources utilization.     

Hybrid Models and Biological Model Reduction with PyDSTool

The PyDSTool software environment is designed to develop, simulate, and analyze dynamical systems models, particularly for biological applications. Unlike the engineering application focus and graphical specification environments of most general purpose simulation tools, PyDSTool provides a programmatic environment well suited to exploratory data- and hypothesis-driven biological modeling problems. In this work, we show how the environment facilitates the application of hybrid dynamical modeling to the reverse engineering of complex biophysical dynamics; in this case, of an excitable membrane. The example demonstrates how the software provides novel tools that support the inference and validation of mechanistic hypotheses and the inclusion of data constraints in both quantitative and qualitative ways. The biophysical application is broadly relevant to models in the biosciences. The open source and platform-independent PyDSTool package is freely available under the BSD license from http://sourceforge.net/projects/pydstool/. The hosting service provides links to documentation and online forums for user support.     

Windows Instant Messaging App Forensics: Facebook and Skype as Case Studies

Instant messaging (IM) has changed the way people communicate with each other. However, the interactive and instant nature of these applications (apps) made them an attractive choice for malicious cyber activities such as phishing. The forensic examination of IM apps for modern Windows 8.1 (or later) has been largely unexplored, as the platform is relatively new. In this paper, we seek to determine the data remnants from the use of two popular Windows Store application software for instant messaging, namely Facebook and Skype on a Windows 8.1 client machine. This research contributes to an in-depth understanding of the types of terrestrial artefacts that are likely to remain after the use of instant messaging services and application software on a contemporary Windows operating system. Potential artefacts detected during the research include data relating to the installation or uninstallation of the instant messaging application software, log-in and log-off information, contact lists, conversations, and transferred files.     

Secure outsourcing of modular exponentiations in cloud and cluster computing

Cloud computing and cluster computing are user-centric computing services. The shared software and hardware resources and information can be provided to the computers and other equipments according to the demands of users. A majority of services are deployed through outsourcing. Outsourcing computation allows resource-constrained clients to outsource their complex computation workloads to a powerful server which is rich of computation resources. Modular exponentiation is one of the most complex computations in public key based cryptographic schemes. It is useful to reduce the computation cost of the clients by using outsourcing computation. In this paper, we propose a novel outsourcing algorithm for modular exponentiation based on the new mathematical division under the setting of two non-colluding cloud servers. The base and the power of the outsourced data can be kept private and the efficiency is improved compared with former works.     

Experimental measurements and design guidelines for real-time software encryption in multimedia wireless LANs

To secure interactive multimedia applications in wireless LANs (WLANs), it is pertinent to implement real time cryptographic services. In this paper we evaluate the use of software based encryption algorithms that are implemented in the layer service provider as defined by WinSock 2 for Windows 95/NT. Our measurements show that software implementation of various encryptors can sustain the throughput requirements of interactive multimedia applications for WLANs such as telephone-quality audio, video conferencing, and MPEG video. We present a design methodology that includes guidelines for a secure multimedia system design in terms of the encryption method chosen as a function of required application throughput, system configuration, protocol layers overhead and wireless LAN throughput. This revised version was published online in July 2006 with corrections to the Cover Date.     

The Mining Minds digital health and wellness framework

Background

The provision of health and wellness care is undergoing an enormous transformation. A key element of this revolution consists in prioritizing prevention and proactivity based on the analysis of people’s conducts and the empowerment of individuals in their self-management. Digital technologies are unquestionably destined to be the main engine of this change, with an increasing number of domain-specific applications and devices commercialized every year; however, there is an apparent lack of frameworks capable of orchestrating and intelligently leveraging, all the data, information and knowledge generated through these systems.

Methods

This work presents Mining Minds, a novel framework that builds on the core ideas of the digital health and wellness paradigms to enable the provision of personalized support. Mining Minds embraces some of the most prominent digital technologies, ranging from Big Data and Cloud Computing to Wearables and Internet of Things, as well as modern concepts and methods, such as context-awareness, knowledge bases or analytics, to holistically and continuously investigate on people’s lifestyles and provide a variety of smart coaching and support services.

Results

This paper comprehensively describes the efficient and rational combination and interoperation of these technologies and methods through Mining Minds, while meeting the essential requirements posed by a framework for personalized health and wellness support. Moreover, this work presents a realization of the key architectural components of Mining Minds, as well as various exemplary user applications and expert tools to illustrate some of the potential services supported by the proposed framework.

Conclusions

Mining Minds constitutes an innovative holistic means to inspect human behavior and provide personalized health and wellness support. The principles behind this framework uncover new research ideas and may serve as a reference for similar initiatives.

     

Harnessing Different Motivational Frames via Mobile Phones to Promote Daily Physical Activity and Reduce Sedentary Behavior in Aging Adults

Mobile devices are a promising channel for delivering just-in-time guidance and support for improving key daily health behaviors. Despite an explosion of mobile phone applications aimed at physical activity and other health behaviors, few have been based on theoretically derived constructs and empirical evidence. Eighty adults ages 45 years and older who were insufficiently physically active, engaged in prolonged daily sitting, and were new to smartphone technology, participated in iterative design development and feasibility testing of three daily activity smartphone applications based on motivational frames drawn from behavioral science theory and evidence. An “analytically” framed custom application focused on personalized goal setting, self-monitoring, and active problem solving around barriers to behavior change. A “socially” framed custom application focused on social comparisons, norms, and support. An “affectively” framed custom application focused on operant conditioning principles of reinforcement scheduling and emotional transference to an avatar, whose movements and behaviors reflected the physical activity and sedentary levels of the user. To explore the applications'' initial efficacy in changing regular physical activity and leisure-time sitting, behavioral changes were assessed across eight weeks in 68 participants using the CHAMPS physical activity questionnaire and the Australian sedentary behavior questionnaire. User acceptability of and satisfaction with the applications was explored via a post-intervention user survey. The results indicated that the three applications were sufficiently robust to significantly improve regular moderate-to-vigorous intensity physical activity and decrease leisure-time sitting during the 8-week behavioral adoption period. Acceptability of the applications was confirmed in the post-intervention surveys for this sample of midlife and older adults new to smartphone technology. Preliminary data exploring sustained use of the applications across a longer time period yielded promising results. The results support further systematic investigation of the efficacy of the applications for changing these key health-promoting behaviors.