HPC Cloud for Scientific and Business Applications: Taxonomy, Vision, and Research Challenges

High Performance Computing (HPC) clouds are becoming an alternative to on-premise clusters for executing scientific applications and business analytics services. Most research efforts in HPC cloud aim to understand the cost-benefit of moving resource-intensive applications from on-premise environments to public cloud platforms. Industry trends show hybrid environments are the natural path to get the best of the on-premise and cloud resources---steady (and sensitive) workloads can run on on-premise resources and peak demand can leverage remote resources in a pay-as-you-go manner. Nevertheless, there are plenty of questions to be answered in HPC cloud, which range from how to extract the best performance of an unknown underlying platform to what services are essential to make its usage easier. Moreover, the discussion on the right pricing and contractual models to fit small and large users is relevant for the sustainability of HPC clouds. This paper brings a survey and taxonomy of efforts in HPC cloud and a vision on what we believe is ahead of us, including a set of research challenges that, once tackled, can help advance businesses and scientific discoveries. This becomes particularly relevant due to the fast increasing wave of new HPC applications coming from big data and artificial intelligence.Comment: 29 pages, 5 figures, Published in ACM Computing Surveys (CSUR

Service and cloud computing supporting genomic analysis of the mammalian species

 This research focused on building Software as a Service clouds to support mammalian genomic applications such as personalized medicine. Outcomes of this research included a Software as a Service cloud framework, the Uncinus research cloud and novel genomic analysis software. Results have been published in high ranking peer-reviewed international journals

Survey and Analysis of Production Distributed Computing Infrastructures

This report has two objectives. First, we describe a set of the production distributed infrastructures currently available, so that the reader has a basic understanding of them. This includes explaining why each infrastructure was created and made available and how it has succeeded and failed. The set is not complete, but we believe it is representative. Second, we describe the infrastructures in terms of their use, which is a combination of how they were designed to be used and how users have found ways to use them. Applications are often designed and created with specific infrastructures in mind, with both an appreciation of the existing capabilities provided by those infrastructures and an anticipation of their future capabilities. Here, the infrastructures we discuss were often designed and created with specific applications in mind, or at least specific types of applications. The reader should understand how the interplay between the infrastructure providers and the users leads to such usages, which we call usage modalities. These usage modalities are really abstractions that exist between the infrastructures and the applications; they influence the infrastructures by representing the applications, and they influence the ap- plications by representing the infrastructures

ASETS: A SDN Empowered Task Scheduling System for HPCaaS on the Cloud

With increasing demands for High Performance Computing (HPC), new ideas and methods are emerged to utilize computing resources more efficiently. Cloud Computing appears to provide benefits such as resource pooling, broad network access and cost efficiency for the HPC applications. However, moving the HPC applications to the cloud can face several key challenges, primarily, the virtualization overhead, multi-tenancy and network latency. Software-Defined Networking (SDN) as an emerging technology appears to pave the road and provide dynamic manipulation of cloud networking such as topology, routing, and bandwidth allocation. This paper presents a new scheme called ASETS which targets dynamic configuration and monitoring of cloud networking using SDN to improve the performance of HPC applications and in particular task scheduling for HPC as a service on the cloud (HPCaaS). Further, SETSA, (SDN-Empowered Task Scheduler Algorithm) is proposed as a novel task scheduling algorithm for the offered ASETS architecture. SETSA monitors the network bandwidth to take advantage of its changes when submitting tasks to the virtual machines. Empirical analysis of the algorithm in different case scenarios show that SETSA has significant potentials to improve the performance of HPCaaS platforms by increasing the bandwidth efficiency and decreasing task turnaround time. In addition, SETSAW, (SETSA Window) is proposed as an improvement of the SETSA algorithm

Workflow models for heterogeneous distributed systems

The role of data in modern scientific workflows becomes more and more crucial. The unprecedented amount of data available in the digital era, combined with the recent advancements in Machine Learning and High-Performance Computing (HPC), let computers surpass human performances in a wide range of fields, such as Computer Vision, Natural Language Processing and Bioinformatics. However, a solid data management strategy becomes crucial for key aspects like performance optimisation, privacy preservation and security. Most modern programming paradigms for Big Data analysis adhere to the principle of data locality: moving computation closer to the data to remove transfer-related overheads and risks. Still, there are scenarios in which it is worth, or even unavoidable, to transfer data between different steps of a complex workflow. The contribution of this dissertation is twofold. First, it defines a novel methodology for distributed modular applications, allowing topology-aware scheduling and data management while separating business logic, data dependencies, parallel patterns and execution environments. In addition, it introduces computational notebooks as a high-level and user-friendly interface to this new kind of workflow, aiming to flatten the learning curve and improve the adoption of such methodology. Each of these contributions is accompanied by a full-fledged, Open Source implementation, which has been used for evaluation purposes and allows the interested reader to experience the related methodology first-hand. The validity of the proposed approaches has been demonstrated on a total of five real scientific applications in the domains of Deep Learning, Bioinformatics and Molecular Dynamics Simulation, executing them on large-scale mixed cloud-High-Performance Computing (HPC) infrastructures

On Evaluating Commercial Cloud Services: A Systematic Review

Background: Cloud Computing is increasingly booming in industry with many competing providers and services. Accordingly, evaluation of commercial Cloud services is necessary. However, the existing evaluation studies are relatively chaotic. There exists tremendous confusion and gap between practices and theory about Cloud services evaluation. Aim: To facilitate relieving the aforementioned chaos, this work aims to synthesize the existing evaluation implementations to outline the state-of-the-practice and also identify research opportunities in Cloud services evaluation. Method: Based on a conceptual evaluation model comprising six steps, the Systematic Literature Review (SLR) method was employed to collect relevant evidence to investigate the Cloud services evaluation step by step. Results: This SLR identified 82 relevant evaluation studies. The overall data collected from these studies essentially represent the current practical landscape of implementing Cloud services evaluation, and in turn can be reused to facilitate future evaluation work. Conclusions: Evaluation of commercial Cloud services has become a world-wide research topic. Some of the findings of this SLR identify several research gaps in the area of Cloud services evaluation (e.g., the Elasticity and Security evaluation of commercial Cloud services could be a long-term challenge), while some other findings suggest the trend of applying commercial Cloud services (e.g., compared with PaaS, IaaS seems more suitable for customers and is particularly important in industry). This SLR study itself also confirms some previous experiences and reveals new Evidence-Based Software Engineering (EBSE) lessons

A manifesto for future generation cloud computing: research directions for the next decade

The Cloud computing paradigm has revolutionised the computer science horizon during the past decade and has enabled the emergence of computing as the fifth utility. It has captured significant attention of academia, industries, and government bodies. Now, it has emerged as the backbone of modern economy by offering subscription-based services anytime, anywhere following a pay-as-you-go model. This has instigated (1) shorter establishment times for start-ups, (2) creation of scalable global enterprise applications, (3) better cost-to-value associativity for scientific and high performance computing applications, and (4) different invocation/execution models for pervasive and ubiquitous applications. The recent technological developments and paradigms such as serverless computing, software-defined networking, Internet of Things, and processing at network edge are creating new opportunities for Cloud computing. However, they are also posing several new challenges and creating the need for new approaches and research strategies, as well as the re-evaluation of the models that were developed to address issues such as scalability, elasticity, reliability, security, sustainability, and application models. The proposed manifesto addresses them by identifying the major open challenges in Cloud computing, emerging trends, and impact areas. It then offers research directions for the next decade, thus helping in the realisation of Future Generation Cloud Computing