gcodeml: A Grid-enabled Tool for Detecting Positive Selection in Biological Evolution

One of the important questions in biological evolution is to know if certain changes along protein coding genes have contributed to the adaptation of species. This problem is known to be biologically complex and computationally very expensive. It, therefore, requires efficient Grid or cluster solutions to overcome the computational challenge. We have developed a Grid-enabled tool (gcodeml) that relies on the PAML (codeml) package to help analyse large phylogenetic datasets on both Grids and computational clusters. Although we report on results for gcodeml, our approach is applicable and customisable to related problems in biology or other scientific domains.Comment: 10 pages, 4 figures. To appear in the HealthGrid 2012 con

Transferable knowledge for Low-cost Decision Making in Cloud Environments

Users of Infrastructure as a Service (IaaS) are increasingly overwhelmed with the wide range of providers and services offered by each provider. As such, many users select services based on description alone. An emerging alternative is to use a decision support system (DSS), which typically relies on gaining insights from observational data in order to assist a customer in making decisions regarding optimal deployment of cloud applications. The primary activity of such systems is the generation of a prediction model (e.g. using machine learning), which requires a significantly large amount of training data. However, considering the varying architectures of applications, cloud providers, and cloud offerings, this activity is not sustainable as it incurs additional time and cost to collect data to train the models. We overcome this through developing a Transfer Learning (TL) approach where knowledge (in the form of a prediction model and associated data set) gained from running an application on a particular IaaS is transferred in order to substantially reduce the overhead of building new models for the performance of new applications and/or cloud infrastructures. In this paper, we present our approach and evaluate it through extensive experimentation involving three real world applications over two major public cloud providers, namely Amazon and Google. Our evaluation shows that our novel two-mode TL scheme increases overall efficiency with a factor of 60% reduction in the time and cost of generating a new prediction model. We test this under a number of cross-application and cross-cloud scenario

Task Runtime Prediction in Scientific Workflows Using an Online Incremental Learning Approach

Many algorithms in workflow scheduling and resource provisioning rely on the performance estimation of tasks to produce a scheduling plan. A profiler that is capable of modeling the execution of tasks and predicting their runtime accurately, therefore, becomes an essential part of any Workflow Management System (WMS). With the emergence of multi-tenant Workflow as a Service (WaaS) platforms that use clouds for deploying scientific workflows, task runtime prediction becomes more challenging because it requires the processing of a significant amount of data in a near real-time scenario while dealing with the performance variability of cloud resources. Hence, relying on methods such as profiling tasks' execution data using basic statistical description (e.g., mean, standard deviation) or batch offline regression techniques to estimate the runtime may not be suitable for such environments. In this paper, we propose an online incremental learning approach to predict the runtime of tasks in scientific workflows in clouds. To improve the performance of the predictions, we harness fine-grained resources monitoring data in the form of time-series records of CPU utilization, memory usage, and I/O activities that are reflecting the unique characteristics of a task's execution. We compare our solution to a state-of-the-art approach that exploits the resources monitoring data based on regression machine learning technique. From our experiments, the proposed strategy improves the performance, in terms of the error, up to 29.89%, compared to the state-of-the-art solutions.Comment: Accepted for presentation at main conference track of 11th IEEE/ACM International Conference on Utility and Cloud Computin

International conference on software engineering and knowledge engineering: Session chair

The Thirtieth International Conference on Software Engineering and Knowledge Engineering (SEKE 2018) will be held at the Hotel Pullman, San Francisco Bay, USA, from July 1 to July 3, 2018. SEKE2018 will also be dedicated in memory of Professor Lofti Zadeh, a great scholar, pioneer and leader in fuzzy sets theory and soft computing. The conference aims at bringing together experts in software engineering and knowledge engineering to discuss on relevant results in either software engineering or knowledge engineering or both. Special emphasis will be put on the transference of methods between both domains. The theme this year is soft computing in software engineering & knowledge engineering. Submission of papers and demos are both welcome

On a Catalogue of Metrics for Evaluating Commercial Cloud Services

Given the continually increasing amount of commercial Cloud services in the market, evaluation of different services plays a significant role in cost-benefit analysis or decision making for choosing Cloud Computing. In particular, employing suitable metrics is essential in evaluation implementations. However, to the best of our knowledge, there is not any systematic discussion about metrics for evaluating Cloud services. By using the method of Systematic Literature Review (SLR), we have collected the de facto metrics adopted in the existing Cloud services evaluation work. The collected metrics were arranged following different Cloud service features to be evaluated, which essentially constructed an evaluation metrics catalogue, as shown in this paper. This metrics catalogue can be used to facilitate the future practice and research in the area of Cloud services evaluation. Moreover, considering metrics selection is a prerequisite of benchmark selection in evaluation implementations, this work also supplements the existing research in benchmarking the commercial Cloud services.Comment: 10 pages, Proceedings of the 13th ACM/IEEE International Conference on Grid Computing (Grid 2012), pp. 164-173, Beijing, China, September 20-23, 201