47,176 research outputs found
BioWorkbench: A High-Performance Framework for Managing and Analyzing Bioinformatics Experiments
Advances in sequencing techniques have led to exponential growth in
biological data, demanding the development of large-scale bioinformatics
experiments. Because these experiments are computation- and data-intensive,
they require high-performance computing (HPC) techniques and can benefit from
specialized technologies such as Scientific Workflow Management Systems (SWfMS)
and databases. In this work, we present BioWorkbench, a framework for managing
and analyzing bioinformatics experiments. This framework automatically collects
provenance data, including both performance data from workflow execution and
data from the scientific domain of the workflow application. Provenance data
can be analyzed through a web application that abstracts a set of queries to
the provenance database, simplifying access to provenance information. We
evaluate BioWorkbench using three case studies: SwiftPhylo, a phylogenetic tree
assembly workflow; SwiftGECKO, a comparative genomics workflow; and RASflow, a
RASopathy analysis workflow. We analyze each workflow from both computational
and scientific domain perspectives, by using queries to a provenance and
annotation database. Some of these queries are available as a pre-built feature
of the BioWorkbench web application. Through the provenance data, we show that
the framework is scalable and achieves high-performance, reducing up to 98% of
the case studies execution time. We also show how the application of machine
learning techniques can enrich the analysis process
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
Computing server power modeling in a data center: survey,taxonomy and performance evaluation
Data centers are large scale, energy-hungry infrastructure serving the
increasing computational demands as the world is becoming more connected in
smart cities. The emergence of advanced technologies such as cloud-based
services, internet of things (IoT) and big data analytics has augmented the
growth of global data centers, leading to high energy consumption. This upsurge
in energy consumption of the data centers not only incurs the issue of surging
high cost (operational and maintenance) but also has an adverse effect on the
environment. Dynamic power management in a data center environment requires the
cognizance of the correlation between the system and hardware level performance
counters and the power consumption. Power consumption modeling exhibits this
correlation and is crucial in designing energy-efficient optimization
strategies based on resource utilization. Several works in power modeling are
proposed and used in the literature. However, these power models have been
evaluated using different benchmarking applications, power measurement
techniques and error calculation formula on different machines. In this work,
we present a taxonomy and evaluation of 24 software-based power models using a
unified environment, benchmarking applications, power measurement technique and
error formula, with the aim of achieving an objective comparison. We use
different servers architectures to assess the impact of heterogeneity on the
models' comparison. The performance analysis of these models is elaborated in
the paper
Towards In-Transit Analytics for Industry 4.0
Industry 4.0, or Digital Manufacturing, is a vision of inter-connected
services to facilitate innovation in the manufacturing sector. A fundamental
requirement of innovation is the ability to be able to visualise manufacturing
data, in order to discover new insight for increased competitive advantage.
This article describes the enabling technologies that facilitate In-Transit
Analytics, which is a necessary precursor for Industrial Internet of Things
(IIoT) visualisation.Comment: 8 pages, 10th IEEE International Conference on Internet of Things
(iThings-2017), Exeter, UK, 201
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