Virtualizing the Stampede2 Supercomputer with Applications to HPC in the Cloud

Methods developed at the Texas Advanced Computing Center (TACC) are described and demonstrated for automating the construction of an elastic, virtual cluster emulating the Stampede2 high performance computing (HPC) system. The cluster can be built and/or scaled in a matter of minutes on the Jetstream self-service cloud system and shares many properties of the original Stampede2, including: i) common identity management, ii) access to the same file systems, iii) equivalent software application stack and module system, iv) similar job scheduling interface via Slurm. We measure time-to-solution for a number of common scientific applications on our virtual cluster against equivalent runs on Stampede2 and develop an application profile where performance is similar or otherwise acceptable. For such applications, the virtual cluster provides an effective form of "cloud bursting" with the potential to significantly improve overall turnaround time, particularly when Stampede2 is experiencing long queue wait times. In addition, the virtual cluster can be used for test and debug without directly impacting Stampede2. We conclude with a discussion of how science gateways can leverage the TACC Jobs API web service to incorporate this cloud bursting technique transparently to the end user.Comment: 6 pages, 0 figures, PEARC '18: Practice and Experience in Advanced Research Computing, July 22--26, 2018, Pittsburgh, PA, US

A Taxonomy of Data Grids for Distributed Data Sharing, Management and Processing

Data Grids have been adopted as the platform for scientific communities that need to share, access, transport, process and manage large data collections distributed worldwide. They combine high-end computing technologies with high-performance networking and wide-area storage management techniques. In this paper, we discuss the key concepts behind Data Grids and compare them with other data sharing and distribution paradigms such as content delivery networks, peer-to-peer networks and distributed databases. We then provide comprehensive taxonomies that cover various aspects of architecture, data transportation, data replication and resource allocation and scheduling. Finally, we map the proposed taxonomy to various Data Grid systems not only to validate the taxonomy but also to identify areas for future exploration. Through this taxonomy, we aim to categorise existing systems to better understand their goals and their methodology. This would help evaluate their applicability for solving similar problems. This taxonomy also provides a "gap analysis" of this area through which researchers can potentially identify new issues for investigation. Finally, we hope that the proposed taxonomy and mapping also helps to provide an easy way for new practitioners to understand this complex area of research.Comment: 46 pages, 16 figures, Technical Repor

v-Mapper: an application-aware resource consolidation scheme for cloud data centers

Cloud computing systems are popular in computing industry for their ease of use and wide range of applications. These systems offer services that can be used over the Internet. Due to their wide popularity and usage, cloud computing systems and their services often face issues resource management related challenges. In this paper, we present v-Mapper, a resource consolidation scheme which implements network resource management concepts through software-defined networking (SDN) control features. The paper makes three major contributions: (1) We propose a virtual machine (VM) placement scheme that can effectively mitigate the VM placement issues for data-intensive applications; (2) We propose a validation scheme that will ensure that a cloud service is entertained only if there are sufficient resources available for its execution and (3) We present a scheduling policy that aims to eliminate network load constraints. We tested our scheme with other techniques in terms of average task processing time, service delay and bandwidth usage. Our results demonstrate that v-Mapper outperforms other techniques and delivers significant improvement in system’s performance

A method of evaluation of high-performance computing batch schedulers

According to Sterling et al., a batch scheduler, also called workload management, is an application or set of services that provide a method to monitor and manage the flow of work through the system [Sterling01]. The purpose of this research was to develop a method to assess the execution speed of workloads that are submitted to a batch scheduler. While previous research exists, this research is different in that more complex jobs were devised that fully exercised the scheduler with established benchmarks. This research is important because the reduction of latency even if it is miniscule can lead to massive savings of electricity, time, and money over the long term. This is especially important in the era of green computing [Reuther18]. The methodology used to assess these schedulers involved the execution of custom automation scripts. These custom scripts were developed as part of this research to automatically submit custom jobs to the schedulers, take measurements, and record the results. There were multiple experiments conducted throughout the course of the research. These experiments were designed to apply the methodology and assess the execution speed of a small selection of batch schedulers. Due to time constraints, the research was limited to four schedulers. x The measurements that were taken during the experiments were wall time, RAM usage, and CPU usage. These measurements captured the utilization of system resources of each of the schedulers. The custom scripts were executed using, 1, 2, and 4 servers to determine how well a scheduler scales with network growth. The experiments were conducted on local school resources. All hardware was similar and was co-located within the same data-center. While the schedulers that were investigated as part of the experiments are agnostic to whether the system is grid, cluster, or super-computer; the investigation was limited to a cluster architecture

Parallel detrended fluctuation analysis for fast event detection on massive PMU data

("(c) 2015 IEEE. Personal use of this material is permitted. Permission from IEEE must be obtained for all other users, including reprinting/ republishing this material for advertising or promotional purposes, creating new collective works for resale or redistribution to servers or lists, or reuse of any copyrighted components of this work in other works.")Phasor measurement units (PMUs) are being rapidly deployed in power grids due to their high sampling rates and synchronized measurements. The devices high data reporting rates present major computational challenges in the requirement to process potentially massive volumes of data, in addition to new issues surrounding data storage. Fast algorithms capable of processing massive volumes of data are now required in the field of power systems. This paper presents a novel parallel detrended fluctuation analysis (PDFA) approach for fast event detection on massive volumes of PMU data, taking advantage of a cluster computing platform. The PDFA algorithm is evaluated using data from installed PMUs on the transmission system of Great Britain from the aspects of speedup, scalability, and accuracy. The speedup of the PDFA in computation is initially analyzed through Amdahl's Law. A revision to the law is then proposed, suggesting enhancements to its capability to analyze the performance gain in computation when parallelizing data intensive applications in a cluster computing environment

Cloud Computing and Grid Computing 360-Degree Compared

Cloud Computing has become another buzzword after Web 2.0. However, there are dozens of different definitions for Cloud Computing and there seems to be no consensus on what a Cloud is. On the other hand, Cloud Computing is not a completely new concept; it has intricate connection to the relatively new but thirteen-year established Grid Computing paradigm, and other relevant technologies such as utility computing, cluster computing, and distributed systems in general. This paper strives to compare and contrast Cloud Computing with Grid Computing from various angles and give insights into the essential characteristics of both.Comment: IEEE Grid Computing Environments (GCE08) 200

Online Job Scheduling in Distributed Machine Learning Clusters

Nowadays large-scale distributed machine learning systems have been deployed to support various analytics and intelligence services in IT firms. To train a large dataset and derive the prediction/inference model, e.g., a deep neural network, multiple workers are run in parallel to train partitions of the input dataset, and update shared model parameters. In a shared cluster handling multiple training jobs, a fundamental issue is how to efficiently schedule jobs and set the number of concurrent workers to run for each job, such that server resources are maximally utilized and model training can be completed in time. Targeting a distributed machine learning system using the parameter server framework, we design an online algorithm for scheduling the arriving jobs and deciding the adjusted numbers of concurrent workers and parameter servers for each job over its course, to maximize overall utility of all jobs, contingent on their completion times. Our online algorithm design utilizes a primal-dual framework coupled with efficient dual subroutines, achieving good long-term performance guarantees with polynomial time complexity. Practical effectiveness of the online algorithm is evaluated using trace-driven simulation and testbed experiments, which demonstrate its outperformance as compared to commonly adopted scheduling algorithms in today's cloud systems

Virtual Cluster Management for Analysis of Geographically Distributed and Immovable Data

Thesis (Ph.D.) - Indiana University, Informatics and Computing, 2015Scenarios exist in the era of Big Data where computational analysis needs to utilize widely distributed and remote compute clusters, especially when the data sources are sensitive or extremely large, and thus unable to move. A large dataset in Malaysia could be ecologically sensitive, for instance, and unable to be moved outside the country boundaries. Controlling an analysis experiment in this virtual cluster setting can be difficult on multiple levels: with setup and control, with managing behavior of the virtual cluster, and with interoperability issues across the compute clusters. Further, datasets can be distributed among clusters, or even across data centers, so that it becomes critical to utilize data locality information to optimize the performance of data-intensive jobs. Finally, datasets are increasingly sensitive and tied to certain administrative boundaries, though once the data has been processed, the aggregated or statistical result can be shared across the boundaries. This dissertation addresses management and control of a widely distributed virtual cluster having sensitive or otherwise immovable data sets through a controller. The Virtual Cluster Controller (VCC) gives control back to the researcher. It creates virtual clusters across multiple cloud platforms. In recognition of sensitive data, it can establish a single network overlay over widely distributed clusters. We define a novel class of data, notably immovable data that we call "pinned data", where the data is treated as a first-class citizen instead of being moved to where needed. We draw from our earlier work with a hierarchical data processing model, Hierarchical MapReduce (HMR), to process geographically distributed data, some of which are pinned data. The applications implemented in HMR use extended MapReduce model where computations are expressed as three functions: Map, Reduce, and GlobalReduce. Further, by facilitating information sharing among resources, applications, and data, the overall performance is improved. Experimental results show that the overhead of VCC is minimum. The HMR outperforms traditional MapReduce model while processing a particular class of applications. The evaluations also show that information sharing between resources and application through the VCC shortens the hierarchical data processing time, as well satisfying the constraints on the pinned data