Suspending, migrating and resuming HPC virtual clusters
Future Generation Computer Systems
Pydoop: a Python MapReduce and HDFS API for Hadoop
Proceedings of the 19th ACM International Symposium on High Performance Distributed Computing
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The rapid growth in the throughput to cost ratio of experimental data production technologies is generating vast amounts of scientific data, often organized into "large" objects (genomes, bio-images) exhibiting complex internal structures. Frequently, datasets must be shared between multiple research groups interested not only in the final results, but also in how they are produced. The practical difficulties of moving terabytes or more of data across the network, as well as the need to maintain a clear separation between software stack and storage infrastructure, are thus raising interest in the use of virtual clusters for HPC and data intensive applications. In this paper we employ a MapReduce implementation of an image analysis pipeline used by deep sequencing platforms to analyse different virtual cluster scenarios and their impact on system performance.