Publications
Benchmarking SciDB data import on HPC systems
Summary
Summary
SciDB is a scalable, computational database management system that uses an array model for data storage. The array data model of SciDB makes it ideally suited for storing and managing large amounts of imaging data. SciDB is designed to support advanced analytics in database, thus reducing the need for extracting...
Enhancing HPC security with a user-based firewall
Summary
Summary
High Performance Computing (HPC) systems traditionally allow their users unrestricted use of their internal network. While this network is normally controlled enough to guarantee privacy without the need for encryption, it does not provide a method to authenticate peer connections. Protocols built upon this internal network, such as those used...
Benchmarking the Graphulo processing framework
Summary
Summary
Graph algorithms have wide applicability to a variety of domains and are often used on massive datasets. Recent standardization efforts such as the GraphBLAS are designed to specify a set of key computational kernels that hardware and software developers can adhere to. Graphulo is a processing framework that enables GraphBLAS...
In-storage embedded accelerator for sparse pattern processing
Summary
Summary
We present a novel architecture for sparse pattern processing, using flash storage with embedded accelerators. Sparse pattern processing on large data sets is the essence of applications such as document search, natural language processing, bioinformatics, subgraph matching, machine learning, and graph processing. One slice of our prototype accelerator is capable...
From NoSQL Accumulo to NewSQL Graphulo: design and utility of graph algorithms inside a BigTable database
Summary
Summary
Google BigTable's scale-out design for distributed key-value storage inspired a generation of NoSQL databases. Recently the NewSQL paradigm emerged in response to analytic workloads that demand distributed computation local to data storage. Many such analytics take the form of graph algorithms, a trend that motivated the GraphBLAS initiative to standardize...
Julia implementation of the Dynamic Distributed Dimensional Data Model
Summary
Summary
Julia is a new language for writing data analysis programs that are easy to implement and run at high performance. Similarly, the Dynamic Distributed Dimensional Data Model (D4M) aims to clarify data analysis operations while retaining strong performance. D4M accomplishes these goals through a composable, unified data model on associative...
Designing a new high performance computing education strategy for professional scientists and engineers
Summary
Summary
For decades the High Performance Computing (HPC) community has used web content, workshops and embedded HPC scientists to enable practitioners to harness the power of parallel and distributed computing. The most successful approaches, face-to-face tutorials and embedded professionals, don't scale. To create scalable, flexible, educational experiences for practitioners in all...
Enforced sparse non-negative matrix factorization
Summary
Summary
Non-negative matrix factorization (NMF) is a dimensionality reduction algorithm for data that can be represented as an undirected bipartite graph. It has become a common method for generating topic models of text data because it is known to produce good results, despite its relative simplicity of implementation and ease of...
LLMapReduce: multi-level map-reduce for high performance data analysis
Summary
Summary
The map-reduce parallel programming model has become extremely popular in the big data community. Many big data workloads can benefit from the enhanced performance offered by supercomputers. LLMapReduce provides the familiar map-reduce parallel programming model to big data users running on a supercomputer. LLMapReduce dramatically simplifies map-reduce programming by providing...
Storage and Database Management for Big Data
Summary
Summary
The ability to collect and analyze large amounts of data is a growing problem within the scientific community. The growing gap between data and user calls for innovative tools that address the challenges faced by big data volume, velocity, and verity. While there has been great progress in the world...