Engineering topics

Schendel, Eric R.

Publications and source records attributed to Schendel, Eric R..

4 records

DOE OSTI2014

Transparent in Situ Data Transformations in ADIOS

Though an abundance of novel "data transformation" technologies have been developed (such as compression, level-of-detail, layout optimization, and indexing), there remains a notable gap in the adoption of such services by scientific applications. In response, we develop an in situ data transformation framework in the ADIOS I/O middleware with a "plug in" interface, thus greatly simplifying both the deployment and use of data transform services in scientific applications. Our approach ensures user-transparency, runtime-configurability, compatibility with existing I/O optimizations, and the potential for exploiting read-optimizing transforms (such as level-of-detail) to achieve I/O reduction. We demonstrate use of our framework with the QLG simulation at up to 8,192 cores on the leadership-class Titan supercomputer, showing negligible overhead. We also explore the read performance implications of data transforms with respect to parameters such as chunk size, access pattern, and the "opacity" of different transform methods including compression and level-of-detail.

Computer Science↗

DOE OSTI2013

ALACRITY: Analytics-Driven Lossless Data Compression for Rapid In-Situ Indexing, Storing, and Querying. In: Transactions on Large-Scale Data- and Knowledge-Centered Systems X. Lecture Notes in Computer Science, vol 8220

High-performance computing architectures face nontrivial data processing challenges, as computational and I/O components further diverge in performance trajectories. For scientific data analysis in particular, methods based on generating heavyweight access acceleration structures, e.g. indexes, are becoming less feasible for ever-increasing dataset sizes. We present ALACRITY, demonstrating the effectiveness of a fused data and index encoding of scientific, floating-point data in generating lightweight data structures amenable to common types of queries used in scientific data analysis. We exploit the representation of floating-point values by extracting significant bytes, using the resulting unique values to bin the remaining data along fixed-precision boundaries. To optimize query processing, we use an inverted index, mapping each generated bin to a list of records contained within, allowing us to optimize query processing with attribute range constraints. Overall, the storage footprint for both index and data is shown to be below numerous configurations of bitmap indexing, while matching or outperforming query performance.

Compression Ratio↗

DOE OSTI2012

Byte-precision level of detail processing for variable precision analytics

I/O bottlenecks in HPC applications are becoming a more pressing problem as compute capabilities continue to outpace I/O capabilities. While double-precision simulation data often must be stored losslessly, the loss of some of the fractional component may introduce acceptably small errors to many types of scientific analyses. Given this observation, we develop a precision level of detail (APLOD) library, which partitions double-precision datasets along user-defined byte boundaries. APLOD parameterizes the analysis accuracy-I/O performance tradeoff, bounds maximum relative error, maintains I/O access patterns compared to full precision, and operates with low overhead. Using ADIOS as an I/O use-case, we show proportional reduction in disk access time to the degree of precision. Finally, we show the effects of partial precision analysis on accuracy for operations such as k-means and Fourier analysis, finding a strong applicability for the use of varying degrees of precision to reduce the cost of analyzing extreme-scale data.

Jenkins, John↗

DOE OSTI2012

Improving I/O Throughput with PRIMACY: Preconditioning ID-Mapper for Compressing Incompressibility

The ability to efficiently handle massive amounts of data is necessary for the continuing development towards exascale scientific data-mining applications and database systems. Unfortunately, recent years have shown a growing gap between the size and complexity of data produced from scientific applications and the limited I/O bandwidth available on modern high-performance computing systems. Utilizing data compression in order to lower the degree of I/O activity offers a promising means to addressing this problem. However, the standard compression algorithms previously explored for such use offer limited gains on both the end-to-end throughput and storage fronts. In this paper, we introduce an in-situ compression scheme aimed at improving end-to-end I/O throughput as well as reduction of dataset size. Our technique, PRIMACY (Preconditioning Id-MApper for Compressing incompressibility), acts as a preconditioner for standard compression libraries by modifying representation of original floating-point scientific data to increase byte-level repeatability, allowing standard loss less compressors to take advantage of their entropy-based byte-level encoding schemes. We additionally present a theoretical model for compression efficiency in high-performance computing environments and evaluate the efficiency of our approach via comparative analysis. Based on our evaluations on 20 real-world scientific datasets, PRIMACY achieved up to 38% and 22% improvements upon standard end-to-end write and read throughputs respectively in addition to a 25% increase in compression ratios paired with 3-to-4-fold improvement in both compression and decompression throughput over general purpose compressors.

Computer Science↗