Scalable and Productive Data Management for High-Performance Analytics

Advancements in data acquisition technologies across different domains, from genome sequencing to satellite and telescope imaging to large-scale physics simulations, are leading to an exponential growth in dataset sizes. Extracting knowledge from this wealth of data enables scientific discoveries at unprecedented scales. However, the sheer volume of the gathered datasets is a bottleneck for knowledge discovery. High-performance computing (HPC) provides a scalable infrastructure to extract knowledge from these massive datasets. However, multiple data management performance gaps exist between big data analytics software and HPC systems. These gaps arise from multiple factors, including the tradeoff between performance and programming productivity, data growth at a faster rate than memory capacity, and the high storage footprints of data analytics workflows. This dissertation bridges these gaps by combining productive data management interfaces with application-specific optimizations of data parallelism, memory operation, and storage management. First, we address the performance-productivity tradeoff by leveraging Spark and optimizing input data partitioning. Our solution optimizes programming productivity while achieving comparable performance to the Message Passing Interface (MPI) for scalable bioinformatics. Second, we address the operating system's kernel limitations for out-of-core data processing by autotuning memory management parameters in userspace. Finally, we address I/O and storage efficiency bottlenecks in data analytics workflows that iteratively and incrementally create and reuse persistent data structures such as graphs, data frames, and key-value datastores.

Name thesis:degree_name

Doctor of Philosophy

Level thesis:degree_level

doctoral

Discipline thesis:degree_discipline

Computer Science and Applications

Department dc:contributor.department

Computer Science and Applications

Grantor dc:publisher

Virginia Tech

Year dc:date.issued

2023

Author dc:creator

• Youssef, Karim Yasser Mohamed Yousri

Chair dc:contributor.committeechair

• Feng, Wu-chun

Committee members dc:contributor.committeemember

• Pearce, Roger Allen
• Butt, Ali R.
• Nikolopoulos, Dimitrios S.
• Raghvendra, Sharath

• high-performance computing (HPC)
• big data
• performance
• productivity
• storage efficiency

Statement dc:rights

• In Copyright

Licence dc:rights.uri

• http://rightsstatements.org/vocab/InC/1.0/

Language dc:language.iso

en

Dc Identifier Other

vt_gsexam:38428

OAI identifier oai:identifier

oai:vtechworks.lib.vt.edu:10919/116640