Graphics processing units in bioinformatics, computational biology and systems biology

MS Nobile, P Cazzaniga, A Tangherloni… - Briefings in …, 2017 - academic.oup.com
Abstract Several studies in Bioinformatics, Computational Biology and Systems Biology rely
on the definition of physico-chemical or mathematical models of biological systems at …

An analysis of system balance and architectural trends based on top500 supercomputers

A Khan, H Sim, SS Vazhkudai, AR Butt… - … Conference on High …, 2021 - dl.acm.org
Supercomputer design is a complex, multi-dimensional optimization process, wherein
several subsystems need to be reconciled to meet a desired figure of merit performance for …

Accelerating hydrocodes with OpenACC, OpenCL and CUDA

JA Herdman, WP Gaudin… - 2012 SC Companion …, 2012 - ieeexplore.ieee.org
Hardware accelerators such as GPGPUs are becoming increasingly common in HPC
platforms and their use is widely recognised as being one of the most promising approaches …

[PDF][PDF] Cloverleaf: Preparing hydrodynamics codes for exascale

A Mallinson, DA Beckingsale, W Gaudin, J Herdman… - The Cray User …, 2013 - cug.org
▪ The C bindings make interfacing with Fortran difficult▪ Global class implemented to
coordinate data transfers with and computation on the GPU▪ Data created and initialised on …

Best practices and lessons learned from deploying and operating large-scale data-centric parallel file systems

S Oral, J Simmons, J Hill, D Leverman… - SC'14: Proceedings …, 2014 - ieeexplore.ieee.org
The Oak Ridge Leadership Computing Facility (OLCF) has deployed multiple large-scale
parallel file systems (PFS) to support its operations. During this process, OLCF acquired …

Pre-exascale accelerated application development: The ORNL Summit experience

L Luo, TP Straatsma, LEA Suarez… - IBM Journal of …, 2020 - ieeexplore.ieee.org
High-performance computing (HPC) increasingly relies on heterogeneous architectures to
achieve higher performance. In the Oak Ridge Leadership Facility (OLCF), Oak Ridge, TN …

Learning from five-year resource-utilization data of titan system

F Wang, S Oral, S Sen, N Imam - 2019 IEEE International …, 2019 - ieeexplore.ieee.org
Titan was the flagship supercomputer at the Oak Ridge Leadership Computing Facility
(OLCF). It was deployed in late 2012, became the fastest supercomputer in the world and …

Direct-fuse: Removing the middleman for high-performance fuse file system support

Y Zhu, T Wang, K Mohror, A Moody, K Sato… - Proceedings of the 8th …, 2018 - dl.acm.org
Develo** a file system is a challenging task, especially a kernel-level file system. User-
level file systems alleviate the burden and development complexity associated with kernel …

[PDF][PDF] OLCF's 1 TB/s, next-generation lustre file system

S Oral, DA Dillow, D Fuller, J Hill, D Leverman… - Proceedings of Cray …, 2013 - cug.org
Abstract The Oak Ridge Leadership Computing Facility (OLCF) at Oak Ridge National
Laboratory (ORNL) has a long history of deploying the world's fastest supercomputers to …

Comparative I/O workload characterization of two leadership class storage clusters

R Gunasekaran, S Oral, J Hill, R Miller… - Proceedings of the 10th …, 2015 - dl.acm.org
The Oak Ridge Leadership Computing Facility (OLCF) is a leader in large-scale parallel file
system development, design, deployment and continuous operation. For the last decade, the …