Processing complex genomic data sets requires massive compute power, storage and network capabilities. Getting the balance right is critical to success. The insideHPC Guide to Genomics looks at the benefits, challenges of applying HPC to Genomics as well as many success stories.
“When we began our relationship with Total more than 15 years ago, our goal was to continually provide the capacity and power required for the company to pursue its oil and gas research throughout the world. We are proud to be part of what has become a continuing legacy of technological research at Total and with this system upgrade, SGI’s innovative solutions will continue to help the company deliver sustainable production growth in the future.”
NVM Express is a specification for accessing solid-state drives (SSDs) attached through the PCI Express (PCIe) bus. “NVM” stands as an acronym for non-volatile memory, which is used in SSDs. As a logical device interface, NVM Express has been designed from the ground up, capitalizing on the low latency and parallelism of PCI Express SSDs, and mirroring the parallelism of contemporary CPUs, platforms and applications. By allowing parallelism levels offered by SSDs to be fully utilized by host’s hardware and software, NVM Express brings various performance improvements.
“To achieve good scalability performance on the HPC scientific applications typically involves good understanding of the workload through performing profile analysis, and comparing behaviors of using different hardware which pinpoint bottlenecks in different areas of the HPC cluster. In this session, a selection of HPC applications will be shown to demonstrate various methods of profiling and analysis to determine the bottleneck, and the effectiveness of the tuning to improve on the application performance.”
In this video from the GPU Technology Conference, Rick Young from Ingram Micro describes the company’s Artizen HPC solutions. “Available now to channel partners in the U.S., the distributor’s new and exclusive line of Artizen High Performance Computing (HPC) offerings include turnkey high performance servers, ultimate workstations, and customizable supercomputing clusters, as well as computing integration and software installation services.”
“This presentation will provide an overview of the Nvidia Tesla Deployment Kit (TDK) from a user and a system administrator point of view. TDL contains Nvidia Management Library (NVML) and nvidia-healthmon–a tool for detecting and troubleshooting known GPU issues in a cluster environment. Usage models within a cluster environment will be presented along with a discussion on how existing resource management tools can be extended to improve allocation and accounting of GPU resources.”
“HPC storage solutions and futures continue to evolve as growth and performance requirements permeate every HPC market segment. Torben discusses these challenges and how the company’s storage solutions are addressing these shifting needs with new developments around disk drives, RAID, CIFS, security, small file handling, and other related technologies.”
In this talk, we introduce the rCUDA remote GPU virtualization framework, which has been shown to be the only one that supports the most recent CUDA versions, in addition to leverage the InfiniBand interconnect for the sake of performance. Furthermore, we also present the last developments within this framework, related with the use of low-power processors, enhanced job schedulers, and virtual machine environments.”
“Congratulations go out to Troy Baer, HPC system administrator at the National Institute for Computational Sciences (NICS), University of Tennessee. Troy Baer’s contributions in scheduling and resource management using Moab have helped Kraken—NICS’ flagship computing resource and the first academic computer to break the petaflop barrier—achieve outstanding 90-95% utilization rates since 2010. Baer’s administrative capabilities enable researchers in numerous scientific arenas, from climate to materials science to astrophysics, to achieve breakthroughs not yet possible on other resources. In November 2012, Baer helped NICS’ Beacon system secure a No. 1 ranking on the Green500 list of energy-efficient supercomputers.”
“This talk will focus on programming models and their designs for upcoming exascale systems with millions of processors and accelerators. Current status and future trends of MPI and PGAS (UPC and OpenSHMEM) programming models will be presented. We will discuss challenges in designing runtime environments for these programming models by taking into account support for multi-core, high-performance networks, GPGPUs, Intel MIC, scalable collectives (multi-core-aware, topology-aware, and power-aware), non-blocking collectives using Offload framework, one-sided RMA operations, schemes and architectures for fault-tolerance/fault-resilience.”