What’s New in HPC Research: Brain Mapping, Earthquakes, Energy Efficiency & More

By Oliver Peckham

June 12, 2019

In this bimonthly feature, HPCwire highlights newly published research in the high-performance computing community and related domains. From parallel programming to exascale to quantum computing, the details are here.


Overcoming limitations of GPGPU computing in scientific applications

While GPU performance has improved steadily, the PCIe interconnect that connects the system host memory and the GPUs has not kept pace. In this article, written by a team from the Center for Scientific Communication and Visualization Research at University of Massachusetts Dartmouth, the authors explore two alternatives to limited PCIe bandwidth – Nvidia NVLink interconnects and zero-copy algorithms for shared memory heterogeneous system architecture (HSA) devices. Using benchmarks, they measure the performance of each device in various scientific applications.

Authors: Connor Kenyon, Glenn Volkema and Gaurav Khanna.

Resource contention-aware load balancing for large-scale parallel file systems

Sustaining parallel I/O performance is important to running scientific applications on HPC systems – I/O imbalance can reduce overall performance. In this paper, a team from Virginia Tech, University of Heidelberg and Oak Ridge National Laboratory discuss a potential solution – “iez,” an “end-to-end control plane where clients transparently and adaptively write to a set of selected I/O servers to achieve balanced data placement.” They evaluate their proposed system on an experimental cluster, finding large performance improvements.

Authors: Bharti Wadhwa, Arnab K. Paul, Sarah Neuwirth, Feiyi Wang, Sarp Oral, Ali R. Butt, Jon Bernard and Kirk W. Cameron.

Scaling training on HPC infrastructure for brain mapping

Mapping neurons in the human brain requires automatic reconstruction of entire cells from electron microscopy data. To do this, some researchers employ the flood-filling networks (FFN) architecture. In this paper, researchers from Argonne National Laboratory and the University of Chicago reduce the training time for these networks by implementing synchronous and data-parallel distributed training.

Authors: Wushi Dong, Hanyu Li, Murat Keceli, Corey Adams, Bobby Kasthuri, Peter Littlewood, Rafael Vescovi, Tom Uram and Nicola Ferrier.

Using modular FPGA acceleration of data analytics in heterogeneous computing

Emerging intensive cloud applications like machine learning and big data analytics increasingly require high-performance computing systems, and many cloud operators have responded to these needs by deploying FPGAs – increasing programming complexity. In this paper, written by a team from Greece and Spain, the authors present a modular approach for accelerating data analytics using FPGAs, allowing for automatic development of integrated hardware designs.

Authors: Elias Koromilas, Christoforos Kachris, Dimitrios Soudris, Francisco J. Ballesteros, Patricio Martinez and Ricardo Jimenez-Peris.

Assessing the performance impacts of Intel Skylake-SP processors’ energy efficiency features

The majority of HPC systems use Intel x86 processors. In this paper, a team from Technische Universität Dresden analyze the effects of the hardware-controlled energy efficiency features of the Intel Skylake-SP processor. They present a series of findings, including that certain latencies increased significantly compared to the Haswell generation and that data can significantly impact power consumption, causing an error in energy models.

Authors: Robert Schöne, Thomas Ilsche, Mario Bielert, Andreas Gocht and Daniel Hackenberg.

Using HPC for liquefaction hazard assessment for urban regions

Liquefaction – loose soil beneath groundwater losing strength during earthquakes – is a major source of earthquake damage. In this paper, the authors – a team from Japan – present a numerical simulation-based method for assessing urban liquefaction hazards, using HPC for efficient assessment and automatic modeling. Comparing it to conventional methods, the authors find that the conventional method predicted significantly more liquefied sites.

Authors: Jian Chen, Hideyuki O-tani, Tomohide Takeyama, Satoru Oishi and Muneo Hori.

Deploying AI frameworks on secure HPC systems with containers

With AI increasingly requiring HPC to efficiently scale complex algorithms, researchers and developers are attempting to bridge the gap between data scientists – who usually develop their applications with languages or frameworks like TensorFlow – and HPC environments. In this paper, the authors discuss the difficulties associated with deploying AI frameworks in secure HPC environments and illustrate how they successfully deploy those frameworks on SuperMUC-NG using Charliecloud.

Authors: David Brayford, Sofia Vallecorsa, Atanas Atanasov, Fabio Baruffa and Walter Riviera.


Do you know about research that should be included in next month’s list? If so, send us an email at [email protected] We look forward to hearing from you.

Subscribe to HPCwire's Weekly Update!

Be the most informed person in the room! Stay ahead of the tech trends with industy updates delivered to you every week!

What’s New in HPC Research: Rabies, Smog, Robots & More

October 14, 2019

In this bimonthly feature, HPCwire highlights newly published research in the high-performance computing community and related domains. From parallel programming to exascale to quantum computing, the details are here. Read more…

By Oliver Peckham

Crystal Ball Gazing: IBM’s Vision for the Future of Computing

October 14, 2019

Dario Gil, IBM’s relatively new director of research, painted a intriguing portrait of the future of computing along with a rough idea of how IBM thinks we’ll get there at last month’s MIT-IBM Watson AI Lab’s AI Read more…

By John Russell

Summit Simulates Braking – on Mars

October 14, 2019

NASA is planning to send humans to Mars by the 2030s – and landing on the surface will be considerably trickier than landing a rover like Curiosity. To solve the problem, NASA researchers are using the world’s fastes Read more…

By Staff report

Chaminade University’s Immersion Program Builds Capacity for Data Science in Hawaii, Pacific Region

October 10, 2019

Kuleana is a uniquely Hawaiian value and practice which embodies responsibility to self, community, and the ‘aina' (land). At Chaminade University, a federally designated Native Hawaiian serving university in Hawai‘i Read more…

By Faith Singer-Villalobos

Trovares Drives Memory-Driven, Property Graph Analytics Strategy with HPE

October 10, 2019

Trovares, a high performance property graph analytics company, has partnered with HPE and its Superdome Flex memory-driven servers on a cybersecurity capability the companies say “routinely” runs near-time workloads on 24TB-capacity systems... Read more…

By Doug Black

AWS Solution Channel

Making High Performance Computing Affordable and Accessible for Small and Medium Businesses with HPC on AWS

High performance computing (HPC) brings a powerful set of tools to a broad range of industries, helping to drive innovation and boost revenue in finance, genomics, oil and gas extraction, and other fields. Read more…

HPE Extreme Performance Solutions

Intel FPGAs: More Than Just an Accelerator Card

FPGA (Field Programmable Gate Array) acceleration cards are not new, as they’ve been commercially available since 1984. Typically, the emphasis around FPGAs has centered on the fact that they’re programmable accelerators, and that they can truly offer workload specific hardware acceleration solutions without requiring custom silicon. Read more…

IBM Accelerated Insights

HPC in the Cloud: Avoid These Common Pitfalls

[Connect with LSF users and learn new skills in the IBM Spectrum LSF User Community.]

It seems that everyone is experimenting about cloud computing. Read more…

Intel, Lenovo Join Forces on HPC Cluster for Flatiron

October 9, 2019

An HPC cluster with deep learning techniques will be used to process petabytes of scientific data as part of workload-intensive projects spanning astrophysics to genomics. AI partners Intel and Lenovo said they are providing... Read more…

By George Leopold

Crystal Ball Gazing: IBM’s Vision for the Future of Computing

October 14, 2019

Dario Gil, IBM’s relatively new director of research, painted a intriguing portrait of the future of computing along with a rough idea of how IBM thinks we’ Read more…

By John Russell

Summit Simulates Braking – on Mars

October 14, 2019

NASA is planning to send humans to Mars by the 2030s – and landing on the surface will be considerably trickier than landing a rover like Curiosity. To solve Read more…

By Staff report

Trovares Drives Memory-Driven, Property Graph Analytics Strategy with HPE

October 10, 2019

Trovares, a high performance property graph analytics company, has partnered with HPE and its Superdome Flex memory-driven servers on a cybersecurity capability the companies say “routinely” runs near-time workloads on 24TB-capacity systems... Read more…

By Doug Black

Intel, Lenovo Join Forces on HPC Cluster for Flatiron

October 9, 2019

An HPC cluster with deep learning techniques will be used to process petabytes of scientific data as part of workload-intensive projects spanning astrophysics to genomics. AI partners Intel and Lenovo said they are providing... Read more…

By George Leopold

Optimizing Offshore Wind Farms with Supercomputer Simulations

October 9, 2019

Offshore wind farms offer a number of benefits; many of the areas with the strongest winds are located offshore, and siting wind farms offshore ameliorates many of the land use concerns associated with onshore wind farms. Some estimates say that, if leveraged, offshore wind power... Read more…

By Oliver Peckham

Harvard Deploys Cannon, New Lenovo Water-Cooled HPC Cluster

October 9, 2019

Harvard's Faculty of Arts & Sciences Research Computing (FASRC) center announced a refresh of their primary HPC resource. The new cluster, called Cannon after the pioneering American astronomer Annie Jump Cannon, is supplied by Lenovo... Read more…

By Tiffany Trader

NSF Announces New AI Program; Plans $120M in Funding Next Year

October 8, 2019

As the saying goes, when you’re hot, you’re hot. Right now, AI is scalding. Today the National Science Foundation announced a new AI initiative – The National Artificial Intelligence Research Institutes program – with plans to invest about “$120 million in grants next year... Read more…

By Staff report

DOE Sets Sights on Accelerating AI (and other) Technology Transfer

October 3, 2019

For the past two days DOE leaders along with ~350 members from academia and industry gathered in Chicago to discuss AI development and the ways in which industr Read more…

By John Russell

Supercomputer-Powered AI Tackles a Key Fusion Energy Challenge

August 7, 2019

Fusion energy is the Holy Grail of the energy world: low-radioactivity, low-waste, zero-carbon, high-output nuclear power that can run on hydrogen or lithium. T Read more…

By Oliver Peckham

DARPA Looks to Propel Parallelism

September 4, 2019

As Moore’s law runs out of steam, new programming approaches are being pursued with the goal of greater hardware performance with less coding. The Defense Advanced Projects Research Agency is launching a new programming effort aimed at leveraging the benefits of massive distributed parallelism with less sweat. Read more…

By George Leopold

Cray Wins NNSA-Livermore ‘El Capitan’ Exascale Contract

August 13, 2019

Cray has won the bid to build the first exascale supercomputer for the National Nuclear Security Administration (NNSA) and Lawrence Livermore National Laborator Read more…

By Tiffany Trader

AMD Launches Epyc Rome, First 7nm CPU

August 8, 2019

From a gala event at the Palace of Fine Arts in San Francisco yesterday (Aug. 7), AMD launched its second-generation Epyc Rome x86 chips, based on its 7nm proce Read more…

By Tiffany Trader

Ayar Labs to Demo Photonics Chiplet in FPGA Package at Hot Chips

August 19, 2019

Silicon startup Ayar Labs continues to gain momentum with its DARPA-backed optical chiplet technology that puts advanced electronics and optics on the same chip Read more…

By Tiffany Trader

Chinese Company Sugon Placed on US ‘Entity List’ After Strong Showing at International Supercomputing Conference

June 26, 2019

After more than a decade of advancing its supercomputing prowess, operating the world’s most powerful supercomputer from June 2013 to June 2018, China is keep Read more…

By Tiffany Trader

D-Wave’s Path to 5000 Qubits; Google’s Quantum Supremacy Claim

September 24, 2019

On the heels of IBM’s quantum news last week come two more quantum items. D-Wave Systems today announced the name of its forthcoming 5000-qubit system, Advantage (yes the name choice isn’t serendipity), at its user conference being held this week in Newport, RI. Read more…

By John Russell

A Behind-the-Scenes Look at the Hardware That Powered the Black Hole Image

June 24, 2019

Two months ago, the first-ever image of a black hole took the internet by storm. A team of scientists took years to produce and verify the striking image – an Read more…

By Oliver Peckham

Leading Solution Providers

ISC 2019 Virtual Booth Video Tour

CRAY
CRAY
DDN
DDN
DELL EMC
DELL EMC
GOOGLE
GOOGLE
ONE STOP SYSTEMS
ONE STOP SYSTEMS
PANASAS
PANASAS
VERNE GLOBAL
VERNE GLOBAL

Intel Confirms Retreat on Omni-Path

August 1, 2019

Intel Corp.’s plans to make a big splash in the network fabric market for linking HPC and other workloads has apparently belly-flopped. The chipmaker confirmed to us the outlines of an earlier report by the website CRN that it has jettisoned plans for a second-generation version of its Omni-Path interconnect... Read more…

By Staff report

Kubernetes, Containers and HPC

September 19, 2019

Software containers and Kubernetes are important tools for building, deploying, running and managing modern enterprise applications at scale and delivering enterprise software faster and more reliably to the end user — while using resources more efficiently and reducing costs. Read more…

By Daniel Gruber, Burak Yenier and Wolfgang Gentzsch, UberCloud

Intel Debuts Pohoiki Beach, Its 8M Neuron Neuromorphic Development System

July 17, 2019

Neuromorphic computing has received less fanfare of late than quantum computing whose mystery has captured public attention and which seems to have generated mo Read more…

By John Russell

Rise of NIH’s Biowulf Mirrors the Rise of Computational Biology

July 29, 2019

The story of NIH’s supercomputer Biowulf is fascinating, important, and in many ways representative of the transformation of life sciences and biomedical res Read more…

By John Russell

Quantum Bits: Neven’s Law (Who Asked for That), D-Wave’s Steady Push, IBM’s Li-O2- Simulation

July 3, 2019

Quantum computing’s (QC) many-faceted R&D train keeps slogging ahead and recently Japan is taking a leading role. Yesterday D-Wave Systems announced it ha Read more…

By John Russell

With the Help of HPC, Astronomers Prepare to Deflect a Real Asteroid

September 26, 2019

For years, NASA has been running simulations of asteroid impacts to understand the risks (and likelihoods) of asteroids colliding with Earth. Now, NASA and the European Space Agency (ESA) are preparing for the next, crucial step in planetary defense against asteroid impacts: physically deflecting a real asteroid. Read more…

By Oliver Peckham

ISC Keynote: Thomas Sterling’s Take on Whither HPC

June 20, 2019

Entertaining, insightful, and unafraid to launch the occasional verbal ICBM, HPC pioneer Thomas Sterling delivered his 16th annual closing keynote at ISC yesterday. He explored, among other things: exascale machinations; quantum’s bubbling money pot; Arm’s new HPC viability; Europe’s... Read more…

By John Russell

Argonne Team Makes Record Globus File Transfer

July 10, 2019

A team of scientists at Argonne National Laboratory has broken a data transfer record by moving a staggering 2.9 petabytes of data for a research project.  The data – from three large cosmological simulations – was generated and stored on the Summit supercomputer at the Oak Ridge Leadership Computing Facility (OLCF)... Read more…

By Oliver Peckham

  • arrow
  • Click Here for More Headlines
  • arrow
Do NOT follow this link or you will be banned from the site!
Share This