RENCI/Dell Supercomputer Charts Hurricane Matthew’s Storm Surge

By John Russell

October 6, 2016

Hurricane Matthew, now headed into Florida having already hammered Haiti and other parts of the Caribbean, is a stark reminder of the importance of computer modeling not only in predicting the storm strength and path but also in predicting and plotting the storm surge which is often its most destructive component. Right now, the Hatteras supercomputer (Dell) at Renaissance Computing Institute (RENCI) in North Carolina is doing just that for Hurricane Matthew.

Named after North Carolina’s famous Outer Banks lighthouse, the Hatteras supercomputer is a 150-node M420 Dell cluster (full specs at the end of article) that runs the ADCIRC storm surge model every six hours when a hurricane is active. Visualizations of the models appear on the Coastal Emergency Risks Assessment website. The outputs from these runs are incorporated into guidance information by the National Weather Service, the National Hurricane Center, and agencies such as the U.S. Coast Guard, the U.S. Army Corps of Engineers, FEMA, and local and regional emergency management divisions.

The models are a tool used to help make decisions about evacuations, and where to position supplies and response personnel. In Florida, Governor Rick Scott has urged about 1.5 million Floridians in the storm’s path to evacuate. Hurricane Matthew, whose winds have again reached 140 miles per hour as it nears the Florida coast turning it into a Category 4 storm, has already killed more than 200 people.

The work to apply high-performance computing and data analysis to understanding dangerous storm surges is part of a long-term collaboration involving RENCI, the Coastal Resilience Center at UNC-Chapel Hill, and UNC’s Institute of Marine Sciences. Over the last 10 years, Brian Blanton, a coastal oceanographer and director of RENCI environmental initiatives, has worked closely with Rick Luettich, lead principal investigator of the Coastal Resilience Center and director IMS, and others to enhance and improve the ADCIRC coastal circulation and storm surge model.

matthew-renci-640x437“We model the way the ocean moves and particularly the ocean and coastal areas and so we are trying to always predict that. It moves because of tides, because of rivers that flow into it, it also moves because of the wind and so when we get these severe storms whether they are winter Nor’easters or hurricanes like Matthew, they blow the wind around if you will, in particularly when they blow it up onto shore then it causes flooding and we have what typically refer to as storm surge,” said Leuttich.

Every time the Dell system at RENCI computes another storm surge model for use by the emergency response community, Blanton is busy running a series of at least nine possible storm surge scenarios on the same HPC system. The process is much like ensemble weather forecasting, where meteorologists run a large number of weather models using slightly different initial conditions in order to account for the uncertainty in such a dynamic system.

The model output available on the web for Matthew can resolve the detail of coastal storm surge to a level of less than 200 meters. And the team’s current research could mean that storm surge models next year will provide even more detail and accuracy.  “We are working on doing storm surge predictions the same way that meteorologists develop predictions for rain and wind speeds,” said Blanton. “It will provide high-resolution storm surge probabilities that account for uncertainty in the track and intensity of hurricane forecasts.” Blanton said the research team plans to acquire enough test simulations this year to be able to produce ensemble models regularly for hurricane season 2017.

renci-official-logo1-300x160ADCIRC – a system of computer programs for solving time dependent, free surface circulation and transport problems in two and three dimensions – was developed by Luettich and researchers at the University of Notre Dame. These programs utilize the finite element method in space allowing the use of highly flexible, unstructured grids. The researchers and developers who maintain the software and develop the visual models represent universities on the East and Gulf coasts as well as agencies such as the National Oceanic and Atmospheric Agency, the National Weather Service, the National Science Foundation, and the Department of Homeland Security.

In one sense, storm surge forecasting is lower on the HPC totem pole than weather forecasting in terms of access to necessary resources. The major weather forecasting services often have access to bigger machines, modernized codes, and sometime can be the dominant user of the resource. These agencies use ensemble of modeling – sometimes looking at thousands of models as well as other data sources such as that from hurricane hunter aircraft to “develop with a hand-created forecast.” Even then, as the forecast extends out a couple of days it’s uncertainty grows significantly.

In times of an event such as Hurricane Matthew the National Weather Forecasting Service uses its substantial resources to update its forecast every six hours. Keeping pace is a challenge for the storm surge forecasters. “If it takes us five and a half hours to do a run and process it and get everything displayed and out there for the public to see, then it is pretty much useless. Its relevancy window has left. I typically think two hours is the maximum amount of time we have to stay relevant and I am much happier if we can get results done in an hour,” said Luettich.

Luettich’s team starts with the basic forecast provided by the National Hurricane Center and runs that through its model: “It’s the hurricane center forecast and it’s the first thing we want to go out because that’s our best estimate of what’s likely to occur. The next question is what’s the range of things that could occur. The only way we can address that issue of range [is] using ensembles. At that point we have to do multiple runs to try to bracket and depending on what we have for resources we can do this either heuristically, just picking a couple of storms or a few storms to give us kind of a sensitivity study, or ideally we can get into the dozens or hundreds storms to give us truly a statistically valid population that we can then compute statistics from and whatnot. In a nutshell that’s the challenge,” he said.

A single run on several hundred to one-thousand processors may take hours. “The challenge for us, as the ocean modelers, as storm surge modelers, is to properly account for that uncertainty in the way in which we deliver forecasts of the ocean’s response. So right now we do the forecast which is right smack down the middle of that cone of uncertainty and then we will do a few runs which kind of bracket either the possible track variations over time or changes to the predictive intensity of the storm.”

Hatteras Supercomputer by Dell at RENCI
Hatteras Supercomputer by Dell at RENCI

Perhaps not surprisingly, access to sufficient compute horsepower is a bottleneck. “We are fortunate if we can get enough computer horsepower either at RENCI and RENCI is our go-to-place for in-house HPC but realistically we can get enough processors there to do more than one or two runs each compute cycle. We collaborate with folks at LSU and TACC and other places so we can typically add in a few more runs but we are still only a the phase of being able to do the primary forecast and a few sensitivity runs around it.”

The need for speed, emphasizes Luettich, is critical, however it’s important to note the ADCIRC tools are also used extensively in design and hazard assessment, which are generally not time-constrained projects.

“By far these models are used, [maybe] 100X more often than for active storms, for design purposes. For example a model we developed was used by the Army Corp. to design the hurricane protection systems that is now around New Orleans. [It’s] also being used to design a major levy system (so-called Ike Dike) that might protect the Houston Galveston area in the future. So it is very much a design tool and gets used extensively for that purpose.”

Secondly the models are used to define what the hazards of storm surge are in coastal regions. “FEMA uses it for 100-year flood levels and where those are for insurance purposes,” he noted. Recently the Nuclear Regulatory Commission has been using it to define what the threats are to coastal nuclear power plants. All of that work goes on outside of the context of actual event.

“It’s very HPC intensive. We may end up having to run many, many hundreds or thousands of storms to get a full sweep of the design or the hazard situation that exists. But time is not nearly as big a constraint. If it takes a run one hour or five hours or ten hours to do as long as you can stack up the hundreds or thousands of runs you need and get them done over a reasonable time, a few months or a year or whatever your study length, it’s [acceptable].”

That said, Leuttich and his colleagues are actively pushing to advance ADCIRC on at least three fronts. Leuttich notes the code, though old, is already very parallelizable and already scales well on existing architecture, but not on newer architecture. Moreover, rigid code parallelization isn’t always the best approach. He singled the following three areas of active effort:

  • Parallelization. “In these modeling applications we need very high resolution in these areas where the storm is impacting but in other areas we can use very low resolution. Yet to automate the process in the parallelization, the leading parallelization paradigm middleware that is out there is very challenging. So we have a NSF funded project that is looking into new parallelization strategies that will allow us to optimize our calculations and consequently be much more efficiently and faster.”
  • Modern Hardware. ADCIRC have started looking into manycore chips such as Intel’s newly-released Knights Landing Phi. That’s one area. “It looks like it is going to take some code reengineering to optimize the code for use on that hardware but that’s is something that we are starting to think about at RENCI. In the last month or so, gotten [KNL-based system] that will give us at least the opportunity to test some of software re-engineering we have to do to see how extensive it is and to what extent we can get performance increases.”
  • irods_logo_hdMore Computers. “The third direction is looking for other partners and in fact our colleagues at RENCI have been extremely helpful. One of their fortés is the iRODS systems and ability to move data around between HPC centers, distributed HPC. We wouldn’t want to necessarily distribute a single run among centers at various locations but again thinking back to the ensemble approach if we can farm out X number of runs to different machines at different location and compile the information back efficiently then that may help us considerably, and that may even include a cloud type application.”

Interestingly, the ADCIRC code has not performed well on GPUs. “It is predominantly because of the way the algorithms are written; they are not terribly compatible with GPU acceleration,” said Luettich.

Without doubt, a certain amount of inertia exists in the code, says Luettich, and a massive rewrite to take advantage of the next generation of hardware may be necessary. Funding is always an issue for projects such ADCIRC. Luettich noted, “Think about how much damage is going to result from this Hurricane Matthew. Imagine if you took one percent of that and invested it in computer resources, whether hardware or software, what advances we could make and what the returns in lessened damage in the future would be.”

Hatteras Supercomputer Profile (from RENCI web site)

Deployed in summer 2013 and expanded in early 2014, Hatteras is a 5168-core cluster running CentOS Linux.  Hatteras is not fully MPI interconnected, and is instead segmented into several independent sub-clusters with varying architectures.  Hatteras is capable of concurrently running 9 512-way ensemble members.  Hatteras uses Dell’s densest blade enclosure to allow for maximum core-count within each chassis.

Hatteras’ sub-clusters have the following configurations:

  • Chassis 0-3 (512 interconnected cores per chassis)
    • 32 x Dell M420 quarter-height blade server
      • Two Intel Xeon E5-2450 CPUs (2.1GHz, 8-core)
      • 96GB 1600MHz RAM
      • 50GB SSD for local I/O
    • 40Gb/s Mellanox FDR-10 Interconnect
  • Chassis 4-7 (640 interconnected cores per chassis)
    • 32 x Dell M420 Quarter-Height Blade Server
      • Two Intel Xeon E5-2470v2 CPUs (2.4GHz, 10-core)
      • 96GB 1600MHz RAM
      • 50GB SSD for local I/O
    • 40Gb/s Mellanox FDR-10 Interconnect
  • Hadoop (560 interconnected cores)
    • 30 x Dell R720xd 2U Rack Server
      • Two Intel Xeon E5-2670 processors (16 cores total @ 2.6GHz)
      • 256GB RDIMM RAM @ 1600MHz
      • 36 Terabytes (12 x 3TB) of raw local disk dedicated to the node
      • 146GB RAID-1 volume dedicated for OS
      • 10Gb/s Dedicated Ethernet NAS Connectivity
    • 2 x Dell R820 2U Rack Server (LargeMem)
      • Four Intel Xeon E5-4640v2 processors (40 cores total @ 2.2GHz)
      • 1.5TB LRDIMM RAM @ 1600MHz
      • 9.6 Terabytes (8 x 1.2TB) of raw local disk dedicated to the node
      • 10Gb/s Dedicated Ethernet NAS Connectivity
    • 56Gb/s Mellanox FDR Infiniband Interconnect
    • 40Gb/s Mellanox Ethernet Interconnect

Related Links
ADCRIC website
Coastal Resilience Center Website
Institute of Marine Sciences Website

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!

Exascale Computing Project Names Doug Kothe as Director

September 20, 2017

The Department of Energy’s Exascale Computing Project (ECP) has named Doug Kothe as its new director effective October 1. He replaces Paul Messina, who is stepping down after two years to return to Argonne National L Read more…

Takeaways from the Milwaukee HPC User Forum

September 19, 2017

Milwaukee’s elegant Pfister Hotel hosted approximately 100 attendees for the 66th HPC User Forum (September 5-7, 2017). In the original home city of Pabst Blue Ribbon and Harley Davidson motorcycles the agenda addresse Read more…

By Merle Giles

NSF Awards $10M to Extend Chameleon Cloud Testbed Project

September 19, 2017

The National Science Foundation has awarded a second phase, $10 million grant to the Chameleon cloud computing testbed project led by University of Chicago with partners at the Texas Advanced Computing Center (TACC), Ren Read more…

By John Russell

HPE Extreme Performance Solutions

HPE Prepares Customers for Success with the HPC Software Portfolio

High performance computing (HPC) software is key to harnessing the full power of HPC environments. Development and management tools enable IT departments to streamline installation and maintenance of their systems as well as create, optimize, and run their HPC applications. Read more…

NERSC Simulations Shed Light on Fusion Reaction Turbulence

September 19, 2017

Understanding fusion reactions in detail – particularly plasma turbulence – is critical to the effort to bring fusion power to reality. Recent work including roughly 70 million hours of compute time at the National E Read more…

Exascale Computing Project Names Doug Kothe as Director

September 20, 2017

The Department of Energy’s Exascale Computing Project (ECP) has named Doug Kothe as its new director effective October 1. He replaces Paul Messina, who is s Read more…

Takeaways from the Milwaukee HPC User Forum

September 19, 2017

Milwaukee’s elegant Pfister Hotel hosted approximately 100 attendees for the 66th HPC User Forum (September 5-7, 2017). In the original home city of Pabst Blu Read more…

By Merle Giles

Kathy Yelick Charts the Promise and Progress of Exascale Science

September 15, 2017

On Friday, Sept. 8, Kathy Yelick of Lawrence Berkeley National Laboratory and the University of California, Berkeley, delivered the keynote address on “Breakt Read more…

By Tiffany Trader

DARPA Pledges Another $300 Million for Post-Moore’s Readiness

September 14, 2017

The Defense Advanced Research Projects Agency (DARPA) launched a giant funding effort to ensure the United States can sustain the pace of electronic innovation vital to both a flourishing economy and a secure military. Under the banner of the Electronics Resurgence Initiative (ERI), some $500-$800 million will be invested in post-Moore’s Law technologies. Read more…

By Tiffany Trader

IBM Breaks Ground for Complex Quantum Chemistry

September 14, 2017

IBM has reported the use of a novel algorithm to simulate BeH2 (beryllium-hydride) on a quantum computer. This is the largest molecule so far simulated on a quantum computer. The technique, which used six qubits of a seven-qubit system, is an important step forward and may suggest an approach to simulating ever larger molecules. Read more…

By John Russell

Cubes, Culture, and a New Challenge: Trish Damkroger Talks about Life at Intel—and Why HPC Matters More Than Ever

September 13, 2017

Trish Damkroger wasn’t looking to change jobs when she attended SC15 in Austin, Texas. Capping a 15-year career within Department of Energy (DOE) laboratories, she was acting Associate Director for Computation at Lawrence Livermore National Laboratory (LLNL). Her mission was to equip the lab’s scientists and research partners with resources that would advance their cutting-edge work... Read more…

By Jan Rowell

EU Funds 20 Million Euro ARM+FPGA Exascale Project

September 7, 2017

At the Barcelona Supercomputer Centre on Wednesday (Sept. 6), 16 partners gathered to launch the EuroEXA project, which invests €20 million over three-and-a-half years into exascale-focused research and development. Led by the Horizon 2020 program, EuroEXA picks up the banner of a triad of partner projects — ExaNeSt, EcoScale and ExaNoDe — building on their work... Read more…

By Tiffany Trader

MIT-IBM Watson AI Lab Targets Algorithms, AI Physics

September 7, 2017

Investment continues to flow into artificial intelligence research, especially in key areas such as AI algorithms that promise to move the technology from speci Read more…

By George Leopold

How ‘Knights Mill’ Gets Its Deep Learning Flops

June 22, 2017

Intel, the subject of much speculation regarding the delayed, rewritten or potentially canceled “Aurora” contract (the Argonne Lab part of the CORAL “ Read more…

By Tiffany Trader

Reinders: “AVX-512 May Be a Hidden Gem” in Intel Xeon Scalable Processors

June 29, 2017

Imagine if we could use vector processing on something other than just floating point problems.  Today, GPUs and CPUs work tirelessly to accelerate algorithms Read more…

By James Reinders

NERSC Scales Scientific Deep Learning to 15 Petaflops

August 28, 2017

A collaborative effort between Intel, NERSC and Stanford has delivered the first 15-petaflops deep learning software running on HPC platforms and is, according Read more…

By Rob Farber

Russian Researchers Claim First Quantum-Safe Blockchain

May 25, 2017

The Russian Quantum Center today announced it has overcome the threat of quantum cryptography by creating the first quantum-safe blockchain, securing cryptocurrencies like Bitcoin, along with classified government communications and other sensitive digital transfers. Read more…

By Doug Black

Oracle Layoffs Reportedly Hit SPARC and Solaris Hard

September 7, 2017

Oracle’s latest layoffs have many wondering if this is the end of the line for the SPARC processor and Solaris OS development. As reported by multiple sources Read more…

By John Russell

Google Debuts TPU v2 and will Add to Google Cloud

May 25, 2017

Not long after stirring attention in the deep learning/AI community by revealing the details of its Tensor Processing Unit (TPU), Google last week announced the Read more…

By John Russell

Six Exascale PathForward Vendors Selected; DoE Providing $258M

June 15, 2017

The much-anticipated PathForward awards for hardware R&D in support of the Exascale Computing Project were announced today with six vendors selected – AMD Read more…

By John Russell

Top500 Results: Latest List Trends and What’s in Store

June 19, 2017

Greetings from Frankfurt and the 2017 International Supercomputing Conference where the latest Top500 list has just been revealed. Although there were no major Read more…

By Tiffany Trader

Leading Solution Providers

IBM Clears Path to 5nm with Silicon Nanosheets

June 5, 2017

Two years since announcing the industry’s first 7nm node test chip, IBM and its research alliance partners GlobalFoundries and Samsung have developed a proces Read more…

By Tiffany Trader

Nvidia Responds to Google TPU Benchmarking

April 10, 2017

Nvidia highlights strengths of its newest GPU silicon in response to Google's report on the performance and energy advantages of its custom tensor processor. Read more…

By Tiffany Trader

Graphcore Readies Launch of 16nm Colossus-IPU Chip

July 20, 2017

A second $30 million funding round for U.K. AI chip developer Graphcore sets up the company to go to market with its “intelligent processing unit” (IPU) in Read more…

By Tiffany Trader

Google Releases Deeplearn.js to Further Democratize Machine Learning

August 17, 2017

Spreading the use of machine learning tools is one of the goals of Google’s PAIR (People + AI Research) initiative, which was introduced in early July. Last w Read more…

By John Russell

EU Funds 20 Million Euro ARM+FPGA Exascale Project

September 7, 2017

At the Barcelona Supercomputer Centre on Wednesday (Sept. 6), 16 partners gathered to launch the EuroEXA project, which invests €20 million over three-and-a-half years into exascale-focused research and development. Led by the Horizon 2020 program, EuroEXA picks up the banner of a triad of partner projects — ExaNeSt, EcoScale and ExaNoDe — building on their work... Read more…

By Tiffany Trader

Amazon Debuts New AMD-based GPU Instances for Graphics Acceleration

September 12, 2017

Last week Amazon Web Services (AWS) streaming service, AppStream 2.0, introduced a new GPU instance called Graphics Design intended to accelerate graphics. The Read more…

By John Russell

Cray Moves to Acquire the Seagate ClusterStor Line

July 28, 2017

This week Cray announced that it is picking up Seagate's ClusterStor HPC storage array business for an undisclosed sum. "In short we're effectively transitioning the bulk of the ClusterStor product line to Cray," said CEO Peter Ungaro. Read more…

By Tiffany Trader

IBM Advances Web-based Quantum Programming

September 5, 2017

IBM Research is pairing its Jupyter-based Data Science Experience notebook environment with its cloud-based quantum computer, IBM Q, in hopes of encouraging a new class of entrepreneurial user to solve intractable problems that even exceed the capabilities of the best AI systems. Read more…

By Alex Woodie

  • arrow
  • Click Here for More Headlines
  • arrow
Share This