Japan to Debut Integrated Fujitsu HPC/AI Supercomputer This Spring

By Tiffany Trader

February 25, 2021

The integrated Fujitsu HPC/AI Supercomputer, Wisteria, is coming to Japan this spring. The University of Tokyo is preparing to deploy a heterogeneous computing system, called “Wisteria/BDEC-01,” that will tackle simulation and big data “learning” workloads, in support of Japan’s Society 5.0 project, which seeks to achieve economic and social social gains through the integration of cyber and physical space.

The system comprises two partitions: a simulation node group, called Odyssey, and a data analysis node group, called Aquarius. The names reference call signs for the Apollo 13 command and lunar modules, respectively. Together the new computing systems provide an aggregate 33.1 peak double-precision petaflops; and the larger cluster, Odyssey, will be one of the world’s fastest Arm-based machines, second only to Top500 leader Fugaku.

Odyssey spans 20 Fujitsu PRIMEHPC FX1000 racks, equipped with a total 7,680 nodes, each with one Fujitsu Arm-based 48-core “A64FX” CPU. The system delivers a total peak performance of 25.9 petaflops. With each node providing 32 GiB of HBM2 memory, Odyssey’s total memory capacity is 240 TiB, and the total memory bandwidth is 7.8 PB/sec. Nodes are connected by Fujitsu’s custom Tofu Interconnect D, with a bisection bandwidth of 13.0 TB/sec.

Aquarius is based on GPU-heavy Fujitsu PRIMERGY GX2570 servers. The system comprises 45 such nodes, each housing two Intel Ice Lake CPUs and eight Nvidia A100 GPUs, delivering a combined 7.2 petaflops of peak double-precision performance. Nvidia Mellanox HDR 200 Gb/s InfiniBand ties the system together, employing full bisection bandwidth. The total system memory capacity is 36.5 TiB, and the total memory bandwidth is 578.2 TB/sec. A 25 GB/s Ethernet interface provides external connectivity at a data rate of 800 Gb/s.

A 100 Gbps EDR InfiniBand backbone connects Odyssey and Aquarius with 2 TB/sec of network bandwidth.

Wisteria/BDEC-01 leverages the Fujitsu Exabyte File System (FEFS), based on Lustre. There are actually two filesystems: the large shared filesystem (25.8 PB, 500 GB/s) and the high-speed NVMe filesystem (1 PB, 1 TB/s). 

The system will support well-known HPC programming tools, including Fortran, C / C ++ compiler, Python interpreter, and the MPI communication library. “We provide libraries, tools and applications in a wide range of fields such as computational science, data science, machine learning and artificial intelligence,” notes the University of Tokyo in a press release.

There are still open technical issues around programming combined workloads. Given the mix of architectures (Arm64 and x86), it will not be possible to run a single MPI job over the two partitions, but it will be possible to run different workloads using the same job script.

Figure showing how the two nodes are combined to optimize the parameters for the simulation model. (Source: University of Tokyo)

Project lead Kengo Nakajima (University of Tokyo/Riken R-CCS) reviewed the system design and software goals during the Riken R-CCS International Symposium on Feb. 15. (The graphics in this article are from that presentation.)

Wisteria/BDEC-01 is the first system of Japan’s BDEC (big data and extreme computing) platforms. A “Hierarchical, Hybrid, Heterogeneous (h3) system,” it will introduce a new software platform called h3-Open-BDEC that facilitates the integration of simulation, data analysis and machine/deep learning (which the partners notate as S+D+L). The five-year (software) project is funded by the Japanese government with a budget of 157 million Japanese yen ($1.48 million USD). 

“The h3-Open-BDEC is the first innovative software platform to realize integration of S+D+L (simulation, data and learning) on supercomputers in the exascale era, where computational scientists can achieve such integration without support by other experts in data analytics and machine learning,” said Nakajima.

The abstract for his talk provides additional detail. “The h3-Open-BDEC is designed for extracting the maximum performance of the supercomputers with minimum energy consumption focusing on (1) innovative method for numerical analysis based on the new principle of computing by adaptive precision, accuracy verification and automatic tuning, and (2) Hierarchical Data Driven Approach (hDDA) based on machine learning. The hDDA automatically constructs the simplified models for efficient generation of training data using Feature Detection, MOR, UQ, Sparse Modeling and AMR.”

Possible “S+D+L” applications for Wisteria/BDEC-01 (Source: University of Tokyo)

Wisteria/BDEC-01 is scheduled to begin preliminary operations on May 14, 2021, with full production deployment slated for October 2021. The supercomputer will be used for various joint usage and research programs under the HPCI and JHPCN programs, and will support the goals of Society 5.0, which the government of Japan describes as “a human-centered society that balances economic advancement with the resolution of social problems by a system that highly integrates cyberspace and physical space.”

Wisteria/BDEC-01 is being installed at the University of Tokyo Information Technology Center, which provides high-performance computing resources to industry, academia and government institutions in Japan and overseas. The center operates Oakforest-PACS and Oakbridge-CX — both Top500 machines built by Fujitsu — and serves a community of about 2,600 users, from within and and outside the university. 

Another new University of Tokyo system, MDX, is set to become operational next month (March 2021). An SC20 poster describes MDX as a data platform that is cloud-like and “more for every day applications than big sciences.” A combination of general purpose Intel Ice Lake CPU nodes and accelerated nodes equipped with two Intel Ice Lake CPUs and eight A100 GPUs will deliver more than 8 peak double-precision petaflops of computing for industry-academia and government-academia collaboration activities.

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!

GTC21: Dell Building Cloud Native Supercomputers at U Cambridge and Durham

April 14, 2021

In conjunction with GTC21, Dell Technologies today announced new supercomputers at universities across DiRAC (Distributed Research utilizing Advanced Computing) in the UK with plans to explore use of Nvidia BlueField DPU Read more…

The Role and Potential of CPUs in Deep Learning

April 14, 2021

Deep learning (DL) applications have unique architectural characteristics and efficiency requirements. Hence, the choice of computing system has a profound impact on how large a piece of the DL pie a user can finally enj Read more…

GTC21: Nvidia Launches cuQuantum; Dips a Toe in Quantum Computing

April 13, 2021

Yesterday Nvidia officially dipped a toe into quantum computing with the launch of cuQuantum SDK, a development platform for simulating quantum circuits on GPU-accelerated systems. As Nvidia CEO Jensen Huang emphasized i Read more…

Nvidia Aims Clara Healthcare at Drug Discovery, Imaging via DGX

April 12, 2021

Nvidia Corp. continues to expand its Clara healthcare platform with the addition of computational drug discovery and medical imaging tools based on its DGX A100 platform, related InfiniBand networking and its AGX develop Read more…

Nvidia Serves Up Its First Arm Datacenter CPU ‘Grace’ During Kitchen Keynote

April 12, 2021

Today at Nvidia’s annual spring GPU technology conference, held virtually once more due to the ongoing pandemic, the company announced its first ever Arm-based CPU, called Grace in honor of the famous American programmer Grace Hopper. Read more…

AWS Solution Channel

Volkswagen Passenger Cars Uses NICE DCV for High-Performance 3D Remote Visualization

 

Volkswagen Passenger Cars has been one of the world’s largest car manufacturers for over 70 years. The company delivers more than 6 million automobiles to global customers every year, from 50 production locations on five continents. Read more…

Nvidia Debuts BlueField-3 – Its Next DPU with Big Plans for an Expanded Role

April 12, 2021

Nvidia today announced its next generation data processing unit (DPU) – BlueField-3 – adding more substance to its evolving concept of the DPU as a full-fledged partner to CPUs and GPUs in delivering advanced computi Read more…

GTC21: Dell Building Cloud Native Supercomputers at U Cambridge and Durham

April 14, 2021

In conjunction with GTC21, Dell Technologies today announced new supercomputers at universities across DiRAC (Distributed Research utilizing Advanced Computing) Read more…

The Role and Potential of CPUs in Deep Learning

April 14, 2021

Deep learning (DL) applications have unique architectural characteristics and efficiency requirements. Hence, the choice of computing system has a profound impa Read more…

Nvidia Serves Up Its First Arm Datacenter CPU ‘Grace’ During Kitchen Keynote

April 12, 2021

Today at Nvidia’s annual spring GPU technology conference, held virtually once more due to the ongoing pandemic, the company announced its first ever Arm-based CPU, called Grace in honor of the famous American programmer Grace Hopper. Read more…

Nvidia Debuts BlueField-3 – Its Next DPU with Big Plans for an Expanded Role

April 12, 2021

Nvidia today announced its next generation data processing unit (DPU) – BlueField-3 – adding more substance to its evolving concept of the DPU as a full-fle Read more…

Nvidia’s Newly DPU-Enabled SuperPod Is a Multi-Tenant, Cloud-Native Supercomputer

April 12, 2021

At GTC 2021, Nvidia has announced an upgraded iteration of its DGX SuperPods, calling the new offering “the first cloud-native, multi-tenant supercomputer.” Read more…

Tune in to Watch Nvidia’s GTC21 Keynote with Jensen Huang – Recording Now Available

April 12, 2021

Join HPCwire right here on Monday, April 12, at 8:30 am PT to see the Nvidia GTC21 keynote from Nvidia’s CEO, Jensen Huang, livestreamed in its entirety. Hosted by HPCwire, you can click to join the Huang keynote on our livestream to hear Nvidia’s expected news and... Read more…

The US Places Seven Additional Chinese Supercomputing Entities on Blacklist

April 8, 2021

As tensions between the U.S. and China continue to simmer, the U.S. government today added seven Chinese supercomputing entities to an economic blacklist. The U Read more…

Habana’s AI Silicon Comes to San Diego Supercomputer Center

April 8, 2021

Habana Labs, an Intel-owned AI company, has partnered with server maker Supermicro to provide high-performance, high-efficiency AI computing in the form of new Read more…

Julia Update: Adoption Keeps Climbing; Is It a Python Challenger?

January 13, 2021

The rapid adoption of Julia, the open source, high level programing language with roots at MIT, shows no sign of slowing according to data from Julialang.org. I Read more…

Intel Launches 10nm ‘Ice Lake’ Datacenter CPU with Up to 40 Cores

April 6, 2021

The wait is over. Today Intel officially launched its 10nm datacenter CPU, the third-generation Intel Xeon Scalable processor, codenamed Ice Lake. With up to 40 Read more…

CERN Is Betting Big on Exascale

April 1, 2021

The European Organization for Nuclear Research (CERN) involves 23 countries, 15,000 researchers, billions of dollars a year, and the biggest machine in the worl Read more…

Programming the Soon-to-Be World’s Fastest Supercomputer, Frontier

January 5, 2021

What’s it like designing an app for the world’s fastest supercomputer, set to come online in the United States in 2021? The University of Delaware’s Sunita Chandrasekaran is leading an elite international team in just that task. Chandrasekaran, assistant professor of computer and information sciences, recently was named... Read more…

HPE Launches Storage Line Loaded with IBM’s Spectrum Scale File System

April 6, 2021

HPE today launched a new family of storage solutions bundled with IBM’s Spectrum Scale Erasure Code Edition parallel file system (description below) and featu Read more…

10nm, 7nm, 5nm…. Should the Chip Nanometer Metric Be Replaced?

June 1, 2020

The biggest cool factor in server chips is the nanometer. AMD beating Intel to a CPU built on a 7nm process node* – with 5nm and 3nm on the way – has been i Read more…

Saudi Aramco Unveils Dammam 7, Its New Top Ten Supercomputer

January 21, 2021

By revenue, oil and gas giant Saudi Aramco is one of the largest companies in the world, and it has historically employed commensurate amounts of supercomputing Read more…

Quantum Computer Start-up IonQ Plans IPO via SPAC

March 8, 2021

IonQ, a Maryland-based quantum computing start-up working with ion trap technology, plans to go public via a Special Purpose Acquisition Company (SPAC) merger a Read more…

Leading Solution Providers

Contributors

Can Deep Learning Replace Numerical Weather Prediction?

March 3, 2021

Numerical weather prediction (NWP) is a mainstay of supercomputing. Some of the first applications of the first supercomputers dealt with climate modeling, and Read more…

Livermore’s El Capitan Supercomputer to Debut HPE ‘Rabbit’ Near Node Local Storage

February 18, 2021

A near node local storage innovation called Rabbit factored heavily into Lawrence Livermore National Laboratory’s decision to select Cray’s proposal for its CORAL-2 machine, the lab’s first exascale-class supercomputer, El Capitan. Details of this new storage technology were revealed... Read more…

New Deep Learning Algorithm Solves Rubik’s Cube

July 25, 2018

Solving (and attempting to solve) Rubik’s Cube has delighted millions of puzzle lovers since 1974 when the cube was invented by Hungarian sculptor and archite Read more…

African Supercomputing Center Inaugurates ‘Toubkal,’ Most Powerful Supercomputer on the Continent

February 25, 2021

Historically, Africa hasn’t exactly been synonymous with supercomputing. There are only a handful of supercomputers on the continent, with few ranking on the Read more…

The History of Supercomputing vs. COVID-19

March 9, 2021

The COVID-19 pandemic poses a greater challenge to the high-performance computing community than any before. HPCwire's coverage of the supercomputing response t Read more…

AMD Launches Epyc ‘Milan’ with 19 SKUs for HPC, Enterprise and Hyperscale

March 15, 2021

At a virtual launch event held today (Monday), AMD revealed its third-generation Epyc “Milan” CPU lineup: a set of 19 SKUs -- including the flagship 64-core, 280-watt 7763 part --  aimed at HPC, enterprise and cloud workloads. Notably, the third-gen Epyc Milan chips achieve 19 percent... Read more…

HPE Names Justin Hotard New HPC Chief as Pete Ungaro Departs

March 2, 2021

HPE CEO Antonio Neri announced today (March 2, 2021) the appointment of Justin Hotard as general manager of HPC, mission critical solutions and labs, effective Read more…

Microsoft, HPE Bringing AI, Edge, Cloud to Earth Orbit in Preparation for Mars Missions

February 12, 2021

The International Space Station will soon get a delivery of powerful AI, edge and cloud computing tools from HPE and Microsoft Azure to expand technology experi Read more…

  • arrow
  • Click Here for More Headlines
  • arrow
HPCwire