Fujitsu Constructs x86 Cluster System for ICRR

January 24, 2014

TOKYO, Japan., Jan. 24 — Fujitsu today announced that it has completed construction of a new computer system for the Institute for Cosmic Ray Research (ICRR) of the University of Tokyo. This x86 cluster system, forming the backbone for ICRR’s research on cosmic rays, began operation on January 1, 2014.

The new system will store and analyze observational data on cosmic rays, which include protons, gamma rays, and neutrinos, and will be used for ICRR’s various domestic and international joint research projects in astrophysics and particle physics.

The computation server is an x86 cluster comprised of 136 FUJITSU Server PRIMERGY CX250 S2 servers, acting in tandem with a high-speed distributed file system of 33 FUJITSU Storage ETERNUS DX80 S2 units running the FEFS file system for speed, reliability, and scalability.

Integer-math performance of the computation server is rated at 96,426 using the SPECint_rate2006 benchmark, about ten times the performance of the previous system. It also boasts a file server capacity of 4.4 petabytes, which is roughly 3.2 times more capacity than the previous system, and has a data-transfer speed of 18 GB/s, an approximately 30-fold improvement.

This Fujitsu system will support the KAGRA Project and contribute to advances in other cutting-edge research in astrophysics and particle physics.

ICRR installed its first x86 cluster system in January 1991 as a collaborative research environment for multiple projects in the field of particle physics and cosmic-ray research, conducted primarily by the University of Tokyo. At locations both in and outside of Japan, ICRR has conducted research on high-energy cosmic rays, high-energy gamma rays, and neutrinos; for example, the Super-Kamiokande Project has discovered neutrino oscillations and the Tibet AS-gamma Experiment used cosmic rays to observe the sun’s cosmic-ray shadow.

Together with expanding its research in the fields of astrophysics and particle physics, ICRR plans to move forward on new experimental projects, such as the KAGRA project, which aims to detect the gravitational wave for the first time in history, and the ground-based gamma ray observatory, CTA, which is designed to help understand galactic and extragalactic very-high energy gamma-ray sources.

To meet the needs of these new projects, ICRR required a new computer system that could keep pace with dramatic growth expected in the volume of observational data and of analyses. It would be essential for the new system to boost analytical performance, have a greater storage capacity and to enhance data input and output performance.

To satisfy these requirements, the new system started with new hardware that has approximately ten times the integer-math performance of its predecessor, enough storage capacity to accommodate roughly six years’ worth of observational data in cosmic-ray research, and the FEFS scalable file system to sidestep the bottlenecks created by centralized data I/O loads, all of which result in an efficient environment that enables more accurate research.

System Overview

The new system offers two main functions: as a computation server that handles data analysis, and as a file server that stores observational data.

Computation server

An x86 cluster of 136 PRIMERGY CX250 S2 servers with up-to-date CPUs results in integer-math performance rated at 96,426 using the SPECint_rate2006 benchmark, an approximately tenfold improvement over its predecessor.

File server

With 10 FUJITSU Server PRIMERGY RX300 S7 servers and 33 ETERNUS DX80 S2 storage units, the system has 4.4 PB of storage capacity and an 18-GB/s data-transfer speed, giving it roughly 3.2 times the storage capacity of its predecessor and about 30 times the data transfer performance. The FEFS scalable file system includes functions that allow storage capacity and bandwidth to be allocated on a per-user and per-group basis, creating a research environment optimized for multiple research projects. The FEFS file system demonstrated its value in Super-Kamiokande’s system in 2011.

Additional components of the system include 12 FUJITSU Server PRIMERGY RX200 S8 servers used as a login environment for 450 ICRR researchers, a FUJITSU Storage ETERNUS NR1000 F3220 storage system with 22 TB for networked storage, 15×86 servers that provide e-mail, web, and other network services, a storage unit, and additional network switches.

Future Prospects

The new system will be used in ICRR’s projects both in and outside of Japan, and will help illuminate the mechanisms underlying ultra-high energy phenomena such as where and how high-energy cosmic rays originate and accelerate, through deeper, broader studies of the cosmos. Furthermore, inquiries into the properties of neutrinos and into dark matter particles will lead to even further advances in the study of cosmic rays and particle physics. The world’s first gravitational wave detections promise to reveal new aspects of the universe, bringing us closer to testing the theory of general relativity, and to probe the beginning of the universe.

“At ICRR, we expect to begin many new research projects. Accordingly, it is anticipated that there will be a significant increase in observational data. To handle the storage and high-speed processing of this data, we needed to upgrade the performance of our computer system. In particular, our goal was to dramatically increase the speed of data transmission, and for a high-performance, highly reliable storage system that meets these requirements, we employed the Fujitsu FEFS file system. We expect the research groups using the computer system to announce many new observational results in the future that generate new insights into hitherto unknown phenomena relating to the universe and cosmic ray particles,” said Kimihiro Okumura, Associate Professor, ICRR, University of Tokyo.

About Fujitsu Limited

Fujitsu is the leading Japanese information and communication technology (ICT) company offering a full range of technology products, solutions and services. Approximately 170,000 Fujitsu people support customers in more than 100 countries. We use our experience and the power of ICT to shape the future of society with our customers. Fujitsu Limited reported consolidated revenues of 4.4 trillion yen (US$47 billion) for the fiscal year ended March 31, 2013 For more information, please see www.fujitsu.com.

—–

Source: Fujitsu Limited

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!

Women Coders from Russia, Italy, and Poland Top Study

January 17, 2017

According to a study posted on HackerRank today the best women coders as judged by performance on HackerRank challenges come from Russia, Italy, and Poland. Read more…

By John Russell

Spurred by Global Ambitions, Inspur in Joint HPC Deal with DDN

January 17, 2017

Inspur, the fast-growth cloud computing and server vendor from China that has several systems on the current Top500 list, and DDN, a leader in high-end storage, have announced a joint sales and marketing agreement to produce solutions based on DDN storage platforms integrated with servers, networking, software and services from Inspur. Read more…

By Doug Black

Weekly Twitter Roundup (Jan. 12, 2017)

January 12, 2017

Here at HPCwire, we aim to keep the HPC community apprised of the most relevant and interesting news items that get tweeted throughout the week. Read more…

By Thomas Ayres

NSF Seeks Input on Cyberinfrastructure Advances Needed

January 12, 2017

In cased you missed it, the National Science Foundation posted a “Dear Colleague Letter” (DCL) late last week seeking input on needs for the next generation of cyberinfrastructure to support science and engineering. Read more…

By John Russell

HPE Extreme Performance Solutions

Remote Visualization: An Integral Technology for Upstream Oil & Gas

As the exploration and production (E&P) of natural resources evolves into an even more complex and vital task, visualization technology has become integral for the upstream oil and gas industry. Read more…

NSF Approves Bridges Phase 2 Upgrade for Broader Research Use

January 12, 2017

The recently completed phase 2 upgrade of the Bridges supercomputer at the Pittsburgh Supercomputing Center (PSC) has been approved by the National Science Foundation (NSF) making it now available for research allocations to the national scientific community, according to an announcement posted this week on the XSEDE web site. Read more…

By John Russell

Clemson Software Optimizes Big Data Transfers

January 11, 2017

Data-intensive science is not a new phenomenon as the high-energy physics and astrophysics communities can certainly attest, but today more and more scientists are facing steep data and throughput challenges fueled by soaring data volumes and the demands of global-scale collaboration. Read more…

By Tiffany Trader

For IBM/OpenPOWER: Success in 2017 = (Volume) Sales

January 11, 2017

To a large degree IBM and the OpenPOWER Foundation have done what they said they would – assembling a substantial and growing ecosystem and bringing Power-based products to market, all in about three years. Read more…

By John Russell

UberCloud Cites Progress in HPC Cloud Computing

January 10, 2017

200 HPC cloud experiments, 80 case studies, and a ton of hands-on experience gained, that’s the harvest of four years of UberCloud HPC Experiments. Read more…

By Wolfgang Gentzsch and Burak Yenier

Spurred by Global Ambitions, Inspur in Joint HPC Deal with DDN

January 17, 2017

Inspur, the fast-growth cloud computing and server vendor from China that has several systems on the current Top500 list, and DDN, a leader in high-end storage, have announced a joint sales and marketing agreement to produce solutions based on DDN storage platforms integrated with servers, networking, software and services from Inspur. Read more…

By Doug Black

For IBM/OpenPOWER: Success in 2017 = (Volume) Sales

January 11, 2017

To a large degree IBM and the OpenPOWER Foundation have done what they said they would – assembling a substantial and growing ecosystem and bringing Power-based products to market, all in about three years. Read more…

By John Russell

UberCloud Cites Progress in HPC Cloud Computing

January 10, 2017

200 HPC cloud experiments, 80 case studies, and a ton of hands-on experience gained, that’s the harvest of four years of UberCloud HPC Experiments. Read more…

By Wolfgang Gentzsch and Burak Yenier

A Conversation with Women in HPC Director Toni Collis

January 6, 2017

In this SC16 video interview, HPCwire Managing Editor Tiffany Trader sits down with Toni Collis, the director and founder of the Women in HPC (WHPC) network, to discuss the strides made since the organization’s debut in 2014. Read more…

By Tiffany Trader

BioTeam’s Berman Charts 2017 HPC Trends in Life Sciences

January 4, 2017

Twenty years ago high performance computing was nearly absent from life sciences. Today it’s used throughout life sciences and biomedical research. Genomics and the data deluge from modern lab instruments are the main drivers, but so is the longer-term desire to perform predictive simulation in support of Precision Medicine (PM). There’s even a specialized life sciences supercomputer, ‘Anton’ from D.E. Shaw Research, and the Pittsburgh Supercomputing Center is standing up its second Anton 2 and actively soliciting project proposals. There’s a lot going on. Read more…

By John Russell

Fast Rewind: 2016 Was a Wild Ride for HPC

December 23, 2016

Some years quietly sneak by – 2016 not so much. It’s safe to say there are always forces reshaping the HPC landscape but this year’s bunch seemed like a noisy lot. Among the noisemakers: TaihuLight, DGX-1/Pascal, Dell EMC & HPE-SGI et al., KNL to market, OPA-IB chest thumping, Fujitsu-ARM, new U.S. President-elect, BREXIT, JR’s Intel Exit, Exascale (whatever that means now), NCSA@30, whither NSCI, Deep Learning mania, HPC identity crisis…You get the picture. Read more…

By John Russell

AWI Uses New Cray Cluster for Earth Sciences and Bioinformatics

December 22, 2016

The Alfred Wegener Institute, Helmholtz Centre for Polar and Marine Research (AWI), headquartered in Bremerhaven, Germany, is one of the country's premier research institutes within the Helmholtz Association of German Research Centres, and is an internationally respected center of expertise for polar and marine research. In November 2015, AWI awarded Cray a contract to install a cluster supercomputer that would help the institute accelerate time to discovery. Now the effort is starting to pay off. Read more…

By Linda Barney

Addison Snell: The ‘Wild West’ of HPC Disaggregation

December 16, 2016

We caught up with Addison Snell, CEO of HPC industry watcher Intersect360, at SC16 last month, and Snell had his expected, extensive list of insights into trends driving advanced-scale technology in both the commercial and research sectors. Read more…

By Doug Black

AWS Beats Azure to K80 General Availability

September 30, 2016

Amazon Web Services has seeded its cloud with Nvidia Tesla K80 GPUs to meet the growing demand for accelerated computing across an increasingly-diverse range of workloads. The P2 instance family is a welcome addition for compute- and data-focused users who were growing frustrated with the performance limitations of Amazon's G2 instances, which are backed by three-year-old Nvidia GRID K520 graphics cards. Read more…

By Tiffany Trader

US, China Vie for Supercomputing Supremacy

November 14, 2016

The 48th edition of the TOP500 list is fresh off the presses and while there is no new number one system, as previously teased by China, there are a number of notable entrants from the US and around the world and significant trends to report on. Read more…

By Tiffany Trader

Vectors: How the Old Became New Again in Supercomputing

September 26, 2016

Vector instructions, once a powerful performance innovation of supercomputing in the 1970s and 1980s became an obsolete technology in the 1990s. But like the mythical phoenix bird, vector instructions have arisen from the ashes. Here is the history of a technology that went from new to old then back to new. Read more…

By Lynd Stringer

For IBM/OpenPOWER: Success in 2017 = (Volume) Sales

January 11, 2017

To a large degree IBM and the OpenPOWER Foundation have done what they said they would – assembling a substantial and growing ecosystem and bringing Power-based products to market, all in about three years. Read more…

By John Russell

Container App ‘Singularity’ Eases Scientific Computing

October 20, 2016

HPC container platform Singularity is just six months out from its 1.0 release but already is making inroads across the HPC research landscape. It's in use at Lawrence Berkeley National Laboratory (LBNL), where Singularity founder Gregory Kurtzer has worked in the High Performance Computing Services (HPCS) group for 16 years. Read more…

By Tiffany Trader

Dell EMC Engineers Strategy to Democratize HPC

September 29, 2016

The freshly minted Dell EMC division of Dell Technologies is on a mission to take HPC mainstream with a strategy that hinges on engineered solutions, beginning with a focus on three industry verticals: manufacturing, research and life sciences. "Unlike traditional HPC where everybody bought parts, assembled parts and ran the workloads and did iterative engineering, we want folks to focus on time to innovation and let us worry about the infrastructure," said Jim Ganthier, senior vice president, validated solutions organization at Dell EMC Converged Platforms Solution Division. Read more…

By Tiffany Trader

Lighting up Aurora: Behind the Scenes at the Creation of the DOE’s Upcoming 200 Petaflops Supercomputer

December 1, 2016

In April 2015, U.S. Department of Energy Undersecretary Franklin Orr announced that Intel would be the prime contractor for Aurora: Read more…

By Jan Rowell

Enlisting Deep Learning in the War on Cancer

December 7, 2016

Sometime in Q2 2017 the first ‘results’ of the Joint Design of Advanced Computing Solutions for Cancer (JDACS4C) will become publicly available according to Rick Stevens. He leads one of three JDACS4C pilot projects pressing deep learning (DL) into service in the War on Cancer. Read more…

By John Russell

Leading Solution Providers

D-Wave SC16 Update: What’s Bo Ewald Saying These Days

November 18, 2016

Tucked in a back section of the SC16 exhibit hall, quantum computing pioneer D-Wave has been talking up its new 2000-qubit processor announced in September. Forget for a moment the criticism sometimes aimed at D-Wave. This small Canadian company has sold several machines including, for example, ones to Lockheed and NASA, and has worked with Google on mapping machine learning problems to quantum computing. In July Los Alamos National Laboratory took possession of a 1000-quibit D-Wave 2X system that LANL ordered a year ago around the time of SC15. Read more…

By John Russell

CPU Benchmarking: Haswell Versus POWER8

June 2, 2015

With OpenPOWER activity ramping up and IBM’s prominent role in the upcoming DOE machines Summit and Sierra, it’s a good time to look at how the IBM POWER CPU stacks up against the x86 Xeon Haswell CPU from Intel. Read more…

By Tiffany Trader

Nvidia Sees Bright Future for AI Supercomputing

November 23, 2016

Graphics chipmaker Nvidia made a strong showing at SC16 in Salt Lake City last week. Read more…

By Tiffany Trader

New Genomics Pipeline Combines AWS, Local HPC, and Supercomputing

September 22, 2016

Declining DNA sequencing costs and the rush to do whole genome sequencing (WGS) of large cohort populations – think 5000 subjects now, but many more thousands soon – presents a formidable computational challenge to researchers attempting to make sense of large cohort datasets. Read more…

By John Russell

Beyond von Neumann, Neuromorphic Computing Steadily Advances

March 21, 2016

Neuromorphic computing – brain inspired computing – has long been a tantalizing goal. The human brain does with around 20 watts what supercomputers do with megawatts. And power consumption isn’t the only difference. Fundamentally, brains ‘think differently’ than the von Neumann architecture-based computers. While neuromorphic computing progress has been intriguing, it has still not proven very practical. Read more…

By John Russell

The Exascale Computing Project Awards $39.8M to 22 Projects

September 7, 2016

The Department of Energy’s Exascale Computing Project (ECP) hit an important milestone today with the announcement of its first round of funding, moving the nation closer to its goal of reaching capable exascale computing by 2023. Read more…

By Tiffany Trader

Dell Knights Landing Machine Sets New STAC Records

November 2, 2016

The Securities Technology Analysis Center, commonly known as STAC, has released a new report characterizing the performance of the Knight Landing-based Dell PowerEdge C6320p server on the STAC-A2 benchmarking suite, widely used by the financial services industry to test and evaluate computing platforms. The Dell machine has set new records for both the baseline Greeks benchmark and the large Greeks benchmark. Read more…

By Tiffany Trader

What Knights Landing Is Not

June 18, 2016

As we get ready to launch the newest member of the Intel Xeon Phi family, code named Knights Landing, it is natural that there be some questions and potentially some confusion. Read more…

By James Reinders, Intel

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