DDN Strikes Balance for Parallel Storage I/O

By Alex Woodie

November 18, 2014

Today at Supercomputing 2014, DataDirect Networks lifted the veil a bit more on Infinite Memory Engine (IME), its new software that will employ Flash storage and a bunch of smart algorithms to create a buffer between HPC compute and parallel file system resources, with the goal of improving file I/O by up to 100x. The company also announced the latest release of its Exascaler, its Lustre-based storage appliance lineup.

The data patterns have been changing at HPC sites in a way that is creating bottlenecks in the I/O. While many HPC shops may think they’re primarily working with large and sequential files, the reality is that most data is relatively small and random, and that fragmented I/O creates problems when moving the data across the interconnect, says Jeff Sisilli, Sr. Director Product Marketing at DataDirect Networks.

“Parallel file systems were really built for large files,” Sisilli tells HPCwire. “What we’re finding is 90 percent of typical I/O in HPC data centers utilizes small files, those less than 32KB. What happens is, when you inject those into a parallel file system, it starts to really bring down performance.”

DDN says it overcame the restrictions in how parallel file systems were created with IME, which creates a storage tier above the file system and provides a “fast data” layer between the compute nodes in an HPC cluster and the backend file system. The software, which resides on the I/O nodes in the cluster, utilizes any available Flash solid state drives (SSDs) or other non-volatile memory (NVM) storage resources available, creating a “burst buffer” to absorb peak loads and eliminate I/O contention.

IME_diagramIME works in two ways. First, it removes any limitations of the POSIX layer, such as file locks, that can slow down communication. Secondly, algorithms bundle up the small and random I/O operations into larger files that can be more efficiently read into the file system.

In lab tests at a customer site, DDN ran IME against the S3D turbulent flow modeling software. The software was really designed for larger sequential files, but is often used in the real world with smaller and random files. In the customer’s case, these “mal-aligned and fragmented” files were causing I/O throughput across the InfiniBand interconnect to drop to 25 MBs per second.

After introducing IME, the customer was able to ingest data from the compute cluster onto IME’s SSDs at line rate. “This customer was using InfiniBand, and we were able to fill up InfiniBand all the way to line rate, and absorb at 50 GB per second,” Sisilli says.

The data wasn’t written back into the file system quite that quickly. But because the algorithms were able to align all those small files and convert fragments into full stripe writes, it did provide a speed up compared to 25MB per second. “We were able to drain out the buffer and write to the parallel file system at 4GB per second, which is two orders of magnitude faster than before,” Sisilli says.

The “net net” of IME, Sisilli says, is it frees up HPC compute cluster resources. “From the parallel file system side, we’re able to shield the parallel file system and underlying storage arrays from fragmented I/O, and have those be able to ingest optimized data and utilize much less hardware to be able to get to the performance folks need up above,” he says.

IME will work with any Lustre- or GPFS-based parallel file system. That includes DDN’s own EXAscaler line of Lustre-based storage appliances, or the storage appliances of any other vendor. There are no application modifications required to use IME, which also features data erasure encoding capabilities typicaly found in object file stores. The only requirements are that the application is POSIX compliant or uses the MPI job scheduler. DDN also provides an API that customers can use if they want to modify their apps to work with IME; the company has plans to create an ecosystem of compatible tools using this API.

There are other vendors developing similar Flash-bashed storage buffer offerings. But DDN says the fact that it’s taking an open, software-based approach gives customer an advantage over those vendors that are requiring customers to purchase specialized hardware, or those that work with only certain types of Interconnects.

IME_burst_bufferIME isn’t available yet; it’s still in technology preview mode. But when it becomes available, scalability won’t be an issue. The software will be able to corral and make available petabytes worth of Flash or NVM storage resources living across thousands of nodes, Sisilli says. “What we’re recommending is [to have in IME] anywhere between two to three amount of your compute cluster memory to have a great working space within IME to accelerate your applications and and do I/O,” he says. “That can be all the way down to terabytes, and for supercomputers, it’s multi petabytes.”

IME is still undergoing tests, and is expected to become generally available in the second quarter of 2015. DDN will offer it as an appliance or as software.

DDN also today unveiled a new release of EXAScaler. With Version 2.1, DDN has improved read and write I/O performance by 25 percent. That will give DDN a comfortable advantage over competing file systems for some time, says Roger Goff, Sr. Product Manager for DDN.

“We know what folks are about to announce because they pre-announce those things,” Goff says. “Our solution is tremendously faster than what you will see [from other vendors], particularly on a per-rack performance basis.”

Other new features in version 2.1 include support for self-encrypting drives; improved rebuild times; InfiniBand optimizations; and better integration with DDN’s Storage Fusion Xcelerator (SFX Flash Caching) software.

DDN has also standardized on the Lustre file system from Intel, called Intel Enterprise Edition for Lustre version 2.5. That brings it several new capabilities, including a new MapReduce connector for running Hadoop workloads.

“So instead of having data replicated across multiple nodes in the cluster, which is the native mode for HDFS, with this adapter, you can run those Hadoop applications and take advantages of the single-copy nature of a parallel file system, yet have the same capability of a parallel file system to scale to thousands and thousands of clients accessing that same data,” Goff says.

EXAScaler version 2.1 is available now across all three EXAScaler products, including the entry-level SFA7700, the midrange ES12k/SFA12k-20, and the high-end SFA12KX/SFA212k-40.

Related Items:

DDN Discusses Enterprise HPC Momentum

DDN’s IME Software Scales I/O Performance on the Rocky Road to Exascale

DDN Aims for Deeper, Cheaper Archives

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!

DARPA, NSF Seek Real-Time ML Processor

March 18, 2019

A new U.S. research initiative seeks to develop a processor capable of real-time learning while operating with the “efficiency of the human brain.” The National Science Foundation (NSF) and the Defense Advanced Re Read more…

By George Leopold

It’s Official: Aurora on Track to Be First U.S. Exascale Computer in 2021

March 18, 2019

The U.S. Department of Energy along with Intel and Cray confirmed today that an Intel/Cray supercomputer, "Aurora," capable of sustained performance of one exaflops, will be delivered by the end of 2021 to Argonne Nation Read more…

By Tiffany Trader

NASA’s Pleiades Simulates Launch Abort Scenarios

March 15, 2019

NASA is using flow simulations running on its Pleiades supercomputer to help design the agency’s next manned spacecraft, Orion. Crew safety is paramount, so NASA engineers are using the HPC cluster to simulate and v Read more…

By George Leopold

HPE Extreme Performance Solutions

HPE and Intel® Omni-Path Architecture: How to Power a Cloud

Learn how HPE and Intel® Omni-Path Architecture provide critical infrastructure for leading Nordic HPC provider’s HPCFLOW cloud service.

powercloud_blog.jpgFor decades, HPE has been at the forefront of high-performance computing, and we’ve powered some of the fastest and most robust supercomputers in the world. Read more…

IBM Accelerated Insights

The Spark That Ignited A New World of Real-Time Analytics

High Performance Computing has always been about Big Data. It’s not uncommon for research datasets to contain millions of files and many terabytes, even petabytes of data, or more. Read more…

Why Nvidia Bought Mellanox: ‘Future Datacenters Will Be…Like High Performance Computers’

March 14, 2019

“Future datacenters of all kinds will be built like high performance computers,” said Nvidia CEO Jensen Huang during a phone briefing on Monday after Nvidia revealed scooping up the high performance networking company Mellanox for $6.9 billion. Read more…

By Tiffany Trader

It’s Official: Aurora on Track to Be First U.S. Exascale Computer in 2021

March 18, 2019

The U.S. Department of Energy along with Intel and Cray confirmed today that an Intel/Cray supercomputer, "Aurora," capable of sustained performance of one exaf Read more…

By Tiffany Trader

Why Nvidia Bought Mellanox: ‘Future Datacenters Will Be…Like High Performance Computers’

March 14, 2019

“Future datacenters of all kinds will be built like high performance computers,” said Nvidia CEO Jensen Huang during a phone briefing on Monday after Nvidia revealed scooping up the high performance networking company Mellanox for $6.9 billion. Read more…

By Tiffany Trader

Oil and Gas Supercloud Clears Out Remaining Knights Landing Inventory: All 38,000 Wafers

March 13, 2019

The McCloud HPC service being built by Australia’s DownUnder GeoSolutions (DUG) outside Houston is set to become the largest oil and gas cloud in the world th Read more…

By Tiffany Trader

Quick Take: Trump’s 2020 Budget Spares DoE-funded HPC but Slams NSF and NIH

March 12, 2019

U.S. President Donald Trump’s 2020 budget request, released yesterday, proposes deep cuts in many science programs but seems to spare HPC funding by the Depar Read more…

By John Russell

Nvidia Wins Mellanox Stakes for $6.9 Billion

March 11, 2019

The long-rumored acquisition of Mellanox came to fruition this morning with GPU chipmaker Nvidia’s announcement that it has purchased the high-performance net Read more…

By Doug Black

Optalysys Rolls Commercial Optical Processor

March 7, 2019

Optalysys, Ltd., a U.K. company seeking to advance it optical co-processor technology, moved a step closer this week with the unveiling of what it claims is th Read more…

By George Leopold

Intel Responds to White House AI Initiative

March 6, 2019

The Trump Administration’s release last month of the “American AI Initiative,” aimed at prioritizing federal R&D investments in machine intelligence, Read more…

By Doug Black

IBM Pitches Quantum Volume as Benchmarking Tool for Gate-based Quantum Computers

March 6, 2019

IBM this week announced it had achieved its highest Quantum Volume number to date at the American Physical Society (APS) March meeting being held in Boston. Wha Read more…

By John Russell

Quantum Computing Will Never Work

November 27, 2018

Amid the gush of money and enthusiastic predictions being thrown at quantum computing comes a proposed cold shower in the form of an essay by physicist Mikhail Read more…

By John Russell

The Case Against ‘The Case Against Quantum Computing’

January 9, 2019

It’s not easy to be a physicist. Richard Feynman (basically the Jimi Hendrix of physicists) once said: “The first principle is that you must not fool yourse Read more…

By Ben Criger

ClusterVision in Bankruptcy, Fate Uncertain

February 13, 2019

ClusterVision, European HPC specialists that have built and installed over 20 Top500-ranked systems in their nearly 17-year history, appear to be in the midst o Read more…

By Tiffany Trader

Intel Reportedly in $6B Bid for Mellanox

January 30, 2019

The latest rumors and reports around an acquisition of Mellanox focus on Intel, which has reportedly offered a $6 billion bid for the high performance interconn Read more…

By Doug Black

Looking for Light Reading? NSF-backed ‘Comic Books’ Tackle Quantum Computing

January 28, 2019

Still baffled by quantum computing? How about turning to comic books (graphic novels for the well-read among you) for some clarity and a little humor on QC. The Read more…

By John Russell

Why Nvidia Bought Mellanox: ‘Future Datacenters Will Be…Like High Performance Computers’

March 14, 2019

“Future datacenters of all kinds will be built like high performance computers,” said Nvidia CEO Jensen Huang during a phone briefing on Monday after Nvidia revealed scooping up the high performance networking company Mellanox for $6.9 billion. Read more…

By Tiffany Trader

Contract Signed for New Finnish Supercomputer

December 13, 2018

After the official contract signing yesterday, configuration details were made public for the new BullSequana system that the Finnish IT Center for Science (CSC Read more…

By Tiffany Trader

Deep500: ETH Researchers Introduce New Deep Learning Benchmark for HPC

February 5, 2019

ETH researchers have developed a new deep learning benchmarking environment – Deep500 – they say is “the first distributed and reproducible benchmarking s Read more…

By John Russell

Leading Solution Providers

SC 18 Virtual Booth Video Tour

Advania @ SC18 AMD @ SC18
ASRock Rack @ SC18
DDN Storage @ SC18
HPE @ SC18
IBM @ SC18
Lenovo @ SC18 Mellanox Technologies @ SC18
NVIDIA @ SC18
One Stop Systems @ SC18
Oracle @ SC18 Panasas @ SC18
Supermicro @ SC18 SUSE @ SC18 TYAN @ SC18
Verne Global @ SC18

IBM Quantum Update: Q System One Launch, New Collaborators, and QC Center Plans

January 10, 2019

IBM made three significant quantum computing announcements at CES this week. One was introduction of IBM Q System One; it’s really the integration of IBM’s Read more…

By John Russell

IBM Bets $2B Seeking 1000X AI Hardware Performance Boost

February 7, 2019

For now, AI systems are mostly machine learning-based and “narrow” – powerful as they are by today's standards, they're limited to performing a few, narro Read more…

By Doug Black

The Deep500 – Researchers Tackle an HPC Benchmark for Deep Learning

January 7, 2019

How do you know if an HPC system, particularly a larger-scale system, is well-suited for deep learning workloads? Today, that’s not an easy question to answer Read more…

By John Russell

HPC Reflections and (Mostly Hopeful) Predictions

December 19, 2018

So much ‘spaghetti’ gets tossed on walls by the technology community (vendors and researchers) to see what sticks that it is often difficult to peer through Read more…

By John Russell

Arm Unveils Neoverse N1 Platform with up to 128-Cores

February 20, 2019

Following on its Neoverse roadmap announcement last October, Arm today revealed its next-gen Neoverse microarchitecture with compute and throughput-optimized si Read more…

By Tiffany Trader

Move Over Lustre & Spectrum Scale – Here Comes BeeGFS?

November 26, 2018

Is BeeGFS – the parallel file system with European roots – on a path to compete with Lustre and Spectrum Scale worldwide in HPC environments? Frank Herold Read more…

By John Russell

France to Deploy AI-Focused Supercomputer: Jean Zay

January 22, 2019

HPE announced today that it won the contract to build a supercomputer that will drive France’s AI and HPC efforts. The computer will be part of GENCI, the Fre Read more…

By Tiffany Trader

Microsoft to Buy Mellanox?

December 20, 2018

Networking equipment powerhouse Mellanox could be an acquisition target by Microsoft, according to a published report in an Israeli financial publication. Microsoft has reportedly gone so far as to engage Goldman Sachs to handle negotiations with Mellanox. Read more…

By Doug Black

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