Running Stochastic Models on HTCondor

By Nicole Hemsoth

May 30, 2013

Groundbreaking scientific research is becoming more reliant on computationally intensive HPC resources, and mid-level research organizations without the resources to build an extensive HPC cluster are looking for cost-effective ways to contribute to these initiatives.

In an effort to evaluate creative methods of participating in those large scientific projects, research out of Brigham Young University done by Spencer Taylor examined the open source software HTCondor, which makes use of computing power from idle computers to perform jobs on a local network. In this case, it was specifically applied to a water resource model called Gridded Surface Subsurface Hydrologic Analyst (GSSHA), a model that requires computationally intensive stochastic functions not uncommon to many scientific disciplines.

The resulting tests showed that HTCondor can be a workable alternative to acquiring additional HPC resources for mid-level research institutions. “We found that performing stochastic simulations with GSSHA using HTCondor system significantly reduces overall computational time for simulations involving multiple model runs and improves modeling efficiency,” Taylor argued.

The idea behind employing HTCondor, using idle computing resources to help process large amounts of data and perform intensive computations, has notably been used by researchers at Berkeley in the [email protected] project, where home computers are volunteered when idle to form a grid that analyzes extra-terrestrial radio signals. HTCondor hopes to accomplish something similar such that mid-sized research institutions can integrate their computing base with existing HPC resources both on-site and in the cloud. As noted in the research, “the goal of this project is to demonstrate an alternative model of HPC for water resource stakeholders who would benefit from an autonomous pool of free and accessible computing resources.”

The architecture diagram below shows how the HTCondor software accesses and implements the various resources, including on-site ‘worker computers,’ local HPC implementations, and the existing HTCondor network, built similarly to the [email protected] network via volunteer computers across the country.

The specific instance set up by the BYU research utilized a model that ran six precipitation events, using hydrometeorological data over a two-week period. The simulation required 14 minutes on a single desktop computer, and the test was set up to run 150 of those simulations, which would take 35 hours on average on a single processor.

“Because of the nature of HTCondor,” as Taylor explained in the research, “each stochastic simulation ran on a different number of processors ranging from about 80 to 140. As expected, with about 100 times the computational power of normal circumstances I was able to essentially reduce the runtime by factor of 100.” In essence, by running these formerly idle processors in parallel, the BYU implementation was able to achieve performances consistent with other localized HPC instances.

As seen in the figure above and noted in the research, “it is also possible to include commercial cloud resources as part of an HTCondor pool.” The software makes it possible to optimize what jobs are sent to the cloud based on the price points.

“For example,” the research noted, “if you were using Amazon’s Elastic Compute Cloud (EC2) you could set the ‘ec2_spot_price’ variable to ‘0.011’ so that HTCondor would send jobs to the cloud only if the cost per CPU hour was $0.011 or less.” Many research institutions utilize cloud services for excess data storage and computation at peak times, so being able to incorporate those into the HTCondor system is an important consideration.

Stochastic simulations, ones where the results are dependent on several randomized probabilistic variables, are commonplace across various scientific disciplines. As such, Taylor is hopeful this application can be utilized across those disciplines. “Using the scripts developed in this project as a pattern, HTCondor could be used for many other applications besides GSSHA jobs.”

Related Articles

NASA Builds ‘Climate in a Box’

Building Supercomputers with Raspberries

Computing the Physics of Bubbles

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!

The New Scalability

April 20, 2021

HPC is all about scalability. The most powerful systems. The biggest data sets. The most cores, the most bytes, the most flops, the most bandwidth. HPC scales! Notwithstanding a few recurring arguments over the last twenty years about scaling up versus scaling out, the definition of scalability... Read more…

Supercomputer-Powered Climate Model Makes Startling Sea Level Rise Prediction

April 19, 2021

The climate science community is tasked with striking a difficult balance: inspiring precisely the amount of alarm commensurate to the climate crisis. Make estimates that are too conservative, and the public might not re Read more…

San Diego Supercomputer Center Opens ‘Expanse’ to Industry Users

April 15, 2021

When San Diego Supercomputer Center (SDSC) at the University of California San Diego was getting ready to deploy its flagship Expanse supercomputer for the large research community it supports, it also sought to optimize 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) in the UK with plans to explore use of Nvidia BlueField DPU technology. The University of Cambridge will expand... 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…

AWS Solution Channel

Research computing with RONIN on AWS

To allow more visibility into and management of Amazon Web Services (AWS) resources and expenses and minimize the cloud skills training required to operate these resources, AWS Partner RONIN created the RONIN research computing platform. 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 in his keynote, Nvidia doesn’t plan to build... Read more…

The New Scalability

April 20, 2021

HPC is all about scalability. The most powerful systems. The biggest data sets. The most cores, the most bytes, the most flops, the most bandwidth. HPC scales! Notwithstanding a few recurring arguments over the last twenty years about scaling up versus scaling out, the definition of scalability... Read more…

San Diego Supercomputer Center Opens ‘Expanse’ to Industry Users

April 15, 2021

When San Diego Supercomputer Center (SDSC) at the University of California San Diego was getting ready to deploy its flagship Expanse supercomputer for the larg 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) in the UK with plans to explore use of Nvidia BlueField DPU technology. The University of Cambridge will expand... 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…

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 in his keynote, Nvidia doesn’t plan to build... 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 developer kit. The Clara partnerships announced during... 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 (GTC), held virtually once more due to the pandemic, the company unveiled its first ever Arm-based CPU, called Grace in honor of the famous American programmer Grace Hopper. The announcement of the new... 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 computing. Nvidia is pitching the DPU as an active engine... 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…

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…

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…

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