Volume 9, Number 1, March 2012


Supercomputing Institute Users Bulletin

March 15, 2012

Vol. 9, No. 1

Editor: Tracey A. Bartlett

The Minnesota Supercomputing Institute (MSI) Users Bulletin provides information about news, policies, procedures, and events of interest to users of MSI resources. It is published quarterly.

In order for us to publicize the research performed using our resources, MSI requests the following:

  • MSI researchers should submit information about pre-prints and reprints that describe research supported in whole or in part by MSI resources (hardware,software, or user support). Researchers should send the DOI for reprints tosubmissions@msi.umn.edu. For prepreprints, resaerchers should submit full citations that include title, author(s), and any other pertinent information. MSI should also be notified if a preprint changes to a reprint. Finally, MSI should be acknowledged in all publications in the byline, the acknowledgments, or both. For more information, see theResearch Reports webpage.
  • If you have a website describing your research using MSI resources, we would appreciate acknowledgment somewhere on the site and/or a link to the MSI website.
  • If you have videos of your research or suggestions for research articles that we can use in MSI publications and on the website, please submit them to the MSI PR/Outreach Committee at videoclips-articles@msi.umn.edu.

Table of Contents for March 15, 2012 MSI Users Bulletin

1. Project Spaces on Windows

2. Deployment of Cascade GPU System

3. Deployment of Overclocked Hardcore System

4. Software Updates

5. Supplemental SUs

6. Upcoming Events

7. Jobs at MSI

8. Useful links, Quickstart Guides, and email addresses

1. Project Spaces on Windows: Project spaces are now available on MSI Windows systems upon request; please contact help@msi.umn.edu to have your group's project space made available on Windows. See the FAQ webpage for more information about using MSI project space, including how to mount it as a local drive on your own Windows system.

2. Deployment of Cascade GPU System: The Cascade GPU system is now available to users. Cascade consists of a Dell R710 head/login node, 48 GB of memory; eight Dell compute nodes, each with dual X5675 six-core 3.06 GHz processors and 96 GB of memory; and 32 Nvidia M2070 GPUs. Each compute node is connected to four GPU nodes, which, together, have 448 3.13 GHz cores and 3 GB of memory per card. Each GPU is capable of 1.2 single-precision TFLOPS and 0.5 double-precision TFLOPs. See theCascade information webpage for system details.

3. Deployment of Overclocked Hardcore System: MSI is pleased to announce the availability of a new overclocked system on Itasca. The overclocked system consists of four fluid-cooled servers that are overclocked up to 4.1 GHz. The servers are Westmere, nominally running at 3.46 GHz, and each node has two sockets with a total of 12 cores per node. Each node has 24 GB of memory. Sharing is permitted on this hardware, so you may request fewer than 12 cores per node.

The new hardware is accessible through the 'oc' queue for up to 24 hours at a time. This new system complements the distributed computing of Itasca by providing an ideal place to run serial applications. These overclocked nodes have access to all of the standard resources of Itasca, e.g. scheduler, home directories. and the /lustre scratch filesystem.

The overclocked nodes have been provided by Hardcore Computer, Inc, a leading Minnesota-based manufacturer of liquid-cooled systems.

4. Software Updates: In order to make sure that MSI resources are aligned to the needs of our users, the software working group reviews and adjusts the software MSI purchases and supports. Changes to MSI software availability and support can be found at the Software Renewals webpage.

5. Supplemental SUs: The next deadline for requesting supplemental SU requests is April 1, 2012. The resource allocation committee will be meeting shortly after that date to assign additional SUs. If you need more SUs, please submit the Additional SU form, which can be found on the Getting Access webpage.

6. Upcoming Events:

a. MSI will hold a Meet and Greet for the Research Informatics Support Systems (RISS) Program on March 22, 2012, 1:00 - 3:00, on the fourth floor of Walter Library. Attendees will have the opportunity to learn about MSI's informatics services and to meet the RISS staff. Light refreshments will be served. More information can be found on theRISS Meet and Greet webpage.

b. The 2012 MSI Research Exhibition will be held on Friday, April 13, 2012. The event will be from 1:00 - 3:30 on the fourth floor of Walter Library. This annual poster session showcases the research being done using MSI resources. Everyone is invited to attend; light refreshments will be provided. More information can be found on the Research Exhibition webpage.

7. Jobs at MSI: Persons interested in jobs at MSI can check our homepage for links to descriptions of available positions. The Employment section is in the right-hand column of the page.

8. Useful links, Quickstart Guides, and email addresses:

Please be sure to change your password often.


High-Performance Computing Machines

Basic Sciences Computing Laboratory (BSCL)

Biomedical Modeling, Simulation, and Design Laboratory (BMSDL)

Computational Genetics Laboratory (CGL)

LCSE-MSI Visualization Laboratory (LMVL)

Scientific Development and Visualization Laboratory (SDVL)

Research Informatics Support Systems (RISS)

One-Stop Portal for Computational Biology and Bioinformatics

Quickstart Guides:

Quickstart Guide for Itasca (HP Linux Cluster)

Quickstart Guide for Koronis (SGI Altix UV Constellation)

Quickstart Guide for Calhoun (SGI Altix XE 1300 Linux Cluster)

Quickstart Guide for Elmo (Sun Fire X4600 Linux Cluster)

Quickstart Guide for Cascade (Dell GPU cluster)

Useful email addresses:

help@msi.umn.edu -- for all requests for user assistance (technical help for all users)

projects@msi.umn.edu -- for all questions concerning account renewal, new principal investigators, and service units (administrative help for all users)

accounts@msi.umn.edu -- for all questions and instructions concerning changes in users and accounts for existing users

riss@msi.umn.edu -- to contact the RISS program staff

submissions@msi.umn.edu -- for submission of research reports containing work done using MSI resources

alt-format@msi.umn.edu -- to request access to information in an alternative format for individuals with disabilities

outreach@msi.umn.edu -- for inquiries about joint user/MSI outreach activities

videoclips-articles@msi.umn.edu -- to submit research videos and article suggestions for use on MSI's websites and publications