Introductory Course on High Performance Computing and Scientific Computing

High performance computing (HPC) is taking a fundamental role in scientific research around the world. Here at the University of Saskatchewan, the research computing group is making efforts to provide access to these new resources and technology to our researchers.  As part of these efforts, we designed an delivered an introductory course intended for those graduate students, PDFs and researchers who want to start using HPC resources to speed up their researches.

The first offering of our course ran on September 18 and 19.  During 12 hours, the 25 attendees (mostly graduate students and some staff members) reviewed the basic commands and concepts of a Linux system, and the characteristics of the different HPC systems that we have at the University (Plato, Zeno and Meton). They learned how to use efficiently these systems and which kind of problems fit better to each one: shared memory, distributed memory, GPU clusters, and large memory systems. Finally, they analyzed and solved practical examples using the systems (for more details see the course outline below).

Originally we designed the course with an aim to bring new users with no experience or little experience with Linux systems and HPC servers, to a point where they must be able to deploy HPC applications on the most suitable system depending on the problem at hand. The contents of the course could be customized, however, for future offerings according to the attendees backgrounds and interests. We are willing to offer the course again soon, with next offering potentially in January, as long as there are people interested. So, please do not hesitate to contact us at research_computing@usask.ca with your questions and comments if you are interested in attending.

Original course outline:

1. Introduction to scientific computing
2. Linux basics
3. Compiled and interpreted languages
4. High performance computers
5. Running serial codes in a server
6. Running parallel code in distributed memory systems
7. Running parallel code in shared memory systems
8. Running code with GPU acceleration

Coast2Coast Fall Seminar Series in WestGrid Collaboration Facility: Antibody Sequencing

The University has been participating in the Coast2Coast Seminar series for a number of years.  Organized out of IRMACS at Simon Fraser University, two themed seminar series are delivered per year, Fall and Spring.  This term’s C2C Seminar is on Antibody Sequencing, organized by Dr. Felix Breden from SFU.

 The University of Saskatchewan local connection to this seminar series will be held in the WestGrid Visualization and Collaboration Facility (Agriculture 2D71).  The first seminar of the series is Tuesday, September 30 at 12:30 CST Saskatoon time.

Space is limited, so please RSVP to collab-usask@westgrid.ca for each attendee.

Felix Breden describes the Seminar Series beneath the cut:

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REDCap Service Launch Announcement

As pre-announced in an earlier post in this blog, REDCap hosting is being launched as a service from ICT today.

REDCap is a data collection and management tool written by a group at Vanderbilt University, and adopted by over 1100 institutions world-wide from Dunedin to Reykjavik, who form the REDCap Consortium. Researchers on campus have been requesting this tool for their research.

The University of Saskatchewan implementation is described on this service page in ICT’s website. There are some restrictions on the use of the service, many having to do with the terms of our agreement signed to allow us to join the REDCap Consortium. Researchers wishing to use the service will complete a form and send that to the service support team.

We will respond with information on how to access the REDCap service and other information on its use. There is currently no charge for the service, and none are anticipated in the future.

For the REDCap service only, please contact REDCap_service@usask.ca with any questions or support requests.

ESRI User Conference to be held in Saskatoon

ESRI, the makers of the ArcGIS software, is holding their user conference in Saskatoon on the 16th of September. There are early bird rates available until September 5. Details are available on the conference web site.

Attendees normally pay ~$150. However, the fee for educators/students is $35, which includes a hot lunch and reception. Please note that a valid U of S ID is required to qualify for the reduced rate.

If you are available to present your work (e.g., posters) to the GIS community, please contact André Piasta at apiasta@esri.ca

After you click “Register Now” on the conference site, on the registration page you can select Educator/Student as “attendee type” which should trigger the reduced rate.

Should you have any questions, please contact André Piasta at apiasta@esri.ca.

Access to Schlumberger geoscientific software now possible

The UofS was recently awarded a software grant by Schlumberger (SLB) which provides for access to the PETREL suite of geoscientific software. SLB is one of the world’s largest suppliers of technology and services into the oil and gas exploration/production industry. Included in this grant is the entire ECLIPSE suite for reservoir modeling. This software is recognized as the premier leading edge environment for fluid flow modeling in this specific discipline. To facilitate a broader license provisioning to teaching labs and researchers across/off campus, a new dedicated server (geolicense.usask.ca) has been established to deliver the multiple licenses available. This new license server will be used for other related software systems in the future. For more information contact us at research_computing@usask.ca.