Section outline

  • General

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    High Performance Computing (HPC) in Life Sciences

    Lausanne, 9 September 2015

    Overview

    Several scientific applications require computing and/or storage resources that go beyond the processing power of a single multi-core machine. High performance computing (HPC) clusters provide the necessary hardware and software infrastructure to efficiently run computing and data intensive applications. The course provides detailed information on how to efficiently use Vital-IT's compute and storage infrastructure for life science applications.

    Objectives

    • Obtain basic knowledge on high throughput and high performance computing
    • Learn how to use Vital-IT's infrastructure for scientific applications (including hands-on exercises)
    • Tips and tricks for effective and efficient cluster usage (incl. compute and storage usage guidelines)
    • Discuss particular computing needs and requirements of course participants

    Requirements

    • Basic understanding of working with command line tools on Linux or Windows-based operating systems. If you do not feel comfortable with UNIX commands, please take our UNIX fundamentals e-learning module.
    • Scripting language such as bash or Perl is an asset
    • Please bring your own PC with WIFI Eduroam activated (Windows with Putty application installed or a Linux or Mac with a Terminal application)
    • Complete the exercise 'UNIX evalutation' at least 4 days before the course - see below

    Application

    Application is closed.

    Location

    Genopode building, University of Lausanne.

    Additional information

    The course will be taught by Vassilios Ioannidis and Grégoire Rossier, with the assistance of Ivan Topolsky for the practicals.

    We will recommend 0.25 ECTS credits for this course (given a passed oral exam at the end of the session and a written exercise).

    You are welcome to register to the SIB courses mailing-list to be informed of all future courses and workshops, as well as all important deadlines using the form here.

  • Topic 1

    Wednesday, 9 September 2015

    Grégoire Rossier (Training and Outreach, Vital-IT), Vassilios Ioannidis (SIB Technology, Vital-IT), Ivan Topolsky (Vital-IT),

    09h00 -10h30
    Introduction to HPC and Basic Infrastructure Usage

    11h00 - 12h30
    Exercises I

    13h30 - 14h45
    Advanced Infrastructure Usage and Use Case Discussion

    15h00 - 16h30
    Exercises II

    16h30 - 17h00
    Optional exam