SciNet News September 2018: Training and Other Events

September 14, 2018 in blog-general, for_educators, for_researchers, for_users, news, newsletter, Uncategorized

Below you will find the salient points of what happened or changed recently, and what will happen in the near future, at SciNet (including with the new Niagara supercomputer). Among these are the announcement of SciNet course offerings in the 2018-2019 academic year. Note that users that take a sufficient number of courses can earn one of the SciNet certificates. In addition, many of our courses can now be taken for credit towards PhD and MSc programs by graduate students from several departments across the University of Toronto, including Institute of Medical Sciences, Ecology and Evolutionary Biology, Chemistry, Astrophysics, and Physics.

As always, further details can be found below on the SciNet courses siteand the SciNet wiki.

SUMMARY

  • Niagara takes the number 53 spot in the June 2018 TOP500 list of supercomputers (https://www.top500.org/list/2018/06).
  • Scratch purging policy on Niagara is in effect.
  • Burst buffer available on demand.
  • Various SciNet courses and events to start next week, including a “Intro to Niagara/SciNet” session and a TechTalk on “Machine Learning Cosmic Structure Formation” on Sept 12.
  • SciNet’s Jupyterhub with access to files on Niagara is online.
  • my.SciNet website with access to your Niagara jobs records is online.
  • Courses website now accessible with your Compute Canada password.

SYSTEM NEWS

EVENTS COMING UP

Registration for SciNet courses is done by logging into https://courses.scinet.utoronto.ca with your Compute Canada username
and password.

Many of the events are at the teaching room or boardroom in the SciNet offices on the eleventh floor of the MaRS West Tower, suite 1140A (661 University Avenue, Toronto ON M5G 1M1). SciNet events are often recorded and broadcast (see the courses site for links).

  • INTRO TO SCINET AND NIAGARA
    Wednesday Sept 12, 2018, 10:00 am – 11:30 am
    SciNet Boardroom (suite 1140, 661 University Avenue, Toronto).

    This is a class of approximately 90 minutes to introduce SciNet and the new supercomputer Niagara and teach you how to use Niagara.

    Participation counts towards the SciNet HPC Certificate.

    For more information and (free) registration, go to https://courses.scinet.utoronto.ca/404

  • SCINET USER GROUP MEETING
    Wednesday Sept 12, 2018, 12:00 noon – 1:00 pm
    SciNet Boardroom (suite 1140, 661 University Avenue, Toronto).

    The SciNet Users Group (SNUG) meetings are every month on the second Wednesday (except during the summer), and involve pizza, user discussion, feedback, and a half-hour talk on topics or technologies of interest to the SciNet community.

    The TechTalk will be on

    MACHINE LEARNING COSMIC STRUCTURE FORMATION

    by George Stein (Dept. of Astronomy-UofT, CITA).

    Abstract: In modern astrophysics and cosmology, accurate simulations of the large scale structure of the universe are necessary. Usually, this is accomplished by so called N-body simulations, which calculate the full gravitational collapse of a region of the universe over its 14 billion year history. Instead of calculating this costly gravitational evolution, we trained a three-dimensional deep Convolutional Neural Network (CNN) to identify dark matter proto-haloes directly from the cosmological initial conditions, and showed that a CNN of this type can be a viable alternative in some cases. In this talk I will discuss current cosmological simulations and the invasion of machine learning techniques, with a focus on our work. For more information see https://arxiv.org/abs/1805.04537.

    For sign up and more information, see https://courses.scinet.utoronto.ca/410

  • INTRODUCTION TO COMPUTATIONAL BIOSTATISTICS WITH R (MSC1090)
    Tuesdays and Thursday, 11 am – 12 noon
    Twelve weeks starting Sept 12.

    In this course data analysis techniques utilizing the R statistical language, will be discussed and introduced, as well as, the basics of programming and scientific computing. The goal of this course is to prepare graduate students to perform scientific data analysis. Successful students will learn how to use statistical inference tools to gain insight into large and small data sets, as well as be exposed to cutting-edge techniques and best practises to store, manage and analyze (large) data. Topics include: R programming, version control, automation, modular programming and scientific visualization.

    Students willing to take the course as part of their graduate program have to enroll through Acorn/ROSI. This course is part of the IMS graduate program and to be taught at the UofT St. George campus (i.e., not in the SciNet classroom). Contact us if you wish to audit the course without credit.

    This course will be recorded, but not broadcast.

    For more information, see https://courses.scinet.utoronto.ca/399

  • INTRODUCTION TO THE LINUX SHELL
    Wednesday Sept 19, 1:00 pm – 4:00 pm
    Teaching Room 1140A (MaRS West Tower, 661 University Ave, Toronto)

    Working with many of the HPC systems in Ontario involves using the Linux/UNIX command line. This provides a very powerful interface, but it can be quite daunting for the uninitiated. In this half-day session, you can become initiated with this course. This hands on session will cover basic commands and scripting. It could be a great boon for your productivity!

    Participation counts towards the SciNet Scientific Computing Certificate.

    For sign up and more information, see https://courses.scinet.utoronto.ca/407

  • INTRODUCTION TO PROGRAMMING
    Tuesdays and Thursdays, 1:00 pm – 2:00 pm
    Four weeks starting Oct 2.
    Teaching Room 1140A (MaRS West Tower, 661 University Ave, Toronto)

    New to programming? Learn the basics of programming using python in eight one-hour sessions over the course of four weeks. Sessions will consist of a mix of lectures and hands-on exercises.

    Participation counts towards the SciNet Scientific Computing Certificate.

    For sign up and more information, see https://courses.scinet.utoronto.ca/401

  • INTRO TO SCINET AND NIAGARA
    Wednesday Oct 10, 2018, 10:00 am – 11:30 am
    SciNet Boardroom (suite 1140, 661 University Avenue, Toronto).

    This is a class of approximately 90 minutes to introduce SciNet and the new supercomputer Niagara and teach you how to use Niagara.

    Participation counts towards the SciNet HPC Certificate.

    For more information and (free) registration, go to https://courses.scinet.utoronto.ca/405

  • SCINET USER GROUP MEETING
    Wednesday Oct 10, 2018, 12:00 noon – 1:00 pm
    SciNet Boardroom (suite 1140, 661 University Avenue, Toronto).

    The SciNet Users Group (SNUG) meetings are every month on the second Wednesday (except during the summer), and involve pizza, user
    discussion, feedback, and a half-hour talk (TBA) on topics or technologies of interest to the SciNet community. We’ll likely
    discuss the upcoming Resource Allocation Competition.

    For sign up and more information, see https://courses.scinet.utoronto.ca/411

  • ADVANCED SHELL PROGRAMMING
    Wednesday Oct 17, 2018, 1:00 pm – 4:00 pm
    Teaching Room 1140A (MaRS West Tower, 661 University Ave, Toronto)

    Learn how to write bash script, use environment variables, how to control process, and much more. Requires some linux basic command line experience.

    Participation counts towards the SciNet Scientific Computing Certificate.

    For sign up and more information, see https://courses.scinet.utoronto.ca/409

  • NUMERICAL COMPUTING WITH PYTHON
    Tuesdays and Thursdays, 1:00 pm – 2:00 pm
    Four weeks, starting Nov 6, 2017 (skipping the week of Nov 12-16)
    Teaching Room 1140A (MaRS West Tower, 661 University Ave, Toronto)

    Learn about research computing even with little programming experience. Covers programming in python, best practices and
    visualization. Some experience with python is required. Four home work sets will be the basic of the evaluation.

    Participation counts towards the SciNet Scientific Computing Certificate.

    For sign up and more information, see https://courses.scinet.utoronto.ca/402

  • INTRO TO SCINET AND NIAGARA
    Wednesday Nov 14, 2018, 10:00 am – 11:30 am
    SciNet Boardroom (suite 1140, 661 University Avenue, Toronto)

    This is a class of approximately 90 minutes to introduce SciNet and the new supercomputer Niagara and teach you how to use Niagara.

    Participation counts towards the SciNet HPC Certificate.

    For more information and (free) registration, go to https://courses.scinet.utoronto.ca/406

  • INTRODUCTION TO THE LINUX SHELL
    Wednesday Nov 21, 1:00 pm – 4:00 pm
    Teaching Room 1140A (MaRS West Tower, 661 University Ave, Toronto)

    Working with many of the HPC systems in Ontario involves using the Linux/UNIX command line. This provides a very powerful interface, but it can be quite daunting for the uninitiated. In this half-day session, you can become initiated with this course. This hands on session will cover basic commands and scripting. It could be a great boon for your productivity!

    Participation counts towards the SciNet Scientific Computing Certificate.

    For sign up and more information, see https://courses.scinet.utoronto.ca/407

  • SCIENTIFIC COMPUTING FOR PHYSICISTS (PHY1610)
    Winter 2019
    Teaching Room 1140A (MaRS West Tower, 661 University Ave, Toronto)

    This course is aimed at reducing your struggle in getting started with computational projects, and make you a more efficient computational scientist. Topics include well-established best practices for developing software as it applies to scientific computations, common numerical techniques and packages, and aspects of high performance computing. While we will introduce the C++ language, in one language or another, students should already have some programming experience. Despite the title, this course is
    suitable for many physical scientists (chemists, astronomers, …).

    This course is part of the physics graduate program. Students willing to take the course as part of their graduate program have to enroll through Acorn/ROSI.

    For more information, see https://courses.scinet.utoronto.ca/398

  • QUANTITATIVE APPLICATIONS FOR DATA ANALYSIS
    Winter 2019
    University of Toronto Scarborough Campus

    In this course data analysis techniques utilizing Python and R statistical language, will be discussed and introduced, as well as the basics of programming and scientific computing. The goal of this course is to prepare graduate students to perform scientific data analysis. Successful students will learn how to use statistical inference tools to gain insight into large and small data sets, as well as be exposed to cutting-edge techniques and best practises to store, manage and analyze (large) data.

    Topics include: Python and R programming, version control, automation, modular programming and scientific visualization.

    Students willing to take the course as part of their graduate program have to enroll through Acorn/ROSI. This course is part of the EES graduate program and to be taught at the UTSc campus.

    For more information, see https://courses.scinet.utoronto.ca/403