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Tutorials

We currently have an HPC User Service position opening. Graduate students, PostDocs who are seeking job opportunites from STEM majors with a background in computation such as Applied Mathematics, Chemical Engineering, Civil Engineering, Mechanical Engineering, or other related computationally intensive disciplines, are strongly encouraged to apply. Please consider applying or forward it to anyone you think would be interested. To apply from workday please use the below links:

LSU Internal Link
External Applicant Link

HPC@LSU invites you to attend our weekly training scheduled every Wednesdays, except university holidays.

Due to concern about the COVID-19 pandemic, all training sessions are pure Zoom online events from 9:00AM to 11:00AM. The sessions will be available only for remote participants and will be recorded for later review.

The training sessions are subject to cancellation due to lack of registrations, so please register if you plan on attending. Registration closes in the afternoon on the day prior to the training.

Click on the tutorial topic to obtain more information and registration details. Remote connect links to attend the training will be provided via email to all registered participants.

Note: The Slide and Support Materials links are placeholders until content is added after the tutorial.

Spring 2023 Training Schedule

1. February 01,2023: HPC User Environment 2

TopicHPC User Environment 2
DateFebruary 01,2023
Time9:00 AM - 11:00 AM
PlaceZoom Online
DescriptionThis training provides an overview of the HPC hardware and software environment, queuing system, compiling programs, writing submit scripts, running and monitoring jobs on HPC systems.

Prerequisites
  • LONI or LSU HPC account
  • Familiarity with Linux/Unix
  • Editors such as vi or emacs
  • SSH client such as MobaXterm for Windows

Slides
Downloads
RegistrationClick here

2. February 08,2023: Basic Shell Scripting

TopicBasic Shell Scripting
DateFebruary 08,2023
Time9:00 AM - 11:00 AM
PlaceZoom Online
DescriptionFor anyone who works in a Linux/Unix environment, a working knowledge of shell scripting is essential and will boost their efficiency and productivity tremendously. For this tutorial, we will focus on bash as it is one of the most popular shells. This tutorial will include topics such as creating simple bash scripts, flow control, command line arguments, regex, grep, awk and sed. This is a practical tutorial, so we will provide examples and/or hands-on exercises for most of the covered materials.

Prerequisites
  • LONI or LSU HPC account
  • Familiarity with Linux/Unix
  • Editors such as vi or emacs
  • SSH client such as Putty for Windows

Slides
Downloads
RegistrationClick here

3. February 15,2023: Introduction to GNU Parallel

TopicIntroduction to GNU Parallel
DateFebruary 15,2023
Time9:00 AM - 11:00 AM
PlaceZoom Online
DescriptionIn scientific computation disciplines, such as bioinformatics and computational biology, many computational tools are serial in nature. To effectively run many serial jobs simultaneously on multi-core HPC platform can be challenging. GNU Parallel is an easy to use and also powerful tool for executing commands/tasks in parallel on one or multiple host machines. This training will introduce GNU Parallel and its basic features. Hand-on, real-world examples will be demonstrated on how to run different types of massive individual tasks using GNU Parallel.
Prerequisites
  • Basic knowledge of HPC environment and Linux is preferred but not required.

Slides
Source Code
RegistrationClick here

4. March 01,2023: Introduction to Singularity:Creating and Running Containers on HPC

TopicIntroduction to Singularity:Creating and Running Containers on HPC
DateMarch 01,2023
Time9:00 AM - 11:00 AM
PlaceZoom Online
DescriptionContainers such as Singularity allow users to pack an application and all of its dependencies, including the operation system, into a single image, which makes the application more portable, shareable, and reproducible. For instance, one user can create in his/her own HPC environment a Singularity image for a complex workflow with many software components and their dependencies, then share it with other users, who can run the workflow on other HPC systems, independent of the environment as along as Singularity is supported. In this tutorial, we will show how to build Singularity images and run them on the LSU/LONI HPC clusters.
Prerequisites
Slides
RegistrationClick here

5. March 08,2023: Open OnDemand: Interactive HPC via the Web

TopicOpen OnDemand: Interactive HPC via the Web
DateMarch 08,2023
Time9:00 AM - 11:00 AM
PlaceZoom Online
DescriptionThis training will provide an introduction to Open OnDemand, a browser based tool now available to all LSU HPC users on campus. Open OnDemand requires only a web browser (no plug-ins) and an LSU HPC account. It features a file browser, command line shell access, job management, and access to interactive Jupyter notebooks and RStudio servers running interactively on SuperMIC's compute nodes. This training will feature an overview of Open OnDemand, and a demonstration of all it's features, including Jupyter Notebook and RStudio.

Prerequisites
  • LSU HPC account
  • Some knowledge of using HPC is assumed but not required

Slides
RegistrationClick here

6. March 22,2023: Introduction to Python

TopicIntroduction to Python
DateMarch 22,2023
Time9:00 AM - 11:00 AM
PlaceZoom Online
DescriptionPython is a high-level programming language, easy to learn yet extremely powerful. This training will provide an introduction to programming in Python. The subjects include basic Python syntax, Python classes used in object-oriented programming. Basic Python modules for scientific computing and plotting will also be introduced. During the training, simple Python programs will be provided for demonstration.

Prerequisites
  • Basic understanding of a programming language is assumed but not required.

Slides
RegistrationClick here

7. March 29,2023: Python package and environment management on HPC

TopicPython package and environment management on HPC
DateMarch 29,2023
Time9:00 AM - 11:00 AM
PlaceZoom Online
DescriptionPython comes with extensive libraries and many of them come in the form of packages that can be installed separately. Given the astounding number of Python packages, it is not sustainable to install all of them system widely under a shared HPC cluster environment. This training tutorial will introduce two popular Python package and environment management tools: The Python Package Index (PyPI) and Conda. Details and examples will be given on how to install different Python packages in user's local directories, and how to create and manage virtual environments for different projects on LSU and LONI HPC clusters.

Prerequisites
  • Basic understanding of the python programming language is assumed but not required.

RegistrationClick here

HPC Training Survey

We value your feedback, and will use your feedback to help improve our HPC training offerings. Please complete a short survey at the end of each training using this link.

Past Tutorials

We offer many tutorial sessions for our users both on campus and online. The training topics include but are not limited to:

  • Introduction to Linux
  • HPC user environment
  • Version control with git
  • Pythong and R programming
  • Deep learning basics
  • Parallel programming

To read descriptions or access PDF's of the slides from past tutorials Past Tutorials.