RCS Summer School 2024

Research Computing Services' 3rd annual summer school will run from June 10 through June 12, 2024.

Topics

• Introduction to RCS services and HPC resources
• Introduction to Linux & Bash command line
• Using Linux utilities for large datasets
• Hands on with Linux & Slurm: Workshop
• Using Open OnDemand on ARC
• Develop a research data management plan
• Reproducible data management with Datalad
• Digital File Management
• Using containers in HPC with Apptainer
• Managing scientific software with Conda
• Research workflow development with Prefect
• AWS: ML in the Cloud, a walkthrough followed by a workshop
• NVIDIA: Workflow optimization using NVIDIA GPUs
• Dell & AMD: Machine learning with Dell and AMD

Schedule

The summer school sessions will be held in ICT 102 and ICT 114. Refreshments will be available in ICT 114 on all 3 days.

Time	June 10		June 11		June 12
8:30 AM	Registration & check-in ICT 102	Refreshments ICT 114	Registration & check-in ICT 102	Refreshments ICT 114	Registration & check-in ICT 102	Refreshments ICT 114
9:00 AM	Introduction to RCS ICT 102, 9:00AM - 9:20AM Jill Kowalchuk		The Alliance: Introduction ICT 102 Brock Kahanyshyn		TBD ICT 102
9:30 AM	Introduction to Linux, Bash, and the command line ICT 102, 9:30AM - 10:30AM Robert Fridman	Developing a Research Data Management Plan with technical storage requirements ICT 114, 9:30AM - 11:20AM Ian Percel	Introduction to HPC resources ICT 102, 9:30AM - 10:20AM Robert Fridman, Dave Schulz	Data Management with Datalad ICT 114, 9:30AM - 10:20AM David Deepwell, Pedro Martinez	NVIDIA: Workflow Optimization with NVIDIA GPUs ICT 102, 9:30AM - 12:20AM Artur Rodrigues from NVIDIA
10:00 AM				Refreshments ICT 114
10:30 AM	Workshop: Hands on with Linux & Slurm ICT 102, 10:30AM - 11:50 AM Robert Fridman		Linux tools & utilities for working with large data sets ICT 102, 10:30AM - 11:20AM Leo Leung
11:00 AM
11:30 AM		Reproducible Data Management with Datalad ICT 114, 10:30AM - 11:20AM David Deepwell, Pedro Martinez	RCS Q&A period: Ask RCS anything ICT 102, 11:30AM - 12:00PM RCS Team
12:00 PM	Open OnDemand on ARC ICT 102, 12:00 AM - 12:20 AM Leo Leung		Lunch break 12:30PM - 1:30PM
12:30 PM	Lunch break 12:30PM - 1:30PM				Lunch break 12:30PM - 1:30PM
1:00 PM			Digital File Management and File Management ICT 102, 1:00PM - 2:20PM Jennifer Abel, Alex Thistlewood, Ingrid Reiche	Refreshments ICT 114	Dell & AMD: Machine learning with Dell & AMD ICT 102, 1:00PM - 1:50PM
1:30 PM	AWS: ML in the Cloud ICT 102	Refreshments ICT 114
2:00 PM
2:30 PM	AWS: Machine Learning with low-code workshop ICT 102, 2:30PM - 4:50PM AWS		Introduction to containers with Apptainer ICT 102, 2:30PM - 3:20PM Tannistha Nandi		Prefect for Research Workflow Development ICT 102, 2:30PM - 3:50PM David Deepwell, Pedro Martinez
3:00 PM
3:30 PM			Managing scientific software with Conda ICT 102, 3:30PM - 4:20PM Dmitri Rozmanov
4:00 PM					End of day: 4:00PM
4:30 PM			End of day: 4:30PM
5:00 PM	End of day: 5:00PM

Sessions

Introduction to RCS

ICT 102, 9:00AM - 9:20AM by Jill Kowalchuk

We will begin the summer school with a quick introduction by Jill Kowalchuk, the Interim director of Research Computing Services. We'll go through who RCS is and the services that we offer.

Introduction to Linux, Bash, and the command line

ICT 102, 9:30AM - 10:30AM by Robert Fridman

A quick crash course on how to use Linux, bash shell, and the command line in general. This beginner friendly session requires no prior experience to Linux. We recommend bringing your own device to follow along.

Workshop: Hands on with Linux & Slurm

ICT 102, 10:30AM - 11:50 AM by Robert Fridman

A follow-up workshop that builds on the basics covered in the Linux introduction session and goes into depth on how to use Slurm, the scheduler that RCS uses in their high performance computing clusters. We recommend bringing your own device to follow along.

Open OnDemand on ARC

ICT 102, 12:00 AM - 12:20 AM by Leo Leung

Did you know you can run a Linux desktop on ARC? In this session, we will do a quick demo of ARC Open OnDemand, a web interface that allows users to submit jobs that need graphical user interfaces. We will also cover how to monitor your jobs through Open OnDemand.

AWS: ML in the Cloud

ICT 102, 1:30 PM - 4:45 PM

AWS: Machine learning with low-code workshop

ICT 102, 1:30 PM - 4:45 PM

Developing a Research Data Management Plan with technical storage requirements

ICT 114, 9:30AM - 11:20AM by Ian Percel

Effective management of your research data is paramount. Join us as we delve into crafting robust data management plans tailored to your specific research needs.

Reproducible Data Management with Datalad

ICT 114, 10:30AM - 11:20AM by David Deepwell and Pedro Martinez

An introduction to Datalad, a data management tool designed to streamline workflows and ensure the integrity and reproducibility of your research data.

Introduction to HPC resources

ICT 102, 9:30AM - 10:20AM by Robert Fridman, Dave Schulz

An introduction to high performance computing resources offered by RCS. We will go over how our infrastructure ties in to your research and how to make the most out of Slurm. How to download and transfer data with other institutions.

Linux tools & utilities for working with large data sets

ICT 102, 10:30AM - 11:20AM by Leo Leung

As researchers use larger and larger datasets, it is imperative to effectively handle and manage these datasets. In this session, we will go through some common methods to work with datasets using standard Linux tools and utilities. We will cover common use cases on how to download large datasets from the Internet, parsing text-based data using tools such as sed, awk, grep, and will then tie everything together with pipes.

RCS Q&A period: Ask RCS anything

ICT 102, 11:30AM - 12:00PM by the RCS team

A general question and answers period where you can ask us anything related to RCS and HPC.

Digital File Management and File Management

ICT 102, 1:00PM - 2:20PM by Jennifer Abel, Alex Thistlewood, Ingrid Reiche (The University of Calgary Libraries and Cultural Resources)

Managing your digital files and research materials is critical for keeping yourself organized, collaborating, and communicating with colleagues. Digital file management can range from simple to complex depending on individual and organizational needs. This presentation will discuss best practices, versioning, and how to document and share your file and folder convention using a README file.

Introduction to containers with Apptainer

ICT 102, 2:30PM - 3:20PM by Tannistha Nandi

Make your research workflows reproducible through the power of containers. We will go through in detail how to run containers on ARC using Apptainer.

Managing scientific software with Conda

ICT 102, 3:30PM - 4:20PM by Dmitri Rozmanov

Running customized scientific software on a shared HPC environment may be challenging. This session, we will go over how to set up customized software environments using Conda.

Data Management with Datalad

ICT 114, 9:30AM - 10:20AM by David Deepwell and Pedro Martinez

Digital data management is important to keep your research organized and efficient. In this session, we will show how to use Datalad to help keep track of your data, create structure, ensure reproducibility, and support collaboration with other researchers.

NVIDIA: Workflow Optimization with NVIDIA GPUs

ICT 102, 9:30AM - 12:20AM by Artur Rodrigues from NVIDIA

We will discuss how to optimizing workflows with NVIDIA powered GPUs to help accelerate your research.

Dell & AMD: Machine learning with Dell & AMD

ICT 102, 1:00PM - 1:50PM

To be announced.

Prefect for Research Workflow Development

ICT 102, 2:30PM - 3:50PM by David Deepwell and Pedro Martinez

Modernize your research workflows using Prefect, an open source workflow orchestration tool. We will show how you can build and deploy resilient workflows and workflow pipelines.