Repository files navigation

View this onGitHub Pages.

Half-day Tutorial Session

Venue: Supercomputing Conference 2019 (SC19')

Date: Sunday, 17 November 2019 1:30pm - 5pm

Room: 207

Location: Denver, CO, USA

Link:Container Computing for HPC and Scientific Workflows @ SC19

Topic Area: Programming Models & Systems Software

Keywords: Containerized HPC, System Software and Runtime Systems, Scientific Software Development, DevOps

hostname: tutXX.supercontainers.org

user: tutorial

password: HPCLinux12!

Container computing has revolutionized the way applications are developed and delivered. It offers opportunities that never existed before for significantly improving efficiency of scientific workflows and easily moving these workflows from the laptop to the supercomputer. Tools like Docker, Shifter, Singularity and Charliecloud enable a new paradigm for scientific and technical computing. However, to fully unlock its potential, users and administrators need to understand how to utilize these new approaches. This tutorial will introduce attendees to the basics of creating container images, explain best practices, and cover more advanced topics such as creating images to be run on HPC platforms using various container runtimes. The tutorial will also explain how research scientists can utilize container-based computing to accelerate their research and how these tools can boost the impact of their research by enabling better reproducibility and sharing of their scientific process without compromising security.

This is an updated version of the highly successful tutorial presented at SC16, SC17, SC18. It was attended by more than 100 people each year. The 2018 tutorial was very highly rated with 2.8 / 3 stars for “would recommend” and 4.3 / 5 stars for overall quality.

This is a hands-on tutorial. Participants should bring a laptop and load or pre-install a terminal and/or ssh client in advance to make best use of time during the tutorial. We will be providing training user accounts to both pre-configured EC2 instances as well as the Cori Supercomputer at NERSC.

This tutorial is supported by the Amazon AWS Machine Learning Research Awards. EC2 images and temporary login credentials will be distributed onsite at the tutorial.

After the tutorial, you can boot our tutorial image yourself on Amazon EC2 to run through the tutorial again. We recommend you use your own EC2 key and change the password.

US-West-Oregon: ami-0fe12765123c6a840

Users can also install Docker and Singularity prior to attending the tutorial session. Here, it may be beneficial to create a docker and sylabs (singularity) account in advance athttps://cloud.docker.com/ andhttps://cloud.sylabs.io/ This accounts will be needed to create images on docker cloud/dockerhub and sylabs cloud.

Install Singularity on Linux

Install Singualrity on Mac (Alpha)

Install Docker for Desktop

You can ask questions verbally or with thisGoogle Doc.Please append your question below the others in the document.

We have also created a Slack Team for this. The invitation link ishere.

13:30 – 13:45Introduction to Containers in HPC (Younge)

13:45 – 14:15How to build your first Docker container (Canon)

14:15 – 14:45How to deploy a container on a supercomputer (Canon)

14:45 – 15:00Best Practices (Canon)

15:00 – 15:30 -- Break –

15:30 – 16:00Running an HPC app on the E4S container (Shende)

16:00 - 16:30How to build a Singularity container image (Arango)

16:30 - 16:50Running Singularity on a supercomputer & adv features (Arango)

16:50 - 17:00Success Stories & Summary (Canon)