Page Comparison

...

• Previous RIS Workshops

• Workshop documentation

This page contains all the workshop documentation and previous workshops given by RIS.

Previous RIS Workshops

• RIS Compute Seminars from Fall 2021 RIS Software Development
• GPU Computing on RIS with Jupyter
• The Unix Shell and Command Line Basics
• Software Applications Needed to Work in HPC Environments
Basics of Submitting Job tasks to the RIS Scientific Compute Platform
• Single-cell RNA sequencing data analysis using R
RIS Compute Seminars from April 2020
• Introduction to RIS
• Working With RIS And Getting Started
• Working With Your Storage Allocation
• Intro to RIS Computing For Traditional HPC Users
• Intro To Computing 101
• Intro To Computing 102
• Intro To Computing 103 And 104
• Introduction To Docker
• Intro To Python In Docker
• NVIDIA Workshop - September 2020
• Quick Start
• RIS Compute 101
  • Compute 101 Video
  • What will this documentation provide?
  • What is High Performance Computing?
  • How HPC Impacts Us
  • RIS HPC Specs
  • When to Use HPC
  • Typical Workflow on an HPC System
  • Tools to Connect and Move Data
• RIS Compute 102
  • Compute 102 Video
  • What will this documentation provide?
  • Text Editors and Shell Scripts
• RIS Compute 103
  • Compute 103 Video
  • What will this documentation provide?
  • Hurdles to Using an HPC Environment
  • A Representation of What an HPC Cluster Looks Like
  • Problems a Queue System Addresses
  • Batch Scripts and Shell Scripts
  • Running Jobs in the RIS HPC Environment
• RIS Compute 104
  • Compute 104 Videos
  • What will this documentation provide?
  • More with LSF Environment Variables
  • Further bsub Arguments
  • Combining This Information Into a More Complex Job
  • An Interactive Job Example
  • An Interactive GUI Job Example
• RIS Docker Workshop
  • Docker Workshop Video
  • What will this documentation provide?
  • What is needed?
  • What is Docker?
  • What is a container?
  • Where can I find Docker?
  • Creating a Docker Container
  • Using a Docker Container on the Compute Platform
  • Advanced Container Addition
  • Example of Using the Compute Platform for Development
Docker

Workshop documentation

The following are links to each of the workshops and the documentation we have for them.

• RIS Compute 101
• RIS Compute 102
• RIS Compute 103
• RIS Compute 104
• RIS Docker Workshop
• Docker Basics: Building, Tagging, & Pushing A Custom Docker Image
• In this tutorial we’re going to create a custom docker container with Python3, R, and Git
• Prerequisites
• Workshop Video
• Step By Step Instructions
• RIS Open On Demand
• Installing Python Packages In Your Docker Container
• Workshop Video
• pip (and a Linux package manger) vs anaconda
• Case Study: Spacy
RIS R Workshop R Workshop Video
• What will this documentation provide?
• What is needed?
• Available R Docker Images
• Getting Started
• Adding Packages to the Docker Image
• Using the R Docker Image
• Analysis Setup
DESeq2 Analysis
• Further Analysis
• Visualization
• Running an R-script
• RIS Software Development Workshop Software Development Workshop Video
• What will this documentation provide?
• What is needed?
• Getting Started
• Bringing It All Together
• Setting Up Our Environment
• Creating a Repository
• Finding a Docker Image
• Creating Our Docker Image
• Creating Our Perl Script
Additional information