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November 7-11, 2016 University of Utah Salt Lake City, Utah United States Register by October 16 Lodging released October 6 |
November 8-11, University of Utah Campus
The three day advanced session will build on topics covered in the basics section. This session both extends those topics, such as tool definition, and adds new ones, such as working with compute clusters and heterogeneous resources.
We will use compute resources from the University of Utah Center for High Performance Computing (CHPC) for cluster access during the advanced session.
Prerequisites
Please review the prerequisites carefully before registering. If you arrive without meeting the prerequisites then the workshop will be a frustrating experience.
1. All prerequisites from the Basic Topics workshop
You need to have a solid grasp of the, Linux command line, a text editor, and Linux package management.
2. Understanding of material covered in the Basic Topics workshop
You can get this by
- Attending the Basic Topics Workshop, or
- Having actual experience with setting up and running your own Galaxy server.
Schedule
This is a draft schedule and is a work in progress. Topic order and specific start and end times are likely to change.
Tuesday
Galaxy Architecture Session, Tuesday evening, November 7
The basics section will end on Tuesday evening with an overview of Galaxy's architecture. All participants in the advanced session are also welcome to attend this session at the Salt Lake City Library.
| Time | Topic |
|---|---|
| 7:00pm | Introduction to Galaxy Architecture (Joint session with the Basics Topics session) |
| 8:20pm | Wrap-up |
| 8:30pm | Done |
Wednesday
Starting on Wednesday the advanced session will be held at the Commanders House on the University of Utah campus. This is a short walk from the University Guest House, where participants are staying.
| Time | Topic |
|---|---|
| 8:30am | Checkin and Coffee |
| 9:00am | Welcome and intro |
| 9:20am | Server setup Get a copy of the workshop server up and running. |
| 9:50am | Updating tools and supporting multiple versions of tools |
| 10:30am | Break |
| 10:50am | Server monitoring and maintenance Admin UI, Log files, Direct database queries, Command line & scripts, What to backup and how |
| 12:20pm | Lunch Break |
| 1:20pm | Upgrading to a new Galaxy release |
| 2:50pm | Introduction to Ansible |
| 3:20pm | Break |
| 3:40pm | Using Ansible to deploy Galaxy |
| 5:40pm | Dinner Break |
| 7:00pm | Advanced Tool Definition: Adding tests |
| 8:30pm | Done |
Thursday
| Time | Topic |
|---|---|
| 8:30am | Coffee |
| 9:00am | Welcome, Questions |
| 9:20am | Using and configuring external authentication services |
| 10:30am | Break |
| 10:50am | Connecting Galaxy to a compute cluster I |
| 12:20pm | Lunch Break |
| 1:20pm | Connecting Galaxy to a compute cluster 2 |
| 3:20pm | Break |
| 3:40pm | Using public and private cloud compute resources |
| 5:40pm | Dinner Break |
| 7:00pm | Using Heterogeneous compute resources |
| 8:30pm | Done |
Friday
| Time | Topic |
|---|---|
| 8:30am | Coffee |
| 9:00am | Welcome, Questions |
| 9:20am | Advanced Tool Definitions: Collections |
| 10:30am | Break |
| 10:50am | Advanced Tool Definitions: Error Handling |
| 12:20pm | Lunch Break |
| 1:20pm | Storage management and using heterogeneous storage services |
| 3:20pm | Break |
| 3:40pm | Advanced tool definition: data types and data sources |
| 5:30pm | Dinner Break* |
| 6:50pm | Participant selected topics and open questions.* Could include Advanced tool definition: visualizations, data managers Customizing and extending your Galaxy code Interactive environments: development and deployment |
| 8:20pm | Wrap-up |
| 8:30pm | Done |
Venue
The advanced session will be held at the Commanders House on the University of Utah campus. This is a short walk from the University Guest House, where participants are staying.
We would like to thank the USTAR Center for Genetic Discovery (UCGD) for a grant to book this great venue for the advanced workshop.