Register training material
12 materials found

Authors: Jan Slifka  or John Chilton 


Hands-on for 'Debugging Galaxy' tutorial

The questions this addresses are:
- How do I debug Galaxy?

The objectives are:
- Fix a broken branch
- Interpret the results of failed tests on GitHub
- Run individual tests locally
- Fix errors identified by failing tests
- Debug simple runtime errors using the Python debugger
- Write...

Keywords: dev

Resource type: hands-on tutorial

Hands-on for 'Contributing a New Feature to Galaxy Core' tutorial

The questions this addresses are:
- How can I add a new feature to Galaxy that involves modifications to the database, the API, and the UI?

The objectives are:
- Learn to develop extensions to the Galaxy data model
- Learn to implement new API functionality within Galaxy
- Learn to extend...

Keywords: dev

Resource type: hands-on tutorial

Hands-on for 'Writing Automated Tests for Galaxy' tutorial

The objectives are:
- Learn about the different types of automated tests in Galaxy
- Learn to write API tests
- Learn to write unit tests

Keywords: dev

Resource type: hands-on tutorial

Hands-on for 'Rule Based Uploader: Advanced' tutorial

The questions this addresses are:
- How to use the rule based uploader to create complex collections

The objectives are:
- Learn even more about the Rule Based Uploader

Keywords: galaxy-interface, collections, tags

Resource type: hands-on tutorial

Hands-on for 'Rule Based Uploader' tutorial

The questions this addresses are:
- How to use the rule based uploader to create complex collections

The objectives are:
- Learn about the Rule Based Uploader

Keywords: galaxy-interface, collections, tags

Resource type: hands-on tutorial

Slides for 'Tool Dependencies and Conda' tutorial

The questions this addresses are:
- How can I connect tools to applications and libraries?
- What are the advantages of declaring dependencies for my tool?
- What are Conda and Bioconda?
- What are Conda recipes and environments?
- How do I find and use existing Conda recipes?
- How do I...

Keywords: dev

Resource type: slides

Slides for 'Galaxy Code Architecture' tutorial

The questions this addresses are:
- How is the Galaxy code structured?
- What do the various other projects related to Galaxy do?
- What happens when I start Galaxy?

The objectives are:
- Explore various aspects of the Galaxy codebase.
- Understand the various top-level files and modules...

Keywords: dev

Resource type: slides

Slides for 'Tool development and integration into Galaxy' tutorial

The questions this addresses are:
- What is a tool for Galaxy?
- How to write a best-practice tool?
- How to deal with the tool environment?

The objectives are:
- Learn what a tool is and its structure
- Use the Planemo utilities to develop a tool
- Deal with the dependencies
- Write...

Keywords: dev

Resource type: slides

Slides for 'Tool Dependencies and Containers' tutorial

The questions this addresses are:
- What are the advantages of running my Galaxy tool inside of a container?
- How does Galaxy find a container to run my tool in?
- What are BioContainers and how are they related to Galaxy?

The objectives are:
- Explore the differences between...

Keywords: dev

Resource type: slides

DS Wizard and its Use

This training gives an overview and explains what is the purpose of smart data management plans as living documents, core ideas behind Data Stewardship Wizard, and how to use it in practice. Furthermore, it shows the versability of DSW, its top-notch features that make...

Scientific topics: Data management

Keywords: DMP, DMP tools, data stewardship, FAIR, FAIR data

Resource type: Presentation

A Gentle Introduction to DSW for Convergers

Data Stewardship Wizard brings together data stewards and researchers to efficiently compose data management plans (DMPs) for their research projects. Data stewards capture their knowledge and expertise in so-called knowledge models that are turned into smart...

Scientific topics: Data management, Data governance

Keywords: Data managment plan, data stewardship, data management, software tools

Resource type: Video, Slides, Webinar

Data Stewardship Wizard Workshop (Feb 2020)

Data Stewardship Wizard brings together data stewards and researchers to allow managing data in projects efficiently and in a FAIR manner. Data stewards can easily capture the knowledge including required project data and decisions in knowledge models that are then turned into...

Scientific topics: Data governance, Data management

Keywords: Data management plan, data stewardship, FAIR, data management, software tools

Resource type: Video, Webinar, Slides