Welcome to nebulizer’s documentation!

Nebulizer is a Python utility which provides a high-level interactive command-line interface to remotely administer Galaxy servers.

Nebulizer was developed as a tool to help “part-time” Galaxy admins perform day-to-day administrative tasks across multiple Galaxy instances, enabling various admin operations to be executed via the command line as an alternative to using the Galaxy web interface.

Nebulizer is built on top of the Bioblend library and offers an interface and range of functionality that complements the lower-level interfaces offered by Ephemeris and Parsec.

Contents:

• Quick Start
  • Getting Nebulizer
  • Nebulizer Basics
  • Contributors
• Installation
  • Virtualenv and pip
  • Conda
• Configuration
• Managing Users
  • Querying user information
  • Creating and deleting individual users
  • Creating batches of users from a template name
  • Creating user accounts from a file
• Managing Data Libraries
  • Querying data libraries
  • Creating and populating data libraries
• Managing Tools
  • Querying tool information
  • Install, update and remove tools
  • Searching for tool repositories on a Toolshed
  • Bulk tool repository management
• Managing Quotas
  • Querying quotas
  • Creating and deleting quotas
  • Modifying quota definitions
• Querying Galaxy instances
  • Checking status and configuration of a Galaxy server
• Storing and managing Galaxy API keys
• General options
  • Authenticating without stored credentials
  • Controlling warnings and debugging output
  • Handling SSL certificate verification failures
• Nebulizer Tutorial
  • 0. Preparation: making a temporary local Galaxy instance
  • 1. Install Nebulizer
  • 2. Set up aliases for Galaxy API keys
  • 3. Listing, adding and deleting users
  • 4. Creating and populating data libraries
  • 5. Installing and managing tools
• History
  • v0.7.1 (2021-06-29)
  • v0.7.0 (2021-05-17)
  • v0.6.0 (2020-07-14)
  • v0.5.0 (2020-04-20)
  • v0.4.3 (2018-10-05)
  • v0.4.2 (2017-08-24)
  • v0.4.1 (2016-12-19)
  • v0.4.0 (2016-11-18)
  • v0.3.0 (2016-10-26)
  • v0.2.0 (2016-10-17)
  • v0.1.1 (2016-05-16)
  • v0.1.0 (2015-11-06)