miniconda

galaxyproject.miniconda

An Ansible role for installing and managing Miniconda installation. Additionally, the role can manage the creation of a Conda environment that can be used to create a venv for Galaxy.

Requirements

A Conda-compatible version of Linux or macOS is required.

Role Variables

See defaults/main.yml for a full list.

The only required variable is miniconda_prefix, the root of the Conda installation.

To create arbitrary conda environments, use the variable miniconda_conda_environments as shown in the defaults, or the example below. The role will also run conda install to update these environments if you change their list of packages or package versions.

To create an env named _galaxy_ for creating a venv for Galaxy, set galaxy_conda_create_env to true. You can then use {{ miniconda_prefix }}/envs/_galaxy_/bin/virtualenv as the value to galaxy_virtualenv_command in galaxyproject.galaxy. This is particularly useful if you need a cross-platform copy of Python and Galaxy's venv to be deployed on a shared filesystem between a Galaxy server and cluster that may not have matching OS distributions and versions.

Dependencies

None

Example Playbook

- hosts: localhost
  vars:
    miniconda_prefix: /conda
    miniconda_conda_environments:
      [email protected]:
        channels:  # optional, defaults to miniconda_channels
          - conda-forge
          - defaults
        packages:
          - python=3.9
  connection: local
  roles:
     - galaxyproject.miniconda