cloudman-galaxy-setup

This role is used to setup Galaxy for use with CloudMan.

Requirements

None explicitly, but it's largely intended to be used in the context of the larger CloudMan playbook. Also see the Galaxy Tools role as it is useful to run it after this role has been run.

Variables

Optional variables

Note that some of these variables should match equaly named ones from the CloudMan playbook.

• galaxyFS_base_dir: (default: /mnt/galaxy) the base path under which the galaxy file system is planned to be placed
• galaxy_user_name: (default: galaxy) system username used for Galaxy
• galaxy_server_dir: (default: /mnt/galaxy/galaxy-app) The default location where the Galaxy application is stored
• galaxy_venv_dir: (default: {{ galaxy_server_dir }}/.venv) The location of virtual env used by Galaxy
• galaxy_config_file: (default: {{ galaxy_server_dir }}/config/galaxy.ini) The location of Galaxy's main configuration file
• cmg_setup_files: A list of files to be copied from this role into Galaxy's source tree. See defaults/main.yml for the defaults.
• cmg_extra_files: Provides a hook to copy a list of extra, user-defined files into Galaxy's source tree. The default is an empty list, but should be in a format similar to cmg_setup_files.

Control-flow variables

Use the following control-flow variables to decide which parts of the role you'd like to run:

• cm_setup_galaxy: (default: yes) whether to run the Galaxy setup step

Dependencies

None.

Example Playbook

To use the role, wrap it into a playbook file called playbook.yml as follows (the following assumes the role has been placed into directory roles/galaxyprojectdotorg.cloudman-galaxy-setup):

- hosts: galaxyFS-builder
  become: yes
  roles:
    - role: galaxyprojectdotorg.cloudman-galaxy-setup
      become_user: "{{ galaxy_user_name }}"

Next, create a hosts file:

[galaxyFS-builder]
130.56.250.204 ansible_ssh_private_key_file=key.pem ansible_ssh_user=ubuntu

Finally, run the playbook as follows:

$ ansible-playbook playbook.yml -i hosts