Laniakea Galaxy

This is an Ansible role used to install Galaxy version 23.0, utilizing roles from the Galaxy community.

Requirements

You will need the following roles:

• galaxyproject.galaxy version 0.10.14
• galaxyproject.nginx version 0.7.1
• galaxyproject.postgresql version 1.1.2
• galaxyproject.postgresql_objects version 1.2.0
• geerlingguy.pip version 2.0.0
• galaxyproject.miniconda version 0.3.1
• usegalaxy_eu.certbot version 0.1.11
• galaxyproject.tusd version 0.0.1
• galaxyproject.cvmfs version 0.2.14

Ansible Version

Tested with: Ansible version 4.10.0 and Ansible core version 2.11.12

Tasks

The main.yml file contains all the necessary sub-roles.

The pre_tasks.yml file contains OS-specific tasks for CentOS 7 or Rocky Linux 9.

Variables

• Laniakea variables can be found in vars/main.yml
• Default variables (like admin info and paths) are in defaults/mail.yml
• Role-specific variables are located in the task files:
  • PostgreSQL: tasks/postgresql_objects.yml
  • NGINX: tasks/nginx.yml
  • Galaxy: tasks/install_galaxy_role_vars.yml
  • TUSD: tasks/tusd.yml, and partially in tasks/install_galaxy_role_vars.yml

Local Test Execution

# on a fresh VM
# install requirements
sudo yum install -y git pip vim
pip install ansible==4.10.0 ansible-core==2.11.12
# clone the repository
git clone <repo_path>
# copy the test playbook
cp ansible-role-laniakea-galaxy/tests/test.yml test.yml
# update the hostname and Ansible user
vim inventory
ansible-galaxy install -r ansible-role-laniakea-galaxy/requirements.yml
cd ../
# run the playbook
ansible-playbook -i ansible-role-laniakea-galaxy/inventory test.yml

Logs:

• Gravity log files are located at: <galaxy_install_path>/var/gravity/log/ (default path is /home/galaxy/galaxy/var/gravity/log/), including logs for:
  • gunicorns
  • handlers
  • celery
  • tusd
  • interactive tools (if enabled)
• To view all Galaxy logs, use: sudo journalctl -u galaxy (these come from supervisor and are located at /home/galaxy/galaxy/var/gravity/supervisor/supervisord.log)

Example Playbook

 ---

 - hosts: galaxyservers
   become: true
   vars:
     GALAXY_ADMIN_USERNAME: ""
     GALAXY_ADMIN_PASSWORD: ""
     GALAXY_ADMIN_API_KEY: ""
     GALAXY_ADMIN_EMAIL: ""
   roles:
     - ansible-role-laniakea-galaxy

License

Apache License v2

Apache License

Author Information

Pietro Mandreoli, email: pietro.mandreoli@unimi.it
Polina Khmelevskaia, email: khmelevskayapv@gmail.com