Galaxy Portal Role

Install Galaxy Portal.

Role Variables

The variables that can be passed to this role and a brief description about them are as follows.

# Galaxy node type: portal or wn
galaxy_node_type: portal
# Type of LRMS to use (Currently only supported local, slurm or torque)
galaxy_lrms: local
# E-mail of the admin user
galaxy_admin: [email protected]
# Password of the admin user
galaxy_admin_password: adminpass
# API key for admin user
galaxy_admin_api_key: not_very_secret_api_key
# User to launch the Galaxy portal
galaxy_user: galaxy
# User ID to assing to the galaxy user
GALAXY_USER_ID: 1450
# Password to assing to the user (galaxy+00)
# See http://docs.ansible.com/ansible/faq.html#how-do-i-generate-crypted-passwords-for-the-user-module for more info
GALAXY_USER_PASSWORD: $6$d6becl8ohu0F4$Pzf2NIrfhGVvoGzaqf6aPEDhYi5ZTbmujF0oGv7qGNxXwHOKqfehm197YzEGZqJ4lwxDL5jWU6goqeaMHic3s0
# Password used to derive a munge key for authentication between the server and the workers.
galaxy_munge_key_password: ''
# Slurm server name
galaxy_slurm_server_name: slurmserver
# Galaxy export dir
galaxy_export_dir: /mnt/export
# Version of the Galaxy portal docker image to use
galaxy_image_version: "24.1"
# ENV variables for the Docker Galaxy
galaxy_docker_env_vars:
	USE_HTTPS: "True"
	GALAXY_CONFIG_BRAND: "Galaxy"
	NONUSE: "reports,slurmd,slurmctld,nodejs,condor"
	GALAXY_LOGGING: "full"
	DOCKER_PARENT: "True"
	GALAXY_CONFIG_HOST: "0.0.0.0"
	GALAXY_DEFAULT_ADMIN_USER: "{{galaxy_admin}}"
	GALAXY_DEFAULT_ADMIN_PASSWORD: "{{galaxy_admin_password}}"
	GALAXY_DEFAULT_ADMIN_KEY: "{{galaxy_admin_password}}"
	GALAXY_CONFIG_ADMIN_USERS: "{{galaxy_admin}}"
	GALAXY_CONFIG_MASTER_API_KEY: "{{galaxy_admin_api_key}}"
	GALAXY_DESTINATIONS_DEFAULT: "local_no_container"
	GALAXY_RUNNERS_ENABLE_SLURM: "False"
	GALAXY_RUNNERS_ENABLE_K8: "False"
	GALAXY_RUNNERS_ENABLE_PBS: "False"

# ENV variables for the Docker Galaxy in case of using slurm
slurm_galaxy_docker_env_vars:
	NONUSE: "reports,slurmctld,slurmd,nodejs,condor"
	GALAXY_DESTINATIONS_DEFAULT: "slurm_cluster"
	GALAXY_RUNNERS_ENABLE_SLURM: "True"

galaxy_docker_volumes:
  - "/var/run/docker.sock:/var/run/docker.sock"
  - "{{galaxy_export_dir}}:/export/"
  - "/etc/nginx/nginx.conf:/etc/nginx/nginx.conf"
  - "/etc/nginx/uwsgi.conf:/etc/nginx/conf.d/uwsgi.conf"

slurm_galaxy_docker_volumes:
  - "{{galaxy_export_dir}}/slurm.conf:/etc/slurm-llnl/slurm.conf"

Example Playbook

This an example of how to install the Galaxy portal:

- hosts: servers
  roles:
     - { role: grycap.galaxy  }