thehyve/galaxy-roles-profiles

Name: galaxy-roles-profiles

Owner: The Hyve

Description: Contains roles and profiles for a Galaxy server management.

Created: 2014-10-20 14:51:59.0

Updated: 2016-02-12 14:00:16.0

Pushed: 2016-02-12 14:00:16.0

Homepage: null

Size: 146

Language: Puppet

GitHub Committers

User	Most Recent Commit	# Commits

Other Committers

User	Email	Most Recent Commit	# Commits

README

Galaxy roles profiles

Tables of Contents

1. Overview
2. Module Description
3. Setup
   • First step with Galaxy Roles Profiles
4. Usage - The classes,roles and profiles available for configuration
   • Classes
   • Roles
     • Role galaxy-roles-profiles::role::galaxy-sqlite
     • Role galaxy_roles_profiles::role::galaxy-postgresql
     • Role galaxy-roles-profiles::role::galaxy-apache-sqlite
     • Role galaxy-roles-profiles::role::galaxy-apache-postgresql
   • Profiles
     • Profile galaxy-roles-profiles::profile::sqlite
     • Profile galaxy-roles-profiles::profile::common
     • Profile galaxy-roles-profiles::profile::pgsql
     • Profile galaxy-roles-profiles::profile::apache
     • Profile galaxy_roles_profile::profile::galaxy
5. Deal with Hiera configuration files
6. Github Projects
7. Contacts
8. Galaxy Project

Overview

This module install and configure a new instance of Galaxy. Today, there are three roles (three configuration) you can choose.

Module Description

This is the galaxy-roles-profiles module. Galaxy is an open, web-based platform for accessible, reproducible, and transparent computational biomedical research. This module contains roles and profiles for a Galaxy server configuration management. It uses base blocks hosted in the Galaxy module: https://forge.puppetlabs.com/urgi/galaxy

Setup

what this module affect:

• Create a new user, galaxy
• Create directories
• Manage configurations files
• Enable apache
• see https://forge.puppetlabs.com/puppetlabs/apache for further information

First step

Download from the Puppet Forge : https://forge.puppetlabs.com/urgi/galaxy_roles_profiles.

Configure Hiera. (See 6.Deal with Hiera).

How to install existing role: -In a file.pp

include galaxy-roles-profiles::role::<the role wich you want>

-In the terminal

puppet apply -e "include galaxy-roles-profiles::role::<the role wich you want>"

Usage

Classes

Roles

Roles contains only one or many profiles.

Role: galaxy_roles_profiles::role::galaxy-sqlite

Galaxy with SQLite.

puppet apply -e "include galaxy_roles_profiles::role::galaxy-sqlite"

Role galaxy_roles_profiles::role::galaxy-postgresql

Galaxy with PostgreSQL

puppet apply -e "include galaxy_roles_profiles::role::galaxy-postgresql"

Role: galaxy_roles_profiles::role::galaxy-apache-sqlite

Galaxy with SQLite and Apache.

puppet apply -e "include galaxy-roles-profiles::role::galaxy-apache-sqlite"

Role: galaxy_roles_profiles::role::galaxy-apache-postgresql

Galaxy with PostgreSQL and Apache.

puppet apply -e "include galaxy_roles_profiles::role::galaxy-apache-sqlite-postgresql"

Profiles

Profiles contains one or many building-block (for example galaxy::universe). One profile is one technology layer.

Profile: galaxy_roles_profiles::profile::sqlite

This profile call galaxy::create_db.

Profile: galaxy_roles_profiles::profile::common

This profile install Galaxy using base blocks from urgi/galaxy module. This profile manage toolshed_conf, job_conf and universe_wsgi.ini. You can change your config using Hiera and write in .yaml what you want.

Profile: galaxy_roles_profiles::profile::postgresql

This profile install packages for postgresql, and configure it for add a new database for galaxy. This uses the puppetlabs/postgresql module. These are set in a Hiera file. ( see 6.Hiera ). Further information available at : https://forge.puppetlabs.com/puppetlabs/postgresql .

Profile: galaxy_roles_profiles::profile::apache

This profile install and configure apache to deal with Galaxy. This uses puppetlabs/apache module to install apache, create a Virtual Host and load the needed mods To deal with balancer configuration file, we write a template ( balancer_galaxy.conf.erb ) and a class galaxy-roles-profiles::balancer-config Further information available at : https://forge.puppetlabs.com/puppetlabs/apache .

Profile: galaxy_roles_profiles::profile::galaxy

This profile call galaxy::service to start galaxy as service.

Hiera

First you have to edit the hiera.yaml in /etc/hiera.yaml and in /etc/puppet/hiera.yaml (for example delete each lines in hierarchy and add “common” ).

Next you have to have one hiera file in /var/lib/hiera/ ( for example common.yaml)

You can use a sample of common.yaml and modify it as you want :

$ cp /etc/puppet/modules/galaxy_roles_profiles/examples/common.yaml /var/lib/hiera -> if you have install the module.

$ cp ../galaxy_roles_profiles/examples/common.yaml /var/lib/hiera -> if you use the repo from GitHub directly.

More details on Hiera at : http://docs.puppetlabs.com/hiera/1/

More details on automatic parameter lookup : http://docs.puppetlabs.com/hiera/1/puppet.html#automatic-parameter-lookup

Github projects

Projects for base blocks and roles+profiles are hosted on github:

https://github.com/puppet-galaxy/puppet-galaxy

https://github.com/puppet-galaxy/galaxy-roles-profiles

Contact

Mikael Loaec mloaec@versailles.inra.fr

Olivier Inizan oinizan@versailles.inra.fr

Eric Rasche rasche.eric@yandex.ru

Galaxy Project

http://galaxyproject.org