README.md revision aead985e48027c9df1ef553b17df29dd378757aa
Ontohub [](https://travis-ci.org/ontohub/ontohub) [](https://codeclimate.com/github/ontohub/ontohub)
=======
A web-based repository for distributed ontologies.
An ontology is a formal, logic-based description of the concepts and
relationships that are of interest to an agent (user or service) or to a
community of agents. The conceptual model of an ontology reflects a consensus,
and the implementation of an ontology is often used to support a variety of
applications such as web services, expert systems, or search engines. Therefore,
ontologies are typically developed in teams. Ontohub wants to make this
step as convenient as possible.
Ontohub aims at satisfying a subset of the requirements for an Open Ontology
Repository (OOR) and is being developed in close donnection with the Distributed
Ontology Language, which is part of the emerging Ontology Integration and
Interoperability standard (OntoIOp, ISO Working Draft 17347). For more
information from this perspective, see [the Ontohub page in the Ontolog
This application started at the compact course [agile web development][0] given
by [Carsten Bormann][1] at the University of Bremen in March, 2012. The
concept and assignment came from [Till Mossakowski][2] and [Christoph
Lange][3] of the [AG Bernd Krieg-Brückner][4].
Initial developers are [Julian Kornberger][5] and [Henning Müller][6].
Documentation generated with yard is to be found on
Installation
------------
These commands should work on Ubuntu 12.04. First of all you need a root shell.
### RVM with Ruby 1.9.3
Installation of [RVM](https://rvm.beginrescueend.com/ "Ruby Version Manager"):
apt-get install -y build-essential openssl libreadline6 libreadline6-dev curl git-core zlib1g zlib1g-dev libssl-dev libyaml-dev libsqlite3-0 libsqlite3-dev sqlite3 libxml2-dev libxslt-dev autoconf libc6-dev ncurses-dev automake libtool bison subversion
curl -L https://get.rvm.io | bash -s stable --ruby
If you have a desktop installation, you should "run command as a login shell" to
source rvm automatically as explained in https://rvm.io/integration/gnome-terminal/ .
### Apache2 with passenger
A dedicated HTTP server is only required for the production environment. (Skip
this section, if you are preparing your development setup.)
#### Installation
apt-get install apache2 apache2-prefork-dev libapr1-dev
gem install passenger
passenger-install-apache2-module
#### Passenger Configuration
Depending on the installed ruby and passenger version you need to create a
`/etc/apache2/mods-available/passenger.load` with the LoadModule directive:
LoadModule passenger_module /usr/local/rvm/gems/ruby-1.9.3-p<version>/gems/passenger-<version>/ext/apache2/mod_passenger.so
and a `/etc/apache2/mods-available/passenger.conf` with the global passenger
configuration:
PassengerRoot /usr/local/rvm/gems/ruby-1.9.3-p<version>/gems/passenger-<version>
PassengerRuby /usr/local/rvm/wrappers/ruby-1.9.3-p<version>/ruby
now enable the module an restart apache2:
a2enmod passenger
service apache2 restart
#### Virtual Host Configuration
<VirtualHost *:80>
ServerName ontohub.org
DocumentRoot /srv/http/ontohub.org/current/public
<Directory /srv/http/ontohub.org/public>
AllowOverride all
Options -MultiViews
</Directory>
</VirtualHost>
### Tomcat with Solr
Tomcat with Solr is only required in the production environment.
apt-get install tomcat6 tomcat6-admin
cd /root/
version=3.6.0
tar xzf apache-solr-$version.tgz
The war-Package should be automatically loaded.
### SQL Server
The master branch is (and should be) database independent. We are using
PostgreSQL in production and development.
#### PostgreSQL
apt-get -y install postgresql
#### MySQL
You probably do not need this but we used MySQL in the new-model branch once and
these instructions are given for completeness. MariaDB has been tested, too.
The installation will prompt you for a password three times and you are expected
to press «enter» with an empty password field.
apt-get -y install mysql-server libmysqlclient-dev
### Redis
Redis is a key-value store, in our setup used by resque to provide object
persistence between Rails and asynchronous jobs.
apt-get -y install redis-server
### hets
apt-add-repository ppa:hets/hets
apt-add-repository "deb http://archive.canonical.com/ubuntu precise partner"
apt-get update
apt-get -y install hets-core subversion
ln -s libpng12.so.0 libpng14.so.14
If you need the latest nightly build, just update hets (assure you have a
working internet connection):
hets -update
Configuration
-------------
### Change secret token
rake secret
... and save it into `config/initializers/secret_token.rb`.
### Hets environment variables
The Hets installation path and environment variables are to be set in
`config/hets.yml`. For ubuntu, it should be no change required.
### Allowed URI schemas
Allowed URI schemas are to be set in `config/initializers/ontohub_config.rb`.
Development
-----------
This part should be done with your own user (not as root).
### Clone with pushing permission
You need to create an SSH key pair (if you do not already have one) and upload
it to your Github account and then be added to the project by a project
administrator.
git clone git@github.com:ontohub/ontohub.git
### Clone without pushing permission
You do not need to be a project member. Just clone it!
git clone git://github.com/ontohub/ontohub.git
### Add yourself to the RVM group
sudo adduser $USER rvm
You have to re-login to apply your group membership.
### Installation of dependencies
sudo apt-get install libqtwebkit-dev
cd ontohub
bundle install
### Set up your database
After configuring your `config/database.yml` you have to create the tables:
rake db:migrate:reset
### Solr and Resque
rake sunspot:solr:start
rake resque:work
### Seeds
Fill the database with dummy data:
rake db:seed
### Start the rails server
Start the rails server. It will be available at http://localhost:3000/ until you
stop it by pressing `CTRL+C`.
rails s
Now you can log in as *admin@example.com* with password *foobar*.
*Alice, Bob, Carol, Dave, Ted* @example.com can also be used (with the same
password).
### Stopping Solr and Resque
Resque has to be stopped with `CTRL+C` on the terminal you typed `rake
resque:work`. Solr is to be stopped as follows:
rake sunspot:solr:stop
License
-------
Copyright © 2012 [Universität Bremen](http://www.uni-bremen.de/), released under
the [GNU AGPL 3.0](http://www.gnu.org/licenses/agpl-3.0.html) license.