Galaxy tool download

Galaxy is a web-based framework to aggregate bioinformatics tools in a uniform way and connect them in pipelines. This download option provides you with a Galaxy tool that will execute this Taverna 2 workflow from a Galaxy server. The zip archive contains the two files needed for a Galaxy tool and they have to be installed in the Galaxy server. (Administration privileges are required for installation.)

To avoid potential issues, we recommend that you test workflows first in Taverna 2 Workbench before you create a tool to run them through Galaxy.

Galaxy tool generator

Taverna server URL:

E.g. http://www.example.com:8980/taverna-server

Requirements

The tool is implemented in Ruby, so a Ruby environment needs to be available. For Debian based systems, use these commands:

$ sudo apt-get install ruby rubygems libopenssl-ruby ruby1.8-dev libxml2-dev
$ sudo gem install t2-server --version 0.5.3
$ sudo gem install rubyzip

Taverna 2 server for testing purposes

Since the tool submits the workflow to a Taverna 2 server, you will need to have access to one. It is straightforward to install a Taverna 2 server but for your convenience the BioSemantics Group have provided a test server to use. Please note that this server should only be used for testing the workflow! When using our Taverna 2 test server, the only requirement is administration access to a Galaxy server to install the tool you are about to download.

The URL to the test Taverna 2 server is:

http://test.mybiobank.org/taverna-server

Further information

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