Installation instructions for MetaPhlAn2 in a Galaxy environment.

These instructions require the Mercurial versioning system, galaxy, and an internet connection.

For general information about MetaPhlAn2 please refer to:

https://github.com/biobakery/metaphlan

Go to the //usr/local/galaxy-dist/tools directory Clone metaphlan2 by entering the following command

git clone https://github.com/biobakery/MetaPhlAn.git

Clone this repository somewhere: It will create a directory named "galaxy_metaphlan2"

Create a directory named "metaphlan2" under /galaxy-dist/tools/metaphlan2

Copy member metaphlan2.xml from galaxy_metaphlan2 on to /galaxy-dist/tools/metaphlan2

Update member tool_conf.xml in the galaxy directory adding the following:

   <section name="MetaPhlAn2" id="MetaPhlAn2">
     <tool file="metaphlan2/metaphlan2.xml"/>
  </section>

Recycle galaxy

Once the repository will e upladed to the tool shed, the instructions will be updated accordingly

Name		Name	Last commit message	Last commit date
Latest commit History 6 Commits
README.md		README.md
metaphlan2.py		metaphlan2.py
metaphlan2.xml		metaphlan2.xml