====== Installation of T-COFFEE 8.06 ======

===== Additional libraries =====

No additional library is necessary.

===== Procedure =====

This is the procedure to install T-COFFEE from source code:

  * The archive with the source code has been downloaded into ''/home/bioubuntu'', decompressed and the resulting folder moved into ''/opt/bio/sources''.

  * This filder should belong to ''root'' and its permissions set to ''755''.

<code bash>
% sudo chown -R root:root /opt/bio/sources/T-COFFEE_distribution_Version_8.06
% sudo chmod 755 /opt/bio/sources/T-COFFEE_distribution_Version_8.06
</code>

  * Once you get into ''T-COFFEE_distribution_Version_8.06'', compilation is easily done:

<code bash>
% sudo ./install
</code>

  * The script will take some time to run. On a few occasions, it will ask you to answer some questions to install some Perl modules but the default selections are perfectly OK.

  * At the end of the installation process, you need to change the owner of the ''~/.t_coffee'' folder:
<code bash>
% sudo -R chmod bioubuntu:bioubuntu ~/.t_coffee
</code>

  * To make sure that all users can access the application:
<code bash>
sudo ln -s /opt/bio/sources/T-COFFEE_distribution_Version_8.06/bin/binaries/linux/t_coffee /usr/local/bin/t_coffee
</code>

  * You can do some cleanup in ''/opt/bio/sources/T-COFFEE_distribution_Version_8.06/bin/'':
<code bash>
% sudo rm /opt/bio/sources/T-COFFEE_distribution_Version_8.06/bin/download/*
</code>