====== Installation de RAxML 7.0.4 ======

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

No additional library is required.

===== Procedure =====

Here is the procedure to install RAxML from source code:

  * The archive with the source code is downloaded from the web in ''/home/bioubuntu'', decompressed and the newly created folder is moved to ''/opt/bio/sources''. Do the same with the easyRAx archive.

  * Ce dossier devrait appartenir à ''root''. Les permissions de ce dossier devraient être ''755''.

<code bash>
% sudo chown -R root:root /opt/bio/sources/RAxML-7.0.4
% sudo chmod 755 /opt/bio/sources/RAxML-7.0.4
% sudo chown -R root:root /opt/bio/sources/easyRAx
% sudo chmod 755 /opt/bio/sources/easyRAx
</code>

  * Once you are in ''/opt/bio/sources/RAxML-7.0.4'', compilation is  easily done:

<code bash>
% sudo make -f Makefile.gcc
% sudo make -f Makefile.PTHREADS
</code>

  * To make the program accessible to all:

<code>
% sudo ln -s /opt/bio/sources/RAxML-7.0.4/raxmlHPC /usr/local/bin/raxmlHPC
% sudo ln -s /opt/bio/sources/RAxML-7.0.4/raxmlHPC-PTHREADS /usr/local/bin/raxmlHPC-PTHREADS
</code>

  * To use RAxML via the easyRAx script, do the following things:

<code>
% sudo chmod ugo+x /opt/bio/sources/easyRAx/easyRAx.pl
% sudo ln -s /opt/bio/sources/easyRAx/easyRAx.pl /usr/local/bin/easyRAx
</code>

  * You need do do a slight edit to this script by changing where Perl is living:

<code>
#!/usr/local/bin/perl
</code>

 becomes:

<code>
#!/usr/bin/perl
</code>