====== Installation de PathVisio 2.0.1 ======

===== Libraries additionnelles ===== 

Java, already installed.

===== Procédure =====

Here is the procedure for installing PathVisio:

  * PathVisio is distributed as a Java Web Start file. Create a folder under ''/home/bioubuntu'' and move the ''pathvisio.jnlp'' file in it; after, move this folder to ''/opt/bio/sources''.

<code bash>
% mkdir /home/bioubuntu/pathvisio
% mv pathvisio.jnlp /home/bioubuntu/pathvisio
% sudo mv /home/bioubuntu/pathvisio /opt/bio/sources
</code>

  * This folder should belong to ''root'' and its permissions set to ''755''.
<code bash>
% sudo chown -R root:root /opt/bio/sources/pathvisio
% sudo chmod 755 /opt/bio/sources/pathvisio
</code>

  * Once you are in ''/opt/bio/sources/pathvisio'', simply create a script named ''pathvisio'' which will contain the following lines:

<code bash>
#!/bin/sh
javaws /opt/bio/source/pathvisio/pathvisio.jnlp
</code>

  * This script needs to be available to all:
<code bash>
% sudo chmod ugo+x pathvisio
% sudo ln -s /opt/bio/sources/pathvisio/pathvisio /usr/local/bin/pathvisio
</code>

  * To add Pathvisio to the Impilo application menu, you need to edit the Xfce4 configuration file:

<code bash>
% sudo xfce4-menueditor /etc/xdg/xfce4/desktop/menu.xml
</code>

  * The three items to add are:
    * Item: Launcher
    * Name: PathVisio
    * Command: pathvisio

  * At first launch, Java Web Start wil ask you if you trust the Pathvisio site. Yes is the correct answer :-)