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====== Installation of Jmol 11.7.46 ======

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

Java, already installed.

===== Procedure =====

Here is the procedure to install Jmol:

  * Jmol is distributed as a JAR archive, ready to execute through a startup script. Create a folder under ''/home/bioubuntu'' to put all this and move this folder into ''/opt/bio/sources''.

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

<code bash>
% sudo chown -R root:root /opt/bio/sources/jmol-11.7.46
% sudo chmod 755 /opt/bio/sources/jmol-11.7.46
</code>

  * Once you are in ''/opt/bio/sources/jmol-11.7.46'', the ''jmol'' script needs to be edited to add a ''JMOL_HOME'' bash environment variable. At the very top, just under the ''#!/bin/sh'' line, add this line:
<code bash>
export JMOL_HOME=/opt/bio/sources/jmol-11.7.46
</code>

  * To make sure that ''jmol'' is available to all, do this:
<code bash>
% sudo ln -s /opt/bio/sources/jmol-11.7.46/jmol /usr/local/bin/jmol
</code>

  * To add Jmol to the Impilo application menu, you need to edit the Xfce4 configuration file:
<code>
% sudo xfce4-menueditor /etc/xdg/xfce4/desktop/menu.xml
</code>

  * The three items to add are:
    * Item: Launcher
    * Name: Jmol
    * Command: jmol