Installation of Jmol 12.0.2

Java, already installed.

Here is the procedure to install Jmol:

• Jmol is distributed as a JAR archive, ready to be run from a startup script. On Jmol's Sourceforge site, you need to get the Jmol-12.0.2-binary.tar.gz file. Once decompressed, you wil have a jmol-12.0.2 folder which need sto be moved toward /opt/bio/sources.

% tar -zxvf Jmol-12.0.2-binary.tar.gz
% sudo mv jmol-12.0.2 /opt/bio/sources

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

% sudo chown -R root:root /opt/bio/sources/jmol-12.0.2
% sudo chmod 755 /opt/bio/sources/jmol-12.0.2

• Once you are in /opt/bio/sources/jmol-12.0.2, the jmol.sh 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:

export JMOL_HOME=/opt/bio/sources/jmol-12.0.2

• To make sure that jmol is available to all, do this:

% sudo ln -s /opt/bio/sources/jmol-12.0.2/jmol.sh /usr/local/bin/runJmol

• To add Jmol to the Impilo application menu, you need to edit the Xfce4 configuration file:
  • More to come…

• To use Jmol from the command line:

% runJmol