You need to have java 6 (sometimes called java 1.6) installed on
your computer. If you don't have java 6/1.6 installed download it from
If you are a OSX user you will need the latest java updates that
provide java 6. However this does not change the default java. To change
the default go to Applications->Utilities->Java Preferences. Ensure that
java SE 6 or higher is ticked, and drag it to the top of each list.
A 1.3 release candidate is available for download. You are encouraged
to use this version if possible. Note that below are the links for
the old version as well.
The msms binary instillation is as simple as unpacking a zip file
for all supported platforms. The same archive works for all platforms,
and the manual is included.
Just unpack the archive to your favorite applications directory
and you are ready to roll. You may wish to add the msms/bin
directory to your path. Alternatively on Unix systems (OSX and Linux) you
can symlink msms/bin/msms.
Pure jar file
This is just the compiled class files in jar and is the smallest
download. It can be run with the following command:
java -jar msms3.2rc-b148.jar
The source package includes the ant scripts and developer documentation.
Note that some of the java doc needs some work.