The binary distribution file contains several things:
Installing the class library is as easy as placing it in the classpath of your project. If you are developing a Servlet/JSP website this usually means simply copying the file into the WEB-INF\lib folder of your web module.
The resources (smileys, messages, javascript files, etc..) must be extracted and possibly modified to suit your needs. Simply use:
jar -xf jjcode-version.jar images
jar -xf jjcode-version.jar styles
jar -xf jjcode-version.jar JavaScript
jar -xf jjcode-version.jar messages_en.properties
to extract the resource files. Once extracted, place them wherever you like (you must later reference those locations when you use jjCode)