We recently renewed our code signing certificate for signing java applets, this is the first year we have had to renew it, and the process is a bit different from when we generated it. When we first received the key we did it with a CSR, and the java keytool.
I recently had to reinstall my OS, and more recently had to use a Java Application called JEdit. JEdit's installer didn't create any shortcuts for me, so I had to run JEdit from the command line by invoking it's jar file with java -jar jEdit.jar.