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I want to create a self-signed cert with the SAN field (subject alternative name) set but the Java keytool tool does not seem to support that. What is my best option? This is for Java use, so the keystore must still match the JKS format even if a non-Java tool is used to create the cert.
The JDK7 suggestion is a good one. In the meantime I was able to do it using the Bouncy Castle library. It was educational to do it programmatically instead of with keytool and getting the stores in jks format was straightforward.