These commands allow you to generate a new Java Keytool keystore file, create a CSR, and import certificates. Any root or intermediate certificates will need to be imported before importing the primary certificate for your domain.
Generate a Java keystore and key pair
keytool -genkey -alias mydomain -keyalg RSA -keystore keystore.jks -keysize 2048
Generate a certificate signing request (CSR) for an existing Java keystore
keytool -certreq -alias mydomain -keystore keystore.jks -file mydomain.csr
Import a root or intermediate CA certificate to an existing Java keystore
keytool -import -trustcacerts -alias root -file Thawte.crt -keystore keystore.jks
Import a signed primary certificate to an existing Java keystore
keytool -import -trustcacerts -alias mydomain -file mydomain.crt -keystore keystore.jks
Generate a keystore and self-signed certificate (see How to Create a Self Signed Certificate using Java Keytool for more info)
keytool -genkey -keyalg RSA -alias selfsigned -keystore keystore.jks -storepass password -validity 360 -keysize 2048
If you need to check the information within a certificate, or Java keystore, use these commands.
Check a stand-alone certificate
keytool -printcert -v -file mydomain.crt
Check which certificates are in a Java keystore
keytool -list -v -keystore keystore.jks
Check a particular keystore entry using an alias
keytool -list -v -keystore keystore.jks -alias mydomain
Delete a certificate from a Java Keytool keystore
keytool -delete -alias mydomain -keystore keystore.jks
Change a Java keystore password
keytool -storepasswd -new new_storepass -keystore keystore.jks
Export a certificate from a keystore
keytool -export -alias mydomain -file mydomain.crt -keystore keystore.jks
List Trusted CA Certs
keytool -list -v -keystore $JAVA_HOME/jre/lib/security/cacerts
Import New CA into Trusted Certs
keytool -import -trustcacerts -file /path/to/ca/ca.pem -alias CA_ALIAS -keystore $JAVA_HOME/jre/lib/security/cacerts