Protege run scripts fail for users with only a JRE installed (no JDK)

[jvendetti]

After publishing the first Protege 5.0 beta build, an end-user reported the following error on the mailing list when trying to launch Protege with the run.bat file:

C:\Software\Protege_5.0_beta>run.bat

C:\Software\Protege_5.0_beta>java -server -Dlog4j.configuration=file:log4j.xml -
DentityExpansionLimit=100000000 -Dfile.encoding=utf-8 -Dorg.protege.plugin.dir=p
lugins -classpath bin/felix.jar;bin/ProtegeLauncher.jar org.protege.osgi.framewo
rk.LauncherError: missing `server' JVM at `C:\Program Files(x86)\Java\jre7\bin\server\jvm.
dll'.

Please install or use the JRE or JDK that contains these missing components.

The error occurs because we use the Java "-server" option in the run scripts, which requires a JDK. Some users only have a JRE installed.

The option was originally added based on a claim that it would give better performance for long-lived applications, but there was no noticeable difference with Protege. The option should be removed so that the Protege run scripts will still execute on systems with only a JRE installed.