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Please see issue 87704 for background and for the cause of this issue. Since the PlatformImpl only recognizes oracle.toplink.essentials.ejb.cmp3.EntityManagerFactoryProvider, TopLink is no longer shown as the default persistence provider for GlassFish.
*** Issue 99719 has been marked as a duplicate of this issue. ***
Raising to P2 as per issue 99719.
Fixed plugin with new TopLink classname. http://serverplugins.netbeans.org/source/browse/serverplugins/sun/appsrv81/src/org/netbeans/modules/j2ee/sun/ide/j2ee/PlatformImpl.java?r1=1.25&r2=1.26