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Steps to reproduce: i) Open {trunk}/java/source project, ii) Profile | Profile Main Project..., iii) select CPU, part of application, edit., iv) Add from project, v) Java Source/src/org/netbeans/api/java/source/JavaSource. Just "Inner Classes" are shown, exception is printed to console.
Created attachment 53210 [details] Messages log - IOException
according to the messages.log file provided you have not had enabled Profiler module >>> "Plugin Java Profiler[org.netbeans.modules.profiler/1.7] cannot be installed" closing as invalid