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I installed NetBeans 6.0.1 and Glassfish v2ur1 and created a Java Application Project. I added the "Java DB Driver" library to my project. The library reference points to "glassfish-v2" instead of "glassfish_v2ur1". Please see attached screenshot.
Created attachment 57021 [details] Library manager showing invalid path.
dbotterill, I cannot reproduce this with fresh installation of nb6.0.1 and glassfish-v2ur1 on MacOSX. The problem is probably in your local configuration.