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Though JavaFX profiler supports single file profiling, it's not possible to use this feature since there is no corresponding menu item in pop-up menu. To add corresponding pop-up menu item, NetBeans' profiler should be aware of "x-fx" MIME type as supported for profiling. The issue is fixed in trunk (changeset http://hg.netbeans.org/main/rev/0eda91684873) but not in release61. This issue is created to be nominated for NetBeans 6.1 patch.
Fixed in trunk
verified. NetBeans nightly build: netbeans-trunk-nightly-200806050006-javase.zip JavaFX Script plugin build: 2008-06-04_02-01-55.zip
It has been decided on JavaFX Scrip ITeam to add this issue into the NetBeans patch
fix backported into release61_fixes branch http://hg.netbeans.org/release61_fixes/rev/74b57b3ed793