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profiler adds its TopComponents to window Modes at runtime instead of using XML layer definitions. since there is ui specification for a new default window layout which defines the position of profiler TopComponents their definitions must be changed XML layer.
Specification is here: http://wiki.netbeans.org/WindowLayout
Fixed for 6.5. changeset: 100506:5d7a2f020b13 date: Mon Sep 08 17:37:42 2008 +0200 summary: Bugfix #139237 TopComponents definition in xml layer
Integrated into 'main-golden', will be available in build *200809101401* on http://bits.netbeans.org/dev/nightly/ (upload may still be in progress) Changeset: http://hg.netbeans.org/main/rev/5d7a2f020b13 User: Jiri Sedlacek <jis@netbeans.org> Log: Bugfix #139237 TopComponents definition in xml layer
Please verify the issue or let me know where I could check it in code.