unless i misunderstand, the debuging feature you want is already part of eclipse. you 
can enable "step filters" that will "skip" classes in packages that you define. 

do a search in the eclipse help for "step filter" for more information.

eclipse 3.0 (and 2.1.2 via a plugin) also have the "call heirarchy" functionality that 
will show which methods call the selected (ie: the "highlighted" methd) methods, or 
what methods the selected method calls. 

i also have seen other plugins that will give a graphical display of this. the eclipse 
profiler http://eclipsecolorer.sourceforge.net/index_profiler.html offers this 
functionality.

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