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When you change project properties, makefiles are regenerated on build or build&clean commands not after closing properties dialog. It has again consequencies when storing projects to RCS
You are correct. The makefiles are regenerated when you build and not when you save the properties. It's done for performance reasons so you would regenerate the projects more than once if you did multiple changes to the properties. Will change it so it regenates at every safe.
Fixed.
changeset 1fd764a51aa1 in main details: http://hg.netbeans.org/main?cmd=changeset;node=1fd764a51aa1 description: 133606 Makefiles regeneration
verified in trunk build 20080520
fix backported into release61_fixes branch http://hg.netbeans.org/release61_fixes/rev/8f57933fab4e