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the safedelete, rename and moveclass refactorings don't modify the layer.xml file. only whereused works on top of the layer files.
#65980 seems to be a blocker for safe delete implementations.
layer filesystem doesn't implement rename operation, another stopper for the layer refactorings (rename refactoring specifically)
Rename in layer.xml should be fixable.
safedelete and rename implemented.
moveclass still missing, not to be implemented for 5.0. changed to enhancement.
Please reevaluate - for 5.0u1, future, or leave TBD.
If time permits.
If we can produce enough layer-generating annotations we can probably get rid of the refactoring module altogether.
Moving, Renaming in 6.5, 6.7 and 6.7.1 still not work. Extending the complete API to annotations needs a long time. IMHO it's a big issue to "repair" the layer.xml on refactoring class names. I get no compilation errors, only at runtime.
No plans to work further on layer refactorings; time would be better spent defining layer-generating annotations.