Error logged during rename refactoring

In xtext-eclipse workspace during re-naming errors are logged.

E.g. in AbstractIgnoreCaseLinkingTestLanguage rename Element to Element3

org.eclipse.xtext.ui.refactoring.impl.EmfResourceReferenceUpdater - Couldn't find source element platform:/resource/org.eclipse.xtext.tests/src-gen/org/eclipse/xtext/linking/AbstractIgnoreCaseLinkingTestLanguage.genmodel#//ignoreCaseLinkingTest/Element/reference in platform:/resource/org.eclipse.xtext.tests/src-gen/org/eclipse/xtext/linking/AbstractIgnoreCaseLinkingTestLanguage.genmodel

Also crossref [Element] is not updated:

Element3:
    name=ID reference=[Element]? '{'
    	elements += Element3*
    '}'
;