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plugin.xml is not updated by the Xtext builder. This is good and bad. Good since it is not corrupted. Bad since it may become invalid after addition of some fragment and the user may neglect to cross-copy from plugin.xml_gen. Suggest, a clear warning at the end of the MWE console output listing any declarations that need migration from plugin.xml_gen. MANIFEST.MF is updated by the Xtext builder. Also good and bad. Unfortunately, the builder inserts redundant plug-in dependencies, without version bounds for: org.eclipse.xtext, org.eclipse.xtext.util, org.eclipse.emf.ecore, org.eclipse.emf.common, org.antlr.runtime. For my application these dependencies are exported by a required bundle ensuring version consistency. Suggest, like plugin.xml, generate a MANIFEST.MF_gen and a clear warning at the end of the MWE console output listing any declarations that need migration from MANIFEST.MF_gen.
Ed, you can set 'mergeManifest' to false on the Generator in your mwe workflow. You won't get a bold warning but manifest.mf_gen.
see comment 1