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A big problem for a custom project type that generates some Java sources and needs to refer to them. Those sources can be generated into a folder like '${projdir}/gen' that is missing at the very beginning when project is created or when clean action is performed.
Fixed jet-main cbd63cdc6e05
Integrated into 'main-golden', will be available in build *201012230001* on http://bits.netbeans.org/dev/nightly/ (upload may still be in progress) Changeset: http://hg.netbeans.org/main/rev/cbd63cdc6e05 User: Tomas Zezula <tzezula@netbeans.org> Log: #193644:Java source root ignored when it does not exists during initial scan