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project type is "project with existing ant script". i forgot to add some libraries when creating the project and added them to a later point. but the classes from those libs were not accessible, until i restarted the ide.
Tricky but I think I have a working patch.
Patched in trunk (Classpaths + ClasspathsTest).
This issue was solved long time ago. Because nobody has reopened it neither added comments, we are verifying/closing it now. If you are still able to reproduce the problem, please reopen. Thanks in advance.