What do you guys do, when you have huge project built with ant for instance, where the source folders are right bellow the root project folder for building classpath from source files ?

putting entire project as a source folder is nonsense. Putting separate folders as source folders can't be done if they are part of the package hierarchy and the only thing I could think of, is to copy the source folders into a separate folder and add it then as source folder which is weird but I don't know how else to do it. Having to duplicate sources just because of the eclipse way of making classpath and also because of somebody doing stupid project structure