Yes, but why is doxygen using that to generate a directory name? Bah...
$ cat zipios-doxygen.patch
Index: doc/
zipios.doxy.in===================================================================
--- Zipios/doc.orig/
zipios.doxy.in+++ Zipios/doc/
zipios.doxy.in@@ -152,7 +152,7 @@ FULL_PATH_NAMES = YES
# will be relative from the directory where doxygen is started.
# This tag requires that the tag FULL_PATH_NAMES is set to YES.
-STRIP_FROM_PATH = @CMAKE_CURRENT_SOURCE_DIR@
+STRIP_FROM_PATH = @CMAKE_CURRENT_BINARY_DIR@
# The STRIP_FROM_INC_PATH tag can be used to strip a user-defined part of the
# path mentioned in the documentation of a class, which tells the reader which