@elextr commented on this pull request.

In m4/geany-doxygen.m4:

> @@ -7,7 +7,7 @@ AC_DEFUN([GEANY_CHECK_DOXYGEN],
 			[AS_HELP_STRING([--enable-api-docs],
 					[generate API documentation using Doxygen [default=no]])],
 			[geany_with_doxygen="$enableval"],
-			[geany_with_doxygen="auto"])
+			[geany_with_doxygen="no"])

Yes, auto should be the default.

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