diff --git a/Doxyfile.in b/Doxyfile.in
index 8adf83c7f..eaf02d7de 100644
--- a/Doxyfile.in
+++ b/Doxyfile.in
@@ -743,7 +743,7 @@ WARN_LOGFILE           =
 # spaces.
 # Note: If this tag is empty the current directory is searched.
 
-INPUT                  = @SRC_DIR@/
+INPUT                  = @SRC_DIR@/src @SRC_DIR@/README.md
 
 # This tag can be used to specify the character encoding of the source files
 # that doxygen parses. Internally doxygen uses the UTF-8 encoding. Doxygen uses
diff --git a/Makefile.am b/Makefile.am
index 0703abc10..bea4ba7c0 100644
--- a/Makefile.am
+++ b/Makefile.am
@@ -34,7 +34,7 @@ Doxyfile :	Doxyfile.in
 		sed \
 		-e "s:\@PACKAGE_VERSION\@:$(PACKAGE_VERSION):" \
 		-e "s:\@PACKAGE_NAME\@:$(PACKAGE_NAME):" \
-		-e "s:\@SRC_DIR\@:$(srcdir):" \
+		-e "s:\@SRC_DIR\@:$(srcdir):g" \
 		$(srcdir)/$@.in > $@
 
 apidoc :	Doxyfile