diff --git a/configure.ac b/configure.ac
index 0baa437afbd1a5478da19135a25920d4bef059cb..36700e251b3db72a8781fdffae47f79105faefe5 100644
--- a/configure.ac
+++ b/configure.ac
@@ -23,6 +23,10 @@ AC_SUBST([LDADD], '$(top_builddir)/lib/libdunecommon.la')
 AC_CONFIG_FILES([Makefile
      lib/Makefile
      bin/Makefile
+     cmake/Makefile
+     cmake/modules/Makefile
+     cmake/scripts/Makefile
+     cmake/pkg/Makefile
      dune/Makefile
      dune/common/Makefile
      dune/common/test/Makefile