diff --git a/Makefile.am b/Makefile.am
index d9a116d4ab038ad422e649d45c46f3289587a56d..59b51df63d6f6e58f1c8cb18117be3d6eaafe6d8 100644
--- a/Makefile.am
+++ b/Makefile.am
@@ -1,5 +1,5 @@
 ACLOCAL_AMFLAGS = -I m4
-SUBDIRS = libtap dnssec src tests samples doc man patches
+SUBDIRS = libtap src/zscanner dnssec src tests samples doc man patches
 
 code_coverage_quiet = --quiet
 
diff --git a/src/Makefile.am b/src/Makefile.am
index 1059ce8c0c738ad36a39ad29b271d2d3781a0519..e5ee046ad2ad126a61beb7375352410692700252 100644
--- a/src/Makefile.am
+++ b/src/Makefile.am
@@ -1,5 +1,4 @@
 ACLOCAL_AMFLAGS = -I $(top_srcdir)/m4
-SUBDIRS = zscanner .
 
 sbin_PROGRAMS = knotc knotd
 bin_PROGRAMS = kdig khost knsupdate knsec3hash