diff --git a/src/rebar_subdirs.erl b/src/rebar_subdirs.erl
index 119dacb..13446ab 100644
--- a/src/rebar_subdirs.erl
+++ b/src/rebar_subdirs.erl
@@ -38,11 +38,16 @@
 preprocess(Config, _) ->
     %% Get the list of subdirs specified in the config (if any).
     Cwd = rebar_utils:get_cwd(),
-    Subdirs0 = rebar_config:get_local(Config, sub_dirs, []),
-    Check = check_loop(Cwd),
-    ok = lists:foreach(Check, Subdirs0),
-    Subdirs = [filename:join(Cwd, Dir) || Dir <- Subdirs0],
-    {ok, Subdirs}.
+    case rebar_core:is_skip_dir(Cwd) of
+        true ->
+            {ok, []};
+        false ->
+            Subdirs0 = rebar_config:get_local(Config, sub_dirs, []),
+            Check = check_loop(Cwd),
+            ok = lists:foreach(Check, Subdirs0),
+            Subdirs = [filename:join(Cwd, Dir) || Dir <- Subdirs0],
+            {ok, Subdirs}
+    end.
 
 %% ===================================================================
 %% Internal functions