diff --git a/.lgtm.yml b/.lgtm.yml
index 6702cc000..d794485f8 100644
--- a/.lgtm.yml
+++ b/.lgtm.yml
@@ -15,6 +15,6 @@ extraction:
       build_command:
       - "cp cfe/cmake/Makefile.sample Makefile"
       - "cp -r cfe/cmake/sample_defs sample_defs"
-      - "make prep"
+      - "make OMIT_DEPRECATED=true prep"
       - "make"