diff --git a/Makefile b/Makefile
index 8edf191..810732a 100644
--- a/Makefile
+++ b/Makefile
@@ -16,8 +16,8 @@ build: cloud-sync.pyz
 # point zipapp at that staging dir.
 cloud-sync.pyz: cloud_sync/__main__.py $(wildcard cloud_sync/*.py)
 	rm -rf build/pyz
-	mkdir -p build/pyz
-	cp -r cloud_sync build/pyz/
+	mkdir -p build/pyz/cloud_sync
+	cp cloud_sync/*.py build/pyz/cloud_sync/
 	$(PY) -m zipapp build/pyz -p "/usr/bin/env $(PY)" \
 		-m cloud_sync.cli:main -o $@
 	rm -rf build/pyz