diff --git a/template/_quarto.yml.jinja b/template/_quarto.yml.jinja
index 91a2562..686165e 100644
--- a/template/_quarto.yml.jinja
+++ b/template/_quarto.yml.jinja
@@ -1,7 +1,5 @@
 project:
   type: website
-  # Delete auto-generated files from `quartodoc`
-  post-render: rm -f docs/reference/*.qmd
   render:
     - "docs/*"
     - "index.qmd"
diff --git a/template/justfile.jinja b/template/justfile.jinja
index a968483..7425318 100644
--- a/template/justfile.jinja
+++ b/template/justfile.jinja
@@ -59,7 +59,7 @@ build-website:
   export QUARTO_PYTHON=.venv/bin/python3
   # Delete any previously built files from quartodoc.
   # -f is to not give an error if the files don't exist yet.
-  rm -f docs/reference/*.qmd
+  rm -rf docs/reference
   uv run quartodoc build
   uv run quarto render --execute