Fix mkdocs paths: set docs_dir to root and add exclusions

Author: sun

mkdocs.yml

@@ -41,6 +41,8 @@ markdown_extensions:
   - attr_list
   - md_in_html
 
+docs_dir: .
+
 nav:
   - Home: README.md
   - User Guide:
@@ -85,3 +87,9 @@ nav:
       - Taxonomy GUI: docs/userGuide/taxonomygui.md
   - Developers:
       - Plugin Development: docs/developers/plugin_development_guide.md
+
+exclude_docs:
+  - venv/*
+  - .github/*
+  - src/*
+  - plugins/*