Update mkdocs.yml to include docs folder in nav section and add…

… plugins

* Add `docs` folder to `nav` section to include all markdown files
* Add `mkdocs-jupyter` plugin to `plugins` section
* Remove commented-out `pdf-export` plugin

mkdocs.yml

@@ -43,7 +43,6 @@ plugins:
     - git-revision-date-localized:
           enable_creation_date: true
           type: timeago
-    # - pdf-export
     - mkdocs-jupyter:
           include_source: True
           ignore_h1_titles: True
@@ -72,15 +71,15 @@ markdown_extensions:
 #         property: UA-XXXXXXXXX-X
 
 nav:
-    - Home: index.md
-    - Installation: installation.md
-    - Usage: usage.md
-    - Contributing: contributing.md
-    - FAQ: faq.md
-    - Changelog: changelog.md
+    - Home: docs/index.md
+    - Installation: docs/installation.md
+    - Usage: docs/usage.md
+    - Contributing: docs/contributing.md
+    - FAQ: docs/faq.md
+    - Changelog: docs/changelog.md
     - Report Issues: https://github.com/Jordan-Pierce/CoralNet-Toolbox/issues
     - Examples:
-        - examples/intro.ipynb
+        - docs/examples/intro.ipynb
     - API Reference:
-          - coralnet_toolbox module: coralnet_toolbox.md
-          - common module: common.md
+          - coralnet_toolbox module: docs/coralnet_toolbox.md
+          - common module: docs/common.md