Move to jupyter-book 2

.gitignore

@@ -7,5 +7,6 @@ index.html
 !.pixi/config.toml
 pixi.lock
 .vscode/
+_build
 jupyterbook/content/code_gallery/data_access_notebooks/.dodsrc
 jupyterbook/content/code_gallery/data_access_notebooks/chlor_a.nc

.pre-commit-config.yaml

@@ -34,7 +34,7 @@ repos:
       - id: add-trailing-comma
 
   - repo: https://github.com/astral-sh/ruff-pre-commit
-    rev: v0.16.4
+    rev: v0.16.5
     hooks:
       - id: ruff
 
@@ -55,7 +55,7 @@ repos:
       - id: nb-strip-paths
 
   - repo: https://github.com/woodruffw/zizmor-pre-commit
-    rev: v1.29.0
+    rev: v1.30.0
     hooks:
       - id: zizmor
 

jupyterbook/content/code_gallery/data_access.md

@@ -11,11 +11,3 @@ services (SOS, THREDDS, ERDDAP, etc) and tools for scientists and managers looki
 Matlab, R, etc).
 
 For more information on accessing IOOS data, see <https://ioos.noaa.gov/data/access-ioos-data/>.
-
-______________________________________________________________________
-
-## Chapter table of contents
-
-```{tableofcontents}
-
-```

jupyterbook/content/code_gallery/data_analysis_and_visualization.md

@@ -1,11 +1,3 @@
 # Data Analysis And Visualization
 
 This chapter will consist of notebooks pertaining to data analysis.
-
-______________________________________________________________________
-
-## Chapter table of contents
-
-```{tableofcontents}
-
-```

jupyterbook/content/code_gallery/data_management.md

@@ -3,11 +3,3 @@
 Data management is an increasingly important aspect of IOOS activities. In this chapter you will find examples of how
 to use various tools to ensure compliance with existing standards and conventions. For more details on IOOS
 recommendations on data standards, see <https://ioos.noaa.gov/data/data-standards/>.
-
-______________________________________________________________________
-
-## Chapter table of contents
-
-```{tableofcontents}
-
-```

jupyterbook/myst.yml

@@ -0,0 +1,31 @@
+version: 1
+project:
+  id: f52c9f46-1d93-487d-88d0-98c68a254f0b
+  title: IOOS CodeLab
+  github: https://github.com/ioos/ioos_code_lab
+  toc:
+    - file: content/intro.md
+    - title: Getting Started
+      children:
+        - file: content/ioos_installation_conda.md
+    - title: Code Gallery
+      children:
+        - file: content/code_gallery/gallery.md
+        - file: content/code_gallery/data_access.md
+          children:
+            - pattern: "content/code_gallery/data_access_notebooks/*.ipynb"
+        - file: content/code_gallery/data_analysis_and_visualization.md
+          children:
+            - pattern: "content/code_gallery/data_analysis_and_visualization_notebooks/*.ipynb"
+        - file: content/code_gallery/data_management.md
+          children:
+            - pattern: "content/code_gallery/data_management_notebooks/*.ipynb"
+    - title: Video Tutorials
+      children:
+        - pattern: content/Video_Demo_Markdown/*.md
+
+site:
+  template: book-theme
+  options:
+    favicon: images/favicon.png
+    logo: images/IOOS_logo.png

pixi.toml

@@ -6,10 +6,10 @@ platforms = ["linux-64"]
 version = "0.1.0"
 
 [tasks]
-build_html = { cmd = ["jupyter-book", "build", "jupyterbook"] }
+build_html = { cmd = "cd jupyterbook && jupyter-book build --html" }
 jb = { cmd = "python jupyterbook/add_header.py", depends-on=["build_html"] }
 linkcheck = { cmd = "jupyter-book build jupyterbook --builder linkcheck" }
 
 [dependencies]
-jupyter-book = ">=1.0.4,<2"
-pydata-sphinx-theme = "==0.16.1"
+jupyter-book = ">=2.1.6,<3"
+nodejs = ">=18.0.0,<26.8.0"