MAINT: Add TOC structure to myst.yml and remove toctrees from index

Author: bsipocz

index.md

@@ -7,82 +7,19 @@ They cover topics like querying IRSA, working with catalogs in Parquet format, v
 
 ## Accessing IRSA's on-premises holdings using VO protocols
 
-```{toctree}
----
-maxdepth: 1
-caption: VO on-prem data access
----
-tutorials/irsa-sia-examples/sia_2mass_allsky
-tutorials/irsa-sia-examples/sia_allwise_atlas
-tutorials/irsa-sia-examples/sia_cosmos
-tutorials/irsa-sia-examples/siav2_seip
-tutorials/cosmodc2/cosmoDC2_TAP_access.md
-
-```
+
 
 ## Accessing IRSA's cloud holdings
 
 These notebooks demonstrate how to access the IRSA-curated datasets that available in Amazon Web Services (AWS) S3 cloud storage buckets.
 
 
-```{toctree}
----
-maxdepth: 1
-caption: Cloud data access
----
-
-tutorials/cloud_access/cloud-access-intro
-tutorials/parquet-catalog-demos/wise-allwise-catalog-demo
-tutorials/parquet-catalog-demos/neowise-source-table-strategies
-tutorials/parquet-catalog-demos/neowise-source-table-lightcurves
-tutorials/openuniversesims/openuniverse2024_roman_simulated_timedomainsurvey
-tutorials/openuniversesims/openuniverse2024_roman_simulated_wideareasurvey
-tutorials/cloud_access/euclid-cloud-access
-
-```
 
 ## Accessing Euclid data
 
-### Euclid Early Release Observation
-
-```{toctree}
----
-maxdepth: 1
-caption: Euclid Early Release Observations
----
-
-tutorials/euclid_access/Euclid_ERO
-
-```
-
-### Euclid Quick Release 1
-
-```{toctree}
----
-maxdepth: 1
-caption: Euclid Quick Release 1
----
-
-tutorials/euclid_access/1_Euclid_intro_MER_images
-tutorials/euclid_access/2_Euclid_intro_MER_catalog
-tutorials/euclid_access/3_Euclid_intro_1D_spectra
-tutorials/euclid_access/4_Euclid_intro_PHZ_catalog
-tutorials/euclid_access/5_Euclid_intro_SPE_catalog
-tutorials/cloud_access/euclid-cloud-access
-
-```
 
 ## Accessing SPHEREx data
 
-```{toctree}
----
-maxdepth: 1
-caption: SPHEREx Data
----
-
-tutorials/spherex/spherex_intro
-
-```
 
 ## Interactive visualization in Python with Firefly
 
@@ -91,43 +28,17 @@ These notebooks demonstrate how to use the Firefly visualization tools from Pyth
 
 It is used in archive user interfaces at [IRSA](https://irsa.ipac.caltech.edu), the [NASA Exoplanet Science Institute (NExScI)](https://nexsci.caltech.edu/), the [NASA/IPAC Extragalactic Database (NED)](https://ned.ipac.caltech.edu/), and the [Vera C. Rubin Observatory](https://www.lsst.org/).
 
-```{toctree}
----
-maxdepth: 1
-caption: Visualizations with Firefly
----
 
-tutorials/firefly/SEDs_in_Firefly
-tutorials/firefly/NEOWISE_light_curve_demo
-tutorials/firefly/OpenUniverse2024Preview_Firefly
-
-```
 
 ## Simulated Data
 
-```{toctree}
----
-maxdepth: 1
-caption: Simulated Data
----
-
-tutorials/roman_simulations/roman_hlss_number_density.md
 
-```
 
 ## Generally useful techniques
 
 These notebooks  cover miscellaneous topics that users might find useful in their analysis of IRSA-curated data.
 
-```{toctree}
----
-maxdepth: 1
-caption: Generic techniques
----
-
-tutorials/parallelize/Parallelize_Convolution
 
-```
 
 ***
 

myst.yml

@@ -8,8 +8,56 @@ project:
   # authors: []
   # github:
   # To autogenerate a Table of Contents, run "jupyter book init --write-toc"
+  toc:
+    # Auto-generated by `myst init --write-toc`
+    - title: IRSA Tutorials
+      file: index.md
+    - title: VO on-prem data access
+      children:
+        - file: tutorials/irsa-sia-examples/sia_2mass_allsky.md
+        - file: tutorials/irsa-sia-examples/sia_allwise_atlas.md
+        - file: tutorials/irsa-sia-examples/sia_cosmos.md
+        - file: tutorials/irsa-sia-examples/siav2_seip.md
+        - file: tutorials/cosmodc2/cosmoDC2_TAP_access.md
+    - title: Cloud data accesst
+      children:
+        - file: tutorials/cloud_access/cloud-access-intro.md
+        - file: tutorials/parquet-catalog-demos/wise-allwise-catalog-demo.md
+        - file: tutorials/parquet-catalog-demos/neowise-source-table-strategies.md
+        - file: tutorials/parquet-catalog-demos/neowise-source-table-lightcurves.md
+        - file: tutorials/openuniversesims/openuniverse2024_roman_simulated_timedomainsurvey.md
+        - file: tutorials/openuniversesims/openuniverse2024_roman_simulated_wideareasurvey.md
+        - file: tutorials/cloud_access/euclid-cloud-access.md
+    - title: Euclid
+      children:
+        - title: Euclid Early Release Observations
+          children:
+            - file: tutorials/euclid_access/Euclid_ERO.md
+        - title: Euclid Quick Release 1
+          children:
+            - file: tutorials/euclid_access/1_Euclid_intro_MER_images.md
+            - file: tutorials/euclid_access/2_Euclid_intro_MER_catalog.md
+            - file: tutorials/euclid_access/3_Euclid_intro_1D_spectra.md
+            - file: tutorials/euclid_access/4_Euclid_intro_PHZ_catalog.md
+            - file: tutorials/euclid_access/5_Euclid_intro_SPE_catalog.md
+            - file: tutorials/cloud_access/euclid-cloud-access.md
+    - title: SPHEREx
+      children:
+        - file: tutorials/spherex/spherex_intro.md
+    - title: Visualizations with Firefly
+      children:
+        - file: tutorials/firefly/SEDs_in_Firefly.md
+        - file: tutorials/firefly/NEOWISE_light_curve_demo.md
+        - file: tutorials/firefly/OpenUniverse2024Preview_Firefly.md
+    - title: Simulated Data
+      children:
+        - file: tutorials/roman_simulations/roman_hlss_number_density.md
+    - title: Generic techniques
+      children:
+        - file: tutorials/parallelize/Parallelize_Convolution.md
+
 site:
   template: book-theme
-  # options:
-  #   favicon: favicon.ico
-  #   logo: site_logo.png
+  options:
+    favicon: _static/irsa-favicon.ico
+    logo: _static/irsa_logo.png