Ocean of future content in docs (#250)

* add plotting materials to UU ocean of future directory

* rename course directory

* WIP presentation and tutorial handouts

* presentation updates

* update tut1

* update material

* add tutorial for set up on jupyter collaborative workspace

* add collaborative workspace setup guide to index

* [pre-commit.ci] auto fixes from pre-commit.com hooks

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* add info about having to repeat steps if closing Terminal

* fix typo in path

* small edits

* add index for docs

* update GitHub references in conf.py to reflect correct organization

* small edits

* [pre-commit.ci] auto fixes from pre-commit.com hooks

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* fix link formatting in index.md

* temporarily fix link

* add to do

* add schedule duration live monitoring notebook

* presentation updates

* [pre-commit.ci] auto fixes from pre-commit.com hooks

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* presentation updates

* [pre-commit.ci] auto fixes from pre-commit.com hooks

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* add content and image

* [pre-commit.ci] auto fixes from pre-commit.com hooks

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---------

Co-authored-by: j-atkins <[email protected]>
Co-authored-by: pre-commit-ci[bot] <66853113+pre-commit-ci[bot]@users.noreply.github.com>

Author: 3 people

docs/conf.py

@@ -78,6 +78,8 @@
     "user-guide/assignments/Sail_the_ship": "user-guide/_images/freepik_research_vessel.jpg",
     "user-guide/assignments/Code_of_conduct": "user-guide/_images/freepik_code_of_conduct.jpg",
     "user-guide/teacher-content/ILOs": "user-guide/_images/ILOs.jpg",
+    "user-guide/teacher-content/UU-ocean-of-future/Tutorial1": "user-guide/_images/freepik_assignment.png",
+    "user-guide/teacher-content/UU-ocean-of-future/Tutorial2": "user-guide/_images/freepik_assignment.png",
 }
 
 sphinx_gallery_conf = {"default_thumb_file": "_static/virtual_ship_logo.png"}

docs/user-guide/_images/freepik_assignment.png

@@ -18,7 +18,9 @@
     "\n",
     "[Research_vessel](freepik_research_vessel.jpg)\n",
     "\n",
-    "[ILOs](ILOs.jpg)"
+    "[ILOs](ILOs.jpg)\n",
+    "\n",
+    "[Assignment](freepik_assignment.png)"
    ]
   }
  ],

docs/user-guide/_images/links.ipynb

@@ -4,6 +4,7 @@ subtitle: "Ocean of the future <br> 13-11-2025"
 author: "Emma Daniels & Jamie Atkins <br> Postdocs @ UU <br> Virtual Ship Classroom"
 format:
     revealjs:
+        embed-resources: true
         slide-number: true
         theme: sky
         logo: "https://virtualship.readthedocs.io/en/latest/_static/virtual_ship_logo.png"

docs/user-guide/teacher-content/UU-ocean-of-future/CoordinatesExport-Transect.xlsx

@@ -5,6 +5,8 @@
    "id": "c6b4d243",
    "metadata": {},
    "source": [
+    "# Tutorial 2\n",
+    "\n",
     "## Open the notebook CTD transects and run all cells to generate some plots\n",
     "- modify your data directory\n",
     "data_dir\n",
@@ -20,7 +22,7 @@
     "\n",
     "Oxygen:\n",
     "- Describe the evolution of oxygen along the transect\n",
-    "- Can you identify any oxygen minimum zones? Hypoxia?\n",
+    "- Where is the lowest oxygen found and why do you think this is the case?\n",
     "\n",
     "Nitrate:  \n",
     "Is there nearest to land there are very high nitrate values\n",

docs/user-guide/teacher-content/UU-ocean-of-future/Presentation.html

@@ -18,18 +18,19 @@ We evaluated in several (under)graduate courses and find that the VirtualShip Cl
 
 ```{nbgallery}
 ---
-maxdepth: 1
+maxdepth: 2
 caption: Teaching material
 ---
-
 ILOs.ipynb
 ```
 
-## UU Ocean of the Future
-
 ```{nbgallery}
 ---
-maxdepth: 1
+caption: UU Ocean of the Future
 ---
 UU-ocean-of-future/Tutorial1.ipynb
+UU-ocean-of-future/CoordinatesExport-Transect.xlsx
+UU-ocean-of-future/Tutorial2.ipynb
+UU-ocean-of-future/CTD_transects.ipynb
+UU-ocean-of-future/plot_slider.py
 ```

docs/user-guide/teacher-content/UU-ocean-of-future/Presentation.qmd

@@ -5,8 +5,10 @@
 maxdepth: 1
 caption: Post-processing results
 ---
-<!-- ADCP_data_tutorial.ipynb -->
-<!-- CTD_data_tutorial.ipynb -->
+surf_research_cloud_setup.ipynb
+surf_collaborative_setup.ipynb
+ADCP_data_tutorial.ipynb
+CTD_data_tutorial.ipynb
 Drifter_data_tutorial.ipynb
 Argo_data_tutorial.ipynb
 CTD_transects.ipynb