Merge pull request #15 from nasa/agu_dev

First AGU Update

.gitignore

@@ -8,6 +8,6 @@
 *.envi*
 *.hdr*
 *.nc*
-/ignore
+/_ignore
 /.quarto/
 /_site/

README.md

@@ -1,10 +1,12 @@
-> **_Fall 2023 ECOSTRESS Science and Application Team Meeting:_**  This workshop is hosted by NASA’s Land Processes Distributed Activate Archive [LP DAAC](https://lpdaac.usgs.gov/) and NASA Jet Propulsion Laboratory [JPL](https://www.jpl.nasa.gov/) with support from the NASA [Openscapes](https://nasa-openscapes.github.io/) project. Hands-on exercises will be executed from a [Jupyter Hub on the 2i2c cloud instance](https://openscapes.2i2c.cloud/). Your GitHub username is used to enable access to the cloud instance during the workshop. Please pass along your Github Username to get access if you have not already.
-
-> To open the JupyterHub and clone the VITALS repository automatically you can use the following link: [https://tinyurl.com/yckery74](https://tinyurl.com/yckery74).
+> **Fall AGU 2023 VITALS Workshop**  
+>
+> Please view the [web-book](https://github.com/nasa/VITALS) for workshop details. **Resources in the VITALS repository have been developed using the Openscapes 2i2c JupyterHub cloud workspace. These resources will not work as-is from a local python environment without modification.**
 
 # VITALS
 
-Welcome to the **VSWIR Imaging and Thermal Applications, Learning, and Science** Repository! This repository provides Python Jupyter notebooks to help users work with visibile to short-wave infrared imaging spectroscopy data, thermal infrared data, and other products from the Earth Surface Mineral Dust Source Investigation (EMIT) and ECOsystem Spaceborne Thermal Radiometer Experiment on Space Station (ECOSTRESS) missions. The instruments overlapping fields of view provide an unprecedented opportunity to demonstrate the compounded benefits of working with both datasets. In the interest of open science this repository has been made public but is still under active development. Make sure to consult the CHANGE_LOG.md for the most recent changes to the repository. Contributions from all parties are welcome.
+Welcome to the **VSWIR Imaging and Thermal Applications, Learning, and Science** Repository! This repository provides Python Jupyter notebooks to help users work with visibile to short-wave infrared imaging spectroscopy data, thermal infrared data, and other products from the Earth Surface Mineral Dust Source Investigation (EMIT) and ECOsystem Spaceborne Thermal Radiometer Experiment on Space Station (ECOSTRESS) missions. The instruments overlapping fields of view provide an unprecedented opportunity to demonstrate the compounded benefits of working with both datasets.
+
+In the interest of open science this repository has been made public but is still under active development. Make sure to consult the CHANGE_LOG.md for the most recent changes to the repository. Contributions from all parties are welcome.
 
 ---
 
@@ -14,6 +16,6 @@ Email: <[email protected]>
 Voice: +1-866-573-3222  
 Organization: Land Processes Distributed Active Archive Center (LP DAAC)¹  
 Website: <https://lpdaac.usgs.gov/>  
-Date last modified: 09-20-2023  
+Date last modified: 12-07-2023  
 
 ¹Work performed under USGS contract G15PD00467 for NASA contract NNG14HH33I.  

_quarto.yml

@@ -7,21 +7,18 @@ execute:
 
 website:
   page-navigation: true
-  search: 
-    location: navbar
-    type: overlay
   page-footer: 
-    left: "VSWIR Imaging and Thermal Applications, Learning, and Science."
+    center: "VSWIR Imaging and Thermal Applications, Learning, and Science."
 
   title: "VITALS"
   site-url: https://nasa.github.io/VITALS/
   repo-url: https://github.com/nasa/VITALS/
 
   sidebar:
     title: "VITALS"
-    logo: img/lp_jpl.png 
+    logo: img/lp_jpl_vitals_light.png
     pinned: true
-    align: left
+    align: center
     tools: 
       - icon: globe
         href: https://nasa.github.io/VITALS/
@@ -30,22 +27,32 @@ website:
         href: https://github.com/nasa/VITALS
         text: "VITALS Repository"
 
-    style: "docked"
+    style: "floating"
     search: true
-    collapse-level: 1
+    collapse-level: 2
     contents:
-      - text: "Welcome"
-        href: index.qmd
-      - text: "Schedule"
-        href: schedule.qmd
-      - text: "Set Up Instruction"
-        href: setup/setup_instructions.md
-      - section: "Tutorials"            
+      - section: "Welcome"
+        contents:
+        - text: "2023 AGU Workshop"
+          href: index.qmd
+        - text: "Repository Description"
+          href: vitals.qmd
+        - text: "Workshop Schedule"
+          href: schedule.qmd
+      - section: "Setup Instructions"
+        contents:
+        - text: "Prerequisites"
+          href: setup/prerequisites.md
+        - text: "Cloud Workspace Setup"
+          href: setup/workshop_setup.qmd
+      - section: "Python Notebooks"            
         contents: 
-          - text: "01-Finding Concurrent ECOSTRESS and EMIT Data"
+          - text: "1 Finding Concurrent Data"
             href: python/01_Finding_Concurrent_Data.ipynb
-          - text: "02-Carpinteria Salt Marsh Analysis"
-            href: python/ECOSTRESS-EMIT_Carpinteria_Workshop.ipynb
+          - text: "2 EMIT Reflectance and ECOSTRESS LST"
+            href: python/02_Working_with_EMIT_Reflectance_and_ECOSTRESS_LST.ipynb
+          - text: "3 Canopy Water Content"
+            href: python/03_EMIT_CWC_from_Reflectance.ipynb
       - section: "Contributing"
         contents:
           - href: CONTRIBUTING.md
@@ -54,8 +61,8 @@ format:
   html:
     theme:
       light: cosmo
+      dark: [cosmo,theme-dark.scss]
     code-background: true
     code-copy: true
     css: styles.css
     toc: true
-