restructure repository and update content

Author: wiesehahn

.github/workflows/publish.yml

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+# file: .github/workflows/publish.yml
+name: Publish Website
+
+# Allow one concurrent deployment
+concurrency:
+  group: "pages"
+  cancel-in-progress: true
+
+# Sets permissions of the GITHUB_TOKEN to allow deployment to GitHub Pages
+permissions:
+  contents: read
+  pages: write
+  id-token: write
+
+on:
+  push:
+    branches: ['main']
+
+jobs:
+  quarto:
+    runs-on: ubuntu-latest
+    environment:
+      name: github-pages
+      url: ${{ steps.deployment.outputs.page_url }}
+    steps:
+      - name: Checkout repository
+        uses: actions/checkout@v3
+      - name: Install Quarto
+        uses: quarto-dev/quarto-actions/setup@v2
+      - name: Setup Pages
+        uses: actions/configure-pages@v1
+      - name: Render Website
+        run: quarto render
+      - name: Upload artifact
+        uses: actions/upload-pages-artifact@v1
+        with:
+          path: '_site'
+      - name: Deploy to GitHub Pages
+        id: deployment
+        uses: actions/deploy-pages@main

.gitignore

@@ -0,0 +1,4 @@
+/.luarc.json
+
+/.quarto/
+/_site/

code/analysis/.gitkeep .nojekyll

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+{
+    "liveServer.settings.port": 5501,
+    "workbench.colorCustomizations": {
+        "activityBar.activeBackground": "#3399ff",
+        "activityBar.background": "#3399ff",
+        "activityBar.foreground": "#15202b",
+        "activityBar.inactiveForeground": "#15202b99",
+        "activityBarBadge.background": "#bf0060",
+        "activityBarBadge.foreground": "#e7e7e7",
+        "commandCenter.border": "#e7e7e799",
+        "sash.hoverBorder": "#3399ff",
+        "statusBar.background": "#007fff",
+        "statusBar.foreground": "#e7e7e7",
+        "statusBarItem.hoverBackground": "#3399ff",
+        "statusBarItem.remoteBackground": "#007fff",
+        "statusBarItem.remoteForeground": "#e7e7e7",
+        "titleBar.activeBackground": "#007fff",
+        "titleBar.activeForeground": "#e7e7e7",
+        "titleBar.inactiveBackground": "#007fff99",
+        "titleBar.inactiveForeground": "#e7e7e799"
+    },
+    "peacock.color": "#007fff"
+}

.vscode/settings.json

@@ -1,30 +1,3 @@
-## `Project`
+## Lidar for Forestry
 
-Short description
-
---------
-__Folder Structure__
-
-    ├── README.md          
-    |
-    ├── code               <- Source code for use in this project.
-    │   ├── analysis       <- e.g. Code to generate reports 
-    │   ├── data           <- Scripts to download, generate or process data.
-    │   ├── exploratory    <- Exploratory code and scipts in progress.
-    │   ├── functions      <- Reusable code such as functions.
-    │   └── viz            <- Scripts to create exploratory and results oriented visualizations.
-    |
-    ├── data
-    │   ├── external       <- Data from third party sources.
-    │   ├── interim        <- Intermediate data that has been transformed.
-    │   └── processed      <- The final data sets for modeling or analysis.
-    │
-    ├── resources          <- Figures, literature, manuals, and all other explanatory materials.
-    │   ├── documents      <- External documents such as project outlines. 
-    │   ├── figures        <- External figures used in reports such as logos. 
-    │   └── website        <- files to build website with quarto
-    │
-    └── results            <- Results as part of this project.
-        ├── figures        <- Generated graphics and figures to be used in reporting 
-        └── reports        <- Generated analysis as HTML, PDF, LaTeX, etc.
---------
+This repository is meant as a personal spcae to gather and organize information about research and applications of lidar data for forestry.

README.md

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+project:
+  type: website
+  output-dir: _site
+
+website:
+  title: "Lidar for Forestry"
+  description: "Documentation about Lidar data for forestry"
+  site-url: https://github.com/wiesehahn/lidar-forestry/index.html
+  repo-url: https://github.com/wiesehahn/lidar-forestry
+  open-graph: true
+  twitter-card:
+    creator: '@JensWiesehahn'
+  search: false
+  navbar:
+  # title: false
+    logo: /images/logo.png
+    logo-alt: "Website logo image"
+    # logo-href: https://wiesehahn.github.io/
+    collapse: true
+    
+    left:
+      - text: "About"
+        href: content/00_about.qmd
+      - text: "Lidar"
+        href: content/01_lidar.qmd
+      - text: "Data Availability"
+        href: content/02_data.qmd
+      - text: "Scientific Advances"
+        href: content/03_scientific-advances.qmd
+      - text: "Applications"
+        href: content/04_applications.qmd
+      
+    right:
+      - icon: triangle-fill
+        href: https://wiesehahn.github.io
+      - icon: github
+        href: https://github.com/wiesehahn
+      - icon: twitter
+        href: https://twitter.com/JensWiesehahn
+      - icon: mastodon
+        href: https://elk.zone/fosstodon.org/@JensWiesehahn
+      - icon: envelope-fill
+        href: mailto::[email protected]
+  
+  page-footer:
+    border: false
+    left: "© 2023, [Jens Wiesehahn](https://wiesehahn.github.io/)"
+    right:
+      - icon: github
+        href: https://github.com/wiesehahn/lidar-forestry
+
+format:
+  html: # (https://quarto.org/docs/reference/formats/html.html)
+    theme: [litera, assets/custom_theme.scss]
+    mainfont: Nunito
+    toc: true
+    smooth-scroll: true
+    highlight: arrow
+    page-layout: full
+    code-copy: hover
+    code-overflow: wrap
+    code-line-numbers: false
+    grid:
+      sidebar-width: 250px
+      body-width: 1200px
+      margin-width: 250px
+
+tbl-cap-location: top
+
+bibliography: ../references.bib