Website Implementation Summary

What Was Created

A complete GitHub Pages website using Quarto with all requested features has been implemented.

Files Created

Configuration

  • _quarto.yml - Main Quarto configuration with navbar, theme, and settings
  • .gitignore - Excludes build artifacts and temporary files
  • styles.css - Custom CSS for improved styling

Pages

  1. index.qmd - Home/landing page
  2. about.qmd - CV/About page
  3. research.qmd - Research projects page
  4. outreach.qmd - Outreach & Education page
  5. notebook.qmd - Lab Notebook listing page (with search/filter)
  6. gallery.qmd - Image gallery page

Lab Notebook System

  • posts/_template.qmd - Template for creating new notebook entries
  • posts/2024-01-15-welcome.qmd - Sample entry with usage instructions
  • Automatic listing, search, and category filtering
  • RSS feed generation

Documentation

  • README.md - Comprehensive overview and instructions
  • QUICKSTART.md - Quick reference for common tasks
  • DEPLOYMENT.md - GitHub Pages deployment guide

Automation

  • .github/workflows/publish.yml - GitHub Actions workflow for automatic deployment

Key Features Implemented

✅ All Required Pages

  • Home page with navigation
  • CV/About (customizable)
  • Research (customizable)
  • Outreach & Education (customizable)
  • Lab Notebook (functional with search/filter)
  • Image Gallery (customizable)

✅ Lab Notebook Functionality

  • Quarto formatting: Full Markdown support with code blocks, equations, figures
  • Daily entries: Each entry is a separate .qmd file with metadata
  • Searchable: Full-text search across all entries
  • Categorized: Filter by project, keyword, or topic
  • Date-sorted: Automatic chronological organization
  • RSS feed: Subscribe to updates
  • Template system: Easy entry creation from template

✅ Customization

  • All pages are .qmd files that can be easily edited
  • Simple YAML frontmatter for metadata
  • Custom CSS for styling
  • Configurable theme and navigation

✅ Deployment

  • GitHub Actions workflow for automatic deployment
  • Builds on push to main branch
  • Deploys to GitHub Pages automatically
  • No manual build steps required

How to Use

1. Enable GitHub Pages

Repository Settings → Pages → Source: "GitHub Actions"

2. Customize Content

Edit the .qmd files with your information: - about.qmd - Add your CV and bio - research.qmd - Describe your projects - outreach.qmd - List teaching and outreach - gallery.qmd - Add images (create images/ folder first)

3. Create Notebook Entries

# Copy template
cp posts/_template.qmd posts/2024-01-16-my-entry.qmd

# Edit the file and update metadata
# Commit and push - auto-deploys!

4. Preview Locally (Optional)

quarto preview

Lab Notebook Workflow

Creating a New Entry

  1. Copy template: cp posts/_template.qmd posts/YYYY-MM-DD-title.qmd

  2. Edit metadata (YAML frontmatter):

    ---
title: "My Lab Entry"
author: "Ariana Huffmyer"
date: "2024-01-16"
categories: [project-name, methods, analysis]
description: "Brief summary"
---

  3. Write content using Markdown

  4. Commit and push - automatically builds and deploys

Organizing Entries

Categories help organize and find entries: - Project names: coral-bleaching, RNA-seq - Keywords: fieldwork, analysis, methods - Topics: molecular-biology, statistics

Naming convention: YYYY-MM-DD-descriptive-name.qmd

Search and Filter

The notebook page automatically provides: - Search bar - Find keywords in content - Category filters - Click tags to filter - Sort options - By date, title, etc. - RSS feed - Subscribe at /notebook.xml

Technical Stack

  • Quarto 1.4.549 - Publishing system
  • GitHub Pages - Free hosting
  • GitHub Actions - Automated deployment
  • Markdown/YAML - Content format
  • HTML/CSS - Output format

What Makes This Special

  1. Fully functional lab notebook with real search and filtering
  2. Automatic deployment - push to main and it’s live
  3. Professional appearance with clean navigation and styling
  4. Extensible - Easy to add pages, customize theme, add features
  5. Version controlled - All entries tracked in Git
  6. RSS feed - Others can subscribe to your notebook
  7. Portable - Plain text files, works with any text editor

Success Criteria Met

✅ GitHub.io website created
✅ Multiple pages (CV, Research, Outreach, Notebook, Gallery)
✅ Pages are customizable
✅ Functional lab notebook
✅ Quarto formatting for entries
✅ Searchable by topic/project
✅ Searchable by keywords
✅ Searchable by date
✅ Cataloged entries

Site URL

Once deployed: https://ahuffmyer.github.io/website/

Support Resources

  • Quarto docs: https://quarto.org/docs/guide/
  • Markdown guide: https://www.markdownguide.org/
  • GitHub Pages: https://docs.github.com/pages

Status: ✅ Complete and ready for deployment!