Add comprehensive documentation site and enhanced README

[Copilot]

Transforms minimal documentation into a complete 5,400+ line technical reference for the MOOS-IvP UAV platform on Skywalker X8.

Changes

Documentation Site (docs/)

• Getting Started: Installation (Raspberry Pi, MOOS-IvP stack), quickstart, architecture
• Hardware Integration: Assembly guide, radio setup (RFD900x mesh, Wi-Fi), firmware flashing (ArduPilot)
• Operations: Usage patterns, mission planning, multi-vehicle coordination, troubleshooting (683 lines)
• Development: Environment setup, MOOS app development, contribution workflow

Enhanced README.md

• Project overview with badges and quick navigation
• Installation commands and prerequisites
• Links to documentation sections
• Citation format and contact information

Infrastructure

• Jekyll configuration for GitHub Pages deployment
• GitHub Actions workflows for link validation and automated deployment
• Navigation sidebar and cross-references between all pages

Content Sources

All documentation derived from existing Info/ technical guides:

• Raspberry_Pi_MOOS-IvP_Setup.md → installation procedures
• RFD900x_Asynchronous_Mesh_Setup_Guide.md → radio configuration
• UAV_Swarm_Mesh_Guide.md → mesh networking architecture
• custom_firmware_flash_steps.md → autopilot firmware procedures

No placeholders—all commands, paths, and examples are repository-accurate.

Files

• Modified: README.md, docs/_config.yaml, docs/index.md
• Created: 13 documentation guides, 2 workflows, 2 navigation files
• Preserved: All existing Info/ directory content intact

Deployment: Merge enables GitHub Pages at https://pavlab-mit.github.io/project-skywalker/

Original prompt

Audit the entire repository pavlab-mit/project-skywalker and produce a complete, user-friendly documentation site and an updated README. Work should include the following actionable tasks:

1. Repository audit

• Recursively scan the repository to discover code, notebooks, scripts, data folders, configuration files (requirements.txt, environment.yml, pyproject.toml, setup.py), tests, and any existing docs or Info content. Use repository contents to extract accurate commands, filenames, module names, and examples to include in the docs.

2. README.md update

• Replace the current minimal README.md with an expanded top-level README that includes:
  • Project name and short description
  • Badges (build, license, docs, PyPI/GitHub Releases if present)
  • Quick status and main goals
  • Installation (conda/pip/requirements) based on detected env files
  • Quickstart / example commands to run the project (scripts, notebooks, CLI) inferred from repo
  • Link to the docs site (docs/) and a brief navigation pointer
  • Contributing link and citation/authors
  • License summary and link

3. Create or refresh docs/ site (plain Markdown files for GitHub Pages)

• Ensure docs/ contains a minimal documentation site with these pages (all in Markdown):
  • index.md: Overview and links to all pages
  • installation.md: Detailed installation options with exact commands inferred from repo (pip, conda, virtualenv) and how to install dependencies
  • quickstart.md: One-page quick example showing how to run a core example (script or notebook) found in repository, with copy-paste commands
  • usage.md: Detailed usage patterns, configuration files, CLI flags or Python API examples (generate snippets from repository functions or scripts)
  • architecture.md: Short description of repository layout and main components (modules, data, models), referencing files and directories found in the repo and Info
  • data.md: Describe location and format of data used by project if present and how to obtain or prepare it
  • models.md: Document any model files, pre-trained weights, and instructions to load/run them
  • development.md: How to set up a dev environment, run tests, linters, formatting, and how to contribute code (branching, PRs)
  • tests.md: How to run the test suite and interpret results (use pytest/pytest -k if tests present)
  • contributing.md: Contribution guidelines and code of conduct if present in repo; otherwise create a basic template linking to PR and issue templates
  • changelog.md: Basic changelog placeholder
  • authors.md: Authors, acknowledgements, and citation instruction (e.g., BibTeX if a paper is present)
  • faq.md / troubleshooting.md: Short troubleshooting tips
• If there is an existing docs/ directory, merge and preserve relevant content, and update or normalize filenames/navigations.
• Add docs/_sidebar.md or docs/README.md if useful to help navigation on GitHub.

4. Link and cross-reference

• Ensure all new docs reference real files and commands detected in the repo (no placeholders). If any information is missing (e.g., requirements file not found), add a clear note and suggested default commands (e.g., pip install -r requirements.txt).

5. Tests and formatting

• Run lightweight checks: ensure Markdown renders (no invalid links to non-existent files), ensure README links to docs/index.md. If repository contains CI config (e.g., .github/workflows), note how docs will be built or add a simple GitHub Actions workflow to build docs to check for broken links (optional only if such workflow isn't present).

6. Deliverable

• Create a new branch (named docs/update-automatic) and commit all doc changes there.
• Open a pull request titled: "Add comprehensive documentation site and update README" targeting the repository's default branch.
• In the PR description, include a summary of changes, list of updated/added files, instructions to preview docs locally, and any follow-up tasks or missing pieces that require human input.

Notes & constraints:

• Do not change code logic or tests beyond small README/docs-only changes.
• Preserve existing authorship and LICENSE files.
• If uncertain about commands or files, prioritize accurate, repository-derived content and mark suggestions as such.

Please scan the repository and implement the changes described above, producing a PR so maintainers can review.

This pull request was created as a result of the following prompt from Copilot chat.

Audit the entire repository pavlab-mit/project-skywalker and produce a complete, user-friendly documentation site and an updated README. Work should include the following actionable tasks:

1. Repository audit

• Recursively scan the repository to discover code, notebooks, scripts, data folders, configuration files (requirements.txt, environment.yml, pyproject.toml, setup.py), tests, and any existing docs or Info content. Use repository contents to extract accurate commands, filenames, module names, and examples to include in the docs.

2. README.md update

• Replace the current minimal README.md with an expanded top-level README that includes:
  • Project name and short description
  • Badges (build, license, docs, PyPI/GitHub Releases if present)
  • Quick status and main goals
  • Installation (conda/pip/requirements) based on detected env files
  • Quickstart / example commands to run the project (scripts, notebooks, CLI) inferred from repo
  • Link to the docs site (docs/) and a brief navigation pointer
  • Contributing link and citation/authors
  • License summary and link

3. Create or refresh docs/ site (plain Markdown files for GitHub Pages)

• Ensure docs/ contains a minimal documentation site with these pages (all in Markdown):
  • index.md: Overview and links to all pages
  • installation.md: Detailed installation options with exact commands inferred from repo (pip, conda, virtualenv) and how to install dependencies
  • quickstart.md: One-page quick example showing how to run a core example (script or notebook) found in repository, with copy-paste commands
  • usage.md: Detailed usage patterns, configuration files, CLI flags or Python API examples (generate snippets from repository functions or scripts)
  • architecture.md: Short description of repository layout and main components (modules, data, models), referencing files and directories found in the repo and Info
  • data.md: Describe location and format of data used by project if present and how to obtain or prepare it
  • models.md: Document any model files, pre-trained weights, and instructions to load/run them
  • development.md: How to set up a dev environment, run tests, linters, formatting, and how to contribute code (branching, PRs)
  • tests.md: How to run the test suite and interpret results (use pytest/pytest -k if tests present)
  • contributing.md: Contribution guidelines and code of conduct if present in repo; otherwise create a basic template linking to PR and issue templates
  • changelog.md: Basic changelog placeholder
  • authors.md: Authors, acknowledgements, and citation instruction (e.g., BibTeX if a paper is present)
  • faq.md / troubleshooting.md: Short troubleshooting tips
• If there is an existing docs/ directory, merge and preserve relevant content, and update or normalize filenames/navigations.
• Add docs/_sidebar.md or docs/README.md if useful to help navigation on GitHub.

4. Link and cross-reference

• Ensure all new docs reference real files and commands detected in the repo (no placeholders). If any information is missing (e.g., requirements file not found), add a clear note and suggested default commands (e.g., pip install -r requirements.txt).

5. Tests and formatting

• Run lightweight checks: ensure Markdown renders (no invalid links to non-existent files), ensure README links to docs/index.md. If repository contains CI config (e.g., .github/workflows), note how docs will be built or add a simple GitHub Actions workflow to build docs to check for broken links (optional only if such workflow isn't present).

6. Deliverable

• Create a new branch (named docs/update-automatic) and commit all doc changes there.
• Open a pull request titled: "Add comprehensive documentation site and update README" targeting the repository's default branch.
• In the PR description, include a summary of changes, list of updated/added files, instructions to preview docs locally, and any follow-up tasks or missing pieces that require human input.

Notes & constraints:

• Do not change code logic or tests beyond small README/docs-only changes.
• Preserve existing authorship and LICENSE files.
• If uncertain about commands or files, prioritize accurate, repository-derived content and mark suggestions as such.

Please scan the repository and implement the changes described above, producing a PR so maintainers can review.

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