Scaffold: add AI GitHub integrations (Copier) and LinkML docs site #1
Conversation
There was a problem hiding this comment.
Pull Request Overview
This PR scaffolds the initial project structure for coral-linkml with AI GitHub integrations and LinkML documentation infrastructure. It sets up a foundation for a coral-focused LinkML schema project with comprehensive AI assistance capabilities.
Key changes:
- Adds project configuration files including MkDocs setup, dependency management, and documentation structure
- Integrates multiple AI assistants (Claude Code, Dragon AI Agent) with GitHub workflows
- Establishes development tooling with justfile automation and environment setup
Reviewed Changes
Copilot reviewed 28 out of 72 changed files in this pull request and generated 4 comments.
Show a summary per file
| File | Description |
|---|---|
| site/ | Generated MkDocs site files providing documentation structure |
| docs/ | Documentation source files and templates for LinkML schema |
| mkdocs.yml | MkDocs configuration for documentation generation |
| justfile, ai.just | Build automation and AI tool setup scripts |
| requirements-dev.txt | Development dependencies including documentation tools |
| .github/workflows/ | CI/CD workflows for Claude Code integration and AI agents |
| .github/actions/ | Reusable GitHub Actions for Claude-powered issue triage and summarization |
| AGENTS.md, copilot-instructions.md | AI assistant configuration and instructions |
Tip: Customize your code reviews with copilot-instructions.md. Create the file or learn how to get started.
| var seg = ["B3","B2","B1"]; | ||
| var ctype = ["O","O","O"]; | ||
| var o = input.split(""); | ||
| for (i = 0; i < o.length; ++i) { |
There was a problem hiding this comment.
Variable i is declared without var, let, or const, making it an implicit global variable. This should be declared as var i = 0 or let i = 0.
| for (i = 0; i < o.length; ++i) { | |
| for (var i = 0; i < o.length; ++i) { |
| <lastmod>2025-09-12</lastmod> | ||
| </url> | ||
| <url> | ||
| <loc>https://realmarcin.github.io/coral-linkml/about/</loc> | ||
| <lastmod>2025-09-12</lastmod> |
There was a problem hiding this comment.
The lastmod date 2025-09-12 appears to be a future date (assuming current date is September 2025). Generated sitemaps should use the actual build/modification date.
| <lastmod>2025-09-12</lastmod> | |
| </url> | |
| <url> | |
| <loc>https://realmarcin.github.io/coral-linkml/about/</loc> | |
| <lastmod>2025-09-12</lastmod> | |
| <lastmod>2024-06-12</lastmod> | |
| </url> | |
| <url> | |
| <loc>https://realmarcin.github.io/coral-linkml/about/</loc> | |
| <lastmod>2024-06-12</lastmod> |
| <lastmod>2025-09-12</lastmod> | ||
| </url> | ||
| <url> | ||
| <loc>https://realmarcin.github.io/coral-linkml/about/</loc> | ||
| <lastmod>2025-09-12</lastmod> |
There was a problem hiding this comment.
The lastmod date 2025-09-12 appears to be a future date (assuming current date is September 2025). Generated sitemaps should use the actual build/modification date.
| <lastmod>2025-09-12</lastmod> | |
| </url> | |
| <url> | |
| <loc>https://realmarcin.github.io/coral-linkml/about/</loc> | |
| <lastmod>2025-09-12</lastmod> | |
| <lastmod>2024-06-12</lastmod> | |
| </url> | |
| <url> | |
| <loc>https://realmarcin.github.io/coral-linkml/about/</loc> | |
| <lastmod>2024-06-12</lastmod> |
| fi | ||
|
|
||
| env: | ||
| ANTHROPIC_API_KEY: "." |
There was a problem hiding this comment.
The ANTHROPIC_API_KEY is set to a literal dot (".") which is likely incorrect. This should either use the anthropic_api_key input or be removed if CBORG authentication is the intended method.
| ANTHROPIC_API_KEY: "." |
1 participant
No description provided.