[WIP] Fix broken internal links and normalize layouts

[Copilot]

Thanks for asking me to work on this. I will get started on it and keep this PR's description up to date as I form a plan and make progress.

Original prompt

Create a pull request on bryan-rt/roll_tracker that fixes broken internal links in the docs/ site, normalizes layouts, and sets baseurl for GitHub Pages. Changes are minimal and preserve all existing content except front-matter and internal link markup. Target branch: main. Source branch: docs/fix-links-layouts (already created).

Summary of changes to apply (exact file contents provided):

1. docs/_config.yml — replace with:

title: Roll Tracker
description: "Roll Tracker planning + docs"

# GitHub Pages Jekyll build
theme: jekyll-theme-cayman

# Keep URLs stable and readable
permalink: pretty

# Site baseurl for project pages
baseurl: "/roll_tracker"

2. docs/index.md — replace with:

---
layout: default
title: Home
---

# Roll Tracker Documentation

Welcome to the **Roll Tracker** project documentation site. This site contains planning documents, architecture decisions, and worker thread specifications for the roll tracking system.

## 📚 Documentation Sections

### [Planning Documentation]({{ '/planning/' | relative_url }})
Core planning documents including:
- Pipeline architecture and hybrid execution model
- Stage contracts and artifact specifications
- Checkpoint discipline and validation requirements
- POC scope and success criteria

### [Worker Thread Index]({{ '/planning/WORKER_THREAD_INDEX.html' | relative_url }})
Complete index of all worker threads organized by stage, including responsibilities and deliverables.

### [Worker Thread Specifications]({{ '/planning/worker_threads/' | relative_url }})
Detailed specifications for individual worker threads, meant to be used as prompts for dedicated worker chats.

---

## 🔧 Quick Links

- **Repository**: https://github.com/bryan-rt/roll_tracker
- **Planning Pack**: [Planning README]({{ '/planning/README.html' | relative_url }})

---

*This site is automatically published from the repository's `docs/` folder using GitHub Pages.*

3. docs/planning/index.md — replace with:

---
layout: default
title: Planning Documentation
---

# Roll Tracker Planning

This section contains the core planning documentation for the Roll Tracker project.

## 📋 Core Documents

### [Planning README]({{ '/planning/README.html' | relative_url }})
The main planning pack document covering:
- **Workflow**: How to use worker threads effectively
- **Pipeline Architecture**: Hybrid execution model (multiplex_AC)
- **Stage Contracts**: F0/F1/F2 artifact and configuration contracts
- **Current Locks**: Agreed-upon decisions and constraints
- **Checkpoint Discipline**: Requirements for keeping the pipeline runnable
- **Stage D POC Map**: Detailed specifications for the MCF stitcher

### [Worker Thread Index]({{ '/planning/WORKER_THREAD_INDEX.html' | relative_url }})
Comprehensive index of all worker threads organized by stage (A through X), including:
- Worker IDs and responsibilities
- Current status and deliverables
- Cross-references and dependencies

## 🧵 Worker Thread Specifications

### [Worker Threads Directory]({{ '/planning/worker_threads/' | relative_url }})
Individual worker thread specification files, each designed to be pasted as the first message in a dedicated worker chat.

**Usage**:
1. Create a new worker chat with the worker ID (e.g., `D2`)
2. Paste the entire worker markdown file
3. Ask the worker to deliver required outputs
4. Return summaries to the Manager thread

---

## ⚙️ Key Concepts

- **Min-Cost Flow (MCF)**: Mandatory stitching approach for Stage D
- **Multiplex Mode**: Single-pass execution (A+C together)
- **Artifact-Driven**: All stages communicate through versioned artifacts (F0 contract)
- **Checkpoint Discipline**: Pipeline must remain runnable end-to-end at every checkpoint

---

[← Back to Home]({{ '/' | relative_url }})

4. docs/planning/worker_threads/index.md — replace with:

---
layout: default
title: Worker Threads
---

- [Back to Planning]({{ '/planning/' | relative_url }})

Browse the worker thread writeups in this folder.

5. docs/planning/README.md — modify only the front matter: change layout: page to layout: default. Preserve the rest of the file body exactly as currently in the repository.

Commit message: "docs: fix internal links and normalize layouts; set baseurl"
PR title: "Fix broken internal links and normalize docs layouts (set baseurl)"
PR body: "This PR sets baseurl to /roll_tracker, normalizes layouts to layout: default for docs pages, and replaces internal links with Liquid {{ '/path/' | relative_url }} so the site correctly resolves links when published under the project path. All content preserved; changes are formatting and link fixes only."

Do not modify any other files.

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