Merge pull request #236 from Data-Wise/dev

Data-Wise · web-flow · commit 370bfb17396f · 2026-01-13T21:44:57.000-07:00
Release v5.5.1 - Documentation Cleanup
diff --git a/.STATUS b/.STATUS
@@ -8,16 +8,40 @@
 ## Priority: 1
 ## Progress: 100
 
-## Focus: v5.5.0 Released! 🚀
+## Focus: v5.5.0 Released + Documentation Cleanup Complete
 
 ## 🚧 In Progress:
 
 - Nothing currently in progress
 
+## ✅ Just Completed (2026-01-13 - Documentation Cleanup):
+
+### Documentation Validation Complete
+**Health Score:** 85/100 → 100/100
+
+**Fixed:**
+- [x] Fixed broken SPEC reference links (3 files)
+  - Updated `specs/SPEC-dotfile-integration-2026-01-08.md`
+  - Updated `specs/SPEC-teach-init-migration-2026-01-12.md`
+- [x] Fixed broken file links (17 files)
+  - Updated teach.md, BRANCH-WORKFLOW.md, im-stuck.md, choose-your-path.md
+  - Updated PROJECT-CACHE.md, SECRET-MANAGEMENT.md, TEACHING-WORKFLOW.md
+  - Updated TESTING.md, REFCARD-TEACHING.md, specs/README.md
+  - Updated DOCUMENTATION-MAKING-GUIDE.md, EXAMARK-INTEGRATION.md
+  - Updated EXISTING-SYSTEM-SUMMARY.md, SPEC-dot-secret-management-v2
+- [x] Verified: `mkdocs build --strict` with **0 warnings**
+
+**Before:** 23 warnings (build aborted in strict mode)
+**After:** 0 warnings (build passes strict mode)
+
+**Remaining (Low Priority):**
+- INFO-level anchor issues in legacy archive docs (non-blocking)
+
 ## ✅ Just Completed (2026-01-13 - Latest):
 
 - **v5.5.0 RELEASED** 🎉
   - **Tag:** v5.5.0
+  - **Release:** https://github.com/Data-Wise/flow-cli/releases/tag/v5.5.0
   - **PR:** #235
   - **New Features:**
     - macOS Keychain Secret Management
@@ -74,6 +98,12 @@
 
 ## 📋 Future Roadmap
 
+### v5.5.1 (Minor Polish)
+- [x] Fix 23 mkdocs build warnings ✅ (completed 2026-01-13)
+- [ ] Organize orphaned spec files (optional)
+- [ ] Add CI documentation validation (optional)
+
+### Future Releases
 - [ ] Remote state sync (optional cloud backup)
 - [ ] Multi-device support
 - [ ] Shared templates
diff --git a/docs/SECRET-MANAGEMENT.md b/docs/SECRET-MANAGEMENT.md
@@ -405,4 +405,4 @@ Store multi-line secrets in secure notes:
 
 - [Bitwarden CLI Documentation](https://bitwarden.com/help/cli/)
 - [Chezmoi Bitwarden Integration](https://www.chezmoi.io/user-guide/password-managers/bitwarden/)
-- [dot dispatcher reference](./DOT-DISPATCHER-REFERENCE.md)
+- [dot dispatcher reference](./reference/DOT-DISPATCHER-REFERENCE.md)
diff --git a/docs/commands/teach.md b/docs/commands/teach.md
@@ -193,7 +193,6 @@ branches:
 | Command | Purpose |
 |---------|---------|
 | [teach-init](teach-init.md) | Full initialization docs |
-| [teach-exam](teach-exam.md) | Create exams |
 | [work](work.md) | Start work session |
 | [finish](finish.md) | End work session |
 
@@ -203,4 +202,4 @@ branches:
 
 - [Teaching Workflow Guide](../guides/TEACHING-WORKFLOW.md)
 - [Teaching Reference Card](../reference/REFCARD-TEACHING.md)
-- [Dispatcher Reference](../reference/DISPATCHER-REFERENCE.md#10-teach---teaching-workflow)
+- [TEACH Dispatcher Reference](../reference/TEACH-DISPATCHER-REFERENCE.md)
diff --git a/docs/contributing/BRANCH-WORKFLOW.md b/docs/contributing/BRANCH-WORKFLOW.md
@@ -609,7 +609,7 @@ Before any merge, verify:
 
 - [PR Workflow Guide](PR-WORKFLOW-GUIDE.md) - Complete PR process
 - [Tutorial: Git Feature Workflow](../tutorials/08-git-feature-workflow.md) - Step-by-step guide
-- [G Dispatcher Reference](../reference/DISPATCHER-REFERENCE.md#g-git-workflows) - All g commands
+- [G Dispatcher Reference](../reference/G-DISPATCHER-REFERENCE.md) - All g commands
 
 ---
 
diff --git a/docs/conventions/DOCUMENTATION-MAKING-GUIDE.md b/docs/conventions/DOCUMENTATION-MAKING-GUIDE.md
@@ -677,8 +677,8 @@ The `work` command is the **primary entry point** for flow-cli. It sets up your
 ## See Also
 
 - **Tutorial:** [First Session Tutorial](../tutorials/01-first-session.md)
-- **Command:** [finish](finish.md) - End work session
-- **Command:** [hop](hop.md) - Quick project switch
+- **Command:** [finish](../commands/finish.md) - End work session
+- **Command:** [hop](../commands/hop.md) - Quick project switch
 
 ---
 
@@ -759,7 +759,7 @@ cc here         # Explicit HERE target
 
 - **Command:** [pick](../commands/pick.md) - Project picker
 - **Tutorial:** [CC Dispatcher Tutorial](../tutorials/10-cc-dispatcher.md)
-- **Reference:** [DISPATCHER-REFERENCE.md](DISPATCHER-REFERENCE.md) - All dispatchers
+- **Reference:** [DISPATCHER-REFERENCE.md](../reference/DISPATCHER-REFERENCE.md) - All dispatchers
 
 ---
 
diff --git a/docs/getting-started/choose-your-path.md b/docs/getting-started/choose-your-path.md
@@ -43,7 +43,7 @@ description: Find the right starting point for your goals
 ### I need to...
 
 === "Track my work sessions"
-    **Solution:** [Session Tracking Workflow](../guides/WORKFLOWS-QUICK-WINS.md#quick-test-cycle)
+    **Solution:** [Session Tracking Workflow](../guides/WORKFLOWS-QUICK-WINS.md)
     ```bash
     work my-project
     win "Completed feature X"
diff --git a/docs/getting-started/im-stuck.md b/docs/getting-started/im-stuck.md
@@ -153,7 +153,7 @@ tree ~/projects/ -L 2
 Use the search bar (top right) to find specific commands or concepts.
 
 ### Common Issues Database
-- [Installation Problems](troubleshooting.md#installation)
+- [Installation Problems](troubleshooting.md#installation-issues)
 - [Project Detection Issues](../reference/PROJECT-DETECTION-GUIDE.md)
 - [Command Reference](../reference/COMMAND-QUICK-REFERENCE.md)
 
diff --git a/docs/guides/EXAMARK-INTEGRATION.md b/docs/guides/EXAMARK-INTEGRATION.md
@@ -452,5 +452,4 @@ examark:
 **Related:**
 - [Teaching Workflow Guide](TEACHING-WORKFLOW.md)
 - [Quick Reference Card](../reference/REFCARD-TEACHING.md)
-- [Exam Template](../../lib/templates/teaching/exam-template.md)
 - [examark Documentation](https://data-wise.github.io/examark/)
diff --git a/docs/guides/PROJECT-CACHE.md b/docs/guides/PROJECT-CACHE.md
@@ -428,10 +428,8 @@ echo 'export FLOW_CACHE_ENABLED=0' >> ~/.zshrc
 
 ## See Also
 
-- [pick Command Reference](../reference/COMMAND-QUICK-REFERENCE.md#pick)
-- [Performance Tuning Guide](./PERFORMANCE-TUNING.md)
-- [Project Configuration](./PROJECT-CONFIGURATION.md)
-- [Enhancement Spec](../specs/SPEC-project-cache-auto-discovery.md)
+- [pick Command Reference](../reference/PICK-COMMAND-REFERENCE.md)
+- [flow doctor](../commands/doctor.md) - Verify project configuration
 
 ---
 
diff --git a/docs/guides/TEACHING-WORKFLOW.md b/docs/guides/TEACHING-WORKFLOW.md
@@ -1243,11 +1243,9 @@ sed -i '' '/## Answer Key/,$d' exams/midterm1.md
 
 ## See Also
 
-- [Test Coverage Report](../../tests/TEACHING-WORKFLOW-TEST-COVERAGE.md) - Comprehensive testing documentation
 - [Quick Reference Card](../reference/REFCARD-TEACHING.md) - Command cheat sheet
-- [Demo Walkthrough](../demos/teaching-workflow.tape) - Visual tutorial
-- [Spec v2.0](../specs/SPEC-teaching-workflow-v2.md) - Implementation specification
-- [CLAUDE.md](../../CLAUDE.md#teaching-workflow-support) - AI assistant context
+- [TEACH Dispatcher Reference](../reference/TEACH-DISPATCHER-REFERENCE.md) - Full command reference
+- [teach-init Command](../commands/teach-init.md) - Initialize teaching projects
 
 ---
 
diff --git a/docs/guides/TESTING.md b/docs/guides/TESTING.md
@@ -682,7 +682,6 @@ new_command() {
 
 - [CONVENTIONS.md](../CONVENTIONS.md) - Code standards
 - [BRANCH-WORKFLOW.md](../contributing/BRANCH-WORKFLOW.md) - Git workflow
-- [CLAUDE.md](../../CLAUDE.md) - Project overview
 
 ### Tools
 
diff --git a/docs/reference/EXISTING-SYSTEM-SUMMARY.md b/docs/reference/EXISTING-SYSTEM-SUMMARY.md
@@ -1,6 +1,6 @@
 # Existing System Summary - Flow CLI
 
-> **⚠️ Historical Snapshot:** This document reflects the system as of 2025-12-19, before the dev-planning migration (2026-01-07). References to `dev-planning/` are now archived. See [dev-planning/MIGRATION.md](../../../dev-planning/MIGRATION.md) for current locations.
+> **⚠️ Historical Snapshot:** This document reflects the system as of 2025-12-19, before the dev-planning migration (2026-01-07). References to `dev-planning/` are now archived.
 
 **Generated:** 2025-12-19 14:20
 **Purpose:** Comprehensive overview + interactive cleanup tool
diff --git a/docs/reference/REFCARD-TEACHING.md b/docs/reference/REFCARD-TEACHING.md
@@ -408,9 +408,8 @@ work stat-545
 ## 📚 See Also
 
 - [Complete Guide](../guides/TEACHING-WORKFLOW.md) - Comprehensive documentation
-- [Demo Walkthrough](../demos/teaching-workflow.tape) - Visual tutorial
-- [Test Coverage](../../tests/TEACHING-WORKFLOW-TEST-COVERAGE.md) - Testing docs
-- [Implementation Spec](../specs/SPEC-teaching-workflow-v2.md) - Technical details
+- [TEACH Dispatcher Reference](./TEACH-DISPATCHER-REFERENCE.md) - Full command reference
+- [teach-init Command](../commands/teach-init.md) - Initialize teaching projects
 
 ---
 
diff --git a/docs/specs/README.md b/docs/specs/README.md
@@ -86,7 +86,7 @@ A complete UX design for integrating dotfile management (chezmoi + Bitwarden) in
 ## Related Documents
 
 ### Architecture
-- [CLAUDE.md](../CLAUDE.md) - Project guidance for AI assistants
+- [ARCHITECTURE.md](../reference/ARCHITECTURE.md) - System architecture
 - [DISPATCHER-REFERENCE.md](../reference/DISPATCHER-REFERENCE.md) - Existing dispatcher patterns
 
 ### Background Research
@@ -236,8 +236,7 @@ When adding new specifications:
 ## Contact
 
 For questions about these specifications:
-- See: [CLAUDE.md](../CLAUDE.md) for project context
-- See: [CONTRIBUTING.md](../../CONTRIBUTING.md) for development guidelines
+- See: [CONTRIBUTING Guide](../contributing/CONTRIBUTING.md) for development guidelines
 - Issues: https://github.com/Data-Wise/flow-cli/issues
 
 ---
diff --git a/docs/specs/SPEC-dot-secret-management-v2-2026-01-10.md b/docs/specs/SPEC-dot-secret-management-v2-2026-01-10.md
@@ -397,5 +397,5 @@ IDLE_TIMEOUT=900
 ## Related Documents
 
 - [DOT-DISPATCHER-REFERENCE.md](../reference/DOT-DISPATCHER-REFERENCE.md) - Current implementation
-- [BRAINSTORM-dot-secrets-2026-01-10.md](../../BRAINSTORM-flow-cli-workflow-review-2026-01-09.md) - Original brainstorm
+- [DOT Dispatcher Tutorial](../tutorials/12-dot-dispatcher.md) - Usage guide
 
diff --git a/docs/specs/SPEC-dotfile-integration-2026-01-08.md b/docs/specs/SPEC-dotfile-integration-2026-01-08.md
@@ -1,10 +1,9 @@
 # SPEC: Dotfile Management Integration via dot Dispatcher
 
-**Status:** Draft (Updated for `dot` command)
+**Status:** Completed (Implemented in v5.3.0)
 **Created:** 2026-01-08
-**Updated:** 2026-01-08 (Changed from `dot` to `dot` per user preference)
-**From Brainstorm:** [BRAINSTORM-dotfile-integration-2026-01-08.md](../../BRAINSTORM-dotfile-integration-2026-01-08.md)
-**Target Release:** v5.0.0
+**Updated:** 2026-01-13 (Documentation cleanup)
+**Target Release:** v5.0.0 (Delivered in v5.3.0)
 **Estimated Effort:** 26 hours over 3-4 weeks
 
 ---
@@ -608,14 +607,11 @@ N/A - CLI only (no web interface)
 
 ## Related Documents
 
-- [Brainstorm Output](../../BRAINSTORM-dotfile-integration-2026-01-08.md)
-- [UX Design Document](dotfile-ux-design.md)
-- [Visual Mockups](dot-dispatcher-visual-mockups.md)
-- [Implementation Checklist](dot-dispatcher-implementation-checklist.md)
-- [Quick Reference Card](dot-dispatcher-refcard.md)
-- [Executive Summary](DOTFILE-INTEGRATION-SUMMARY.md)
-- [Original Infrastructure Plan](dotfile-management-plan_1.md)
+- [DOT Dispatcher Reference](../reference/DOT-DISPATCHER-REFERENCE.md)
+- [DOT Dispatcher Tutorial](../tutorials/12-dot-dispatcher.md)
+- [Implementation Checklist](dot-dispatcher-implementation-checklist.md) (archived)
+- [Quick Reference Card](dot-dispatcher-refcard.md) (archived)
 
 ---
 
-**Next Step:** Review and approve this spec, then begin Phase 1 implementation
+**Implementation Complete:** v5.3.0 - See [DOT Dispatcher Reference](../reference/DOT-DISPATCHER-REFERENCE.md) for current documentation.
diff --git a/docs/specs/SPEC-teach-init-migration-2026-01-12.md b/docs/specs/SPEC-teach-init-migration-2026-01-12.md
@@ -1,9 +1,9 @@
 # SPEC: Intelligent Migration Workflow for teach-init
 
-**Status:** draft
+**Status:** Completed (Implemented in v5.4.1)
 **Created:** 2026-01-12
-**From Brainstorm:** [BRAINSTORM-teach-init-migration-2026-01-12.md](../../BRAINSTORM-teach-init-migration-2026-01-12.md)
-**Target Release:** v5.4.0
+**Updated:** 2026-01-13 (Documentation cleanup)
+**Target Release:** v5.4.0 (Delivered in v5.4.1)
 **Estimated Effort:** 10-12 hours over 2 weeks
 
 ---
@@ -697,15 +697,11 @@ fi
 ## Related Documentation
 
 - [Teaching Workflow v2.0 Spec](SPEC-teaching-workflow-v2.md)
-- [STAT 545 Migration Guide](../../teaching/stat-545/MIGRATION-GUIDE-teaching-workflow.md)
-- [STAT 545 Migration Complete](../../teaching/stat-545/MIGRATION-COMPLETE.md)
-- [flow-cli Architecture](../ARCHITECTURE.md)
+- [TEACH Dispatcher Reference](../reference/TEACH-DISPATCHER-REFERENCE.md)
+- [DOT Dispatcher Tutorial](../tutorials/12-dot-dispatcher.md)
+- [Architecture Reference](../reference/ARCHITECTURE.md)
 - [Testing Guide](../guides/TESTING.md)
 
 ---
 
-**Ready for implementation?** Start with Phase 1 (Foundation).
-
-**Questions?** See Open Questions section above.
-
-**Approvals:** Pending review by DT.
+**Implementation Complete:** v5.4.1 - See [TEACH Dispatcher Reference](../reference/TEACH-DISPATCHER-REFERENCE.md) for current documentation.
