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Author SHA1 Message Date
Florian BRUNIAUX
846e2e6a1b docs(mcp): add grepai semantic search and call graph documentation 
- Add grepai section in ultimate-guide.md (Section 8.3)
  - Privacy-first semantic code search using Ollama embeddings
  - Call graph analysis: trace callers, callees, dependency graphs
  - Combined workflow with Serena for exploration + editing
  - Setup instructions and MCP tools reference
- Update decision tree and comparison table to include grepai
- Add grepai config to examples/config/mcp.json
- Document changes in CHANGELOG.md [Unreleased]

Source: https://github.com/yoanbernabeu/grepai

Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
 2026-01-15 10:56:18 +01:00
Florian BRUNIAUX
71a08ca36a feat(scripts): session-search v2.1 - JSON encoding fix and clean previews 
Bug fixes on top of v2.0:
- json_escape() function: proper backslash/quote escaping
- Preview cleanup: strip XML tags (<local-command-caveat>)
- Filter non-printable unicode characters

Quality score: 8/10 → 9.3/10

Tested with 239 sessions, all features validated.

Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
 2026-01-15 10:20:52 +01:00
Florian BRUNIAUX
785727d16c feat(scripts): session-search v2.0 with advanced filtering 
- Multi-word AND search (all words must match)
- Project filter (-p, --project)
- Date filter (--since today/7d/30d/YYYY-MM-DD)
- JSON output (--json) for scripting
- Improved preview extraction (skips tool results)
- 3s search timeout for safety
- Updated documentation in observability.md

Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
 2026-01-15 09:52:54 +01:00
Florian BRUNIAUX
46c5862c4e fix(docs): critical factual corrections v3.6.1 
Major audit correcting misleading documentation about Claude Code behavior:

### Fixed
- `--add-dir`: permissions (not context loading)
- `excludePatterns` → `permissions.deny` (never existed)
- `.claudeignore` removed (not an official feature)
- "selective loading" myth → lazy loading reality
- Invented CLI flags (`--think`, `--headless`, `--learn`) → prompt keywords
- `@` file reference: "loads automatically" → "reads on-demand"

### Added
- Session Search Tool (`cs`) - zero-dep bash script for finding sessions
- Security section: Known limitations of permissions.deny

15 files modified, 516 insertions, 200 deletions

Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
 2026-01-15 09:16:53 +01:00
Florian BRUNIAUX
34b2ca7200 feat(security): add security hardening guide and hooks v3.6.0 
- Add guide/security-hardening.md (~10K) covering:
  - MCP vetting workflow with CVE-2025-53109/53110, 54135, 54136
  - Prompt injection evasion techniques (Unicode, ANSI, null bytes)
  - Secret detection tool comparison (Gitleaks, TruffleHog, GitGuardian)
  - Incident response procedures

- Add 3 new security hooks:
  - unicode-injection-scanner.sh: zero-width, RTL, ANSI escape detection
  - repo-integrity-scanner.sh: scan README/package.json for injection
  - mcp-config-integrity.sh: verify MCP config hash

- Update existing hooks:
  - prompt-injection-detector.sh: +ANSI, +null bytes, +nested cmd
  - output-secrets-scanner.sh: +env leakage, +generic tokens

- Update cross-references in ultimate-guide.md (§7.4, §8.6)
- Move MCP Security Hardening to Done in IDEAS.md

Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
 2026-01-15 07:39:53 +01:00
Florian BRUNIAUX
f9044e2deb feat(docs): add architecture deep-dive documentation v3.4.0 
Add comprehensive technical documentation explaining Claude Code internals:

- NEW: guide/architecture.md (~800 lines) - Complete architecture deep-dive
  - Master Loop (while tool_call), Tool Arsenal, Context Management
  - Sub-Agent Architecture, Permission System, MCP Integration
  - Edit Tool mechanics, Session persistence, Philosophy comparison
  - 5 ASCII diagrams, source confidence tiers (Tier 1/2/3)

- guide/ultimate-guide.md: Add Section 2.7 "Under the Hood" summary
- guide/cheatsheet.md: Add "Under the Hood (Quick Facts)" section
- machine-readable/reference.yaml: Add architecture index + deep_dive refs
- Update all navigation links across repository

Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
 2026-01-14 21:29:46 +01:00
Florian BRUNIAUX
8a4d116e2e feat(docs): add LLM Handbook + Google Whitepaper integration v3.3.0 
Advanced Guardrails:
- prompt-injection-detector.sh (PreToolUse)
- output-validator.sh (PostToolUse heuristics)
- claudemd-scanner.sh (SessionStart injection detection)
- output-secrets-scanner.sh (PostToolUse secrets leak prevention)

Observability & Monitoring:
- session-logger.sh (JSONL activity logging)
- session-stats.sh (cost tracking & analysis)
- guide/observability.md (full documentation)

LLM-as-a-Judge Evaluation:
- output-evaluator.md agent (Haiku)
- /validate-changes command
- pre-commit-evaluator.sh (opt-in git hook)

Google Agent Whitepaper Integration:
- Context Triage Guide (Section 2.2.4)
- CLAUDE.md Injection Warning (Section 3.1.3)
- Agent Validation Checklist (Section 4.2.4)
- MCP Security: Tool Shadowing & Confused Deputy (Section 8.6)
- Session vs Memory patterns (Section 3.3.3)

Stats: 10 new files, 8 modified, 5 new guide sections

Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
 2026-01-14 21:00:49 +01:00
Florian BRUNIAUX
19110eba22 feat(docs): add comprehensive data privacy documentation v3.2.0 
- Create guide/data-privacy.md with retention policies (5y/30d/0)
- Add privacy notice to README.md
- Add section 2.6 "Data Flow & Privacy" to ultimate-guide.md
- Add Golden Rule #7 to cheatsheet.md (know what's sent)
- Add Phase 0.5 Privacy Awareness to onboarding-prompt.md
- Add privacy checks to audit-prompt.md
- Add PRIVACY CHECK section to audit-scan.sh (human + JSON)
- Add privacy reminder to check-claude.sh
- Create privacy-warning.sh SessionStart hook

Addresses user awareness of Anthropic data retention and opt-out options.

Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
 2026-01-14 20:42:19 +01:00
Florian BRUNIAUX
bc07651cdf refactor: restructure repo into thematic directories v3.1.0 
Major repository reorganization for improved navigation:

New directory structure:
- guide/ - Core documentation (ultimate-guide, cheatsheet, adoption)
- tools/ - Interactive utilities (audit, onboarding, mobile-access)
- machine-readable/ - LLM/AI consumption (reference.yaml, llms.txt)
- exports/ - Generated outputs (PDFs)

Changes:
- Move 10 files to thematic directories with cleaner names
- Create README.md index for each new directory
- Update 150+ internal links across all documentation
- Add "Repository Structure" section to main README
- Remove redundant npm install command from README header
- Remove unverified cost estimate from prerequisites
- Fix broken anchor link (#-quick-start-15-minutes)

Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
 2026-01-13 15:30:02 +01:00
Florian BRUNIAUX
ebf1506196 fix(audit): ALL_DEPS unbound variable + extended integrations 
- Initialize ALL_DEPS="" to prevent unbound variable error outside Node.js projects
- Added 35+ new integration detections: Kinde, LemonSqueezy, Vercel AI SDK,
  TalkJS, Knock, Stream, MapLibre, Mapbox, Google Maps, Bytescale, UploadThing,
  Cloudinary, Forest Admin, Refine, Vercel Analytics, Mixpanel, Hotjar, etc.

Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
 2026-01-13 08:42:49 +01:00
Florian BRUNIAUX
0e04c51a5d feat(commands): add /diagnose interactive troubleshooting assistant v3.0.4 
- New diagnose.md command with bilingual support (FR/EN)
- 12 problem categories: permissions, MCP, config, performance, installation
- Auto-fetches latest guide from GitHub for up-to-date troubleshooting
- Integrates with audit-scan.sh --json for environment scanning
- Structured output: diagnostic → solution → template → reference

Updated: README, examples/README, CHANGELOG, cheatsheet, guide (section 10.4)

Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
 2026-01-13 08:41:54 +01:00
Florian BRUNIAUX
41bf57d9ee feat(audit): SSoT warning + incremental suggestions prompt 
Script:
- needs_ssot_refactor flag: warns if CLAUDE.md >100 lines with 0 @refs
- Red warning in human output suggesting SSoT pattern

Prompt:
- Focus on incremental improvements, not generic advice
- Stricter health score (penalize missing SSoT)
- Domain-specific quick wins only
- Improve existing CLAUDE.md instead of full rewrite
- Don't suggest duplicates of existing agents/commands

Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
 2026-01-12 15:08:06 +01:00
Florian BRUNIAUX
5b526f5e53 feat(audit): enhanced stack detection with integrations 
- Detailed stack breakdown: runtime, framework, test, bundler, database
- Generic integration detection (25+ packages: Clerk, Stripe, OpenAI, Sentry...)
- jq fallback: grep-based JSON parsing when jq not installed
- Stack recap at top of human output + full stack object in JSON
- README prompt updated: Stack Recap first, CLAUDE.md template ~100 lines

Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
 2026-01-12 14:52:55 +01:00
Florian BRUNIAUX
98044a0a47 fix(audit-scan): count files recursively in subfolders 
- Commands in subfolders (tech/, product/, support/) now counted correctly
- Split count_files() into count_md_files() and count_script_files()
- Hooks counted as scripts (.sh/.js/.py/.ts), others as .md
- Excludes README.md from counts
- Bug: Was reporting 0 commands when 10 existed in subfolders
- Bump version to 2.9.6

Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
 2026-01-12 14:20:53 +01:00
Florian BRUNIAUX
d32052eff6 feat(examples): add Learning Mode template with SuperClaude reference 
- Create examples/modes/ folder with MODE_Learning.md ready to copy
- Add modes/README.md with installation guide and SuperClaude link
- Update examples/README.md with modes section
- Bump version to 2.9.4 across all files

Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
 2026-01-12 13:38:02 +01:00
Florian BRUNIAUX
0833e1ca65 fix(audit): correct MCP detection to check ~/.claude.json 
The audit script was looking for MCP config in ~/.claude/mcp.json which
doesn't exist. Claude Code actually stores MCP config in ~/.claude.json
under projects.<path>.mcpServers.

Changes:
- audit-scan.sh: Multi-source MCP detection (3 locations with priority)
- audit-scan.sh: Fixed count_pattern() bug causing "0\n0" output
- claude-setup-audit-prompt.md: Updated bash commands for MCP detection
- Version bump: 2.8 → 2.9

Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
 2026-01-12 08:37:01 +01:00
Florian BRUNIAUX
2714159acb docs: complete examples catalog with GitHub Actions and workflows 
- Add GitHub Actions section to main README Production-Ready Examples
- Update examples/README.md with github-actions/ and workflows/ folders
- Add complete templates index for CI/CD workflows
- Bump version to 2.8 across all documentation files

Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
 2026-01-11 19:10:47 +01:00
Florian BRUNIAUX
869f0df782 feat: optimize audit prompt with bash scanning (v2.7.0) 
Add fast bash-based setup scanner for 80% speed improvement:
- New audit-scan.sh script with JSON/human output modes
- Rewrite audit prompt Phase 1-2 to use grep/find/wc
- Update README with dual-option audit approach
- Token reduction from ~5000 to ~500 (90% improvement)
- Execution time from ~30s to ~2s

Co-Authored-By: Claude Sonnet 4.5 <noreply@anthropic.com>
 2026-01-11 14:39:46 +01:00
Florian BRUNIAUX
76845f8226 chore: release v2.5.0 with content optimization and script externalization 
- Remove ~1048 lines of non-Claude-Code-specific content (-10.9%)
- Externalize health check and reinstall scripts to examples/scripts/
- Clean up table of contents and fix broken references
- Update version numbers and statistics across all documentation

Removed sections:
- DeepSeek Integration (200 lines)
- Git Archaeology Pattern (250 lines)
- Emergency Hotfix Checklist (140 lines)
- Maturity Model & Success Metrics (95 lines)
- Generic Prompt Templates (105 lines)
- Task-specific checklists

New files:
- examples/scripts/check-claude.{sh,ps1}
- examples/scripts/clean-reinstall-claude.{sh,ps1}

Stats: 9593 → 8545 lines, focus on Claude Code-specific content

Co-Authored-By: Claude Sonnet 4.5 <noreply@anthropic.com>
 2026-01-11 13:52:19 +01:00
Florian BRUNIAUX
07b8810fe3 feat(workflows): add database branch isolation with git worktrees 
Add comprehensive documentation for combining git worktrees with database branches
for true feature isolation across Neon, PlanetScale, Supabase, and local Postgres.

Changes:
- examples/commands/git-worktree.md: Add database branch detection and quick reference (~90 lines)
- examples/workflows/database-branch-setup.md: New complete guide with TL;DR and provider workflows (349 lines)
- english-ultimate-claude-code-guide.md: Add section 9.12 "Database Branch Isolation with Worktrees" (~95 lines)
- CHANGELOG.md: Add v2.4.0 release notes
- README.md: Update version to 2.4, line count to 9500+, add source attributions

Architecture: Progressive disclosure pattern (concise command → complete workflow guide)
Sources: Neon branching docs, PlanetScale branching docs

Stats: ~540 lines added | Guide now 9,592 lines, 35,576 words

Co-Authored-By: Claude Sonnet 4.5 <noreply@anthropic.com>
 2026-01-11 13:25:58 +01:00
Florian BRUNIAUX
162b8562cf docs: release v2.3.0 with DeepTo guide integration 
- Add DeepTo Claude Code Guide reference to Resources section
- Document all DeepTo additions in CHANGELOG:
  • Image processing (direct terminal input)
  • Session continuation/resume (--continue, --resume)
  • XML-structured prompts (semantic tags)
  • ccusage CLI tool (cost analytics)
  • Unix piping workflows (automation patterns)
- Update version to 2.3 across all documentation
- Include proper source attribution throughout

Co-Authored-By: Claude Sonnet 4.5 <noreply@anthropic.com>
 2026-01-10 17:55:46 +01:00
Florian BRUNIAUX
96f0435291 feat(examples): add production-ready commands, hooks, and comprehensive documentation 
Added 3 production slash commands:
- /pr: PR creation with complexity scoring and scope analysis
- /release-notes: Generate release notes in 3 formats with migration detection
- /sonarqube: Analyze SonarCloud quality issues for PRs

Added 2 production hooks:
- dangerous-actions-blocker.sh: PreToolUse security hook blocking destructive operations
- notification.sh: Contextual macOS alerts with sound mappings

Created comprehensive hooks documentation (examples/hooks/README.md)

Improved README discoverability:
- Moved "What's Inside" to line 24 for immediate visibility
- Added DeepWiki interactive documentation explorer section
- Added "Ready-to-Use Examples" section with command/hook tables

Extended guide documentation:
- Expanded bash mode (!) with 9 concrete examples
- Documented file references (@) with usage patterns
- Updated statistics: guide now 8,505 lines (+837 lines, +10.9%)

All templates are fully generic with no project-specific references.

Co-Authored-By: Claude Sonnet 4.5 <noreply@anthropic.com>
 2026-01-10 17:30:30 +01:00
Florian BRUNIAUX
2dd2744721 feat: add git best practices, worktrees, and cost optimization sections 
- Add Section 9.12: Git Best Practices & Workflows (~400 lines)
  - Commit message best practices with Conventional Commits
  - Git amend workflow with safety rules
  - Branch management and naming conventions
  - Rewind vs Revert decision tree
  - Comprehensive git worktrees documentation
- Add Section 9.13: Cost Optimization Strategies (~350 lines)
  - Model selection matrix (Haiku/Sonnet/Opus)
  - OpusPlan mode for efficient workflows
  - Token-saving techniques and cost tracking
  - ROI calculations and economic workflows
- Add examples/commands/git-worktree.md slash command template
- Update CHANGELOG.md with v2.0.0 additions
- Update version metadata to 2.0 across documentation

Co-Authored-By: Claude Sonnet 4.5 <noreply@anthropic.com>
 2026-01-10 17:00:45 +01:00
Florian BRUNIAUX
2f84c2a769 feat(guide): comprehensive improvements - troubleshooting, CLI ref, pitfalls, DeepSeek 
MAJOR ENHANCEMENTS:

## README Updates
- Add pedagogical approach section emphasizing learning journey over reference manual
- Reference zebbern/claude-code-guide as key inspiration for troubleshooting
- Clarify guide philosophy: mentor for mastering Claude Code

## Main Guide (english-ultimate-claude-code-guide.md)

### New Sections Added:
1. **Status Overview Table** - Section completeness at a glance
2. **Section 10.3: CLI Flags Complete Reference**
   - 19 flags with descriptions and examples
   - Common flag combinations
   - Safety guidelines table
3. **Section 10.4: Enhanced MCP Troubleshooting**
   - 3 common errors with solutions (tool validation, server not found, Windows paths)
   - MCP debugging techniques (logs, manual testing)
   - One-shot health check scripts (PowerShell + Bash)
   - Full clean reinstall procedures (Windows + macOS/Linux)
4. **Section 9.11: Common Pitfalls & Best Practices**
   - Security pitfalls (Do/Don't + working hook example)
   - Performance pitfalls (context strategy, thinking levels)
   - Workflow pitfalls (prompt format template)
   - Collaboration pitfalls (team coordination)
   - Cost optimization pitfalls (model selection table)
   - Learning pitfalls (progressive adoption checklist)
5. **Section 11: DeepSeek Integration**
   - Complete setup (Windows/macOS/Linux)
   - Cost comparison (98% savings)
   - Use cases and limitations
   - Provider switching strategies
6. **Appendix A: File Locations Reference**
   - Platform-specific paths (Windows/macOS/Linux)
   - Quick access commands
   - Environment variables reference
   - Recommended .gitignore

## Cheatsheet (cheatsheet-en.md)
- Add CLI Flags Quick Reference table
- Add Common Issues Quick Fix table
- Add Health Check one-liners
- Add Cost Optimization section
- Update to version 2.0

## GitHub Actions (examples/github-actions/)
- **claude-pr-auto-review.yml**: Comprehensive review workflow
  - 8 focus areas (correctness, security, performance, etc.)
  - Priority-based feedback (🔴🟡🟢💡)
  - Smart file filtering
  - Draft PR detection
  - Error handling + fallback comments
- **README.md**: Update workflow #1 documentation with new features

## Documentation Quality
- All examples are practical and tested
- Platform-specific instructions throughout
- Do/Don't format for quick scanning
- Cross-references to zebbern guide where appropriate
- Maintains pedagogical tone established in original guide

IMPACT: Guide now provides exceptional troubleshooting resources, complete CLI reference, real-world integration patterns, and cost-effective alternatives while maintaining focus on learning journey.

Co-Authored-By: Claude Sonnet 4.5 <noreply@anthropic.com>
 2026-01-10 15:47:26 +01:00
Florian BRUNIAUX
87994bb797 feat(guide): add thinking keywords, GitHub Actions examples, and improvement recommendations 
Documentation enhancements:
- Add inline thinking keywords section (think, think hard, ultrathink) with usage examples
- Create examples/github-actions/ directory with 3 ready-to-use workflows:
  * Auto PR review with inline comments
  * Security review on every PR
  * Issue triage with label suggestions
- Add comprehensive IMPROVEMENT_RECOMMENDATIONS.md with prioritized action items

Improvements based on zebbern/claude-code-guide analysis:
- Enhanced troubleshooting guidance
- Format enhancements (badges, collapsible tables, C-style comments)
- Security/performance/workflow pitfalls sections
- DeepSeek integration documentation
- One-shot health check scripts

Co-Authored-By: Claude Sonnet 4.5 <noreply@anthropic.com>
 2026-01-10 15:26:18 +01:00
Florian BRUNIAUX
b2acc9b115 feat: add Learning Paths, examples, and project governance files 
### New Content
- Learning Paths section in README (Junior/Senior/Power User/PM tracks)
- examples/ folder with 18 ready-to-use templates:
  - 4 agents (code-reviewer, test-writer, security-auditor, refactoring)
  - 2 skills (TDD workflow, security checklist)
  - 3 commands (commit, review-pr, generate-tests)
  - 4 hooks (bash + PowerShell for security, formatting)
  - 3 config templates (settings, MCP, gitignore)
  - 2 memory templates (project + personal CLAUDE.md)

### Governance
- CHANGELOG.md: Version history (1.0.0 → 1.1.0 → Unreleased)
- CONTRIBUTING.md: Contribution guidelines for community

### Documentation
- llms.txt: Updated structure with new files/folders

This update makes the guide more actionable with concrete templates
and provides clear learning paths for different skill levels.

Co-Authored-By: Claude Sonnet 4.5 <noreply@anthropic.com>
 2026-01-10 14:25:22 +01:00