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# Directory Structure

```
├── .actrc
├── .gitattributes
├── .github
│   └── workflows
│       ├── ci.yml
│       ├── mcp-compliance.yml
│       └── pr-validation.yml
├── .gitignore
├── agent.md
├── assets
│   └── logo.png
├── CLAUDE.md
├── config
│   └── framework-state.json
├── docs
│   ├── architecture.md
│   ├── chain-modification-examples.md
│   ├── contributing.md
│   ├── enhanced-gate-system.md
│   ├── execution-architecture-guide.md
│   ├── installation-guide.md
│   ├── mcp-tool-usage-guide.md
│   ├── mcp-tools-reference.md
│   ├── prompt-format-guide.md
│   ├── prompt-management.md
│   ├── prompt-vs-template-guide.md
│   ├── README.md
│   ├── template-development-guide.md
│   ├── TODO.md
│   ├── troubleshooting.md
│   └── version-history.md
├── LICENSE
├── local-test.sh
├── plans
│   ├── nunjucks-dynamic-chain-orchestration.md
│   ├── outputschema-realtime-progress-and-validation.md
│   ├── parallel-conditional-execution-analysis.md
│   ├── sqlite-storage-migration.md
│   └── symbolic-command-language-implementation.md
├── README.md
├── scripts
│   ├── setup-windows-testing.sh
│   ├── test_server.js
│   ├── test-all-platforms.sh
│   └── windows-tests
│       ├── test-windows-paths.js
│       ├── test-windows-startup.sh
│       └── windows-env.sh
└── server
    ├── config
    │   ├── framework-state.json
    │   └── tool-descriptions.json
    ├── config.json
    ├── jest.config.cjs
    ├── LICENSE
    ├── package-lock.json
    ├── package.json
    ├── prompts
    │   ├── analysis
    │   │   ├── advanced_analysis_engine.md
    │   │   ├── content_analysis.md
    │   │   ├── deep_analysis.md
    │   │   ├── deep_research.md
    │   │   ├── markdown_notebook.md
    │   │   ├── note_integration.md
    │   │   ├── note_refinement.md
    │   │   ├── notes.md
    │   │   ├── progressive_research.md
    │   │   ├── prompts.json
    │   │   ├── query_refinement.md
    │   │   └── review.md
    │   ├── architecture
    │   │   ├── prompts.json
    │   │   └── strategic-system-alignment.md
    │   ├── content_processing
    │   │   ├── format_enhancement.md
    │   │   ├── noteIntegration.md
    │   │   ├── obsidian_metadata_optimizer.md
    │   │   ├── prompts.json
    │   │   ├── vault_related_notes_finder.md
    │   │   └── video_notes_enhanced.md
    │   ├── debugging
    │   │   ├── analyze_logs.md
    │   │   └── prompts.json
    │   ├── development
    │   │   ├── analyze_code_structure.md
    │   │   ├── analyze_file_structure.md
    │   │   ├── code_review_optimization_chain.md
    │   │   ├── component_flow_analysis.md
    │   │   ├── create_modularization_plan.md
    │   │   ├── detect_code_issues.md
    │   │   ├── detect_project_commands.md
    │   │   ├── expert_code_implementation.md
    │   │   ├── generate_comprehensive_claude_md.md
    │   │   ├── prompts.json
    │   │   ├── strategicImplement.md
    │   │   ├── suggest_code_improvements.md
    │   │   └── transform_code_to_modules.md
    │   ├── documentation
    │   │   ├── create_docs_chain.md
    │   │   ├── docs-content-creation.md
    │   │   ├── docs-content-planning.md
    │   │   ├── docs-final-assembly.md
    │   │   ├── docs-project-analysis.md
    │   │   ├── docs-review-refinement.md
    │   │   └── prompts.json
    │   ├── education
    │   │   ├── prompts.json
    │   │   └── vault_integrated_notes.md
    │   ├── general
    │   │   ├── diagnose.md
    │   │   └── prompts.json
    │   ├── promptsConfig.json
    │   └── testing
    │       ├── final_verification_test.md
    │       └── prompts.json
    ├── README.md
    ├── scripts
    │   └── validate-dependencies.js
    ├── src
    │   ├── api
    │   │   └── index.ts
    │   ├── chain-session
    │   │   └── manager.ts
    │   ├── config
    │   │   └── index.ts
    │   ├── Dockerfile
    │   ├── execution
    │   │   ├── context
    │   │   │   ├── context-resolver.ts
    │   │   │   ├── framework-injector.ts
    │   │   │   └── index.ts
    │   │   ├── index.ts
    │   │   ├── parsers
    │   │   │   ├── argument-parser.ts
    │   │   │   ├── index.ts
    │   │   │   └── unified-command-parser.ts
    │   │   └── types.ts
    │   ├── frameworks
    │   │   ├── framework-manager.ts
    │   │   ├── framework-state-manager.ts
    │   │   ├── index.ts
    │   │   ├── integration
    │   │   │   ├── framework-semantic-integration.ts
    │   │   │   └── index.ts
    │   │   ├── methodology
    │   │   │   ├── guides
    │   │   │   │   ├── 5w1h-guide.ts
    │   │   │   │   ├── cageerf-guide.ts
    │   │   │   │   ├── react-guide.ts
    │   │   │   │   └── scamper-guide.ts
    │   │   │   ├── index.ts
    │   │   │   ├── interfaces.ts
    │   │   │   └── registry.ts
    │   │   ├── prompt-guidance
    │   │   │   ├── index.ts
    │   │   │   ├── methodology-tracker.ts
    │   │   │   ├── service.ts
    │   │   │   ├── system-prompt-injector.ts
    │   │   │   └── template-enhancer.ts
    │   │   └── types
    │   │       ├── index.ts
    │   │       ├── integration-types.ts
    │   │       ├── methodology-types.ts
    │   │       └── prompt-guidance-types.ts
    │   ├── gates
    │   │   ├── constants.ts
    │   │   ├── core
    │   │   │   ├── gate-definitions.ts
    │   │   │   ├── gate-loader.ts
    │   │   │   ├── gate-validator.ts
    │   │   │   ├── index.ts
    │   │   │   └── temporary-gate-registry.ts
    │   │   ├── definitions
    │   │   │   ├── code-quality.json
    │   │   │   ├── content-structure.json
    │   │   │   ├── educational-clarity.json
    │   │   │   ├── framework-compliance.json
    │   │   │   ├── research-quality.json
    │   │   │   ├── security-awareness.json
    │   │   │   └── technical-accuracy.json
    │   │   ├── gate-state-manager.ts
    │   │   ├── guidance
    │   │   │   ├── FrameworkGuidanceFilter.ts
    │   │   │   └── GateGuidanceRenderer.ts
    │   │   ├── index.ts
    │   │   ├── intelligence
    │   │   │   ├── GatePerformanceAnalyzer.ts
    │   │   │   └── GateSelectionEngine.ts
    │   │   ├── templates
    │   │   │   ├── code_quality_validation.md
    │   │   │   ├── educational_clarity_validation.md
    │   │   │   ├── framework_compliance_validation.md
    │   │   │   ├── research_self_validation.md
    │   │   │   ├── security_validation.md
    │   │   │   ├── structure_validation.md
    │   │   │   └── technical_accuracy_validation.md
    │   │   └── types.ts
    │   ├── index.ts
    │   ├── logging
    │   │   └── index.ts
    │   ├── mcp-tools
    │   │   ├── config-utils.ts
    │   │   ├── constants.ts
    │   │   ├── index.ts
    │   │   ├── prompt-engine
    │   │   │   ├── core
    │   │   │   │   ├── engine.ts
    │   │   │   │   ├── executor.ts
    │   │   │   │   ├── index.ts
    │   │   │   │   └── types.ts
    │   │   │   ├── index.ts
    │   │   │   ├── processors
    │   │   │   │   ├── response-formatter.ts
    │   │   │   │   └── template-processor.ts
    │   │   │   └── utils
    │   │   │       ├── category-extractor.ts
    │   │   │       ├── classification.ts
    │   │   │       ├── context-builder.ts
    │   │   │       └── validation.ts
    │   │   ├── prompt-manager
    │   │   │   ├── analysis
    │   │   │   │   ├── comparison-engine.ts
    │   │   │   │   ├── gate-analyzer.ts
    │   │   │   │   └── prompt-analyzer.ts
    │   │   │   ├── core
    │   │   │   │   ├── index.ts
    │   │   │   │   ├── manager.ts
    │   │   │   │   └── types.ts
    │   │   │   ├── index.ts
    │   │   │   ├── operations
    │   │   │   │   └── file-operations.ts
    │   │   │   ├── search
    │   │   │   │   ├── filter-parser.ts
    │   │   │   │   └── prompt-matcher.ts
    │   │   │   └── utils
    │   │   │       ├── category-manager.ts
    │   │   │       └── validation.ts
    │   │   ├── shared
    │   │   │   └── structured-response-builder.ts
    │   │   ├── system-control.ts
    │   │   ├── tool-description-manager.ts
    │   │   └── types
    │   │       └── shared-types.ts
    │   ├── metrics
    │   │   ├── analytics-service.ts
    │   │   ├── index.ts
    │   │   └── types.ts
    │   ├── performance
    │   │   ├── index.ts
    │   │   └── monitor.ts
    │   ├── prompts
    │   │   ├── category-manager.ts
    │   │   ├── converter.ts
    │   │   ├── file-observer.ts
    │   │   ├── hot-reload-manager.ts
    │   │   ├── index.ts
    │   │   ├── loader.ts
    │   │   ├── promptUtils.ts
    │   │   ├── registry.ts
    │   │   └── types.ts
    │   ├── runtime
    │   │   ├── application.ts
    │   │   └── startup.ts
    │   ├── semantic
    │   │   ├── configurable-semantic-analyzer.ts
    │   │   └── integrations
    │   │       ├── index.ts
    │   │       └── llm-clients.ts
    │   ├── server
    │   │   ├── index.ts
    │   │   └── transport
    │   │       └── index.ts
    │   ├── smithery.yaml
    │   ├── text-references
    │   │   ├── conversation.ts
    │   │   └── index.ts
    │   ├── types
    │   │   └── index.ts
    │   ├── types.ts
    │   └── utils
    │       ├── chainUtils.ts
    │       ├── errorHandling.ts
    │       ├── global-resource-tracker.ts
    │       ├── index.ts
    │       └── jsonUtils.ts
    ├── tests
    │   ├── ci-startup-validation.js
    │   ├── enhanced-validation
    │   │   ├── contract-validation
    │   │   │   ├── contract-test-suite.js
    │   │   │   ├── interface-contracts.js
    │   │   │   └── interface-contracts.ts
    │   │   ├── environment-validation
    │   │   │   ├── environment-parity-checker.js
    │   │   │   └── environment-test-suite.js
    │   │   ├── lifecycle-validation
    │   │   │   ├── lifecycle-test-suite.js
    │   │   │   └── process-lifecycle-validator.js
    │   │   └── validation-orchestrator.js
    │   ├── helpers
    │   │   └── test-helpers.js
    │   ├── integration
    │   │   ├── mcp-tools.test.ts
    │   │   ├── server-startup.test.ts
    │   │   └── unified-parsing-integration.test.ts
    │   ├── performance
    │   │   ├── parsing-system-benchmark.test.ts
    │   │   └── server-performance.test.ts
    │   ├── scripts
    │   │   ├── consolidated-tools.js
    │   │   ├── establish-performance-baselines.js
    │   │   ├── functional-mcp-validation.js
    │   │   ├── integration-mcp-tools.js
    │   │   ├── integration-routing-system.js
    │   │   ├── integration-server-startup.js
    │   │   ├── integration-unified-parsing.js
    │   │   ├── methodology-guides.js
    │   │   ├── performance-memory.js
    │   │   ├── runtime-integration.js
    │   │   ├── unit-conversation-manager.js
    │   │   ├── unit-semantic-analyzer.js
    │   │   └── unit-unified-parsing.js
    │   ├── setup.ts
    │   ├── test-enhanced-parsing.js
    │   └── unit
    │       ├── conversation-manager.test.ts
    │       ├── semantic-analyzer-three-tier.test.ts
    │       └── unified-parsing-system.test.ts
    ├── tsconfig.json
    └── tsconfig.test.json
```

# Files

--------------------------------------------------------------------------------
/server/prompts/content_processing/vault_related_notes_finder.md:
--------------------------------------------------------------------------------

```markdown
 1 | # Vault Related Notes Finder
 2 | 
 3 | ## Description
 4 | Searches vault for actual related notes using content analysis and glob/grep patterns to find real cross-references
 5 | 
 6 | ## System Message
 7 | You are an expert assistant providing structured, systematic analysis. Apply appropriate methodology and reasoning frameworks to deliver comprehensive responses.
 8 | 
 9 | ## User Message Template
10 | Search the vault for actual related notes to: {{note_topic}}
11 | 
12 | Current note content areas: {{content_areas}}
13 | Vault root path: {{vault_path}}
14 | 
15 | Execute systematic vault search to find real related notes:
16 | 
17 | **PHASE 1: Semantic Search Strategy**
18 | - Extract key concepts, terminology, and domain keywords from note content
19 | - Identify parent domains (e.g., for typography: art, design, visual_communication)
20 | - Map related disciplines and cross-domain connections
21 | 
22 | **PHASE 2: Vault Structure Analysis**
23 | - Use Glob patterns to explore relevant directory structures
24 | - Search for MOCs (Maps of Content) in related domains  
25 | - Identify hub notes and navigation centers
26 | 
27 | **PHASE 3: Content Discovery**
28 | - Use Grep with key terminology to find actual related content
29 | - Search for complementary topics and techniques
30 | - Find case studies, examples, and practical applications
31 | 
32 | **PHASE 4: Relationship Validation**
33 | - Verify found notes actually relate to the topic
34 | - Read key sections to confirm relevance
35 | - Prioritize direct relationships over tangential connections
36 | 
37 | **PHASE 5: Strategic Link Selection**
38 | - Select 3-5 most relevant and valuable related notes
39 | - Prioritize: MOCs > Fundamental concepts > Practical applications > Case studies
40 | - Format as proper [[WikiLinks]] with existing file names
41 | 
42 | **Output Requirements:**
43 | 1. List actual file paths found in vault
44 | 2. Briefly explain relevance of each related note
45 | 3. Provide final Related Notes section with 3-5 [[WikiLinks]]
46 | 4. Ensure all links point to real existing files in vault
47 | 
```

--------------------------------------------------------------------------------
/server/prompts/documentation/docs-content-planning.md:
--------------------------------------------------------------------------------

```markdown
 1 | # Content Planning (Step 2 of 5)
 2 | 
 3 | ## Description
 4 | Create a detailed content plan and structure for the documentation
 5 | 
 6 | ## System Message
 7 | [System Info: You are a documentation architect who specializes in creating detailed content plans for technical documentation. Your goal is to create a comprehensive outline that ensures all critical information is covered in a logical, user-friendly structure.]
 8 | 
 9 | ## User Message Template
10 | Based on the project analysis:
11 | {{previous_message}}
12 | 
13 | I need to create a detailed content plan for {{doc_type}} documentation targeting {{audience}}.
14 | 
15 | Please develop a comprehensive documentation plan that includes:
16 | 
17 | 1. A detailed table of contents with all main sections and subsections organized in a logical progression
18 | 2. For each section, specify:
19 |    - Key information to cover
20 |    - Recommended depth of technical detail based on audience needs
21 |    - Specific examples, diagrams, or code snippets to include
22 |    - Estimated length/importance of each section
23 | 
24 | 3. A recommended documentation structure that follows these best practices:
25 |    - Progressive disclosure (basic concepts before advanced ones)
26 |    - Logical grouping of related topics
27 |    - Clear navigation paths for different user journeys
28 |    - Appropriate cross-referencing between related sections
29 | 
30 | 4. Special considerations for:
31 |    - Getting started/quickstart content for new users
32 |    - Troubleshooting sections for common issues
33 |    - Reference materials vs. conceptual explanations vs. tutorials
34 |    - Version-specific information (if applicable)
35 | 
36 | 5. Documentation metadata and supporting elements:
37 |    - Necessary disclaimers, prerequisites, or system requirements
38 |    - Glossary terms that should be defined
39 |    - Additional resources or external references to include
40 | 
41 | Please organize this content plan with clear headings and provide enough detail that it could serve as a comprehensive blueprint for creating the actual documentation.
42 | 
```

--------------------------------------------------------------------------------
/server/prompts/documentation/docs-final-assembly.md:
--------------------------------------------------------------------------------

```markdown
 1 | # Final Assembly (Step 5 of 5)
 2 | 
 3 | ## Description
 4 | Create the final, production-ready version of the documentation
 5 | 
 6 | ## System Message
 7 | [System Info: You are a documentation finalizer who specializes in preparing polished, production-ready technical documentation. Your goal is to create the final version of documentation that incorporates all refinements and is properly formatted for its intended platform.]
 8 | 
 9 | ## User Message Template
10 | I have documentation content that has been reviewed with suggestions for improvement:
11 | {{previous_message}}
12 | 
13 | For this documentation type: {{doc_type}}
14 | For this target audience: {{audience}}
15 | {% if depth_level %}At this depth level: {{depth_level}}{% endif %}
16 | 
17 | Please create the final, production-ready version of this documentation by:
18 | 
19 | 1. Incorporating all suggested refinements and improvements
20 | 2. Ensuring perfect formatting using proper Markdown (or specified format)
21 | 3. Adding appropriate front matter and metadata:
22 |    - Title and description
23 |    - Table of contents
24 |    - Version information
25 |    - Author/contributor information
26 |    - Last updated date
27 |    - Appropriate license information
28 | 
29 | 4. Including these essential documentation elements:
30 |    - Informative introduction that establishes purpose and scope
31 |    - Clear navigation structure with logical content progression
32 |    - Proper heading hierarchy and section organization
33 |    - Consistent formatting of code blocks, notes, warnings, etc.
34 |    - Complete table of contents with working anchor links
35 | 
36 | 5. Final organization optimizations:
37 |    - Ensuring related information is grouped together
38 |    - Breaking very long sections into more digestible chunks
39 |    - Adding "See also" sections where appropriate
40 |    - Including a glossary for technical terms if needed
41 | 
42 | Please deliver the complete, final documentation in properly formatted Markdown that could be published immediately. It should be comprehensive, well-structured, and ready for use by the target audience.
43 | 
```

--------------------------------------------------------------------------------
/server/src/gates/templates/code_quality_validation.md:
--------------------------------------------------------------------------------

```markdown
 1 | # Code Quality Self-Check Template
 2 | 
 3 | ## Instructions
 4 | Evaluate the code you've generated against industry best practices and quality standards.
 5 | 
 6 | ## Code Quality Criteria
 7 | 
 8 | ### Error Handling & Robustness
 9 | - [ ] **Error Handling**: Includes appropriate try-catch blocks or error handling
10 | - [ ] **Input Validation**: Validates inputs and handles edge cases
11 | - [ ] **Boundary Conditions**: Considers boundary conditions and null/undefined cases
12 | - [ ] **Graceful Degradation**: Fails gracefully with meaningful error messages
13 | 
14 | ### Code Structure & Readability
15 | - [ ] **Clear Naming**: Uses descriptive, consistent naming conventions
16 | - [ ] **Comments**: Includes inline comments for complex logic
17 | - [ ] **Function Size**: Functions are focused and reasonably sized
18 | - [ ] **Code Organization**: Well-structured and logically organized
19 | 
20 | ### Best Practices
21 | - [ ] **Security**: Follows security best practices (no hardcoded secrets, input sanitization)
22 | - [ ] **Performance**: Considers performance implications
23 | - [ ] **Maintainability**: Easy to understand and modify
24 | - [ ] **Documentation**: Includes basic function documentation/docstrings
25 | 
26 | ### Code Quality Indicators
27 | - [ ] **No TODO/FIXME**: No placeholder comments or incomplete code
28 | - [ ] **Consistent Style**: Follows consistent coding style
29 | - [ ] **Modern Patterns**: Uses appropriate modern language features
30 | - [ ] **Testing Ready**: Code structure supports testing
31 | 
32 | ## Self-Assessment
33 | 
34 | **Overall Code Quality Score (0.0-1.0): ___**
35 | 
36 | **Quality Breakdown:**
37 | - Error Handling: ___/10
38 | - Readability: ___/10
39 | - Security: ___/10
40 | - Maintainability: ___/10
41 | 
42 | **Code Review Notes:**
43 | [Describe the strengths and weaknesses of the generated code]
44 | 
45 | **Specific Improvements Needed:**
46 | [List concrete improvements if score < 0.8]
47 | 
48 | ## Validation Response
49 | 
50 | Based on your assessment:
51 | - **PASS** if score ≥ 0.8 and no critical security/error handling issues
52 | - **NEEDS_IMPROVEMENT** if score < 0.8 or has critical flaws
53 | 
54 | **Final Assessment: [PASS/NEEDS_IMPROVEMENT]**
```

--------------------------------------------------------------------------------
/server/src/gates/templates/structure_validation.md:
--------------------------------------------------------------------------------

```markdown
 1 | # Content Structure Self-Check Template
 2 | 
 3 | ## Instructions
 4 | Assess the organization, clarity, and structure of your content response.
 5 | 
 6 | ## Structure Quality Criteria
 7 | 
 8 | ### Organization & Flow
 9 | - [ ] **Clear Headings**: Uses appropriate headings (##, ###) to organize content
10 | - [ ] **Logical Sequence**: Information flows logically from introduction to conclusion
11 | - [ ] **Section Balance**: Sections are appropriately sized and balanced
12 | - [ ] **Smooth Transitions**: Good transitions between sections and ideas
13 | 
14 | ### Clarity & Readability
15 | - [ ] **List Usage**: Uses bullet points or numbered lists for clarity
16 | - [ ] **Paragraph Length**: Paragraphs are reasonably sized (3-5 sentences)
17 | - [ ] **Sentence Structure**: Varies sentence length and structure
18 | - [ ] **Technical Clarity**: Complex concepts are explained clearly
19 | 
20 | ### Content Enhancement
21 | - [ ] **Examples**: Includes relevant examples when explaining concepts
22 | - [ ] **Visual Elements**: Uses formatting (bold, italic, code blocks) appropriately
23 | - [ ] **Actionable Content**: Provides actionable insights or steps where relevant
24 | - [ ] **Summary/Conclusion**: Includes appropriate summary or next steps
25 | 
26 | ### Reader Experience
27 | - [ ] **Scannable**: Content is easy to scan and navigate
28 | - [ ] **Consistent Tone**: Maintains consistent tone and style throughout
29 | - [ ] **Appropriate Length**: Content length matches the complexity of the topic
30 | - [ ] **Engaging**: Content is engaging and maintains reader interest
31 | 
32 | ## Self-Assessment
33 | 
34 | **Overall Structure Quality Score (0.0-1.0): ___**
35 | 
36 | **Structure Breakdown:**
37 | - Organization: ___/10
38 | - Readability: ___/10
39 | - Clarity: ___/10
40 | - Reader Experience: ___/10
41 | 
42 | **Structure Analysis:**
43 | [Evaluate how well the content is organized and presented]
44 | 
45 | **Missing Elements:**
46 | [Identify structural elements that could improve the content]
47 | 
48 | ## Validation Response
49 | 
50 | Assessment criteria:
51 | - **PASS** if score ≥ 0.7 and has clear headings/organization
52 | - **NEEDS_IMPROVEMENT** if score < 0.7 or lacks basic structure
53 | 
54 | **Final Assessment: [PASS/NEEDS_IMPROVEMENT]**
```

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/server/prompts/analysis/review.md:
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```markdown
 1 | # review
 2 | 
 3 | ## Description
 4 | Comprehensive audit template for modules, implementations, and system integrations
 5 | 
 6 | ## System Message
 7 | You are an expert system architect and code reviewer. Conduct thorough, evidence-based analysis. Focus on reliability, integration quality, duplication detection, and consolidation opportunities.
 8 | 
 9 | ## User Message Template
10 | Conduct a comprehensive audit of: {{target}}
11 | 
12 | ## Implementation Analysis
13 | 1. **Current Functionality**
14 |    - What is the current functionality and purpose?
15 |    - What are the implementation details and patterns used?
16 |    - What are the dependencies and interfaces?
17 | 
18 | 2. **Reliability Assessment**
19 |    - Is the functionality reliable and robust?
20 |    - Are there error handling gaps or edge cases?
21 |    - What are the failure modes and recovery mechanisms?
22 | 
23 | ## Integration Analysis
24 | 3. **Integration Mapping**
25 |    - Which modules/systems currently use this functionality?
26 |    - Are all required integration points properly hooked up?
27 |    - Are there missing integrations that should exist?
28 | 
29 | 4. **System Coordination**
30 |    - Does it integrate with the right system coordinators/conductors?
31 |    - Is the coordination pattern consistent with architecture?
32 |    - Are lifecycle management hooks properly implemented?
33 | 
34 | ## Duplication & Consolidation
35 | 5. **Duplication Detection**
36 |    - Are there duplicate implementations of similar functionality?
37 |    - Do multiple modules provide overlapping capabilities?
38 |    - What percentage of functionality is duplicated?
39 | 
40 | 6. **Consolidation Opportunities**
41 |    - Should these modules be consolidated?
42 |    - What would be the benefits and risks of consolidation?
43 |    - What is the migration complexity?
44 | 
45 | ## Recommendations
46 | 7. **Refactoring Assessment**
47 |    - Should the implementation be refactored?
48 |    - What specific improvements are recommended?
49 |    - What is the priority level (Critical/High/Medium/Low)?
50 | 
51 | 8. **Action Items**
52 |    - Prioritized list of recommended actions
53 |    - Risk assessment for each recommendation
54 |    - Success criteria for improvements
55 | 
56 | Provide evidence-based, actionable recommendations with specific file paths and line numbers where relevant.
57 | 
```

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/server/prompts/analysis/note_refinement.md:
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```markdown
 1 | # Note Refinement
 2 | 
 3 | ## Description
 4 | 
 5 | Refine existing notes by improving organization, flow, and clarity without adding or modifying the content.
 6 | 
 7 | ## User Message Template
 8 | 
 9 | Please refine and reorganize the following notes into a beautiful, well-structured reference page that will be easy to use in the future:
10 | 
11 | {{previous_message}}
12 | 
13 | Create a polished note page by following these specific refinement guidelines:
14 | 
15 | **STRUCTURE & ORGANIZATION:**
16 | 
17 | - Use clear hierarchical headings (# ## ### ####) to create logical sections
18 | - Organize content from general concepts to specific details
19 | - Group related information together under appropriate headings
20 | - Create a logical flow that builds understanding progressively
21 | 
22 | **VISUAL FORMATTING:**
23 | 
24 | - Use **bold** for key terms, concepts, and important points
25 | - Use _italics_ for emphasis and definitions
26 | - Apply consistent bullet points for lists and sub-points
27 | - Use numbered lists for processes, steps, or ordered information
28 | - Add horizontal rules (---) to separate major sections when needed
29 | 
30 | **CONTENT ENHANCEMENT:**
31 | 
32 | - Create a brief summary or overview at the beginning if the content is complex
33 | - Add "Key Takeaways" or "Important Points" sections where appropriate
34 | - Use blockquotes (>) for important quotes, definitions, or highlighted concepts
35 | - Ensure each section has a clear purpose and contribution to the overall topic
36 | 
37 | **READABILITY IMPROVEMENTS:**
38 | 
39 | - Break up large text blocks into digestible paragraphs
40 | - Use consistent formatting throughout the document
41 | - Ensure proper spacing between sections
42 | - Make the document scannable with clear visual hierarchy
43 | - Add context or brief explanations where connections might not be obvious
44 | 
45 | **REFERENCE OPTIMIZATION:**
46 | 
47 | - Structure the content so key information can be quickly located
48 | - Use descriptive section headings that clearly indicate content
49 | - Maintain all original information while improving presentation
50 | - Create a format that supports both quick reference and deeper reading
51 | 
52 | Transform the content into a professional, well-organized reference document that maintains all original information while dramatically improving usability and visual appeal.
53 | 
```

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/server/prompts/content_processing/video_notes_enhanced.md:
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```markdown
 1 | # Enhanced Video Notes Chain
 2 | 
 3 | ## Description
 4 | Comprehensive video processing chain including content analysis, visual extraction, vault integration, and note creation with proper formatting
 5 | 
 6 | ## User Message Template
 7 | Process video content into comprehensive vault-integrated notes with visual content extraction.
 8 | 
 9 | Video URL: {{video_url}}
10 | Topic: {{topic}}
11 | Content Areas: {{content_areas}}
12 | Video Duration: {{duration}}
13 | 
14 | This enhanced chain will:
15 | 1. **Analyze Content**: Extract key concepts and educational structure
16 | 2. **Extract Visuals**: Download relevant visual examples and integrate into notes
17 | 3. **Deep Analysis**: Apply ReACT methodology for insights and connections
18 | 4. **Create Notes**: Generate comprehensive markdown with proper formatting
19 | 5. **Vault Integration**: Find actual related notes in vault for cross-referencing
20 | 6. **Final Refinement**: Polish formatting and ensure S.P.A.R.C. compliance
21 | 
22 | The result will be a professionally formatted note with embedded visual examples, proper vault integration, and comprehensive educational content.
23 | 
24 | ## Chain Steps
25 | 
26 | 1. **Initial Content Analysis** (content_analysis)
27 |    - Input Mapping: {"content":"video_content"}
28 |    - Output Mapping: {"analysis_output":"content_analysis"}
29 | 
30 | 2. **Visual Content Extraction** (video_visual_extraction)
31 |    - Input Mapping: {"video_url":"video_url","topic":"topic","content_areas":"content_areas"}
32 |    - Output Mapping: {"visual_content":"extracted_visuals"}
33 | 
34 | 3. **Deep Analysis Integration** (deep_analysis)
35 |    - Input Mapping: {"content":"video_content","initial_analysis":"content_analysis"}
36 |    - Output Mapping: {"deep_analysis_output":"deep_insights"}
37 | 
38 | 4. **Comprehensive Note Creation** (markdown_notebook)
39 |    - Input Mapping: {"topic":"topic","analysis":"deep_insights"}
40 |    - Output Mapping: {"notebook_output":"structured_notes"}
41 | 
42 | 5. **Vault Integration** (vault_related_notes_finder)
43 |    - Input Mapping: {"note_topic":"topic","content_areas":"content_areas"}
44 |    - Output Mapping: {"related_notes":"vault_connections"}
45 | 
46 | 6. **Final Refinement** (note_refinement)
47 |    - Input Mapping: {"notes":"structured_notes"}
48 |    - Output Mapping: {"final_notes":"polished_output"}
49 | 
50 | 
```

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/server/src/frameworks/types/index.ts:
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```typescript
 1 | /**
 2 |  * Framework Types Index
 3 |  *
 4 |  * Consolidated export of all framework-related type definitions.
 5 |  * This replaces the distributed type definitions across multiple files
 6 |  * and provides a single source of truth for framework types.
 7 |  */
 8 | 
 9 | // Methodology guide types
10 | export type {
11 |   FrameworkMethodology,
12 |   FrameworkDefinition,
13 |   FrameworkExecutionContext,
14 |   FrameworkSelectionCriteria,
15 |   PromptCreationGuidance,
16 |   ProcessingGuidance,
17 |   StepGuidance,
18 |   MethodologyEnhancement,
19 |   ArgumentGuidance,
20 |   ProcessingStep,
21 |   ExecutionStep,
22 |   QualityGate,
23 |   TemplateEnhancement,
24 |   MethodologyToolDescription,
25 |   MethodologyToolDescriptions,
26 |   MethodologyValidation,
27 |   IMethodologyGuide
28 | } from './methodology-types.js';
29 | 
30 | export {
31 |   BaseMethodologyGuide
32 | } from './methodology-types.js';
33 | 
34 | // Prompt guidance types
35 | export type {
36 |   SystemPromptInjectionConfig,
37 |   SystemPromptInjectionResult,
38 |   TemplateEnhancementConfig,
39 |   TemplateEnhancementType,
40 |   TemplateEnhancementResult,
41 |   AppliedEnhancement,
42 |   MethodologyTrackingState,
43 |   MethodologySwitchRecord,
44 |   MethodologyStateChangeEvent,
45 |   PromptGuidanceConfig,
46 |   PromptGuidanceResult,
47 |   PromptGuidanceAnalytics,
48 |   FrameworkStateInfo,
49 |   IPromptGuidanceService,
50 |   // Phase 3 additions
51 |   MethodologyState,
52 |   MethodologySwitchRequest,
53 |   MethodologyHealth,
54 |   PersistedMethodologyState,
55 |   TemplateProcessingGuidance
56 | } from './prompt-guidance-types.js';
57 | 
58 | // Integration types
59 | export type {
60 |   IntegratedAnalysisResult,
61 |   FrameworkSwitchingConfig,
62 |   FrameworkAlignmentResult,
63 |   FrameworkUsageInsights,
64 |   FrameworkUsageMetrics,
65 |   FrameworkSwitchRecommendation,
66 |   MCPToolIntegrationContext,
67 |   MCPToolIntegrationResult,
68 |   SemanticIntegrationConfig,
69 |   CrossSystemIntegrationStatus,
70 |   IntegrationPerformanceMetrics,
71 |   IntegrationEvent,
72 |   IFrameworkSemanticIntegration,
73 |   IMCPToolIntegration,
74 |   SystemIntegrationConfig
75 | } from './integration-types.js';
76 | 
77 | // Legacy type aliases for backward compatibility during migration
78 | // These will be removed in Phase 4
79 | export type {
80 |   FrameworkDefinition as LegacyFrameworkDefinition,
81 |   FrameworkExecutionContext as LegacyFrameworkExecutionContext,
82 |   FrameworkSelectionCriteria as LegacyFrameworkSelectionCriteria
83 | } from './methodology-types.js';
```

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/server/src/gates/templates/security_validation.md:
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```markdown
 1 | # Security Validation Self-Check Template
 2 | 
 3 | ## Instructions
 4 | Evaluate the security aspects of your response, especially for code generation and technical content.
 5 | 
 6 | ## Security Assessment Criteria
 7 | 
 8 | ### Code Security (if applicable)
 9 | - [ ] **No Hardcoded Secrets**: Code does not contain hardcoded passwords, API keys, or tokens
10 | - [ ] **Input Validation**: All user inputs are properly validated and sanitized
11 | - [ ] **SQL Injection Prevention**: Uses parameterized queries or prepared statements
12 | - [ ] **Authentication**: Proper authentication mechanisms are implemented
13 | - [ ] **Authorization**: Appropriate access controls are in place
14 | - [ ] **HTTPS/TLS**: Secure communication protocols are used
15 | - [ ] **Error Handling**: Errors don't expose sensitive information
16 | 
17 | ### General Security Awareness
18 | - [ ] **OWASP Compliance**: Follows OWASP Top 10 security guidelines
19 | - [ ] **Rate Limiting**: API endpoints include rate limiting considerations
20 | - [ ] **Logging Security**: Security events are logged without exposing sensitive data
21 | - [ ] **Dependency Security**: Discusses keeping dependencies updated
22 | - [ ] **Principle of Least Privilege**: Access is limited to minimum necessary
23 | 
24 | ### Security Education
25 | - [ ] **Vulnerability Awareness**: Addresses potential security vulnerabilities
26 | - [ ] **Best Practices**: Includes security best practices and recommendations
27 | - [ ] **Risk Assessment**: Identifies and discusses security risks
28 | - [ ] **Mitigation Strategies**: Provides concrete security mitigation approaches
29 | 
30 | ## Self-Assessment
31 | 
32 | **Overall Security Score (0.0-1.0): ___**
33 | 
34 | **Security Breakdown:**
35 | - Code Security: ___/10
36 | - Awareness: ___/10
37 | - Education: ___/10
38 | - Best Practices: ___/10
39 | 
40 | **Security Review:**
41 | [Assess how well the response addresses security considerations]
42 | 
43 | **Identified Security Issues:**
44 | [List any potential security concerns or missing security considerations]
45 | 
46 | **Security Improvements Needed:**
47 | [Specific improvements if score < 0.85]
48 | 
49 | ## Validation Response
50 | 
51 | Security assessment criteria:
52 | - **PASS** if score ≥ 0.85 and no critical security issues identified
53 | - **NEEDS_IMPROVEMENT** if score < 0.85 or contains security vulnerabilities
54 | 
55 | **Final Assessment: [PASS/NEEDS_IMPROVEMENT]**
```

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/server/prompts/development/strategicImplement.md:
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```markdown
 1 | # Strategic Implementation
 2 | 
 3 | ## Description
 4 | Systematically implement a plan phase with architectural alignment, compatibility checking, and progress tracking
 5 | 
 6 | ## User Message Template
 7 | Strategically implement the following plan phase with systematic architectural alignment:
 8 | 
 9 | **Plan Document**: {{plan_path}}
10 | **Phase to Implement**: {{phase_identifier}}
11 | 
12 | ## Implementation Protocol
13 | 
14 | ### 1. Context Discovery & Analysis
15 | - Read and analyze the plan document thoroughly
16 | - Understand the phase objectives, requirements, and success criteria
17 | - Map dependencies and integration points with existing systems
18 | - Identify potential compatibility issues and risks
19 | 
20 | ### 2. Architectural Alignment
21 | - Review current system architecture for alignment points
22 | - Check interface compatibility with existing systems
23 | - Identify required changes to maintain consistency
24 | - Plan for backwards compatibility where needed
25 | 
26 | ### 3. Strategic Implementation
27 | - Implement changes incrementally with validation at each step
28 | - Follow established patterns and conventions from the codebase
29 | - Maintain existing functionality while adding new capabilities
30 | - Use appropriate design patterns (composition over inheritance, service patterns, etc.)
31 | 
32 | ### 4. Validation & Testing
33 | - Run typecheck to ensure TypeScript compliance
34 | - Execute relevant tests to verify functionality
35 | - Check for integration issues with dependent systems
36 | - Validate performance impact
37 | 
38 | ### 5. Progress Tracking
39 | - Update the plan document with implementation status
40 | - Mark completed tasks and note any deviations
41 | - Document decisions made during implementation
42 | - Record any blockers or issues encountered
43 | 
44 | ## Expected Outputs
45 | 
46 | 1. **Implementation**: Complete, tested code changes aligned with architecture
47 | 2. **Updated Plan**: Progress notes, completion status, and next steps
48 | 3. **Documentation**: Key decisions and any architectural changes
49 | 4. **Validation**: Test results and compatibility verification
50 | 
51 | Apply the following principles:
52 | - **Understand before changing**: Analyze existing code thoroughly
53 | - **Incremental progress**: Small, validated steps
54 | - **Maintain compatibility**: Preserve existing interfaces
55 | - **Follow patterns**: Use established architectural patterns
56 | - **Track progress**: Keep plan document current
57 | 
```

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/server/prompts/analysis/deep_analysis.md:
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```markdown
 1 | # Deep Analysis
 2 | 
 3 | ## Description
 4 | Expand on a previous analysis by diving deeper into information, identifying key insights and relationships.
 5 | 
 6 | ## System Message
 7 | You are an expert analyst specializing in deep content analysis and insight extraction. Your role is to build upon initial analysis to uncover deeper patterns, relationships, and implications that may not be immediately obvious.
 8 | 
 9 | ## User Message Template
10 | Based on the initial content analysis, please conduct a comprehensive deep analysis:
11 | 
12 | **Original Content:**
13 | {{content|default("No content provided")}}
14 | 
15 | **Initial Analysis Results:**
16 | {{initial_analysis|default("No previous analysis provided")}}
17 | 
18 | ## Deep Analysis Framework
19 | 
20 | Please provide a thorough deep analysis by examining:
21 | 
22 | ### 1. **Key Insights Identification**
23 | - Extract the most significant insights from the content
24 | - Identify patterns and trends that emerge
25 | - Highlight unexpected or counterintuitive findings
26 | 
27 | ### 2. **Relationship Mapping**
28 | - Identify connections between different concepts
29 | - Map cause-and-effect relationships
30 | - Uncover hidden dependencies and correlations
31 | 
32 | ### 3. **Contextual Analysis**
33 | - Place findings within broader context
34 | - Consider historical or comparative perspectives
35 | - Analyze implications for different stakeholders
36 | 
37 | ### 4. **Critical Evaluation**
38 | - Assess the reliability and significance of findings
39 | - Identify potential limitations or biases
40 | - Evaluate the strength of evidence presented
41 | 
42 | ### 5. **Strategic Implications**
43 | - Determine practical applications of insights
44 | - Identify actionable recommendations
45 | - Consider future implications and trends
46 | 
47 | ## Output Format
48 | 
49 | Structure your deep analysis as follows:
50 | 
51 | ```markdown
52 | # Deep Analysis Results
53 | 
54 | ## Executive Summary
55 | [2-3 sentences capturing the most critical insights]
56 | 
57 | ## Key Insights
58 | [Detailed findings with supporting evidence]
59 | 
60 | ## Relationship Networks
61 | [Connections and interdependencies identified]
62 | 
63 | ## Critical Assessment
64 | [Evaluation of findings and their reliability]
65 | 
66 | ## Strategic Implications
67 | [Actionable insights and recommendations]
68 | 
69 | ## Areas for Further Investigation
70 | [Questions or areas requiring additional research]
71 | ```
72 | 
73 | Please ensure your analysis goes beyond surface-level observations to provide genuine insights that add substantial value to the initial analysis.
```

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/server/prompts/documentation/docs-review-refinement.md:
--------------------------------------------------------------------------------

```markdown
 1 | # Review and Refinement (Step 4 of 5)
 2 | 
 3 | ## Description
 4 | Review the documentation for accuracy, clarity, completeness, and usability
 5 | 
 6 | ## System Message
 7 | [System Info: You are a documentation quality specialist who excels at reviewing and refining technical documentation. Your goal is to identify issues with clarity, completeness, accuracy, and usability, and to suggest specific improvements.]
 8 | 
 9 | ## User Message Template
10 | I've created initial documentation content:
11 | {{previous_message}}
12 | 
13 | For this documentation type: {{doc_type}}
14 | For this audience: {{audience}}
15 | {% if depth_level %}At this depth level: {{depth_level}}{% endif %}
16 | 
17 | Please perform a comprehensive review and refinement of this documentation, focusing on:
18 | 
19 | 1. Technical accuracy and precision
20 |    - Verify that technical explanations are correct and precise
21 |    - Check that code samples would actually work as described
22 |    - Ensure API references match expected behavior
23 |    - Confirm that terminology is used consistently and correctly
24 | 
25 | 2. Clarity and readability
26 |    - Identify overcomplicated explanations that could be simplified
27 |    - Find sections that need additional context or explanation
28 |    - Check for logical flow and clear progression of ideas
29 |    - Ensure headings accurately reflect section content
30 | 
31 | 3. Completeness and coverage
32 |    - Identify missing information or underdeveloped sections
33 |    - Check for edge cases or scenarios that aren't addressed
34 |    - Ensure prerequisites and dependencies are clearly stated
35 |    - Verify that all user questions are anticipated and answered
36 | 
37 | 4. Format and presentation
38 |    - Check for consistent formatting and style throughout
39 |    - Ensure proper use of Markdown or other formatting elements
40 |    - Verify that code blocks are properly formatted with syntax highlighting
41 |    - Check that diagrams and visuals are clear and properly referenced
42 | 
43 | 5. User experience improvements
44 |    - Suggest additional examples where they would be helpful
45 |    - Identify places where diagrams could clarify complex concepts
46 |    - Recommend improved navigation or cross-referencing
47 |    - Find opportunities for progressive disclosure of complex topics
48 | 
49 | Please provide your review with specific suggestions for improvement, categorized by issue type. For each issue, identify the location in the document, explain the problem, and suggest a specific improvement.
50 | 
```

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/server/src/gates/templates/educational_clarity_validation.md:
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```markdown
 1 | # Educational Clarity Self-Check Template
 2 | 
 3 | ## Instructions
 4 | Evaluate how effectively your response serves educational purposes and promotes understanding.
 5 | 
 6 | ## Educational Effectiveness Criteria
 7 | 
 8 | ### Learning Structure
 9 | - [ ] **Clear Objectives**: Learning goals or objectives are stated or implied
10 | - [ ] **Progressive Complexity**: Content moves from simple to complex concepts
11 | - [ ] **Logical Sequence**: Ideas flow in a logical, easy-to-follow order
12 | - [ ] **Clear Transitions**: Smooth transitions between concepts and sections
13 | - [ ] **Summary/Recap**: Includes summary or key takeaways
14 | 
15 | ### Clarity and Accessibility
16 | - [ ] **Plain Language**: Uses clear, jargon-free language when possible
17 | - [ ] **Defined Terms**: Technical terms are defined or explained
18 | - [ ] **Concrete Examples**: Abstract concepts supported with concrete examples
19 | - [ ] **Analogies/Metaphors**: Uses helpful analogies to aid understanding
20 | - [ ] **Visual Structure**: Well-organized with headers, lists, and formatting
21 | 
22 | ### Pedagogical Elements
23 | - [ ] **Step-by-Step**: Processes broken down into clear steps
24 | - [ ] **Practice Opportunities**: Includes exercises, questions, or applications
25 | - [ ] **Common Misconceptions**: Addresses potential misunderstandings
26 | - [ ] **Multiple Perspectives**: Presents information from different angles
27 | - [ ] **Real-World Applications**: Shows practical applications of concepts
28 | 
29 | ### Engagement and Understanding
30 | - [ ] **Reader Engagement**: Content maintains reader interest and attention
31 | - [ ] **Comprehension Checks**: Includes ways to verify understanding
32 | - [ ] **Appropriate Difficulty**: Content level matches intended audience
33 | - [ ] **Interactive Elements**: Encourages active learning and participation
34 | - [ ] **Motivational Context**: Explains why the information is valuable
35 | 
36 | ## Self-Assessment
37 | 
38 | **Overall Educational Clarity Score (0.0-1.0): ___**
39 | 
40 | **Educational Breakdown:**
41 | - Learning Structure: ___/10
42 | - Clarity/Accessibility: ___/10
43 | - Pedagogical Elements: ___/10
44 | - Engagement: ___/10
45 | 
46 | **Target Audience: [Beginner/Intermediate/Advanced]**
47 | 
48 | **Educational Effectiveness Review:**
49 | [Assess how well the content serves educational purposes]
50 | 
51 | **Learning Obstacles:**
52 | [Identify any barriers to understanding]
53 | 
54 | **Clarity Improvements Needed:**
55 | [Specific improvements if score < 0.8]
56 | 
57 | ## Validation Response
58 | 
59 | Educational clarity assessment:
60 | - **PASS** if score ≥ 0.8 and content effectively promotes learning
61 | - **NEEDS_IMPROVEMENT** if score < 0.8 or lacks educational structure
62 | 
63 | **Final Assessment: [PASS/NEEDS_IMPROVEMENT]**
```

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/server/src/gates/templates/technical_accuracy_validation.md:
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```markdown
 1 | # Technical Accuracy Self-Check Template
 2 | 
 3 | ## Instructions
 4 | Evaluate the technical correctness and precision of your response.
 5 | 
 6 | ## Technical Accuracy Criteria
 7 | 
 8 | ### Factual Correctness
 9 | - [ ] **Verified Facts**: Technical facts and specifications are accurate and verifiable
10 | - [ ] **Version Specificity**: Includes relevant version numbers and compatibility information
11 | - [ ] **Official Sources**: References official documentation when available
12 | - [ ] **Current Information**: Uses up-to-date technical information
13 | - [ ] **Precise Terminology**: Uses technical terms correctly and precisely
14 | 
15 | ### Technical Depth
16 | - [ ] **Implementation Details**: Provides accurate implementation details where relevant
17 | - [ ] **Error Handling**: Addresses error conditions and edge cases appropriately
18 | - [ ] **Performance Considerations**: Discusses performance implications accurately
19 | - [ ] **Best Practices**: Follows established technical best practices
20 | - [ ] **Code Correctness**: Code examples are syntactically correct and functional
21 | 
22 | ### Evidence and Support
23 | - [ ] **Documentation References**: Links to or mentions official documentation
24 | - [ ] **Standards Compliance**: Follows relevant technical standards (RFC, ISO, etc.)
25 | - [ ] **Testing Verification**: Code examples can be tested and verified
26 | - [ ] **Context Appropriate**: Technical level matches the intended audience
27 | - [ ] **Trade-off Analysis**: Discusses technical trade-offs and alternatives
28 | 
29 | ### Precision and Clarity
30 | - [ ] **Specific Details**: Avoids vague generalizations with concrete specifics
31 | - [ ] **Accurate Measurements**: Provides accurate performance metrics or specifications
32 | - [ ] **Clear Limitations**: Clearly states limitations and constraints
33 | - [ ] **Distinction Clarity**: Distinguishes between different technical concepts clearly
34 | 
35 | ## Self-Assessment
36 | 
37 | **Overall Technical Accuracy Score (0.0-1.0): ___**
38 | 
39 | **Technical Breakdown:**
40 | - Factual Correctness: ___/10
41 | - Technical Depth: ___/10
42 | - Evidence/Support: ___/10
43 | - Precision/Clarity: ___/10
44 | 
45 | **Technical Verification:**
46 | [Evaluate the accuracy and precision of technical content]
47 | 
48 | **Sources Consulted:**
49 | [List any official documentation or standards referenced]
50 | 
51 | **Areas Requiring Verification:**
52 | [Identify any technical claims that need additional verification if score < 0.8]
53 | 
54 | ## Validation Response
55 | 
56 | Technical accuracy assessment:
57 | - **PASS** if score ≥ 0.8 and all critical technical facts verified
58 | - **NEEDS_IMPROVEMENT** if score < 0.8 or contains unverified technical claims
59 | 
60 | **Final Assessment: [PASS/NEEDS_IMPROVEMENT]**
```

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/server/prompts/analysis/content_analysis.md:
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```markdown
 1 | # Content Analysis
 2 | 
 3 | ## Description
 4 | Systematically analyze web content, breaking it down into key components.
 5 | 
 6 | ## System Message
 7 | You are a content analysis expert. Follow the provided framework to systematically break down and analyze the given content.
 8 | 
 9 | ## User Message Template
10 | Perform a comprehensive content analysis of the following material:
11 | 
12 | {{content}}
13 | 
14 | **ANALYSIS FRAMEWORK - Execute each step systematically:**
15 | 
16 | ### 1. Initial Content Overview
17 | - **Content Type**: Identify the format and medium (article, video transcript, report, etc.)
18 | - **Source**: Note the origin and credibility indicators
19 | - **Length**: Approximate word count and reading time
20 | - **Date/Context**: When was this created and in what context?
21 | 
22 | ### 2. Structural Analysis
23 | - **Main Sections**: Break down the content into logical sections/chapters
24 | - **Argument Flow**: How does the content progress logically?
25 | - **Supporting Elements**: What evidence, examples, or data are used?
26 | - **Visual Elements**: Any charts, images, or multimedia components?
27 | 
28 | ### 3. Key Themes & Topics
29 | - **Primary Theme**: What is the main subject or thesis?
30 | - **Secondary Themes**: What supporting topics are covered?
31 | - **Keywords**: Extract the most important terms and concepts
32 | - **Tone & Style**: Formal, informal, persuasive, informative, etc.
33 | 
34 | ### 4. Critical Analysis
35 | - **Strengths**: What aspects are well-developed or compelling?
36 | - **Weaknesses**: What gaps, biases, or unclear areas exist?
37 | - **Evidence Quality**: How strong is the supporting evidence?
38 | - **Logical Consistency**: Are the arguments coherent and well-reasoned?
39 | 
40 | ### 5. Key Insights & Takeaways
41 | - **Main Messages**: What are the 3-5 most important points?
42 | - **Actionable Items**: What specific actions or recommendations are suggested?
43 | - **Implications**: What are the broader consequences or applications?
44 | - **Questions Raised**: What important questions does this content raise?
45 | 
46 | ### 6. Content Categorization
47 | - **Audience**: Who is the intended audience?
48 | - **Purpose**: What is the content trying to achieve?
49 | - **Genre/Category**: How would you classify this content?
50 | - **Complexity Level**: Beginner, intermediate, or advanced?
51 | 
52 | ### 7. Summary & Conclusion
53 | - **Executive Summary**: Provide a concise 2-3 sentence overview
54 | - **Key Quotes**: Extract 2-3 most significant quotes or statements
55 | - **Further Research**: What topics warrant additional investigation?
56 | - **Related Content**: What other materials would complement this?
57 | 
58 | **OUTPUT FORMAT**: Present your analysis in the above structured format with clear headings and bullet points for easy navigation and reference.
59 | 
```

--------------------------------------------------------------------------------
/server/prompts/development/code_review_optimization_chain.md:
--------------------------------------------------------------------------------

```markdown
 1 | # Comprehensive Code Review
 2 | 
 3 | ## Description
 4 | Systematic 6-step code review covering structure, functionality, security, performance, optimization, and quality assurance
 5 | 
 6 | ## System Message
 7 | You are an expert code reviewer providing systematic, comprehensive analysis. Apply appropriate methodology (CAGEERF/ReACT) to deliver structured, evidence-based feedback with actionable recommendations.
 8 | 
 9 | ## User Message Template
10 | # Comprehensive Code Review
11 | 
12 | **Target Code**: {{target_code}}
13 | **Language/Framework**: {{language_framework}}
14 | **Performance Goals**: {{performance_goals}}
15 | 
16 | This chain performs a systematic 6-step code review:
17 | 
18 | ## Step 1: Structure & Organization Analysis
19 | Analyze code architecture, organization, patterns, naming conventions, documentation, and dependency management.
20 | 
21 | **Output Required**: Structural assessment with identified patterns, coupling issues, and organization recommendations.
22 | 
23 | ---
24 | 
25 | ## Step 2: Functionality & Logic Review
26 | Examine business logic correctness, edge cases, error handling, input/output processing, and algorithm efficiency.
27 | 
28 | **Output Required**: Logic validation with edge case analysis, error handling assessment, and correctness verification.
29 | 
30 | ---
31 | 
32 | ## Step 3: Security & Best Practices Audit
33 | Review for security vulnerabilities: input validation, authentication/authorization, data exposure, injection risks, and framework-specific security patterns.
34 | 
35 | **Output Required**: Security assessment with vulnerability identification, risk levels, and mitigation strategies.
36 | 
37 | ---
38 | 
39 | ## Step 4: Performance Analysis
40 | Evaluate time complexity, memory usage, I/O efficiency, caching opportunities, and database query optimization.
41 | 
42 | **Output Required**: Performance metrics with complexity analysis, bottleneck identification, and optimization opportunities.
43 | 
44 | ---
45 | 
46 | ## Step 5: Optimization Implementation
47 | Apply identified optimizations: refactor algorithms, implement performance improvements, add caching, optimize data structures, reduce complexity.
48 | 
49 | **Output Required**: Optimized code with documented changes, performance improvements, and refactoring rationale.
50 | 
51 | ---
52 | 
53 | ## Step 6: Quality Assurance & Documentation
54 | Finalize with: code formatting consistency, test coverage analysis, documentation updates, performance benchmarking, and summary with metrics.
55 | 
56 | **Output Required**: Final review report with quality metrics, test coverage, performance benchmarks, and comprehensive summary.
57 | 
58 | ## Gate Configuration
59 | 
60 | ```json
61 | {
62 |   "include": [
63 |     "code-quality",
64 |     "research-quality",
65 |     "technical-accuracy",
66 |     "content-structure",
67 |     "security-awareness"
68 |   ],
69 |   "framework_gates": true
70 | }
71 | ```
72 | 
```

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/server/src/execution/parsers/index.ts:
--------------------------------------------------------------------------------

```typescript
 1 | /**
 2 |  * Execution Parsers Export Module
 3 |  * 
 4 |  * Centralizes all parsing infrastructure exports including:
 5 |  * - Unified Command Parser with multi-strategy parsing
 6 |  * - Argument Processing Pipeline with validation and enrichment
 7 |  * - Compatibility Wrapper for backward compatibility
 8 |  */
 9 | 
10 | // Core parsing infrastructure
11 | export {
12 |   UnifiedCommandParser,
13 |   createUnifiedCommandParser,
14 |   type CommandParseResult
15 | } from './unified-command-parser.js';
16 | 
17 | export {
18 |   ArgumentParser,
19 |   createArgumentParser,
20 |   type ArgumentParsingResult,
21 |   type ExecutionContext
22 | } from './argument-parser.js';
23 | 
24 | // Context resolution system
25 | export {
26 |   ContextResolver,
27 |   createContextResolver,
28 |   type ContextResolution,
29 |   type ContextProvider,
30 |   type ContextSource,
31 |   type ContextAggregationOptions
32 | } from '../context/context-resolver.js';
33 | 
34 | // Backward compatibility wrapper removed - migration completed
35 | // Legacy parsing methods are preserved through deprecated redirects in consolidated-prompt-engine.ts
36 | 
37 | // Re-export for convenience
38 | export type {
39 |   PromptData,
40 |   PromptArgument,
41 |   ConvertedPrompt
42 | } from '../../types/index.js';
43 | 
44 | export type {
45 |   ValidationResult,
46 |   ValidationError,
47 |   ValidationWarning
48 | } from '../types.js';
49 | 
50 | import { Logger } from "../../logging/index.js";
51 | import { UnifiedCommandParser, createUnifiedCommandParser } from "./unified-command-parser.js";
52 | import { ArgumentParser, createArgumentParser } from "./argument-parser.js";
53 | import { ContextResolver, createContextResolver } from "../context/context-resolver.js";
54 | 
55 | /**
56 |  * Complete parsing system with all components
57 |  */
58 | export interface ParsingSystem {
59 |   commandParser: UnifiedCommandParser;
60 |   argumentParser: ArgumentParser;
61 |   contextResolver: ContextResolver;
62 | }
63 | 
64 | /**
65 |  * Factory function to create complete parsing system
66 |  * 
67 |  * Creates a fully configured parsing system with:
68 |  * - Unified command parser with multi-strategy support
69 |  * - Argument processor with validation and type coercion
70 |  * - Context resolver with intelligent fallbacks
71 |  * 
72 |  * @param logger Logger instance for system-wide logging
73 |  * @returns Complete parsing system ready for use
74 |  */
75 | export function createParsingSystem(logger: Logger): ParsingSystem {
76 |   const commandParser = createUnifiedCommandParser(logger);
77 |   const argumentParser = createArgumentParser(logger);
78 |   const contextResolver = createContextResolver(logger);
79 | 
80 |   logger.info("Parsing system initialized successfully");
81 |   logger.info("- Unified command parser with multi-strategy support");
82 |   logger.info("- Argument parser with validation pipeline");
83 |   logger.info("- Context resolver with intelligent fallbacks");
84 | 
85 |   return {
86 |     commandParser,
87 |     argumentParser,
88 |     contextResolver
89 |   };
90 | }
```

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/server/prompts/analysis/deep_research.md:
--------------------------------------------------------------------------------

```markdown
 1 | # Deep Research Framework
 2 | 
 3 | ## Description
 4 | A comprehensive framework for conducting thorough, methodical research on complex topics with academic rigor.
 5 | 
 6 | ## System Message
 7 | You are a professional researcher with expertise in conducting comprehensive investigations. Your approach is methodical, thorough, and adheres to high standards of academic rigor and intellectual honesty. Help the user explore their topic with depth, nuance, and critical thinking.
 8 | 
 9 | ## User Message Template
10 | # Deep Research Framework
11 | 
12 | I need you to conduct deep research on {{topic}}. Approach this as a professional researcher would, with methodical analysis, critical thinking, and intellectual honesty.
13 | 
14 | ## Research Structure
15 | 
16 | 1. **Topic Exploration (Breadth)**
17 |    - Define the core concepts, terminology, and scope
18 |    - Map the key areas, sub-topics, and domains of knowledge
19 |    - Identify the major schools of thought and contrasting perspectives
20 |    - Establish historical context and evolution of understanding
21 | 
22 | 2. **Deep Dive Analysis (Depth)**
23 |    - Analyze the most significant developments, breakthroughs, or controversies
24 |    - Examine the methodologies, evidence, and reasoning behind key findings
25 |    - Identify gaps, limitations, or areas of ongoing debate
26 |    - Evaluate the credibility and reliability of different sources
27 | 
28 | 3. **Critical Synthesis**
29 |    - Draw connections between different areas of knowledge
30 |    - Synthesize findings to form a coherent understanding
31 |    - Identify patterns, trends, or emerging themes
32 |    - Form preliminary conclusions while acknowledging uncertainties
33 | 
34 | 4. **Research Quality & Rigor**
35 |    - Cite credible sources and evidence
36 |    - Acknowledge limitations and potential biases
37 |    - Present multiple perspectives fairly
38 |    - Maintain intellectual honesty about what is known vs. unknown
39 | 
40 | 5. **Future Directions**
41 |    - Identify promising areas for further investigation
42 |    - Suggest important questions that remain unanswered
43 |    - Outline potential practical applications or implications
44 | 
45 | ## Research Guidelines
46 | 
47 | - Prioritize academic sources, peer-reviewed research, and established authorities
48 | - Be transparent about the strength and limitations of evidence
49 | - Maintain objectivity while acknowledging inherent complexities
50 | - Structure information in a logical, accessible format
51 | - Include diverse perspectives and avoid tunnel vision
52 | 
53 | ## Output Format
54 | 
55 | Please structure your research in a comprehensive report that includes:
56 | - Executive summary of key findings
57 | - Detailed analysis organized by topic areas
58 | - Critical evaluation of sources and evidence
59 | - Synthesis of different perspectives
60 | - Identified gaps and future research directions
61 | - Bibliography or source references where applicable
62 | 
63 | Begin your research on: {{topic}}
64 | 
```

--------------------------------------------------------------------------------
/scripts/test_server.js:
--------------------------------------------------------------------------------

```javascript
 1 | #!/usr/bin/env node
 2 | 
 3 | // Simple test script to verify server startup
 4 | const { spawn } = require('child_process');
 5 | const path = require('path');
 6 | 
 7 | console.log('Testing MCP Server startup...');
 8 | 
 9 | const serverPath = path.join(__dirname, 'server', 'dist', 'index.js');
10 | console.log('Server path:', serverPath);
11 | 
12 | // Test 1: Check if server can show help
13 | console.log('\n=== Test 1: Help Command ===');
14 | const helpProcess = spawn('node', [serverPath, '--help'], {
15 |     stdio: 'pipe',
16 |     cwd: path.join(__dirname, 'server')
17 | });
18 | 
19 | let helpOutput = '';
20 | let helpError = '';
21 | 
22 | helpProcess.stdout.on('data', (data) => {
23 |     helpOutput += data.toString();
24 | });
25 | 
26 | helpProcess.stderr.on('data', (data) => {
27 |     helpError += data.toString();
28 | });
29 | 
30 | helpProcess.on('close', (code) => {
31 |     console.log(`Help command exit code: ${code}`);
32 |     if (helpOutput) {
33 |         console.log('Help output:', helpOutput.substring(0, 200) + '...');
34 |     }
35 |     if (helpError) {
36 |         console.log('Help stderr:', helpError);
37 |     }
38 |     
39 |     // Test 2: Try to start server with debug output (timeout after 5 seconds)
40 |     console.log('\n=== Test 2: Server Startup (5 second timeout) ===');
41 |     const startProcess = spawn('node', [serverPath, '--debug-startup'], {
42 |         stdio: 'pipe',
43 |         cwd: path.join(__dirname, 'server')
44 |     });
45 | 
46 |     let startOutput = '';
47 |     let startError = '';
48 | 
49 |     startProcess.stdout.on('data', (data) => {
50 |         startOutput += data.toString();
51 |     });
52 | 
53 |     startProcess.stderr.on('data', (data) => {
54 |         startError += data.toString();
55 |     });
56 | 
57 |     // Kill after 5 seconds
58 |     const timeout = setTimeout(() => {
59 |         console.log('Killing server after 5 seconds...');
60 |         startProcess.kill('SIGINT');
61 |     }, 5000);
62 | 
63 |     startProcess.on('close', (code) => {
64 |         clearTimeout(timeout);
65 |         console.log(`Server startup exit code: ${code}`);
66 |         if (startOutput) {
67 |             console.log('Server stdout:', startOutput);
68 |         }
69 |         if (startError) {
70 |             console.log('Server stderr:', startError);
71 |         }
72 |         
73 |         // Analyze results
74 |         console.log('\n=== Analysis ===');
75 |         const hasError = startError.includes('Error') || startError.includes('error');
76 |         const hasSuccess = startError.includes('successfully') || startOutput.includes('successfully');
77 |         
78 |         if (hasError) {
79 |             console.log('❌ Server startup had errors');
80 |         } else if (hasSuccess) {
81 |             console.log('✅ Server appears to start successfully');
82 |         } else {
83 |             console.log('⚠️  Server startup status unclear');
84 |         }
85 |     });
86 | 
87 |     startProcess.on('error', (error) => {
88 |         clearTimeout(timeout);
89 |         console.log('Server startup error:', error);
90 |     });
91 | });
92 | 
93 | helpProcess.on('error', (error) => {
94 |     console.log('Help command error:', error);
95 | });
```

--------------------------------------------------------------------------------
/server/src/gates/guidance/FrameworkGuidanceFilter.ts:
--------------------------------------------------------------------------------

```typescript
 1 | /**
 2 |  * Framework Guidance Filter - Pure Function Implementation
 3 |  *
 4 |  * Extracts framework-specific guidance from multi-framework guidance text.
 5 |  * This is a pure function with no dependencies for maximum reusability.
 6 |  */
 7 | 
 8 | /**
 9 |  * Filter guidance text to show only the specified framework's guidance
10 |  *
11 |  * @param guidance - Original guidance text (may contain multiple frameworks)
12 |  * @param activeFramework - Framework to filter for (e.g., 'ReACT', 'CAGEERF')
13 |  * @returns Filtered guidance showing only the active framework's content
14 |  */
15 | export function filterFrameworkGuidance(guidance: string, activeFramework: string): string {
16 |   // Parse the guidance to extract only the relevant framework section
17 |   const lines = guidance.split('\n');
18 |   const filteredLines: string[] = [];
19 |   let foundRelevantSection = false;
20 | 
21 |   for (const line of lines) {
22 |     // Check if this line contains framework-specific guidance
23 |     if (line.includes(`- ${activeFramework}:`)) {
24 |       foundRelevantSection = true;
25 |       filteredLines.push(line);
26 |     } else if (line.startsWith('- ') && (line.includes('CAGEERF:') || line.includes('ReACT:') || line.includes('5W1H:') || line.includes('SCAMPER:'))) {
27 |       // Skip other framework-specific lines
28 |       foundRelevantSection = false;
29 |       continue;
30 |     } else if (!line.startsWith('- ') || foundRelevantSection) {
31 |       // Include general guidance lines and continuation lines
32 |       filteredLines.push(line);
33 |     }
34 |   }
35 | 
36 |   // If we found framework-specific guidance, use filtered version
37 |   if (filteredLines.some(line => line.includes(`- ${activeFramework}:`))) {
38 |     let result = filteredLines.join('\n');
39 | 
40 |     // Clean up the framework-specific line to be more concise
41 |     result = result.replace(`- ${activeFramework}: `, `**${activeFramework} Methodology Guidelines:**\n- `);
42 | 
43 |     return result;
44 |   }
45 | 
46 |   // Fallback to original guidance if no framework-specific section found
47 |   return guidance;
48 | }
49 | 
50 | /**
51 |  * Check if guidance text contains framework-specific content
52 |  *
53 |  * @param guidance - Guidance text to analyze
54 |  * @returns true if guidance contains framework-specific sections
55 |  */
56 | export function hasFrameworkSpecificContent(guidance: string): boolean {
57 |   const frameworkPatterns = ['CAGEERF:', 'ReACT:', '5W1H:', 'SCAMPER:'];
58 |   return frameworkPatterns.some(pattern => guidance.includes(pattern));
59 | }
60 | 
61 | /**
62 |  * Get list of frameworks mentioned in guidance text
63 |  *
64 |  * @param guidance - Guidance text to analyze
65 |  * @returns Array of framework names found in the guidance
66 |  */
67 | export function getFrameworksInGuidance(guidance: string): string[] {
68 |   const frameworkPatterns = [
69 |     { name: 'CAGEERF', pattern: 'CAGEERF:' },
70 |     { name: 'ReACT', pattern: 'ReACT:' },
71 |     { name: '5W1H', pattern: '5W1H:' },
72 |     { name: 'SCAMPER', pattern: 'SCAMPER:' }
73 |   ];
74 | 
75 |   return frameworkPatterns
76 |     .filter(fw => guidance.includes(fw.pattern))
77 |     .map(fw => fw.name);
78 | }
```

--------------------------------------------------------------------------------
/server/tests/test-enhanced-parsing.js:
--------------------------------------------------------------------------------

```javascript
 1 | #!/usr/bin/env node
 2 | 
 3 | /**
 4 |  * Quick test script to verify enhanced chain step parsing with gate support
 5 |  */
 6 | 
 7 | import { createLogger } from "../dist/logging/index.js";
 8 | import { PromptLoader } from "../dist/prompts/loader.js";
 9 | 
10 | async function testEnhancedParsing() {
11 |   console.log("🧪 Testing Enhanced Chain Step Parsing with Gate Support...\n");
12 | 
13 |   const logger = createLogger({ level: "info" });
14 |   const loader = new PromptLoader(logger);
15 | 
16 |   try {
17 |     // Test parsing the enhanced notes.md file
18 |     const result = await loader.loadPromptFile(
19 |       "analysis/notes.md",
20 |       "/home/minipuft/Applications/claude-prompts-mcp/server/prompts"
21 |     );
22 | 
23 |     console.log("✅ Successfully parsed notes.md");
24 |     console.log(`📋 Found ${result.chainSteps?.length || 0} chain steps`);
25 | 
26 |     if (result.chainSteps) {
27 |       console.log("\n📊 Chain Steps Analysis:");
28 |       result.chainSteps.forEach((step, index) => {
29 |         console.log(`\n  Step ${index + 1}:`);
30 |         console.log(`    - promptId: ${step.promptId}`);
31 |         console.log(`    - stepName: ${step.stepName}`);
32 |         console.log(
33 |           `    - gates: ${step.gates ? JSON.stringify(step.gates) : "none"}`
34 |         );
35 |         console.log(
36 |           `    - inputMapping: ${
37 |             Object.keys(step.inputMapping || {}).length
38 |           } inputs`
39 |         );
40 |         console.log(
41 |           `    - outputMapping: ${
42 |             Object.keys(step.outputMapping || {}).length
43 |           } outputs`
44 |         );
45 |       });
46 | 
47 |       // Verify expected gates
48 |       const step1Gates = result.chainSteps[0]?.gates || [];
49 |       const step2Gates = result.chainSteps[1]?.gates || [];
50 |       const step3Gates = result.chainSteps[2]?.gates || [];
51 |       const step4Gates = result.chainSteps[3]?.gates || [];
52 | 
53 |       console.log("\n🔍 Gate Configuration Verification:");
54 |       console.log(
55 |         `  Step 1 gates: ${JSON.stringify(step1Gates)} ${
56 |           step1Gates.includes("research-quality") ? "✅" : "❌"
57 |         }`
58 |       );
59 |       console.log(
60 |         `  Step 2 gates: ${JSON.stringify(step2Gates)} ${
61 |           step2Gates.includes("research-quality") ? "✅" : "❌"
62 |         }`
63 |       );
64 |       console.log(
65 |         `  Step 3 gates: ${JSON.stringify(step3Gates)} ${
66 |           step3Gates.includes("content-structure") ? "✅" : "❌"
67 |         }`
68 |       );
69 |       console.log(
70 |         `  Step 4 gates: ${JSON.stringify(step4Gates)} ${
71 |           step4Gates.includes("content-structure") ? "✅" : "❌"
72 |         }`
73 |       );
74 | 
75 |       const allCorrect =
76 |         step1Gates.includes("research-quality") &&
77 |         step2Gates.includes("research-quality") &&
78 |         step3Gates.includes("content-structure") &&
79 |         step4Gates.includes("content-structure");
80 | 
81 |       console.log(
82 |         `\n🎯 Gate Configuration: ${
83 |           allCorrect ? "✅ ALL CORRECT" : "❌ NEEDS ATTENTION"
84 |         }`
85 |       );
86 |     }
87 | 
88 |     console.log("\n✅ Enhanced parsing test completed successfully!");
89 |   } catch (error) {
90 |     console.error("❌ Test failed:", error);
91 |     process.exit(1);
92 |   }
93 | }
94 | 
95 | testEnhancedParsing();
96 | 
```

--------------------------------------------------------------------------------
/server/src/gates/templates/framework_compliance_validation.md:
--------------------------------------------------------------------------------

```markdown
 1 | # Framework Methodology Compliance Self-Check Template
 2 | 
 3 | ## Instructions
 4 | Evaluate how well your response follows the active framework methodology principles.
 5 | 
 6 | ## Framework-Specific Criteria
 7 | 
 8 | ### CAGEERF Framework
 9 | - [ ] **Context**: Establishes clear context and background information
10 | - [ ] **Analysis**: Provides systematic analysis of the situation/problem
11 | - [ ] **Goals**: Defines clear goals and objectives
12 | - [ ] **Execution**: Shows concrete execution steps or implementation
13 | - [ ] **Evaluation**: Includes evaluation criteria and assessment methods
14 | - [ ] **Refinement**: Demonstrates iterative improvement and refinement
15 | - [ ] **Framework**: Shows framework-aware systematic thinking
16 | 
17 | ### ReACT Framework
18 | - [ ] **Reasoning**: Shows clear reasoning and thought processes
19 | - [ ] **Acting**: Demonstrates concrete actions and implementations
20 | - [ ] **Observation**: Includes observation of results and outcomes
21 | - [ ] **Adjustment**: Shows ability to adjust based on observations
22 | - [ ] **Systematic Approach**: Uses systematic problem-solving methodology
23 | - [ ] **Iterative Process**: Demonstrates iterative reasoning-action cycles
24 | 
25 | ### 5W1H Framework
26 | - [ ] **Who**: Addresses who is involved or affected
27 | - [ ] **What**: Clearly defines what is being done or analyzed
28 | - [ ] **When**: Includes timing and scheduling considerations
29 | - [ ] **Where**: Addresses location or context considerations
30 | - [ ] **Why**: Explains reasoning and rationale
31 | - [ ] **How**: Provides detailed methodology and approach
32 | 
33 | ### SCAMPER Framework
34 | - [ ] **Substitute**: Considers what can be substituted
35 | - [ ] **Combine**: Explores combination possibilities
36 | - [ ] **Adapt**: Shows adaptation strategies
37 | - [ ] **Modify**: Identifies modification opportunities
38 | - [ ] **Put to Other Uses**: Explores alternative applications
39 | - [ ] **Eliminate**: Considers what can be eliminated
40 | - [ ] **Reverse**: Examines reverse approaches
41 | 
42 | ## General Framework Compliance
43 | - [ ] **Systematic Structure**: Follows systematic methodology structure
44 | - [ ] **Comprehensive Coverage**: Addresses all relevant framework aspects
45 | - [ ] **Logical Flow**: Maintains logical progression through framework elements
46 | - [ ] **Methodology Awareness**: Shows understanding of framework principles
47 | - [ ] **Practical Application**: Applies framework meaningfully to the content
48 | 
49 | ## Self-Assessment
50 | 
51 | **Overall Framework Compliance Score (0.0-1.0): ___**
52 | 
53 | **Framework Analysis:**
54 | - Structure Adherence: ___/10
55 | - Completeness: ___/10
56 | - Methodology Understanding: ___/10
57 | - Practical Application: ___/10
58 | 
59 | **Active Framework: [CAGEERF/ReACT/5W1H/SCAMPER]**
60 | 
61 | **Framework Compliance Review:**
62 | [Evaluate how well the response follows framework principles]
63 | 
64 | **Missing Framework Elements:**
65 | [Identify any framework components not adequately addressed if score < 0.75]
66 | 
67 | ## Validation Response
68 | 
69 | Framework compliance assessment:
70 | - **PASS** if score ≥ 0.75 and systematic methodology is evident
71 | - **NEEDS_IMPROVEMENT** if score < 0.75 or lacks framework structure
72 | 
73 | **Final Assessment: [PASS/NEEDS_IMPROVEMENT]**
```

--------------------------------------------------------------------------------
/server/prompts/documentation/create_docs_chain.md:
--------------------------------------------------------------------------------

```markdown
 1 | # Documentation Generation Chain
 2 | 
 3 | ## Description
 4 | A comprehensive chain for creating high-quality technical documentation with proper structure, formatting, and best practices
 5 | 
 6 | ## System Message
 7 | [System Info: You are a documentation expert who guides users through the process of creating comprehensive, high-quality technical documentation. Your goal is to help them understand what goes into excellent documentation and to facilitate the creation of documentation that follows best practices.]
 8 | 
 9 | ## User Message Template
10 | I need to create documentation for: {{project_info}}
11 | 
12 | Documentation type required: {{doc_type}}
13 | Target audience: {{audience}}
14 | {% if depth_level %}Desired depth level: {{depth_level}}{% else %}Desired depth level: intermediate{% endif %}
15 | 
16 | Please guide me through your systematic documentation generation process. I would like you to:
17 | 
18 | 1. Analyze my project to determine what needs to be documented and how
19 | 2. Create a detailed content plan with a logical structure
20 | 3. Generate the actual documentation content
21 | 4. Review and refine the documentation for clarity, accuracy, and completeness
22 | 5. Assemble the final documentation in a polished, production-ready format
23 | 
24 | At each step, please show your thinking and explain your recommendations. The final documentation should follow these technical documentation best practices:
25 | 
26 | - Well-structured with clear navigation
27 | - Appropriate detail level for the target audience
28 | - Consistent terminology and formatting
29 | - Comprehensive code examples where relevant
30 | - Clear explanations of complex concepts
31 | - Proper Markdown formatting for readability
32 | 
33 | Please execute this documentation creation process step by step, ensuring each phase builds upon the previous one to create cohesive, high-quality documentation.
34 | 
35 | ## Chain Steps
36 | 
37 | 1. promptId: docs-project-analysis
38 |    stepName: Project Analysis (Step 1 of 5)
39 |    inputMapping:
40 |      project_info: project_info
41 |      doc_type: doc_type
42 |      audience: audience
43 |      depth_level: depth_level
44 |    outputMapping:
45 | 
46 | 2. promptId: docs-content-planning
47 |    stepName: Content Planning (Step 2 of 5)
48 |    inputMapping:
49 |      previous_message: output:Project Analysis
50 |      doc_type: doc_type
51 |      audience: audience
52 |    outputMapping:
53 | 
54 | 3. promptId: docs-content-creation
55 |    stepName: Content Creation (Step 3 of 5)
56 |    inputMapping:
57 |      previous_message: output:Content Planning
58 |      doc_type: doc_type
59 |      project_info: project_info
60 |      audience: audience
61 |    outputMapping:
62 | 
63 | 4. promptId: docs-review-refinement
64 |    stepName: Review and Refinement (Step 4 of 5)
65 |    inputMapping:
66 |      previous_message: output:Content Creation
67 |      doc_type: doc_type
68 |      audience: audience
69 |      depth_level: depth_level
70 |    outputMapping:
71 | 
72 | 5. promptId: docs-final-assembly
73 |    stepName: Final Assembly (Step 5 of 5)
74 |    inputMapping:
75 |      previous_message: output:Review and Refinement
76 |      doc_type: doc_type
77 |      audience: audience
78 |      depth_level: depth_level
79 |    outputMapping:
80 | 
81 | ## Output Format
82 | 
83 | After completing all 5 steps in the chain, you will have a final output that:
84 | 
85 | 1. Is well-organized and clearly structured
86 | 2. Represents the culmination of the entire chain process
87 | 
88 | The final output will be the result of the last step in the chain.
89 | 
```

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/server/src/mcp-tools/prompt-manager/core/types.ts:
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```typescript
  1 | /**
  2 |  * Shared types and interfaces for prompt manager modules
  3 |  */
  4 | 
  5 | import { Logger } from "../../../logging/index.js";
  6 | import { ConfigManager } from "../../../config/index.js";
  7 | import {
  8 |   ToolResponse,
  9 |   ConvertedPrompt,
 10 |   PromptData,
 11 |   Category
 12 | } from "../../../types/index.js";
 13 | import { ContentAnalyzer } from "../../../semantic/configurable-semantic-analyzer.js";
 14 | import { FrameworkStateManager } from "../../../frameworks/framework-state-manager.js";
 15 | import { FrameworkManager } from "../../../frameworks/framework-manager.js";
 16 | 
 17 | /**
 18 |  * Prompt classification interface for management operations
 19 |  */
 20 | export interface PromptClassification {
 21 |   executionType: "prompt" | "template" | "chain";
 22 |   requiresExecution: boolean;
 23 |   requiresFramework: boolean;
 24 |   confidence: number;
 25 |   reasoning: string[];
 26 |   suggestedGates: string[];
 27 |   framework?: string;
 28 |   // Enhanced with configurable analysis information
 29 |   analysisMode?: string;
 30 |   capabilities?: {
 31 |     canDetectStructure: boolean;
 32 |     canAnalyzeComplexity: boolean;
 33 |     canRecommendFramework: boolean;
 34 |     hasSemanticUnderstanding: boolean;
 35 |   };
 36 |   limitations?: string[];
 37 |   warnings?: string[];
 38 | }
 39 | 
 40 | /**
 41 |  * Analysis result with feedback and suggestions
 42 |  */
 43 | export interface AnalysisResult {
 44 |   classification: PromptClassification;
 45 |   feedback: string;
 46 |   suggestions: string[];
 47 | }
 48 | 
 49 | /**
 50 |  * Smart filter criteria for prompt discovery
 51 |  */
 52 | export interface SmartFilters {
 53 |   text?: string;
 54 |   type?: string;
 55 |   category?: string;
 56 |   confidence?: { min?: number; max?: number };
 57 |   execution?: boolean;
 58 |   gates?: boolean;
 59 |   intent?: string;
 60 | }
 61 | 
 62 | /**
 63 |  * Dependencies required by all prompt manager modules
 64 |  */
 65 | export interface PromptManagerDependencies {
 66 |   logger: Logger;
 67 |   mcpServer: any;
 68 |   configManager: ConfigManager;
 69 |   semanticAnalyzer: ContentAnalyzer;
 70 |   frameworkStateManager?: FrameworkStateManager;
 71 |   frameworkManager?: FrameworkManager;
 72 |   onRefresh: () => Promise<void>;
 73 |   onRestart: (reason: string) => Promise<void>;
 74 | }
 75 | 
 76 | /**
 77 |  * Data references shared across modules
 78 |  */
 79 | export interface PromptManagerData {
 80 |   promptsData: PromptData[];
 81 |   convertedPrompts: ConvertedPrompt[];
 82 |   categories: Category[];
 83 | }
 84 | 
 85 | /**
 86 |  * Common operation result interface
 87 |  */
 88 | export interface OperationResult {
 89 |   message: string;
 90 |   affectedFiles?: string[];
 91 |   metadata?: any;
 92 | }
 93 | 
 94 | /**
 95 |  * Validation error details
 96 |  */
 97 | export interface ValidationContext {
 98 |   operation: string;
 99 |   requiredFields: string[];
100 |   providedFields: string[];
101 | }
102 | 
103 | /**
104 |  * Category management result
105 |  */
106 | export interface CategoryResult {
107 |   effectiveCategory: string;
108 |   created: boolean;
109 | }
110 | 
111 | /**
112 |  * File operation result
113 |  */
114 | export interface FileOperationResult {
115 |   exists: boolean;
116 |   path?: string;
117 |   metadata?: any;
118 | }
119 | 
120 | /**
121 |  * Dependency analysis result
122 |  */
123 | export interface DependencyAnalysis {
124 |   dependencies: ConvertedPrompt[];
125 |   risks: string[];
126 |   warnings: string[];
127 | }
128 | 
129 | /**
130 |  * Migration operation result
131 |  */
132 | export interface MigrationResult {
133 |   fromType: string;
134 |   toType: string;
135 |   changes: string[];
136 |   result: ToolResponse;
137 | }
138 | 
139 | /**
140 |  * Base interface for all modular components
141 |  */
142 | export interface PromptManagerModule {
143 |   /**
144 |    * Update data references
145 |    */
146 |   updateData?(data: PromptManagerData): void;
147 | 
148 |   /**
149 |    * Set framework state manager
150 |    */
151 |   setFrameworkStateManager?(frameworkStateManager: FrameworkStateManager): void;
152 | 
153 |   /**
154 |    * Set framework manager
155 |    */
156 |   setFrameworkManager?(frameworkManager: FrameworkManager): void;
157 | }
```

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/server/prompts/development/detect_project_commands.md:
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```markdown
  1 | # Project Commands Detection
  2 | 
  3 | ## Description
  4 | 
  5 | Intelligently detects and configures project validation commands (lint, test, build) for different project types
  6 | 
  7 | ## System Message
  8 | 
  9 | You are an expert assistant providing structured, systematic analysis. Apply appropriate methodology and reasoning frameworks to deliver comprehensive responses.
 10 | 
 11 | ## User Message Template
 12 | 
 13 | # Project Commands Detection for
 14 | 
 15 | ## Objective
 16 | 
 17 | Analyze the project at `{{ project_path }}` (type: `{{ project_type }}`) to detect and configure validation commands for validation checkpoint system.
 18 | 
 19 | ## Command Detection Strategy
 20 | 
 21 | ### Node.js/Frontend Projects
 22 | 
 23 | **Analysis Steps:**
 24 | 
 25 | 1. Read `package.json` to extract scripts section
 26 | 2. Check for TypeScript configuration (`tsconfig.json`)
 27 | 3. Detect testing framework and linting tools
 28 | 4. Map to standard command patterns
 29 | 
 30 | **Expected Commands:**
 31 | 
 32 | - `quick_validation`: Fast syntax/lint check
 33 | - `lint`: Code linting with configuration
 34 | - `typecheck`: TypeScript type checking (if applicable)
 35 | - `unit_test`: Unit test execution
 36 | - `build`: Production build
 37 | - `full_test`: Complete test suite
 38 | - `e2e_test`: End-to-end tests (if available)
 39 | 
 40 | ### Rust Projects
 41 | 
 42 | **Standard Commands:**
 43 | 
 44 | - `quick_validation`: "cargo check --quiet"
 45 | - `lint`: "cargo clippy -- -D warnings"
 46 | - `typecheck`: "" (built into Rust)
 47 | - `unit_test`: "cargo test"
 48 | - `build`: "cargo build"
 49 | - `full_test`: "cargo test"
 50 | 
 51 | ### Python Projects
 52 | 
 53 | **Detection Logic:**
 54 | 
 55 | 1. Check for `mypy.ini`, `pyproject.toml` with mypy config
 56 | 2. Detect `ruff`, `flake8`, or `pylint` availability
 57 | 3. Look for `pytest`, `unittest` setup
 58 | 
 59 | ### Go Projects
 60 | 
 61 | **Standard Commands:**
 62 | 
 63 | - `quick_validation`: "go vet ./..."
 64 | - `lint`: "golangci-lint run" or "go fmt ./... && go vet ./..."
 65 | - `unit_test`: "go test ./..."
 66 | - `build`: "go build ./..."
 67 | 
 68 | ### Enhanced CAGEERF Validation Checkpoints
 69 | 
 70 | Configure these checkpoint commands:
 71 | 
 72 | **CHECKPOINT 1: Context Validation**
 73 | 
 74 | - Syntax validation
 75 | - Basic linting
 76 | - Type checking
 77 | 
 78 | **CHECKPOINT 2: Progressive Edit Validation**
 79 | 
 80 | - Incremental build validation
 81 | - Modified file linting
 82 | - Related test execution
 83 | 
 84 | **CHECKPOINT 3: Integration Validation**
 85 | 
 86 | - Full build process
 87 | - Integration test suite
 88 | - Dependency validation
 89 | 
 90 | **CHECKPOINT 4: Completion Validation**
 91 | 
 92 | - Full test suite
 93 | - Performance validation
 94 | - Final build verification
 95 | 
 96 | ## Analysis Instructions
 97 | 
 98 | 1. **Project Examination**: Use Read and Glob tools to examine project structure
 99 | 2. **Configuration Analysis**: Read relevant config files (package.json, Cargo.toml, etc.)
100 | 3. **Command Mapping**: Map detected tools to standardized command interface
101 | 4. **Validation Setup**: Configure CAGEERF checkpoint commands
102 | 5. **Fallback Strategy**: Provide sensible defaults for undetected tools
103 | 
104 | ## Expected Output Format
105 | 
106 | ```json
107 | {
108 |   "project_type": "{{ project_type }}",
109 |   "commands": {
110 |     "quick_validation": "command_here",
111 |     "lint": "command_here",
112 |     "typecheck": "command_here_or_empty",
113 |     "unit_test": "command_here",
114 |     "build": "command_here",
115 |     "full_test": "command_here",
116 |     "e2e_test": "command_here_or_empty"
117 |   },
118 |   "cageerf_checkpoints": {
119 |     "checkpoint_1_context": ["quick_validation", "lint"],
120 |     "checkpoint_2_progressive": ["lint", "unit_test"],
121 |     "checkpoint_3_integration": ["build", "full_test"],
122 |     "checkpoint_4_completion": ["full_test", "build"]
123 |   },
124 |   "validation_config": {
125 |     "has_typescript": false,
126 |     "has_testing": true,
127 |     "has_linting": true,
128 |     "detected_tools": ["tool1", "tool2"]
129 |   }
130 | }
131 | ```
132 | 
```

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/server/prompts/analysis/notes.md:
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```markdown
  1 | # Notes
  2 | 
  3 | ## Description
  4 | Enhanced notes chain that searches the vault for actual related notes instead of generating fictional ones - UPDATED"
  5 | 
  6 | ## System Message
  7 | You are an expert content analyst who processes information through a systematic multi-step approach. Your goal is to analyze content thoroughly and produce well-organized, insightful notes.
  8 | 
  9 | IMPORTANT: You must explicitly call the MCP `prompt_engine` tool multiple times to progress through this chain. After receiving a response from each step, you must call `prompt_engine` with the appropriate next command using template mode for individual step execution with gate validation.
 10 | 
 11 | IMPLEMENTATION DETAILS:
 12 | 
 13 | - For tracking purposes, use a counter variable to monitor which step of the chain you're on
 14 | - Start with counter=1 and increment it after each step
 15 | - When counter=5, you're done with all steps and should present the final output
 16 | - Use "execution_mode": "template" for each step to enable individual template execution with gate validation
 17 | - Store step results in variables (step1_result, step2_result, etc.) for use in subsequent steps
 18 | - If any step fails gate validation, review and retry with improved parameters
 19 | 
 20 | ## User Message Template
 21 | I'm processing the following content through a multi-step content analysis chain:
 22 | 
 23 | ```
 24 | {{content}}
 25 | ```
 26 | 
 27 | **ENHANCED IMPLEMENTATION INSTRUCTIONS:**
 28 | 
 29 | 1. **Step 1** (counter=1): Call MCP tool `prompt_engine` with:
 30 | 
 31 |    ```json
 32 |    {
 33 |      "command": ">>content_analysis {{content}}",
 34 |      "execution_mode": "template",
 35 |      "gate_validation": true
 36 |    }
 37 |    ```
 38 | 
 39 |    Store result as `step1_result` (initial analysis)
 40 | 
 41 | 2. **Step 2** (counter=2): Call MCP tool `prompt_engine` with:
 42 | 
 43 |    ```json
 44 |    {
 45 |      "command": ">>deep_analysis",
 46 |      "content": "{{content}}",
 47 |      "initial_analysis": "[Insert step1_result here]",
 48 |      "execution_mode": "template",
 49 |      "gate_validation": true
 50 |    }
 51 |    ```
 52 | 
 53 |    Store result as `step2_result` (deep analysis)
 54 | 
 55 | 3. **Step 3** (counter=3): Call MCP tool `prompt_engine` with:
 56 | 
 57 |    ```json
 58 |    {
 59 |      "command": ">>vault_integrated_notes",
 60 |      "topic": "{{content}}",
 61 |      "execution_mode": "template",
 62 |      "gate_validation": true
 63 |    }
 64 |    ```
 65 | 
 66 |    Store result as `step3_result` (vault integrated notes)
 67 | 
 68 | 4. **Step 4** (counter=4): Call MCP tool `prompt_engine` with:
 69 | 
 70 |    ```json
 71 |    {
 72 |      "command": ">>note_refinement",
 73 |      "notes": "[Insert step3_result here]",
 74 |      "execution_mode": "template",
 75 |      "gate_validation": true
 76 |    }
 77 |    ```
 78 | 
 79 |    Store result as `step4_result` (refined notes)
 80 | 
 81 | 5. **Completion** (counter=5): Present final refined notes with execution summary
 82 |    - Combine all step results into a comprehensive analysis
 83 |    - Include execution summary: steps completed, validation results, total processing time
 84 |    - Format as: **Final Result**: [step4_result] + **Execution Summary**: [completion stats]
 85 | 
 86 | **EXECUTION BENEFITS:**
 87 | 
 88 | - ✅ Gate validation ensures quality at each step
 89 | - 🔄 Progress tracking shows completion status
 90 | - ⚠️ Error recovery if any step fails validation
 91 | - 📊 Execution analytics for performance monitoring
 92 | 
 93 | **ERROR HANDLING PROTOCOLS:**
 94 | 
 95 | - **Step Failure**: If any step fails gate validation, review parameters and retry with corrections
 96 | - **Tool Unavailable**: If `prompt_engine` is unavailable, report error and wait for system recovery
 97 | - **Context Loss**: If step results are lost, restart from last successful step
 98 | - **Validation Failure**: If gate validation fails, analyze failure reason and adjust approach
 99 | - **Recovery Strategy**: Always preserve step results for potential retry/rollback scenarios
100 | 
101 | **Starting counter value**: 1
102 | 
```

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/server/src/utils/chainUtils.ts:
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```typescript
  1 | /**
  2 |  * Chain Utility Functions
  3 |  *
  4 |  * Provides helper functions for chain detection and validation.
  5 |  * MIGRATION: Simplified to support only markdown-embedded chains.
  6 |  * Modular chain functions are deprecated but maintained for compatibility.
  7 |  *
  8 |  * Phase 2 of Chain System Migration (2025-01-30)
  9 |  */
 10 | 
 11 | import * as fs from 'fs/promises';
 12 | import * as path from 'path';
 13 | 
 14 | import { ValidationError } from './errorHandling.js';
 15 | // REMOVED: All types from deleted chain-scaffolding.ts
 16 | // Modular chain system has been completely deprecated
 17 | 
 18 | const CHAIN_ID_PATTERN = /^[a-z0-9_-]+$/i;
 19 | 
 20 | function isPathInside(basePath: string, targetPath: string): boolean {
 21 |   const relative = path.relative(basePath, targetPath);
 22 |   return !relative.startsWith('..') && !path.isAbsolute(relative);
 23 | }
 24 | 
 25 | export function normalizeChainId(chainId: string): string {
 26 |   if (typeof chainId !== 'string') {
 27 |     throw new ValidationError('Chain ID must be a string');
 28 |   }
 29 | 
 30 |   const normalized = chainId.trim();
 31 | 
 32 |   if (normalized.length === 0) {
 33 |     throw new ValidationError('Chain ID is required');
 34 |   }
 35 | 
 36 |   if (!CHAIN_ID_PATTERN.test(normalized)) {
 37 |     throw new ValidationError(
 38 |       `Invalid chain ID "${normalized}": only letters, numbers, hyphen, and underscore are allowed`
 39 |     );
 40 |   }
 41 | 
 42 |   return normalized;
 43 | }
 44 | 
 45 | // ===== Utility-Specific Type Definitions =====
 46 | // Types used specifically by utility functions that don't exist in canonical chain types
 47 | 
 48 | /**
 49 |  * ChainStep interface for utility functions
 50 |  */
 51 | export interface ChainStep {
 52 |   promptId: string;
 53 |   stepName: string;
 54 |   executionType?: 'prompt' | 'template';
 55 |   inputMapping?: Record<string, string>;
 56 |   outputMapping?: Record<string, string>;
 57 |   dependencies?: string[];
 58 | }
 59 | 
 60 | // Import ConvertedPrompt from execution domain instead of redefining
 61 | import type { ConvertedPrompt } from '../execution/types.js';
 62 | 
 63 | 
 64 | /**
 65 |  * Determines if a prompt is a chain based on the presence of chain steps
 66 |  * Replaces the redundant isChain boolean property
 67 |  */
 68 | export function isChainPrompt(prompt: ConvertedPrompt): boolean {
 69 |   return (prompt.chainSteps?.length || 0) > 0;
 70 | }
 71 | 
 72 | /**
 73 |  * Get the number of steps in a chain prompt
 74 |  */
 75 | export function getChainStepCount(prompt: ConvertedPrompt): number {
 76 |   return prompt.chainSteps?.length || 0;
 77 | }
 78 | 
 79 | /**
 80 |  * Validate that chain steps are properly formed
 81 |  */
 82 | export function validateChainSteps(steps: ChainStep[]): boolean {
 83 |   if (!steps || steps.length === 0) {
 84 |     return false;
 85 |   }
 86 | 
 87 |   return steps.every(step =>
 88 |     step.promptId &&
 89 |     step.stepName &&
 90 |     typeof step.promptId === 'string' &&
 91 |     typeof step.stepName === 'string'
 92 |   );
 93 | }
 94 | 
 95 | /**
 96 |  * Check if a prompt has valid chain steps
 97 |  * Combines presence check with validation
 98 |  */
 99 | export function hasValidChainSteps(prompt: ConvertedPrompt): boolean {
100 |   const steps = prompt.chainSteps;
101 |   return steps ? validateChainSteps(steps) : false;
102 | }
103 | 
104 | /**
105 |  * Get chain information summary for a prompt
106 |  */
107 | export function getChainInfo(prompt: ConvertedPrompt): {
108 |   isChain: boolean;
109 |   stepCount: number;
110 |   isValid: boolean;
111 | } {
112 |   const steps = prompt.chainSteps;
113 |   return {
114 |     isChain: isChainPrompt(prompt),
115 |     stepCount: getChainStepCount(prompt),
116 |     isValid: steps ? validateChainSteps(steps) : false
117 |   };
118 | }
119 | 
120 | // ===== REMOVED: Modular Chain Detection and Management =====
121 | // ChainType enum and detectChainType() function removed
122 | // All chain detection now uses isChainPrompt() and chainSteps property
123 | 
124 | 
125 | /**
126 |  * Check if a prompt is a chain with valid steps (replaces legacy isMonolithicChain)
127 |  */
128 | export function isValidChain(prompt: ConvertedPrompt): boolean {
129 |   return isChainPrompt(prompt) && hasValidChainSteps(prompt);
130 | }
131 | 
132 | // Modular chain system fully removed
133 | // All chain management now uses markdown-embedded chainSteps property
134 | 
```

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/server/src/mcp-tools/prompt-engine/core/types.ts:
--------------------------------------------------------------------------------

```typescript
  1 | /**
  2 |  * Prompt Engine Core Types
  3 |  *
  4 |  * Contains all interfaces and types used by the prompt engine system,
  5 |  * including chain execution, formatting, and classification types.
  6 |  */
  7 | 
  8 | import { ConvertedPrompt, ToolResponse } from "../../../types/index.js";
  9 | import type { TemporaryGateDefinition } from "../../../execution/types.js";
 10 | 
 11 | /**
 12 |  * Chain step execution context
 13 |  */
 14 | export interface ChainExecutionContext {
 15 |   promptId: string;
 16 |   promptArgs: Record<string, any>;
 17 |   convertedPrompt: ConvertedPrompt;
 18 |   isChainManagement?: boolean;
 19 |   chainAction?: string;
 20 |   chainParameters?: Record<string, any>;
 21 |   /** Chain-level temporary gate IDs that child steps inherit */
 22 |   chainGateIds?: string[];
 23 |   /** Chain execution ID for scope tracking */
 24 |   chainExecutionId?: string;
 25 |   /** Whether this chain execution should inherit gates from parent */
 26 |   inheritParentGates?: boolean;
 27 | }
 28 | 
 29 | /**
 30 |  * Chain step arguments building context
 31 |  */
 32 | export interface StepArgumentsContext {
 33 |   stepData: any;
 34 |   originalArgs: Record<string, any>;
 35 |   contextData: Record<string, any>;
 36 |   currentStep: number;
 37 | }
 38 | 
 39 | /**
 40 |  * Chain management command structure
 41 |  */
 42 | export interface ChainManagementCommand {
 43 |   action: string;
 44 |   target: string;
 45 |   parameters: Record<string, any>;
 46 | }
 47 | 
 48 | /**
 49 |  * Chain gate information
 50 |  */
 51 | export interface ChainGateInfo {
 52 |   status: string;
 53 |   gates: Array<{
 54 |     name: string;
 55 |     location: string;
 56 |     criteria: string;
 57 |   }>;
 58 | }
 59 | 
 60 | /**
 61 |  * Chain execution options
 62 |  */
 63 | export interface ChainExecutionOptions {
 64 |   enableGates: boolean;
 65 |   force_restart?: boolean;
 66 |   session_id?: string;
 67 |   step_confirmation?: boolean;
 68 |   llm_driven_execution?: boolean;
 69 |   chain_uri?: string;
 70 |   timeout?: number;
 71 |   /** Execution-time temporary gates (not persisted to prompt configuration) */
 72 |   temporary_gates?: TemporaryGateDefinition[];
 73 |   /** Scope for execution-time temporary gates (default: execution) */
 74 |   gate_scope?: 'execution' | 'session' | 'chain' | 'step';
 75 |   /** Whether to inherit gates from parent chain scope (default: true) */
 76 |   inherit_chain_gates?: boolean;
 77 |   /** Built-in quality gates to apply (by name) - use system_control to discover */
 78 |   quality_gates?: string[];
 79 |   /** Custom quality checks (simplified: name + description only) */
 80 |   custom_checks?: Array<{ name: string; description: string }>;
 81 |   /** Gate validation mode: enforce, advise, or report */
 82 |   gate_mode?: 'enforce' | 'advise' | 'report';
 83 | }
 84 | 
 85 | /**
 86 |  * Framework execution context for prompt processing
 87 |  */
 88 | export interface FormatterExecutionContext {
 89 |   executionId: string;
 90 |   executionType: "prompt" | "template" | "chain";
 91 |   startTime: number;
 92 |   endTime: number;
 93 |   frameworkUsed?: string;
 94 |   frameworkEnabled: boolean;
 95 |   success: boolean;
 96 |   stepsExecuted?: number;
 97 |   sessionId?: string;
 98 | }
 99 | 
100 | /**
101 |  * Simple response formatter interface
102 |  */
103 | export interface SimpleResponseFormatter {
104 |   formatResponse(content: any): any;
105 |   formatPromptEngineResponse(response: any, ...args: any[]): any;
106 |   formatErrorResponse(error: any, ...args: any[]): any;
107 |   setAnalyticsService(service: any): void;
108 | }
109 | 
110 | /**
111 |  * Prompt classification interface for execution strategy
112 |  */
113 | export interface PromptClassification {
114 |   executionType: "prompt" | "template" | "chain";
115 |   requiresExecution: boolean;
116 |   confidence: number;
117 |   reasoning: string[];
118 |   suggestedGates: string[];
119 |   framework?: string;
120 | }
121 | 
122 | /**
123 |  * Chain execution strategy result
124 |  */
125 | export interface ChainExecutionStrategy {
126 |   mode: "prompt" | "template" | "chain";
127 |   gateValidation: boolean;
128 | }
129 | 
130 | /**
131 |  * Chain validation result
132 |  */
133 | export interface ChainValidationResult {
134 |   isValid: boolean;
135 |   issues: string[];
136 |   chainId: string;
137 |   stepCount: number;
138 | }
139 | 
140 | /**
141 |  * Chain step data structure
142 |  */
143 | export interface ChainStepData {
144 |   promptId: string;
145 |   stepName: string;
146 |   inputMapping?: Record<string, string>;
147 |   outputMapping?: Record<string, string>;
148 |   config?: {
149 |     gates?: string[];
150 |   };
151 |   gates?: string[];
152 | }
153 | 
154 | /**
155 |  * Chain state information
156 |  */
157 | export interface ChainState {
158 |   currentStep: number;
159 |   totalSteps: number;
160 |   lastUpdated: number;
161 | }
162 | 
```

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/server/src/metrics/types.ts:
--------------------------------------------------------------------------------

```typescript
  1 | /**
  2 |  * Analytics Service Types
  3 |  *
  4 |  * Comprehensive type definitions for the analytics service that handles
  5 |  * execution monitoring, performance tracking, and system metrics collection
  6 |  * across all MCP tools without coupling to execution logic.
  7 |  */
  8 | 
  9 | /**
 10 |  * Core execution data collected from tools
 11 |  */
 12 | export interface ExecutionData {
 13 |   executionId: string;
 14 |   executionType: "prompt" | "template" | "chain";
 15 |   startTime: number;
 16 |   endTime: number;
 17 |   executionTime: number;
 18 |   success: boolean;
 19 |   frameworkUsed?: string;
 20 |   frameworkEnabled: boolean;
 21 |   stepsExecuted?: number;
 22 |   sessionId?: string;
 23 |   toolName: string; // prompt_engine, prompt_manager, system_control
 24 |   error?: string;
 25 |   memoryUsage?: {
 26 |     heapUsed: number;
 27 |     heapTotal: number;
 28 |     external: number;
 29 |   };
 30 | }
 31 | 
 32 | /**
 33 |  * Gate validation data for analytics tracking
 34 |  */
 35 | export interface GateValidationData {
 36 |   executionId: string;
 37 |   gateValidationEnabled: boolean;
 38 |   totalGates: number;
 39 |   passedGates: number;
 40 |   failedGates: number;
 41 |   validationTime: number;
 42 |   retryCount?: number;
 43 |   gateResults: Array<{
 44 |     gateId: string;
 45 |     gateName: string;
 46 |     passed: boolean;
 47 |     score?: number;
 48 |     evaluationTime?: number;
 49 |   }>;
 50 | }
 51 | 
 52 | /**
 53 |  * Framework switching data for methodology analytics
 54 |  */
 55 | export interface FrameworkSwitchData {
 56 |   switchId: string;
 57 |   fromFramework: string;
 58 |   toFramework: string;
 59 |   switchTime: number;
 60 |   reason?: string;
 61 |   switchSuccess: boolean;
 62 |   switchDuration: number;
 63 | }
 64 | 
 65 | /**
 66 |  * Aggregated execution statistics
 67 |  */
 68 | export interface ExecutionStats {
 69 |   totalExecutions: number;
 70 |   successfulExecutions: number;
 71 |   failedExecutions: number;
 72 |   averageExecutionTime: number;
 73 |   executionsByMode: {
 74 |     prompt: number;
 75 |     template: number;
 76 |     chain: number;
 77 |   };
 78 |   executionsByTool: {
 79 |     prompt_engine: number;
 80 |     prompt_manager: number;
 81 |     system_control: number;
 82 |   };
 83 |   lastUpdated: number;
 84 | }
 85 | 
 86 | /**
 87 |  * System performance metrics
 88 |  */
 89 | export interface SystemMetrics {
 90 |   uptime: number;
 91 |   memoryUsage: {
 92 |     heapUsed: number;
 93 |     heapTotal: number;
 94 |     external: number;
 95 |     rss: number;
 96 |   };
 97 |   averageResponseTime: number;
 98 |   requestsPerMinute: number;
 99 |   errorRate: number;
100 |   performanceTrends: PerformanceTrend[];
101 | }
102 | 
103 | /**
104 |  * Performance trend data point
105 |  */
106 | export interface PerformanceTrend {
107 |   timestamp: number;
108 |   metric: "execution_time" | "memory_usage" | "success_rate" | "response_time";
109 |   value: number;
110 |   context?: string;
111 | }
112 | 
113 | /**
114 |  * Framework usage analytics
115 |  */
116 | export interface FrameworkUsage {
117 |   currentFramework: string;
118 |   frameworkSwitches: number;
119 |   frameworkUsageTime: Record<string, number>; // framework -> total time used
120 |   frameworkSwitchHistory: Array<{
121 |     timestamp: number;
122 |     fromFramework: string;
123 |     toFramework: string;
124 |     reason?: string;
125 |   }>;
126 |   frameworkPerformance: Record<string, {
127 |     averageExecutionTime: number;
128 |     successRate: number;
129 |     usageCount: number;
130 |   }>;
131 | }
132 | 
133 | /**
134 |  * Analytics event types for event-driven architecture
135 |  */
136 | export type AnalyticsEvent =
137 |   | { type: 'execution:start'; data: Partial<ExecutionData> }
138 |   | { type: 'execution:complete'; data: ExecutionData }
139 |   | { type: 'execution:error'; data: ExecutionData }
140 |   | { type: 'gate:validation'; data: GateValidationData }
141 |   | { type: 'framework:switch'; data: FrameworkSwitchData }
142 |   | { type: 'system:memory'; data: { timestamp: number; usage: SystemMetrics['memoryUsage'] } }
143 |   | { type: 'system:performance'; data: PerformanceTrend };
144 | 
145 | /**
146 |  * Analytics query options for data retrieval
147 |  */
148 | export interface AnalyticsQueryOptions {
149 |   timeRange?: {
150 |     start: number;
151 |     end: number;
152 |   };
153 |   toolFilter?: string[];
154 |   frameworkFilter?: string[];
155 |   includePerformanceTrends?: boolean;
156 |   includeTrendHistory?: boolean;
157 |   maxResults?: number;
158 | }
159 | 
160 | /**
161 |  * Comprehensive analytics summary
162 |  */
163 | export interface AnalyticsSummary {
164 |   executionStats: ExecutionStats;
165 |   systemMetrics: SystemMetrics;
166 |   frameworkUsage: FrameworkUsage;
167 |   gateValidationStats: {
168 |     totalValidations: number;
169 |     validationSuccessRate: number;
170 |     averageValidationTime: number;
171 |     gateAdoptionRate: number;
172 |   };
173 |   recommendations: string[];
174 | }
```

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/server/tests/helpers/test-helpers.js:
--------------------------------------------------------------------------------

```javascript
  1 | /**
  2 |  * Test Helpers (JavaScript version)
  3 |  * Common utilities and fixtures for tests
  4 |  */
  5 | 
  6 | import path from 'path';
  7 | import { fileURLToPath } from 'url';
  8 | 
  9 | // Get project root for consistent paths
 10 | const __filename = fileURLToPath(import.meta.url);
 11 | const __dirname = path.dirname(__filename);
 12 | export const PROJECT_ROOT = path.resolve(__dirname, '../..');
 13 | export const DIST_PATH = path.join(PROJECT_ROOT, 'dist');
 14 | 
 15 | /**
 16 |  * Mock Logger Implementation
 17 |  */
 18 | export class MockLogger {
 19 |   constructor() {
 20 |     this.logs = [];
 21 |   }
 22 | 
 23 |   info(message, ...args) {
 24 |     this.logs.push({ level: 'info', message, args });
 25 |   }
 26 | 
 27 |   warn(message, ...args) {
 28 |     this.logs.push({ level: 'warn', message, args });
 29 |   }
 30 | 
 31 |   error(message, ...args) {
 32 |     this.logs.push({ level: 'error', message, args });
 33 |   }
 34 | 
 35 |   debug(message, ...args) {
 36 |     this.logs.push({ level: 'debug', message, args });
 37 |   }
 38 | 
 39 |   clear() {
 40 |     this.logs = [];
 41 |   }
 42 | 
 43 |   getLogsByLevel(level) {
 44 |     return this.logs.filter(log => log.level === level);
 45 |   }
 46 | }
 47 | 
 48 | /**
 49 |  * Mock MCP Server for testing
 50 |  * Enhanced with interface contract compliance
 51 |  */
 52 | export class MockMcpServer {
 53 |   constructor() {
 54 |     this.registeredTools = [];
 55 |     this.toolHandlers = new Map();
 56 |   }
 57 | 
 58 |   tool(name, description, schema) {
 59 |     this.registeredTools.push({ name, description, schema });
 60 | 
 61 |     // Return mock tool handler
 62 |     return {
 63 |       name,
 64 |       handler: async (args) => {
 65 |         const handler = this.toolHandlers.get(name);
 66 |         if (handler) {
 67 |           return handler(args);
 68 |         }
 69 |         return {
 70 |           content: [{ type: 'text', text: `Mock response for ${name}` }]
 71 |         };
 72 |       }
 73 |     };
 74 |   }
 75 | 
 76 |   /**
 77 |    * MCP SDK compatible registerTool method
 78 |    * Fixes the interface mismatch that caused CI failures
 79 |    */
 80 |   registerTool(name, config, handler) {
 81 |     // Validate MCP SDK registerTool parameters
 82 |     if (typeof name !== 'string' || !name) {
 83 |       throw new Error(`Invalid tool name: ${name}`);
 84 |     }
 85 |     if (!config || typeof config !== 'object') {
 86 |       throw new Error(`Invalid tool config for ${name}`);
 87 |     }
 88 |     if (typeof handler !== 'function') {
 89 |       throw new Error(`Invalid tool handler for ${name}`);
 90 |     }
 91 | 
 92 |     // Extract description and schema from MCP SDK config format
 93 |     const description = config.description || config.title || name;
 94 |     const schema = config.inputSchema || {};
 95 | 
 96 |     // Store the handler for this tool
 97 |     this.addToolHandler(name, handler);
 98 | 
 99 |     // Delegate to existing tool method for registration
100 |     return this.tool(name, description, schema);
101 |   }
102 | 
103 |   addToolHandler(name, handler) {
104 |     this.toolHandlers.set(name, handler);
105 |   }
106 | 
107 |   getRegisteredToolNames() {
108 |     return this.registeredTools.map(tool => tool.name);
109 |   }
110 | 
111 |   clear() {
112 |     this.registeredTools = [];
113 |     this.toolHandlers.clear();
114 |   }
115 | 
116 |   /**
117 |    * Interface compliance validation
118 |    */
119 |   validateInterfaceCompliance() {
120 |     const requiredMethods = ['tool', 'registerTool'];
121 |     const missingMethods = requiredMethods.filter(method =>
122 |       typeof this[method] !== 'function'
123 |     );
124 | 
125 |     return {
126 |       isCompliant: missingMethods.length === 0,
127 |       missingMethods
128 |     };
129 |   }
130 | }
131 | 
132 | /**
133 |  * Test Data Fixtures
134 |  */
135 | export const testPrompts = {
136 |   simple: {
137 |     id: 'test-simple',
138 |     name: 'Simple Test Prompt',
139 |     userMessageTemplate: 'This is a simple test prompt',
140 |     description: 'A basic prompt for testing',
141 |     category: 'test',
142 |     arguments: []
143 |   },
144 |   withArgs: {
145 |     id: 'test-with-args',
146 |     name: 'Test Prompt with Arguments',
147 |     userMessageTemplate: 'Hello {{name}}, you are {{age}} years old',
148 |     description: 'A prompt with template arguments',
149 |     category: 'test',
150 |     arguments: [
151 |       { name: 'name', type: 'string', description: 'User name' },
152 |       { name: 'age', type: 'number', description: 'User age' }
153 |     ]
154 |   }
155 | };
156 | 
157 | /**
158 |  * Performance Test Utilities
159 |  */
160 | export class PerformanceTimer {
161 |   constructor() {
162 |     this.startTime = 0;
163 |     this.endTime = 0;
164 |   }
165 | 
166 |   start() {
167 |     this.startTime = Date.now();
168 |   }
169 | 
170 |   stop() {
171 |     this.endTime = Date.now();
172 |     return this.getDuration();
173 |   }
174 | 
175 |   getDuration() {
176 |     return this.endTime - this.startTime;
177 |   }
178 | }
```

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/docs/installation-guide.md:
--------------------------------------------------------------------------------

```markdown
  1 | # Installation and Setup Guide
  2 | 
  3 | This guide will walk you through the process of installing and setting up the Claude Custom Prompts server.
  4 | 
  5 | ## Prerequisites
  6 | 
  7 | Before you begin, ensure you have the following installed:
  8 | 
  9 | - [Node.js](https://nodejs.org/) (v14 or later)
 10 | - [npm](https://www.npmjs.com/) (v6 or later)
 11 | - [Git](https://git-scm.com/) (optional, for cloning the repository)
 12 | 
 13 | ## System Requirements
 14 | 
 15 | - **Operating System**: Windows, macOS, or Linux
 16 | - **Memory**: At least 2GB RAM
 17 | - **Disk Space**: At least 500MB free space
 18 | 
 19 | ## Installation
 20 | 
 21 | ### Option 1: Clone the Repository
 22 | 
 23 | If you have Git installed, you can clone the repository:
 24 | 
 25 | ```bash
 26 | git clone https://github.com/minipuft/claude-prompts.git
 27 | cd claude-prompts
 28 | ```
 29 | 
 30 | ### Option 2: Download the Source Code
 31 | 
 32 | Alternatively, you can download the source code as a ZIP file and extract it.
 33 | 
 34 | ### Install Dependencies
 35 | 
 36 | Once you have the source code, install the dependencies for both the server:
 37 | 
 38 | ```bash
 39 | # Install server dependencies
 40 | cd server
 41 | npm install
 42 | ```
 43 | 
 44 | ## Configuration
 45 | 
 46 | ### Server Configuration
 47 | 
 48 | The server configuration is stored in `server/config.json`. You can modify this file to change the server settings:
 49 | 
 50 | ```json
 51 | {
 52 |   "server": {
 53 |     "name": "Claude Custom Prompts",
 54 |     "version": "1.0.0",
 55 |     "port": 9090
 56 |   },
 57 |   "prompts": {
 58 |     "file": "promptsConfig.json"
 59 |   },
 60 |   "transports": {
 61 |     "default": "stdio"
 62 |   },
 63 |   "logging": {
 64 |     "directory": "./logs",
 65 |     "level": "info"
 66 |   }
 67 | }
 68 | ```
 69 | 
 70 | Key configuration options:
 71 | 
 72 | - **server.port**: The port on which the server will run (default: 9090)
 73 | - **prompts.file**: The main prompts configuration file (default: promptsConfig.json)
 74 | - **transports.default**: The default transport to use (options: stdio, sse)
 75 | - **logging.directory**: The directory where logs will be stored (default: ./logs)
 76 | - **logging.level**: The logging level (options: debug, info, warn, error)
 77 | 
 78 | ### Prompts Configuration
 79 | 
 80 | The prompts configuration is distributed across multiple files:
 81 | 
 82 | 1. **promptsConfig.json**: The main configuration file that defines categories and imports category-specific prompts.json files
 83 | 2. **Category-specific prompts.json files**: Each category has its own prompts.json file in its directory
 84 | 
 85 | #### Main Configuration (promptsConfig.json)
 86 | 
 87 | ```json
 88 | {
 89 |   "categories": [
 90 |     {
 91 |       "id": "general",
 92 |       "name": "General",
 93 |       "description": "General-purpose prompts for everyday tasks"
 94 |     },
 95 |     {
 96 |       "id": "code",
 97 |       "name": "Code",
 98 |       "description": "Prompts related to programming and software development"
 99 |     }
100 |   ],
101 |   "imports": ["prompts/general/prompts.json", "prompts/code/prompts.json"]
102 | }
103 | ```
104 | 
105 | ## Creating Your First Prompt
106 | 
107 | ### Prompt Execution Fails
108 | 
109 | ## Updating the Application
110 | 
111 | To update the application to a newer version:
112 | 
113 | 1. Pull the latest changes or download the new source code.
114 | 2. Install any new dependencies:
115 |    ```bash
116 |    cd server
117 |    npm install
118 |    ```
119 | 3. Rebuild the application:
120 |    ```bash
121 |    cd server
122 |    npm run build
123 |    ```
124 | 4. Restart the server.
125 | 
126 | ## Backup and Restore
127 | 
128 | ### Backing Up Prompts
129 | 
130 | The prompts are stored in the `/prompts' folder in the server directory. To back up your prompts, simply copy this folder to a safe location.
131 | 
132 | ### Restoring Prompts
133 | 
134 | To restore prompts from a backup, drop in your copy of the '/prompts' directory and restart the server.
135 | 
136 | ## Advanced Configuration
137 | 
138 | ### Custom Logging
139 | 
140 | You can customize the logging behavior by modifying the logging section in `config.json`:
141 | 
142 | ```json
143 | "logging": {
144 |   "directory": "./custom-logs",
145 |   "level": "debug",
146 |   "maxFiles": 10,
147 |   "maxSize": "10m"
148 | }
149 | ```
150 | 
151 | ## Security Considerations
152 | 
153 | - The server does not implement authentication by default. Consider running it in a secure environment or implementing your own authentication layer.
154 | - Regularly back up your prompts to prevent data loss.
155 | - Keep your Node.js and npm packages updated to avoid security vulnerabilities.
156 | 
157 | ## Getting Help
158 | 
159 | If you encounter issues or have questions:
160 | 
161 | 1. Check the documentation in the `docs` directory.
162 | 2. Look for error messages in the server logs.
163 | 3. Contact the maintainers or community for support.
164 | 
165 | ## Next Steps
166 | 
167 | Now that you have the Claude Custom Prompts server up and running, you can:
168 | 
169 | 1. Create more prompts and categories.
170 | 2. Experiment with chain prompts for complex processes.
171 | 3. Integrate the API with your applications.
172 | 4. Contribute to the project by reporting issues or submitting pull requests.
173 | 
```

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/server/tests/enhanced-validation/contract-validation/interface-contracts.js:
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```javascript
  1 | /**
  2 |  * Interface Contract Validation System (JavaScript version)
  3 |  *
  4 |  * Validates that mock objects fully implement expected interfaces to prevent
  5 |  * runtime method missing errors like the registerTool issue.
  6 |  */
  7 | 
  8 | /**
  9 |  * MCP SDK Interface Contract Validator
 10 |  *
 11 |  * Prevents interface mismatches by validating mock objects against real SDK interfaces
 12 |  */
 13 | export class McpSdkInterfaceValidator {
 14 |   constructor(logger) {
 15 |     this.logger = logger;
 16 |   }
 17 | 
 18 |   /**
 19 |    * Validate tool registration interface compatibility
 20 |    * Specifically addresses the registerTool method mismatch issue
 21 |    */
 22 |   async validateToolRegistrationInterface(mockServer) {
 23 |     const requiredMethods = [
 24 |       'tool',           // Existing method in MockMcpServer
 25 |       'registerTool'    // Missing method that caused CI failure
 26 |     ];
 27 | 
 28 |     const missingMethods = [];
 29 |     const incompatibleSignatures = [];
 30 | 
 31 |     // Check for missing methods
 32 |     for (const method of requiredMethods) {
 33 |       if (typeof mockServer[method] !== 'function') {
 34 |         missingMethods.push(method);
 35 |       }
 36 |     }
 37 | 
 38 |     // Validate method signatures if they exist
 39 |     if (typeof mockServer.tool === 'function') {
 40 |       const toolMethod = mockServer.tool;
 41 |       if (toolMethod.length < 3) {
 42 |         incompatibleSignatures.push({
 43 |           method: 'tool',
 44 |           expected: 'tool(name: string, description: string, schema: any)',
 45 |           actual: `tool with ${toolMethod.length} parameters`
 46 |         });
 47 |       }
 48 |     }
 49 | 
 50 |     if (typeof mockServer.registerTool === 'function') {
 51 |       const registerToolMethod = mockServer.registerTool;
 52 |       if (registerToolMethod.length < 3) {
 53 |         incompatibleSignatures.push({
 54 |           method: 'registerTool',
 55 |           expected: 'registerTool(name: string, config: any, handler: Function)',
 56 |           actual: `registerTool with ${registerToolMethod.length} parameters`
 57 |         });
 58 |       }
 59 |     }
 60 | 
 61 |     // Generate recommendations
 62 |     const recommendations = [];
 63 |     if (missingMethods.includes('registerTool')) {
 64 |       recommendations.push('Add registerTool method that delegates to existing tool method');
 65 |       recommendations.push('Ensure registerTool accepts (name, config, handler) parameters');
 66 |     }
 67 | 
 68 |     const isValid = missingMethods.length === 0 && incompatibleSignatures.length === 0;
 69 | 
 70 |     return {
 71 |       isValid,
 72 |       missingMethods,
 73 |       incompatibleSignatures,
 74 |       recommendations
 75 |     };
 76 |   }
 77 | 
 78 |   /**
 79 |    * Comprehensive method signature validation
 80 |    */
 81 |   validateMethodSignatures(mockObject, expectedMethods) {
 82 |     const missingMethods = [];
 83 |     const incompatibleSignatures = [];
 84 | 
 85 |     for (const [methodName, expectedParamCount] of Object.entries(expectedMethods)) {
 86 |       if (typeof mockObject[methodName] !== 'function') {
 87 |         missingMethods.push(methodName);
 88 |       } else {
 89 |         const actualParamCount = mockObject[methodName].length;
 90 |         if (actualParamCount !== expectedParamCount) {
 91 |           incompatibleSignatures.push({
 92 |             method: methodName,
 93 |             expected: `${expectedParamCount} parameters`,
 94 |             actual: `${actualParamCount} parameters`
 95 |           });
 96 |         }
 97 |       }
 98 |     }
 99 | 
100 |     return {
101 |       isValid: missingMethods.length === 0 && incompatibleSignatures.length === 0,
102 |       missingMethods,
103 |       incompatibleSignatures,
104 |       recommendations: []
105 |     };
106 |   }
107 | 
108 |   /**
109 |    * Generate comprehensive validation report
110 |    */
111 |   async generateContractReport(mockServer, mockObjectName = 'MockMcpServer') {
112 |     this.logger.debug(`[CONTRACT VALIDATOR] Generating report for ${mockObjectName}`);
113 | 
114 |     const validationResult = await this.validateToolRegistrationInterface(mockServer);
115 |     const validatedMethods = ['tool', 'registerTool'].filter(method =>
116 |       typeof mockServer[method] === 'function'
117 |     );
118 | 
119 |     return {
120 |       mockObjectName,
121 |       referenceInterface: 'MCP SDK Server Interface',
122 |       validationResult,
123 |       timestamp: new Date(),
124 |       validatedMethods
125 |     };
126 |   }
127 | 
128 |   /**
129 |    * Quick validation check for CI/testing
130 |    */
131 |   async quickValidation(mockServer) {
132 |     const result = await this.validateToolRegistrationInterface(mockServer);
133 | 
134 |     if (!result.isValid) {
135 |       this.logger.error('[CONTRACT VALIDATOR] Interface validation failed:', {
136 |         missingMethods: result.missingMethods,
137 |         incompatibleSignatures: result.incompatibleSignatures,
138 |         recommendations: result.recommendations
139 |       });
140 |     }
141 | 
142 |     return result.isValid;
143 |   }
144 | }
145 | 
146 | /**
147 |  * Factory function for creating validator instance
148 |  */
149 | export function createMcpSdkInterfaceValidator(logger) {
150 |   return new McpSdkInterfaceValidator(logger);
151 | }
```

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/server/prompts/content_processing/format_enhancement.md:
--------------------------------------------------------------------------------

```markdown
  1 | # Format Enhancement Workflow
  2 | 
  3 | ## Description
  4 | Transform existing basic markdown notes to advanced Obsidian formatting standards with professional presentation and interactive elements
  5 | 
  6 | ## System Message
  7 | You are a formatting transformation specialist who converts basic markdown content into publication-ready notes using advanced Obsidian features. You maintain all original content while dramatically improving presentation, organization, and usability.
  8 | 
  9 | ## User Message Template
 10 | **FORMAT ENHANCEMENT WORKFLOW**
 11 | 
 12 | Transform this existing content into advanced Obsidian formatting:
 13 | 
 14 | {{existing_content}}
 15 | 
 16 | **ENHANCEMENT PARAMETERS:**
 17 | - Domain: {{domain}} (auto-detect from content if not specified)
 18 | - Enhancement Level: {{enhancement_level | default('comprehensive')}}
 19 | 
 20 | **TRANSFORMATION REQUIREMENTS:**
 21 | 
 22 | ## Content Preservation Priority
 23 | - **Maintain ALL original information** - no content loss allowed
 24 | - **Preserve existing structure** while enhancing presentation
 25 | - **Enhance, don't replace** - build upon what exists
 26 | - **Strategic enhancement** without overwhelming the content
 27 | 
 28 | ## Mandatory Formatting Upgrades
 29 | 
 30 | ### **1. Frontmatter Enhancement**
 31 | Add/update with:
 32 | ```yaml
 33 | ---
 34 | tags: [relevant_domain_tags, specific_concepts]
 35 | aliases: [Alternative Names]
 36 | created: YYYY-MM-DD
 37 | status: evergreen
 38 | difficulty: ⭐⭐⭐⭐ (assess complexity)
 39 | duration: X hours (estimate time investment)
 40 | equipment_cost: $X-$Y (if applicable)
 41 | ---
 42 | ```
 43 | 
 44 | ### **2. Visual Hierarchy Transformation**
 45 | - **Title Enhancement**: Add appropriate emoji and professional formatting
 46 | - **Header Progression**: Ensure clear ##, ###, #### hierarchy
 47 | - **Section Separators**: Add `---` between major sections
 48 | - **Emoji Integration**: Consistent system for content categorization
 49 | 
 50 | ### **3. Interactive Element Integration**
 51 | Apply minimum 3 types:
 52 | - **Callout Conversion**: Transform key paragraphs into `[!tip]`, `[!warning]`, `[!success]`, `[!quote]` callouts
 53 | - **Checklist Creation**: Convert action items to `- [ ]` interactive checklists
 54 | - **Collapsible Sections**: Use `[!example]-` for detailed technical content
 55 | - **Multi-Column Layouts**: Apply to complex information sections
 56 | 
 57 | ### **4. Data Organization Enhancement**
 58 | - **Table Creation**: Convert lists to enhanced comparison matrices
 59 | - **Code Block Enhancement**: Structure technical information appropriately
 60 | - **Highlighting Strategy**: Apply `==key concepts==` highlighting
 61 | - **Extended Markdown**: Use `++important terms++`, `^references^`, `~technical notes~`
 62 | 
 63 | ### **5. Professional Polish Application**
 64 | - **Quote Attribution**: Proper formatting for all quotes and sources
 65 | - **Cross-Reference Integration**: Strategic linking opportunities (3-8 relevant connections)
 66 | - **Footnote System**: Add `[^1]` citations for sources
 67 | - **Quick Reference Creation**: Summary sections for essential information
 68 | 
 69 | ## Domain-Specific Enhancement Strategy
 70 | 
 71 | ### **Auto-Detection Guidelines**
 72 | Analyze content for:
 73 | - **Creative Arts**: Techniques, equipment, workflow, artistic methods
 74 | - **Technical Fields**: Code, algorithms, systems, specifications
 75 | - **Personal Development**: Goals, skills, processes, improvement
 76 | - **Educational Content**: Learning, instruction, knowledge transfer
 77 | 
 78 | ### **Enhancement Application**
 79 | Apply appropriate domain formatting:
 80 | - **Creative**: Master quotes, technique breakdowns, equipment matrices
 81 | - **Technical**: Code blocks, system specifications, performance metrics
 82 | - **Personal**: Goal tracking, progress indicators, resource optimization
 83 | - **Educational**: Learning paths, skill progression, practice workflows
 84 | 
 85 | ## Quality Assurance Standards
 86 | 
 87 | ### **Enhancement Verification Checklist**
 88 | - [ ] All original content preserved and enhanced
 89 | - [ ] Visual hierarchy dramatically improved
 90 | - [ ] Interactive elements appropriately integrated
 91 | - [ ] Data organization significantly enhanced
 92 | - [ ] Professional presentation achieved
 93 | - [ ] Strategic cross-references added
 94 | - [ ] Quick reference sections created
 95 | - [ ] Publication-ready quality achieved
 96 | 
 97 | ### **Professional Standards**
 98 | - **Visual Appeal**: ⭐⭐⭐⭐⭐ transformation quality
 99 | - **Information Architecture**: Logical, scannable organization
100 | - **Plugin Utilization**: Systematic use of advanced features
101 | - **Readability**: Enhanced without overwhelming content
102 | - **Professional Presentation**: Publication-ready documentation
103 | 
104 | **EXECUTE TRANSFORMATION:**
105 | Apply this enhancement workflow to transform the existing content into a professionally formatted, publication-ready note that demonstrates advanced Obsidian formatting capabilities while preserving all original information and improving usability dramatically.
106 | 
```

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/server/package.json:
--------------------------------------------------------------------------------

```json
  1 | {
  2 |   "name": "claude-prompts-server",
  3 |   "version": "1.3.0",
  4 |   "description": "Claude Custom Prompts MCP Server",
  5 |   "author": "minipuft",
  6 |   "license": "MIT",
  7 |   "type": "module",
  8 |   "main": "dist/index.js",
  9 |   "types": "dist/index.d.ts",
 10 |   "files": [
 11 |     "dist",
 12 |     "README.md",
 13 |     "LICENSE"
 14 |   ],
 15 |   "scripts": {
 16 |     "build": "tsc",
 17 |     "typecheck": "tsc --noEmit",
 18 |     "start": "node dist/index.js",
 19 |     "dev": "tsc -w & node --watch dist/index.js",
 20 |     "start:sse": "node dist/index.js --transport=sse",
 21 |     "start:stdio": "node dist/index.js --transport=stdio",
 22 |     "start:quiet": "node dist/index.js --quiet",
 23 |     "start:verbose": "node dist/index.js --verbose",
 24 |     "start:debug": "node dist/index.js --debug-startup",
 25 |     "start:production": "node dist/index.js --quiet --transport=stdio",
 26 |     "start:development": "node dist/index.js --verbose --transport=sse",
 27 |     "start:test": "node dist/index.js --startup-test",
 28 |     "help": "node dist/index.js --help",
 29 |     "test": "npm run test:integration",
 30 |     "test:unit": "npm run test:unit-scripts",
 31 |     "test:unit-scripts": "node tests/scripts/unit-conversation-manager.js && node tests/scripts/unit-semantic-analyzer.js && node tests/scripts/unit-unified-parsing.js",
 32 |     "test:integration": "npm run test:integration-scripts",
 33 |     "test:integration-scripts": "node tests/scripts/integration-mcp-tools.js && node tests/scripts/integration-server-startup.js && node tests/scripts/integration-unified-parsing.js && node tests/scripts/integration-routing-system.js",
 34 |     "test:e2e": "NODE_OPTIONS=\"--experimental-vm-modules\" jest tests/e2e",
 35 |     "test:performance": "NODE_OPTIONS=\"--experimental-vm-modules\" jest tests/performance",
 36 |     "test:watch": "NODE_OPTIONS=\"--experimental-vm-modules\" jest --watch",
 37 |     "test:coverage": "NODE_OPTIONS=\"--experimental-vm-modules\" jest --coverage",
 38 |     "test:jest": "NODE_OPTIONS=\"--experimental-vm-modules\" jest",
 39 |     "test:ci": "npm run test:unit-scripts && npm run test:integration-scripts && npm run test:performance",
 40 |     "test:legacy": "node ../test_server.js",
 41 |     "test:runtime-integration": "node tests/scripts/runtime-integration.js",
 42 |     "test:methodology-guides": "node tests/scripts/methodology-guides.js",
 43 |     "test:consolidated-tools": "node tests/scripts/consolidated-tools.js",
 44 |     "test:performance-memory": "node --expose-gc tests/scripts/performance-memory.js",
 45 |     "test:functional-mcp": "node tests/scripts/functional-mcp-validation.js",
 46 |     "test:establish-baselines": "node --expose-gc tests/scripts/establish-performance-baselines.js",
 47 |     "test:all-enhanced": "npm run test:runtime-integration && npm run test:methodology-guides && npm run test:consolidated-tools && npm run test:functional-mcp",
 48 |     "test:ci-startup": "node tests/ci-startup-validation.js",
 49 |     "test:ci-startup-verbose": "VERBOSE=true node tests/ci-startup-validation.js",
 50 |     "test:enhanced-validation": "node tests/enhanced-validation/validation-orchestrator.js",
 51 |     "test:contracts": "node tests/enhanced-validation/contract-validation/contract-test-suite.js",
 52 |     "test:lifecycle": "node tests/enhanced-validation/lifecycle-validation/lifecycle-test-suite.js",
 53 |     "test:environment": "node tests/enhanced-validation/environment-validation/environment-test-suite.js",
 54 |     "validate:dependencies": "node scripts/validate-dependencies.js",
 55 |     "validate:circular": "npx madge --circular --extensions ts,js src/",
 56 |     "validate:all": "npm run validate:dependencies && npm run validate:circular",
 57 |     "validate:enhanced": "npm run test:enhanced-validation",
 58 |     "prepublishOnly": "npm run build"
 59 |   },
 60 |   "repository": {
 61 |     "type": "git",
 62 |     "url": "git+https://github.com/minipuft/claude-prompts.git"
 63 |   },
 64 |   "bugs": {
 65 |     "url": "https://github.com/minipuft/claude-prompts/issues"
 66 |   },
 67 |   "homepage": "https://github.com/minipuft/claude-prompts#readme",
 68 |   "keywords": [
 69 |     "claude",
 70 |     "ai",
 71 |     "mcp",
 72 |     "model-context-protocol",
 73 |     "prompts",
 74 |     "language-model",
 75 |     "server"
 76 |   ],
 77 |   "engines": {
 78 |     "node": ">=16"
 79 |   },
 80 |   "publishConfig": {
 81 |     "access": "public"
 82 |   },
 83 |   "dependencies": {
 84 |     "@modelcontextprotocol/sdk": "^1.18.1",
 85 |     "@types/handlebars": "^4.1.0",
 86 |     "@types/nunjucks": "^3.2.6",
 87 |     "cors": "^2.8.5",
 88 |     "express": "^4.18.2",
 89 |     "handlebars": "^4.7.8",
 90 |     "nunjucks": "^3.2.4",
 91 |     "zod": "^3.22.4"
 92 |   },
 93 |   "devDependencies": {
 94 |     "@types/cors": "^2.8.17",
 95 |     "@types/express": "^4.17.21",
 96 |     "@types/jest": "^29.5.12",
 97 |     "@types/node": "^20.11.19",
 98 |     "@types/ws": "^8.5.14",
 99 |     "jest": "^29.7.0",
100 |     "madge": "^8.0.0",
101 |     "ts-jest": "^29.1.2",
102 |     "typescript": "^5.3.3",
103 |     "ws": "^8.18.1"
104 |   }
105 | }
106 | 
```

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/server/prompts/development/generate_comprehensive_claude_md.md:
--------------------------------------------------------------------------------

```markdown
  1 | # Comprehensive CLAUDE.md Generator
  2 | 
  3 | ## Description
  4 | Generates comprehensive CLAUDE.md files with all 6 development criteria, Enhanced CAGEERF integration, and project-specific configurations
  5 | 
  6 | ## System Message
  7 | You are an expert assistant providing structured, systematic analysis. Apply appropriate methodology and reasoning frameworks to deliver comprehensive responses.
  8 | 
  9 | ## User Message Template
 10 | # Comprehensive CLAUDE.md Generation
 11 | 
 12 | ## Objective
 13 | Generate a comprehensive CLAUDE.md file for `{{ project_name }}` ({{ project_type }}) that includes all 6 development criteria and Enhanced CAGEERF integration.
 14 | 
 15 | ## Project Context
 16 | - **Path**: `{{ project_path }}`
 17 | - **Name**: `{{ project_name }}`
 18 | - **Type**: `{{ project_type }}`
 19 | - **Architecture Level**: {{ architecture_level }}/10
 20 | - **Detected Commands**: {{ project_commands }}
 21 | 
 22 | ## Required Development Criteria
 23 | 
 24 | ### 1. Comprehensive Development Standards
 25 | Generate performance requirements, code quality standards, and naming conventions specific to {{ project_type }} projects.
 26 | 
 27 | **Performance Requirements:**
 28 | - Bundle size constraints appropriate for {{ project_type }}
 29 | - Memory usage budgets
 30 | - Build performance targets
 31 | - Framework-specific metrics
 32 | 
 33 | **Code Quality Standards:**
 34 | - Complexity limits (cyclomatic, cognitive)
 35 | - Coverage requirements
 36 | - Architecture standards
 37 | - Maintainability metrics
 38 | 
 39 | **Naming Conventions:**
 40 | - Language-specific conventions for {{ project_type }}
 41 | - File and directory patterns
 42 | - API design standards
 43 | 
 44 | ### 2. Technology Constraints & Rules
 45 | Define allowed/prohibited technologies and CSS-first philosophy.
 46 | 
 47 | **For {{ project_type }} projects:**
 48 | - Approved dependencies and versions
 49 | - Security-focused restrictions  
 50 | - Performance-oriented constraints
 51 | - Maintenance considerations
 52 | 
 53 | **CSS-First Philosophy:**
 54 | - Styling hierarchy for {{ project_type }}
 55 | - Framework-specific CSS patterns
 56 | - Performance requirements for styles
 57 | 
 58 | ### 3. Validation Requirements
 59 | Configure Enhanced CAGEERF validation checkpoints using detected commands.
 60 | 
 61 | **Integration Commands from Detection:**
 62 | ```json
 63 | {{ project_commands }}
 64 | ```
 65 | 
 66 | **4-Phase Validation Checkpoints:**
 67 | 1. **CHECKPOINT 1**: Context Validation
 68 | 2. **CHECKPOINT 2**: Progressive Edit Validation  
 69 | 3. **CHECKPOINT 3**: Integration Validation
 70 | 4. **CHECKPOINT 4**: Completion Validation
 71 | 
 72 | ### 4. Project-Specific Development Rules
 73 | Configure build cycles, environment setup, and API integration requirements.
 74 | 
 75 | **Build & Installation Cycle:**
 76 | - Environment setup for {{ project_type }}
 77 | - Dependency management
 78 | - Development server configuration
 79 | - Testing and deployment workflows
 80 | 
 81 | **API Integration:**
 82 | - Extension patterns (if applicable)
 83 | - Library export patterns (if applicable)
 84 | - Security constraints
 85 | 
 86 | ### 5. Debug & Diagnostics Framework
 87 | Setup comprehensive debugging and troubleshooting systems.
 88 | 
 89 | **Test Harness:**
 90 | - Integration test setup for {{ project_type }}
 91 | - Performance testing configuration
 92 | - Mock data management
 93 | 
 94 | **Debug Configuration:**
 95 | - Development debugging setup
 96 | - Production monitoring
 97 | - Error reporting configuration
 98 | 
 99 | ### 6. Advanced Development Guidelines
100 | Emergency protocols, development philosophy, and innovation guidelines.
101 | 
102 | **Emergency Protocols:**
103 | - Severity levels and response procedures
104 | - Hotfix workflows
105 | - Incident response
106 | 
107 | **Development Philosophy:**
108 | - Core principles for {{ project_type }} development
109 | - Decision frameworks
110 | - Code review standards
111 | 
112 | ## Enhanced CAGEERF Integration
113 | 
114 | **CRITICAL**: Include comprehensive Enhanced CAGEERF methodology integration:
115 | 
116 | 1. **Context Discovery Protocol** (Phase 1A-1F)
117 | 2. **4 Validation Checkpoints** throughout development
118 | 3. **Project Command Auto-Detection** integration
119 | 4. **Context Memory System** references
120 | 
121 | ## Implementation Instructions
122 | 
123 | 1. **Read Template**: Use the comprehensive template from `/home/minipuft/.claude/context-engineering/templates/comprehensive-claude-md-template.md`
124 | 2. **Project Analysis**: Examine the project structure and characteristics
125 | 3. **Smart Substitution**: Replace template variables with project-specific values
126 | 4. **Command Integration**: Integrate the detected commands from {{ project_commands }}
127 | 5. **Validation Setup**: Configure the 4-phase CAGEERF checkpoint system
128 | 6. **Quality Assurance**: Ensure all 6 development criteria are comprehensively covered
129 | 
130 | ## Expected Output
131 | 
132 | Generate the complete CLAUDE.md file content with:
133 | - ✅ Global SuperClaude integration references
134 | - ✅ All 6 comprehensive development criteria  
135 | - ✅ Enhanced CAGEERF validation checkpoints
136 | - ✅ Project-specific command integration
137 | - ✅ Context memory system integration
138 | - ✅ Session management protocols
139 | 
140 | **File Location**: `{{ project_path }}/CLAUDE.md`
141 | 
142 | Begin generating the comprehensive CLAUDE.md for: `{{ project_name }}`
143 | 
```

--------------------------------------------------------------------------------
/server/scripts/validate-dependencies.js:
--------------------------------------------------------------------------------

```javascript
  1 | #!/usr/bin/env node
  2 | /**
  3 |  * Dependency Validation Script
  4 |  * 
  5 |  * Detects duplicate systems and overlapping functionality that violate
  6 |  * the "Single Source of Truth" principle.
  7 |  */
  8 | 
  9 | import fs from 'fs';
 10 | import path from 'path';
 11 | import { fileURLToPath } from 'url';
 12 | 
 13 | const __filename = fileURLToPath(import.meta.url);
 14 | const __dirname = path.dirname(__filename);
 15 | 
 16 | // Define known system overlaps that should trigger warnings
 17 | const OVERLAP_PATTERNS = [
 18 |   {
 19 |     name: "Execution Systems",
 20 |     files: [
 21 |       "execution/engine.ts",
 22 |       "execution/execution-coordinator.ts", 
 23 |       "execution/unified-prompt-processor.ts"
 24 |     ],
 25 |     warning: "Multiple execution systems detected. Choose ONE primary system and deprecate others."
 26 |   },
 27 |   {
 28 |     name: "Analysis Systems", 
 29 |     files: [
 30 |       "analysis/semantic-analyzer.ts",
 31 |       "analysis/configurable-semantic-analyzer.ts",
 32 |       "frameworks/analysis/framework-consensus-engine.ts",
 33 |       "frameworks/analysis/framework-enhancement-pipeline.ts"
 34 |     ],
 35 |     warning: "Multiple analysis systems detected. Consolidate into single configurable analyzer."
 36 |   },
 37 |   {
 38 |     name: "Runtime/Application Systems",
 39 |     files: [
 40 |       "runtime/application.ts",
 41 |       "orchestration/application-orchestrator.ts",
 42 |       "server/server.ts"
 43 |     ],
 44 |     warning: "Multiple application runtime systems detected. Use ONE unified runtime system."
 45 |   },
 46 |   {
 47 |     name: "MCP Tools Architecture",
 48 |     files: [
 49 |       "mcp-tools/template-generation-tools.ts",
 50 |       "mcp-tools/prompt-management-tools.ts", 
 51 |       "mcp-tools/execution-tools.ts",
 52 |       "mcp-tools/analysis-tools.ts"
 53 |     ],
 54 |     warning: "Legacy fragmented MCP tools detected. Should be consolidated into 3 intelligent tools."
 55 |   }
 56 | ];
 57 | 
 58 | // Scan for files and detect overlaps
 59 | function validateSystemConsolidation() {
 60 |   console.log("🔍 Validating system consolidation...\n");
 61 |   
 62 |   let hasViolations = false;
 63 |   
 64 |   for (const pattern of OVERLAP_PATTERNS) {
 65 |     const existingFiles = [];
 66 |     
 67 |     for (const filePath of pattern.files) {
 68 |       const fullPath = path.join(__dirname, '..', 'src', filePath);
 69 |       if (fs.existsSync(fullPath)) {
 70 |         existingFiles.push(filePath);
 71 |       }
 72 |     }
 73 |     
 74 |     if (existingFiles.length > 1) {
 75 |       hasViolations = true;
 76 |       console.log(`❌ ${pattern.name} VIOLATION:`);
 77 |       console.log(`   Found ${existingFiles.length} overlapping systems:`);
 78 |       existingFiles.forEach(file => console.log(`   - ${file}`));
 79 |       console.log(`   ${pattern.warning}\n`);
 80 |     } else if (existingFiles.length === 1) {
 81 |       console.log(`✅ ${pattern.name}: Single system detected (${existingFiles[0]})`);
 82 |     }
 83 |   }
 84 |   
 85 |   // Validate new consolidated architecture presence
 86 |   console.log("\n🔍 Validating new consolidated architecture...");
 87 |   
 88 |   const REQUIRED_ARCHITECTURE = [
 89 |     {
 90 |       name: "Consolidated MCP Tools",
 91 |       files: [
 92 |         "mcp-tools/prompt-engine/core/engine.ts",
 93 |         "mcp-tools/prompt-manager.ts",
 94 |         "mcp-tools/system-control.ts"
 95 |       ],
 96 |       required: 3
 97 |     },
 98 |     {
 99 |       name: "Methodology Guides",
100 |       files: [
101 |         "frameworks/adapters/cageerf-methodology-guide.ts",
102 |         "frameworks/adapters/react-methodology-guide.ts",
103 |         "frameworks/adapters/5w1h-methodology-guide.ts",
104 |         "frameworks/adapters/scamper-methodology-guide.ts"
105 |       ],
106 |       required: 4
107 |     },
108 |     {
109 |       name: "Framework System",
110 |       files: [
111 |         "frameworks/framework-manager.ts",
112 |         "frameworks/framework-state-manager.ts"
113 |       ],
114 |       required: 2
115 |     },
116 |     {
117 |       name: "Runtime System",
118 |       files: [
119 |         "runtime/application.ts",
120 |         "runtime/startup.ts"
121 |       ],
122 |       required: 2
123 |     }
124 |   ];
125 |   
126 |   let architectureScore = 0;
127 |   for (const archPattern of REQUIRED_ARCHITECTURE) {
128 |     const existingFiles = [];
129 |     
130 |     for (const filePath of archPattern.files) {
131 |       const fullPath = path.join(__dirname, '..', 'src', filePath);
132 |       if (fs.existsSync(fullPath)) {
133 |         existingFiles.push(filePath);
134 |       }
135 |     }
136 |     
137 |     if (existingFiles.length >= archPattern.required) {
138 |       console.log(`✅ ${archPattern.name}: ${existingFiles.length}/${archPattern.required} components found`);
139 |       architectureScore++;
140 |     } else {
141 |       console.log(`❌ ${archPattern.name}: ${existingFiles.length}/${archPattern.required} components found - INCOMPLETE`);
142 |       existingFiles.forEach(file => console.log(`   - ${file}`));
143 |       hasViolations = true;
144 |     }
145 |   }
146 |   
147 |   if (hasViolations) {
148 |     console.log("🚨 SYSTEM CONSOLIDATION VIOLATIONS DETECTED!");
149 |     console.log("   See CLAUDE.md 'System Migration & Deprecation Guidelines' for resolution.");
150 |     process.exit(1);
151 |   } else {
152 |     console.log(`\n✅ All systems properly consolidated! (${architectureScore}/${REQUIRED_ARCHITECTURE.length} architecture patterns validated)`);
153 |   }
154 | }
155 | 
156 | validateSystemConsolidation();
```

--------------------------------------------------------------------------------
/server/src/prompts/types.ts:
--------------------------------------------------------------------------------

```typescript
  1 | /**
  2 |  * Prompt System Type Definitions
  3 |  *
  4 |  * Contains all types related to prompt management, processing, and organization.
  5 |  * This includes prompt data structures, arguments, categories, and file handling.
  6 |  */
  7 | 
  8 | /**
  9 |  * Enhanced argument definition for prompts
 10 |  * Consolidates features from multiple previous definitions
 11 |  */
 12 | export interface PromptArgument {
 13 |   /** Name of the argument */
 14 |   name: string;
 15 |   /** Optional description of the argument */
 16 |   description?: string;
 17 |   /** Whether this argument is required */
 18 |   required: boolean;
 19 |   /** Type of the argument value */
 20 |   type?: 'string' | 'number' | 'boolean' | 'object' | 'array';
 21 |   /** Default value if not provided */
 22 |   defaultValue?: string | number | boolean | null | object | Array<any>;
 23 |   /** Optional CAGEERF component association for framework-aware processing */
 24 |   cageerfComponent?: 'context' | 'analysis' | 'goals' | 'execution' | 'evaluation' | 'refinement' | 'framework';
 25 |   /** Validation rules for the argument */
 26 |   validation?: {
 27 |     /** Regex pattern for string validation */
 28 |     pattern?: string;
 29 |     /** Minimum length for strings */
 30 |     minLength?: number;
 31 |     /** Maximum length for strings */
 32 |     maxLength?: number;
 33 |     /** Allowed values for enumeration */
 34 |     allowedValues?: Array<string | number | boolean>;
 35 |   };
 36 | }
 37 | 
 38 | /**
 39 |  * A category for organizing prompts
 40 |  */
 41 | export interface Category {
 42 |   /** Unique identifier for the category */
 43 |   id: string;
 44 |   /** Display name for the category */
 45 |   name: string;
 46 |   /** Description of the category */
 47 |   description: string;
 48 | }
 49 | 
 50 | /**
 51 |  * Gate definition interface (shared with gates system)
 52 |  */
 53 | export interface GateDefinition {
 54 |   id: string;
 55 |   name: string;
 56 |   type: 'validation' | 'approval' | 'condition' | 'quality';
 57 |   requirements: any[];
 58 |   failureAction: 'stop' | 'retry' | 'skip' | 'rollback';
 59 |   retryPolicy?: {
 60 |     maxRetries: number;
 61 |     retryDelay: number;
 62 |   };
 63 | }
 64 | 
 65 | /**
 66 |  * Complete prompt metadata structure
 67 |  */
 68 | export interface PromptData {
 69 |   /** Unique identifier for the prompt */
 70 |   id: string;
 71 |   /** Display name for the prompt */
 72 |   name: string;
 73 |   /** Category this prompt belongs to */
 74 |   category: string;
 75 |   /** Description of the prompt */
 76 |   description: string;
 77 |   /** Path to the prompt file */
 78 |   file: string;
 79 |   /** Arguments accepted by this prompt */
 80 |   arguments: PromptArgument[];
 81 |   /** Whether this prompt should use available tools */
 82 |   tools?: boolean;
 83 |   /** Defines behavior when prompt is invoked without its defined arguments */
 84 |   onEmptyInvocation?: "execute_if_possible" | "return_template";
 85 |   /** Optional gates for validation */
 86 |   gates?: GateDefinition[];
 87 | }
 88 | 
 89 | /**
 90 |  * Structure of an individual prompt file
 91 |  */
 92 | export interface PromptFile {
 93 |   /** Title of the prompt */
 94 |   title: string;
 95 |   /** Description of the prompt */
 96 |   description: string;
 97 |   /** Optional system message for the prompt */
 98 |   systemMessage?: string;
 99 |   /** Template for generating the user message */
100 |   userMessageTemplate: string;
101 |   /** Whether this prompt should use available tools */
102 |   tools?: boolean;
103 | }
104 | 
105 | /**
106 |  * Structure of the prompts registry file
107 |  */
108 | export interface PromptsFile {
109 |   /** Available categories for organizing prompts */
110 |   categories: Category[];
111 |   /** Available prompts */
112 |   prompts: PromptData[];
113 | }
114 | 
115 | /**
116 |  * Configuration for the prompts subsystem with category imports
117 |  */
118 | export interface PromptsConfigFile {
119 |   /** Available categories for organizing prompts */
120 |   categories: Category[];
121 |   /** Paths to prompts.json files to import from category folders */
122 |   imports: string[];
123 | }
124 | 
125 | /**
126 |  * Configuration for the prompts subsystem
127 |  */
128 | export interface PromptsConfig {
129 |   /** Path to the prompts definition file */
130 |   file: string;
131 | }
132 | 
133 | /**
134 |  * Prompt file content structure
135 |  */
136 | export interface PromptFileContent {
137 |   systemMessage?: string;
138 |   userMessageTemplate: string;
139 |   chainSteps?: ChainStep[];
140 | }
141 | 
142 | /**
143 |  * Result of loading category prompts
144 |  */
145 | export interface CategoryPromptsResult {
146 |   promptsData: PromptData[];
147 |   categories: Category[];
148 | }
149 | 
150 | /**
151 |  * Chain step definition (minimal for prompt context)
152 |  */
153 | export interface ChainStep {
154 |   promptId: string;
155 |   stepName: string;
156 |   executionType?: 'prompt' | 'template';
157 |   inputMapping?: Record<string, string>;
158 |   outputMapping?: Record<string, string>;
159 | }
160 | 
161 | /**
162 |  * Category validation result
163 |  */
164 | export interface CategoryValidationResult {
165 |   isValid: boolean;
166 |   issues: string[];
167 |   warnings: string[];
168 | }
169 | 
170 | /**
171 |  * Category statistics
172 |  */
173 | export interface CategoryStatistics {
174 |   totalCategories: number;
175 |   categoriesWithPrompts: number;
176 |   emptyCategoriesCount: number;
177 |   averagePromptsPerCategory: number;
178 |   categoryBreakdown: Array<{
179 |     category: Category;
180 |     promptCount: number;
181 |   }>;
182 | }
183 | 
184 | /**
185 |  * Category-prompt relationship data
186 |  */
187 | export interface CategoryPromptRelationship {
188 |   categoryId: string;
189 |   categoryName: string;
190 |   promptIds: string[];
191 |   promptCount: number;
192 |   hasChains: boolean;
193 |   hasTemplates: boolean;
194 | }
```

--------------------------------------------------------------------------------
/server/prompts/development/component_flow_analysis.md:
--------------------------------------------------------------------------------

```markdown
  1 | # Component Flow Analysis
  2 | 
  3 | ## Description
  4 | Comprehensive component review that tracks data flow, lifecycle, dependencies, and integration points
  5 | 
  6 | ## User Message Template
  7 | Analyze the following {{framework}} component and provide a comprehensive flow analysis:
  8 | 
  9 | **Component Path**: {{component_path}}
 10 | **Component Code**:
 11 | ```{{language}}
 12 | {{component_code}}
 13 | ```
 14 | 
 15 | ## Analysis Framework
 16 | 
 17 | ### 1. Component Overview
 18 | - **Purpose**: What problem does this component solve?
 19 | - **Type**: Presentational, Container, Higher-Order Component, Hook, etc.
 20 | - **Complexity Level**: Simple, Moderate, Complex
 21 | - **Primary Responsibilities**: List core functions
 22 | 
 23 | ### 2. Data Flow Analysis
 24 | 
 25 | #### Inputs (Props/Parameters)
 26 | - List all props/parameters with types
 27 | - Identify required vs optional inputs
 28 | - Document default values
 29 | - Track prop drilling depth (if applicable)
 30 | 
 31 | #### State Management
 32 | - Local state variables and their purpose
 33 | - External state (Context, Redux, Zustand, etc.)
 34 | - State update triggers and effects
 35 | - State flow diagram (describe transitions)
 36 | 
 37 | #### Outputs
 38 | - Events emitted/callbacks invoked
 39 | - Side effects triggered
 40 | - Data transformations performed
 41 | - Return values or rendered output
 42 | 
 43 | ### 3. Lifecycle & Execution Flow
 44 | 
 45 | #### Initialization Phase
 46 | - Constructor/setup logic
 47 | - Initial data fetching
 48 | - Subscription establishment
 49 | - Effect registration
 50 | 
 51 | #### Update Phase
 52 | - Re-render triggers
 53 | - Update dependencies
 54 | - Optimization strategies (memoization, etc.)
 55 | - Performance considerations
 56 | 
 57 | #### Cleanup Phase
 58 | - Cleanup operations
 59 | - Subscription teardown
 60 | - Memory leak prevention
 61 | - Resource disposal
 62 | 
 63 | ### 4. Dependency Analysis
 64 | 
 65 | #### Internal Dependencies
 66 | - Other components used/imported
 67 | - Utility functions called
 68 | - Custom hooks utilized
 69 | - Internal modules referenced
 70 | 
 71 | #### External Dependencies
 72 | - Third-party libraries
 73 | - API endpoints called
 74 | - External services integrated
 75 | - Browser APIs used
 76 | 
 77 | #### Circular Dependencies
 78 | - Identify any circular dependency risks
 79 | - Suggest refactoring if needed
 80 | 
 81 | ### 5. Integration Points
 82 | 
 83 | #### Parent Components
 84 | - How is this component used by parents?
 85 | - What context does it expect?
 86 | - Required wrapper components
 87 | 
 88 | #### Child Components
 89 | - What components does it render?
 90 | - How does it communicate with children?
 91 | - Data passed down to children
 92 | 
 93 | #### Sibling Communication
 94 | - Event bus usage
 95 | - Shared state access
 96 | - Cross-component messaging
 97 | 
 98 | ### 6. Event Flow & User Interactions
 99 | 
100 | #### User Events Handled
101 | - Click, input, scroll, etc.
102 | - Event handlers and their flow
103 | - Event propagation (bubbling/capturing)
104 | 
105 | #### Custom Events
106 | - Events dispatched by this component
107 | - Event payload structure
108 | - Event consumers
109 | 
110 | #### Async Operations
111 | - API calls and their triggers
112 | - Loading states management
113 | - Error handling flow
114 | - Success/failure callbacks
115 | 
116 | ### 7. Rendering Flow
117 | 
118 | #### Conditional Rendering
119 | - Rendering conditions and branches
120 | - Loading states UI
121 | - Error states UI
122 | - Empty states UI
123 | 
124 | #### Dynamic Content
125 | - List rendering logic
126 | - Dynamic children generation
127 | - Content interpolation
128 | 
129 | #### Performance Optimization
130 | - Memoization usage
131 | - Lazy loading implementation
132 | - Virtual scrolling (if applicable)
133 | - Code splitting points
134 | 
135 | ### 8. Side Effects & External Interactions
136 | 
137 | #### API Interactions
138 | - Endpoints called
139 | - Request/response flow
140 | - Caching strategy
141 | - Error handling
142 | 
143 | #### Browser APIs
144 | - LocalStorage/SessionStorage
145 | - Geolocation, notifications, etc.
146 | - DOM manipulation
147 | - Navigation/routing
148 | 
149 | #### Third-Party Services
150 | - Analytics tracking
151 | - Error monitoring
152 | - Feature flags
153 | - Authentication services
154 | 
155 | ### 9. Data Transformation Pipeline
156 | 
157 | Trace how data flows through the component:
158 | 1. **Input** → What raw data comes in?
159 | 2. **Processing** → How is it transformed?
160 | 3. **Storage** → Where is it stored (if at all)?
161 | 4. **Display** → How is it presented to users?
162 | 5. **Output** → What data/events go out?
163 | 
164 | ### 10. Flow Diagram
165 | 
166 | Provide a text-based flow diagram showing:
167 | - Component initialization
168 | - Data flow paths
169 | - User interaction flows
170 | - Async operation flows
171 | - Cleanup sequences
172 | 
173 | Example format:
174 | ```
175 | User Action (click) 
176 |   → Event Handler (handleSubmit)
177 |     → Validation Logic
178 |       → API Call (submitData)
179 |         → Loading State (setIsLoading: true)
180 |         → Success: Update State → Re-render
181 |         → Error: Show Error Message → Re-render
182 | ```
183 | 
184 | ### 11. Issues & Recommendations
185 | 
186 | #### Potential Issues
187 | - Code smells identified
188 | - Performance bottlenecks
189 | - Accessibility concerns
190 | - Security vulnerabilities
191 | - Maintenance challenges
192 | 
193 | #### Optimization Opportunities
194 | - Refactoring suggestions
195 | - Performance improvements
196 | - Code organization enhancements
197 | - Pattern improvements
198 | 
199 | #### Best Practices Compliance
200 | - Does it follow framework conventions?
201 | - Proper error handling?
202 | - Accessibility implemented?
203 | - Type safety enforced?
204 | 
205 | ## Summary
206 | 
207 | Provide a concise summary including:
208 | - Component health score (1-10)
209 | - Primary data flows identified
210 | - Key integration points
211 | - Critical dependencies
212 | - Recommended next actions
213 | 
```

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/server/src/mcp-tools/prompt-engine/processors/template-processor.ts:
--------------------------------------------------------------------------------

```typescript
  1 | /**
  2 |  * Template Processor - Handles template processing logic
  3 |  *
  4 |  * Extracted from ConsolidatedPromptEngine to provide focused
  5 |  * template processing capabilities with clear separation of concerns.
  6 |  */
  7 | 
  8 | import { processTemplate } from "../../../utils/jsonUtils.js";
  9 | import { ConvertedPrompt } from "../../../types/index.js";
 10 | import { createLogger } from "../../../logging/index.js";
 11 | 
 12 | const logger = createLogger({
 13 |   logFile: '/tmp/template-processor.log',
 14 |   transport: 'stdio',
 15 |   enableDebug: false,
 16 |   configuredLevel: 'info'
 17 | });
 18 | 
 19 | /**
 20 |  * TemplateProcessor handles all template-related processing
 21 |  *
 22 |  * This class provides:
 23 |  * - Template argument processing and validation
 24 |  * - Variable substitution and template rendering
 25 |  * - Template error handling and validation
 26 |  * - Integration with Nunjucks template engine
 27 |  */
 28 | export class TemplateProcessor {
 29 | 
 30 |   /**
 31 |    * Process template with provided arguments
 32 |    */
 33 |   public processTemplate(
 34 |     convertedPrompt: ConvertedPrompt,
 35 |     promptArgs: Record<string, any>
 36 |   ): string {
 37 |     try {
 38 |       logger.debug('🎯 [Template] Processing template with arguments', {
 39 |         promptId: convertedPrompt.id,
 40 |         argsCount: Object.keys(promptArgs).length
 41 |       });
 42 | 
 43 |       const processedContent = processTemplate(convertedPrompt.userMessageTemplate, promptArgs);
 44 | 
 45 |       logger.debug('✅ [Template] Template processed successfully', {
 46 |         promptId: convertedPrompt.id,
 47 |         contentLength: processedContent.length
 48 |       });
 49 | 
 50 |       return processedContent;
 51 |     } catch (error) {
 52 |       logger.error('❌ [Template] Template processing failed', {
 53 |         promptId: convertedPrompt.id,
 54 |         error: error instanceof Error ? error.message : String(error)
 55 |       });
 56 |       throw error;
 57 |     }
 58 |   }
 59 | 
 60 |   /**
 61 |    * Validate template arguments against prompt requirements
 62 |    */
 63 |   public validateTemplateArguments(
 64 |     convertedPrompt: ConvertedPrompt,
 65 |     promptArgs: Record<string, any>
 66 |   ): { isValid: boolean; missingArgs: string[]; errors: string[] } {
 67 |     const missingArgs: string[] = [];
 68 |     const errors: string[] = [];
 69 | 
 70 |     try {
 71 |       // Check required arguments
 72 |       if (convertedPrompt.arguments) {
 73 |         for (const arg of convertedPrompt.arguments) {
 74 |           if (arg.required && !promptArgs.hasOwnProperty(arg.name)) {
 75 |             missingArgs.push(arg.name);
 76 |           }
 77 |         }
 78 |       }
 79 | 
 80 |       // Validate argument types if specified
 81 |       if (convertedPrompt.arguments) {
 82 |         for (const arg of convertedPrompt.arguments) {
 83 |           if (promptArgs.hasOwnProperty(arg.name)) {
 84 |             const value = promptArgs[arg.name];
 85 |             if (!this.validateArgumentType(value, arg.type || 'string')) {
 86 |               errors.push(`Argument '${arg.name}' should be of type '${arg.type}'`);
 87 |             }
 88 |           }
 89 |         }
 90 |       }
 91 | 
 92 |       const isValid = missingArgs.length === 0 && errors.length === 0;
 93 | 
 94 |       logger.debug('🔍 [Template] Argument validation result', {
 95 |         promptId: convertedPrompt.id,
 96 |         isValid,
 97 |         missingArgs,
 98 |         errorsCount: errors.length
 99 |       });
100 | 
101 |       return { isValid, missingArgs, errors };
102 |     } catch (error) {
103 |       logger.error('❌ [Template] Argument validation failed', {
104 |         promptId: convertedPrompt.id,
105 |         error: error instanceof Error ? error.message : String(error)
106 |       });
107 | 
108 |       return {
109 |         isValid: false,
110 |         missingArgs,
111 |         errors: [...errors, `Validation error: ${error instanceof Error ? error.message : String(error)}`]
112 |       };
113 |     }
114 |   }
115 | 
116 |   /**
117 |    * Validate argument type
118 |    */
119 |   private validateArgumentType(value: any, expectedType: string): boolean {
120 |     switch (expectedType.toLowerCase()) {
121 |       case 'string':
122 |         return typeof value === 'string';
123 |       case 'number':
124 |         return typeof value === 'number' && !isNaN(value);
125 |       case 'boolean':
126 |         return typeof value === 'boolean';
127 |       case 'array':
128 |         return Array.isArray(value);
129 |       case 'object':
130 |         return typeof value === 'object' && value !== null && !Array.isArray(value);
131 |       default:
132 |         // Unknown types are considered valid
133 |         return true;
134 |     }
135 |   }
136 | 
137 |   /**
138 |    * Extract template variables from content
139 |    */
140 |   public extractTemplateVariables(content: string | undefined): string[] {
141 |     const variables: string[] = [];
142 | 
143 |     try {
144 |       if (!content) return [];
145 | 
146 |       // Extract Nunjucks-style variables {{variable}}
147 |       const matches = content.match(/\{\{\s*([^}]+)\s*\}\}/g);
148 | 
149 |       if (matches) {
150 |         for (const match of matches) {
151 |           const variable = match.replace(/[\{\}\s]/g, '');
152 |           if (!variables.includes(variable)) {
153 |             variables.push(variable);
154 |           }
155 |         }
156 |       }
157 | 
158 |       logger.debug('🔍 [Template] Extracted template variables', {
159 |         variablesCount: variables.length,
160 |         variables
161 |       });
162 | 
163 |       return variables;
164 |     } catch (error) {
165 |       logger.error('❌ [Template] Variable extraction failed', {
166 |         error: error instanceof Error ? error.message : String(error)
167 |       });
168 |       return [];
169 |     }
170 |   }
171 | }
```

--------------------------------------------------------------------------------
/server/src/mcp-tools/constants.ts:
--------------------------------------------------------------------------------

```typescript
  1 | /**
  2 |  * Constants for MCP Tools
  3 |  *
  4 |  * Centralized constants to avoid duplication and improve maintainability.
  5 |  */
  6 | 
  7 | /**
  8 |  * Tool names
  9 |  */
 10 | export const TOOL_NAMES = {
 11 |   PROMPT_ENGINE: 'prompt_engine',
 12 |   PROMPT_MANAGER: 'prompt_manager',
 13 |   SYSTEM_CONTROL: 'system_control'
 14 | } as const;
 15 | 
 16 | /**
 17 |  * Action types for each tool
 18 |  */
 19 | export const ACTIONS = {
 20 |   PROMPT_MANAGER: {
 21 |     CREATE: 'create',
 22 |     CREATE_PROMPT: 'create_prompt',
 23 |     CREATE_TEMPLATE: 'create_template',
 24 |     UPDATE: 'update',
 25 |     DELETE: 'delete',
 26 |     RELOAD: 'reload',
 27 |     LIST: 'list',
 28 |     INSPECT: 'inspect'
 29 |   },
 30 |   SYSTEM_CONTROL: {
 31 |     STATUS: 'status',
 32 |     FRAMEWORK: 'framework',
 33 |     ANALYTICS: 'analytics',
 34 |     CONFIG: 'config',
 35 |     MAINTENANCE: 'maintenance'
 36 |   }
 37 | } as const;
 38 | 
 39 | /**
 40 |  * Operation types for system control
 41 |  */
 42 | export const SYSTEM_OPERATIONS = {
 43 |   STATUS: {
 44 |     OVERVIEW: 'overview',
 45 |     HEALTH: 'health',
 46 |     DIAGNOSTICS: 'diagnostics',
 47 |     FRAMEWORK_STATUS: 'framework_status'
 48 |   },
 49 |   FRAMEWORK: {
 50 |     SWITCH: 'switch',
 51 |     LIST: 'list',
 52 |     ENABLE: 'enable',
 53 |     DISABLE: 'disable'
 54 |   },
 55 |   ANALYTICS: {
 56 |     VIEW: 'view',
 57 |     RESET: 'reset',
 58 |     HISTORY: 'history'
 59 |   },
 60 |   CONFIG: {
 61 |     GET: 'get',
 62 |     SET: 'set',
 63 |     LIST: 'list',
 64 |     VALIDATE: 'validate',
 65 |     RESTORE: 'restore'
 66 |   },
 67 |   MAINTENANCE: {
 68 |     RESTART: 'restart'
 69 |   }
 70 | } as const;
 71 | 
 72 | /**
 73 |  * Execution modes for prompt engine
 74 |  */
 75 | export const EXECUTION_MODES = {
 76 |   AUTO: 'auto',
 77 |   PROMPT: 'prompt',
 78 |   TEMPLATE: 'template',
 79 |   CHAIN: 'chain'
 80 | } as const;
 81 | 
 82 | /**
 83 |  * Output formats
 84 |  */
 85 | export const OUTPUT_FORMATS = {
 86 |   COMPACT: 'compact',
 87 |   DETAILED: 'detailed',
 88 |   JSON: 'json',
 89 |   MARKDOWN: 'markdown'
 90 | } as const;
 91 | 
 92 | /**
 93 |  * Detail levels for inspection
 94 |  */
 95 | export const DETAIL_LEVELS = {
 96 |   OVERVIEW: 'overview',
 97 |   STEPS: 'steps',
 98 |   STRUCTURE: 'structure',
 99 |   GATES: 'gates',
100 |   FLOW: 'flow',
101 |   ANALYSIS: 'analysis',
102 |   RAW: 'raw',
103 |   FULL: 'full'
104 | } as const;
105 | 
106 | /**
107 |  * Filter operators
108 |  */
109 | export const FILTER_OPERATORS = {
110 |   EQUALS: '=',
111 |   GREATER_THAN: '>',
112 |   LESS_THAN: '<',
113 |   GREATER_EQUAL: '>=',
114 |   LESS_EQUAL: '<=',
115 |   CONTAINS: '~',
116 |   REGEX: '/',
117 |   AND: 'AND',
118 |   OR: 'OR',
119 |   NOT: 'NOT'
120 | } as const;
121 | 
122 | /**
123 |  * Validation patterns
124 |  */
125 | export const VALIDATION_PATTERNS = {
126 |   PROMPT_ID: /^[a-zA-Z0-9_-]+$/,
127 |   SESSION_ID: /^[a-zA-Z0-9_-]+$/,
128 |   ARGUMENT_NAME: /^[a-zA-Z_][a-zA-Z0-9_]*$/,
129 |   EMAIL: /^[^\s@]+@[^\s@]+\.[^\s@]+$/,
130 |   URL: /^https?:\/\/.+/
131 | } as const;
132 | 
133 | /**
134 |  * Error codes
135 |  */
136 | export const ERROR_CODES = {
137 |   VALIDATION_ERROR: 'VALIDATION_ERROR',
138 |   CONFIG_ERROR: 'CONFIG_ERROR',
139 |   FRAMEWORK_ERROR: 'FRAMEWORK_ERROR',
140 |   EXECUTION_ERROR: 'EXECUTION_ERROR',
141 |   NOT_FOUND: 'NOT_FOUND',
142 |   PERMISSION_DENIED: 'PERMISSION_DENIED',
143 |   TIMEOUT: 'TIMEOUT',
144 |   UNKNOWN_ERROR: 'UNKNOWN_ERROR'
145 | } as const;
146 | 
147 | /**
148 |  * Default limits and constraints
149 |  */
150 | export const LIMITS = {
151 |   MAX_NAME_LENGTH: 100,
152 |   MIN_NAME_LENGTH: 1,
153 |   MAX_DESCRIPTION_LENGTH: 500,
154 |   MIN_DESCRIPTION_LENGTH: 10,
155 |   MAX_STEP_NAME_LENGTH: 50,
156 |   MAX_FILTER_RESULTS: 1000,
157 |   DEFAULT_PAGE_SIZE: 20,
158 |   MAX_PAGE_SIZE: 100,
159 |   EXECUTION_TIMEOUT: 30000, // 30 seconds
160 |   CACHE_TTL: 300000 // 5 minutes
161 | } as const;
162 | 
163 | /**
164 |  * Framework types
165 |  */
166 | export const FRAMEWORKS = {
167 |   CAGEERF: 'CAGEERF',
168 |   REACT: 'ReACT',
169 |   FIVE_W_ONE_H: '5W1H',
170 |   SCAMPER: 'SCAMPER'
171 | } as const;
172 | 
173 | /**
174 |  * Category types
175 |  */
176 | export const CATEGORIES = {
177 |   ANALYSIS: 'analysis',
178 |   DEVELOPMENT: 'development',
179 |   CONTENT_PROCESSING: 'content_processing',
180 |   DEBUGGING: 'debugging',
181 |   DOCUMENTATION: 'documentation',
182 |   EDUCATION: 'education',
183 |   RESEARCH: 'research',
184 |   SYSTEM: 'system'
185 | } as const;
186 | 
187 | /**
188 |  * Common error messages
189 |  */
190 | export const ERROR_MESSAGES = {
191 |   REQUIRED_FIELD: (field: string) => `Field '${field}' is required but was not provided`,
192 |   INVALID_FORMAT: (field: string, format: string) => `Field '${field}' must match format: ${format}`,
193 |   LENGTH_CONSTRAINT: (field: string, min: number, max: number) =>
194 |     `Field '${field}' must be between ${min} and ${max} characters`,
195 |   UNKNOWN_ACTION: (action: string, validActions: string[]) =>
196 |     `Unknown action: ${action}. Valid actions: ${validActions.join(', ')}`,
197 |   UNKNOWN_OPERATION: (operation: string, validOperations: string[]) =>
198 |     `Unknown operation: ${operation}. Valid operations: ${validOperations.join(', ')}`,
199 |   NOT_FOUND: (type: string, id: string) => `${type} not found: ${id}`,
200 |   ALREADY_EXISTS: (type: string, id: string) => `${type} already exists: ${id}`
201 | } as const;
202 | 
203 | /**
204 |  * Success messages
205 |  */
206 | export const SUCCESS_MESSAGES = {
207 |   CREATED: (type: string, id: string) => `${type} created successfully: ${id}`,
208 |   UPDATED: (type: string, id: string) => `${type} updated successfully: ${id}`,
209 |   DELETED: (type: string, id: string) => `${type} deleted successfully: ${id}`,
210 |   OPERATION_COMPLETE: (operation: string) => `${operation} completed successfully`
211 | } as const;
212 | 
213 | /**
214 |  * Documentation URLs (when available)
215 |  */
216 | export const DOCUMENTATION = {
217 |   PROMPT_CREATION: '/docs/prompts/creation',
218 |   CHAIN_CREATION: '/docs/prompts/chains',
219 |   FILTERING: '/docs/prompts/filtering',
220 |   FRAMEWORKS: '/docs/frameworks',
221 |   TROUBLESHOOTING: '/docs/troubleshooting'
222 | } as const;
```

--------------------------------------------------------------------------------
/server/prompts/analysis/progressive_research.md:
--------------------------------------------------------------------------------

```markdown
 1 | # Progressive Research Assistant
 2 | 
 3 | ## Description
 4 | A step-by-step research assistant that builds knowledge incrementally through iterative questions and analysis instead of immediately producing a final output.
 5 | 
 6 | ## System Message
 7 | You are an expert research assistant who specializes in building knowledge incrementally through systematic analysis. Instead of immediately producing a final polished output, you work through information methodically, asking follow-up questions, expanding key concepts, and building deeper understanding step-by-step.
 8 | 
 9 | ## User Message Template
10 | Guide the model in creating a detailed and informative response to the provided {{notes}} by conducting step-by-step research.
11 | 
12 | Instead of outputting a final markdown page, use iterative questions and detailed analyses to progressively expand the given information:
13 | 
14 | {{information}}
15 | 
16 | # Goal
17 | 
18 | The objective is to function as a researcher gathering insights and preparing the necessary information incrementally. Ask follow-up questions if any part of the provided notes is unclear or incomplete. Analyze the various topics step-by-step to add depth and context.
19 | 
20 | # Step-by-Step Guide
21 | 
22 | 1. **Understand the Initial Scope**: Review the given `{{notes}}` and identify the major themes and key elements. Start by summarizing what you understand to validate the context. Include concepts, keywords, and areas that may require expansion.
23 | 
24 | 2. **Generate Follow-Up Questions**: Identify the sections or points that need further elaboration. Ask clear and specific follow-up questions to clarify ambiguities. Dive deeper into questions to plan how each part of the research could be compounded into a cohesive and comprehensive whole.
25 | 
26 | 3. **Conduct Iterative Research**: 
27 |     - Perform individual research for each topic listed in `{{notes}}`, breaking down key concepts with respective definitions or details.
28 |     - Expand with additional points, such as its historical background, notable experiments, practical applications, or current and future impacts.
29 |     - If you encounter complex points that need deeper understanding, produce a focused list of additional clarifying questions.
30 | 
31 | 4. **Expand on Key Concepts**: Elaborate on the core topics using reliable sources. For each topic:
32 |     - Present fundamental definitions and concepts.
33 |     - Provide examples illustrating key points—like experiments or use cases.
34 |     - Include related discussions to enrich the understanding of the subject.
35 |   
36 | 5. **Establish Connections Across Topics**: Determine any logical connections between different aspects of `{{notes}}`:
37 |     - Try to bridge gaps between the ideas.
38 |     - Provide continuous notes on transitions and flow for best linking sections during final composition.
39 |   
40 | 6. **Add Insights and Context**: Offer personal analyses, including pros and cons, challenges, or breakthroughs regarding each topic. This exploration adds value by providing a more nuanced understanding.
41 |     - Explore implications and real-world significance of topics.
42 |     - Pose relevant questions to stimulate deeper inquiry or highlight potential challenges.
43 | 
44 | 7. **Document the Process Regularly**: Keep a record of your findings, proposed connections, and unanswered questions. Consider suggesting the layout or ordering for a potential final output.
45 | 
46 | # Output Format
47 | 
48 | - **Iterative Questions and Expansion Responses**: 
49 |   - For each identified gap or ambiguity, ask one or more follow-up questions to seek more detailed information.
50 |   - For each research topic or subtopic, provide structured notes, expanding on the definition, explanation, and examples.
51 |   - Use bullet points or numbered lists for easier comprehension.
52 |   - Recommendations for any additional areas requiring deeper research can be added in bullet format.
53 | 
54 | - **Examples of Output**: A structured list of iterative questions followed by researched notes:
55 |     1. **Initial Assessment and Understanding**:
56 |         - Questions: "What are the major theoretical implications of wave-particle duality?" "Can we include historical background on the experimentation that led to superposition?"
57 |         - Answers: "Wave-particle duality shows the dual behavior of particles (e.g., electrons behave as both waves and particles depending on the situation)."
58 |      
59 |     2. **Further Context Expansion**:
60 |         - Key Concept: **Double-Slit Experiment**.
61 |           - "The experiment reveals substantial insights about how particles interfere with each other, which is core to understanding wave-particle duality."
62 | 
63 | # Notes
64 | 
65 | 1. Focus on gradually accumulating enough content to transition effectively to writing a complete Markdown description. The approach should help generate in-depth content ready for logical conversion into explanative structures.
66 |    
67 | 2. This step-by-step progression can continue until there's sufficient information on each key aspect of `{{notes}}`. The goal is to cover fundamental points as well as nuanced topics that add helpful detail, allowing an easy transition into structured Markdown content in a subsequent step.
68 | 
69 | 3. List additional open threads and related questions that might require attention to ensure completeness. 
```

--------------------------------------------------------------------------------
/server/src/types.ts:
--------------------------------------------------------------------------------

```typescript
  1 | /**
  2 |  * Type definitions for the prompt management system
  3 |  */
  4 | 
  5 | // Import domain-specific types
  6 | import type { GateDefinition } from './gates/types.js';
  7 | import type { PromptArgument, Category, PromptData, PromptsFile, PromptFile, PromptsConfigFile, PromptsConfig } from './prompts/types.js';
  8 | 
  9 | // ===== Configuration Types =====
 10 | 
 11 | /**
 12 |  * Configuration for the server
 13 |  */
 14 | export interface ServerConfig {
 15 |   /** Name of the server */
 16 |   name: string;
 17 |   /** Version string in semver format */
 18 |   version: string;
 19 |   /** Port number to listen on (1024-65535) */
 20 |   port: number;
 21 | }
 22 | 
 23 | // PromptsConfig interface moved to ./prompts/types.ts
 24 | // (imported directly above)
 25 | 
 26 | /**
 27 |  * Configuration for a transport
 28 |  */
 29 | export interface TransportConfig {
 30 |   /** Whether this transport is enabled */
 31 |   enabled: boolean;
 32 | }
 33 | 
 34 | /**
 35 |  * Configuration for all transports
 36 |  */
 37 | export interface TransportsConfig {
 38 |   /** Name of the default transport to use */
 39 |   default: string;
 40 |   /** Server-sent events transport configuration */
 41 |   sse: TransportConfig;
 42 |   /** Standard I/O transport configuration */
 43 |   stdio: TransportConfig;
 44 |   /** Custom transports map */
 45 |   customTransports?: Record<string, TransportConfig>;
 46 |   // Removed: Index signature for backwards compatibility - use customTransports instead
 47 | }
 48 | 
 49 | /**
 50 |  * Analysis mode for semantic analysis
 51 |  * Mode is automatically inferred based on LLM integration configuration
 52 |  */
 53 | export type AnalysisMode = "structural" | "semantic";
 54 | 
 55 | /**
 56 |  * LLM provider for semantic analysis
 57 |  */
 58 | export type LLMProvider = "openai" | "anthropic" | "custom";
 59 | 
 60 | /**
 61 |  * LLM integration configuration
 62 |  */
 63 | export interface LLMIntegrationConfig {
 64 |   /** Whether LLM integration is enabled */
 65 |   enabled: boolean;
 66 |   /** API key for the LLM provider */
 67 |   apiKey: string | null;
 68 |   /** Custom endpoint URL for the LLM provider (provider auto-detected from URL) */
 69 |   endpoint: string | null;
 70 |   /** Model name to use */
 71 |   model: string;
 72 |   /** Maximum tokens for analysis requests */
 73 |   maxTokens: number;
 74 |   /** Temperature for analysis requests */
 75 |   temperature: number;
 76 | }
 77 | 
 78 | 
 79 | /**
 80 |  * Semantic analysis configuration
 81 |  */
 82 | export interface SemanticAnalysisConfig {
 83 |   /** Analysis mode to use (automatically inferred if not specified) */
 84 |   mode?: AnalysisMode;
 85 |   /** LLM integration configuration */
 86 |   llmIntegration: LLMIntegrationConfig;
 87 | }
 88 | 
 89 | /**
 90 |  * Analysis system configuration
 91 |  */
 92 | export interface AnalysisConfig {
 93 |   /** Semantic analysis configuration */
 94 |   semanticAnalysis: SemanticAnalysisConfig;
 95 | }
 96 | 
 97 | /**
 98 |  * Logging system configuration
 99 |  */
100 | export interface LoggingConfig {
101 |   /** Directory to write log files to */
102 |   directory: string;
103 |   /** Log level: debug, info, warn, error */
104 |   level: string;
105 | }
106 | 
107 | // Removed: FrameworkConfig - deprecated interface, framework state now managed at runtime
108 | 
109 | /**
110 |  * Tool descriptions configuration options
111 |  */
112 | export interface ToolDescriptionsOptions {
113 |   /** Whether to restart server when tool descriptions change */
114 |   restartOnChange?: boolean;
115 | }
116 | 
117 | /**
118 |  * Complete application configuration
119 |  */
120 | /**
121 |  * Configuration for gates subsystem
122 |  */
123 | export interface GatesConfig {
124 |   /** Directory containing gate definitions */
125 |   definitionsDirectory: string;
126 |   /** Directory containing LLM validation templates */
127 |   templatesDirectory: string;
128 | }
129 | 
130 | export interface Config {
131 |   /** Server configuration */
132 |   server: ServerConfig;
133 |   /** Prompts subsystem configuration */
134 |   prompts: PromptsConfig;
135 |   /** Analysis system configuration */
136 |   analysis?: AnalysisConfig;
137 |   /** Gates system configuration */
138 |   gates?: GatesConfig;
139 |   /** Transports configuration */
140 |   transports: TransportsConfig;
141 |   /** Logging configuration */
142 |   logging?: LoggingConfig;
143 |   /** Tool descriptions configuration */
144 |   toolDescriptions?: ToolDescriptionsOptions;
145 | }
146 | 
147 | // ===== Prompt Types =====
148 | // Moved to ./prompts/types.ts for domain organization
149 | // Re-export for backward compatibility
150 | export type { PromptArgument } from './prompts/types.js';
151 | 
152 | /**
153 |  * Base interface for message content
154 |  */
155 | export interface BaseMessageContent {
156 |   /** Type discriminator for the content */
157 |   type: string;
158 | }
159 | 
160 | /**
161 |  * Text message content
162 |  */
163 | export interface TextMessageContent extends BaseMessageContent {
164 |   /** Type discriminator set to "text" */
165 |   type: "text";
166 |   /** The text content */
167 |   text: string;
168 | }
169 | 
170 | /**
171 |  * Types of message content supported by the system
172 |  * Extensible for future content types
173 |  */
174 | export type MessageContent = TextMessageContent;
175 | 
176 | /**
177 |  * Role types for messages
178 |  */
179 | export type MessageRole = "user" | "assistant" | "system";
180 | 
181 | /**
182 |  * A message in a conversation
183 |  */
184 | export interface Message {
185 |   /** Role of the message sender */
186 |   role: MessageRole;
187 |   /** Content of the message */
188 |   content: MessageContent;
189 | }
190 | 
191 | // Category interface moved to ./prompts/types.ts
192 | export type { Category } from './prompts/types.js';
193 | 
194 | // PromptData interface moved to ./prompts/types.ts
195 | export type { PromptData } from './prompts/types.js';
196 | 
197 | // PromptsFile interface moved to ./prompts/types.ts
198 | export type { PromptsFile } from './prompts/types.js';
199 | 
200 | // PromptFile interface moved to ./prompts/types.ts
201 | export type { PromptFile } from './prompts/types.js';
202 | 
203 | // PromptsConfigFile interface moved to ./prompts/types.js
204 | export type { PromptsConfigFile } from './prompts/types.js';
205 | 
```

--------------------------------------------------------------------------------
/server/prompts/content_processing/noteIntegration.md:
--------------------------------------------------------------------------------

```markdown
  1 | # Advanced Note Integration with Content Analysis Chain
  2 | 
  3 | ## Description
  4 | Advanced workflow that runs a comprehensive content analysis chain to transform raw content into publication-ready, interconnected notes optimized for Obsidian knowledge management systems. Uses intelligent defaults - only pass the content argument.
  5 | 
  6 | ## System Message
  7 | You are executing a sophisticated content analysis chain that transforms raw content into publication-ready Obsidian notes. Follow the S.P.A.R.C. methodology (Strategic Personal Archive with Refined Connectivity) and C.A.G.E.E.R.F framework. Each step builds upon the previous one to create comprehensive, interconnected knowledge assets. Use intelligent defaults for all optional parameters.
  8 | 
  9 | ## User Message Template
 10 | Execute a comprehensive content analysis chain to transform raw content into publication-ready, interconnected notes optimized for Obsidian knowledge management.
 11 | 
 12 | ## Content Analysis Chain Workflow
 13 | 
 14 | ### Input Content
 15 | {{content}}
 16 | 
 17 | {% if existing_notes %}
 18 | ### Existing Notes Context
 19 | {{existing_notes}}
 20 | {% endif %}
 21 | 
 22 | {% if vault_context %}
 23 | ### Vault Context
 24 | {{vault_context}}
 25 | {% endif %}
 26 | 
 27 | ### Processing Configuration (Using Intelligent Defaults)
 28 | - **Domain**: {{domain or 'general'}}
 29 | - **Analysis Depth**: {{analysis_depth or 'comprehensive'}}
 30 | - **Structure Type**: {{structure_type or 'comprehensive'}}
 31 | - **Integration Level**: {{integration_level or 'advanced'}}
 32 | - **Target Readability**: {{target_readability or 'comprehensive'}}
 33 | - **Metadata Depth**: {{metadata_depth or 'advanced'}}
 34 | - **Quality Standards**: {{quality_standards or 'comprehensive'}}
 35 | - **Enhancement Level**: {{enhancement_level or 'comprehensive'}}
 36 | 
 37 | ### Expected Output
 38 | This workflow will produce a sophisticated, publication-ready note that:
 39 | - Preserves all original insights while adding professional structure
 40 | - Leverages advanced Obsidian features (callouts, multi-column layouts, metadata)
 41 | - Creates meaningful connections with existing vault content
 42 | - Follows S.P.A.R.C. methodology for strategic knowledge management
 43 | - Implements C.A.G.E.E.R.F framework for structured analysis
 44 | - Meets professional documentation standards
 45 | 
 46 | Execute the chain workflow to transform the provided content into an enhanced, integrated note ready for your Obsidian knowledge management system.
 47 | 
 48 | ## Chain Steps
 49 | 
 50 | 1. promptId: content_preservation_analysis
 51 |    stepName: Content Preservation Analysis
 52 |    inputMapping:
 53 |      content: content
 54 |      existing_content: existing_notes
 55 |      analysis_depth: analysis_depth
 56 |    outputMapping:
 57 |      analyzed_content: preserved_analysis
 58 | 
 59 | 2. promptId: layered_note_structure
 60 |    stepName: Layered Note Structure Creation
 61 |    inputMapping:
 62 |      analyzed_content: preserved_analysis
 63 |      vault_context: vault_context
 64 |      structure_type: structure_type
 65 |    outputMapping:
 66 |      structured_content: layered_structure
 67 | 
 68 | 3. promptId: smart_content_refinement
 69 |    stepName: Smart Content Refinement
 70 |    inputMapping:
 71 |      raw_content: layered_structure
 72 |      vault_context: vault_context
 73 |      integration_level: integration_level
 74 |      target_readability: target_readability
 75 |    outputMapping:
 76 |      refined_content: smart_refined
 77 | 
 78 | 4. promptId: obsidian_metadata_optimizer
 79 |    stepName: Obsidian Metadata Optimization
 80 |    inputMapping:
 81 |      note_content: smart_refined
 82 |      vault_structure: vault_context
 83 |      metadata_depth: metadata_depth
 84 |    outputMapping:
 85 |      optimized_content: metadata_optimized
 86 | 
 87 | 5. promptId: vault_integration_optimizer
 88 |    stepName: Vault Integration Optimization
 89 |    inputMapping:
 90 |      note_content: metadata_optimized
 91 |      vault_structure: vault_context
 92 |      integration_level: integration_level
 93 |    outputMapping:
 94 |      integrated_content: vault_integrated
 95 | 
 96 | 6. promptId: note_quality_assurance
 97 |    stepName: Quality Assurance
 98 |    inputMapping:
 99 |      note_content: vault_integrated
100 |      original_source: content
101 |      quality_standards: quality_standards
102 |    outputMapping:
103 |      quality_assured: qa_content
104 | 
105 | 7. promptId: format_enhancement
106 |    stepName: Format Enhancement
107 |    inputMapping:
108 |      existing_content: qa_content
109 |      domain: domain
110 |      enhancement_level: enhancement_level
111 |    outputMapping:
112 |      final_note: enhanced_note
113 | 
114 | ## Chain Steps
115 | 
116 | 1. **Initial Content Analysis** (content_analysis)
117 |    - Input Mapping: {"content":"content"}
118 |    - Output Mapping: {"analysis_output":"step_0_output"}
119 | 
120 | 2. **Find Related Vault Notes** (vault_related_notes_finder)
121 |    - Input Mapping: {"note_topic":"content","content_areas":"analysis_output"}
122 |    - Output Mapping: {"related_notes":"step_1_output"}
123 | 
124 | 3. **Integrate Content with Existing Notes** (note_integration)
125 |    - Input Mapping: {"notes":"existing_notes","new_information":"analysis_output"}
126 |    - Output Mapping: {"integrated_content":"step_2_output"}
127 | 
128 | 4. **Optimize Metadata** (obsidian_metadata_optimizer)
129 |    - Input Mapping: {"note_content":"integrated_content","vault_structure":"vault_context"}
130 |    - Output Mapping: {"metadata_optimized":"step_3_output"}
131 | 
132 | 5. **Enhance Formatting** (format_enhancement)
133 |    - Input Mapping: {"existing_content":"metadata_optimized","domain":"domain"}
134 |    - Output Mapping: {"enhanced_content":"step_4_output"}
135 | 
136 | 6. **Final Refinement** (note_refinement)
137 |    - Input Mapping: {"notes":"enhanced_content"}
138 |    - Output Mapping: {"final_output":"step_5_output"}
139 | 
140 | 
```
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