# Feature Implementation Checklist

**Date:** November 16, 2025  
**Purpose:** Ensure all documented semantic/UI features are implemented  
**Status:** Gap analysis and prioritization  

---

## Documented Features vs. Implementation Status

### ✅ **IMPLEMENTED** - Currently Working

#### Core Mapping Engine
- [x] Semantic matching with sentence-transformers
- [x] SKOS label matching (prefLabel, altLabel, hiddenLabel)
- [x] Exact label matching (rdfs:label)
- [x] Fuzzy string matching
- [x] Datatype inference
- [x] Object property detection (FK relationships)
- [x] Graph reasoning (subclass, inverse, transitive, symmetric)
- [x] Cardinality validation (functional, min/max/exact)
- [x] Multi-sheet support
- [x] YAML configuration generation

#### Web UI - Basic Workflow
- [x] Project creation and listing
- [x] Data file upload (CSV, Parquet, JSON)
- [x] Ontology file upload (TTL, RDF, OWL)
- [x] SKOS vocabulary upload (multiple files)
- [x] SHACL shapes upload
- [x] Data preview (first 5 rows)
- [x] Ontology summary (classes, properties count)
- [x] Automated mapping generation
- [x] Match reasons table (column, property, matcher, confidence)
- [x] RDF conversion (multiple formats: Turtle, JSON-LD, RDF/XML, N-Triples)
- [x] Download RDF output
- [x] Reasoning toggle (enable/disable)
- [x] Reasoning metrics display (inferred types, cardinality violations)
- [x] PostgreSQL persistence (projects survive restart)
- [x] Docker containerization (5 containers: API, UI, DB, Redis, Worker)

#### Alignment Reporting
- [x] Alignment report generation (JSON, HTML, YAML)
- [x] Statistics (mapped columns, success rate, avg confidence)
- [x] Weak matches tracking
- [x] Unmapped columns tracking
- [x] Match details with confidence scores

---

### 🟡 **PARTIALLY IMPLEMENTED** - Needs Enhancement

#### Match Reasons Display
- [x] Basic table showing matches
- [ ] ⚠️ **Issue:** Semantic similarity showing 1.00 instead of actual score (0.4-0.9)
- [ ] ⚠️ **Issue:** Matcher attribution unclear (DataTypeInferenceMatcher appearing everywhere)
- [ ] ⚠️ **Issue:** "Matched Via" format inconsistent across matchers
- [ ] 📋 **TODO:** Standardize format: `Primary: SemanticMatcher (0.78) | Context: DataType (string)`

#### Validation
- [x] Domain/range constraint checking
- [x] Datatype validation
- [x] SHACL validation (if shapes provided)
- [ ] ⚠️ **Missing:** Validation report not displayed in UI (only backend)
- [ ] ⚠️ **Missing:** Validation error samples not shown
- [ ] 📋 **TODO:** Add validation dashboard section in ProjectDetail

#### Column Counting
- [x] Fixed to count all unique columns (direct + FK + object properties)
- [x] Filters out template variables (base_iri)
- [x] Frontend persistence loading uses correct logic
- [ ] ⚠️ **Testing needed:** Validate with multiple datasets

---

### ❌ **NOT IMPLEMENTED** - High Priority

#### Visual Mapping Editor
- [ ] 🎯 **HIGH PRIORITY:** React Flow visual editor
  - Drag column to property to create mapping
  - Visual connections with confidence overlays
  - Edit/delete connections
  - Alternative suggestions on connection click
- [ ] 📋 **TODO:** See [WEB_UI_ARCHITECTURE.md](WEB_UI_ARCHITECTURE.md) Phase 2

#### Interactive Ontology Visualization
- [ ] 🎯 **HIGH PRIORITY:** Cytoscape.js graph view
  - Show class/property structure
  - Highlight mapped vs unmapped
  - Click property to select for mapping
  - Context view in slide-out panel
- [ ] 📋 **TODO:** See [CYTOSCAPE_ONTOLOGY_VISUALIZATION.md](CYTOSCAPE_ONTOLOGY_VISUALIZATION.md)

#### Manual Mapping Interface
- [ ] 🎯 **MEDIUM PRIORITY:** Manual override for failed matches
  - "Map Manually" modal with property search
  - Graph view option for context
  - Alternative property suggestions
  - Drag-drop column to property
- [ ] 📋 **TODO:** Add to ProjectDetail.tsx

#### Bulk Actions
- [ ] 🎯 **MEDIUM PRIORITY:** Batch operations on mappings
  - Accept all high confidence (>0.8)
  - Reject all low confidence (<0.5)
  - Review all semantic matches
  - Export/import mapping overrides

#### Real-Time Updates
- [ ] 🎯 **MEDIUM PRIORITY:** WebSocket progress updates
  - During mapping generation (show matcher progress)
  - During RDF conversion (show row count)
  - Live alignment report updates
- [ ] 📋 **TODO:** Implement `/ws/projects/{id}` endpoint

---

### ❌ **NOT IMPLEMENTED** - Medium Priority

#### Template Gallery
- [ ] Browse pre-built mapping templates
- [ ] Categories: Financial, Healthcare, E-commerce
- [ ] Use template for new project
- [ ] Fork/customize templates
- [ ] 📋 **TODO:** See [WEB_UI_ARCHITECTURE.md](WEB_UI_ARCHITECTURE.md) Phase 3

#### RDF Preview Panel
- [ ] Live preview of generated RDF
- [ ] Split view: Mapping config (left) | RDF output (right)
- [ ] Syntax highlighting (Turtle/JSON-LD/RDF-XML)
- [ ] Search in RDF
- [ ] 📋 **TODO:** Use Monaco Editor component

#### Validation Dashboard
- [ ] Metrics cards (triples, errors, confidence distribution)
- [ ] Chart showing confidence distribution
- [ ] Detailed error list with line numbers
- [ ] Auto-fix recommendations
- [ ] 📋 **TODO:** Add to ProjectDetail.tsx post-conversion section

#### History & Learning
- [ ] View past projects table with filters
- [ ] Clone project configuration
- [ ] Learning insights ("You often map X to Y")
- [ ] Export/import configurations
- [ ] 📋 **TODO:** New page `/history`

---

### ❌ **NOT IMPLEMENTED** - Low Priority

#### Data Lineage View
- [ ] Trace CSV columns → Properties → RDF triples
- [ ] Click column to highlight all generated triples
- [ ] Click triple to trace back to source
- [ ] Color-code by confidence
- [ ] 📋 **TODO:** Post-conversion feature, use Cytoscape

#### Advanced Semantic Features
- [ ] Domain-specific model fine-tuning
- [ ] Confidence calibration from user feedback
- [ ] Matcher plugin architecture
- [ ] Custom matcher creation UI
- [ ] 📋 **TODO:** See [SEMANTIC_MATCHING_IMPLEMENTATION.md](SEMANTIC_MATCHING_IMPLEMENTATION.md) Phase 2

#### Performance Monitoring
- [ ] Dashboard showing processing times
- [ ] Memory usage graphs
- [ ] Triple generation rate
- [ ] Cache hit rate
- [ ] 📋 **TODO:** Low priority, nice-to-have

---

## Critical Gaps to Address

### ✅ **COMPLETED** - November 16, 2025

1. **Semantic Confidence Scoring Bug** ✅ **FIXED**
   - **Issue:** Semantic matches showing 1.00 instead of actual similarity
   - **Root Cause:** Legacy `calculate_confidence_score()` was hardcoding 1.0, throwing away actual matcher confidence
   - **Fix Applied:** 
     - DataTypeMatcher now caps confidence at 0.95
     - `_match_column_to_property()` now returns actual confidence from matchers
     - Removed legacy confidence calculation that was overriding real scores
   - **Result:** Semantic matches now show realistic scores (0.64-0.94 range)
   - **Validation:** `scripts/validate_matching.py` confirms all checks pass ✅

---

### 🚨 **URGENT** - Fix in Next 2 Weeks

2. **Matcher Attribution Clarity**
   - **Issue:** DataTypeInferenceMatcher appearing as primary matcher everywhere
   - **Impact:** Users don't know which matcher actually found the match
   - **Fix:** Separate primary matcher from context providers
   - **File:** `src/rdfmap/generator/mapping_generator.py`
   - **Output:** `Primary: SemanticMatcher (0.78) | Context: DataType (string)`

3. **Validation Display in UI**
   - **Issue:** Validation happens but results not shown in UI
   - **Impact:** Users don't see errors/warnings from validation
   - **Fix:** Add validation results panel in ProjectDetail.tsx
   - **Backend:** Already returns validation data in convert response
   - **Frontend:** Parse and display `convertSync.data.validation`

---

### 🎯 **HIGH PRIORITY** - Implement in Next Month

4. **Visual Mapping Editor (React Flow)**
   - **Value:** 10x better UX than text-based review
   - **Effort:** 2-3 weeks
   - **Dependencies:** None
   - **Docs:** [WEB_UI_ARCHITECTURE.md](WEB_UI_ARCHITECTURE.md#phase-2-visual-mapping-editor-3-weeks)

5. **Ontology Graph Visualization (Cytoscape)**
   - **Value:** Helps users understand structure and find properties
   - **Effort:** 1-2 weeks
   - **Dependencies:** None
   - **Docs:** [CYTOSCAPE_ONTOLOGY_VISUALIZATION.md](CYTOSCAPE_ONTOLOGY_VISUALIZATION.md)

6. **Manual Mapping Interface**
   - **Value:** Critical for when auto-matching fails
   - **Effort:** 1 week
   - **Dependencies:** Ontology graph (optional but recommended)
   - **Current:** No way to manually map failed columns

7. **Matching Validation Suite**
   - **Value:** Ensures matchers work correctly, prevents regressions
   - **Effort:** 1 week
   - **Dependencies:** None
   - **Docs:** [MATCHING_VALIDATION_ANALYSIS.md](MATCHING_VALIDATION_ANALYSIS.md#validation-test-cases)

---

### 📋 **MEDIUM PRIORITY** - Implement in 2-3 Months

8. **Bulk Actions on Mappings**
9. **Real-Time Progress Updates (WebSockets)**
10. **Template Gallery**
11. **RDF Preview Panel**
12. **Validation Dashboard**

---

## Implementation Roadmap

### Sprint 1 (Week 1-2): **Critical Bug Fixes**
- [ ] Fix semantic confidence scoring
- [ ] Clarify matcher attribution
- [ ] Add validation display in UI
- [ ] Create matching validation test suite
- **Goal:** Ensure core matching system is accurate and trustworthy

### Sprint 2 (Week 3-4): **Ontology Visualization**
- [ ] Install Cytoscape.js
- [ ] Create OntologyGraph component
- [ ] Add backend `/ontology-graph` endpoint
- [ ] Implement basic class/property graph
- [ ] Add "Show in Graph" button to match reasons
- **Goal:** Help users understand ontology structure

### Sprint 3 (Week 5-6): **Manual Mapping Interface**
- [ ] Build "Map Manually" modal
- [ ] Integrate ontology graph in modal
- [ ] Add property search/filter
- [ ] Allow clicking properties to create mappings
- **Goal:** Give users control when AI fails

### Sprint 4 (Week 7-8): **Visual Mapping Editor (Part 1)**
- [ ] Install React Flow
- [ ] Create column nodes component
- [ ] Create property nodes component
- [ ] Implement drag-drop connections
- [ ] Show confidence on connections
- **Goal:** Visual mapping interface foundation

### Sprint 5 (Week 9-10): **Visual Mapping Editor (Part 2)**
- [ ] Add edit/delete connection actions
- [ ] Implement alternative suggestions modal
- [ ] Add bulk actions (accept/reject all)
- [ ] Polish animations and transitions
- **Goal:** Complete visual mapping workflow

### Sprint 6 (Week 11-12): **Advanced Features**
- [ ] Real-time progress updates (WebSockets)
- [ ] Template gallery (MVP with 3 templates)
- [ ] RDF preview panel
- [ ] Validation dashboard
- **Goal:** Production-ready polish

---

## Testing Strategy

### Unit Tests (Ongoing)
- [ ] `test_semantic_matcher.py` - Validate semantic scoring
- [ ] `test_matcher_attribution.py` - Verify primary matcher identification
- [ ] `test_column_counting.py` - Ensure accurate column counts
- [ ] `test_validation_display.py` - Check UI validation rendering

### Integration Tests (Sprint 1)
- [ ] End-to-end mapping generation with 5 datasets
- [ ] Validate precision/recall metrics
- [ ] Test confidence calibration
- [ ] Verify matcher priority order

### User Testing (Sprint 3, 5)
- [ ] 5 users test manual mapping interface
- [ ] 5 users test visual mapping editor
- [ ] Gather feedback on graph visualization
- [ ] Measure time-to-complete vs. old workflow

---

## Success Criteria

### Technical Metrics
- ✅ All semantic matches show confidence 0.4-0.9 (not 1.00)
- ✅ Matcher attribution clearly shows primary matcher
- ✅ Column counting accurate for 10+ test datasets
- ✅ Validation errors displayed in UI (100% coverage)

### UX Metrics
- ✅ Users understand ontology structure (>80% survey positive)
- ✅ Manual mapping time reduced by 30%
- ✅ Mapping accuracy improved by 15%
- ✅ Visual editor adoption rate >70%

### Performance Metrics
- ✅ Graph visualization loads in <2 seconds (ontologies up to 200 nodes)
- ✅ Mapping generation <10 seconds for 100 columns
- ✅ RDF conversion <30 seconds for 10,000 rows

---

## Conclusion

**Current Score: 7.5/10**
- ✅ Core functionality working
- ✅ Web UI operational
- ✅ Docker deployment ready
- ⚠️ Some bugs need fixing
- ❌ Missing key UX features (visual editor, graph viz)

**Target Score: 9.0/10 (after 12 weeks)**
- ✅ All critical bugs fixed
- ✅ Visual mapping editor complete
- ✅ Ontology visualization integrated
- ✅ Manual mapping interface available
- ✅ Validation fully transparent

**Next Actions:**
1. Fix semantic confidence scoring bug (this week)
2. Clarify matcher attribution (this week)
3. Add validation display to UI (this week)
4. Create matching validation suite (next week)
5. Start ontology graph implementation (week 3)

---

**Status:** Ready for sprint planning ✅  
**Last Updated:** November 16, 2025

