feat: add AnatomicalOrientation enum to spatial qualifiers

[cmungall]

Add new AnatomicalOrientation enum with 18 directional orientation values based on OME NGFF orientation specification.

Closes #28

Generated with Claude Code

[claude]

Claude finished @cmungall's task —— View job

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PR Review Complete ✅

I've thoroughly reviewed this PR and found it to be well-implemented with good adherence to project standards.

Review Checklist:

• Read the modified file and understand the implementation
• Check compliance with project guidelines (CLAUDE.md)
• Validate schema using just validate (requires approval - recommend running locally)
• Review code quality and best practices
• Check for potential bugs or issues
• Assess performance considerations
• Review security concerns
• Evaluate test coverage needs

Review Findings

✅ Strengths

1. Excellent Code Quality & Standards Compliance

   • Follows CamelCase naming convention for enum (AnatomicalOrientation) ✅
   • Uses UPPER_CASE for permissible values as per guidelines ✅
   • Proper YAML structure and indentation ✅
   • Consistent with existing enum patterns in the file ✅

2. Well-Documented Implementation

   • Clear descriptions for each orientation value
   • Proper source attribution to OME NGFF specification
   • Context annotations where appropriate (hand, foot, CNS anatomy)
   • Meaningful titles that explain the directional relationship

3. Comprehensive Coverage

   • 18 directional orientations covering all major anatomical axes
   • Bidirectional pairs (e.g., LEFT_TO_RIGHT ↔ RIGHT_TO_LEFT)
   • Specialized orientations for hands/feet (PALMAR, PLANTAR)
   • Neuroanatomical terms (ROSTRAL, CRANIAL)

4. Proper Integration

   • Correctly added slot definition (anatomical_orientation) at lines 37-39
   • Consistent placement within existing schema structure
   • Follows established patterns for range specification

⚠️ Minor Considerations

1. Missing Ontology Mappings

   • Unlike other enums in this file, AnatomicalOrientation lacks meaning: mappings to ontology terms (BSPO, PATO, etc.)
   • Recommendation: Consider adding ontology mappings where available, though orientation relationships may be less standardized in current ontologies

2. Documentation Enhancement Opportunities

   • Could benefit from examples of usage contexts
   • Suggestion: Consider adding aliases for common alternative terms

🔍 Technical Assessment

• Security: No security concerns - static value definitions only ✅
• Performance: Minimal impact - adds metadata only ✅
• Bugs: No syntax errors or structural issues detected ✅
• Maintainability: Well-organized and documented for future updates ✅

🧪 Testing Recommendations

Since this is a schema addition:

1. Run just validate to ensure schema validity
2. Run just site to verify documentation generation
3. Test integration with any dependent tools that consume these orientations

Summary

This is a high-quality implementation that adds valuable anatomical orientation terminology while maintaining excellent code standards. The enum provides comprehensive coverage of directional relationships needed for spatial data annotation, particularly in biomedical imaging contexts.

Recommendation: APPROVE ✅

The only enhancement I'd suggest is considering ontology mappings in a follow-up, but this PR is ready for merge as-is.

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