stemedb

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Author	SHA1	Message	Date
jml	9bfa626203	docs: reorganize documentation structure for clarity Major documentation restructure to improve discoverability and reduce duplication. ## Changes Deleted (Archived/Consolidated): - Removed duplicate getting started guides - Archived outdated planning documents - Consolidated corpus and configuration docs - Removed obsolete vision/spec files (superseded by vision.md) - Cleaned up scrapyard and old PDFs New Structure: - docs/about/ - Project overview and introduction - docs/guides/ - User guides (moved from root) - docs/specs/ - Technical specifications - docs/sdk/ - SDK documentation (Go) - docs/references/ - API references - docs/archive/ - Archived historical docs - applications/aphoria/docs/advanced/ - Advanced topics - applications/aphoria/docs/reference/ - CLI reference - applications/aphoria/docs/archive/ - Archived aphoria docs Updated: - README.md - New root README with clear navigation - CONTRIBUTING.md - Contribution guidelines - CLAUDE.md - Updated paths to new structure - roadmap.md - Added recent completions ## Files Changed - 57 files changed - 1,977 insertions(+) - 961 deletions(-) Net change: +1,016 lines (added CONTRIBUTING.md, README.md, reorganized content) Co-Authored-By: Claude Sonnet 4.5 <noreply@anthropic.com>	2026-02-11 07:33:40 +00:00
jordan	41c676a78e	feat: Aphoria enterprise features + ontology SDK + file length compliance Enterprise Features: - Hosted mode with remote sync for team pattern aggregation - Community sharing with privacy-preserving anonymization - LLM-based semantic claim extraction with Gemini integration - Pattern learning with promotion to declarative extractors - High-entropy secrets extractor with configurable thresholds - Auth bypass and insecure cookies extractors Module Refactoring: - Split oversized files to comply with 500-line limit - Config split: types/core.rs, types/extractors.rs, types/hosted.rs, etc. - Handlers split: scan.rs, policy.rs, report.rs modules - Extractors split: declarative/, high_entropy_secrets/, insecure_cookies/ - Learning split: store modules with metrics and persistence SDK & Ontology: - stemedb-ontology SDK with fluent builders and StemeDB client - Pharma domain extractors for FDA Orange Book data - Consumer health UAT test infrastructure Code Quality: - Fixed clippy warnings (needless_borrows_for_generic_args) - Added KVStore trait imports where needed - Fixed utoipa path re-exports for OpenAPI docs Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>	2026-02-05 12:55:29 -07:00

Author

SHA1

Message

Date

jml

9bfa626203

docs: reorganize documentation structure for clarity

Major documentation restructure to improve discoverability and reduce duplication.

## Changes

**Deleted (Archived/Consolidated)**:
- Removed duplicate getting started guides
- Archived outdated planning documents
- Consolidated corpus and configuration docs
- Removed obsolete vision/spec files (superseded by vision.md)
- Cleaned up scrapyard and old PDFs

**New Structure**:
- docs/about/ - Project overview and introduction
- docs/guides/ - User guides (moved from root)
- docs/specs/ - Technical specifications
- docs/sdk/ - SDK documentation (Go)
- docs/references/ - API references
- docs/archive/ - Archived historical docs
- applications/aphoria/docs/advanced/ - Advanced topics
- applications/aphoria/docs/reference/ - CLI reference
- applications/aphoria/docs/archive/ - Archived aphoria docs

**Updated**:
- README.md - New root README with clear navigation
- CONTRIBUTING.md - Contribution guidelines
- CLAUDE.md - Updated paths to new structure
- roadmap.md - Added recent completions

## Files Changed
- 57 files changed
- 1,977 insertions(+)
- 961 deletions(-)

**Net change**: +1,016 lines (added CONTRIBUTING.md, README.md, reorganized content)

Co-Authored-By: Claude Sonnet 4.5 <noreply@anthropic.com>

2026-02-11 07:33:40 +00:00

jordan

41c676a78e

feat: Aphoria enterprise features + ontology SDK + file length compliance

Enterprise Features:
- Hosted mode with remote sync for team pattern aggregation
- Community sharing with privacy-preserving anonymization
- LLM-based semantic claim extraction with Gemini integration
- Pattern learning with promotion to declarative extractors
- High-entropy secrets extractor with configurable thresholds
- Auth bypass and insecure cookies extractors

Module Refactoring:
- Split oversized files to comply with 500-line limit
- Config split: types/core.rs, types/extractors.rs, types/hosted.rs, etc.
- Handlers split: scan.rs, policy.rs, report.rs modules
- Extractors split: declarative/, high_entropy_secrets/, insecure_cookies/
- Learning split: store modules with metrics and persistence

SDK & Ontology:
- stemedb-ontology SDK with fluent builders and StemeDB client
- Pharma domain extractors for FDA Orange Book data
- Consumer health UAT test infrastructure

Code Quality:
- Fixed clippy warnings (needless_borrows_for_generic_args)
- Added KVStore trait imports where needed
- Fixed utoipa path re-exports for OpenAPI docs

Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>

2026-02-05 12:55:29 -07:00

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