Reorganize repository: move 371 files to structured directories

[Copilot]

Cleaned up 300+ loose files in workspace root, organizing into docs/, scripts/, and data/ hierarchies for reduced cognitive load and improved navigation.

Changes

Directory Structure

• docs/ (158 files) - 10 categories: reports, phases, cognitive, guides, todo-fixme, entelechy, archive, build, action-items, testing
• scripts/ (132 files) - 8 categories: analysis, bootstrap, build, demo, entelechy, fixme, implementation, testing
• data/ (81 files) - 5 categories: analysis-results, cognitive-state, entelechy, test-results, todo-fixme

File Movements

• Progress reports & summaries → docs/reports/
• Phase documentation → docs/phases/
• Cognitive architecture docs → docs/cognitive/
• TODO/FIXME tracking (86 files) → docs/todo-fixme/
• Entelechy framework docs → docs/entelechy/
• Analysis scripts (22) → scripts/analysis/
• Test scripts (27) → scripts/testing/
• Implementation scripts (26) → scripts/implementation/
• Integration scripts → scripts/bootstrap/
• Test results/logs → data/test-results/
• Analysis data → data/analysis-results/

Navigation Infrastructure

• Created NAVIGATION.md - repository navigation guide
• Created docs/INDEX.md - documentation master index
• Created ORGANIZATION_SUMMARY.md - detailed change log
• Added 16 category README files for contextual navigation
• Updated main README and QUICK-START with new structure

Compatibility Maintenance

• Symlinked integrate-components.sh → scripts/bootstrap/integrate-components.sh
• Updated script references in phase documentation
• Fixed data output paths in 11+ scripts to write to data/ subdirectories
• Updated .gitignore to exclude generated data artifacts

Result

Root directory: 300+ files → 12 essential files (96% reduction)

Essential root files:

README.md, NAVIGATION.md, QUICK-START.md, CONTRIBUTING.md,
DEVELOPMENT-ROADMAP.md, ORGANIZATION_SUMMARY.md, CMakeLists.txt,
Dockerfile, component-config.json, requirements.txt,
validate-integration.py, integrate-components.sh (symlink)

All workflows validated:

• Integration: ./integrate-components.sh --help ✓
• Validation: python3 validate-integration.py --no-build ✓
• Analysis: python3 scripts/analysis/find_placeholders.py ✓

Original prompt

tidy up repo & organize all loose docs in ws root into appropriate folders so the repo is configured for optimal cognitive grip and relevance realization

Custom agent used: opencog-unified
Expert agent for OpenCog Unified cognitive architecture - a comprehensive monorepo integrating 14+ cognitive components for advanced AGI development, neural-symbolic reasoning, and distributed knowledge processing

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