@rbalchii/anchor-engine 4.7.0 → 4.8.1

This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.
Files changed (141) hide show
  1. package/LICENSE +608 -608
  2. package/README.md +513 -317
  3. package/anchor.bat +5 -5
  4. package/docs/AGENT_CONTROLLED_ENGINE.md +581 -0
  5. package/docs/API.md +314 -314
  6. package/docs/DEPLOYMENT.md +448 -448
  7. package/docs/INDEX.md +226 -226
  8. package/docs/MD_FILES_INVENTORY.md +166 -0
  9. package/docs/STAR_Whitepaper_Executive.md +216 -216
  10. package/docs/TROUBLESHOOTING.md +535 -535
  11. package/docs/arxiv/BIBLIOGRAPHY.bib +145 -145
  12. package/docs/arxiv/RELATED_WORK.tex +38 -38
  13. package/docs/arxiv/compile.bat +48 -48
  14. package/docs/arxiv/joss_response.md +32 -32
  15. package/docs/arxiv/prepare-submission.bat +46 -46
  16. package/docs/arxiv/review.md +127 -127
  17. package/docs/arxiv/star-whitepaper.tex +656 -656
  18. package/docs/code-patterns.md +289 -289
  19. package/docs/daily/TODAY_SUMMARY.md +245 -0
  20. package/docs/guides/BUILDING.md +64 -0
  21. package/docs/guides/INSTALL_NPM.md +160 -0
  22. package/docs/guides/NPM_PUBLISH_SUMMARY.md +231 -0
  23. package/docs/paper.md +124 -0
  24. package/docs/project/PROJECT_STATE_ASSESSMENT.md +312 -0
  25. package/docs/reviews/code-review-v4.8.1-decision-record.md +165 -0
  26. package/docs/testing/TESTING.md +213 -0
  27. package/docs/testing/TESTING_FRAMEWORK_COMPLETE.md +271 -0
  28. package/docs/testing/search-test-report.md +76 -0
  29. package/docs/whitepaper.md +445 -445
  30. package/engine/dist/commands/distill.js +21 -21
  31. package/engine/dist/config/index.d.ts +7 -0
  32. package/engine/dist/config/index.d.ts.map +1 -1
  33. package/engine/dist/config/index.js +22 -0
  34. package/engine/dist/config/index.js.map +1 -1
  35. package/engine/dist/config/paths.d.ts +1 -1
  36. package/engine/dist/config/paths.js +3 -3
  37. package/engine/dist/config/paths.js.map +1 -1
  38. package/engine/dist/core/db.js +131 -131
  39. package/engine/dist/mcp/server.d.ts +44 -0
  40. package/engine/dist/mcp/server.d.ts.map +1 -0
  41. package/engine/dist/mcp/server.js +427 -0
  42. package/engine/dist/mcp/server.js.map +1 -0
  43. package/engine/dist/native/index.d.ts +20 -21
  44. package/engine/dist/native/index.d.ts.map +1 -1
  45. package/engine/dist/profiling/atomization-profiling.js +3 -3
  46. package/engine/dist/profiling/bottleneck-identification.js +35 -35
  47. package/engine/dist/profiling/content-sanitization-profiling.js +86 -86
  48. package/engine/dist/routes/monitoring.js +8 -8
  49. package/engine/dist/routes/v1/admin.js +8 -8
  50. package/engine/dist/routes/v1/atoms.js +15 -15
  51. package/engine/dist/routes/v1/ingest.d.ts.map +1 -1
  52. package/engine/dist/routes/v1/ingest.js +39 -0
  53. package/engine/dist/routes/v1/ingest.js.map +1 -1
  54. package/engine/dist/routes/v1/system.d.ts.map +1 -1
  55. package/engine/dist/routes/v1/system.js +305 -6
  56. package/engine/dist/routes/v1/system.js.map +1 -1
  57. package/engine/dist/routes/v1/tags.js +2 -2
  58. package/engine/dist/services/backup/backup-restore.js +23 -23
  59. package/engine/dist/services/backup/backup.js +14 -14
  60. package/engine/dist/services/distillation/radial-distiller.d.ts +1 -0
  61. package/engine/dist/services/distillation/radial-distiller.d.ts.map +1 -1
  62. package/engine/dist/services/distillation/radial-distiller.js +23 -16
  63. package/engine/dist/services/distillation/radial-distiller.js.map +1 -1
  64. package/engine/dist/services/ingest/github-ingest-service.js +18 -18
  65. package/engine/dist/services/ingest/ingest-atomic.js +79 -79
  66. package/engine/dist/services/ingest/ingest.d.ts.map +1 -1
  67. package/engine/dist/services/ingest/ingest.js +28 -25
  68. package/engine/dist/services/ingest/ingest.js.map +1 -1
  69. package/engine/dist/services/ingest/watchdog.d.ts.map +1 -1
  70. package/engine/dist/services/ingest/watchdog.js +14 -24
  71. package/engine/dist/services/ingest/watchdog.js.map +1 -1
  72. package/engine/dist/services/llm/reader.js +9 -9
  73. package/engine/dist/services/mirror/mirror.js +5 -5
  74. package/engine/dist/services/mirror/mirror.js.map +1 -1
  75. package/engine/dist/services/research/researcher.js +8 -8
  76. package/engine/dist/services/scribe/scribe.js +27 -27
  77. package/engine/dist/services/search/context-inflator.js +34 -34
  78. package/engine/dist/services/search/explore.js +20 -20
  79. package/engine/dist/services/search/physics-tag-walker.js +208 -208
  80. package/engine/dist/services/search/query-parser.js +5 -5
  81. package/engine/dist/services/search/search-utils.js +3 -3
  82. package/engine/dist/services/search/search.js +36 -36
  83. package/engine/dist/services/search/sovereign-system-prompt.js +22 -22
  84. package/engine/dist/services/semantic/semantic-ingestion-service.js +47 -47
  85. package/engine/dist/services/semantic/semantic-search.js +21 -21
  86. package/engine/dist/services/synonyms/auto-synonym-generator.js +35 -35
  87. package/engine/dist/services/system-status.d.ts +34 -0
  88. package/engine/dist/services/system-status.d.ts.map +1 -1
  89. package/engine/dist/services/system-status.js +57 -1
  90. package/engine/dist/services/system-status.js.map +1 -1
  91. package/engine/dist/services/tags/discovery.js +5 -5
  92. package/engine/dist/services/tags/infector.js +6 -6
  93. package/engine/dist/services/tags/tag-auditor.js +51 -51
  94. package/engine/dist/services/taxonomy/taxonomy-manager.js +6 -6
  95. package/engine/dist/utils/tag-cleanup.js +5 -5
  96. package/engine/dist/utils/tag-modulation.js +1 -1
  97. package/engine/dist/utils/tag-modulation.js.map +1 -1
  98. package/engine/package.json +104 -105
  99. package/mcp-server/README.md +404 -0
  100. package/mcp-server/dist/index.d.ts +16 -0
  101. package/mcp-server/dist/index.d.ts.map +1 -0
  102. package/mcp-server/dist/index.js +709 -0
  103. package/mcp-server/dist/index.js.map +1 -0
  104. package/mcp-server/package.json +34 -0
  105. package/package.json +10 -2
  106. package/docs/archive/GIT_BACKUP_VERIFICATION.md +0 -297
  107. package/docs/archive/adoption-guide.md +0 -264
  108. package/docs/archive/adoption-preparation.md +0 -179
  109. package/docs/archive/agent-harness-integration.md +0 -227
  110. package/docs/archive/api-reference.md +0 -106
  111. package/docs/archive/api_flows_diagram.md +0 -118
  112. package/docs/archive/architecture.md +0 -410
  113. package/docs/archive/architecture_diagram.md +0 -174
  114. package/docs/archive/broader-adoption-preparation.md +0 -175
  115. package/docs/archive/browser-paradigm-architecture.md +0 -163
  116. package/docs/archive/chat-integration.md +0 -124
  117. package/docs/archive/community-adoption-materials.md +0 -103
  118. package/docs/archive/community-adoption.md +0 -147
  119. package/docs/archive/comparison-with-siloed-solutions.md +0 -192
  120. package/docs/archive/comprehensive-docs.md +0 -156
  121. package/docs/archive/data_flow_diagram.md +0 -251
  122. package/docs/archive/enhancement-implementation-summary.md +0 -146
  123. package/docs/archive/evolution-summary.md +0 -141
  124. package/docs/archive/ingestion_pipeline_diagram.md +0 -198
  125. package/docs/archive/native-module-profiling-results.md +0 -135
  126. package/docs/archive/positioning-document.md +0 -158
  127. package/docs/archive/positioning.md +0 -175
  128. package/docs/archive/query-builder-documentation.md +0 -218
  129. package/docs/archive/quick-reference.md +0 -40
  130. package/docs/archive/quickstart.md +0 -63
  131. package/docs/archive/relationship-narrative-discovery.md +0 -141
  132. package/docs/archive/search-logic-improvement-plan.md +0 -336
  133. package/docs/archive/search_architecture_diagram.md +0 -212
  134. package/docs/archive/semantic-architecture-guide.md +0 -97
  135. package/docs/archive/sequence-diagrams.md +0 -128
  136. package/docs/archive/system_components_diagram.md +0 -296
  137. package/docs/archive/test-framework-integration.md +0 -109
  138. package/docs/archive/testing-framework-documentation.md +0 -397
  139. package/docs/archive/testing-framework-summary.md +0 -121
  140. package/docs/archive/testing-framework.md +0 -377
  141. package/docs/archive/ui-architecture.md +0 -75
@@ -1,377 +0,0 @@
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- # ECE_Core Testing Framework Documentation
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-
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- ## Overview
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-
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- The ECE_Core testing framework provides a comprehensive suite of tests to ensure system reliability, performance, and correctness. This framework includes:
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-
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- - Unit tests for individual components
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- - Integration tests for system workflows
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- - Performance regression tests
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- - Diagnostic tests for issue reproduction
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- - Dataset-specific configuration tests
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-
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- ## Architecture
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-
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- ### Core Components
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-
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- 1. **Test Framework Core** (`core.ts`)
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- - Provides the foundational test execution infrastructure
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- - Manages test lifecycle, execution, and reporting
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- - Supports parallel execution and dependency management
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-
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- 2. **Configuration Manager** (`config.ts`)
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- - Handles test configuration and environment setup
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- - Manages dataset-specific configurations
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- - Provides configuration validation
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-
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- 3. **Diagnostic Test Runner** (`diagnostic-tests.ts`)
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- - Implements quick diagnostic tests for issue reproduction
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- - Provides health checks for core system components
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- - Offers targeted testing for specific failure modes
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-
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- 4. **Performance Test Runner** (`performance-tests.ts`)
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- - Implements performance regression tests
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- - Measures system performance under various loads
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- - Tracks performance metrics over time
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-
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- 5. **Dataset Test Runner** (`dataset-runner.ts`)
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- - Manages dataset-specific test configurations
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- - Provides tailored testing for different data types and sizes
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- - Supports various content formats and structures
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-
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- ## Test Types
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-
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- ### 1. Unit Tests
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-
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- Unit tests focus on individual functions and modules in isolation:
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-
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- ```typescript
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- import { testFramework } from './test-framework/core.js';
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-
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- // Example unit test
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- testFramework.addTest({
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- name: 'Atomizer Functionality',
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- description: 'Test the atomization of content into semantic units',
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- testFn: async () => {
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- const result = await atomizer.atomize('Test content', 'test-source');
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- assert(Array.isArray(result), 'Result should be an array');
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- assert(result.length > 0, 'Should return at least one atom');
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- },
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- timeout: 5000,
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- tags: ['unit', 'atomizer']
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- });
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- ```
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-
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- ### 2. Integration Tests
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-
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- Integration tests verify the interaction between multiple components:
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-
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- ```typescript
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- // Example integration test
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- testFramework.addTest({
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- name: 'Ingestion Pipeline',
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- description: 'Test the full ingestion pipeline from input to storage',
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- testFn: async () => {
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- // Test the complete flow from ingestion to search
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- const content = 'Test content for integration';
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- const result = await ingestionService.ingest(content);
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-
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- // Verify content is searchable
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- const searchResults = await searchService.search('Test');
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- assert(searchResults.length > 0, 'Content should be searchable after ingestion');
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- },
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- timeout: 15000,
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- tags: ['integration', 'ingestion', 'search']
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- });
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- ```
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-
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- ### 3. Performance Tests
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-
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- Performance tests measure system performance and detect regressions:
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-
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- ```typescript
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- // Example performance test
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- testFramework.addTest({
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- name: 'Search Performance',
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- description: 'Test search response time under load',
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- testFn: async () => {
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- const startTime = performance.now();
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- const results = await searchService.search('performance test');
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- const duration = performance.now() - startTime;
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-
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- assert(duration < 1000, `Search should complete in under 1000ms, took ${duration}ms`);
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- },
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- timeout: 10000,
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- tags: ['performance', 'search']
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- });
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- ```
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-
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- ### 4. Diagnostic Tests
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-
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- Diagnostic tests provide quick validation and issue reproduction:
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-
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- ```typescript
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- // Example diagnostic test
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- testFramework.addTest({
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- name: 'Database Connectivity',
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- description: 'Verify database connection and basic operations',
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- testFn: async () => {
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- const result = await db.run('?[a] := a = 1', {});
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- assert(result.rows.length > 0, 'Database query should return results');
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- },
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- timeout: 5000,
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- tags: ['diagnostic', 'database']
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- });
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- ```
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-
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- ## Running Tests
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-
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- ### Running All Tests
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-
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- ```bash
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- npm test
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- # or
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- node ./test-framework/run-tests.js
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- ```
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-
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- ### Running Specific Test Suites
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-
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- ```bash
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- # Run only diagnostic tests
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- npm run test:diagnostic
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-
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- # Run only performance tests
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- npm run test:performance
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-
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- # Run tests for a specific dataset
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- npm run test:dataset -- --dataset=small
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-
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- # Run tests with specific tags
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- npm run test:tag -- --tag=search
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- ```
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-
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- ### Running Tests with Options
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-
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- ```bash
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- # Run tests in verbose mode
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- npm test -- --verbose
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-
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- # Run tests in parallel mode
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- npm test -- --parallel
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-
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- # Run specific test by name
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- npm test -- --test-name="Database Connectivity"
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-
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- # Generate test report
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- npm test -- --report
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- ```
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-
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- ## Configuration
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-
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- ### Test Configuration File
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-
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- The test framework uses a configuration file to manage settings:
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-
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- ```json
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- {
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- "environment": {
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- "baseUrl": "http://localhost:3000",
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- "timeout": 30000,
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- "retries": 2,
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- "parallel": true,
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- "maxWorkers": 4
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- },
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- "datasets": [
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- {
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- "name": "minimal",
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- "description": "Minimal dataset for quick smoke tests",
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- "path": "./test-data/minimal",
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- "size": "small",
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- "tags": ["smoke", "quick"]
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- },
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- {
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- "name": "standard",
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- "description": "Standard dataset for comprehensive testing",
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- "path": "./test-data/standard",
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- "size": "medium",
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- "tags": ["regression", "feature"]
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- }
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- ],
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- "reporters": [
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- { "type": "console" },
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- { "type": "json", "outputFile": "test-results.json" },
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- { "type": "junit", "outputFile": "test-results.xml" }
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- ],
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- "coverage": {
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- "enabled": true,
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- "include": ["src/**/*.{ts,js}"],
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- "exclude": ["**/node_modules/**", "**/test/**"],
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- "thresholds": {
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- "statements": 80,
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- "branches": 70,
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- "functions": 80,
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- "lines": 80
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- }
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- }
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- }
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- ```
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-
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- ### Dataset-Specific Configuration
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-
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- Different datasets can have specific configurations:
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-
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- ```typescript
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- // Example dataset configuration
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- const datasetConfigs = {
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- minimal: {
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- name: 'minimal',
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- description: 'Quick smoke tests',
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- timeout: 5000,
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- tags: ['smoke', 'quick', 'ci']
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- },
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- performance: {
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- name: 'performance',
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- description: 'Performance and stress testing',
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- timeout: 30000,
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- tags: ['performance', 'stress', 'load']
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- }
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- };
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- ```
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-
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- ## Test Organization
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-
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- ### By Functionality
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-
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- Tests are organized by system functionality:
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-
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- ```
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- tests/
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- ├── unit/
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- │ ├── atomizer/
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- │ ├── sanitizer/
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- │ ├── fingerprinter/
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- │ └── search/
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- ├── integration/
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- │ ├── ingestion/
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- │ ├── search/
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- │ └── api/
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- ├── performance/
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- │ ├── ingestion/
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- │ ├── search/
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- │ └── memory/
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- ├── diagnostic/
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- │ ├── health/
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- │ ├── connectivity/
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- │ └── native-modules/
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- └── dataset-specific/
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- ├── minimal/
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- ├── standard/
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- └── large/
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- ```
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-
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- ### By Dataset Size
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-
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- Different datasets require different test approaches:
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-
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- - **Small datasets**: Quick smoke tests, basic functionality validation
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- - **Medium datasets**: Comprehensive feature testing, integration validation
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- - **Large datasets**: Performance testing, stress testing, memory usage validation
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- - **XL datasets**: Load testing, endurance testing, resource constraint validation
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-
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- ## Best Practices
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-
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- ### Writing Effective Tests
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-
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- 1. **Be Specific**: Each test should verify one specific behavior
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- 2. **Use Descriptive Names**: Test names should clearly indicate what is being tested
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- 3. **Include Assertions**: Every test should have clear pass/fail criteria
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- 4. **Handle Cleanup**: Ensure tests clean up after themselves
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- 5. **Consider Performance**: Avoid unnecessary delays in tests
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-
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- ### Performance Testing Guidelines
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-
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- 1. **Establish Baselines**: Record performance metrics for reference
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- 2. **Test Under Load**: Verify performance with concurrent operations
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- 3. **Monitor Resources**: Track memory and CPU usage during tests
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- 4. **Test Edge Cases**: Include worst-case scenarios in performance tests
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- 5. **Compare Results**: Track performance changes over time
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-
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- ### Diagnostic Testing Guidelines
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-
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- 1. **Fast Execution**: Diagnostic tests should run quickly
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- 2. **Targeted Scope**: Focus on specific system components
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- 3. **Clear Failure Modes**: Provide clear error messages when tests fail
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- 4. **Issue Reproduction**: Create tests that reproduce known issues
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- 5. **Health Verification**: Verify system health after operations
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-
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- ## Reporting and Monitoring
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-
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- ### Test Reports
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-
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- The framework generates multiple types of reports:
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-
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- 1. **Console Output**: Real-time test execution feedback
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- 2. **JSON Reports**: Structured data for CI/CD integration
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- 3. **JUnit Reports**: Compatible with CI systems like Jenkins
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- 4. **Performance Reports**: Detailed performance metrics and trends
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-
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- ### Continuous Integration
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-
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- Tests are integrated into the CI/CD pipeline:
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-
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- ```yaml
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- # Example CI configuration
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- test:
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- stage: test
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- script:
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- - npm install
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- - npm run test:ci
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- artifacts:
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- reports:
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- junit: test-results.xml
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- paths:
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- - test-results.json
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- - performance-report.txt
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- coverage: '/Coverage: \d+\.\d+%/'
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- ```
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-
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- ## Troubleshooting
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-
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- ### Common Issues
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-
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- 1. **Test Timeouts**: Increase timeout values in configuration
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- 2. **Resource Exhaustion**: Run tests with fewer parallel workers
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- 3. **Database Locks**: Ensure proper cleanup between tests
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- 4. **Memory Leaks**: Monitor memory usage during long-running tests
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-
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- ### Debugging Tips
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-
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- 1. **Enable Verbose Logging**: Use `--verbose` flag for detailed output
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- 2. **Run Single Tests**: Test specific functionality in isolation
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- 3. **Check Configuration**: Verify test environment settings
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- 4. **Monitor Resources**: Track system resources during test execution
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-
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- ## Maintenance
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-
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- ### Adding New Tests
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-
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- 1. Create test file in appropriate directory
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- 2. Follow naming convention: `test-[feature-name].ts`
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- 3. Add test to appropriate test suite
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- 4. Update documentation if needed
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- 5. Run tests to verify functionality
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-
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- ### Updating Existing Tests
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-
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- 1. Identify the test that needs updating
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- 2. Understand the current test behavior
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- 3. Make necessary changes while preserving test intent
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- 4. Run the updated test to verify correctness
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- 5. Update related tests if needed
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-
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- ### Performance Monitoring
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-
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- 1. Track performance metrics over time
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- 2. Set up alerts for performance regressions
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- 3. Regularly review and update performance thresholds
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- 4. Optimize tests that are too slow or resource-intensive
@@ -1,75 +0,0 @@
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- # UI Architecture: Glass Panel Design
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-
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- ## Overview
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-
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- The ECE_Core UI has evolved from the originally planned "Bright Node Protocol" and "Three Column UI" to a simpler, more maintainable "Glass Panel" design. This change was made to improve stability and reduce complexity while maintaining the core functionality.
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-
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- ## Previous Architecture (Deprecated)
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-
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- The original plan included:
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- - **Three Column UI**: Separate panels for search, context visualization, and content
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- - **Bright Node Protocol**: Complex graph illumination for reasoning models
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- - **Advanced Context Visualization**: Interactive graph representations
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-
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- ## Current Architecture: Glass Panel Design
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-
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- ### Design Philosophy
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- - **Consistency**: Uniform glass panel aesthetic across all components
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- - **Simplicity**: Reduced complexity for better maintainability
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- - **Performance**: Improved responsiveness and stability
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- - **Usability**: Streamlined user experience
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-
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- ### Components
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-
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- #### Search Interface
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- - **Glass Panel Styling**: Consistent frosted glass appearance
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- - **Tabbed Views**: Switch between card view and raw context view
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- - **Real-time Filtering**: Dynamic filtering with toggles
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- - **Token Budget Controls**: Adjustable limits for context retrieval
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-
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- #### Context Display
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- - **Clean Layout**: Uncluttered presentation of search results
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- - **Card-based Results**: Structured display of retrieved information
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- - **Raw Context View**: Direct access to context window for debugging
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- #### Chat Interface
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- - **Glass Panel Theme**: Consistent with overall design language
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- - **Streamlined Conversation**: Focused on core chat functionality
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- - **Context Integration**: Shows how retrieved context influences responses
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- ### Benefits of the Change
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- 1. **Improved Stability**: Eliminated complex UI components that were difficult to debug
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- 2. **Better Performance**: Reduced rendering overhead and memory usage
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- 3. **Easier Maintenance**: Simpler codebase for ongoing development
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- 4. **Consistent UX**: Unified visual language across all interfaces
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- 5. **Faster Development**: Reduced time spent on UI debugging
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- ## Implementation Details
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- ### CSS/Styling
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- - Uses consistent glassmorphism effects throughout
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- - Shared styling variables for uniform appearance
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- - Responsive design for different screen sizes
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- ### Component Structure
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- - Modular components that can be reused across interfaces
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- - Consistent props and interfaces
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- - Simplified state management
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- ## Performance Achievements
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- The UI benefits from the underlying performance improvements in the system:
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- - **Cross-Platform**: Consistent performance across Windows, macOS, Linux
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- - **Memory Efficiency**: 30-50% reduction in memory usage
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- - **Responsive Design**: Improved UI responsiveness due to faster backend processing
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- ## Future Considerations
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- While the current design prioritizes stability and simplicity, future enhancements may include:
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- - Gradual reintroduction of advanced visualization features
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- - Progressive enhancement of UI components
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- - User-driven feature additions based on feedback
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- The glass panel design provides a solid foundation for future growth while maintaining the core functionality of the ECE system.