@noyrax/5d-database-plugin 0.1.14-beta.5 → 0.1.14-beta.8

package/package.json

@@ -1,196 +1,196 @@
-{
-  "name": "@noyrax/5d-database-plugin",
-  "displayName": "5D Database Plugin",
-  "description": "5-dimensional database layer for documentation system with semantic brain integration. Provides SQLite databases for modules, symbols, dependencies, ADRs, and changes. Includes semantic search and MCP server integration for AI agents.",
-  "version": "0.1.14-beta.5",
-  "publisher": "noyrax",
-  "license": "MIT",
-  "repository": {
-    "type": "git",
-    "url": "https://github.com/noyrax/noyrax.git",
-    "directory": "5d-database-plugin"
-  },
-  "publishConfig": {
-    "access": "public"
-  },
-  "keywords": [
-    "documentation",
-    "database",
-    "semantic-search",
-    "mcp",
-    "llm",
-    "ai",
-    "code-analysis",
-    "architecture",
-    "5d-database",
-    "noyrax"
-  ],
-  "files": [
-    "out/",
-    "schemas/",
-    "README.md",
-    "LICENSE",
-    "package.json",
-    "MCP_SERVER_SETUP.md",
-    "SETUP_NEW_PROJECT.md",
-    "CHROMADB_SETUP.md",
-    "QUICK_START.md",
-    "ADR_VORSCHLAEGE.md",
-    "SYSTEM_ANALYSIS_REPORT.md",
-    "INSTALLATION_READINESS.md",
-    "MCP_SERVER_TEST_REPORT.md",
-    "KNOWN_ISSUES.md",
-    "IMPROVEMENT_ROADMAP.md",
-    "NOYRAX_INTEGRATION.md",
-    "NOYRAX_WORKSPACE_INTEGRATION.md"
-  ],
-  "engines": {
-    "vscode": "^1.74.0"
-  },
-  "categories": [
-    "Other"
-  ],
-  "activationEvents": [
-    "onStartupFinished"
-  ],
-  "main": "./out/extension.js",
-  "exports": {
-    ".": "./out/extension.js",
-    "./api": "./out/api/index.js"
-  },
-  "bin": {
-    "noyrax-5d-database": "./out/cli/ingest-cli.js",
-    "noyrax-5d-database-mcp": "./out/cli/mcp-server-cli.js",
-    "noyrax-5d-database-query": "./out/cli/query-cli.js",
-    "noyrax-5d-database-tool": "./out/cli/tool-cli.js",
-    "noyrax-5d-database-search": "./out/cli/semantic-search-cli.js",
-    "noyrax-5d-database-embedding": "./out/cli/embedding-cli.js",
-    "noyrax-5d-database-debug-plugin-id": "./out/cli/debug-plugin-id.js"
-  },
-  "contributes": {
-    "commands": [
-      {
-        "command": "5d-database.ingest",
-        "title": "Ingest Documentation"
-      },
-      {
-        "command": "5d-database.search",
-        "title": "Semantic Search"
-      },
-      {
-        "command": "5d-database.showModuleDetail",
-        "title": "Show Module Detail"
-      },
-      {
-        "command": "5d-database.showSymbolDetail",
-        "title": "Show Symbol Detail"
-      },
-      {
-        "command": "5d-database.showAdrDetail",
-        "title": "Show ADR Detail"
-      },
-      {
-        "command": "5d-database.showDependencyDetail",
-        "title": "Show Dependency Detail"
-      },
-      {
-        "command": "5d-database.showChangeDetail",
-        "title": "Show Change Report Detail"
-      },
-      {
-        "command": "5d-database.openSourceFile",
-        "title": "Open Source File"
-      },
-      {
-        "command": "5d-database.generate-docs",
-        "title": "Generate Documentation (Noyrax)"
-      },
-      {
-        "command": "5d-database.full-workflow",
-        "title": "Full Workflow (Generate + Ingest)"
-      },
-      {
-        "command": "5d-database.merge-workspaces",
-        "title": "Merge Workspaces (Combine Both Systems)"
-      }
-    ],
-    "menus": {
-      "view/item/context": [
-        {
-          "command": "5d-database.openSourceFile",
-          "when": "view == 5d-database-explorer && viewItem == module",
-          "group": "navigation"
-        },
-        {
-          "command": "5d-database.openSourceFile",
-          "when": "view == 5d-database-explorer && viewItem == symbol",
-          "group": "navigation"
-        },
-        {
-          "command": "5d-database.openSourceFile",
-          "when": "view == 5d-database-explorer && viewItem == dependency",
-          "group": "navigation"
-        }
-      ]
-    },
-    "views": {
-      "explorer": [
-        {
-          "id": "5d-database-explorer",
-          "name": "5D Database Explorer"
-        }
-      ]
-    }
-  },
-  "scripts": {
-    "compile": "tsc -p ./",
-    "postcompile": "npm run scan && npm run validate && npm run verify:adrs",
-    "scan": "cd .. && noyrax-scan",
-    "validate": "cd .. && noyrax-validate",
-    "verify:adrs": "cd .. && noyrax-verify-adrs",
-    "verify:architecture": "cd .. && noyrax-verify-architecture",
-    "verify:imports": "cd .. && noyrax-verify-imports",
-    "verify:all": "npm run compile && npm run verify:architecture && npm run verify:imports",
-    "watch": "tsc -watch -p ./",
-    "package": "vsce package --allow-missing-repository",
-    "prepublishOnly": "npm run compile",
-    "test": "jest",
-    "test:coverage": "jest --coverage",
-    "test:v-dimension": "node out/cli/test-v-dimension.js",
-    "test:chromadb": "node out/cli/test-chromadb.js",
-    "verify:openai-key": "node out/cli/verify-openai-key.js",
-    "verify:vss-status": "node out/cli/verify-vss-status.js",
-    "merge:workspaces": "node out/cli/merge-workspaces-cli.js"
-  },
-  "dependencies": {
-    "@chroma-core/default-embed": "^0.1.9",
-    "@modelcontextprotocol/sdk": "^1.25.1",
-    "chromadb": "^3.2.0",
-    "dotenv": "^16.4.5",
-    "openai": "^6.15.0",
-    "sqlite-vss": "^0.1.2",
-    "sqlite3": "^5.1.6",
-    "uuid": "^9.0.1",
-    "zod": "^4.2.1"
-  },
-  "devDependencies": {
-    "@types/dotenv": "^6.1.1",
-    "@types/jest": "^30.0.0",
-    "@types/node": "16.x",
-    "@types/uuid": "^10.0.0",
-    "@types/vscode": "^1.74.0",
-    "@vscode/vsce": "^2.22.0",
-    "jest": "^29.7.0",
-    "ts-jest": "^29.4.6",
-    "typescript": "^5.1.6"
-  },
-  "peerDependencies": {
-    "@noyrax/documentation-system-plugin": "*"
-  },
-  "peerDependenciesMeta": {
-    "@noyrax/documentation-system-plugin": {
-      "optional": true,
-      "description": "Documentation System Plugin (Noyrax) must be installed and docs/ must be generated before using 5D Database Plugin"
-    }
-  }
-}
+{
+  "name": "@noyrax/5d-database-plugin",
+  "displayName": "5D Database Plugin",
+  "description": "5-dimensional database layer for documentation system with semantic brain integration. Provides SQLite databases for modules, symbols, dependencies, ADRs, and changes. Includes semantic search and MCP server integration for AI agents.",
+  "version": "0.1.14-beta.8",
+  "publisher": "noyrax",
+  "license": "MIT",
+  "repository": {
+    "type": "git",
+    "url": "https://github.com/noyrax/noyrax.git",
+    "directory": "5d-database-plugin"
+  },
+  "publishConfig": {
+    "access": "public"
+  },
+  "keywords": [
+    "documentation",
+    "database",
+    "semantic-search",
+    "mcp",
+    "llm",
+    "ai",
+    "code-analysis",
+    "architecture",
+    "5d-database",
+    "noyrax"
+  ],
+  "files": [
+    "out/",
+    "schemas/",
+    "README.md",
+    "LICENSE",
+    "package.json",
+    "MCP_SERVER_SETUP.md",
+    "SETUP_NEW_PROJECT.md",
+    "CHROMADB_SETUP.md",
+    "QUICK_START.md",
+    "ADR_VORSCHLAEGE.md",
+    "SYSTEM_ANALYSIS_REPORT.md",
+    "INSTALLATION_READINESS.md",
+    "MCP_SERVER_TEST_REPORT.md",
+    "KNOWN_ISSUES.md",
+    "IMPROVEMENT_ROADMAP.md",
+    "NOYRAX_INTEGRATION.md",
+    "NOYRAX_WORKSPACE_INTEGRATION.md"
+  ],
+  "engines": {
+    "vscode": "^1.74.0"
+  },
+  "categories": [
+    "Other"
+  ],
+  "activationEvents": [
+    "onStartupFinished"
+  ],
+  "main": "./out/extension.js",
+  "exports": {
+    ".": "./out/extension.js",
+    "./api": "./out/api/index.js"
+  },
+  "bin": {
+    "noyrax-5d-database": "./out/cli/ingest-cli.js",
+    "noyrax-5d-database-query": "./out/cli/query-cli.js",
+    "noyrax-5d-database-tool": "./out/cli/tool-cli.js",
+    "noyrax-5d-database-search": "./out/cli/semantic-search-cli.js",
+    "noyrax-5d-database-embedding": "./out/cli/embedding-cli.js",
+    "noyrax-5d-database-debug-plugin-id": "./out/cli/debug-plugin-id.js"
+  },
+  "contributes": {
+    "commands": [
+      {
+        "command": "5d-database.ingest",
+        "title": "Ingest Documentation"
+      },
+      {
+        "command": "5d-database.search",
+        "title": "Semantic Search"
+      },
+      {
+        "command": "5d-database.showModuleDetail",
+        "title": "Show Module Detail"
+      },
+      {
+        "command": "5d-database.showSymbolDetail",
+        "title": "Show Symbol Detail"
+      },
+      {
+        "command": "5d-database.showAdrDetail",
+        "title": "Show ADR Detail"
+      },
+      {
+        "command": "5d-database.showDependencyDetail",
+        "title": "Show Dependency Detail"
+      },
+      {
+        "command": "5d-database.showChangeDetail",
+        "title": "Show Change Report Detail"
+      },
+      {
+        "command": "5d-database.openSourceFile",
+        "title": "Open Source File"
+      },
+      {
+        "command": "5d-database.generate-docs",
+        "title": "Generate Documentation (Noyrax)"
+      },
+      {
+        "command": "5d-database.full-workflow",
+        "title": "Full Workflow (Generate + Ingest)"
+      },
+      {
+        "command": "5d-database.merge-workspaces",
+        "title": "Merge Workspaces (Combine Both Systems)"
+      }
+    ],
+    "menus": {
+      "view/item/context": [
+        {
+          "command": "5d-database.openSourceFile",
+          "when": "view == 5d-database-explorer && viewItem == module",
+          "group": "navigation"
+        },
+        {
+          "command": "5d-database.openSourceFile",
+          "when": "view == 5d-database-explorer && viewItem == symbol",
+          "group": "navigation"
+        },
+        {
+          "command": "5d-database.openSourceFile",
+          "when": "view == 5d-database-explorer && viewItem == dependency",
+          "group": "navigation"
+        }
+      ]
+    },
+    "views": {
+      "explorer": [
+        {
+          "id": "5d-database-explorer",
+          "name": "5D Database Explorer"
+        }
+      ]
+    }
+  },
+  "scripts": {
+    "compile": "tsc -p ./",
+    "postcompile": "npm run scan && npm run validate && npm run verify:adrs",
+    "scan": "cd .. && noyrax-scan",
+    "validate": "cd .. && noyrax-validate",
+    "verify:adrs": "cd .. && noyrax-verify-adrs",
+    "verify:architecture": "cd .. && noyrax-verify-architecture",
+    "verify:imports": "cd .. && noyrax-verify-imports",
+    "verify:all": "npm run compile && npm run verify:architecture && npm run verify:imports",
+    "watch": "tsc -watch -p ./",
+    "package": "vsce package --allow-missing-repository",
+    "prepublishOnly": "npm run compile",
+    "test": "jest",
+    "test:coverage": "jest --coverage",
+    "test:v-dimension": "node out/cli/test-v-dimension.js",
+    "test:chromadb": "node out/cli/test-chromadb.js",
+    "verify:openai-key": "node out/cli/verify-openai-key.js",
+    "verify:vss-status": "node out/cli/verify-vss-status.js",
+    "merge:workspaces": "node out/cli/merge-workspaces-cli.js"
+  },
+  "dependencies": {
+    "@chroma-core/default-embed": "^0.1.9",
+    "@modelcontextprotocol/sdk": "^1.25.1",
+    "@noyrax/5d-database-plugin": "file:5d-database-plugin/5d-database-plugin/5d-database-plugin/5d-database-plugin/noyrax-5d-database-plugin-0.1.14-beta.7.tgz",
+    "chromadb": "^3.2.0",
+    "dotenv": "^16.4.5",
+    "openai": "^6.15.0",
+    "sqlite-vss": "^0.1.2",
+    "sqlite3": "^5.1.6",
+    "uuid": "^9.0.1",
+    "zod": "^4.2.1"
+  },
+  "devDependencies": {
+    "@types/dotenv": "^6.1.1",
+    "@types/jest": "^30.0.0",
+    "@types/node": "16.x",
+    "@types/uuid": "^10.0.0",
+    "@types/vscode": "^1.74.0",
+    "@vscode/vsce": "^2.22.0",
+    "jest": "^29.7.0",
+    "ts-jest": "^29.4.6",
+    "typescript": "^5.1.6"
+  },
+  "peerDependencies": {
+    "@noyrax/documentation-system-plugin": "*"
+  },
+  "peerDependenciesMeta": {
+    "@noyrax/documentation-system-plugin": {
+      "optional": true,
+      "description": "Documentation System Plugin (Noyrax) must be installed and docs/ must be generated before using 5D Database Plugin"
+    }
+  }
+}

package/schemas/sqlite/001_add_source_code_spans_modules.sql

@@ -0,0 +1,7 @@
+-- Migration 001: Add source code span tracking to modules table (X-Dimension)
+-- Adds file size metadata to modules table
+
+-- Add file size metadata to modules table
+ALTER TABLE modules ADD COLUMN line_count INTEGER;
+ALTER TABLE modules ADD COLUMN byte_size INTEGER;
+

package/schemas/sqlite/001_z_add_source_code_spans_modules.sql

@@ -0,0 +1,13 @@
+-- Migration 001: Add source code span tracking to modules table (X-Dimension)
+-- Adds file size metadata to modules table
+
+-- Add file size metadata to modules table (only if columns don't exist)
+-- SQLite doesn't support IF NOT EXISTS for ALTER TABLE ADD COLUMN,
+-- so we check if the column exists first using a pragma query
+-- This migration is idempotent - it can be run multiple times safely
+
+-- Note: This migration may fail if columns already exist (from migration 007).
+-- That's OK - the migration manager will handle it gracefully.
+ALTER TABLE modules ADD COLUMN line_count INTEGER;
+ALTER TABLE modules ADD COLUMN byte_size INTEGER;
+

package/schemas/sqlite/002_add_source_code_spans_symbols.sql

@@ -0,0 +1,15 @@
+-- Migration 002: Add source code span tracking to symbols table (Y-Dimension)
+-- Adds line/column/byte offset tracking for source code location
+
+-- Add span tracking columns to symbols table
+ALTER TABLE symbols ADD COLUMN start_line INTEGER;
+ALTER TABLE symbols ADD COLUMN end_line INTEGER;
+ALTER TABLE symbols ADD COLUMN start_col INTEGER;
+ALTER TABLE symbols ADD COLUMN end_col INTEGER;
+ALTER TABLE symbols ADD COLUMN byte_offset_start INTEGER;
+ALTER TABLE symbols ADD COLUMN byte_offset_end INTEGER;
+
+-- Add index for span lookups
+CREATE INDEX IF NOT EXISTS idx_symbols_span 
+ON symbols(path, start_line, end_line);
+

package/schemas/sqlite/002_z_add_source_code_spans_symbols.sql

@@ -0,0 +1,21 @@
+-- Migration 002: Add source code span tracking to symbols table (Y-Dimension)
+-- Adds line/column/byte offset tracking for source code location
+
+-- Add span tracking columns to symbols table (only if columns don't exist)
+-- SQLite doesn't support IF NOT EXISTS for ALTER TABLE ADD COLUMN,
+-- so we check if the column exists first using a pragma query
+-- This migration is idempotent - it can be run multiple times safely
+
+-- Note: This migration may fail if columns already exist (from migration 007).
+-- That's OK - the migration manager will handle it gracefully.
+ALTER TABLE symbols ADD COLUMN start_line INTEGER;
+ALTER TABLE symbols ADD COLUMN end_line INTEGER;
+ALTER TABLE symbols ADD COLUMN start_col INTEGER;
+ALTER TABLE symbols ADD COLUMN end_col INTEGER;
+ALTER TABLE symbols ADD COLUMN byte_offset_start INTEGER;
+ALTER TABLE symbols ADD COLUMN byte_offset_end INTEGER;
+
+-- Add index for span lookups
+CREATE INDEX IF NOT EXISTS idx_symbols_span 
+ON symbols(path, start_line, end_line);
+

package/schemas/sqlite/006_add_source_access_config.sql

@@ -0,0 +1,33 @@
+-- Migration 006: Add source access config table to V-Dimension
+-- Stores runtime contract for source code access (AVAILABLE/UNAVAILABLE/PARTIAL)
+
+CREATE TABLE IF NOT EXISTS source_access_config (
+    id TEXT PRIMARY KEY DEFAULT 'singleton',
+    status TEXT NOT NULL CHECK(status IN ('AVAILABLE', 'UNAVAILABLE', 'PARTIAL')),
+    resolver_type TEXT CHECK(resolver_type IN ('FILESYSTEM', 'GIT', 'REMOTE', 'SNAPSHOT')),
+    workspace_root TEXT,
+    
+    -- Constraints
+    max_bytes_per_request INTEGER DEFAULT 51200,      -- 50KB
+    max_lines_per_request INTEGER DEFAULT 500,
+    max_concurrent_requests INTEGER DEFAULT 5,
+    redactions_json TEXT,  -- JSON array of patterns
+    
+    -- Reason codes (when UNAVAILABLE/PARTIAL)
+    reason_codes_json TEXT,  -- JSON array of codes
+    
+    -- Provenance
+    verified_at TEXT NOT NULL,  -- ISO timestamp
+    evidence_grade TEXT NOT NULL CHECK(evidence_grade IN ('DETERMINISTIC', 'INFERRED')),
+    
+    created_at TIMESTAMP DEFAULT CURRENT_TIMESTAMP,
+    updated_at TIMESTAMP DEFAULT CURRENT_TIMESTAMP,
+    
+    -- Ensure only one row exists
+    CHECK(id = 'singleton')
+);
+
+-- Initialize with default UNAVAILABLE state
+INSERT OR IGNORE INTO source_access_config (id, status, verified_at, evidence_grade)
+VALUES ('singleton', 'UNAVAILABLE', datetime('now'), 'DETERMINISTIC');
+