symbiote-cli 0.1.0

package/dist/src/cortex/stage-1-symbols.js

@@ -0,0 +1,605 @@
+import { readFileSync } from 'node:fs';
+import { resolve } from 'node:path';
+import { createRequire } from 'node:module';
+import { getGrammar } from '#core/languages.js';
+const cjsRequire = createRequire(import.meta.url);
+const Parser = cjsRequire('tree-sitter');
+const JS_TS_CONFIG = {
+    functionTypes: new Set([
+        'function_declaration',
+        'function',
+        'arrow_function',
+        'generator_function',
+        'generator_function_declaration',
+    ]),
+    classTypes: new Set(['class_declaration', 'class']),
+    methodTypes: new Set(['method_definition', 'public_field_definition']),
+    interfaceTypes: new Set(['interface_declaration']),
+    typeAliasTypes: new Set(['type_alias_declaration']),
+    enumTypes: new Set(['enum_declaration']),
+    variableTypes: new Set(['lexical_declaration']),
+};
+const PYTHON_CONFIG = {
+    functionTypes: new Set(['function_definition']),
+    classTypes: new Set(['class_definition']),
+    methodTypes: new Set(['function_definition']),
+    interfaceTypes: new Set(),
+    typeAliasTypes: new Set(),
+    enumTypes: new Set(),
+    variableTypes: new Set(),
+};
+const GO_CONFIG = {
+    functionTypes: new Set(['function_declaration', 'method_declaration']),
+    classTypes: new Set(),
+    methodTypes: new Set(),
+    interfaceTypes: new Set(),
+    typeAliasTypes: new Set(),
+    enumTypes: new Set(),
+    variableTypes: new Set(),
+};
+const RUST_CONFIG = {
+    functionTypes: new Set(['function_item']),
+    classTypes: new Set(['struct_item']),
+    methodTypes: new Set(['function_item']),
+    interfaceTypes: new Set(['trait_item']),
+    typeAliasTypes: new Set(['type_item']),
+    enumTypes: new Set(['enum_item']),
+    variableTypes: new Set(),
+};
+const JAVA_CONFIG = {
+    functionTypes: new Set(),
+    classTypes: new Set(['class_declaration']),
+    methodTypes: new Set(['method_declaration', 'constructor_declaration']),
+    interfaceTypes: new Set(['interface_declaration']),
+    typeAliasTypes: new Set(),
+    enumTypes: new Set(['enum_declaration']),
+    variableTypes: new Set(),
+};
+const RUBY_CONFIG = {
+    functionTypes: new Set(['method']),
+    classTypes: new Set(['class', 'module']),
+    methodTypes: new Set(['method', 'singleton_method']),
+    interfaceTypes: new Set(),
+    typeAliasTypes: new Set(),
+    enumTypes: new Set(),
+    variableTypes: new Set(),
+};
+const PHP_CONFIG = {
+    functionTypes: new Set(['function_definition']),
+    classTypes: new Set(['class_declaration']),
+    methodTypes: new Set(['method_declaration']),
+    interfaceTypes: new Set(['interface_declaration']),
+    typeAliasTypes: new Set(),
+    enumTypes: new Set(['enum_declaration']),
+    variableTypes: new Set(),
+};
+const C_CPP_CONFIG = {
+    functionTypes: new Set(['function_definition']),
+    classTypes: new Set(['class_specifier']),
+    methodTypes: new Set(['function_definition']),
+    interfaceTypes: new Set(),
+    typeAliasTypes: new Set(),
+    enumTypes: new Set(),
+    variableTypes: new Set(),
+};
+const LANGUAGE_CONFIGS = {
+    javascript: JS_TS_CONFIG,
+    typescript: JS_TS_CONFIG,
+    tsx: JS_TS_CONFIG,
+    python: PYTHON_CONFIG,
+    go: GO_CONFIG,
+    rust: RUST_CONFIG,
+    java: JAVA_CONFIG,
+    ruby: RUBY_CONFIG,
+    php: PHP_CONFIG,
+    c: C_CPP_CONFIG,
+    cpp: C_CPP_CONFIG,
+};
+export async function runStage1(repo, rootDir, options) {
+    const start = Date.now();
+    const errors = [];
+    let filesProcessed = 0;
+    let nodesCreated = 0;
+    let edgesCreated = 0;
+    const files = options?.force ? await repo.getAllFileNodes() : await repo.getFilesByMaxDepth(1);
+    const targetSet = options?.targetFiles ? new Set(options.targetFiles) : null;
+    for (const file of files) {
+        if (targetSet && !targetSet.has(file.path))
+            continue;
+        if (!file.language)
+            continue;
+        const absPath = resolve(rootDir, file.path);
+        let content;
+        try {
+            content = readFileSync(absPath, 'utf-8');
+        }
+        catch (err) {
+            errors.push({
+                filePath: file.path,
+                stage: 1,
+                message: err instanceof Error ? err.message : String(err),
+            });
+            continue;
+        }
+        const grammar = getGrammar(file.language);
+        if (!grammar)
+            continue;
+        const config = LANGUAGE_CONFIGS[file.language] ?? JS_TS_CONFIG;
+        let extracted;
+        try {
+            extracted = extractSymbols(content, grammar, config, file);
+        }
+        catch (err) {
+            errors.push({
+                filePath: file.path,
+                stage: 1,
+                message: err instanceof Error ? err.message : String(err),
+            });
+            continue;
+        }
+        await repo.deleteFileData(file.path);
+        await repo.upsertFileNode({ ...file, depthLevel: 0 });
+        filesProcessed++;
+        if (extracted.functions.length > 0) {
+            await repo.insertFunctionNodes(extracted.functions);
+            nodesCreated += extracted.functions.length;
+        }
+        if (extracted.classes.length > 0) {
+            await repo.insertClassNodes(extracted.classes);
+            nodesCreated += extracted.classes.length;
+        }
+        if (extracted.methods.length > 0) {
+            await repo.insertMethodNodes(extracted.methods);
+            nodesCreated += extracted.methods.length;
+        }
+        if (extracted.interfaces.length > 0) {
+            await repo.insertInterfaceNodes(extracted.interfaces);
+            nodesCreated += extracted.interfaces.length;
+        }
+        if (extracted.types.length > 0) {
+            await repo.insertTypeNodes(extracted.types);
+            nodesCreated += extracted.types.length;
+        }
+        if (extracted.variables.length > 0) {
+            await repo.insertVariableNodes(extracted.variables);
+            nodesCreated += extracted.variables.length;
+        }
+        if (extracted.containsEdges.length > 0) {
+            await repo.insertContainsEdges(extracted.containsEdges);
+            edgesCreated += extracted.containsEdges.length;
+        }
+        if (extracted.extendsEdges.length > 0) {
+            await repo.insertExtendsEdges(extracted.extendsEdges);
+            edgesCreated += extracted.extendsEdges.length;
+        }
+        if (extracted.implementsEdges.length > 0) {
+            await repo.insertImplementsEdges(extracted.implementsEdges);
+            edgesCreated += extracted.implementsEdges.length;
+        }
+        await repo.upsertFileNode({ ...file, depthLevel: 1 });
+    }
+    return {
+        stage: 1,
+        filesProcessed,
+        nodesCreated,
+        edgesCreated,
+        durationMs: Date.now() - start,
+        errors,
+    };
+}
+function extractSymbols(content, grammar, config, file) {
+    const parser = new Parser();
+    parser.setLanguage(grammar);
+    const tree = parser.parse(content);
+    const result = {
+        functions: [],
+        classes: [],
+        methods: [],
+        interfaces: [],
+        types: [],
+        variables: [],
+        containsEdges: [],
+        extendsEdges: [],
+        implementsEdges: [],
+    };
+    const relPath = file.path;
+    const fileId = `file:${relPath}`;
+    const cursor = tree.rootNode.walk();
+    let reachedRoot = false;
+    while (!reachedRoot) {
+        const node = cursor.currentNode;
+        if (config.functionTypes.has(node.type) && !isInsideClass(node, config)) {
+            const name = getFunctionName(node);
+            if (name) {
+                const isAsync = hasAsyncKeyword(node);
+                const isExported = isNodeExported(node);
+                const signature = extractSignature(node);
+                const fnNode = {
+                    id: `fn:${relPath}:${name}`,
+                    name,
+                    qualifiedName: name,
+                    filePath: relPath,
+                    lineStart: node.startPosition.row + 1,
+                    lineEnd: node.endPosition.row + 1,
+                    isAsync,
+                    isExported,
+                    isEntryPoint: false,
+                    entryPointScore: 0,
+                    signature,
+                    community: null,
+                    pageRank: null,
+                    betweenness: null,
+                };
+                result.functions.push(fnNode);
+                result.containsEdges.push({
+                    sourceId: fileId,
+                    targetId: fnNode.id,
+                    confidence: 1.0,
+                    stage: 1,
+                    reason: null,
+                });
+            }
+        }
+        if (config.classTypes.has(node.type)) {
+            const name = getClassName(node);
+            if (name) {
+                const isAbstract = hasAbstractKeyword(node);
+                const isExported = isNodeExported(node);
+                const classNode = {
+                    id: `class:${relPath}:${name}`,
+                    name,
+                    filePath: relPath,
+                    lineStart: node.startPosition.row + 1,
+                    lineEnd: node.endPosition.row + 1,
+                    isAbstract,
+                    isExported,
+                    community: null,
+                    pageRank: null,
+                    betweenness: null,
+                };
+                result.classes.push(classNode);
+                result.containsEdges.push({
+                    sourceId: fileId,
+                    targetId: classNode.id,
+                    confidence: 1.0,
+                    stage: 1,
+                    reason: null,
+                });
+                extractClassHeritage(node, relPath, name, result);
+                extractMethods(node, relPath, name, config, result, fileId);
+            }
+        }
+        if (config.interfaceTypes.has(node.type)) {
+            const name = node.childForFieldName('name')?.text;
+            if (name) {
+                const isExported = isNodeExported(node);
+                const ifaceNode = {
+                    id: `interface:${relPath}:${name}`,
+                    name,
+                    filePath: relPath,
+                    lineStart: node.startPosition.row + 1,
+                    lineEnd: node.endPosition.row + 1,
+                    isExported,
+                };
+                result.interfaces.push(ifaceNode);
+                result.containsEdges.push({
+                    sourceId: fileId,
+                    targetId: ifaceNode.id,
+                    confidence: 1.0,
+                    stage: 1,
+                    reason: null,
+                });
+            }
+        }
+        if (config.typeAliasTypes.has(node.type)) {
+            const name = node.childForFieldName('name')?.text;
+            if (name) {
+                const isExported = isNodeExported(node);
+                const typeNode = {
+                    id: `type:${relPath}:${name}`,
+                    name,
+                    kind: 'type_alias',
+                    filePath: relPath,
+                    lineStart: node.startPosition.row + 1,
+                    lineEnd: node.endPosition.row + 1,
+                    isExported,
+                };
+                result.types.push(typeNode);
+                result.containsEdges.push({
+                    sourceId: fileId,
+                    targetId: typeNode.id,
+                    confidence: 1.0,
+                    stage: 1,
+                    reason: null,
+                });
+            }
+        }
+        if (config.enumTypes.has(node.type)) {
+            const name = node.childForFieldName('name')?.text;
+            if (name) {
+                const isExported = isNodeExported(node);
+                const typeNode = {
+                    id: `type:${relPath}:${name}`,
+                    name,
+                    kind: 'enum',
+                    filePath: relPath,
+                    lineStart: node.startPosition.row + 1,
+                    lineEnd: node.endPosition.row + 1,
+                    isExported,
+                };
+                result.types.push(typeNode);
+                result.containsEdges.push({
+                    sourceId: fileId,
+                    targetId: typeNode.id,
+                    confidence: 1.0,
+                    stage: 1,
+                    reason: null,
+                });
+            }
+        }
+        if (config.variableTypes.has(node.type) && isAtModuleLevel(node)) {
+            extractVariables(node, relPath, fileId, result);
+        }
+        if (cursor.gotoFirstChild())
+            continue;
+        if (cursor.gotoNextSibling())
+            continue;
+        while (true) {
+            if (!cursor.gotoParent()) {
+                reachedRoot = true;
+                break;
+            }
+            if (cursor.gotoNextSibling())
+                break;
+        }
+    }
+    return result;
+}
+function isInsideClass(node, config) {
+    let parent = node.parent;
+    while (parent) {
+        if (config.classTypes.has(parent.type))
+            return true;
+        if (parent.type === 'impl_item')
+            return true;
+        parent = parent.parent;
+    }
+    return false;
+}
+function getFunctionName(node) {
+    const nameNode = node.childForFieldName('name');
+    if (nameNode && nameNode.type !== 'ERROR')
+        return nameNode.text;
+    const declarator = node.childForFieldName('declarator');
+    if (declarator) {
+        if (declarator.type === 'function_declarator') {
+            const innerName = declarator.childForFieldName('declarator');
+            if (innerName)
+                return innerName.text;
+        }
+        if (declarator.type === 'identifier')
+            return declarator.text;
+    }
+    const parent = node.parent;
+    if (parent?.type === 'variable_declarator') {
+        const name = parent.childForFieldName('name');
+        if (name)
+            return name.text;
+    }
+    return null;
+}
+function getClassName(node) {
+    const nameNode = node.childForFieldName('name');
+    if (nameNode)
+        return nameNode.text;
+    for (const child of node.children) {
+        if (child.type === 'type_identifier' || child.type === 'identifier') {
+            return child.text;
+        }
+    }
+    return null;
+}
+function hasAsyncKeyword(node) {
+    for (const child of node.children) {
+        if (child.type === 'async')
+            return true;
+    }
+    const parent = node.parent;
+    if (parent) {
+        for (const child of parent.children) {
+            if (child.type === 'async' && child === parent.children[0])
+                return true;
+        }
+    }
+    return false;
+}
+function hasAbstractKeyword(node) {
+    const parent = node.parent;
+    if (parent?.type === 'abstract_class_declaration')
+        return true;
+    for (const child of node.children) {
+        if (child.text === 'abstract')
+            return true;
+    }
+    return false;
+}
+function isNodeExported(node) {
+    const parent = node.parent;
+    if (parent?.type === 'export_statement')
+        return true;
+    const grandparent = parent?.parent;
+    if (grandparent?.type === 'export_statement')
+        return true;
+    if (parent?.type === 'lexical_declaration' && grandparent?.type === 'export_statement') {
+        return true;
+    }
+    return false;
+}
+function isAtModuleLevel(node) {
+    const parent = node.parent;
+    if (!parent)
+        return true;
+    if (parent.type === 'program')
+        return true;
+    if (parent.type === 'export_statement' && parent.parent?.type === 'program')
+        return true;
+    return false;
+}
+function extractSignature(node) {
+    const params = node.childForFieldName('parameters');
+    if (!params)
+        return null;
+    const returnType = node.childForFieldName('return_type');
+    if (returnType) {
+        return `${params.text}: ${returnType.text.replace(/^:\s*/, '')}`;
+    }
+    return params.text;
+}
+function extractMethods(classNode, relPath, className, config, result, fileId) {
+    const body = classNode.childForFieldName('body') ?? findClassBody(classNode);
+    if (!body)
+        return;
+    for (const child of body.children) {
+        if (!config.methodTypes.has(child.type))
+            continue;
+        const name = getFunctionName(child);
+        if (!name)
+            continue;
+        const qualifiedName = `${className}.${name}`;
+        const visibility = getVisibility(child);
+        const isStatic = hasStaticKeyword(child);
+        const isAsync = hasAsyncKeyword(child);
+        const methodNode = {
+            id: `method:${relPath}:${qualifiedName}`,
+            name,
+            className,
+            qualifiedName,
+            filePath: relPath,
+            lineStart: child.startPosition.row + 1,
+            lineEnd: child.endPosition.row + 1,
+            visibility,
+            isStatic,
+            isAsync,
+            community: null,
+            pageRank: null,
+            betweenness: null,
+        };
+        result.methods.push(methodNode);
+        result.containsEdges.push({
+            sourceId: fileId,
+            targetId: methodNode.id,
+            confidence: 1.0,
+            stage: 1,
+            reason: null,
+        });
+    }
+}
+function findClassBody(node) {
+    for (const child of node.children) {
+        if (child.type === 'class_body' ||
+            child.type === 'block' ||
+            child.type === 'declaration_list' ||
+            child.type === 'field_declaration_list') {
+            return child;
+        }
+    }
+    return null;
+}
+function getVisibility(node) {
+    for (const child of node.children) {
+        if (child.type === 'accessibility_modifier') {
+            return child.text;
+        }
+    }
+    return 'public';
+}
+function hasStaticKeyword(node) {
+    for (const child of node.children) {
+        if (child.text === 'static')
+            return true;
+    }
+    return false;
+}
+function extractClassHeritage(classNode, relPath, className, result) {
+    const classId = `class:${relPath}:${className}`;
+    for (const child of classNode.children) {
+        if (child.type === 'class_heritage') {
+            for (const clause of child.children) {
+                if (clause.type === 'extends_clause') {
+                    const typeNode = clause.children.find((c) => c.type === 'identifier' || c.type === 'type_identifier');
+                    if (typeNode) {
+                        result.extendsEdges.push({
+                            sourceId: classId,
+                            targetId: `class:${relPath}:${typeNode.text}`,
+                            line: clause.startPosition.row + 1,
+                            confidence: 1.0,
+                            stage: 1,
+                            reason: null,
+                        });
+                    }
+                }
+                if (clause.type === 'implements_clause') {
+                    for (const typeRef of clause.children) {
+                        if (typeRef.type === 'identifier' || typeRef.type === 'type_identifier') {
+                            result.implementsEdges.push({
+                                sourceId: classId,
+                                targetId: `interface:${relPath}:${typeRef.text}`,
+                                line: clause.startPosition.row + 1,
+                                confidence: 1.0,
+                                stage: 1,
+                                reason: null,
+                            });
+                        }
+                    }
+                }
+            }
+        }
+        if (child.type === 'extends_type_clause') {
+            const typeNode = child.children.find((c) => c.type === 'identifier' || c.type === 'type_identifier');
+            if (typeNode) {
+                result.extendsEdges.push({
+                    sourceId: classId,
+                    targetId: `class:${relPath}:${typeNode.text}`,
+                    line: child.startPosition.row + 1,
+                    confidence: 1.0,
+                    stage: 1,
+                    reason: null,
+                });
+            }
+        }
+    }
+}
+function extractVariables(node, relPath, fileId, result) {
+    const isExported = isNodeExported(node);
+    if (!isExported)
+        return;
+    for (const child of node.children) {
+        if (child.type === 'variable_declarator') {
+            const nameNode = child.childForFieldName('name');
+            if (!nameNode)
+                continue;
+            const name = nameNode.text;
+            const typeAnnotation = child.childForFieldName('type');
+            const inferredType = typeAnnotation ? typeAnnotation.text.replace(/^:\s*/, '') : null;
+            const varNode = {
+                id: `var:${relPath}:${name}`,
+                name,
+                scope: 'module',
+                filePath: relPath,
+                lineStart: child.startPosition.row + 1,
+                lineEnd: child.endPosition.row + 1,
+                isExported,
+                inferredType,
+            };
+            result.variables.push(varNode);
+            result.containsEdges.push({
+                sourceId: fileId,
+                targetId: varNode.id,
+                confidence: 1.0,
+                stage: 1,
+                reason: null,
+            });
+        }
+    }
+}
+//# sourceMappingURL=stage-1-symbols.js.map

package/dist/src/cortex/stage-1-symbols.js.map

@@ -0,0 +1 @@
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package/dist/src/cortex/stage-2-resolution.d.ts

@@ -0,0 +1,7 @@
+import { CortexRepository } from './repository.js';
+import type { StageResult } from './types.js';
+export declare function runStage2(repo: CortexRepository, rootDir: string, options?: {
+    force?: boolean;
+    targetFiles?: string[];
+}): Promise<StageResult>;
+//# sourceMappingURL=stage-2-resolution.d.ts.map

package/dist/src/cortex/stage-2-resolution.d.ts.map

@@ -0,0 +1 @@
+{"version":3,"file":"stage-2-resolution.d.ts","sourceRoot":"","sources":["../../../src/cortex/stage-2-resolution.ts"],"names":[],"mappings":"AAIA,OAAO,EAAE,gBAAgB,EAAE,MAAM,iBAAiB,CAAC;AACnD,OAAO,KAAK,EACR,WAAW,EAMd,MAAM,YAAY,CAAC;AAiCpB,wBAAsB,SAAS,CAC3B,IAAI,EAAE,gBAAgB,EACtB,OAAO,EAAE,MAAM,EACf,OAAO,CAAC,EAAE;IAAE,KAAK,CAAC,EAAE,OAAO,CAAC;IAAC,WAAW,CAAC,EAAE,MAAM,EAAE,CAAA;CAAE,GACtD,OAAO,CAAC,WAAW,CAAC,CAoHtB"}