@machina.ai/cell-cli-core 1.13.0-rc4 → 1.16.0-rc1

package/dist/src/tools/tool-registry.js

@@ -12,20 +12,21 @@ import { ToolErrorType } from './tool-error.js';
 import { safeJsonStringify } from '../utils/safeJsonStringify.js';
 import { debugLogger } from '../utils/debugLogger.js';
 import { coreEvents } from '../utils/events.js';
+export const DISCOVERED_TOOL_PREFIX = 'discovered_tool_';
 class DiscoveredToolInvocation extends BaseToolInvocation {
     config;
-    toolName;
-    constructor(config, toolName, params) {
-        super(params);
+    originalToolName;
+    constructor(config, originalToolName, prefixedToolName, params, messageBus) {
+        super(params, messageBus, prefixedToolName);
         this.config = config;
-        this.toolName = toolName;
+        this.originalToolName = originalToolName;
     }
     getDescription() {
         return safeJsonStringify(this.params);
     }
     async execute(_signal, _updateOutput) {
         const callCommand = this.config.getToolCallCommand();
-        const child = spawn(callCommand, [this.toolName]);
+        const child = spawn(callCommand, [this.originalToolName]);
         child.stdin.write(JSON.stringify(this.params));
         child.stdin.end();
         let stdout = '';
@@ -89,15 +90,16 @@ class DiscoveredToolInvocation extends BaseToolInvocation {
 }
 export class DiscoveredTool extends BaseDeclarativeTool {
     config;
-    description;
     parameterSchema;
-    constructor(config, name, description, parameterSchema) {
+    originalName;
+    constructor(config, originalName, prefixedName, description, parameterSchema, messageBus) {
         const discoveryCmd = config.getToolDiscoveryCommand();
         const callCommand = config.getToolCallCommand();
-        description += `
+        const fullDescription = description +
+            `
 
 This tool was discovered from the project by executing the command \`${discoveryCmd}\` on project root.
-When called, this tool will execute the command \`${callCommand} ${name}\` on project root.
+When called, this tool will execute the command \`${callCommand} ${originalName}\` on project root.
 Tool discovery and call commands can be configured in project or user settings.
 
 When called, the tool call command is executed as a subprocess.
@@ -110,19 +112,22 @@ Error: Error or \`(none)\` if no error was reported for the subprocess.
 Exit Code: Exit code or \`(none)\` if terminated by signal.
 Signal: Signal number or \`(none)\` if no signal was received.
 `;
-        super(name, name, description, Kind.Other, parameterSchema, false, // isOutputMarkdown
-        false);
+        super(prefixedName, prefixedName, fullDescription, Kind.Other, parameterSchema, false, // isOutputMarkdown
+        false, // canUpdateOutput
+        messageBus);
         this.config = config;
-        this.description = description;
         this.parameterSchema = parameterSchema;
+        this.originalName = originalName;
     }
     createInvocation(params, _messageBus, _toolName, _displayName) {
-        return new DiscoveredToolInvocation(this.config, this.name, params);
+        return new DiscoveredToolInvocation(this.config, this.originalName, this.name, params, _messageBus);
     }
 }
 export class ToolRegistry {
     // The tools keyed by tool name as seen by the LLM.
-    tools = new Map();
+    // This includes tools which are currently not active, use `getActiveTools`
+    // and `isActive` to get only the active tools.
+    allKnownTools = new Map();
     config;
     messageBus;
     constructor(config) {
@@ -136,10 +141,14 @@ export class ToolRegistry {
     }
     /**
      * Registers a tool definition.
+     *
+     * Note that excluded tools are still registered to allow for enabling them
+     * later in the session.
+     *
      * @param tool - The tool object containing schema and execution logic.
      */
     registerTool(tool) {
-        if (this.tools.has(tool.name)) {
+        if (this.allKnownTools.has(tool.name)) {
             if (tool instanceof DiscoveredMCPTool) {
                 tool = tool.asFullyQualifiedTool();
             }
@@ -148,12 +157,44 @@ export class ToolRegistry {
                 debugLogger.warn(`Tool with name "${tool.name}" is already registered. Overwriting.`);
             }
         }
-        this.tools.set(tool.name, tool);
+        this.allKnownTools.set(tool.name, tool);
+    }
+    /**
+     * Sorts tools as:
+     * 1. Built in tools.
+     * 2. Discovered tools.
+     * 3. MCP tools ordered by server name.
+     *
+     * This is a stable sort in that tries preserve existing order.
+     */
+    sortTools() {
+        const getPriority = (tool) => {
+            if (tool instanceof DiscoveredMCPTool)
+                return 2;
+            if (tool instanceof DiscoveredTool)
+                return 1;
+            return 0; // Built-in
+        };
+        this.allKnownTools = new Map(Array.from(this.allKnownTools.entries()).sort((a, b) => {
+            const toolA = a[1];
+            const toolB = b[1];
+            const priorityA = getPriority(toolA);
+            const priorityB = getPriority(toolB);
+            if (priorityA !== priorityB) {
+                return priorityA - priorityB;
+            }
+            if (priorityA === 2) {
+                const serverA = toolA.serverName;
+                const serverB = toolB.serverName;
+                return serverA.localeCompare(serverB);
+            }
+            return 0;
+        }));
     }
     removeDiscoveredTools() {
-        for (const tool of this.tools.values()) {
+        for (const tool of this.allKnownTools.values()) {
             if (tool instanceof DiscoveredTool || tool instanceof DiscoveredMCPTool) {
-                this.tools.delete(tool.name);
+                this.allKnownTools.delete(tool.name);
             }
         }
     }
@@ -162,9 +203,9 @@ export class ToolRegistry {
      * @param serverName The name of the server to remove tools from.
      */
     removeMcpToolsByServer(serverName) {
-        for (const [name, tool] of this.tools.entries()) {
+        for (const [name, tool] of this.allKnownTools.entries()) {
             if (tool instanceof DiscoveredMCPTool && tool.serverName === serverName) {
-                this.tools.delete(name);
+                this.allKnownTools.delete(name);
             }
         }
     }
@@ -265,7 +306,7 @@ export class ToolRegistry {
                     !Array.isArray(func.parametersJsonSchema)
                     ? func.parametersJsonSchema
                     : {};
-                this.registerTool(new DiscoveredTool(this.config, func.name, func.description ?? '', parameters));
+                this.registerTool(new DiscoveredTool(this.config, func.name, DISCOVERED_TOOL_PREFIX + func.name, func.description ?? '', parameters, this.messageBus));
             }
         }
         catch (e) {
@@ -273,6 +314,39 @@ export class ToolRegistry {
             throw e;
         }
     }
+    /**
+     * @returns All the tools that are not excluded.
+     */
+    getActiveTools() {
+        const excludedTools = this.config.getExcludeTools() ?? new Set([]);
+        const activeTools = [];
+        for (const tool of this.allKnownTools.values()) {
+            if (this.isActiveTool(tool, excludedTools)) {
+                activeTools.push(tool);
+            }
+        }
+        return activeTools;
+    }
+    /**
+     * @param tool
+     * @param excludeTools (optional, helps performance for repeated calls)
+     * @returns Whether or not the `tool` is not excluded.
+     */
+    isActiveTool(tool, excludeTools) {
+        excludeTools ??= this.config.getExcludeTools() ?? new Set([]);
+        const normalizedClassName = tool.constructor.name.replace(/^_+/, '');
+        const possibleNames = [tool.name, normalizedClassName];
+        if (tool instanceof DiscoveredMCPTool) {
+            // Check both the unqualified and qualified name for MCP tools.
+            if (tool.name.startsWith(tool.getFullyQualifiedPrefix())) {
+                possibleNames.push(tool.name.substring(tool.getFullyQualifiedPrefix().length));
+            }
+            else {
+                possibleNames.push(`${tool.getFullyQualifiedPrefix()}${tool.name}`);
+            }
+        }
+        return !possibleNames.some((name) => excludeTools.has(name));
+    }
     /**
      * Retrieves the list of tool schemas (FunctionDeclaration array).
      * Extracts the declarations from the ToolListUnion structure.
@@ -281,7 +355,7 @@ export class ToolRegistry {
      */
     getFunctionDeclarations() {
         const declarations = [];
-        this.tools.forEach((tool) => {
+        this.getActiveTools().forEach((tool) => {
             declarations.push(tool.schema);
         });
         return declarations;
@@ -294,31 +368,32 @@ export class ToolRegistry {
     getFunctionDeclarationsFiltered(toolNames) {
         const declarations = [];
         for (const name of toolNames) {
-            const tool = this.tools.get(name);
-            if (tool) {
+            const tool = this.allKnownTools.get(name);
+            if (tool && this.isActiveTool(tool)) {
                 declarations.push(tool.schema);
             }
         }
         return declarations;
     }
     /**
-     * Returns an array of all registered and discovered tool names.
+     * Returns an array of all registered and discovered tool names which are not
+     * excluded via configuration.
      */
     getAllToolNames() {
-        return Array.from(this.tools.keys());
+        return this.getActiveTools().map((tool) => tool.name);
     }
     /**
      * Returns an array of all registered and discovered tool instances.
      */
     getAllTools() {
-        return Array.from(this.tools.values()).sort((a, b) => a.displayName.localeCompare(b.displayName));
+        return this.getActiveTools().sort((a, b) => a.displayName.localeCompare(b.displayName));
     }
     /**
      * Returns an array of tools registered from a specific MCP server.
      */
     getToolsByServer(serverName) {
         const serverTools = [];
-        for (const tool of this.tools.values()) {
+        for (const tool of this.getActiveTools()) {
             if (tool?.serverName === serverName) {
                 serverTools.push(tool);
             }
@@ -329,7 +404,11 @@ export class ToolRegistry {
      * Get the definition of a specific tool.
      */
     getTool(name) {
-        return this.tools.get(name);
+        const tool = this.allKnownTools.get(name);
+        if (tool && this.isActiveTool(tool)) {
+            return tool;
+        }
+        return;
     }
 }
 //# sourceMappingURL=tool-registry.js.map

package/dist/src/tools/tool-registry.js.map

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package/dist/src/tools/tool-registry.test.js

@@ -6,7 +6,7 @@
 import { describe, it, expect, vi, beforeEach, afterEach } from 'vitest';
 import { Config } from '../config/config.js';
 import { ApprovalMode } from '../policy/types.js';
-import { ToolRegistry, DiscoveredTool } from './tool-registry.js';
+import { ToolRegistry, DiscoveredTool, DISCOVERED_TOOL_PREFIX, } from './tool-registry.js';
 import { DiscoveredMCPTool } from './mcp-tool.js';
 import { mcpToTool } from '@google/genai';
 import { spawn } from 'node:child_process';
@@ -84,6 +84,7 @@ describe('ToolRegistry', () => {
     let config;
     let toolRegistry;
     let mockConfigGetToolDiscoveryCommand;
+    let mockConfigGetExcludedTools;
     beforeEach(() => {
         vi.mocked(fs.existsSync).mockReturnValue(true);
         vi.mocked(fs.statSync).mockReturnValue({
@@ -101,6 +102,7 @@ describe('ToolRegistry', () => {
         vi.mocked(mcpToTool).mockClear();
         vi.mocked(mcpToTool).mockReturnValue(createMockCallableTool([]));
         mockConfigGetToolDiscoveryCommand = vi.spyOn(config, 'getToolDiscoveryCommand');
+        mockConfigGetExcludedTools = vi.spyOn(config, 'getExcludeTools');
         vi.spyOn(config, 'getMcpServers');
         vi.spyOn(config, 'getMcpServerCommand');
         vi.spyOn(config, 'getPromptRegistry').mockReturnValue({
@@ -118,6 +120,60 @@ describe('ToolRegistry', () => {
             expect(toolRegistry.getTool('mock-tool')).toBe(tool);
         });
     });
+    describe('excluded tools', () => {
+        const simpleTool = new MockTool({
+            name: 'tool-a',
+            displayName: 'Tool a',
+        });
+        const excludedTool = new ExcludedMockTool({
+            name: 'excluded-tool-class',
+            displayName: 'Excluded Tool Class',
+        });
+        const mockCallable = {};
+        const mcpTool = new DiscoveredMCPTool(mockCallable, 'mcp-server', 'excluded-mcp-tool', 'description', {});
+        const allowedTool = new MockTool({
+            name: 'allowed-tool',
+            displayName: 'Allowed Tool',
+        });
+        it.each([
+            {
+                name: 'should match simple names',
+                tools: [simpleTool],
+                excludedTools: ['tool-a'],
+            },
+            {
+                name: 'should match simple MCP tool names, when qualified or unqualified',
+                tools: [mcpTool, mcpTool.asFullyQualifiedTool()],
+                excludedTools: [mcpTool.name],
+            },
+            {
+                name: 'should match qualified MCP tool names when qualified or unqualified',
+                tools: [mcpTool, mcpTool.asFullyQualifiedTool()],
+                excludedTools: [`${mcpTool.getFullyQualifiedPrefix()}${mcpTool.name}`],
+            },
+            {
+                name: 'should match class names',
+                tools: [excludedTool],
+                excludedTools: ['ExcludedMockTool'],
+            },
+        ])('$name', ({ tools, excludedTools }) => {
+            toolRegistry.registerTool(allowedTool);
+            for (const tool of tools) {
+                toolRegistry.registerTool(tool);
+            }
+            mockConfigGetExcludedTools.mockReturnValue(new Set(excludedTools));
+            expect(toolRegistry.getAllTools()).toEqual([allowedTool]);
+            expect(toolRegistry.getAllToolNames()).toEqual([allowedTool.name]);
+            expect(toolRegistry.getFunctionDeclarations()).toEqual(toolRegistry.getFunctionDeclarationsFiltered([allowedTool.name]));
+            for (const tool of tools) {
+                expect(toolRegistry.getTool(tool.name)).toBeUndefined();
+                expect(toolRegistry.getFunctionDeclarationsFiltered([tool.name])).toHaveLength(0);
+                if (tool instanceof DiscoveredMCPTool) {
+                    expect(toolRegistry.getToolsByServer(tool.serverName)).toHaveLength(0);
+                }
+            }
+        });
+    });
     describe('getAllTools', () => {
         it('should return all registered tools sorted alphabetically by displayName', () => {
             // Register tools with displayNames in non-alphabetical order
@@ -181,6 +237,30 @@ describe('ToolRegistry', () => {
             expect(toolsFromServer2[0].name).toBe(mcpTool2.name);
         });
     });
+    describe('sortTools', () => {
+        it('should sort tools by priority: built-in, discovered, then MCP (by server name)', () => {
+            const builtIn1 = new MockTool({ name: 'builtin-1' });
+            const builtIn2 = new MockTool({ name: 'builtin-2' });
+            const discovered1 = new DiscoveredTool(config, 'discovered-1', DISCOVERED_TOOL_PREFIX + 'discovered-1', 'desc', {});
+            const mockCallable = {};
+            const mcpZebra = new DiscoveredMCPTool(mockCallable, 'zebra-server', 'mcp-zebra', 'desc', {});
+            const mcpApple = new DiscoveredMCPTool(mockCallable, 'apple-server', 'mcp-apple', 'desc', {});
+            // Register in mixed order
+            toolRegistry.registerTool(mcpZebra);
+            toolRegistry.registerTool(discovered1);
+            toolRegistry.registerTool(builtIn1);
+            toolRegistry.registerTool(mcpApple);
+            toolRegistry.registerTool(builtIn2);
+            toolRegistry.sortTools();
+            expect(toolRegistry.getAllToolNames()).toEqual([
+                'builtin-1',
+                'builtin-2',
+                DISCOVERED_TOOL_PREFIX + 'discovered-1',
+                'mcp-apple',
+                'mcp-zebra',
+            ]);
+        });
+    });
     describe('discoverTools', () => {
         it('should will preserve tool parametersJsonSchema during discovery from command', async () => {
             const discoveryCommand = 'my-discovery-command';
@@ -222,7 +302,7 @@ describe('ToolRegistry', () => {
                 return mockChildProcess;
             });
             await toolRegistry.discoverAllTools();
-            const discoveredTool = toolRegistry.getTool('tool-with-bad-format');
+            const discoveredTool = toolRegistry.getTool(DISCOVERED_TOOL_PREFIX + 'tool-with-bad-format');
             expect(discoveredTool).toBeDefined();
             const registeredParams = discoveredTool.schema
                 .parametersJsonSchema;
@@ -267,7 +347,7 @@ describe('ToolRegistry', () => {
                 }
             });
             await toolRegistry.discoverAllTools();
-            const discoveredTool = toolRegistry.getTool('failing-tool');
+            const discoveredTool = toolRegistry.getTool(DISCOVERED_TOOL_PREFIX + 'failing-tool');
             expect(discoveredTool).toBeDefined();
             // --- Execution Mock ---
             const executionProcess = {
@@ -296,10 +376,52 @@ describe('ToolRegistry', () => {
             expect(result.llmContent).toContain('Stderr: Something went wrong');
             expect(result.llmContent).toContain('Exit Code: 1');
         });
+        it('should pass MessageBus to DiscoveredTool and its invocations', async () => {
+            const discoveryCommand = 'my-discovery-command';
+            mockConfigGetToolDiscoveryCommand.mockReturnValue(discoveryCommand);
+            // Mock MessageBus
+            const mockMessageBus = {
+                publish: vi.fn(),
+                subscribe: vi.fn(),
+                unsubscribe: vi.fn(),
+            };
+            toolRegistry.setMessageBus(mockMessageBus);
+            const toolDeclaration = {
+                name: 'policy-test-tool',
+                description: 'tests policy',
+                parametersJsonSchema: { type: 'object', properties: {} },
+            };
+            const mockSpawn = vi.mocked(spawn);
+            const discoveryProcess = {
+                stdout: { on: vi.fn(), removeListener: vi.fn() },
+                stderr: { on: vi.fn(), removeListener: vi.fn() },
+                on: vi.fn(),
+                kill: vi.fn(),
+            };
+            mockSpawn.mockReturnValueOnce(discoveryProcess);
+            discoveryProcess.stdout.on.mockImplementation((event, callback) => {
+                if (event === 'data') {
+                    callback(Buffer.from(JSON.stringify([{ functionDeclarations: [toolDeclaration] }])));
+                }
+            });
+            discoveryProcess.on.mockImplementation((event, callback) => {
+                if (event === 'close') {
+                    callback(0);
+                }
+            });
+            await toolRegistry.discoverAllTools();
+            const tool = toolRegistry.getTool(DISCOVERED_TOOL_PREFIX + 'policy-test-tool');
+            expect(tool).toBeDefined();
+            // Verify DiscoveredTool has the message bus
+            expect(tool.messageBus).toBe(mockMessageBus);
+            const invocation = tool.build({});
+            // Verify DiscoveredToolInvocation has the message bus
+            expect(invocation.messageBus).toBe(mockMessageBus);
+        });
     });
     describe('DiscoveredToolInvocation', () => {
         it('should return the stringified params from getDescription', () => {
-            const tool = new DiscoveredTool(config, 'test-tool', 'A test tool', {});
+            const tool = new DiscoveredTool(config, 'test-tool', DISCOVERED_TOOL_PREFIX + 'test-tool', 'A test tool', {});
             const params = { param: 'testValue' };
             const invocation = tool.build(params);
             const description = invocation.getDescription();
@@ -307,4 +429,12 @@ describe('ToolRegistry', () => {
         });
     });
 });
+/**
+ * Used for tests that exclude by class name.
+ */
+class ExcludedMockTool extends MockTool {
+    constructor(options) {
+        super(options);
+    }
+}
 //# sourceMappingURL=tool-registry.test.js.map

package/dist/src/tools/tool-registry.test.js.map

@@ -1 +1 @@
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package/dist/src/tools/tools.d.ts

@@ -50,7 +50,8 @@ export declare abstract class BaseToolInvocation<TParams extends object, TResult
     protected readonly messageBus?: MessageBus | undefined;
     readonly _toolName?: string | undefined;
     readonly _toolDisplayName?: string | undefined;
-    constructor(params: TParams, messageBus?: MessageBus | undefined, _toolName?: string | undefined, _toolDisplayName?: string | undefined);
+    readonly _serverName?: string | undefined;
+    constructor(params: TParams, messageBus?: MessageBus | undefined, _toolName?: string | undefined, _toolDisplayName?: string | undefined, _serverName?: string | undefined);
     abstract getDescription(): string;
     toolLocations(): ToolLocation[];
     shouldConfirmExecute(abortSignal: AbortSignal): Promise<ToolCallConfirmationDetails | false>;

package/dist/src/tools/tools.js

@@ -15,11 +15,13 @@ export class BaseToolInvocation {
     messageBus;
     _toolName;
     _toolDisplayName;
-    constructor(params, messageBus, _toolName, _toolDisplayName) {
+    _serverName;
+    constructor(params, messageBus, _toolName, _toolDisplayName, _serverName) {
         this.params = params;
         this.messageBus = messageBus;
         this._toolName = _toolName;
         this._toolDisplayName = _toolDisplayName;
+        this._serverName = _serverName;
     }
     toolLocations() {
         return [];
@@ -123,6 +125,7 @@ export class BaseToolInvocation {
                 type: MessageBusType.TOOL_CONFIRMATION_REQUEST,
                 toolCall,
                 correlationId,
+                serverName: this._serverName,
             };
             try {
                 this.messageBus.publish(request);
@@ -317,7 +320,7 @@ export function hasCycleInSchema(schema) {
         }
         if ('$ref' in node && typeof node.$ref === 'string') {
             const ref = node.$ref;
-            if (ref === '#/' || pathRefs.has(ref)) {
+            if (ref === '#' || ref === '#/' || pathRefs.has(ref)) {
                 // A ref to just '#/' is always a cycle.
                 return true; // Cycle detected!
             }