agent-dir 0.1.4 → 0.2.0

package/README.md

@@ -153,11 +153,36 @@ The server log distinguishes protocol/header validation from MCP handler errors.
 | `diagnostics` | Project-independent diagnostics; does not run tests, lint, or typecheck |
 | `run_npm_batch` | Run one or more explicitly allowlisted npm scripts sequentially |
 | `run_command_batch` | Run one or more explicitly allowlisted executables sequentially without a shell |
+| `codegraph_explore` | Optional CodeGraph structural code intelligence when the project is indexed |
 
 Batch operations execute sequentially and stop on the first failed command. Tool calls return modern `structuredContent` alongside a serialized text representation, and tools that return structured data advertise an `outputSchema`. List-style protocol methods use opaque cursors when more than 50 entries are available.
 
 Modern `subscriptions/listen` replaces the legacy GET/SSE notification model. Clients can subscribe to tool, prompt, resource-list, and resource-specific change events; filesystem mutations publish resource-change events to active subscribers.
 
+### Optional CodeGraph integration
+
+Agent Dir can optionally bridge the CodeGraph MCP server into the same Agent Dir MCP endpoint. CodeGraph remains an independent tool and dependency; Agent Dir only exposes its `codegraph_explore` capability when the current project has a readable `.codegraph/codegraph.db` index and the `codegraph` executable is available on `PATH`. Agent Dir does not start CodeGraph until `codegraph_explore` is actually called.
+
+Install CodeGraph separately if you want this capability:
+
+```bash
+npm install -g @colbymchenry/codegraph
+codegraph init
+```
+
+CodeGraph exposes `codegraph_explore` as its primary/default MCP tool. Agent Dir forwards its request and structured result without reimplementing graph analysis, and launches CodeGraph with the Agent Dir project root fixed as `--path`; callers cannot select another project through the forwarded tool. Agent Dir intentionally exposes only `codegraph_explore`, even if a CodeGraph installation enables additional MCP tools.
+
+The integration distinguishes these states in `server/discover`:
+
+- `not_installed` — CodeGraph is unavailable on `PATH`.
+- `not_indexed` — CodeGraph is installed, but this project has no readable `.codegraph/codegraph.db`.
+- `available` — CodeGraph is installed and this project is indexed.
+- `startup_failed` / `runtime_failed` — CodeGraph could not initialize or later terminated; Agent Dir remains available and reports the failure locally.
+
+The CodeGraph child process is reused for subsequent calls and is terminated with Agent Dir shutdown. Agent Dir passes a deliberately limited environment to the child and does not forward arbitrary `projectPath` values, credentials, or unrelated filesystem paths.
+
+CodeGraph is optional: without it, the normal Agent Dir tool surface and behavior are unchanged.
+
 ### Command permissions
 
 npm scripts must be explicitly enabled:

package/dist/bin/agent-dir.js

@@ -158,7 +158,6 @@ const bannerOptions = {
     root: directory,
     port,
     tunnel,
-    token,
 };
 const npmScripts = commandConfig.npm?.allowedScripts;
 const allowedCommands = commandConfig.commands;
@@ -176,7 +175,7 @@ let tunnelResult;
 console.log("  ✓ SERVER ONLINE");
 console.log(`    Local target : http://127.0.0.1:${port}`);
 console.log("    Auth         : Bearer token");
-console.log(`    Token        : ${token}`);
+console.log("    Token        : <configured>");
 if (tunnel !== "none") {
     try {
         tunnelResult = await startTunnel({

package/dist/bin/agent-dir.js.map

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

@@ -0,0 +1,33 @@
+export type CodeGraphStatus = "not_installed" | "not_indexed" | "available" | "startup_failed" | "runtime_failed" | "stopped";
+export interface CodeGraphCapability {
+    status: CodeGraphStatus;
+    installed: boolean;
+    indexed: boolean;
+    tool: "codegraph_explore" | null;
+    detail?: string;
+}
+export declare class CodeGraphIntegration {
+    private readonly root;
+    private capabilityPromise?;
+    private process;
+    private buffer;
+    private nextId;
+    private initialized;
+    private closed;
+    private runtimeFailure;
+    private readonly pending;
+    constructor(root: string);
+    capability(): Promise<CodeGraphCapability>;
+    explore(query: string, maxFiles?: number): Promise<Record<string, unknown>>;
+    close(): Promise<void>;
+    private detect;
+    private hasIndex;
+    private isInstalled;
+    private ensureStarted;
+    private request;
+    private notify;
+    private consume;
+    private handleProcessFailure;
+    private rejectPending;
+}
+//# sourceMappingURL=codegraph.d.ts.map

package/dist/src/codegraph.d.ts.map

@@ -0,0 +1 @@
+{"version":3,"file":"codegraph.d.ts","sourceRoot":"","sources":["../../src/codegraph.ts"],"names":[],"mappings":"AAaA,MAAM,MAAM,eAAe,GACvB,eAAe,GACf,aAAa,GACb,WAAW,GACX,gBAAgB,GAChB,gBAAgB,GAChB,SAAS,CAAC;AAEd,MAAM,WAAW,mBAAmB;IAClC,MAAM,EAAE,eAAe,CAAC;IACxB,SAAS,EAAE,OAAO,CAAC;IACnB,OAAO,EAAE,OAAO,CAAC;IACjB,IAAI,EAAE,mBAAmB,GAAG,IAAI,CAAC;IACjC,MAAM,CAAC,EAAE,MAAM,CAAC;CACjB;AAiBD,qBAAa,oBAAoB;IAC/B,OAAO,CAAC,QAAQ,CAAC,IAAI,CAAS;IAC9B,OAAO,CAAC,iBAAiB,CAAC,CAA+B;IACzD,OAAO,CAAC,OAAO,CAA6C;IAC5D,OAAO,CAAC,MAAM,CAAM;IACpB,OAAO,CAAC,MAAM,CAAK;IACnB,OAAO,CAAC,WAAW,CAAS;IAC5B,OAAO,CAAC,MAAM,CAAS;IACvB,OAAO,CAAC,cAAc,CAAqB;IAC3C,OAAO,CAAC,QAAQ,CAAC,OAAO,CAAqC;IAE7D,YAAY,IAAI,EAAE,MAAM,EAEvB;IAEK,UAAU,IAAI,OAAO,CAAC,mBAAmB,CAAC,CAG/C;IAEK,OAAO,CAAC,KAAK,EAAE,MAAM,EAAE,QAAQ,CAAC,EAAE,MAAM,GAAG,OAAO,CAAC,MAAM,CAAC,MAAM,EAAE,OAAO,CAAC,CAAC,CAuBhF;IAEK,KAAK,IAAI,OAAO,CAAC,IAAI,CAAC,CAS3B;YAEa,MAAM;YAQN,QAAQ;YASR,WAAW;YAuBX,aAAa;IA2D3B,OAAO,CAAC,OAAO;YA0BD,MAAM;IAOpB,OAAO,CAAC,OAAO;IA4Bf,OAAO,CAAC,oBAAoB;IAmB5B,OAAO,CAAC,aAAa;CAOtB"}

package/dist/src/codegraph.js

@@ -0,0 +1,265 @@
+import { spawn } from "node:child_process";
+import { constants } from "node:fs";
+import { access } from "node:fs/promises";
+import { createRequire } from "node:module";
+import { resolve } from "node:path";
+const require = createRequire(import.meta.url);
+const packageVersion = require("../../package.json").version;
+const CODEGRAPH_COMMAND = "codegraph";
+const REQUEST_TIMEOUT_MS = 120_000;
+const PROTOCOL_VERSION = "2025-11-25";
+const MAX_MESSAGE_BYTES = 1_000_000;
+export class CodeGraphIntegration {
+    root;
+    capabilityPromise;
+    process;
+    buffer = "";
+    nextId = 1;
+    initialized = false;
+    closed = false;
+    runtimeFailure;
+    pending = new Map();
+    constructor(root) {
+        this.root = resolve(root);
+    }
+    async capability() {
+        if (!this.capabilityPromise)
+            this.capabilityPromise = this.detect();
+        return this.capabilityPromise;
+    }
+    async explore(query, maxFiles) {
+        const capability = await this.capability();
+        if (capability.status === "not_installed")
+            throw new Error("CodeGraph is not installed or the codegraph executable is unavailable.");
+        if (capability.status === "not_indexed")
+            throw new Error("CodeGraph is not initialized for this project; no usable .codegraph index exists.");
+        if (capability.status === "startup_failed" || capability.status === "runtime_failed")
+            throw new Error(capability.detail ?? "CodeGraph is unavailable.");
+        if (capability.status === "stopped")
+            throw new Error("CodeGraph is stopped.");
+        await this.ensureStarted();
+        const result = await this.request("tools/call", {
+            name: "codegraph_explore",
+            arguments: {
+                query,
+                ...(maxFiles === undefined ? {} : { maxFiles }),
+            },
+        });
+        if (result.error)
+            throw new Error(result.error.message ?? "CodeGraph MCP request failed.");
+        if (!result.result)
+            throw new Error("CodeGraph returned a malformed MCP response.");
+        return result.result;
+    }
+    async close() {
+        this.closed = true;
+        const child = this.process;
+        this.process = undefined;
+        this.initialized = false;
+        this.rejectPending(new Error("CodeGraph integration closed."));
+        if (!child)
+            return;
+        child.stdin.end();
+        if (!child.killed)
+            child.kill("SIGTERM");
+    }
+    async detect() {
+        const installed = await this.isInstalled();
+        const indexed = await this.hasIndex();
+        if (!installed)
+            return { status: "not_installed", installed: false, indexed, tool: null };
+        if (!indexed)
+            return { status: "not_indexed", installed: true, indexed: false, tool: null };
+        return { status: "available", installed: true, indexed: true, tool: "codegraph_explore" };
+    }
+    async hasIndex() {
+        try {
+            await access(resolve(this.root, ".codegraph", "codegraph.db"), constants.R_OK);
+            return true;
+        }
+        catch {
+            return false;
+        }
+    }
+    async isInstalled() {
+        return new Promise((resolveInstalled) => {
+            const child = spawn(CODEGRAPH_COMMAND, ["--version"], {
+                cwd: this.root,
+                stdio: ["ignore", "ignore", "ignore"],
+                shell: false,
+                env: safeEnvironment(),
+            });
+            const timer = setTimeout(() => {
+                if (!child.killed)
+                    child.kill("SIGTERM");
+                resolveInstalled(false);
+            }, 3_000);
+            child.once("error", () => {
+                clearTimeout(timer);
+                resolveInstalled(false);
+            });
+            child.once("exit", (code) => {
+                clearTimeout(timer);
+                resolveInstalled(code === 0);
+            });
+        });
+    }
+    async ensureStarted() {
+        if (this.closed)
+            throw new Error("CodeGraph is stopped.");
+        if (this.process && this.initialized)
+            return;
+        const child = spawn(CODEGRAPH_COMMAND, ["serve", "--mcp", "--path", this.root], {
+            cwd: this.root,
+            stdio: ["pipe", "pipe", "pipe"],
+            shell: false,
+            env: safeEnvironment(),
+        });
+        this.process = child;
+        this.buffer = "";
+        child.stdout.on("data", (chunk) => this.consume(chunk));
+        child.stderr.on("data", () => undefined);
+        child.once("error", (error) => this.handleProcessFailure(`CodeGraph failed to start: ${error.message}`));
+        child.once("exit", (code, signal) => {
+            if (!this.closed && !this.runtimeFailure)
+                this.handleProcessFailure("CodeGraph process terminated (" +
+                    (signal ? `signal ${signal}` : `code ${code ?? 1}`) +
+                    ").");
+        });
+        try {
+            const initialize = await this.request("initialize", {
+                protocolVersion: PROTOCOL_VERSION,
+                capabilities: {},
+                clientInfo: { name: "agent-dir", version: packageVersion },
+            });
+            if (initialize.error)
+                throw new Error(initialize.error.message ?? "CodeGraph MCP initialization failed.");
+            if (!initialize.result)
+                throw new Error("CodeGraph returned a malformed initialize response.");
+            await this.notify("notifications/initialized");
+            const tools = await this.request("tools/list", {});
+            if (tools.error)
+                throw new Error(tools.error.message ?? "CodeGraph tools/list failed.");
+            const listed = Array.isArray(tools.result?.tools) ? tools.result.tools : [];
+            const explore = listed.find((tool) => typeof tool === "object" &&
+                tool !== null &&
+                tool.name === "codegraph_explore");
+            if (!explore)
+                throw new Error("CodeGraph does not advertise codegraph_explore.");
+            this.initialized = true;
+            this.runtimeFailure = undefined;
+        }
+        catch (error) {
+            const detail = error instanceof Error ? error.message : String(error);
+            this.handleProcessFailure(`CodeGraph startup failed: ${detail}`, "startup_failed");
+            throw new Error(`CodeGraph startup failed: ${detail}`);
+        }
+    }
+    request(method, params) {
+        const child = this.process;
+        if (!child || child.killed || child.stdin.destroyed)
+            return Promise.reject(new Error("CodeGraph process is not running."));
+        const id = this.nextId++;
+        const message = JSON.stringify({ jsonrpc: "2.0", id, method, params });
+        if (Buffer.byteLength(message, "utf8") > MAX_MESSAGE_BYTES)
+            return Promise.reject(new Error("CodeGraph MCP request is too large."));
+        return new Promise((resolveRequest, rejectRequest) => {
+            const timer = setTimeout(() => {
+                this.pending.delete(id);
+                rejectRequest(new Error(`CodeGraph MCP request timed out after ${REQUEST_TIMEOUT_MS}ms.`));
+            }, REQUEST_TIMEOUT_MS);
+            this.pending.set(id, { resolve: resolveRequest, reject: rejectRequest, timer });
+            child.stdin.write(`${message}\n`, (error) => {
+                if (error) {
+                    clearTimeout(timer);
+                    this.pending.delete(id);
+                    rejectRequest(error);
+                }
+            });
+        });
+    }
+    async notify(method) {
+        const child = this.process;
+        if (!child || child.killed || child.stdin.destroyed)
+            throw new Error("CodeGraph process is not running.");
+        child.stdin.write(`${JSON.stringify({ jsonrpc: "2.0", method })}\n`);
+    }
+    consume(chunk) {
+        this.buffer += chunk.toString("utf8");
+        if (Buffer.byteLength(this.buffer, "utf8") > MAX_MESSAGE_BYTES) {
+            this.handleProcessFailure("CodeGraph returned an oversized MCP message.");
+            return;
+        }
+        while (true) {
+            const newline = this.buffer.indexOf("\n");
+            if (newline === -1)
+                return;
+            const line = this.buffer.slice(0, newline).replace(/\r$/, "");
+            this.buffer = this.buffer.slice(newline + 1);
+            if (!line.trim())
+                continue;
+            try {
+                const message = JSON.parse(line);
+                if (message.id === undefined)
+                    continue;
+                const pending = this.pending.get(message.id);
+                if (!pending)
+                    continue;
+                this.pending.delete(message.id);
+                clearTimeout(pending.timer);
+                pending.resolve(message);
+            }
+            catch {
+                this.handleProcessFailure("CodeGraph returned malformed MCP JSON.");
+                return;
+            }
+        }
+    }
+    handleProcessFailure(detail, status = "runtime_failed") {
+        this.runtimeFailure = detail;
+        this.initialized = false;
+        this.rejectPending(new Error(detail));
+        const child = this.process;
+        this.process = undefined;
+        if (child && !child.killed)
+            child.kill("SIGTERM");
+        this.capabilityPromise = Promise.resolve({
+            status,
+            installed: true,
+            indexed: true,
+            tool: "codegraph_explore",
+            detail,
+        });
+    }
+    rejectPending(error) {
+        for (const [id, pending] of this.pending) {
+            this.pending.delete(id);
+            clearTimeout(pending.timer);
+            pending.reject(error);
+        }
+    }
+}
+function safeEnvironment() {
+    const keys = [
+        "PATH",
+        "HOME",
+        "USER",
+        "LOGNAME",
+        "SHELL",
+        "TERM",
+        "TMPDIR",
+        "TMP",
+        "TEMP",
+        "XDG_CONFIG_HOME",
+        "XDG_DATA_HOME",
+        "XDG_STATE_HOME",
+    ];
+    const environment = {};
+    for (const key of keys) {
+        const value = process.env[key];
+        if (value !== undefined)
+            environment[key] = value;
+    }
+    return environment;
+}
+//# sourceMappingURL=codegraph.js.map

package/dist/src/codegraph.js.map

@@ -0,0 +1 @@
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package/dist/src/logging.d.ts.map

@@ -1 +1 @@
-{"version":3,"file":"logging.d.ts","sourceRoot":"","sources":["../../src/logging.ts"],"names":[],"mappings":"AAAA,OAAO,KAAK,EAAE,UAAU,EAAE,MAAM,YAAY,CAAC;AAoH7C,wBAAgB,SAAS,IAAI,IAAI,CAwBhC;AAED,wBAAgB,WAAW,CAAC,OAAO,EAAE;IACnC,IAAI,EAAE,MAAM,CAAC;IACb,IAAI,EAAE,MAAM,CAAC;IACb,MAAM,EAAE,MAAM,CAAC;IACf,WAAW,CAAC,EAAE,MAAM,CAAC;IACrB,SAAS,CAAC,EAAE,MAAM,CAAC;IACnB,KAAK,CAAC,EAAE,MAAM,CAAC;IACf,UAAU,CAAC,EAAE,MAAM,EAAE,CAAC;IACtB,QAAQ,CAAC,EAAE,MAAM,EAAE,CAAC;CACrB,GAAG,IAAI,CAgEP;AAMD,wBAAgB,eAAe,CAAC,KAAK,EAAE,UAAU,GAAG,IAAI,CA2BvD;AAcD,wBAAgB,UAAU,CAAC,KAAK,EAAE,UAAU,GAAG,IAAI,CAElD;AAED,wBAAgB,kBAAkB,IAAI,IAAI,CAKzC"}
+{"version":3,"file":"logging.d.ts","sourceRoot":"","sources":["../../src/logging.ts"],"names":[],"mappings":"AAAA,OAAO,KAAK,EAAE,UAAU,EAAE,MAAM,YAAY,CAAC;AA2H7C,wBAAgB,SAAS,IAAI,IAAI,CAwBhC;AAED,wBAAgB,WAAW,CAAC,OAAO,EAAE;IACnC,IAAI,EAAE,MAAM,CAAC;IACb,IAAI,EAAE,MAAM,CAAC;IACb,MAAM,EAAE,MAAM,CAAC;IACf,WAAW,CAAC,EAAE,MAAM,CAAC;IACrB,SAAS,CAAC,EAAE,MAAM,CAAC;IACnB,KAAK,CAAC,EAAE,MAAM,CAAC;IACf,UAAU,CAAC,EAAE,MAAM,EAAE,CAAC;IACtB,QAAQ,CAAC,EAAE,MAAM,EAAE,CAAC;CACrB,GAAG,IAAI,CAgEP;AAMD,wBAAgB,eAAe,CAAC,KAAK,EAAE,UAAU,GAAG,IAAI,CA2BvD;AAcD,wBAAgB,UAAU,CAAC,KAAK,EAAE,UAAU,GAAG,IAAI,CAElD;AAED,wBAAgB,kBAAkB,IAAI,IAAI,CAKzC"}

package/dist/src/logging.js

@@ -46,6 +46,13 @@ const TOOL_ICONS = {
     allowed_commands: "🔐",
     file_info: "ℹ️",
     diagnostics: "🩺",
+    project_context: "🧭",
+    inspect: "🔎",
+    locate: "🎯",
+    read_relevant: "🎯",
+    git_changes: "📋",
+    apply_changes: "✏️",
+    validate: "✓",
 };
 const MCP_METHOD_ICONS = {
     initialize: "🚀",

package/dist/src/logging.js.map

@@ -1 +1 @@
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package/dist/src/mcp.d.ts.map

@@ -1 +1 @@
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