@colbymchenry/codegraph-darwin-x64 0.9.8 → 1.0.0

package/lib/dist/mcp/session.js

@@ -52,6 +52,8 @@ const transport_1 = require("./transport");
 const tools_1 = require("./tools");
 const server_instructions_1 = require("./server-instructions");
 const version_1 = require("./version");
+const directory_1 = require("../directory");
+const telemetry_1 = require("../telemetry");
 /**
  * MCP Server Info — kept on the session because some clients log it. The
  * version tracks the real package version (was a hard-coded '0.1.0').
@@ -106,6 +108,8 @@ class MCPSession {
     transport;
     engine;
     clientSupportsRoots = false;
+    /** From the initialize handshake — attributes usage rollups to the agent host. */
+    clientInfo;
     rootsAttempted = false;
     resolvePromise = null;
     explicitProjectPath;
@@ -154,6 +158,22 @@ class MCPSession {
                 if (isRequest)
                     this.transport.sendResult(message.id, {});
                 break;
+            case 'resources/list':
+                // We expose no MCP resources, but some clients (opencode, Codex) probe
+                // for them on connect; reply with an empty list instead of a
+                // MethodNotFound error that surfaces as a scary `-32601` log line. (#621)
+                if (isRequest)
+                    this.transport.sendResult(message.id, { resources: [] });
+                break;
+            case 'resources/templates/list':
+                if (isRequest)
+                    this.transport.sendResult(message.id, { resourceTemplates: [] });
+                break;
+            case 'prompts/list':
+                // Likewise — no prompts exposed, but answer the probe cleanly. (#621)
+                if (isRequest)
+                    this.transport.sendResult(message.id, { prompts: [] });
+                break;
             default:
                 if (isRequest) {
                     this.transport.sendError(message.id, transport_1.ErrorCodes.MethodNotFound, `Method not found: ${message.method}`);
@@ -163,6 +183,12 @@ class MCPSession {
     async handleInitialize(request) {
         const params = request.params;
         this.clientSupportsRoots = !!params?.capabilities?.roots;
+        if (params?.clientInfo) {
+            this.clientInfo = {
+                name: typeof params.clientInfo.name === 'string' ? params.clientInfo.name : undefined,
+                version: typeof params.clientInfo.version === 'string' ? params.clientInfo.version : undefined,
+            };
+        }
         // Explicit project signal, strongest first: client-provided rootUri /
         // workspaceFolders (LSP-style), else the --path the server was launched
         // with. cwd is NOT used here — we defer it so a roots/list answer can
@@ -177,12 +203,23 @@ class MCPSession {
         else if (this.explicitProjectPath) {
             explicitPath = this.explicitProjectPath;
         }
+        // Pick the instructions variant by the workspace's index state — a cheap
+        // synchronous walk-up (existsSync loop only, no DB open, so the #172
+        // respond-fast contract holds). An unindexed workspace gets the short
+        // "inactive this session" note instead of the full playbook: the playbook
+        // tells the agent to lean on tools that would all fail, and early failures
+        // teach the agent to abandon codegraph entirely. `tools/list` is gated the
+        // same way (empty list when unindexed). When no explicit path is known yet
+        // (roots/list dance pending), cwd is the best predictor of where the
+        // default project will resolve — and on a mismatch the worst case is the
+        // optimistic full playbook backstopped by the empty tool list.
+        const indexed = (0, directory_1.findNearestCodeGraphRoot)(explicitPath ?? process.cwd()) !== null;
         // Respond to the handshake BEFORE doing any heavy init — see issue #172.
         this.transport.sendResult(request.id, {
             protocolVersion: exports.PROTOCOL_VERSION,
             capabilities: { tools: {} },
             serverInfo: exports.SERVER_INFO,
-            instructions: server_instructions_1.SERVER_INSTRUCTIONS,
+            instructions: indexed ? server_instructions_1.SERVER_INSTRUCTIONS : server_instructions_1.SERVER_INSTRUCTIONS_UNINDEXED,
         });
         if (explicitPath) {
             // Kick off engine init in the background. If another session in the
@@ -193,8 +230,15 @@ class MCPSession {
     }
     async handleToolsList(request) {
         await this.retryInitIfNeeded();
+        // An unindexed workspace serves an EMPTY tool list: absence is the one
+        // signal an agent can't misread. Listing 8 tools that all fail wastes the
+        // agent's calls and teaches it codegraph is broken (observed: one or two
+        // early isError responses and the agent stops calling codegraph for the
+        // whole session). A `codegraph init` run after the server started is
+        // picked up on the next tools/list — retryInitIfNeeded re-walks — though
+        // most hosts only request the list once per connection.
         this.transport.sendResult(request.id, {
-            tools: this.engine.getToolHandler().getTools(),
+            tools: this.engine.hasDefaultCodeGraph() ? this.engine.getToolHandler().getTools() : [],
         });
     }
     async handleToolsCall(request) {
@@ -213,6 +257,9 @@ class MCPSession {
         await this.retryInitIfNeeded();
         const result = await this.engine.getToolHandler().execute(toolName, toolArgs);
         this.transport.sendResult(request.id, result);
+        // After the reply is on the wire — telemetry must never delay a tool
+        // response (in-memory increment only; see src/telemetry).
+        (0, telemetry_1.getTelemetry)().recordUsage('mcp_tool', toolName, !result.isError, this.clientInfo);
     }
     /**
      * Lazy default-project resolution. Three layers:

package/lib/dist/mcp/session.js.map

@@ -1 +1 @@
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package/lib/dist/mcp/stdin-teardown.d.ts

@@ -0,0 +1,27 @@
+/**
+ * Treat a stdin failure as a shutdown signal — issue #799.
+ *
+ * An MCP stdio server's lifeline is its stdin: when the host/client goes away,
+ * stdin should end and the server should exit. The server paths listened for
+ * `'end'` and `'close'` — but NOT `'error'`.
+ *
+ * That gap bites with a socket-backed stdin, which is the shape VS Code /
+ * Claude Code use (a socketpair, not a pipe). When the client dies, the socket
+ * can surface as an `'error'` (ECONNRESET / hangup) rather than a clean
+ * `'close'`. With no `'error'` listener, Node escalates it to the process-wide
+ * `uncaughtException` handler, which logs and keeps running — so the server
+ * orphans instead of exiting. Worse, on Linux a `POLLHUP` socket fd left
+ * registered in epoll wakes the event loop continuously, pinning a core at
+ * 100% CPU (the spin reported in #799); once the main thread spins, the
+ * `setInterval` PPID watchdog can't even fire, so the orphan runs forever.
+ *
+ * Fix: listen for `'error'` as well, and DESTROY the stdin stream on any
+ * terminal event so the fd leaves epoll and can't keep churning, then run the
+ * caller's shutdown. Fires `onTerminal` at most once — callers' shutdowns are
+ * already re-entry-guarded, but the single-shot guard also keeps `destroy()`'s
+ * follow-on `'close'` from re-invoking it.
+ *
+ * `stream` is injectable for tests; it defaults to `process.stdin`.
+ */
+export declare function treatStdinFailureAsShutdown(onTerminal: () => void, stream?: NodeJS.ReadableStream): void;
+//# sourceMappingURL=stdin-teardown.d.ts.map

package/lib/dist/mcp/stdin-teardown.d.ts.map

@@ -0,0 +1 @@
+{"version":3,"file":"stdin-teardown.d.ts","sourceRoot":"","sources":["../../src/mcp/stdin-teardown.ts"],"names":[],"mappings":"AAAA;;;;;;;;;;;;;;;;;;;;;;;;GAwBG;AACH,wBAAgB,2BAA2B,CACzC,UAAU,EAAE,MAAM,IAAI,EACtB,MAAM,GAAE,MAAM,CAAC,cAA8B,GAC5C,IAAI,CAiBN"}

package/lib/dist/mcp/stdin-teardown.js

@@ -0,0 +1,49 @@
+"use strict";
+Object.defineProperty(exports, "__esModule", { value: true });
+exports.treatStdinFailureAsShutdown = treatStdinFailureAsShutdown;
+/**
+ * Treat a stdin failure as a shutdown signal — issue #799.
+ *
+ * An MCP stdio server's lifeline is its stdin: when the host/client goes away,
+ * stdin should end and the server should exit. The server paths listened for
+ * `'end'` and `'close'` — but NOT `'error'`.
+ *
+ * That gap bites with a socket-backed stdin, which is the shape VS Code /
+ * Claude Code use (a socketpair, not a pipe). When the client dies, the socket
+ * can surface as an `'error'` (ECONNRESET / hangup) rather than a clean
+ * `'close'`. With no `'error'` listener, Node escalates it to the process-wide
+ * `uncaughtException` handler, which logs and keeps running — so the server
+ * orphans instead of exiting. Worse, on Linux a `POLLHUP` socket fd left
+ * registered in epoll wakes the event loop continuously, pinning a core at
+ * 100% CPU (the spin reported in #799); once the main thread spins, the
+ * `setInterval` PPID watchdog can't even fire, so the orphan runs forever.
+ *
+ * Fix: listen for `'error'` as well, and DESTROY the stdin stream on any
+ * terminal event so the fd leaves epoll and can't keep churning, then run the
+ * caller's shutdown. Fires `onTerminal` at most once — callers' shutdowns are
+ * already re-entry-guarded, but the single-shot guard also keeps `destroy()`'s
+ * follow-on `'close'` from re-invoking it.
+ *
+ * `stream` is injectable for tests; it defaults to `process.stdin`.
+ */
+function treatStdinFailureAsShutdown(onTerminal, stream = process.stdin) {
+    let fired = false;
+    const fire = () => {
+        if (fired)
+            return;
+        fired = true;
+        // Drop the fd from epoll so a hung/half-closed socket can't keep waking
+        // the loop. Best-effort: the stream may already be torn down.
+        try {
+            stream.destroy?.();
+        }
+        catch {
+            /* already gone */
+        }
+        onTerminal();
+    };
+    stream.on('end', fire);
+    stream.on('close', fire);
+    stream.on('error', fire);
+}
+//# sourceMappingURL=stdin-teardown.js.map

package/lib/dist/mcp/stdin-teardown.js.map

@@ -0,0 +1 @@
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package/lib/dist/mcp/tools.d.ts

@@ -5,6 +5,25 @@
  */
 import type CodeGraph from '../index';
 import type { PendingFile } from '../sync';
+/**
+ * An expected, recoverable "codegraph can't serve this" condition — most
+ * importantly a project with no index. The dispatch catch converts these to
+ * SUCCESS-shaped responses (guidance text, NO isError): an `isError: true`
+ * early in a session teaches the agent the toolset is broken and it stops
+ * calling codegraph entirely (observed repeatedly), which is exactly wrong
+ * for conditions the agent can simply work around (use built-in tools for
+ * that codebase / pass projectPath). isError is reserved for "stop trying"
+ * cases: security refusals ({@link PathRefusalError}) and genuine
+ * malfunctions.
+ */
+export declare class NotIndexedError extends Error {
+}
+/**
+ * A security refusal (sensitive system path). Stays `isError: true` WITHOUT
+ * retry guidance — abandoning this path is the desired agent reaction.
+ */
+export declare class PathRefusalError extends Error {
+}
 /**
  * Calculate the recommended number of codegraph_explore calls based on project size.
  * Larger codebases need more exploration calls to cover their surface area,
@@ -105,8 +124,9 @@ export interface ToolResult {
 /**
  * All CodeGraph MCP tools
  *
- * Designed for minimal context usage - use codegraph_context as the primary tool,
- * and only use other tools for targeted follow-up queries.
+ * Designed for minimal context usage - use codegraph_explore as the primary tool
+ * (one call usually answers the whole question), and only use other tools for
+ * targeted follow-up queries.
  *
  * All tools support cross-project queries via the optional `projectPath` parameter.
  */
@@ -158,7 +178,7 @@ export declare class ToolHandler {
      * Unset/empty → every tool is exposed. Lets an operator (or an A/B harness)
      * trim the tool surface without rebuilding the client config; the ablated
      * tool is then truly absent from ListTools rather than merely denied on call.
-     * Matching is on the short form, so "trace" and "codegraph_trace" both work.
+     * Matching is on the short form, so "node" and "codegraph_node" both work.
      */
     private toolAllowlist;
     /** Whether a tool name passes the CODEGRAPH_MCP_TOOLS allowlist (if any). */
@@ -241,26 +261,15 @@ export declare class ToolHandler {
      */
     private handleSearch;
     /**
-     * Handle codegraph_context
+     * Group symbol matches into DISTINCT DEFINITIONS — one group per
+     * (filePath, qualifiedName), so same-file overloads stay together while
+     * unrelated same-named classes across a monorepo's apps (#764: one
+     * `UserService` per NestJS app) are kept apart. Optionally narrowed by a
+     * `file` path/suffix first.
      */
-    private handleContext;
-    /**
-     * Detect a flow-style task ("how does X reach Y", "trace the path from A to B")
-     * and pre-run trace between the most likely endpoints, returning the trace
-     * body to splice into the context response. Returns '' for non-flow queries
-     * or when no plausible endpoint pair can be extracted.
-     *
-     * Conservative by design: only fires when the task has both a clear flow
-     * keyword AND at least two distinct PascalCase / camelCase identifiers.
-     * False positives waste a graph query; false negatives just fall back to
-     * the agent calling trace itself (existing path-proximity wiring handles
-     * disambiguation either way).
-     */
-    private maybeInlineFlowTrace;
-    /**
-     * Heuristic to detect if a query looks like a feature request
-     */
-    private looksLikeFeatureRequest;
+    private groupDefinitions;
+    /** Section heading for one distinct definition in grouped output. */
+    private definitionHeading;
     /**
      * Handle codegraph_callers
      */
@@ -273,18 +282,6 @@ export declare class ToolHandler {
      * Handle codegraph_impact
      */
     private handleImpact;
-    /**
-     * Handle codegraph_trace — shortest CALL PATH between two symbols.
-     *
-     * Exposes GraphTraverser.findPath: the chain of functions from `from` to `to`,
-     * each hop annotated with file:line and the call-site line. This is the
-     * capability grep/Read structurally cannot provide. When no static path
-     * exists, the chain has almost certainly broken at dynamic dispatch
-     * (callbacks, descriptors, metaclasses) — we say so and surface the start
-     * symbol's outgoing calls so the agent bridges the one missing hop with
-     * codegraph_node rather than blindly reading.
-     */
-    private handleTrace;
     /**
      * Describe a synthesized (dynamic-dispatch) edge for human output: how the
      * callback was wired up — the bridge static parsing can't see. Returns null
@@ -292,19 +289,6 @@ export declare class ToolHandler {
      * hop reads as "registered via onUpdate at App.tsx:3148", not a bare arrow.
      */
     private synthEdgeNote;
-    /**
-     * Read one trimmed source line at "relpath:line" (relative to the project
-     * root). `cache` holds split file contents so a multi-hop trace reads each
-     * file at most once. Returns null if the file/line can't be resolved.
-     */
-    private sourceLineAt;
-    /**
-     * Read a hop's body — filePath lines [startLine..endLine] — for inlining into
-     * a trace, capped (lines + chars) so the whole path stays path-scoped even on
-     * a 7-hop chain. Dedents to the body's own indentation and marks truncation.
-     * Shares `cache` with sourceLineAt so each file is read at most once per trace.
-     */
-    private sourceRangeAt;
     /**
      * Flow-from-named-symbols: an agent's codegraph_explore query is a bag of
      * symbol names that usually spans the flow it's investigating (e.g.
@@ -320,6 +304,53 @@ export declare class ToolHandler {
      * dropping unrelated `OmsOrderService::list`.
      */
     private buildFlowFromNamedSymbols;
+    /**
+     * Dynamic-boundary surfacing (#687): when the flow among the agent's named
+     * symbols does not fully connect, scan the disconnected symbols' bodies for
+     * dynamic-dispatch sites (computed member calls, getattr, reflection, typed
+     * message buses, runtime-keyed emits) and ANNOUNCE the boundary — the exact
+     * site, the form, and (when a key is statically visible) candidate targets —
+     * instead of guessing edges. The answer to "how does A reach B" when no
+     * static path exists IS the dispatch site: that's where the flow continues
+     * at runtime. Query-time, deterministic, zero graph mutation; a fully
+     * connected flow never reaches this method.
+     */
+    private buildDynamicBoundaries;
+    /**
+     * Shortlist candidate runtime targets for a dispatch key surfaced by
+     * {@link buildDynamicBoundaries}. Exact conventional names first (`save` →
+     * `onSave`/`handleSave`; `CreateCmd` → `CreateCmdHandler`), then FTS, with a
+     * normalized-containment post-filter (FTS camel-splitting is fuzzier than a
+     * candidate list should be). Symbols the agent already named sort first and
+     * are marked — that's the "you were right, here's the wiring" case.
+     */
+    private boundaryCandidates;
+    /**
+     * Compact "blast radius" for the entry symbols of an explore result: who
+     * depends on each (callers) and which test files cover it — LOCATIONS ONLY,
+     * no source, so the agent knows what to update / re-verify before editing
+     * without reaching for a separate impact call. Always-on, but skips symbols
+     * that have no dependents (nothing to warn about), and returns '' when none
+     * qualify so a leaf-only exploration stays clean.
+     */
+    private buildBlastRadiusSection;
+    /**
+     * Graph-connectivity relevance via Random-Walk-with-Restart (personalized
+     * PageRank) from the query's matched SEED nodes over the call/reference graph.
+     *
+     * This is the ranking signal text search (FTS/bm25) CANNOT provide, and it's
+     * codegraph's home turf: relevance by STRUCTURE, not words. A file whose
+     * symbols are call-connected to the matched cluster accrues walk mass and
+     * ranks high; a lone TEXT match — e.g. `LensSwitcher.swift` matched the word
+     * "switch" from `switchOrganization`, but calls none of `setUser`/`fetchUser`
+     * — gets only its own restart probability and ranks ~0. Immune to the
+     * tokenization trap that fools term matching, deterministic, no embeddings.
+     *
+     * Undirected adjacency (reachability both ways), restart α=0.25 to the seeds,
+     * power iteration to convergence. Bounded to the already-relevant subgraph, so
+     * it's a few hundred nodes × ~25 iterations — negligible cost.
+     */
+    private computeGraphRelevance;
     /**
      * Handle codegraph_explore — deep exploration in a single call
      *
@@ -336,6 +367,22 @@ export declare class ToolHandler {
      * Handle codegraph_node
      */
     private handleNode;
+    /**
+     * FILE READ MODE: resolve `fileArg` (path or basename) to an indexed file and
+     * read it like the Read tool — its current on-disk source with line numbers,
+     * narrowable with `offset`/`limit` exactly as Read's are — preceded by a
+     * one-line blast-radius header (which files depend on it). `symbolsOnly`
+     * returns just the structural map (symbols + dependents) instead of source.
+     *
+     * Parity goal: the numbered source block is byte-for-byte the shape Read
+     * returns (`<n>\t<line>`, no padding), so the agent treats it as a Read — only
+     * faster (served from the index) and with the blast radius attached. Security:
+     * yaml/properties files are summarized by key, never dumped (#383); reads go
+     * through validatePathWithinRoot (#527).
+     */
+    private handleFileView;
+    /** Render one symbol: details + (optional) body/outline + its caller/callee trail. */
+    private renderNodeSection;
     /**
      * Build the "trail" for a symbol: its direct callees (what it calls) and
      * callers (what calls it), each with file:line — so codegraph_node doubles as
@@ -393,7 +440,15 @@ export declare class ToolHandler {
      *      Python — `stage_apply::run` matches a `run` in `stage_apply.rs`)
      */
     private matchesSymbol;
-    private findSymbol;
+    /**
+     * Find ALL definitions matching a name, ranked, so codegraph_node can return
+     * every overload instead of guessing one (the wrong guess → a Read). Keepers
+     * rank before generated stubs (.pb.go etc.); stable within a group preserves
+     * FTS order. Returns [] when nothing matches; a qualified lookup that finds no
+     * exact match returns [] rather than a misleading fuzzy file hit (#173); a
+     * bare name with no exact match falls back to the single top fuzzy result.
+     */
+    private findSymbolMatches;
     /**
      * Find ALL symbols matching a name. Used by callers/callees/impact to aggregate
      * results across all matching symbols (e.g., multiple classes with an `execute` method).
@@ -405,6 +460,13 @@ export declare class ToolHandler {
     private truncateOutput;
     private formatSearchResults;
     private formatNodeList;
+    /**
+     * Relationship label for a non-`calls` edge in callers/callees lists. A
+     * function-as-value edge (#756) is the high-signal one: `callers(cb)`
+     * showing "via callback registration" tells the agent this is where the
+     * callback is WIRED, not where it's invoked.
+     */
+    private edgeLabel;
     private formatImpact;
     /**
      * Build a compact structural outline of a container symbol from its
@@ -415,7 +477,6 @@ export declare class ToolHandler {
      */
     private buildContainerOutline;
     private formatNodeDetails;
-    private formatTaskContext;
     private textResult;
     private errorResult;
 }

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