@colbymchenry/codegraph-darwin-arm64 0.9.9 → 1.0.1

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

@@ -1 +1 @@
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package/lib/dist/mcp/server-instructions.d.ts

@@ -15,5 +15,16 @@
  * burn tokens. Reference only tools that exist on `main`; gate any
  * conditional tools behind feature checks if/when they ship.
  */
-export declare const SERVER_INSTRUCTIONS = "# Codegraph \u2014 code intelligence over an indexed knowledge graph\n\nCodegraph is a SQLite knowledge graph of every symbol, edge, and file\nin the workspace. Reads are sub-millisecond; the index lags writes by\nabout a second through the file watcher. Consult it BEFORE writing or\nediting code, not during.\n\n## Answer directly \u2014 don't delegate exploration\n\nFor \"how does X work\", architecture, trace, or where-is-X questions,\nanswer DIRECTLY \u2014 usually with ONE `codegraph_explore` call.\n`codegraph_explore` takes either a natural-language question or a bag of\nsymbol/file names and returns the verbatim source of the relevant symbols\ngrouped by file, so it is Read-equivalent and most often the ONLY\ncodegraph call you need. Codegraph IS the pre-built search index \u2014 so\ndelegating the lookup to a separate file-reading sub-task/agent, or\nrunning your own grep + read loop, repeats work codegraph already did and\ncosts more for the same answer. Reach for raw Read/Grep only to confirm a\nspecific detail codegraph didn't cover. A direct codegraph answer is\ntypically one to a few calls; a grep/read exploration is dozens.\n\n## Tool selection by intent\n\n- **Almost any question \u2014 \"how does X work\", architecture, a bug, \"what/where is X\", or surveying an area** \u2192 `codegraph_explore` (PRIMARY \u2014 call FIRST; ONE capped call returns the verbatim source of the relevant symbols grouped by file; most often the ONLY call you need)\n- **\"How does X reach/become Y? / the flow / the path from X to Y\"** \u2192 `codegraph_explore`, naming the symbols that span the flow (e.g. `mutateElement renderScene`) \u2014 it surfaces the call path among them, including dynamic-dispatch hops (callbacks, React re-render, JSX children) grep can't follow\n- **\"What is the symbol named X?\" (just its location)** \u2192 `codegraph_search`\n- **\"What calls this?\" / \"What does this call?\" / \"What would changing this break?\"** \u2192 `codegraph_callers` / `codegraph_callees` / `codegraph_impact`\n- **One specific symbol's full source (esp. a body `codegraph_explore` trimmed), or an OVERLOADED name** \u2192 `codegraph_node` (with `includeCode`): for an ambiguous name it returns EVERY matching definition's body in one call, so you never Read a file to find the right overload\n- **\"What's in directory X?\"** \u2192 `codegraph_files`\n- **\"Is the index ready / what's its size?\"** \u2192 `codegraph_status`\n\n## Common chains\n\n- **Flow / \"how does X reach Y\"**: ONE `codegraph_explore` with the symbol names spanning the flow \u2014 it surfaces the call path among them (riding dynamic-dispatch hops) AND returns their source. No need to reconstruct the path with `codegraph_search` + `codegraph_callers`.\n- **Onboarding / understanding any area**: ONE `codegraph_explore` is usually the whole answer. Only follow up \u2014 `codegraph_node` for a specific symbol \u2014 if something is still unclear.\n- **Refactor planning**: `codegraph_search` \u2192 `codegraph_callers` \u2192 `codegraph_impact`. The blast-radius answer comes from impact, not from walking callers manually.\n- **Debugging a regression**: `codegraph_callers` of the suspected symbol; widen with `codegraph_impact` if an unexpected call appears.\n\n## Anti-patterns\n\n- **Trust codegraph's results \u2014 don't re-verify them with grep.** They come from a full AST parse; re-checking with grep is slower, less accurate, and wastes context.\n- **Don't grep first** when looking up a symbol by name \u2014 `codegraph_search` is faster and returns kind + location + signature.\n- **Don't chain `codegraph_search` + `codegraph_node`** to understand an area \u2014 ONE `codegraph_explore` returns the relevant symbols' source together in a single round-trip.\n- **Don't loop `codegraph_node` over many symbols** \u2014 one `codegraph_explore` call returns them all grouped by file, while each separate call re-reads the whole context and costs far more. Use `codegraph_node` for a single symbol.\n- **After editing, check the staleness banner.** When a tool response starts with \"\u26A0\uFE0F Some files referenced below were edited since the last index sync\u2026\", the listed files are pending re-index \u2014 Read those specific files for accurate content. Every file NOT in that banner is fresh, so still trust codegraph. `codegraph_status` also lists pending files under \"Pending sync\".\n\n## Limitations\n\n- If a tool reports the project isn't initialized, `.codegraph/` doesn't exist yet \u2014 offer to run `codegraph init -i` to build the index.\n- Index lags file writes by ~1 second.\n- Cross-file resolution is best-effort name matching; ambiguous calls may return multiple candidates.\n- No live correctness validation \u2014 that's still the TypeScript compiler / test suite / linter's job. Codegraph supplements those with structural context they don't have.\n";
+export declare const SERVER_INSTRUCTIONS = "# Codegraph \u2014 code intelligence over an indexed knowledge graph\n\nCodegraph is a SQLite knowledge graph of every symbol, edge, and file in\nthe workspace \u2014 pre-computed structure you would otherwise re-derive by\nreading files (cached intelligence: thousands of parse/trace decisions you\ndon't pay to re-reason each run). Reads are sub-millisecond; the index lags\nwrites by ~1s through the file watcher. Reach for it BEFORE *and* while\nwriting or editing code \u2014 not just for questions: one call returns the\nverbatim source PLUS who calls it and what it affects, so you edit with the\nblast radius in view. More accurate context, in far fewer tokens and\nround-trips than reading files yourself.\n\n## Use codegraph instead of reading files \u2014 for questions AND edits\n\nWhether you're answering \"how does X work\" or implementing a change (fixing\na bug, adding a feature), reach for codegraph before you Read. For\nunderstanding, answer DIRECTLY \u2014 usually with ONE `codegraph_explore` call.\n`codegraph_explore` takes either a natural-language question or a bag of\nsymbol/file names and returns the verbatim source of the relevant symbols\ngrouped by file, so it is Read-equivalent and most often the ONLY\ncodegraph call you need. Codegraph IS the pre-built search index \u2014 so\ndelegating the lookup to a separate file-reading sub-task/agent, or\nrunning your own grep + read loop, repeats work codegraph already did and\ncosts more for the same answer. Reach for raw Read/Grep only to confirm a\nspecific detail codegraph didn't cover. A direct codegraph answer is\ntypically one to a few calls; a grep/read exploration is dozens.\n\n## Tool selection by intent\n\n- **Almost any question \u2014 \"how does X work\", architecture, a bug, \"what/where is X\", or surveying an area** \u2192 `codegraph_explore` (PRIMARY \u2014 call FIRST; ONE capped call returns the verbatim source of the relevant symbols grouped by file; most often the ONLY call you need)\n- **\"How does X reach/become Y? / the flow / the path from X to Y\"** \u2192 `codegraph_explore`, naming the symbols that span the flow (e.g. `mutateElement renderScene`) \u2014 it surfaces the call path among them, including dynamic-dispatch hops (callbacks, React re-render, JSX children) grep can't follow\n- **\"What is the symbol named X?\" (just its location)** \u2192 `codegraph_search`\n- **\"What calls this?\" / \"What would changing this break?\"** \u2192 `codegraph_callers` \u2014 EVERY call site with file:line, including where a function is **registered as a callback** (passed as an argument, assigned to a function pointer/field, listed in a handler table) \u2014 labeled \"via callback registration\" \u2014 so a function with no direct calls is NOT dead if it's wired up somewhere. When several UNRELATED symbols share a name (one `UserService` per monorepo app), it reports **one section per definition** (never a merged list) \u2014 pass `file` to focus the definition you mean. The wider blast radius arrives automatically on `codegraph_explore` (its \"Blast radius\" section) and `codegraph_node` (the dependents note)\n- **\"What does this call?\"** \u2192 `codegraph_node` with that symbol and `includeCode: true` \u2014 the body IS the callee list, and the caller/callee trail comes with it\n- **Reading a source FILE (any time you'd use the `Read` tool)** \u2192 `codegraph_node` with a `file` path and no `symbol`. It returns the file's **current source with line numbers \u2014 the same `<n>\\t<line>` shape `Read` gives you, safe to `Edit` from** \u2014 narrowable with `offset`/`limit` exactly like `Read`, PLUS a one-line note of which files depend on it. Same bytes as `Read`, faster (served from the index), with the blast radius attached. Use it **instead of `Read`** for indexed source files; fall back to `Read` only for what codegraph doesn't index (configs, docs). Pass `symbolsOnly: true` for just the file's structure.\n- **About to read or edit a symbol you can name** \u2192 `codegraph_node` with that `symbol` (SECONDARY \u2014 the after-explore depth tool): the verbatim source (`includeCode: true`) PLUS its caller/callee trail, so before changing it you see what calls it and what your edit would break. For an OVERLOADED name it returns EVERY matching definition's body in one call, so you never Read a file to find the right overload\n\n## Common chains\n\n- **Flow / \"how does X reach Y\"**: ONE `codegraph_explore` with the symbol names spanning the flow \u2014 it surfaces the call path among them (riding dynamic-dispatch hops) AND returns their source. No need to reconstruct the path with `codegraph_search` + `codegraph_callers`.\n- **Onboarding / understanding any area**: ONE `codegraph_explore` is usually the whole answer. Only follow up \u2014 `codegraph_node` for a specific symbol \u2014 if something is still unclear.\n- **Refactor planning**: `codegraph_callers` for the complete call-site list to update; the wider blast radius is already attached to `codegraph_explore` / `codegraph_node` output.\n- **Debugging a regression**: `codegraph_callers` of the suspected symbol; `codegraph_node` on anything unexpected that appears.\n\n## Anti-patterns\n\n- **Trust codegraph's results \u2014 don't re-verify them with grep.** They come from a full AST parse; re-checking with grep is slower, less accurate, and wastes context.\n- **Don't grep first** when looking up a symbol by name \u2014 `codegraph_search` is faster and returns kind + location + signature.\n- **Don't chain `codegraph_search` + `codegraph_node`** to understand an area \u2014 ONE `codegraph_explore` returns the relevant symbols' source together in a single round-trip.\n- **Don't loop `codegraph_node` over many symbols** \u2014 one `codegraph_explore` call returns them all grouped by file, while each separate call re-reads the whole context and costs far more. Use `codegraph_node` for a single symbol.\n- **Don't reach for the `Read` tool on an indexed source file** \u2014 `codegraph_node` with a `file` reads it for you (same `<n>\\t<line>` source, `offset`/`limit` like Read, faster, with its blast radius), and with a `symbol` it returns the source plus the caller/callee trail. Reach for raw `Read` only for what codegraph doesn't index (configs, docs) or when the staleness banner flags a file as pending re-index.\n- **After editing, check the staleness banner.** When a tool response starts with \"\u26A0\uFE0F Some files referenced below were edited since the last index sync\u2026\", the listed files are pending re-index \u2014 Read those specific files for accurate content. Every file NOT in that banner is fresh, so still trust codegraph.\n\n## Limitations\n\n- If a tool reports a project isn't indexed (no `.codegraph/`), stop calling codegraph tools for that project for the rest of the session and use your built-in tools there instead. Indexing is the user's decision \u2014 mention they can run `codegraph init` if it comes up, but don't run it yourself.\n- Index lags file writes by ~1 second.\n- Cross-file resolution is best-effort name matching; ambiguous calls may return multiple candidates.\n- No live correctness validation \u2014 that's still the TypeScript compiler / test suite / linter's job. Codegraph supplements those with structural context they don't have.\n";
+/**
+ * Instructions variant sent when the workspace has NO codegraph index.
+ *
+ * Sending the full playbook ("lean on codegraph for everything") into a
+ * session where every call would fail wastes the agent's calls and — worse —
+ * the failures teach it codegraph is broken. The unindexed variant is a
+ * short, unambiguous "inactive this session" note; `tools/list` is gated to
+ * empty in the same state, so the agent has nothing to mis-call. Indexing is
+ * deliberately left to the user: the agent is told NOT to run init itself.
+ */
+export declare const SERVER_INSTRUCTIONS_UNINDEXED = "# Codegraph \u2014 inactive (workspace not indexed)\n\nThis workspace has no codegraph index (no `.codegraph/` directory), so no\ncodegraph tools are available this session. Work with your built-in tools as\nusual.\n\nIndexing is the user's decision \u2014 do not run it yourself. If the user asks\nabout codegraph, they can enable it by running `codegraph init` in the\nproject root and starting a new session.\n";
 //# sourceMappingURL=server-instructions.d.ts.map

package/lib/dist/mcp/server-instructions.d.ts.map

@@ -1 +1 @@
-{"version":3,"file":"server-instructions.d.ts","sourceRoot":"","sources":["../../src/mcp/server-instructions.ts"],"names":[],"mappings":"AAAA;;;;;;;;;;;;;;;;GAgBG;AACH,eAAO,MAAM,mBAAmB,0yJAoD/B,CAAC"}
+{"version":3,"file":"server-instructions.d.ts","sourceRoot":"","sources":["../../src/mcp/server-instructions.ts"],"names":[],"mappings":"AAAA;;;;;;;;;;;;;;;;GAgBG;AACH,eAAO,MAAM,mBAAmB,wqOA2D/B,CAAC;AAEF;;;;;;;;;GASG;AACH,eAAO,MAAM,6BAA6B,kaASzC,CAAC"}

package/lib/dist/mcp/server-instructions.js

@@ -1,6 +1,6 @@
 "use strict";
 Object.defineProperty(exports, "__esModule", { value: true });
-exports.SERVER_INSTRUCTIONS = void 0;
+exports.SERVER_INSTRUCTIONS_UNINDEXED = exports.SERVER_INSTRUCTIONS = void 0;
 /**
  * Server-level instructions emitted in the MCP `initialize` response.
  *
@@ -20,15 +20,21 @@ exports.SERVER_INSTRUCTIONS = void 0;
  */
 exports.SERVER_INSTRUCTIONS = `# Codegraph — code intelligence over an indexed knowledge graph
 
-Codegraph is a SQLite knowledge graph of every symbol, edge, and file
-in the workspace. Reads are sub-millisecond; the index lags writes by
-about a second through the file watcher. Consult it BEFORE writing or
-editing code, not during.
+Codegraph is a SQLite knowledge graph of every symbol, edge, and file in
+the workspace — pre-computed structure you would otherwise re-derive by
+reading files (cached intelligence: thousands of parse/trace decisions you
+don't pay to re-reason each run). Reads are sub-millisecond; the index lags
+writes by ~1s through the file watcher. Reach for it BEFORE *and* while
+writing or editing code — not just for questions: one call returns the
+verbatim source PLUS who calls it and what it affects, so you edit with the
+blast radius in view. More accurate context, in far fewer tokens and
+round-trips than reading files yourself.
 
-## Answer directly — don't delegate exploration
+## Use codegraph instead of reading files — for questions AND edits
 
-For "how does X work", architecture, trace, or where-is-X questions,
-answer DIRECTLY — usually with ONE \`codegraph_explore\` call.
+Whether you're answering "how does X work" or implementing a change (fixing
+a bug, adding a feature), reach for codegraph before you Read. For
+understanding, answer DIRECTLY — usually with ONE \`codegraph_explore\` call.
 \`codegraph_explore\` takes either a natural-language question or a bag of
 symbol/file names and returns the verbatim source of the relevant symbols
 grouped by file, so it is Read-equivalent and most often the ONLY
@@ -44,17 +50,17 @@ typically one to a few calls; a grep/read exploration is dozens.
 - **Almost any question — "how does X work", architecture, a bug, "what/where is X", or surveying an area** → \`codegraph_explore\` (PRIMARY — call FIRST; ONE capped call returns the verbatim source of the relevant symbols grouped by file; most often the ONLY call you need)
 - **"How does X reach/become Y? / the flow / the path from X to Y"** → \`codegraph_explore\`, naming the symbols that span the flow (e.g. \`mutateElement renderScene\`) — it surfaces the call path among them, including dynamic-dispatch hops (callbacks, React re-render, JSX children) grep can't follow
 - **"What is the symbol named X?" (just its location)** → \`codegraph_search\`
-- **"What calls this?" / "What does this call?" / "What would changing this break?"** → \`codegraph_callers\` / \`codegraph_callees\` / \`codegraph_impact\`
-- **One specific symbol's full source (esp. a body \`codegraph_explore\` trimmed), or an OVERLOADED name** → \`codegraph_node\` (with \`includeCode\`): for an ambiguous name it returns EVERY matching definition's body in one call, so you never Read a file to find the right overload
-- **"What's in directory X?"** → \`codegraph_files\`
-- **"Is the index ready / what's its size?"** → \`codegraph_status\`
+- **"What calls this?" / "What would changing this break?"** → \`codegraph_callers\` — EVERY call site with file:line, including where a function is **registered as a callback** (passed as an argument, assigned to a function pointer/field, listed in a handler table) — labeled "via callback registration" — so a function with no direct calls is NOT dead if it's wired up somewhere. When several UNRELATED symbols share a name (one \`UserService\` per monorepo app), it reports **one section per definition** (never a merged list) — pass \`file\` to focus the definition you mean. The wider blast radius arrives automatically on \`codegraph_explore\` (its "Blast radius" section) and \`codegraph_node\` (the dependents note)
+- **"What does this call?"** → \`codegraph_node\` with that symbol and \`includeCode: true\` — the body IS the callee list, and the caller/callee trail comes with it
+- **Reading a source FILE (any time you'd use the \`Read\` tool)** → \`codegraph_node\` with a \`file\` path and no \`symbol\`. It returns the file's **current source with line numbers — the same \`<n>\\t<line>\` shape \`Read\` gives you, safe to \`Edit\` from** — narrowable with \`offset\`/\`limit\` exactly like \`Read\`, PLUS a one-line note of which files depend on it. Same bytes as \`Read\`, faster (served from the index), with the blast radius attached. Use it **instead of \`Read\`** for indexed source files; fall back to \`Read\` only for what codegraph doesn't index (configs, docs). Pass \`symbolsOnly: true\` for just the file's structure.
+- **About to read or edit a symbol you can name** → \`codegraph_node\` with that \`symbol\` (SECONDARY — the after-explore depth tool): the verbatim source (\`includeCode: true\`) PLUS its caller/callee trail, so before changing it you see what calls it and what your edit would break. For an OVERLOADED name it returns EVERY matching definition's body in one call, so you never Read a file to find the right overload
 
 ## Common chains
 
 - **Flow / "how does X reach Y"**: ONE \`codegraph_explore\` with the symbol names spanning the flow — it surfaces the call path among them (riding dynamic-dispatch hops) AND returns their source. No need to reconstruct the path with \`codegraph_search\` + \`codegraph_callers\`.
 - **Onboarding / understanding any area**: ONE \`codegraph_explore\` is usually the whole answer. Only follow up — \`codegraph_node\` for a specific symbol — if something is still unclear.
-- **Refactor planning**: \`codegraph_search\` → \`codegraph_callers\` → \`codegraph_impact\`. The blast-radius answer comes from impact, not from walking callers manually.
-- **Debugging a regression**: \`codegraph_callers\` of the suspected symbol; widen with \`codegraph_impact\` if an unexpected call appears.
+- **Refactor planning**: \`codegraph_callers\` for the complete call-site list to update; the wider blast radius is already attached to \`codegraph_explore\` / \`codegraph_node\` output.
+- **Debugging a regression**: \`codegraph_callers\` of the suspected symbol; \`codegraph_node\` on anything unexpected that appears.
 
 ## Anti-patterns
 
@@ -62,13 +68,34 @@ typically one to a few calls; a grep/read exploration is dozens.
 - **Don't grep first** when looking up a symbol by name — \`codegraph_search\` is faster and returns kind + location + signature.
 - **Don't chain \`codegraph_search\` + \`codegraph_node\`** to understand an area — ONE \`codegraph_explore\` returns the relevant symbols' source together in a single round-trip.
 - **Don't loop \`codegraph_node\` over many symbols** — one \`codegraph_explore\` call returns them all grouped by file, while each separate call re-reads the whole context and costs far more. Use \`codegraph_node\` for a single symbol.
-- **After editing, check the staleness banner.** When a tool response starts with "⚠️ Some files referenced below were edited since the last index sync…", the listed files are pending re-index — Read those specific files for accurate content. Every file NOT in that banner is fresh, so still trust codegraph. \`codegraph_status\` also lists pending files under "Pending sync".
+- **Don't reach for the \`Read\` tool on an indexed source file** — \`codegraph_node\` with a \`file\` reads it for you (same \`<n>\\t<line>\` source, \`offset\`/\`limit\` like Read, faster, with its blast radius), and with a \`symbol\` it returns the source plus the caller/callee trail. Reach for raw \`Read\` only for what codegraph doesn't index (configs, docs) or when the staleness banner flags a file as pending re-index.
+- **After editing, check the staleness banner.** When a tool response starts with "⚠️ Some files referenced below were edited since the last index sync…", the listed files are pending re-index — Read those specific files for accurate content. Every file NOT in that banner is fresh, so still trust codegraph.
 
 ## Limitations
 
-- If a tool reports the project isn't initialized, \`.codegraph/\` doesn't exist yet — offer to run \`codegraph init -i\` to build the index.
+- If a tool reports a project isn't indexed (no \`.codegraph/\`), stop calling codegraph tools for that project for the rest of the session and use your built-in tools there instead. Indexing is the user's decision — mention they can run \`codegraph init\` if it comes up, but don't run it yourself.
 - Index lags file writes by ~1 second.
 - Cross-file resolution is best-effort name matching; ambiguous calls may return multiple candidates.
 - No live correctness validation — that's still the TypeScript compiler / test suite / linter's job. Codegraph supplements those with structural context they don't have.
 `;
+/**
+ * Instructions variant sent when the workspace has NO codegraph index.
+ *
+ * Sending the full playbook ("lean on codegraph for everything") into a
+ * session where every call would fail wastes the agent's calls and — worse —
+ * the failures teach it codegraph is broken. The unindexed variant is a
+ * short, unambiguous "inactive this session" note; `tools/list` is gated to
+ * empty in the same state, so the agent has nothing to mis-call. Indexing is
+ * deliberately left to the user: the agent is told NOT to run init itself.
+ */
+exports.SERVER_INSTRUCTIONS_UNINDEXED = `# Codegraph — inactive (workspace not indexed)
+
+This workspace has no codegraph index (no \`.codegraph/\` directory), so no
+codegraph tools are available this session. Work with your built-in tools as
+usual.
+
+Indexing is the user's decision — do not run it yourself. If the user asks
+about codegraph, they can enable it by running \`codegraph init\` in the
+project root and starting a new session.
+`;
 //# sourceMappingURL=server-instructions.js.map

package/lib/dist/mcp/server-instructions.js.map

@@ -1 +1 @@
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+{"version":3,"file":"server-instructions.js","sourceRoot":"","sources":["../../src/mcp/server-instructions.ts"],"names":[],"mappings":";;;AAAA;;;;;;;;;;;;;;;;GAgBG;AACU,QAAA,mBAAmB,GAAG;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;CA2DlC,CAAC;AAEF;;;;;;;;;GASG;AACU,QAAA,6BAA6B,GAAG;;;;;;;;;CAS5C,CAAC"}

package/lib/dist/mcp/session.d.ts

@@ -39,6 +39,8 @@ export declare class MCPSession {
     private transport;
     private engine;
     private clientSupportsRoots;
+    /** From the initialize handshake — attributes usage rollups to the agent host. */
+    private clientInfo;
     private rootsAttempted;
     private resolvePromise;
     private explicitProjectPath;

package/lib/dist/mcp/session.d.ts.map

@@ -1 +1 @@
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+{"version":3,"file":"session.d.ts","sourceRoot":"","sources":["../../src/mcp/session.ts"],"names":[],"mappings":"AAAA;;;;;;;;;;;;GAYG;AAGH,OAAO,EAAuC,gBAAgB,EAAc,MAAM,aAAa,CAAC;AAChG,OAAO,EAAE,SAAS,EAAE,MAAM,UAAU,CAAC;AAOrC;;;GAGG;AAGH,eAAO,MAAM,WAAW;;;CAGvB,CAAC;AAEF,uDAAuD;AACvD,eAAO,MAAM,gBAAgB,eAAe,CAAC;AAmC7C,MAAM,WAAW,iBAAiB;IAChC;;;;OAIG;IACH,mBAAmB,CAAC,EAAE,MAAM,GAAG,IAAI,CAAC;CACrC;AAED;;;GAGG;AACH,qBAAa,UAAU;IASnB,OAAO,CAAC,SAAS;IACjB,OAAO,CAAC,MAAM;IAThB,OAAO,CAAC,mBAAmB,CAAS;IACpC,kFAAkF;IAClF,OAAO,CAAC,UAAU,CAAyB;IAC3C,OAAO,CAAC,cAAc,CAAS;IAC/B,OAAO,CAAC,cAAc,CAA8B;IACpD,OAAO,CAAC,mBAAmB,CAAgB;gBAGjC,SAAS,EAAE,gBAAgB,EAC3B,MAAM,EAAE,SAAS,EACzB,IAAI,GAAE,iBAAsB;IAK9B;;;OAGG;IACH,KAAK,IAAI,IAAI;IAIb;;;OAGG;IACH,IAAI,IAAI,IAAI;IAIZ,kEAAkE;IAClE,YAAY,IAAI,gBAAgB;YAIlB,aAAa;YA0Cb,gBAAgB;YAyDhB,eAAe;YAcf,eAAe;IAiC7B;;;;;;;OAOG;YACW,iBAAiB;IAyB/B;;;OAGG;YACW,aAAa;CAgB5B"}

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,
@@ -241,6 +260,16 @@ export declare class ToolHandler {
      * Handle codegraph_search
      */
     private handleSearch;
+    /**
+     * 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 groupDefinitions;
+    /** Section heading for one distinct definition in grouped output. */
+    private definitionHeading;
     /**
      * Handle codegraph_callers
      */
@@ -275,6 +304,27 @@ 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,
@@ -317,6 +367,20 @@ 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;
     /**
@@ -396,6 +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

package/lib/dist/mcp/tools.d.ts.map

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