@lzehrung/codegraph 3.0.1 → 3.1.1

package/dist/cli/graph.js

@@ -1,6 +1,5 @@
 import fs from "node:fs";
 import fsp from "node:fs/promises";
-import path from "node:path";
 import { performance } from "node:perf_hooks";
 import { buildSymbolGraph } from "../graphs/symbol-graph.js";
 import { buildSymbolGraphDetailed } from "../graphs/symbol-graph-detailed.js";
@@ -11,16 +10,15 @@ import { buildProjectIndexFromFiles, buildProjectIndexIncremental } from "../ind
 import {} from "../indexer/types.js";
 import { summarizeAnalysis } from "../analysis-summary.js";
 import { updateGraphSqlite, writeGraphSqlite } from "../sqlite.js";
+import { isSqlFilePath } from "../sql/classify-sql-file.js";
 import { buildSqlArtifactGraphFromFiles } from "../sql/index.js";
 import { normalizePath, resolveFilePathFromRoot } from "../util/paths.js";
 import {} from "../util/project-files.js";
+import { toJSON } from "./context.js";
 import { parseCacheModeOption, parseNonNegativeIntegerOption, parseOptionalNonNegativeIntegerOption, parseSymbolGraphScopeOption, } from "./options.js";
 function resolveGraphCacheMode(cache) {
     return cache ?? "disk";
 }
-function toJSON(obj) {
-    return JSON.stringify(obj, null, 2);
-}
 export function compactFileGraph(fgraph, stable = false) {
     const files = [...fgraph.nodes].sort();
     const fileIndex = new Map();
@@ -177,6 +175,9 @@ export async function handleGraphCommand(context) {
         ...(cacheDir ? { cacheDir } : {}),
         ...(context.cacheLocation ? { cacheLocation: context.cacheLocation } : {}),
     };
+    const languageExtensionOptions = context.languageExtensions
+        ? { languageExtensions: context.languageExtensions }
+        : {};
     const stable = true;
     let format = "mermaid";
     if (context.hasFlag("--json")) {
@@ -240,6 +241,7 @@ export async function handleGraphCommand(context) {
                 discovery: context.discoveryOptions,
                 ...context.workerOpts,
                 ...cacheDirOptions,
+                ...languageExtensionOptions,
                 cache: effectiveCache,
                 cacheStrict,
                 cacheVerify,
@@ -256,6 +258,7 @@ export async function handleGraphCommand(context) {
                 discovery: context.discoveryOptions,
                 ...context.workerOpts,
                 ...cacheDirOptions,
+                ...languageExtensionOptions,
                 cache: effectiveCache,
                 cacheStrict,
                 cacheVerify,
@@ -303,6 +306,7 @@ export async function handleGraphCommand(context) {
             discovery: context.discoveryOptions,
             ...context.workerOpts,
             ...cacheDirOptions,
+            ...languageExtensionOptions,
             cache: effectiveCache,
             cacheStrict,
             cacheVerify,
@@ -360,13 +364,17 @@ export async function handleGraphCommand(context) {
         return;
     }
     let graph;
+    // A cache-verify build serves unchanged files from the module cache, so its report counts only the files it
+    // parsed. The index also records how native handled the files it reused, so the summary reads both.
+    let verifiedIndex;
     if (cacheVerify) {
-        const index = await buildProjectIndexFromFiles(context.projectRootFs, files, {
+        verifiedIndex = await buildProjectIndexFromFiles(context.projectRootFs, files, {
             onProgress: context.progressHandler,
             threads,
             discovery: context.discoveryOptions,
             ...context.workerOpts,
             ...cacheDirOptions,
+            ...languageExtensionOptions,
             cache: effectiveCache,
             cacheStrict,
             cacheVerify,
@@ -377,11 +385,12 @@ export async function handleGraphCommand(context) {
             },
             report: indexReport,
         });
-        graph = index.graph;
+        graph = verifiedIndex.graph;
     }
     else {
         graph = await collectGraph(context.projectRootFs, files, {
             threads,
+            ...languageExtensionOptions,
             resolveNodeModules,
             dynamicImportHeuristics,
             ...(resolutionHints.length ? { resolutionHints } : {}),
@@ -389,7 +398,7 @@ export async function handleGraphCommand(context) {
         });
     }
     context.maybeWriteNativeBackendStatus(indexReport, context.showProgress);
-    const analysis = summarizeAnalysis({ report: indexReport });
+    const analysis = summarizeAnalysis({ index: verifiedIndex, report: indexReport });
     const graphOut = stable ? stabilizeGraph(graph) : graph;
     if (format === "mermaid") {
         await writeOut(graphToMermaid(graphOut));
@@ -398,7 +407,7 @@ export async function handleGraphCommand(context) {
         await writeOut(graphToDOT(graphOut));
     }
     else {
-        const sqlFiles = includeSqlArtifacts ? files.filter((file) => path.extname(file).toLowerCase() === ".sql") : [];
+        const sqlFiles = includeSqlArtifacts ? files.filter((file) => isSqlFilePath(file, context.languageExtensions)) : [];
         const sqlArtifacts = sqlFiles.length ? await buildSqlArtifactGraphFromFiles(sqlFiles) : undefined;
         const { files: compactFiles, fileEdges } = compactFileGraph(graphOut, stable);
         await writeOut(toJSON({

package/dist/cli/graph.js.map

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package/dist/cli/help.d.ts

@@ -25,10 +25,10 @@ export declare const ORIENT_HELP_TEXT = "codegraph orient - Build a compact firs
 export declare const PACKET_HELP_TEXT = "codegraph packet - Retrieve bounded evidence packets by file path or stable target\n\nUsage: codegraph packet [get] <target> [--root <path>] [--json | --pretty] [--max-symbols <n>] [--max-snippets <n>] [--max-duplicates <n>]\n\nTargets:\n  Accepts file paths, symbol names, SQL object names, file:/symbol:/chunk:/sql:/graph: handles from search or explain output, and quoted review packet targets like 'review:base=<encoded-ref>;head=<encoded-ref>'.\n\nPortable handle grammar:\n  file:<url-encoded project-relative path>\n  symbol:<url-encoded path>:<url-encoded local-name>:<line>:<column>\n  chunk:<url-encoded path>:<line>\n  sql:<url-encoded object-name>:<url-encoded path>:<line>\n  graph:<url-encoded project-relative path>\n  Positions use 1-based lines and 0-based UTF-16 columns.\n\nIndex options:\n  Supports shared --cache, --cache-dir, --cache-strict, --cache-verify, --threads, --workers, --include-glob, --ignore-glob, and --no-gitignore options.\n  Cache precedence is --cache-dir, then CODEGRAPH_CACHE_DIR, then cache.location from project/user config, then repository metadata, then the project root. Use cache.location \"project\", \"repo\", \"user\", or an absolute path. A configured anchor that resolves to the home directory or a filesystem root is rejected with an error.\n  Index builds report progress automatically on an interactive stderr terminal. Use --progress to force redirected progress logs or --no-progress to suppress feedback.\n";
 export declare const EXPLAIN_HELP_TEXT = "codegraph explain - Explain a file, symbol, SQL object, or search handle\n\nUsage: codegraph explain <file|symbol|sql-object|handle> [--root <path>] [--max-symbols <n>] [--max-dependencies <n>] [--max-snippets <n>] [--max-duplicates <n>] [--changed-context --base <rev> --head <rev>] [--json | --pretty]\n\nTargets:\n  File paths, symbol names, SQL object names, and handles returned by search are accepted. Portable handles use the same grammar documented under `codegraph packet`. Stale-handle recovery for humans is `codegraph symbols \"<query>\"` / `codegraph search \"<query>\"`; MCP callers should use `workspace_symbols` / `search`.\n\nOutput:\n  Explanations include bounded symbols, dependencies, reverse dependencies, references, snippets, duplicate context, SQL facts, follow-up commands, limits, and omission counts.\n\nIndex options:\n  Supports shared --cache, --cache-dir, --cache-strict, --cache-verify, --threads, --workers, --include-glob, --ignore-glob, and --no-gitignore options.\n  Cache precedence is --cache-dir, then CODEGRAPH_CACHE_DIR, then cache.location from project/user config, then repository metadata, then the project root. Use cache.location \"project\", \"repo\", \"user\", or an absolute path. A configured anchor that resolves to the home directory or a filesystem root is rejected with an error.\n  Index builds report progress automatically on an interactive stderr terminal. Use --progress to force redirected progress logs or --no-progress to suppress feedback.\n";
 export declare const ARTIFACT_HELP_TEXT = "codegraph artifact - Build an agent-ready handoff bundle\n\nUsage: codegraph artifact [build] [--root <path>] [--out <dir>] [--sqlite] [--graph-json] [--report] [--questions] [--force] [--json | --pretty]\n\nArtifacts:\n  codegraph.sqlite       Read-only SQLite graph artifact\n  graph.json             Portable graph JSON with stable project-relative handles\n  CODEGRAPH_REPORT.md    Concise report for humans and agents\n  questions.json         Suggested follow-up questions with runnable commands\n  manifest.json          Bundle manifest\n\nDefaults:\n  With no artifact selector flags, all artifacts are written.\n  --force removes recognizable stale artifact files while preserving unrelated operator files.\n\nIndex options:\n  Supports shared --cache, --cache-dir, --cache-strict, --cache-verify, --threads, --workers, --include-glob, --ignore-glob, and --no-gitignore options.\n  Cache precedence is --cache-dir, then CODEGRAPH_CACHE_DIR, then cache.location from project/user config, then repository metadata, then the project root. Use cache.location \"project\", \"repo\", \"user\", or an absolute path. A configured anchor that resolves to the home directory or a filesystem root is rejected with an error.\n  Index builds report progress automatically on an interactive stderr terminal. Use --progress to force redirected progress logs or --no-progress to suppress feedback.\n";
-export declare const SERVER_HELP_TEXT = "codegraph server - Manage a shared project-local MCP HTTP server\n\nUsage:\n  codegraph server start [--root <path>] [--host <host>] [--port <1-65535>] [--startup-timeout-ms <1-86400000>] [--json] [--replace] [--warmup | --warmup-symbols | --no-warmup]\n  codegraph server status [--root <path>] [--json | --pretty]\n  codegraph server stop [--root <path>]\n\nBehavior:\n  start runs codegraph mcp serve in a separate process, waits for a challenged /health proof, then writes .codegraph/server.json. --json emits the started registry with status and update fields; startup diagnostics go to .codegraph/server.log.\n  The default server listens on 127.0.0.1:7331. A public bind requires an explicit --host. --startup-timeout-ms defaults to 15000 and allows up to 86400000 for long warmups. Startup warms the base session cache by default; --no-warmup starts lazily instead, and --warmup-symbols also warms the detailed symbol graph.\n  status retries proven health checks and reports a verification remedy for an unreachable or mismatched server. stop removes only confirmed stale registries or signals a Codegraph server whose root, process, and startup time match the registry.\n\nForwarded startup options:\n  --cache, --cache-dir, --cache-strict, --cache-verify, --threads, --workers,\n  --include-glob, --ignore-glob, --no-gitignore, and --resolution-hint pass to mcp serve.\n\nSafety:\n  The registry stores process metadata and a non-secret credential ID. Its credential remains in the per-user Codegraph state directory, outside the project and separate from compiler cache data. An installed-version change requires an explicit server restart; Codegraph does not replace mapped native files or terminate clients automatically.\n";
-export declare const MCP_HELP_TEXT = "codegraph mcp - Serve MCP tools for agent graph navigation\n\nUsage: codegraph mcp [serve] [--root <path>] [--artifact <path>] [--stdio | --port <number>] [--host <host>] [--idle-timeout-ms <ms>] [--allow-build] [--warmup | --warmup-symbols | --no-warmup]\n\nTransports:\n  --stdio          Serve MCP over stdio (default)\n  --port <number> Serve Streamable HTTP at /mcp\n  --warmup        Build the base session cache at startup (default)\n  --warmup-symbols Build the base cache and detailed symbol graph at startup\n  --no-warmup     Skip startup warmup; the first tool call pays for discovery and building\n\nIndex Options:\n  --cache <mode>     Session cache mode: disk, memory, off\n  --cache-strict     Force strict content-hash cache validation\n  --cache-verify     Re-stat cached files before trusting disk cache entries\n  --progress         Force progress output when stderr is redirected\n  --no-progress      Suppress automatic index progress feedback\n  --threads N        Number of worker threads (default: auto)\n  --workers          Force Piscina native-extraction workers (auto above 250 files)\n  --include-glob <glob> Restrict discovered files to extra glob(s), relative to each scan root\n  --ignore-glob <glob>  Exclude extra discovered files by glob, relative to each scan root\n  --no-gitignore        Do not apply .gitignore files during discovery\n\nTools are read-only unless --allow-build is passed.\n";
-export declare const MCP_SERVE_HELP_TEXT = "codegraph mcp serve - MCP server for agent graph navigation\n\nUsage: codegraph mcp [serve] [--root <path>] [--artifact <path>] [--stdio | --port <number>] [--host <host>] [--idle-timeout-ms <ms>] [--allow-build] [--warmup | --warmup-symbols | --no-warmup]\n\nTools:\n  orient          Build a compact first-turn repo packet\n  packet_get      Retrieve bounded evidence by file path or stable target\n  search          Deterministic ranked search with stable handles\n  get_file        Bounded project file reads inside the root\n  get_symbol      Resolve a search/explain handle\n  goto            Go to definition by handle, qualified symbol path, or file position\n  refs            Find references by handle, qualified symbol path, or file position\n  deps            List file dependencies by file, qualified symbol path, or handle\n  rdeps           List reverse file dependencies by file, qualified symbol path, or handle\n  path            Find shortest dependency path\n  impact          Build compact impact context for a git range\n  review          Build review context for a git range\n  query_sqlite    Read-only row- and byte-bounded SQLite artifact query\n  refresh_index   Invalidate and optionally rebuild the MCP session snapshot\n  artifact_build  Build artifacts only with --allow-build\n\nIndex Options:\n  --cache <mode>     Session cache mode: disk, memory, off\n  --cache-strict     Force strict content-hash cache validation\n  --cache-verify     Re-stat cached files before trusting disk cache entries\n  --progress         Force progress output when stderr is redirected\n  --no-progress      Suppress automatic index progress feedback\n  --threads N        Number of worker threads (default: auto)\n  --workers          Force Piscina native-extraction workers (auto above 250 files)\n  --include-glob <glob> Restrict discovered files to extra glob(s), relative to each scan root\n  --ignore-glob <glob>  Exclude extra discovered files by glob, relative to each scan root\n  --no-gitignore        Do not apply .gitignore files during discovery\n\nDefaults:\n  Transport defaults to stdio.\n  HTTP transport binds to 127.0.0.1 unless --host is passed and serves /mcp.\n  Startup warms the base session cache by default. --warmup-symbols also warms the detailed symbol graph. --no-warmup starts lazily instead, leaving the first tool call to pay for discovery and building.\n  Warmup uses the configured session cache and shared index flags.\n  Tools are read-only unless --allow-build is passed.\n";
-export declare const DUPLICATES_HELP_TEXT = "codegraph duplicates - Detect duplicate and near-duplicate code units\n\nUsage: codegraph duplicates [path ...] [--root <path>] [--json | --pretty] [--profile cleanup|refactor-roi] [--sort similarity|actionability|reduced-lines] [--min-confidence high|medium|low] [--limit <n>] [--include-same-file] [--include-small] [--raw-pairs] [--no-summary]\n\nPath behavior:\n  A single positional directory becomes the project root when --root is omitted.\n  Use --root . ./src to scan a subtree while keeping repository-relative paths.\n  Positional paths are scan roots, not glob patterns.\n\nDiscovery filters:\n  --include-glob and --ignore-glob are relative to each active scan root.\n  --include-root-glob and --ignore-root-glob are project-root-relative.\n  --no-gitignore disables .gitignore filtering for the current command.\n  Repeat each glob flag once per pattern:\n    codegraph duplicates --root . ./src --ignore-glob \"tests/**\" --ignore-glob \"docs/**\"\n    codegraph duplicates --root . ./tests --ignore-root-glob \"tests/languages/**\"\n\nOptions:\n  --pretty            Emit one-line duplicate summaries for human triage. This is the default output.\n  --json              Emit grouped duplicate findings as JSON for programmatic consumers.\n  --profile <name>    Apply cleanup-oriented defaults. cleanup and refactor-roi are aliases.\n  --sort <mode>       Order output by similarity, actionability, or reduced-lines.\n                      Pretty output defaults to actionability. Cleanup profile defaults to reduced-lines.\n                      JSON defaults to similarity unless --sort is explicit.\n  --min-confidence    Minimum confidence to report. Defaults to medium.\n  --limit             Maximum duplicate groups to return. Defaults to 50.\n  --include-same-file Report non-overlapping clones in the same file.\n  --include-small     Include units below the default token floor.\n  --raw-pairs         Include low-level scored unit-pair suggestions in JSON output.\n  --no-summary        Suppress the pretty summary footer.\n  --min-tokens        Minimum unit tokens. Defaults to 40, or 80 under cleanup profile.\n  --max-tokens        Maximum fallback chunk tokens. Defaults to 800.\n  --max-bucket-size   Skip candidate buckets larger than this value. Defaults to 200.\n\nOutput:\n  Pretty output is the default and emits one line per group with file spans, symbol or chunk labels, confidence, clone type, score, reduced lines, estimated reducible lines, token counts, heuristic family annotations, and cleanup labels.\n  Pretty output also emits a compact summary footer unless --no-summary is passed.\n  JSON output reports grouped duplicate findings, confidence, clone type, metrics, reduced-line fields, cleanup labels, clustered locations, omission counts including skipped candidate pairs, and pair stats.\n  Grouped duplicate JSON uses schemaVersion 3.\n  --raw-pairs is only supported with similarity-ranked JSON output and cannot be combined with the cleanup profile.\n";
+export declare const SERVER_HELP_TEXT = "codegraph server - Manage a shared project-local MCP HTTP server\n\nUsage:\n  codegraph server start [--root <path>] [--host <host>] [--port <1-65535>] [--startup-timeout-ms <1-86400000>] [--index-wait-ms <ms>] [--json] [--replace] [--warmup | --warmup-symbols | --no-warmup] [--no-watch]\n  codegraph server status [--root <path>] [--json | --pretty]\n  codegraph server stop [--root <path>]\n\nBehavior:\n  start runs codegraph mcp serve in a separate process, waits for a challenged /health proof, then writes .codegraph/server.json. --json emits the started registry with status and update fields; startup diagnostics go to .codegraph/server.log.\n  The default server listens on 127.0.0.1:7331. A public bind requires an explicit --host. --startup-timeout-ms defaults to 15000 and covers starting the process; the warmup builds in the background and does not count against it. By default the server warms the base session cache and the search index; --no-warmup starts lazily instead, and --warmup-symbols also warms the detailed symbol graph.\n  status retries proven health checks and reports a verification remedy for an unreachable or mismatched server. stop removes only confirmed stale registries or signals a Codegraph server whose root, process, and startup time match the registry.\n\nForwarded startup options:\n  --cache, --cache-dir, --cache-strict, --cache-verify, --threads, --workers,\n  --include-glob, --ignore-glob, --no-gitignore, --no-watch, --index-wait-ms, and --resolution-hint pass to mcp serve.\n\nSafety:\n  The registry stores process metadata and a non-secret credential ID. Its credential remains in the per-user Codegraph state directory, outside the project and separate from compiler cache data. An installed-version change requires an explicit server restart; Codegraph does not replace mapped native files or terminate clients automatically.\n";
+export declare const MCP_HELP_TEXT = "codegraph mcp - Serve MCP tools for agent graph navigation\n\nUsage: codegraph mcp [serve] [--root <path>] [--artifact <path>] [--stdio | --port <number>] [--host <host>] [--idle-timeout-ms <ms>] [--index-wait-ms <ms>] [--allow-build] [--warmup | --warmup-symbols | --no-warmup] [--no-watch]\n\nTransports:\n  --stdio          Serve MCP over stdio (default)\n  --port <number> Serve Streamable HTTP at /mcp\n  --warmup        Build the base session cache and the search index in the background after startup (default)\n  --warmup-symbols Also build the detailed symbol graph in the background\n  --no-warmup     Skip the startup warmup; the first tool call that needs the index starts the build\n  --no-watch      Do not watch project files; rely on the freshness check of each tool call\n  --index-wait-ms <ms> Longest wait of search, explore, orient, get_file with includeGraphContext, review, packet_get, workspace_symbols, and impact for a running index build before they answer index_building (default 15000; 0 waits without limit)\n\nIndex Options:\n  --cache <mode>     Session cache mode: disk, memory, off\n  --cache-strict     Force strict content-hash cache validation\n  --cache-verify     Re-stat cached files before trusting disk cache entries\n  --progress         Force progress output when stderr is redirected\n  --no-progress      Suppress automatic index progress feedback\n  --threads N        Number of worker threads (default: auto)\n  --workers          Force Piscina native-extraction workers (auto above 250 files)\n  --include-glob <glob> Restrict discovered files to extra glob(s), relative to each scan root\n  --ignore-glob <glob>  Exclude extra discovered files by glob, relative to each scan root\n  --no-gitignore        Do not apply .gitignore files during discovery\n\nTools are read-only unless --allow-build is passed.\n";
+export declare const MCP_SERVE_HELP_TEXT = "codegraph mcp serve - MCP server for agent graph navigation\n\nUsage: codegraph mcp [serve] [--root <path>] [--artifact <path>] [--stdio | --port <number>] [--host <host>] [--idle-timeout-ms <ms>] [--index-wait-ms <ms>] [--allow-build] [--warmup | --warmup-symbols | --no-warmup] [--no-watch]\n\nTools:\n  orient          Build a compact first-turn repo packet\n  packet_get      Retrieve bounded evidence by file path or stable target\n  search          Deterministic ranked search with stable handles\n  get_file        Bounded project file reads inside the root\n  get_symbol      Resolve a search/explain handle\n  goto            Go to definition by handle, qualified symbol path, or file position\n  refs            Find references by handle, qualified symbol path, or file position\n  deps            List file dependencies by file, qualified symbol path, or handle\n  rdeps           List reverse file dependencies by file, qualified symbol path, or handle\n  path            Find shortest dependency path\n  impact          Build compact impact context for a git range\n  review          Build review context for a git range\n  query_sqlite    Read-only row- and byte-bounded SQLite artifact query\n  refresh_index   Invalidate and optionally rebuild the MCP session snapshot\n  artifact_build  Build artifacts only with --allow-build\n\nIndex Options:\n  --cache <mode>     Session cache mode: disk, memory, off\n  --cache-strict     Force strict content-hash cache validation\n  --cache-verify     Re-stat cached files before trusting disk cache entries\n  --progress         Force progress output when stderr is redirected\n  --no-progress      Suppress automatic index progress feedback\n  --threads N        Number of worker threads (default: auto)\n  --workers          Force Piscina native-extraction workers (auto above 250 files)\n  --include-glob <glob> Restrict discovered files to extra glob(s), relative to each scan root\n  --ignore-glob <glob>  Exclude extra discovered files by glob, relative to each scan root\n  --no-gitignore        Do not apply .gitignore files during discovery\n\nDefaults:\n  Transport defaults to stdio.\n  HTTP transport binds to 127.0.0.1 unless --host is passed and serves /mcp.\n  The server answers initialize and tools/list at once. By default it then builds the base session cache and the search index in the background; --warmup-symbols also warms the detailed symbol graph, and --no-warmup builds only when a tool call needs the index.\n  search, explore, orient, get_file with includeGraphContext, review, packet_get, workspace_symbols, and impact wait for a running build for at most --index-wait-ms (default 15000, well below the 30 seconds that clients commonly allow). Past that they answer { \"status\": \"index_building\" } with progress and a retry hint; the build continues, and the same call succeeds once it ends. Every other tool waits for the index without a limit.\n  Warmup uses the configured session cache and shared index flags.\n  The server watches project files and refreshes the index in the background: 500 ms after the last change, at most once every 5 seconds, and paused after 30 minutes without a tool call. --no-watch relies on the freshness check of each tool call instead.\n  Tools are read-only unless --allow-build is passed.\n";
+export declare const DUPLICATES_HELP_TEXT = "codegraph duplicates - Detect duplicate and near-duplicate code units\n\nUsage: codegraph duplicates [path ...] [--root <path>] [--json | --pretty] [--profile cleanup|refactor-roi] [--sort similarity|actionability|reduced-lines] [--min-confidence high|medium|low] [--limit <n>] [--include-same-file] [--include-small] [--raw-pairs] [--no-summary]\n\nPath behavior:\n  A single positional directory becomes the project root when --root is omitted.\n  Use --root . ./src to scan a subtree while keeping repository-relative paths.\n  Positional paths are scan roots, not glob patterns.\n\nDiscovery filters:\n  --include-glob and --ignore-glob are relative to each active scan root.\n  --include-root-glob and --ignore-root-glob are project-root-relative.\n  --no-gitignore disables .gitignore filtering for the current command.\n  Repeat each glob flag once per pattern:\n    codegraph duplicates --root . ./src --ignore-glob \"tests/**\" --ignore-glob \"docs/**\"\n    codegraph duplicates --root . ./tests --ignore-root-glob \"tests/languages/**\"\n\nOptions:\n  --pretty            Emit one-line duplicate summaries for human triage. This is the default output.\n  --json              Emit grouped duplicate findings as JSON for programmatic consumers.\n  --profile <name>    Apply cleanup-oriented defaults. cleanup and refactor-roi are aliases.\n  --sort <mode>       Order output by similarity, actionability, or reduced-lines.\n                      Pretty output defaults to actionability. Cleanup profile defaults to reduced-lines.\n                      JSON defaults to similarity unless --sort is explicit.\n  --min-confidence    Minimum confidence to report. Defaults to medium.\n  --limit             Maximum duplicate groups to return. Defaults to 50.\n  --include-same-file Report non-overlapping clones in the same file.\n  --include-small     Include units below the default token floor.\n  --raw-pairs         Include low-level scored unit-pair suggestions in JSON output.\n  --no-summary        Suppress the pretty summary footer.\n  --min-tokens        Minimum unit tokens. Defaults to 40, or 80 under cleanup profile.\n  --max-tokens        Maximum fallback chunk tokens. Defaults to 800.\n  --max-bucket-size   Skip candidate buckets larger than this value. Defaults to 200.\n  --max-candidate-pairs\n                      Keep at most this many candidate pairs for scoring, strongest evidence first. Defaults to 2000000; maximum 16000000.\n\nOutput:\n  Pretty output is the default and emits one line per group with file spans, symbol or chunk labels, confidence, clone type, score, reduced lines, estimated reducible lines, token counts, heuristic family annotations, and cleanup labels.\n  Pretty output also emits a compact summary footer unless --no-summary is passed.\n  JSON output reports grouped duplicate findings, confidence, clone type, metrics, reduced-line fields, cleanup labels, clustered locations, omission counts including skipped candidate pairs, and pair stats.\n  When --max-candidate-pairs drops pairs, stats.candidatePairBudget names the limit and the skipped count, and pretty output says the results are partial.\n  Progress for unit collection, candidate pairs, scoring, and grouping, and the total elapsed time, goes to stderr; use --progress or --no-progress.\n  Grouped duplicate JSON uses schemaVersion 3.\n  --raw-pairs is only supported with similarity-ranked JSON output and cannot be combined with the cleanup profile.\n";
 export declare const DRIFT_HELP_TEXT = "codegraph drift - Compare architecture drift between graph states\n\nUsage: codegraph drift [roots...] [--root <path>] (--base <ref> | --base-artifact <dir>) [--head <ref>] [--json | --pretty] [--fail-on <kind[,kind...]>] [--hotspot-jump-threshold <n>] [--limit <n>] [--graph-edges <full|summary|off>] [--public-api <all|removals|off>]\n\nSignals:\n  Compares dependency cycles, hotspots, unresolved imports, public API symbols, duplicate group counts, and graph edges.\n  Drift is structural architecture comparison, not runtime validation, compiler diagnostics, or a style linter.\n\nOptions:\n  --head <ref>                    Git ref for the head snapshot. Defaults to the current checkout; with --base-artifact, only the current checkout is supported (., WORKTREE).\n  --fail-on <kind[,kind...]>      Exit 1 only when one of the selected finding kinds is present.\n  --hotspot-jump-threshold <n>    Minimum absolute hotspot score delta to report.\n  --limit <n>                     Maximum findings to emit in the report output.\n  --graph-edges <mode>            Graph edge detail mode: full, summary, or off.\n  --public-api <mode>             Public API finding mode: all, removals, or off.\n";
 export declare const VIEWER_HELP_TEXT = "codegraph viewer - Serve the bundled graph visualization viewer\n\nUsage: codegraph viewer [--root <path>] [--graph <root-confined-json>] [--host <host>] [--port <0-65535>] [--open] [--print-url]\n\nWithout --graph, the viewer builds a fresh graph projection from the current project and its automatically validated disk cache whenever the UI loads or reloads /graph.json.\nWith --graph, it serves the root-confined exported snapshot at the same route instead.\nGraph paths must stay inside the selected root (the current directory by default) both lexically and after symlink resolution.\n\nOptions:\n  --graph <path>    Root-confined exported graph JSON to inspect instead of the current project.\n  --host <host>     Listener host. Defaults to 127.0.0.1.\n  --port <port>     Listener port. Defaults to 4173; 0 selects an available port.\n  --open            Open the server URL in the platform browser.\n  --print-url       Print the deterministic URL and exit without starting a server. Cannot use --open or --port 0.\n";
 export declare const INDEX_HELP_TEXT = "codegraph index - Build the project symbol index\n\nUsage: codegraph index [roots...] [--root <path>] [--json | --pretty | --full] [--verbose] [--cache <mode>] [--cache-strict] [--cache-verify] [--threads N] [--workers]\n\nOutput:\n  Builds or refreshes the project symbol index and graph. Default output is a compact file/edge count; --json/--full includes module details.\n\nIndex options:\n  Supports shared --cache, --cache-dir, --cache-strict, --cache-verify, --threads, --workers, --include-glob, --ignore-glob, and --no-gitignore options.\n  Cache precedence is --cache-dir, then CODEGRAPH_CACHE_DIR, then cache.location from project/user config, then repository metadata, then the project root. Use cache.location \"project\", \"repo\", \"user\", or an absolute path. A configured anchor that resolves to the home directory or a filesystem root is rejected with an error.\n  Index builds report progress automatically on an interactive stderr terminal. Use --progress to force redirected progress logs or --no-progress to suppress feedback.\n";

package/dist/cli/help.d.ts.map

@@ -1 +1 @@
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package/dist/cli/help.js

@@ -383,32 +383,34 @@ ${SHARED_INDEX_OPTIONS_HELP}
 export const SERVER_HELP_TEXT = `codegraph server - Manage a shared project-local MCP HTTP server
 
 Usage:
-  codegraph server start [--root <path>] [--host <host>] [--port <1-65535>] [--startup-timeout-ms <1-86400000>] [--json] [--replace] [--warmup | --warmup-symbols | --no-warmup]
+  codegraph server start [--root <path>] [--host <host>] [--port <1-65535>] [--startup-timeout-ms <1-86400000>] [--index-wait-ms <ms>] [--json] [--replace] [--warmup | --warmup-symbols | --no-warmup] [--no-watch]
   codegraph server status [--root <path>] [--json | --pretty]
   codegraph server stop [--root <path>]
 
 Behavior:
   start runs codegraph mcp serve in a separate process, waits for a challenged /health proof, then writes .codegraph/server.json. --json emits the started registry with status and update fields; startup diagnostics go to .codegraph/server.log.
-  The default server listens on 127.0.0.1:7331. A public bind requires an explicit --host. --startup-timeout-ms defaults to 15000 and allows up to 86400000 for long warmups. Startup warms the base session cache by default; --no-warmup starts lazily instead, and --warmup-symbols also warms the detailed symbol graph.
+  The default server listens on 127.0.0.1:7331. A public bind requires an explicit --host. --startup-timeout-ms defaults to 15000 and covers starting the process; the warmup builds in the background and does not count against it. By default the server warms the base session cache and the search index; --no-warmup starts lazily instead, and --warmup-symbols also warms the detailed symbol graph.
   status retries proven health checks and reports a verification remedy for an unreachable or mismatched server. stop removes only confirmed stale registries or signals a Codegraph server whose root, process, and startup time match the registry.
 
 Forwarded startup options:
   --cache, --cache-dir, --cache-strict, --cache-verify, --threads, --workers,
-  --include-glob, --ignore-glob, --no-gitignore, and --resolution-hint pass to mcp serve.
+  --include-glob, --ignore-glob, --no-gitignore, --no-watch, --index-wait-ms, and --resolution-hint pass to mcp serve.
 
 Safety:
   The registry stores process metadata and a non-secret credential ID. Its credential remains in the per-user Codegraph state directory, outside the project and separate from compiler cache data. An installed-version change requires an explicit server restart; Codegraph does not replace mapped native files or terminate clients automatically.
 `;
 export const MCP_HELP_TEXT = `codegraph mcp - Serve MCP tools for agent graph navigation
 
-Usage: codegraph mcp [serve] [--root <path>] [--artifact <path>] [--stdio | --port <number>] [--host <host>] [--idle-timeout-ms <ms>] [--allow-build] [--warmup | --warmup-symbols | --no-warmup]
+Usage: codegraph mcp [serve] [--root <path>] [--artifact <path>] [--stdio | --port <number>] [--host <host>] [--idle-timeout-ms <ms>] [--index-wait-ms <ms>] [--allow-build] [--warmup | --warmup-symbols | --no-warmup] [--no-watch]
 
 Transports:
   --stdio          Serve MCP over stdio (default)
   --port <number> Serve Streamable HTTP at /mcp
-  --warmup        Build the base session cache at startup (default)
-  --warmup-symbols Build the base cache and detailed symbol graph at startup
-  --no-warmup     Skip startup warmup; the first tool call pays for discovery and building
+  --warmup        Build the base session cache and the search index in the background after startup (default)
+  --warmup-symbols Also build the detailed symbol graph in the background
+  --no-warmup     Skip the startup warmup; the first tool call that needs the index starts the build
+  --no-watch      Do not watch project files; rely on the freshness check of each tool call
+  --index-wait-ms <ms> Longest wait of search, explore, orient, get_file with includeGraphContext, review, packet_get, workspace_symbols, and impact for a running index build before they answer index_building (default 15000; 0 waits without limit)
 
 Index Options:
   --cache <mode>     Session cache mode: disk, memory, off
@@ -426,7 +428,7 @@ Tools are read-only unless --allow-build is passed.
 `;
 export const MCP_SERVE_HELP_TEXT = `codegraph mcp serve - MCP server for agent graph navigation
 
-Usage: codegraph mcp [serve] [--root <path>] [--artifact <path>] [--stdio | --port <number>] [--host <host>] [--idle-timeout-ms <ms>] [--allow-build] [--warmup | --warmup-symbols | --no-warmup]
+Usage: codegraph mcp [serve] [--root <path>] [--artifact <path>] [--stdio | --port <number>] [--host <host>] [--idle-timeout-ms <ms>] [--index-wait-ms <ms>] [--allow-build] [--warmup | --warmup-symbols | --no-warmup] [--no-watch]
 
 Tools:
   orient          Build a compact first-turn repo packet
@@ -460,8 +462,10 @@ Index Options:
 Defaults:
   Transport defaults to stdio.
   HTTP transport binds to 127.0.0.1 unless --host is passed and serves /mcp.
-  Startup warms the base session cache by default. --warmup-symbols also warms the detailed symbol graph. --no-warmup starts lazily instead, leaving the first tool call to pay for discovery and building.
+  The server answers initialize and tools/list at once. By default it then builds the base session cache and the search index in the background; --warmup-symbols also warms the detailed symbol graph, and --no-warmup builds only when a tool call needs the index.
+  search, explore, orient, get_file with includeGraphContext, review, packet_get, workspace_symbols, and impact wait for a running build for at most --index-wait-ms (default 15000, well below the 30 seconds that clients commonly allow). Past that they answer { "status": "index_building" } with progress and a retry hint; the build continues, and the same call succeeds once it ends. Every other tool waits for the index without a limit.
   Warmup uses the configured session cache and shared index flags.
+  The server watches project files and refreshes the index in the background: 500 ms after the last change, at most once every 5 seconds, and paused after 30 minutes without a tool call. --no-watch relies on the freshness check of each tool call instead.
   Tools are read-only unless --allow-build is passed.
 `;
 export const DUPLICATES_HELP_TEXT = `codegraph duplicates - Detect duplicate and near-duplicate code units
@@ -497,11 +501,15 @@ Options:
   --min-tokens        Minimum unit tokens. Defaults to 40, or 80 under cleanup profile.
   --max-tokens        Maximum fallback chunk tokens. Defaults to 800.
   --max-bucket-size   Skip candidate buckets larger than this value. Defaults to 200.
+  --max-candidate-pairs
+                      Keep at most this many candidate pairs for scoring, strongest evidence first. Defaults to 2000000; maximum 16000000.
 
 Output:
   Pretty output is the default and emits one line per group with file spans, symbol or chunk labels, confidence, clone type, score, reduced lines, estimated reducible lines, token counts, heuristic family annotations, and cleanup labels.
   Pretty output also emits a compact summary footer unless --no-summary is passed.
   JSON output reports grouped duplicate findings, confidence, clone type, metrics, reduced-line fields, cleanup labels, clustered locations, omission counts including skipped candidate pairs, and pair stats.
+  When --max-candidate-pairs drops pairs, stats.candidatePairBudget names the limit and the skipped count, and pretty output says the results are partial.
+  Progress for unit collection, candidate pairs, scoring, and grouping, and the total elapsed time, goes to stderr; use --progress or --no-progress.
   Grouped duplicate JSON uses schemaVersion 3.
   --raw-pairs is only supported with similarity-ranked JSON output and cannot be combined with the cleanup profile.
 `;

package/dist/cli/help.js.map

@@ -1 +1 @@
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package/dist/cli/index.d.ts

@@ -2,16 +2,7 @@ import { type BuildOptions, type BuildReport, type CacheLocation } from "../inde
 import { type GraphBuildOptions } from "../graphs/types.js";
 import type { LanguageExtensionMap } from "../languages.js";
 import type { ProjectFileDiscoveryOptions } from "../util/project-files.js";
-type CommandTimingReport = {
-    totalMs?: number;
-    resolveFilesMs?: number;
-    commandMs?: number;
-};
-type IndexCommandReport = {
-    command: string;
-    timings: CommandTimingReport;
-    index?: BuildReport;
-};
+import type { CommandReport } from "./context.js";
 export type IndexCommandContext = {
     projectRootFs: string;
     includeRootsAbs: string[];
@@ -33,10 +24,9 @@ export type IndexCommandContext = {
     writeJSONLine: (value: unknown) => void;
     writeStdoutLine: (message: string) => void;
     writeStderrLine: (message: string) => void;
-    writeCommandReport: (report: IndexCommandReport, reportFile: string | undefined) => Promise<void>;
+    writeCommandReport: (report: CommandReport, reportFile: string | undefined) => Promise<void>;
     maybeWriteNativeBackendStatus: (report: BuildReport | undefined, showProgress: boolean) => void;
     showProgress: boolean;
 };
 export declare function handleIndexCommand(context: IndexCommandContext): Promise<void>;
-export {};
 //# sourceMappingURL=index.d.ts.map

package/dist/cli/index.d.ts.map

@@ -1 +1 @@
-{"version":3,"file":"index.d.ts","sourceRoot":"","sources":["../../src/cli/index.ts"],"names":[],"mappings":"AAEA,OAAO,EAAE,KAAK,YAAY,EAAE,KAAK,WAAW,EAAE,KAAK,aAAa,EAAE,MAAM,qBAAqB,CAAC;AAE9F,OAAO,EAAE,KAAK,iBAAiB,EAAE,MAAM,oBAAoB,CAAC;AAC5D,OAAO,KAAK,EAAE,oBAAoB,EAAE,MAAM,iBAAiB,CAAC;AAC5D,OAAO,KAAK,EAAE,2BAA2B,EAAE,MAAM,0BAA0B,CAAC;AAI5E,KAAK,mBAAmB,GAAG;IACzB,OAAO,CAAC,EAAE,MAAM,CAAC;IACjB,cAAc,CAAC,EAAE,MAAM,CAAC;IACxB,SAAS,CAAC,EAAE,MAAM,CAAC;CACpB,CAAC;AAEF,KAAK,kBAAkB,GAAG;IACxB,OAAO,EAAE,MAAM,CAAC;IAChB,OAAO,EAAE,mBAAmB,CAAC;IAC7B,KAAK,CAAC,EAAE,WAAW,CAAC;CACrB,CAAC;AA+BF,MAAM,MAAM,mBAAmB,GAAG;IAChC,aAAa,EAAE,MAAM,CAAC;IACtB,eAAe,EAAE,MAAM,EAAE,CAAC;IAC1B,OAAO,EAAE,MAAM,GAAG,SAAS,CAAC;IAC5B,YAAY,EAAE,MAAM,GAAG,SAAS,CAAC;IACjC,gBAAgB,EAAE,2BAA2B,CAAC;IAC9C,kBAAkB,EAAE,oBAAoB,GAAG,SAAS,CAAC;IACrD,UAAU,EAAE;QAAE,gBAAgB,EAAE,IAAI,CAAA;KAAE,GAAG,MAAM,CAAC,MAAM,EAAE,KAAK,CAAC,CAAC;IAC/D,eAAe,EAAE,YAAY,CAAC,YAAY,CAAC,CAAC;IAC5C,aAAa,EAAE,aAAa,GAAG,SAAS,CAAC;IACzC,YAAY,EAAE,iBAAiB,GAAG,SAAS,CAAC;IAC5C,aAAa,EAAE,OAAO,CAAC;IACvB,UAAU,EAAE,MAAM,GAAG,SAAS,CAAC;IAC/B,MAAM,EAAE,CAAC,IAAI,EAAE,MAAM,KAAK,MAAM,GAAG,SAAS,CAAC;IAC7C,OAAO,EAAE,CAAC,IAAI,EAAE,MAAM,KAAK,OAAO,CAAC;IACnC,YAAY,EAAE,MAAM,OAAO,CAAC,MAAM,EAAE,CAAC,CAAC;IACtC,aAAa,EAAE,CAAC,KAAK,EAAE,OAAO,KAAK,IAAI,CAAC;IACxC,eAAe,EAAE,CAAC,OAAO,EAAE,MAAM,KAAK,IAAI,CAAC;IAC3C,eAAe,EAAE,CAAC,OAAO,EAAE,MAAM,KAAK,IAAI,CAAC;IAC3C,kBAAkB,EAAE,CAAC,MAAM,EAAE,kBAAkB,EAAE,UAAU,EAAE,MAAM,GAAG,SAAS,KAAK,OAAO,CAAC,IAAI,CAAC,CAAC;IAClG,6BAA6B,EAAE,CAAC,MAAM,EAAE,WAAW,GAAG,SAAS,EAAE,YAAY,EAAE,OAAO,KAAK,IAAI,CAAC;IAChG,YAAY,EAAE,OAAO,CAAC;CACvB,CAAC;AAEF,wBAAsB,kBAAkB,CAAC,OAAO,EAAE,mBAAmB,GAAG,OAAO,CAAC,IAAI,CAAC,CA6GpF"}
+{"version":3,"file":"index.d.ts","sourceRoot":"","sources":["../../src/cli/index.ts"],"names":[],"mappings":"AAEA,OAAO,EAAE,KAAK,YAAY,EAAE,KAAK,WAAW,EAAE,KAAK,aAAa,EAAE,MAAM,qBAAqB,CAAC;AAE9F,OAAO,EAAE,KAAK,iBAAiB,EAAE,MAAM,oBAAoB,CAAC;AAC5D,OAAO,KAAK,EAAE,oBAAoB,EAAE,MAAM,iBAAiB,CAAC;AAC5D,OAAO,KAAK,EAAE,2BAA2B,EAAE,MAAM,0BAA0B,CAAC;AAC5E,OAAO,KAAK,EAAE,aAAa,EAAE,MAAM,cAAc,CAAC;AAkClD,MAAM,MAAM,mBAAmB,GAAG;IAChC,aAAa,EAAE,MAAM,CAAC;IACtB,eAAe,EAAE,MAAM,EAAE,CAAC;IAC1B,OAAO,EAAE,MAAM,GAAG,SAAS,CAAC;IAC5B,YAAY,EAAE,MAAM,GAAG,SAAS,CAAC;IACjC,gBAAgB,EAAE,2BAA2B,CAAC;IAC9C,kBAAkB,EAAE,oBAAoB,GAAG,SAAS,CAAC;IACrD,UAAU,EAAE;QAAE,gBAAgB,EAAE,IAAI,CAAA;KAAE,GAAG,MAAM,CAAC,MAAM,EAAE,KAAK,CAAC,CAAC;IAC/D,eAAe,EAAE,YAAY,CAAC,YAAY,CAAC,CAAC;IAC5C,aAAa,EAAE,aAAa,GAAG,SAAS,CAAC;IACzC,YAAY,EAAE,iBAAiB,GAAG,SAAS,CAAC;IAC5C,aAAa,EAAE,OAAO,CAAC;IACvB,UAAU,EAAE,MAAM,GAAG,SAAS,CAAC;IAC/B,MAAM,EAAE,CAAC,IAAI,EAAE,MAAM,KAAK,MAAM,GAAG,SAAS,CAAC;IAC7C,OAAO,EAAE,CAAC,IAAI,EAAE,MAAM,KAAK,OAAO,CAAC;IACnC,YAAY,EAAE,MAAM,OAAO,CAAC,MAAM,EAAE,CAAC,CAAC;IACtC,aAAa,EAAE,CAAC,KAAK,EAAE,OAAO,KAAK,IAAI,CAAC;IACxC,eAAe,EAAE,CAAC,OAAO,EAAE,MAAM,KAAK,IAAI,CAAC;IAC3C,eAAe,EAAE,CAAC,OAAO,EAAE,MAAM,KAAK,IAAI,CAAC;IAC3C,kBAAkB,EAAE,CAAC,MAAM,EAAE,aAAa,EAAE,UAAU,EAAE,MAAM,GAAG,SAAS,KAAK,OAAO,CAAC,IAAI,CAAC,CAAC;IAC7F,6BAA6B,EAAE,CAAC,MAAM,EAAE,WAAW,GAAG,SAAS,EAAE,YAAY,EAAE,OAAO,KAAK,IAAI,CAAC;IAChG,YAAY,EAAE,OAAO,CAAC;CACvB,CAAC;AAEF,wBAAsB,kBAAkB,CAAC,OAAO,EAAE,mBAAmB,GAAG,OAAO,CAAC,IAAI,CAAC,CAyGpF"}

package/dist/cli/index.js

@@ -3,6 +3,7 @@ import { buildProjectIndexFromFiles, buildProjectIndexIncremental } from "../ind
 import {} from "../indexer/types.js";
 import { isAnalysisComplete, summarizeAnalysis } from "../analysis-summary.js";
 import {} from "../graphs/types.js";
+import { compactModuleLocals } from "./module-locals.js";
 import { parseCacheModeOption, parseNonNegativeIntegerOption } from "./options.js";
 import { writeCliOutput } from "./pretty.js";
 function formatIndexOutput(output) {
@@ -80,11 +81,7 @@ export async function handleIndexCommand(context) {
     if (full) {
         const modules = [...index.byFile.values()].map((m) => ({
             file: m.file,
-            locals: m.locals.map((l) => ({
-                name: l.localName,
-                kind: l.kind,
-                start: l.range.start,
-            })),
+            locals: compactModuleLocals(m.locals),
             exports: m.exports,
             imports: m.imports,
         }));

package/dist/cli/index.js.map

@@ -1 +1 @@
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package/dist/cli/links.d.ts.map

@@ -1 +1 @@
-{"version":3,"file":"links.d.ts","sourceRoot":"","sources":["../../src/cli/links.ts"],"names":[],"mappings":"AACA,OAAO,KAAK,EAAE,uBAAuB,EAAE,MAAM,4BAA4B,CAAC;AAC1E,OAAO,KAAK,EAAE,2BAA2B,EAAE,MAAM,0BAA0B,CAAC;AAE5E,MAAM,MAAM,mBAAmB,GAAG;IAChC,aAAa,EAAE,MAAM,CAAC;IACtB,gBAAgB,CAAC,EAAE,2BAA2B,CAAC;IAC/C,OAAO,EAAE,CAAC,IAAI,EAAE,MAAM,KAAK,OAAO,CAAC;IACnC,aAAa,EAAE,CAAC,KAAK,EAAE,uBAAuB,KAAK,IAAI,CAAC;IACxD,eAAe,EAAE,CAAC,OAAO,EAAE,MAAM,KAAK,IAAI,CAAC;IAC3C,IAAI,EAAE,CAAC,IAAI,EAAE,MAAM,KAAK,KAAK,CAAC;CAC/B,CAAC;AA2BF,wBAAgB,6BAA6B,CAAC,MAAM,EAAE,uBAAuB,EAAE,OAAO,EAAE,OAAO,GAAG,MAAM,CAqBvG;AAED,wBAAsB,kBAAkB,CAAC,OAAO,EAAE,mBAAmB,GAAG,OAAO,CAAC,IAAI,CAAC,CAUpF"}
+{"version":3,"file":"links.d.ts","sourceRoot":"","sources":["../../src/cli/links.ts"],"names":[],"mappings":"AACA,OAAO,KAAK,EAAE,uBAAuB,EAAE,MAAM,4BAA4B,CAAC;AAC1E,OAAO,KAAK,EAAE,2BAA2B,EAAE,MAAM,0BAA0B,CAAC;AAG5E,MAAM,MAAM,mBAAmB,GAAG;IAChC,aAAa,EAAE,MAAM,CAAC;IACtB,gBAAgB,CAAC,EAAE,2BAA2B,CAAC;IAC/C,OAAO,EAAE,CAAC,IAAI,EAAE,MAAM,KAAK,OAAO,CAAC;IACnC,aAAa,EAAE,CAAC,KAAK,EAAE,uBAAuB,KAAK,IAAI,CAAC;IACxD,eAAe,EAAE,CAAC,OAAO,EAAE,MAAM,KAAK,IAAI,CAAC;IAC3C,IAAI,EAAE,CAAC,IAAI,EAAE,MAAM,KAAK,KAAK,CAAC;CAC/B,CAAC;AAqBF,wBAAgB,6BAA6B,CAAC,MAAM,EAAE,uBAAuB,EAAE,OAAO,EAAE,OAAO,GAAG,MAAM,CAqBvG;AAED,wBAAsB,kBAAkB,CAAC,OAAO,EAAE,mBAAmB,GAAG,OAAO,CAAC,IAAI,CAAC,CAUpF"}

package/dist/cli/links.js

@@ -1,13 +1,7 @@
 import { checkMarkdownLinks } from "../document-links/check.js";
-function compareText(left, right) {
-    if (left < right)
-        return -1;
-    if (left > right)
-        return 1;
-    return 0;
-}
+import { compareCodeUnits } from "../util/collections.js";
 function compareFailures(left, right) {
-    const fileComparison = compareText(left.file, right.file);
+    const fileComparison = compareCodeUnits(left.file, right.file);
     if (fileComparison)
         return fileComparison;
     const lineComparison = left.range.start.line - right.range.start.line;
@@ -16,10 +10,10 @@ function compareFailures(left, right) {
     const columnComparison = left.range.start.column - right.range.start.column;
     if (columnComparison)
         return columnComparison;
-    const reasonComparison = compareText(left.reason, right.reason);
+    const reasonComparison = compareCodeUnits(left.reason, right.reason);
     if (reasonComparison)
         return reasonComparison;
-    return compareText(left.raw, right.raw);
+    return compareCodeUnits(left.raw, right.raw);
 }
 export function formatMarkdownLinkCheckResult(result, verbose) {
     const { summary } = result;

package/dist/cli/links.js.map

@@ -1 +1 @@
-{"version":3,"file":"links.js","sourceRoot":"","sources":["../../src/cli/links.ts"],"names":[],"mappings":"AAAA,OAAO,EAAE,kBAAkB,EAAE,MAAM,4BAA4B,CAAC;AAahE,SAAS,WAAW,CAAC,IAAY,EAAE,KAAa;IAC9C,IAAI,IAAI,GAAG,KAAK;QAAE,OAAO,CAAC,CAAC,CAAC;IAC5B,IAAI,IAAI,GAAG,KAAK;QAAE,OAAO,CAAC,CAAC;IAC3B,OAAO,CAAC,CAAC;AACX,CAAC;AAED,SAAS,eAAe,CACtB,IAAiD,EACjD,KAAkD;IAElD,MAAM,cAAc,GAAG,WAAW,CAAC,IAAI,CAAC,IAAI,EAAE,KAAK,CAAC,IAAI,CAAC,CAAC;IAC1D,IAAI,cAAc;QAAE,OAAO,cAAc,CAAC;IAE1C,MAAM,cAAc,GAAG,IAAI,CAAC,KAAK,CAAC,KAAK,CAAC,IAAI,GAAG,KAAK,CAAC,KAAK,CAAC,KAAK,CAAC,IAAI,CAAC;IACtE,IAAI,cAAc;QAAE,OAAO,cAAc,CAAC;IAE1C,MAAM,gBAAgB,GAAG,IAAI,CAAC,KAAK,CAAC,KAAK,CAAC,MAAM,GAAG,KAAK,CAAC,KAAK,CAAC,KAAK,CAAC,MAAM,CAAC;IAC5E,IAAI,gBAAgB;QAAE,OAAO,gBAAgB,CAAC;IAE9C,MAAM,gBAAgB,GAAG,WAAW,CAAC,IAAI,CAAC,MAAM,EAAE,KAAK,CAAC,MAAM,CAAC,CAAC;IAChE,IAAI,gBAAgB;QAAE,OAAO,gBAAgB,CAAC;IAE9C,OAAO,WAAW,CAAC,IAAI,CAAC,GAAG,EAAE,KAAK,CAAC,GAAG,CAAC,CAAC;AAC1C,CAAC;AAED,MAAM,UAAU,6BAA6B,CAAC,MAA+B,EAAE,OAAgB;IAC7F,MAAM,EAAE,OAAO,EAAE,GAAG,MAAM,CAAC;IAC3B,MAAM,KAAK,GAAa,EAAE,CAAC;IAE3B,IAAI,CAAC,OAAO,CAAC,QAAQ,EAAE,CAAC;QACtB,KAAK,CAAC,IAAI,CAAC,iCAAiC,CAAC,CAAC;IAChD,CAAC;SAAM,CAAC;QACN,KAAK,CAAC,IAAI,CAAC,GAAG,OAAO,CAAC,QAAQ,oBAAoB,OAAO,CAAC,QAAQ,KAAK,CAAC,CAAC,CAAC,CAAC,MAAM,CAAC,CAAC,CAAC,OAAO,SAAS,CAAC,CAAC;QACtG,KAAK,MAAM,OAAO,IAAI,CAAC,GAAG,MAAM,CAAC,QAAQ,CAAC,CAAC,IAAI,CAAC,eAAe,CAAC,EAAE,CAAC;YACjE,MAAM,EAAE,IAAI,EAAE,MAAM,EAAE,GAAG,OAAO,CAAC,KAAK,CAAC,KAAK,CAAC;YAC7C,KAAK,CAAC,IAAI,CAAC,GAAG,OAAO,CAAC,IAAI,IAAI,IAAI,IAAI,MAAM,IAAI,OAAO,CAAC,MAAM,KAAK,OAAO,CAAC,GAAG,EAAE,CAAC,CAAC;QACpF,CAAC;IACH,CAAC;IAED,IAAI,OAAO,EAAE,CAAC;QACZ,KAAK,CAAC,IAAI,CACR,WAAW,OAAO,CAAC,YAAY,4BAA4B,OAAO,CAAC,YAAY,mBAAmB,OAAO,CAAC,eAAe,kBAAkB,CAC5I,CAAC;IACJ,CAAC;IAED,OAAO,KAAK,CAAC,IAAI,CAAC,IAAI,CAAC,CAAC;AAC1B,CAAC;AAED,MAAM,CAAC,KAAK,UAAU,kBAAkB,CAAC,OAA4B;IACnE,MAAM,MAAM,GAAG,MAAM,kBAAkB,CAAC,OAAO,CAAC,aAAa,EAAE,OAAO,CAAC,gBAAgB,CAAC,CAAC;IAEzF,IAAI,OAAO,CAAC,OAAO,CAAC,QAAQ,CAAC,EAAE,CAAC;QAC9B,OAAO,CAAC,aAAa,CAAC,MAAM,CAAC,CAAC;IAChC,CAAC;SAAM,CAAC;QACN,OAAO,CAAC,eAAe,CAAC,6BAA6B,CAAC,MAAM,EAAE,OAAO,CAAC,OAAO,CAAC,WAAW,CAAC,CAAC,CAAC,CAAC;IAC/F,CAAC;IAED,IAAI,MAAM,CAAC,OAAO,CAAC,QAAQ;QAAE,OAAO,CAAC,IAAI,CAAC,CAAC,CAAC,CAAC;AAC/C,CAAC"}
+{"version":3,"file":"links.js","sourceRoot":"","sources":["../../src/cli/links.ts"],"names":[],"mappings":"AAAA,OAAO,EAAE,kBAAkB,EAAE,MAAM,4BAA4B,CAAC;AAGhE,OAAO,EAAE,gBAAgB,EAAE,MAAM,wBAAwB,CAAC;AAW1D,SAAS,eAAe,CACtB,IAAiD,EACjD,KAAkD;IAElD,MAAM,cAAc,GAAG,gBAAgB,CAAC,IAAI,CAAC,IAAI,EAAE,KAAK,CAAC,IAAI,CAAC,CAAC;IAC/D,IAAI,cAAc;QAAE,OAAO,cAAc,CAAC;IAE1C,MAAM,cAAc,GAAG,IAAI,CAAC,KAAK,CAAC,KAAK,CAAC,IAAI,GAAG,KAAK,CAAC,KAAK,CAAC,KAAK,CAAC,IAAI,CAAC;IACtE,IAAI,cAAc;QAAE,OAAO,cAAc,CAAC;IAE1C,MAAM,gBAAgB,GAAG,IAAI,CAAC,KAAK,CAAC,KAAK,CAAC,MAAM,GAAG,KAAK,CAAC,KAAK,CAAC,KAAK,CAAC,MAAM,CAAC;IAC5E,IAAI,gBAAgB;QAAE,OAAO,gBAAgB,CAAC;IAE9C,MAAM,gBAAgB,GAAG,gBAAgB,CAAC,IAAI,CAAC,MAAM,EAAE,KAAK,CAAC,MAAM,CAAC,CAAC;IACrE,IAAI,gBAAgB;QAAE,OAAO,gBAAgB,CAAC;IAE9C,OAAO,gBAAgB,CAAC,IAAI,CAAC,GAAG,EAAE,KAAK,CAAC,GAAG,CAAC,CAAC;AAC/C,CAAC;AAED,MAAM,UAAU,6BAA6B,CAAC,MAA+B,EAAE,OAAgB;IAC7F,MAAM,EAAE,OAAO,EAAE,GAAG,MAAM,CAAC;IAC3B,MAAM,KAAK,GAAa,EAAE,CAAC;IAE3B,IAAI,CAAC,OAAO,CAAC,QAAQ,EAAE,CAAC;QACtB,KAAK,CAAC,IAAI,CAAC,iCAAiC,CAAC,CAAC;IAChD,CAAC;SAAM,CAAC;QACN,KAAK,CAAC,IAAI,CAAC,GAAG,OAAO,CAAC,QAAQ,oBAAoB,OAAO,CAAC,QAAQ,KAAK,CAAC,CAAC,CAAC,CAAC,MAAM,CAAC,CAAC,CAAC,OAAO,SAAS,CAAC,CAAC;QACtG,KAAK,MAAM,OAAO,IAAI,CAAC,GAAG,MAAM,CAAC,QAAQ,CAAC,CAAC,IAAI,CAAC,eAAe,CAAC,EAAE,CAAC;YACjE,MAAM,EAAE,IAAI,EAAE,MAAM,EAAE,GAAG,OAAO,CAAC,KAAK,CAAC,KAAK,CAAC;YAC7C,KAAK,CAAC,IAAI,CAAC,GAAG,OAAO,CAAC,IAAI,IAAI,IAAI,IAAI,MAAM,IAAI,OAAO,CAAC,MAAM,KAAK,OAAO,CAAC,GAAG,EAAE,CAAC,CAAC;QACpF,CAAC;IACH,CAAC;IAED,IAAI,OAAO,EAAE,CAAC;QACZ,KAAK,CAAC,IAAI,CACR,WAAW,OAAO,CAAC,YAAY,4BAA4B,OAAO,CAAC,YAAY,mBAAmB,OAAO,CAAC,eAAe,kBAAkB,CAC5I,CAAC;IACJ,CAAC;IAED,OAAO,KAAK,CAAC,IAAI,CAAC,IAAI,CAAC,CAAC;AAC1B,CAAC;AAED,MAAM,CAAC,KAAK,UAAU,kBAAkB,CAAC,OAA4B;IACnE,MAAM,MAAM,GAAG,MAAM,kBAAkB,CAAC,OAAO,CAAC,aAAa,EAAE,OAAO,CAAC,gBAAgB,CAAC,CAAC;IAEzF,IAAI,OAAO,CAAC,OAAO,CAAC,QAAQ,CAAC,EAAE,CAAC;QAC9B,OAAO,CAAC,aAAa,CAAC,MAAM,CAAC,CAAC;IAChC,CAAC;SAAM,CAAC;QACN,OAAO,CAAC,eAAe,CAAC,6BAA6B,CAAC,MAAM,EAAE,OAAO,CAAC,OAAO,CAAC,WAAW,CAAC,CAAC,CAAC,CAAC;IAC/F,CAAC;IAED,IAAI,MAAM,CAAC,OAAO,CAAC,QAAQ;QAAE,OAAO,CAAC,IAAI,CAAC,CAAC,CAAC,CAAC;AAC/C,CAAC"}

package/dist/cli/mcp.d.ts.map

@@ -1 +1 @@
-{"version":3,"file":"mcp.d.ts","sourceRoot":"","sources":["../../src/cli/mcp.ts"],"names":[],"mappings":"AAGA,OAAO,KAAK,EAAE,YAAY,EAAE,MAAM,qBAAqB,CAAC;AACxD,OAAO,EAEL,KAAK,gBAAgB,EACrB,KAAK,qBAAqB,EAC1B,KAAK,cAAc,EACnB,KAAK,oBAAoB,EAC1B,MAAM,cAAc,CAAC;AAEtB,MAAM,MAAM,sBAAsB,GAAG,qBAAqB,GACxD,cAAc,GACd,gBAAgB,GAChB,oBAAoB,GAAG;IACrB,YAAY,CAAC,EAAE,YAAY,CAAC;CAC7B,CAAC;AAEJ,wBAAsB,qBAAqB,CAAC,OAAO,EAAE,sBAAsB,GAAG,OAAO,CAAC,IAAI,CAAC,CAiD1F"}
+{"version":3,"file":"mcp.d.ts","sourceRoot":"","sources":["../../src/cli/mcp.ts"],"names":[],"mappings":"AAIA,OAAO,KAAK,EAAE,YAAY,EAAE,MAAM,qBAAqB,CAAC;AACxD,OAAO,EAEL,KAAK,gBAAgB,EACrB,KAAK,qBAAqB,EAC1B,KAAK,cAAc,EACnB,KAAK,oBAAoB,EAC1B,MAAM,cAAc,CAAC;AAEtB,MAAM,MAAM,sBAAsB,GAAG,qBAAqB,GACxD,cAAc,GACd,gBAAgB,GAChB,oBAAoB,GAAG;IACrB,YAAY,CAAC,EAAE,YAAY,CAAC;CAC7B,CAAC;AAEJ,wBAAsB,qBAAqB,CAAC,OAAO,EAAE,sBAAsB,GAAG,OAAO,CAAC,IAAI,CAAC,CA0D1F"}

package/dist/cli/mcp.js

@@ -1,4 +1,5 @@
 import { serveCodegraphMcp } from "../mcp/server.js";
+import { MAX_MCP_INDEX_WAIT_MS } from "../mcp/index-readiness.js";
 import { MCP_HELP_TEXT } from "./help.js";
 import { parseOptionalBoundedIntegerOption } from "./options.js";
 import { exitWithError, } from "./context.js";
@@ -11,9 +12,11 @@ export async function handleMcpServeCommand(context) {
     const artifactPath = context.getOpt("--artifact");
     let port;
     let idleTimeoutMs;
+    let indexWaitMs;
     try {
         port = parseOptionalBoundedIntegerOption(context.getOpt("--port"), "--port", 0, 65535);
         idleTimeoutMs = parseOptionalBoundedIntegerOption(context.getOpt("--idle-timeout-ms"), "--idle-timeout-ms", 0, 24 * 60 * 60 * 1000);
+        indexWaitMs = parseOptionalBoundedIntegerOption(context.getOpt("--index-wait-ms"), "--index-wait-ms", 0, MAX_MCP_INDEX_WAIT_MS);
     }
     catch (error) {
         exitWithError(context, error, 2);
@@ -40,7 +43,9 @@ export async function handleMcpServeCommand(context) {
         ...(artifactPath !== undefined ? { artifactPath } : {}),
         ...(context.buildOptions !== undefined ? { buildOptions: context.buildOptions } : {}),
         warmup,
+        ...(context.hasFlag("--no-watch") ? { watch: false } : {}),
         ...(idleTimeoutMs !== undefined ? { idleTimeoutMs } : {}),
+        ...(indexWaitMs !== undefined ? { mcpIndexWaitMs: indexWaitMs } : {}),
         onHttpListen: (info) => {
             context.writeStderrLine(`Codegraph MCP HTTP server listening at ${info.url}`);
         },

package/dist/cli/mcp.js.map

@@ -1 +1 @@
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package/dist/cli/module-locals.d.ts

@@ -0,0 +1,8 @@
+import type { SymbolDef } from "../indexer/types.js";
+/** JSON projection of a module's local definitions, shared by `index --full` and `dumpmod`. */
+export declare function compactModuleLocals(locals: readonly SymbolDef[]): Array<{
+    name: string;
+    kind: SymbolDef["kind"];
+    start: SymbolDef["range"]["start"];
+}>;
+//# sourceMappingURL=module-locals.d.ts.map

package/dist/cli/module-locals.d.ts.map

@@ -0,0 +1 @@
+{"version":3,"file":"module-locals.d.ts","sourceRoot":"","sources":["../../src/cli/module-locals.ts"],"names":[],"mappings":"AAAA,OAAO,KAAK,EAAE,SAAS,EAAE,MAAM,qBAAqB,CAAC;AAErD,+FAA+F;AAC/F,wBAAgB,mBAAmB,CAAC,MAAM,EAAE,SAAS,SAAS,EAAE,GAAG,KAAK,CAAC;IACvE,IAAI,EAAE,MAAM,CAAC;IACb,IAAI,EAAE,SAAS,CAAC,MAAM,CAAC,CAAC;IACxB,KAAK,EAAE,SAAS,CAAC,OAAO,CAAC,CAAC,OAAO,CAAC,CAAC;CACpC,CAAC,CAMD"}