@nanonets/graft 0.12.1 → 0.15.0

package/dist/ingest/fs.d.ts

@@ -29,17 +29,31 @@ export declare function shouldSkipDir(name: string, includes?: ReadonlySet<strin
  * `includes`, and files over 1 MB.
  * In a Git worktree, tracked files plus untracked, non-ignored files come from
  * `git ls-files`; this gives indexing exactly Git's nested `.gitignore`,
- * negation, and global-exclude semantics. Initialized submodules are enumerated
- * recursively only when `followSubmodules` is true; the default preserves the
- * historical superproject boundary. Each child keeps its own ignore rules, and
- * uninitialized submodules remain absent. Non-Git directories retain the plain
+ * negation, and global-exclude semantics. Non-Git directories retain the plain
  * filesystem walk. `includes` lifts only the built-in skip list — it never
  * overrides Git's ignore rules (un-ignore or `git add -f` a directory to
  * index it, the same contract as tracked-but-ignored files).
+ *
+ * Two INDEPENDENT opt-ins cross the repository boundary, because Git models two
+ * different relationships and only one of them is a dependency the parent pins:
+ *
+ *   - `followSubmodules` follows a GITLINK — an index entry with mode `160000`,
+ *     a commit the superproject versions.
+ *   - `followNestedRepos` follows a nested clone the parent's index knows
+ *     nothing about. Manifest-driven multi-repo tools (west, repo, gclient,
+ *     tsrc, mr, …) all check dependencies out this way, and so does anyone who
+ *     clones an upstream into the tree to patch it locally.
+ *
+ * Both default to false, preserving the historical superproject boundary. Each
+ * child keeps its own ignore rules; uninitialized submodules and gitignored
+ * nested clones remain absent either way (`--exclude-standard` never emits
+ * them, so there is nothing to follow).
  */
 export interface WalkOptions {
-    /** Include initialized Git submodules recursively. Default false. */
+    /** Include initialized Git submodules (gitlinks) recursively. Default false. */
     followSubmodules?: boolean;
+    /** Include nested Git clones the parent index does not track. Default false. */
+    followNestedRepos?: boolean;
 }
 export declare function walkDir(dir: string, includes?: ReadonlySet<string>, opts?: WalkOptions): string[];
 //# sourceMappingURL=fs.d.ts.map

package/dist/ingest/fs.d.ts.map

@@ -1 +1 @@
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+{"version":3,"file":"fs.d.ts","sourceRoot":"","sources":["../../src/ingest/fs.ts"],"names":[],"mappings":"AAOA,kEAAkE;AAClE,eAAO,MAAM,SAAS,aAgBpB,CAAC;AAEH,uFAAuF;AACvF,eAAO,MAAM,cAAc,UAAY,CAAC;AAExC;;;;;;;;;;;;;;;;;;;GAmBG;AACH,wBAAgB,aAAa,CAAC,IAAI,EAAE,MAAM,EAAE,QAAQ,CAAC,EAAE,WAAW,CAAC,MAAM,CAAC,GAAG,OAAO,CAInF;AAED;;;;;;;;;;;;;;;;;;;;;;;;;GAyBG;AACH,MAAM,WAAW,WAAW;IAC1B,gFAAgF;IAChF,gBAAgB,CAAC,EAAE,OAAO,CAAC;IAC3B,gFAAgF;IAChF,iBAAiB,CAAC,EAAE,OAAO,CAAC;CAC7B;AAED,wBAAgB,OAAO,CACrB,GAAG,EAAE,MAAM,EACX,QAAQ,CAAC,EAAE,WAAW,CAAC,MAAM,CAAC,EAC9B,IAAI,GAAE,WAAgB,GACrB,MAAM,EAAE,CAEV"}

package/dist/ingest/fs.js

@@ -9,6 +9,12 @@ export const SKIP_DIRS = new Set([
     "node_modules",
     "dist",
     "build",
+    // The underscore spelling that Sphinx, CMake, Jekyll and the OCaml tools all
+    // emit. Left out, a materialized build tree lands in the graph as ordinary
+    // source: one repo here indexed 4,484 files of vendored WordPress against 121
+    // hand-written ones, and queries slowed enough that the prompt hook's budget
+    // could no longer fit them. `--include-dir _build` remains the way back in.
+    "_build",
     "out",
     "target",
     "vendor",
@@ -46,15 +52,19 @@ export function shouldSkipDir(name, includes) {
     return SKIP_DIRS.has(name);
 }
 export function walkDir(dir, includes, opts = {}) {
-    return gitVisibleFiles(dir, includes, opts.followSubmodules === true) ?? walkFilesystem(dir, includes);
+    return gitVisibleFiles(dir, includes, opts) ?? walkFilesystem(dir, includes);
 }
 /** Git's canonical working-tree file set, relative to `dir`. Tracked files are
  * deliberately included even when a later ignore rule matches them; `.gitignore`
  * only controls untracked files in Git, and graft follows the same contract. */
-function gitVisibleFiles(dir, includes, followSubmodules = false, traversal) {
+function gitVisibleFiles(dir, includes, opts = {}, traversal) {
     const root = resolve(dir);
-    if (!followSubmodules)
+    // The recursive path costs an extra `-t --stage` classification, so take it
+    // only when at least one boundary-crossing opt-in is on. With both off the
+    // walk is byte-for-byte the historical one.
+    if (opts.followSubmodules !== true && opts.followNestedRepos !== true) {
         return gitVisibleFilesShallow(root, includes);
+    }
     const state = traversal ?? { topRoot: root, activeRoots: new Set() };
     const rootKey = process.platform === "win32" ? root.toLowerCase() : root;
     if (state.activeRoots.has(rootKey))
@@ -73,7 +83,8 @@ function gitVisibleFiles(dir, includes, followSubmodules = false, traversal) {
         return null;
     }
     // A path can have multiple stage records during a merge. Collapse those
-    // records and remember if any of them identifies the path as a gitlink.
+    // records and remember if any of them identifies the path as a gitlink or as
+    // a nested-clone boundary.
     const entries = new Map();
     for (const record of result.stdout.split("\0")) {
         if (!record)
@@ -84,8 +95,17 @@ function gitVisibleFiles(dir, includes, followSubmodules = false, traversal) {
         const body = record.slice(2);
         let rel;
         let gitlink = false;
+        let nested = false;
         if (tag === "?") {
             rel = body;
+            // Git refuses to descend into a repository it does not own, so `--others`
+            // collapses a nested clone to ONE trailing-slash directory entry while
+            // every other untracked directory is expanded file by file. That slash is
+            // the boundary marker — free, since this is the enumeration we already ran.
+            if (rel.endsWith("/")) {
+                nested = true;
+                rel = rel.slice(0, -1);
+            }
         }
         else {
             const tab = body.indexOf("\t");
@@ -97,7 +117,10 @@ function gitVisibleFiles(dir, includes, followSubmodules = false, traversal) {
         if (!rel)
             continue;
         const prior = entries.get(rel);
-        entries.set(rel, { gitlink: gitlink || prior?.gitlink === true });
+        entries.set(rel, {
+            gitlink: gitlink || prior?.gitlink === true,
+            nested: nested || prior?.nested === true,
+        });
     }
     const out = new Set();
     for (const [rel, entry] of entries) {
@@ -107,13 +130,16 @@ function gitVisibleFiles(dir, includes, followSubmodules = false, traversal) {
         // recursion resets its relative root.
         if (skippedPath(relative(state.topRoot, abs), includes))
             continue;
-        if (entry.gitlink) {
+        const followChild = (entry.gitlink && opts.followSubmodules === true) ||
+            (entry.nested && opts.followNestedRepos === true);
+        if (followChild) {
             // A deinitialized gitlink can resolve upward to the superproject when Git
-            // runs inside it. Requiring the child's own .git prevents duplicate,
-            // mis-prefixed parent files and recursive loops.
+            // runs inside it, and a nested-looking directory may have no repo at all.
+            // Requiring the child's own .git prevents duplicate, mis-prefixed parent
+            // files and recursive loops.
             if (!existsSync(join(abs, ".git")))
                 continue;
-            let childFiles = gitVisibleFiles(abs, includes, true, state);
+            let childFiles = gitVisibleFiles(abs, includes, opts, state);
             if (childFiles === null) {
                 // Do not let one broken child recreate a "healthy but incomplete"
                 // graph. Match the top-level fail-soft contract locally: fall back to

package/dist/ingest/fs.js.map

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package/dist/telemetry/contract.d.ts.map

@@ -1 +1 @@
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package/dist/telemetry/contract.js

@@ -41,8 +41,13 @@ export const EVENTS = {
     /** One query, from any surface. The DAU backbone and the dead-command detector. */
     query: new Set(['command', 'surface', 'hit']),
     /** One closed agent session, summarised. `graft_reads` vs `source_reads` is
-     *  the single number that says whether an agent prefers graft to grep. */
-    session_summary: new Set(['graft_reads_bucket', 'source_reads_bucket', 'saved_tokens_bucket']),
+     *  the single number that says whether an agent prefers graft to grep; the two
+     *  `*_turns` buckets are the follow-up question — of the turns that used graft,
+     *  how many told the user what it saved. Both are counts of turns, never text. */
+    session_summary: new Set([
+        'graft_reads_bucket', 'source_reads_bucket', 'saved_tokens_bucket',
+        'graft_turns_bucket', 'reported_turns_bucket',
+    ]),
 };
 /** Stamped on every event by `track()`; not listed per event above. */
 export const COMMON_KEYS = [

package/dist/telemetry/contract.js.map

@@ -1 +1 @@
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package/dist/telemetry/sessions.d.ts.map

@@ -1 +1 @@
-{"version":3,"file":"sessions.d.ts","sourceRoot":"","sources":["../../src/telemetry/sessions.ts"],"names":[],"mappings":"AA2BA,kEAAkE;AAClE,eAAO,MAAM,eAAe,QAAqB,CAAC;AAMlD;;;GAGG;AACH,wBAAgB,mBAAmB,CACjC,IAAI,EAAE,MAAM,EACZ,GAAG,SAAa,EAChB,IAAI,CAAC,EAAE,MAAM,EACb,GAAG,CAAC,EAAE,MAAM,CAAC,UAAU,GACtB,MAAM,CAoCR"}
+{"version":3,"file":"sessions.d.ts","sourceRoot":"","sources":["../../src/telemetry/sessions.ts"],"names":[],"mappings":"AA2BA,kEAAkE;AAClE,eAAO,MAAM,eAAe,QAAqB,CAAC;AAMlD;;;GAGG;AACH,wBAAgB,mBAAmB,CACjC,IAAI,EAAE,MAAM,EACZ,GAAG,SAAa,EAChB,IAAI,CAAC,EAAE,MAAM,EACb,GAAG,CAAC,EAAE,MAAM,CAAC,UAAU,GACtB,MAAM,CA0CR"}

package/dist/telemetry/sessions.js

@@ -68,6 +68,12 @@ export function flushClosedSessions(repo, now = Date.now(), home, env) {
                 graft_reads_bucket: countBucket(s.graftReads ?? 0),
                 source_reads_bucket: countBucket(s.sourceReads ?? 0),
                 saved_tokens_bucket: savedTokensBucket(s.savedTokens ?? 0),
+                // Saved vs *said*: the gap between these two is value the user never
+                // heard about. Only turns whose reply was actually readable are in
+                // either count (claude/tally.ts), so a host that exposes no transcript
+                // reports 0/0 rather than a misleading 0-out-of-many.
+                graft_turns_bucket: countBucket(s.graftTurns ?? 0),
+                reported_turns_bucket: countBucket(s.reportedTurns ?? 0),
             }, { repo, host: 'claude-code', home, env });
             writeSession(repo, id, { ...s, summarized: true });
             queued++;

package/dist/telemetry/sessions.js.map

@@ -1 +1 @@
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+{"version":3,"file":"sessions.js","sourceRoot":"","sources":["../../src/telemetry/sessions.ts"],"names":[],"mappings":"AAAA;;;;;;;;;;;;;;;;;;GAkBG;AACH,OAAO,EAAE,WAAW,EAAE,QAAQ,EAAE,MAAM,SAAS,CAAC;AAChD,OAAO,EAAE,IAAI,EAAE,MAAM,WAAW,CAAC;AACjC,OAAO,EAAE,QAAQ,EAAE,MAAM,kBAAkB,CAAC;AAC5C,OAAO,EAAE,WAAW,EAAE,YAAY,EAAE,MAAM,oBAAoB,CAAC;AAC/D,OAAO,EAAE,WAAW,EAAE,iBAAiB,EAAE,MAAM,eAAe,CAAC;AAC/D,OAAO,EAAE,KAAK,EAAE,MAAM,YAAY,CAAC;AACnC,OAAO,EAAE,WAAW,EAAE,MAAM,WAAW,CAAC;AAExC,kEAAkE;AAClE,MAAM,CAAC,MAAM,eAAe,GAAG,CAAC,GAAG,EAAE,GAAG,EAAE,GAAG,IAAI,CAAC;AAElD;oFACoF;AACpF,MAAM,WAAW,GAAG,EAAE,CAAC;AAEvB;;;GAGG;AACH,MAAM,UAAU,mBAAmB,CACjC,IAAY,EACZ,GAAG,GAAG,IAAI,CAAC,GAAG,EAAE,EAChB,IAAa,EACb,GAAuB;IAEvB,IAAI,CAAC;QACH,IAAI,CAAC,WAAW,CAAC,IAAI,EAAE,GAAG,CAAC;YAAE,OAAO,CAAC,CAAC;QACtC,MAAM,GAAG,GAAG,IAAI,CAAC,QAAQ,CAAC,IAAI,CAAC,EAAE,SAAS,CAAC,CAAC;QAC5C,IAAI,KAAe,CAAC;QACpB,IAAI,CAAC;YAAC,KAAK,GAAG,WAAW,CAAC,GAAG,CAAC,CAAC,MAAM,CAAC,CAAC,CAAC,EAAE,EAAE,CAAC,CAAC,CAAC,QAAQ,CAAC,OAAO,CAAC,CAAC,CAAC;QAAC,CAAC;QAAC,MAAM,CAAC;YAAC,OAAO,CAAC,CAAC;QAAC,CAAC;QAExF,IAAI,MAAM,GAAG,CAAC,CAAC;QACf,KAAK,MAAM,IAAI,IAAI,KAAK,CAAC,IAAI,EAAE,EAAE,CAAC;YAChC,IAAI,MAAM,IAAI,WAAW;gBAAE,MAAM;YACjC,IAAI,KAAa,CAAC;YAClB,IAAI,CAAC;gBAAC,KAAK,GAAG,QAAQ,CAAC,IAAI,CAAC,GAAG,EAAE,IAAI,CAAC,CAAC,CAAC,OAAO,CAAC;YAAC,CAAC;YAAC,MAAM,CAAC;gBAAC,SAAS;YAAC,CAAC;YACtE,IAAI,GAAG,GAAG,KAAK,GAAG,eAAe;gBAAE,SAAS;YAE5C,MAAM,EAAE,GAAG,IAAI,CAAC,KAAK,CAAC,CAAC,EAAE,CAAC,OAAO,CAAC,MAAM,CAAC,CAAC;YAC1C,MAAM,CAAC,GAAG,WAAW,CAAC,IAAI,EAAE,EAAE,CAAC,CAAC;YAChC,IAAI,CAAC,CAAC,UAAU;gBAAE,SAAS;YAE3B,2EAA2E;YAC3E,yEAAyE;YACzE,KAAK,CACH,iBAAiB,EACjB;gBACE,kBAAkB,EAAE,WAAW,CAAC,CAAC,CAAC,UAAU,IAAI,CAAC,CAAC;gBAClD,mBAAmB,EAAE,WAAW,CAAC,CAAC,CAAC,WAAW,IAAI,CAAC,CAAC;gBACpD,mBAAmB,EAAE,iBAAiB,CAAC,CAAC,CAAC,WAAW,IAAI,CAAC,CAAC;gBAC1D,qEAAqE;gBACrE,mEAAmE;gBACnE,uEAAuE;gBACvE,sDAAsD;gBACtD,kBAAkB,EAAE,WAAW,CAAC,CAAC,CAAC,UAAU,IAAI,CAAC,CAAC;gBAClD,qBAAqB,EAAE,WAAW,CAAC,CAAC,CAAC,aAAa,IAAI,CAAC,CAAC;aACzD,EACD,EAAE,IAAI,EAAE,IAAI,EAAE,aAAa,EAAE,IAAI,EAAE,GAAG,EAAE,CACzC,CAAC;YACF,YAAY,CAAC,IAAI,EAAE,EAAE,EAAE,EAAE,GAAG,CAAC,EAAE,UAAU,EAAE,IAAI,EAAE,CAAC,CAAC;YACnD,MAAM,EAAE,CAAC;QACX,CAAC;QACD,OAAO,MAAM,CAAC;IAChB,CAAC;IAAC,MAAM,CAAC;QACP,OAAO,CAAC,CAAC,CAAC,uDAAuD;IACnE,CAAC;AACH,CAAC"}

package/dist/util/state.d.ts

@@ -12,6 +12,19 @@ export interface Stats {
 }
 export declare const LOCK_STALE_MS = 300000;
 export declare function emptyStats(): Stats;
+/**
+ * Where the pieces this module manages (the stats cache, the sync lock,
+ * per-session state, the upkeep stamp) actually live when no caller-supplied
+ * override is available. The Claude Code hooks, `sync-run`, the statusline,
+ * and `upkeep` all resolve a bare project dir and never see an explicit
+ * `--dir` — unlike a direct CLI invocation, which threads one through
+ * `contextDirFor` (`context/node-file.ts`). This mirrors that same override
+ * precedence for those entry points: `GRAFT_DIR` wins over the default
+ * `<projectDir>/graft`, the same env var `resolveConfig` already honors for
+ * the `--deep` LLM path. A relative `GRAFT_DIR` resolves against `projectDir`
+ * so it holds regardless of the caller's cwd.
+ */
+export declare function resolveContextDir(projectDir: string): string;
 export declare function cacheDir(projectDir: string): string;
 export declare function readJson<T>(p: string): T | null;
 /**
@@ -41,9 +54,17 @@ export interface BuildConfig {
      * no-flag build — and the fingerprint/refresh path, which never sees CLI
      * flags at all — behave identically to the invocation that set it. */
     includeDirs?: string[];
-    /** Whether initialized Git submodules are folded into this repo's graph.
-     * Absent/false keeps the historical boundary at the superproject. */
+    /** Whether initialized Git submodules (gitlinks) are folded into this repo's
+     * graph. Absent/false keeps the historical boundary at the superproject. */
     followSubmodules?: boolean;
+    /** Whether nested Git clones the index does not track — how manifest-driven
+     * multi-repo tools check dependencies out, and how an ad-hoc local clone lands
+     * in the tree — are folded into this repo's graph. Deliberately SEPARATE from
+     * `followSubmodules`: a submodule is a dependency the parent pins, a nested
+     * clone is invisible to the parent's index and may equally be a scratch
+     * checkout someone parked in the tree. Absent/false keeps the historical
+     * boundary. */
+    followNestedRepos?: boolean;
 }
 /** Local, Git-ignored repository configuration. Kept outside generated
  * `graft/` output so deleting/replacing that cache, workspace federation, and
@@ -63,6 +84,8 @@ export declare function patchBuildConfig(d: string, patch: BuildConfig): void;
 export declare function readIncludeDirs(d: string): Set<string> | undefined;
 /** Missing and explicit false both retain the backwards-compatible default. */
 export declare function readFollowSubmodules(d: string): boolean;
+/** Missing and explicit false both retain the backwards-compatible default. */
+export declare function readFollowNestedRepos(d: string): boolean;
 export declare function patchStats(d: string, patch: Partial<Stats>): Stats;
 export declare function acquireLock(d: string): boolean;
 export declare function releaseLock(d: string): void;

package/dist/util/state.d.ts.map

@@ -1 +1 @@
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+{"version":3,"file":"state.d.ts","sourceRoot":"","sources":["../../src/util/state.ts"],"names":[],"mappings":"AAcA,MAAM,WAAW,KAAK;IACpB,SAAS,EAAE,MAAM,CAAC;IAAC,SAAS,EAAE,MAAM,CAAC;IAAC,SAAS,EAAE,MAAM,EAAE,CAAC;IAC1D,UAAU,EAAE,MAAM,CAAC;IAAC,UAAU,EAAE,MAAM,CAAC;IACvC,UAAU,EAAE,MAAM,CAAC;IAAC,KAAK,EAAE,OAAO,CAAC;IAAC,OAAO,EAAE,OAAO,CAAC;IACrD,QAAQ,EAAE,MAAM,GAAG,IAAI,CAAC;IAAC,QAAQ,EAAE,MAAM,GAAG,IAAI,CAAC;CAClD;AAED,eAAO,MAAM,aAAa,SAAS,CAAC;AAEpC,wBAAgB,UAAU,IAAI,KAAK,CAGlC;AAID;;;;;;;;;;;GAWG;AACH,wBAAgB,iBAAiB,CAAC,UAAU,EAAE,MAAM,GAAG,MAAM,CAI5D;AAED,wBAAgB,QAAQ,CAAC,UAAU,EAAE,MAAM,GAAG,MAAM,CAA0D;AAG9G,wBAAgB,QAAQ,CAAC,CAAC,EAAE,CAAC,EAAE,MAAM,GAAG,CAAC,GAAG,IAAI,CAE/C;AACD;;;;;;;;;;;;;GAaG;AACH,wBAAgB,eAAe,CAAC,CAAC,EAAE,MAAM,EAAE,KAAK,EAAE,OAAO,EAAE,OAAO,UAAQ,GAAG,IAAI,CAUhF;AAED,wBAAgB,SAAS,CAAC,CAAC,EAAE,MAAM,GAAG,KAAK,GAAG,IAAI,CAA0C;AAC5F,wBAAgB,UAAU,CAAC,CAAC,EAAE,MAAM,EAAE,CAAC,EAAE,KAAK,GAAG,IAAI,CAAsC;AAE3F;;;;GAIG;AACH,MAAM,WAAW,WAAW;IAC1B;;0EAEsE;IACtE,WAAW,CAAC,EAAE,MAAM,EAAE,CAAC;IACvB;gFAC4E;IAC5E,gBAAgB,CAAC,EAAE,OAAO,CAAC;IAC3B;;;;;;mBAMe;IACf,iBAAiB,CAAC,EAAE,OAAO,CAAC;CAC7B;AAED;;0EAE0E;AAC1E,eAAO,MAAM,gBAAgB,WAAW,CAAC;AAEzC,wBAAgB,eAAe,CAAC,CAAC,EAAE,MAAM,GAAG,MAAM,CAAqD;AAkBvG,wBAAgB,eAAe,CAAC,CAAC,EAAE,MAAM,GAAG,WAAW,GAAG,IAAI,CAAsD;AACpH,wBAAgB,gBAAgB,CAAC,CAAC,EAAE,MAAM,EAAE,CAAC,EAAE,WAAW,GAAG,IAAI,CAGhE;AAED;kDACkD;AAClD,wBAAgB,gBAAgB,CAAC,CAAC,EAAE,MAAM,EAAE,KAAK,EAAE,WAAW,GAAG,IAAI,CAEpE;AAED;;;;oEAIoE;AACpE,wBAAgB,eAAe,CAAC,CAAC,EAAE,MAAM,GAAG,GAAG,CAAC,MAAM,CAAC,GAAG,SAAS,CAGlE;AAED,+EAA+E;AAC/E,wBAAgB,oBAAoB,CAAC,CAAC,EAAE,MAAM,GAAG,OAAO,CAEvD;AAED,+EAA+E;AAC/E,wBAAgB,qBAAqB,CAAC,CAAC,EAAE,MAAM,GAAG,OAAO,CAExD;AAGD,wBAAgB,UAAU,CAAC,CAAC,EAAE,MAAM,EAAE,KAAK,EAAE,OAAO,CAAC,KAAK,CAAC,GAAG,KAAK,CAIlE;AAED,wBAAgB,WAAW,CAAC,CAAC,EAAE,MAAM,GAAG,OAAO,CAE9C;AACD,wBAAgB,WAAW,CAAC,CAAC,EAAE,MAAM,GAAG,IAAI,CAE3C;AAED;;;;;GAKG;AACH,wBAAgB,aAAa,CAAC,KAAK,EAAE,MAAM,GAAG,OAAO,CAgBpD;AACD,wBAAgB,aAAa,CAAC,KAAK,EAAE,MAAM,GAAG,IAAI,CAEjD"}

package/dist/util/state.js

@@ -10,14 +10,32 @@
  * outside had to change when it moved.
  */
 import { readFileSync, writeFileSync, mkdirSync, renameSync, rmSync, statSync } from 'node:fs';
-import { join, dirname } from 'node:path';
+import { join, dirname, isAbsolute } from 'node:path';
 export const LOCK_STALE_MS = 300000;
 export function emptyStats() {
     return { nodeCount: 0, edgeCount: 0, languages: [], totalCount: 0, readyCount: 0,
         staleCount: 0, dirty: false, syncing: false, syncedAt: null, lastFile: null };
 }
 const LOCK_FILE = '.sync.lock';
-export function cacheDir(projectDir) { return join(projectDir, 'graft', '.cache'); }
+/**
+ * Where the pieces this module manages (the stats cache, the sync lock,
+ * per-session state, the upkeep stamp) actually live when no caller-supplied
+ * override is available. The Claude Code hooks, `sync-run`, the statusline,
+ * and `upkeep` all resolve a bare project dir and never see an explicit
+ * `--dir` — unlike a direct CLI invocation, which threads one through
+ * `contextDirFor` (`context/node-file.ts`). This mirrors that same override
+ * precedence for those entry points: `GRAFT_DIR` wins over the default
+ * `<projectDir>/graft`, the same env var `resolveConfig` already honors for
+ * the `--deep` LLM path. A relative `GRAFT_DIR` resolves against `projectDir`
+ * so it holds regardless of the caller's cwd.
+ */
+export function resolveContextDir(projectDir) {
+    const override = process.env.GRAFT_DIR;
+    if (!override)
+        return join(projectDir, 'graft');
+    return isAbsolute(override) ? override : join(projectDir, override);
+}
+export function cacheDir(projectDir) { return join(resolveContextDir(projectDir), '.cache'); }
 function statsPath(d) { return join(cacheDir(d), 'stats.json'); }
 export function readJson(p) {
     try {
@@ -108,6 +126,10 @@ export function readIncludeDirs(d) {
 export function readFollowSubmodules(d) {
     return readBuildConfig(d)?.followSubmodules === true;
 }
+/** Missing and explicit false both retain the backwards-compatible default. */
+export function readFollowNestedRepos(d) {
+    return readBuildConfig(d)?.followNestedRepos === true;
+}
 // Best-effort read-modify-write; not atomic across concurrent processes, but acceptable
 // for episodic hook writes (worst case is a lost update, not corruption).
 export function patchStats(d, patch) {

package/dist/util/state.js.map

@@ -1 +1 @@
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package/dist/viewer/app.js

@@ -1 +1,2 @@
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