ctxr-cli 0.4.0 → 0.5.0

package/dist/core/git/repo.js.map

@@ -1 +1 @@
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package/dist/core/git/worktree.d.ts

@@ -26,4 +26,12 @@ export interface WorktreeInfo {
 /** Parses `git worktree list --porcelain`'s block format (blocks separated by a blank line). */
 export declare function parseWorktreeList(porcelain: string): WorktreeInfo[];
 export declare function listWorktrees(git: GitRunner, cwd: string): Promise<WorktreeInfo[]>;
+/**
+ * The store's canonical clone: git lists the repository's MAIN worktree first
+ * in `worktree list --porcelain`, so the first entry is it, whichever linked
+ * worktree the command was invoked from. Falls back to the passed cwd when the
+ * list is empty rather than throwing — a repository with no linked worktrees
+ * then behaves exactly as a caller that never asked.
+ */
+export declare function mainWorktreePath(git: GitRunner, cwd: string): Promise<string>;
 //# sourceMappingURL=worktree.d.ts.map

package/dist/core/git/worktree.d.ts.map

@@ -1 +1 @@
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+{"version":3,"file":"worktree.d.ts","sourceRoot":"","sources":["../../../src/core/git/worktree.ts"],"names":[],"mappings":"AAAA,OAAO,KAAK,EAAE,SAAS,EAAE,MAAM,WAAW,CAAC;AAE3C,wBAAsB,SAAS,CAAC,GAAG,EAAE,SAAS,EAAE,GAAG,EAAE,MAAM,EAAE,IAAI,SAAW,GAAG,OAAO,CAAC,OAAO,CAAC,CAI9F;AAED;;;;;;;GAOG;AACH,wBAAsB,WAAW,CAAC,GAAG,EAAE,SAAS,EAAE,GAAG,EAAE,MAAM,EAAE,MAAM,EAAE,MAAM,EAAE,MAAM,SAAW,GAAG,OAAO,CAAC,OAAO,CAAC,CAGlH;AAED,wBAAsB,WAAW,CAC/B,GAAG,EAAE,SAAS,EACd,GAAG,EAAE,MAAM,EACX,YAAY,EAAE,MAAM,EACpB,SAAS,EAAE,MAAM,EACjB,UAAU,EAAE,MAAM,GACjB,OAAO,CAAC,IAAI,CAAC,CAEf;AAED,wBAAsB,cAAc,CAClC,GAAG,EAAE,SAAS,EACd,GAAG,EAAE,MAAM,EACX,YAAY,EAAE,MAAM,EACpB,IAAI,GAAE;IAAE,KAAK,CAAC,EAAE,OAAO,CAAA;CAAO,GAC7B,OAAO,CAAC,IAAI,CAAC,CAGf;AAED,wBAAsB,cAAc,CAAC,GAAG,EAAE,SAAS,EAAE,GAAG,EAAE,MAAM,GAAG,OAAO,CAAC,IAAI,CAAC,CAE/E;AAED,wBAAsB,YAAY,CAChC,GAAG,EAAE,SAAS,EACd,GAAG,EAAE,MAAM,EACX,MAAM,EAAE,MAAM,EACd,IAAI,GAAE;IAAE,KAAK,CAAC,EAAE,OAAO,CAAA;CAAO,GAC7B,OAAO,CAAC,IAAI,CAAC,CAEf;AAED,MAAM,WAAW,YAAY;IAC3B,IAAI,EAAE,MAAM,CAAC;IACb,MAAM,EAAE,MAAM,GAAG,IAAI,CAAC;IACtB,IAAI,EAAE,MAAM,CAAC;IACb,MAAM,EAAE,OAAO,CAAC;CACjB;AAED,gGAAgG;AAChG,wBAAgB,iBAAiB,CAAC,SAAS,EAAE,MAAM,GAAG,YAAY,EAAE,CAkBnE;AAED,wBAAsB,aAAa,CAAC,GAAG,EAAE,SAAS,EAAE,GAAG,EAAE,MAAM,GAAG,OAAO,CAAC,YAAY,EAAE,CAAC,CAGxF;AAED;;;;;;GAMG;AACH,wBAAsB,gBAAgB,CAAC,GAAG,EAAE,SAAS,EAAE,GAAG,EAAE,MAAM,GAAG,OAAO,CAAC,MAAM,CAAC,CAGnF"}

package/dist/core/git/worktree.js

@@ -58,4 +58,15 @@ export async function listWorktrees(git, cwd) {
     const result = await git.run(['worktree', 'list', '--porcelain'], { cwd });
     return parseWorktreeList(result.stdout);
 }
+/**
+ * The store's canonical clone: git lists the repository's MAIN worktree first
+ * in `worktree list --porcelain`, so the first entry is it, whichever linked
+ * worktree the command was invoked from. Falls back to the passed cwd when the
+ * list is empty rather than throwing — a repository with no linked worktrees
+ * then behaves exactly as a caller that never asked.
+ */
+export async function mainWorktreePath(git, cwd) {
+    const worktrees = await listWorktrees(git, cwd);
+    return worktrees[0]?.path ?? cwd;
+}
 //# sourceMappingURL=worktree.js.map

package/dist/core/git/worktree.js.map

@@ -1 +1 @@
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+{"version":3,"file":"worktree.js","sourceRoot":"","sources":["../../../src/core/git/worktree.ts"],"names":[],"mappings":"AAEA,MAAM,CAAC,KAAK,UAAU,SAAS,CAAC,GAAc,EAAE,GAAW,EAAE,IAAI,GAAG,QAAQ;IAC1E,MAAM,MAAM,GAAG,MAAM,GAAG,CAAC,GAAG,CAAC,CAAC,QAAQ,CAAC,EAAE,EAAE,GAAG,EAAE,YAAY,EAAE,IAAI,EAAE,CAAC,CAAC;IACtE,IAAI,MAAM,CAAC,QAAQ,KAAK,CAAC;QAAE,OAAO,KAAK,CAAC;IACxC,OAAO,MAAM,CAAC,MAAM,CAAC,KAAK,CAAC,IAAI,CAAC,CAAC,QAAQ,CAAC,IAAI,CAAC,CAAC;AAClD,CAAC;AAED;;;;;;;GAOG;AACH,MAAM,CAAC,KAAK,UAAU,WAAW,CAAC,GAAc,EAAE,GAAW,EAAE,MAAc,EAAE,MAAM,GAAG,QAAQ;IAC9F,MAAM,MAAM,GAAG,MAAM,GAAG,CAAC,GAAG,CAAC,CAAC,OAAO,EAAE,MAAM,EAAE,MAAM,CAAC,EAAE,EAAE,GAAG,EAAE,YAAY,EAAE,IAAI,EAAE,CAAC,CAAC;IACrF,OAAO,MAAM,CAAC,QAAQ,KAAK,CAAC,CAAC;AAC/B,CAAC;AAED,MAAM,CAAC,KAAK,UAAU,WAAW,CAC/B,GAAc,EACd,GAAW,EACX,YAAoB,EACpB,SAAiB,EACjB,UAAkB;IAElB,MAAM,GAAG,CAAC,GAAG,CAAC,CAAC,UAAU,EAAE,KAAK,EAAE,IAAI,EAAE,SAAS,EAAE,YAAY,EAAE,UAAU,CAAC,EAAE,EAAE,GAAG,EAAE,CAAC,CAAC;AACzF,CAAC;AAED,MAAM,CAAC,KAAK,UAAU,cAAc,CAClC,GAAc,EACd,GAAW,EACX,YAAoB,EACpB,IAAI,GAAwB,EAAE;IAE9B,MAAM,IAAI,GAAG,CAAC,UAAU,EAAE,QAAQ,EAAE,YAAY,EAAE,GAAG,CAAC,IAAI,CAAC,KAAK,CAAC,CAAC,CAAC,CAAC,SAAS,CAAC,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC,CAAC;IACtF,MAAM,GAAG,CAAC,GAAG,CAAC,IAAI,EAAE,EAAE,GAAG,EAAE,CAAC,CAAC;AAC/B,CAAC;AAED,MAAM,CAAC,KAAK,UAAU,cAAc,CAAC,GAAc,EAAE,GAAW;IAC9D,MAAM,GAAG,CAAC,GAAG,CAAC,CAAC,UAAU,EAAE,OAAO,CAAC,EAAE,EAAE,GAAG,EAAE,CAAC,CAAC;AAChD,CAAC;AAED,MAAM,CAAC,KAAK,UAAU,YAAY,CAChC,GAAc,EACd,GAAW,EACX,MAAc,EACd,IAAI,GAAwB,EAAE;IAE9B,MAAM,GAAG,CAAC,GAAG,CAAC,CAAC,QAAQ,EAAE,IAAI,CAAC,KAAK,CAAC,CAAC,CAAC,IAAI,CAAC,CAAC,CAAC,IAAI,EAAE,MAAM,CAAC,EAAE,EAAE,GAAG,EAAE,CAAC,CAAC;AACvE,CAAC;AASD,gGAAgG;AAChG,MAAM,UAAU,iBAAiB,CAAC,SAAiB;IACjD,MAAM,MAAM,GAAG,SAAS,CAAC,KAAK,CAAC,MAAM,CAAC,CAAC,GAAG,CAAC,CAAC,CAAC,EAAE,EAAE,CAAC,CAAC,CAAC,IAAI,EAAE,CAAC,CAAC,MAAM,CAAC,OAAO,CAAC,CAAC;IAC5E,MAAM,KAAK,GAAmB,EAAE,CAAC;IACjC,KAAK,MAAM,KAAK,IAAI,MAAM,EAAE,CAAC;QAC3B,MAAM,KAAK,GAAG,KAAK,CAAC,KAAK,CAAC,IAAI,CAAC,CAAC;QAChC,IAAI,YAAY,GAAG,EAAE,CAAC;QACtB,IAAI,IAAI,GAAG,EAAE,CAAC;QACd,IAAI,MAAM,GAAkB,IAAI,CAAC;QACjC,IAAI,MAAM,GAAG,KAAK,CAAC;QACnB,KAAK,MAAM,IAAI,IAAI,KAAK,EAAE,CAAC;YACzB,IAAI,IAAI,CAAC,UAAU,CAAC,WAAW,CAAC;gBAAE,YAAY,GAAG,IAAI,CAAC,KAAK,CAAC,WAAW,CAAC,MAAM,CAAC,CAAC;iBAC3E,IAAI,IAAI,CAAC,UAAU,CAAC,OAAO,CAAC;gBAAE,IAAI,GAAG,IAAI,CAAC,KAAK,CAAC,OAAO,CAAC,MAAM,CAAC,CAAC;iBAChE,IAAI,IAAI,CAAC,UAAU,CAAC,SAAS,CAAC;gBAAE,MAAM,GAAG,IAAI,CAAC,KAAK,CAAC,SAAS,CAAC,MAAM,CAAC,CAAC,OAAO,CAAC,gBAAgB,EAAE,EAAE,CAAC,CAAC;iBACpG,IAAI,IAAI,KAAK,QAAQ,IAAI,IAAI,CAAC,UAAU,CAAC,SAAS,CAAC;gBAAE,MAAM,GAAG,IAAI,CAAC;QAC1E,CAAC;QACD,IAAI,YAAY;YAAE,KAAK,CAAC,IAAI,CAAC,EAAE,IAAI,EAAE,YAAY,EAAE,MAAM,EAAE,IAAI,EAAE,MAAM,EAAE,CAAC,CAAC;IAC7E,CAAC;IACD,OAAO,KAAK,CAAC;AACf,CAAC;AAED,MAAM,CAAC,KAAK,UAAU,aAAa,CAAC,GAAc,EAAE,GAAW;IAC7D,MAAM,MAAM,GAAG,MAAM,GAAG,CAAC,GAAG,CAAC,CAAC,UAAU,EAAE,MAAM,EAAE,aAAa,CAAC,EAAE,EAAE,GAAG,EAAE,CAAC,CAAC;IAC3E,OAAO,iBAAiB,CAAC,MAAM,CAAC,MAAM,CAAC,CAAC;AAC1C,CAAC;AAED;;;;;;GAMG;AACH,MAAM,CAAC,KAAK,UAAU,gBAAgB,CAAC,GAAc,EAAE,GAAW;IAChE,MAAM,SAAS,GAAG,MAAM,aAAa,CAAC,GAAG,EAAE,GAAG,CAAC,CAAC;IAChD,OAAO,SAAS,CAAC,CAAC,CAAC,EAAE,IAAI,IAAI,GAAG,CAAC;AACnC,CAAC"}

package/dist/core/hooks.d.ts

@@ -22,6 +22,16 @@ export interface HookInstallResult {
  * generated-region writer in the system.
  */
 export declare function installHooks(root: string, defaultBranch: string): Promise<HookInstallResult>;
+/**
+ * A harness adapter's own generated hook script (e.g. Claude Code's
+ * PreToolUse write-gate) — same idempotent render+chmod discipline as git
+ * hooks, without assuming git-hook-specific substitutions or the
+ * `.githooks` directory. `substitutions` are applied as literal
+ * find-and-replace, the same convention `renderHook` uses.
+ */
+export declare function installTemplatedHookScript(root: string, relativeTargetPath: string, templateFileName: string, substitutions: Readonly<Record<string, string>>): Promise<{
+    changed: boolean;
+}>;
 export declare function configureHooksPath(git: GitRunner, cwd: string): Promise<void>;
 export declare function getConfiguredHooksPath(git: GitRunner, cwd: string): Promise<string | undefined>;
 /**

package/dist/core/hooks.d.ts.map

@@ -1 +1 @@
-{"version":3,"file":"hooks.d.ts","sourceRoot":"","sources":["../../src/core/hooks.ts"],"names":[],"mappings":"AAIA,OAAO,KAAK,EAAE,SAAS,EAAE,MAAM,eAAe,CAAC;AAE/C;;;;;;GAMG;AACH,wBAAgB,iBAAiB,IAAI,MAAM,CAE1C;AAQD,MAAM,WAAW,QAAQ;IACvB,QAAQ,EAAE,YAAY,GAAG,UAAU,CAAC;IACpC,gBAAgB,EAAE,eAAe,GAAG,aAAa,CAAC;CACnD;AAcD,MAAM,WAAW,iBAAiB;IAChC,oFAAoF;IACpF,OAAO,EAAE,MAAM,EAAE,CAAC;IAClB,QAAQ,EAAE,MAAM,CAAC;CAClB;AAED;;;;GAIG;AACH,wBAAsB,YAAY,CAAC,IAAI,EAAE,MAAM,EAAE,aAAa,EAAE,MAAM,GAAG,OAAO,CAAC,iBAAiB,CAAC,CAsBlG;AAED,wBAAsB,kBAAkB,CAAC,GAAG,EAAE,SAAS,EAAE,GAAG,EAAE,MAAM,GAAG,OAAO,CAAC,IAAI,CAAC,CAEnF;AAED,wBAAsB,sBAAsB,CAAC,GAAG,EAAE,SAAS,EAAE,GAAG,EAAE,MAAM,GAAG,OAAO,CAAC,MAAM,GAAG,SAAS,CAAC,CAKrG;AAED;;;;;GAKG;AACH,wBAAsB,gBAAgB,CAAC,IAAI,EAAE,MAAM,EAAE,aAAa,EAAE,MAAM,GAAG,OAAO,CAAC,MAAM,EAAE,CAAC,CAc7F"}
+{"version":3,"file":"hooks.d.ts","sourceRoot":"","sources":["../../src/core/hooks.ts"],"names":[],"mappings":"AAIA,OAAO,KAAK,EAAE,SAAS,EAAE,MAAM,eAAe,CAAC;AAE/C;;;;;;GAMG;AACH,wBAAgB,iBAAiB,IAAI,MAAM,CAE1C;AAQD,MAAM,WAAW,QAAQ;IACvB,QAAQ,EAAE,YAAY,GAAG,UAAU,CAAC;IACpC,gBAAgB,EAAE,eAAe,GAAG,aAAa,CAAC;CACnD;AAmCD,MAAM,WAAW,iBAAiB;IAChC,oFAAoF;IACpF,OAAO,EAAE,MAAM,EAAE,CAAC;IAClB,QAAQ,EAAE,MAAM,CAAC;CAClB;AAED;;;;GAIG;AACH,wBAAsB,YAAY,CAAC,IAAI,EAAE,MAAM,EAAE,aAAa,EAAE,MAAM,GAAG,OAAO,CAAC,iBAAiB,CAAC,CAclG;AAED;;;;;;GAMG;AACH,wBAAsB,0BAA0B,CAC9C,IAAI,EAAE,MAAM,EACZ,kBAAkB,EAAE,MAAM,EAC1B,gBAAgB,EAAE,MAAM,EACxB,aAAa,EAAE,QAAQ,CAAC,MAAM,CAAC,MAAM,EAAE,MAAM,CAAC,CAAC,GAC9C,OAAO,CAAC;IAAE,OAAO,EAAE,OAAO,CAAA;CAAE,CAAC,CAM/B;AAED,wBAAsB,kBAAkB,CAAC,GAAG,EAAE,SAAS,EAAE,GAAG,EAAE,MAAM,GAAG,OAAO,CAAC,IAAI,CAAC,CAEnF;AAED,wBAAsB,sBAAsB,CAAC,GAAG,EAAE,SAAS,EAAE,GAAG,EAAE,MAAM,GAAG,OAAO,CAAC,MAAM,GAAG,SAAS,CAAC,CAKrG;AAED;;;;;GAKG;AACH,wBAAsB,gBAAgB,CAAC,IAAI,EAAE,MAAM,EAAE,aAAa,EAAE,MAAM,GAAG,OAAO,CAAC,MAAM,EAAE,CAAC,CAc7F"}

package/dist/core/hooks.js

@@ -26,6 +26,28 @@ async function renderHook(spec, defaultBranch) {
         .replaceAll('__CONTEXTURE_BIN__', resolveOwnBinPath())
         .replaceAll('__DEFAULT_BRANCH__', defaultBranch);
 }
+/**
+ * The idempotent render+chmod discipline every generated executable script
+ * in this store shares: write only when the rendered content actually
+ * differs, so a second run with the same inputs touches neither mtime nor
+ * disk. `installHooks` and `installTemplatedHookScript` both funnel through
+ * this — one write path, never duplicated.
+ */
+async function writeRenderedScript(targetPath, rendered) {
+    let existing;
+    try {
+        existing = await readFile(targetPath, 'utf8');
+    }
+    catch {
+        existing = undefined;
+    }
+    if (existing === rendered)
+        return false;
+    await mkdir(path.dirname(targetPath), { recursive: true });
+    await writeFileAtomic(targetPath, rendered);
+    await chmod(targetPath, 0o755);
+    return true;
+}
 /**
  * Idempotent: a hook whose rendered content already matches what's on disk
  * is left untouched (no rewrite, no mtime churn), matching every other
@@ -38,21 +60,26 @@ export async function installHooks(root, defaultBranch) {
     for (const spec of HOOK_SPECS) {
         const rendered = await renderHook(spec, defaultBranch);
         const targetPath = path.join(hooksDir, spec.fileName);
-        let existing;
-        try {
-            existing = await readFile(targetPath, 'utf8');
-        }
-        catch {
-            existing = undefined;
-        }
-        if (existing !== rendered) {
-            await writeFileAtomic(targetPath, rendered);
-            await chmod(targetPath, 0o755);
+        if (await writeRenderedScript(targetPath, rendered)) {
             changed.push(`${HOOKS_DIR_NAME}/${spec.fileName}`);
         }
     }
     return { changed, hooksDir };
 }
+/**
+ * A harness adapter's own generated hook script (e.g. Claude Code's
+ * PreToolUse write-gate) — same idempotent render+chmod discipline as git
+ * hooks, without assuming git-hook-specific substitutions or the
+ * `.githooks` directory. `substitutions` are applied as literal
+ * find-and-replace, the same convention `renderHook` uses.
+ */
+export async function installTemplatedHookScript(root, relativeTargetPath, templateFileName, substitutions) {
+    const templateText = await readFile(path.join(templatesDir(), templateFileName), 'utf8');
+    const rendered = Object.entries(substitutions).reduce((text, [k, v]) => text.replaceAll(k, v), templateText);
+    const targetPath = path.join(root, relativeTargetPath);
+    const changed = await writeRenderedScript(targetPath, rendered);
+    return { changed };
+}
 export async function configureHooksPath(git, cwd) {
     await git.run(['config', 'core.hooksPath', HOOKS_DIR_NAME], { cwd });
 }

package/dist/core/hooks.js.map

@@ -1 +1 @@
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package/dist/core/json-config-merge.d.ts

@@ -1,13 +1,37 @@
+/** A Claude Code hook-config entry, e.g. one `hooks.PreToolUse[]` element. */
+export interface HookMatcherEntry {
+    matcher: string;
+    hooks: readonly {
+        type: string;
+        command: string;
+        [key: string]: unknown;
+    }[];
+    [key: string]: unknown;
+}
+export type MergeListValue = readonly string[] | readonly HookMatcherEntry[];
+export type MergePatch = Readonly<Record<string, Readonly<Record<string, MergeListValue>>>>;
+export type RemovePatch = Readonly<Record<string, Readonly<Record<string, readonly string[]>>>>;
 /**
  * A structured-JSON counterpart to the marker-fenced text writer (context-
  * store spec's generated-region convention): JSON has no comment syntax to
  * carry a fence marker in, so a harness permission config (task 8.4) is
- * merged by array union instead — contexture's own rules are appended only
+ * merged by list union instead — contexture's own rules are appended only
  * if not already present, so a hand-added rule survives untouched and a
  * second run with the same rule set is a true no-op (byte-identical file,
  * no write at all).
+ *
+ * Two list shapes are supported: a string list (permission rules), unioned
+ * and, when `options.remove` names entries a previous release emitted, first
+ * pruned of exact matches (never a predicate sweep — that would also catch a
+ * hand-added rule of the same shape); and a hook-matcher-entry list, upserted
+ * by `mergeHookEntries` above. A list key that empties out because removal
+ * took its last entry is dropped entirely, so a migrated store converges to
+ * the same shape as a freshly generated one; a list key that was already an
+ * empty array on disk, untouched by removal, is left as `[]`.
  */
-export declare function mergeJsonArrayLists(filePath: string, patch: Readonly<Record<string, Readonly<Record<string, readonly string[]>>>>): Promise<{
+export declare function mergeJsonArrayLists(filePath: string, patch: MergePatch, options?: {
+    remove?: RemovePatch;
+}): Promise<{
     changed: boolean;
 }>;
 //# sourceMappingURL=json-config-merge.d.ts.map

package/dist/core/json-config-merge.d.ts.map

@@ -1 +1 @@
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+{"version":3,"file":"json-config-merge.d.ts","sourceRoot":"","sources":["../../src/core/json-config-merge.ts"],"names":[],"mappings":"AAKA,8EAA8E;AAC9E,MAAM,WAAW,gBAAgB;IAC/B,OAAO,EAAE,MAAM,CAAC;IAChB,KAAK,EAAE,SAAS;QAAE,IAAI,EAAE,MAAM,CAAC;QAAC,OAAO,EAAE,MAAM,CAAC;QAAC,CAAC,GAAG,EAAE,MAAM,GAAG,OAAO,CAAA;KAAE,EAAE,CAAC;IAC5E,CAAC,GAAG,EAAE,MAAM,GAAG,OAAO,CAAC;CACxB;AAED,MAAM,MAAM,cAAc,GAAG,SAAS,MAAM,EAAE,GAAG,SAAS,gBAAgB,EAAE,CAAC;AAC7E,MAAM,MAAM,UAAU,GAAG,QAAQ,CAAC,MAAM,CAAC,MAAM,EAAE,QAAQ,CAAC,MAAM,CAAC,MAAM,EAAE,cAAc,CAAC,CAAC,CAAC,CAAC,CAAC;AAC5F,MAAM,MAAM,WAAW,GAAG,QAAQ,CAAC,MAAM,CAAC,MAAM,EAAE,QAAQ,CAAC,MAAM,CAAC,MAAM,EAAE,SAAS,MAAM,EAAE,CAAC,CAAC,CAAC,CAAC,CAAC;AAuBhG;;;;;;;;;;;;;;;;;GAiBG;AACH,wBAAsB,mBAAmB,CACvC,QAAQ,EAAE,MAAM,EAChB,KAAK,EAAE,UAAU,EACjB,OAAO,CAAC,EAAE;IAAE,MAAM,CAAC,EAAE,WAAW,CAAA;CAAE,GACjC,OAAO,CAAC;IAAE,OAAO,EAAE,OAAO,CAAA;CAAE,CAAC,CA4D/B"}

package/dist/core/json-config-merge.js

@@ -2,16 +2,44 @@ import { readFile } from 'node:fs/promises';
 import { mkdir } from 'node:fs/promises';
 import path from 'node:path';
 import { writeFileAtomic } from './fs/atomic.js';
+function isHookEntryList(value) {
+    return value.length > 0 && typeof value[0] === 'object' && value[0] !== null;
+}
+/**
+ * Upserts each incoming hook-matcher entry into the existing list, matched
+ * by its own `hooks[0].command` (the path to contexture's generated
+ * script): replaced in place when found, so regeneration is idempotent,
+ * appended otherwise. Any entry with a different command — an operator's
+ * own hook — is left untouched.
+ */
+function mergeHookEntries(existing, incoming) {
+    let result = [...existing];
+    for (const entry of incoming) {
+        const command = entry.hooks[0]?.command;
+        const index = result.findIndex((candidate) => candidate.hooks?.[0]?.command === command);
+        result = index === -1 ? [...result, entry] : result.map((candidate, i) => (i === index ? entry : candidate));
+    }
+    return result;
+}
 /**
  * A structured-JSON counterpart to the marker-fenced text writer (context-
  * store spec's generated-region convention): JSON has no comment syntax to
  * carry a fence marker in, so a harness permission config (task 8.4) is
- * merged by array union instead — contexture's own rules are appended only
+ * merged by list union instead — contexture's own rules are appended only
  * if not already present, so a hand-added rule survives untouched and a
  * second run with the same rule set is a true no-op (byte-identical file,
  * no write at all).
+ *
+ * Two list shapes are supported: a string list (permission rules), unioned
+ * and, when `options.remove` names entries a previous release emitted, first
+ * pruned of exact matches (never a predicate sweep — that would also catch a
+ * hand-added rule of the same shape); and a hook-matcher-entry list, upserted
+ * by `mergeHookEntries` above. A list key that empties out because removal
+ * took its last entry is dropped entirely, so a migrated store converges to
+ * the same shape as a freshly generated one; a list key that was already an
+ * empty array on disk, untouched by removal, is left as `[]`.
  */
-export async function mergeJsonArrayLists(filePath, patch) {
+export async function mergeJsonArrayLists(filePath, patch, options) {
     let existing = {};
     try {
         existing = JSON.parse(await readFile(filePath, 'utf8'));
@@ -22,13 +50,39 @@ export async function mergeJsonArrayLists(filePath, patch) {
     }
     const before = JSON.stringify(existing);
     const merged = { ...existing };
-    for (const [topKey, sections] of Object.entries(patch)) {
+    const removePatch = options?.remove ?? {};
+    const topKeys = new Set([...Object.keys(patch), ...Object.keys(removePatch)]);
+    for (const topKey of topKeys) {
+        const sections = patch[topKey] ?? {};
+        const removeSections = removePatch[topKey] ?? {};
         const existingTop = merged[topKey] ?? {};
         const mergedTop = { ...existingTop };
-        for (const [listKey, newValues] of Object.entries(sections)) {
-            const existingList = Array.isArray(existingTop[listKey]) ? existingTop[listKey] : [];
-            const additions = newValues.filter((v) => !existingList.includes(v));
-            mergedTop[listKey] = [...existingList, ...additions];
+        const listKeys = new Set([...Object.keys(sections), ...Object.keys(removeSections)]);
+        for (const listKey of listKeys) {
+            const newValues = sections[listKey] ?? [];
+            const toRemove = removeSections[listKey] ?? [];
+            const existingRaw = existingTop[listKey];
+            const existingListPresent = Array.isArray(existingRaw);
+            const existingList = existingListPresent ? existingRaw : [];
+            if (isHookEntryList(newValues) || (existingList.length > 0 && typeof existingList[0] === 'object')) {
+                mergedTop[listKey] = mergeHookEntries(existingList, newValues);
+                continue;
+            }
+            const existingStrings = existingList;
+            const removedCount = existingStrings.filter((v) => toRemove.includes(v)).length;
+            const afterRemoval = existingStrings.filter((v) => !toRemove.includes(v));
+            const additions = newValues.filter((v) => !afterRemoval.includes(v));
+            const result = [...afterRemoval, ...additions];
+            if (result.length === 0) {
+                if (removedCount > 0) {
+                    delete mergedTop[listKey];
+                }
+                else if (existingListPresent && existingStrings.length === 0) {
+                    mergedTop[listKey] = [];
+                }
+                continue;
+            }
+            mergedTop[listKey] = result;
         }
         merged[topKey] = mergedTop;
     }

package/dist/core/json-config-merge.js.map

@@ -1 +1 @@
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package/dist/core/migrations/registry.d.ts.map

@@ -1 +1 @@
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+{"version":3,"file":"registry.d.ts","sourceRoot":"","sources":["../../../src/core/migrations/registry.ts"],"names":[],"mappings":"AAGA,OAAO,KAAK,EAAE,SAAS,EAAE,MAAM,YAAY,CAAC;AAE5C,gHAAgH;AAChH,eAAO,MAAM,UAAU,EAAE,SAAS,SAAS,EAI1C,CAAC;AAEF,qHAAqH;AACrH,wBAAgB,iBAAiB,CAAC,WAAW,EAAE,MAAM,GAAG,SAAS,EAAE,CAElE"}

package/dist/core/migrations/registry.js

@@ -1,6 +1,12 @@
+import { renameConventionsPathMigration } from './rename-conventions-path.js';
+import { renameProceduresPathMigration } from './rename-procedures-path.js';
 import { renameVisibilityFieldMigration } from './rename-visibility-field.js';
 /** Every migration contexture ships, in ascending fromVersion order. Later phases append here, nothing else. */
-export const MIGRATIONS = [renameVisibilityFieldMigration];
+export const MIGRATIONS = [
+    renameVisibilityFieldMigration,
+    renameProceduresPathMigration,
+    renameConventionsPathMigration,
+];
 /** Every migration a store currently at `fromVersion` still needs to reach the CLI's supported version, in order. */
 export function pendingMigrations(fromVersion) {
     return MIGRATIONS.filter((m) => m.fromVersion >= fromVersion).slice().sort((a, b) => a.fromVersion - b.fromVersion);

package/dist/core/migrations/registry.js.map

@@ -1 +1 @@
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+{"version":3,"file":"registry.js","sourceRoot":"","sources":["../../../src/core/migrations/registry.ts"],"names":[],"mappings":"AAAA,OAAO,EAAE,8BAA8B,EAAE,MAAM,8BAA8B,CAAC;AAC9E,OAAO,EAAE,6BAA6B,EAAE,MAAM,6BAA6B,CAAC;AAC5E,OAAO,EAAE,8BAA8B,EAAE,MAAM,8BAA8B,CAAC;AAG9E,gHAAgH;AAChH,MAAM,CAAC,MAAM,UAAU,GAAyB;IAC9C,8BAA8B;IAC9B,6BAA6B;IAC7B,8BAA8B;CAC/B,CAAC;AAEF,qHAAqH;AACrH,MAAM,UAAU,iBAAiB,CAAC,WAAmB;IACnD,OAAO,UAAU,CAAC,MAAM,CAAC,CAAC,CAAC,EAAE,EAAE,CAAC,CAAC,CAAC,WAAW,IAAI,WAAW,CAAC,CAAC,KAAK,EAAE,CAAC,IAAI,CAAC,CAAC,CAAC,EAAE,CAAC,EAAE,EAAE,CAAC,CAAC,CAAC,WAAW,GAAG,CAAC,CAAC,WAAW,CAAC,CAAC;AACtH,CAAC"}

package/dist/core/migrations/rename-conventions-path.d.ts

@@ -0,0 +1,26 @@
+import type { Migration } from './types.js';
+/**
+ * rename-conventions-path-to-guidance-path (compose-store-guidance-documents
+ * design.md D1/D7): unlike 0003's pure key rename, the key's *default value*
+ * also changes (`.contexture/conventions/` -> `.contexture/guidance/`), so a
+ * store that never customized the path needs its directory moved on disk,
+ * not merely its config key renamed. An operator-customized path is left
+ * exactly where it is — only the key spelling changes for them.
+ *
+ * Migrations only see `Store` (`root` + `config`, no `GitRunner` — see
+ * core/store.ts), so the directory move is a plain filesystem rename, not
+ * `git mv`. History is still preserved: whatever commits this migration's
+ * output (the normal session-submit flow) stages a coherent delete-old,
+ * add-new diff, which `git log --follow`'s content-similarity rename
+ * detection recognizes identically to an explicit `git mv` — git never
+ * records "this was a rename" as a distinct fact in its object model
+ * either way.
+ *
+ * Pending-ness is `store.config.schema_version < 4`, the same
+ * schema-version-not-key-presence rule 0003 established, for the same
+ * reason: `HarnessSchema`'s fallback transform already populates
+ * `guidance_path` on an unmigrated store, so its presence can't distinguish
+ * migrated from not.
+ */
+export declare const renameConventionsPathMigration: Migration;
+//# sourceMappingURL=rename-conventions-path.d.ts.map

package/dist/core/migrations/rename-conventions-path.d.ts.map

@@ -0,0 +1 @@
+{"version":3,"file":"rename-conventions-path.d.ts","sourceRoot":"","sources":["../../../src/core/migrations/rename-conventions-path.ts"],"names":[],"mappings":"AAOA,OAAO,KAAK,EAAE,SAAS,EAAkB,MAAM,YAAY,CAAC;AAiB5D;;;;;;;;;;;;;;;;;;;;;;GAsBG;AACH,eAAO,MAAM,8BAA8B,EAAE,SA+C5C,CAAC"}

package/dist/core/migrations/rename-conventions-path.js

@@ -0,0 +1,86 @@
+import { existsSync } from 'node:fs';
+import { rename } from 'node:fs/promises';
+import path from 'node:path';
+import { readConfig } from '../../config/load.js';
+import { renderStoreConfig } from '../../config/render.js';
+import { writeFileAtomic } from '../fs/atomic.js';
+const OLD_DEFAULT_GUIDANCE_PATH = '.contexture/conventions/';
+const NEW_DEFAULT_GUIDANCE_PATH = '.contexture/guidance/';
+const CONFIG_DELTA = {
+    path: 'contexture.yaml',
+    description: 'rename harness.conventions_path to harness.guidance_path and set schema_version to 4',
+};
+function directoryDelta() {
+    return {
+        path: NEW_DEFAULT_GUIDANCE_PATH,
+        description: `move the default-valued guidance directory from ${OLD_DEFAULT_GUIDANCE_PATH} to ${NEW_DEFAULT_GUIDANCE_PATH}`,
+    };
+}
+/**
+ * rename-conventions-path-to-guidance-path (compose-store-guidance-documents
+ * design.md D1/D7): unlike 0003's pure key rename, the key's *default value*
+ * also changes (`.contexture/conventions/` -> `.contexture/guidance/`), so a
+ * store that never customized the path needs its directory moved on disk,
+ * not merely its config key renamed. An operator-customized path is left
+ * exactly where it is — only the key spelling changes for them.
+ *
+ * Migrations only see `Store` (`root` + `config`, no `GitRunner` — see
+ * core/store.ts), so the directory move is a plain filesystem rename, not
+ * `git mv`. History is still preserved: whatever commits this migration's
+ * output (the normal session-submit flow) stages a coherent delete-old,
+ * add-new diff, which `git log --follow`'s content-similarity rename
+ * detection recognizes identically to an explicit `git mv` — git never
+ * records "this was a rename" as a distinct fact in its object model
+ * either way.
+ *
+ * Pending-ness is `store.config.schema_version < 4`, the same
+ * schema-version-not-key-presence rule 0003 established, for the same
+ * reason: `HarnessSchema`'s fallback transform already populates
+ * `guidance_path` on an unmigrated store, so its presence can't distinguish
+ * migrated from not.
+ */
+export const renameConventionsPathMigration = {
+    id: '0004-rename-conventions-path-to-guidance-path',
+    fromVersion: 3,
+    toVersion: 4,
+    description: 'Rename the harness.conventions_path config key to harness.guidance_path, move the guidance directory when it sat at the old default, and bump schema_version to 4.',
+    async plan(store) {
+        if (store.config.schema_version >= 4)
+            return [];
+        const deltas = [CONFIG_DELTA];
+        if (store.config.harness.guidance_path === OLD_DEFAULT_GUIDANCE_PATH)
+            deltas.push(directoryDelta());
+        return deltas;
+    },
+    async apply(store) {
+        if (store.config.schema_version >= 4)
+            return [];
+        const configPath = path.join(store.root, 'contexture.yaml');
+        // readConfig() already resolves harness.guidance_path via HarnessSchema's
+        // fallback (from conventions_path if that's all the file has), so
+        // currentConfig.harness carries no conventions_path key at all —
+        // rendering it below writes only guidance_path to disk.
+        const currentConfig = await readConfig(store.root);
+        const appliedDeltas = [CONFIG_DELTA];
+        let guidancePath = currentConfig.harness.guidance_path;
+        if (guidancePath === OLD_DEFAULT_GUIDANCE_PATH) {
+            const oldDir = path.join(store.root, OLD_DEFAULT_GUIDANCE_PATH);
+            const newDir = path.join(store.root, NEW_DEFAULT_GUIDANCE_PATH);
+            // Absent when the store never carried any convention files — nothing
+            // to move on disk, only the config value changes.
+            if (existsSync(oldDir)) {
+                await rename(oldDir, newDir);
+            }
+            guidancePath = NEW_DEFAULT_GUIDANCE_PATH;
+            appliedDeltas.push(directoryDelta());
+        }
+        const nextConfig = {
+            ...currentConfig,
+            schema_version: 4,
+            harness: { ...currentConfig.harness, guidance_path: guidancePath },
+        };
+        await writeFileAtomic(configPath, renderStoreConfig(nextConfig));
+        return appliedDeltas;
+    },
+};
+//# sourceMappingURL=rename-conventions-path.js.map

package/dist/core/migrations/rename-conventions-path.js.map

@@ -0,0 +1 @@
+{"version":3,"file":"rename-conventions-path.js","sourceRoot":"","sources":["../../../src/core/migrations/rename-conventions-path.ts"],"names":[],"mappings":"AAAA,OAAO,EAAE,UAAU,EAAE,MAAM,SAAS,CAAC;AACrC,OAAO,EAAE,MAAM,EAAE,MAAM,kBAAkB,CAAC;AAC1C,OAAO,IAAI,MAAM,WAAW,CAAC;AAC7B,OAAO,EAAE,UAAU,EAAE,MAAM,sBAAsB,CAAC;AAClD,OAAO,EAAE,iBAAiB,EAAE,MAAM,wBAAwB,CAAC;AAC3D,OAAO,EAAE,eAAe,EAAE,MAAM,iBAAiB,CAAC;AAIlD,MAAM,yBAAyB,GAAG,0BAA0B,CAAC;AAC7D,MAAM,yBAAyB,GAAG,uBAAuB,CAAC;AAE1D,MAAM,YAAY,GAAmB;IACnC,IAAI,EAAE,iBAAiB;IACvB,WAAW,EAAE,sFAAsF;CACpG,CAAC;AAEF,SAAS,cAAc;IACrB,OAAO;QACL,IAAI,EAAE,yBAAyB;QAC/B,WAAW,EAAE,mDAAmD,yBAAyB,OAAO,yBAAyB,EAAE;KAC5H,CAAC;AACJ,CAAC;AAED;;;;;;;;;;;;;;;;;;;;;;GAsBG;AACH,MAAM,CAAC,MAAM,8BAA8B,GAAc;IACvD,EAAE,EAAE,+CAA+C;IACnD,WAAW,EAAE,CAAC;IACd,SAAS,EAAE,CAAC;IACZ,WAAW,EACT,oKAAoK;IAEtK,KAAK,CAAC,IAAI,CAAC,KAAK;QACd,IAAI,KAAK,CAAC,MAAM,CAAC,cAAc,IAAI,CAAC;YAAE,OAAO,EAAE,CAAC;QAChD,MAAM,MAAM,GAAqB,CAAC,YAAY,CAAC,CAAC;QAChD,IAAI,KAAK,CAAC,MAAM,CAAC,OAAO,CAAC,aAAa,KAAK,yBAAyB;YAAE,MAAM,CAAC,IAAI,CAAC,cAAc,EAAE,CAAC,CAAC;QACpG,OAAO,MAAM,CAAC;IAChB,CAAC;IAED,KAAK,CAAC,KAAK,CAAC,KAAK;QACf,IAAI,KAAK,CAAC,MAAM,CAAC,cAAc,IAAI,CAAC;YAAE,OAAO,EAAE,CAAC;QAEhD,MAAM,UAAU,GAAG,IAAI,CAAC,IAAI,CAAC,KAAK,CAAC,IAAI,EAAE,iBAAiB,CAAC,CAAC;QAC5D,0EAA0E;QAC1E,kEAAkE;QAClE,iEAAiE;QACjE,wDAAwD;QACxD,MAAM,aAAa,GAAG,MAAM,UAAU,CAAC,KAAK,CAAC,IAAI,CAAC,CAAC;QACnD,MAAM,aAAa,GAAqB,CAAC,YAAY,CAAC,CAAC;QAEvD,IAAI,YAAY,GAAG,aAAa,CAAC,OAAO,CAAC,aAAa,CAAC;QACvD,IAAI,YAAY,KAAK,yBAAyB,EAAE,CAAC;YAC/C,MAAM,MAAM,GAAG,IAAI,CAAC,IAAI,CAAC,KAAK,CAAC,IAAI,EAAE,yBAAyB,CAAC,CAAC;YAChE,MAAM,MAAM,GAAG,IAAI,CAAC,IAAI,CAAC,KAAK,CAAC,IAAI,EAAE,yBAAyB,CAAC,CAAC;YAChE,qEAAqE;YACrE,kDAAkD;YAClD,IAAI,UAAU,CAAC,MAAM,CAAC,EAAE,CAAC;gBACvB,MAAM,MAAM,CAAC,MAAM,EAAE,MAAM,CAAC,CAAC;YAC/B,CAAC;YACD,YAAY,GAAG,yBAAyB,CAAC;YACzC,aAAa,CAAC,IAAI,CAAC,cAAc,EAAE,CAAC,CAAC;QACvC,CAAC;QAED,MAAM,UAAU,GAAG;YACjB,GAAG,aAAa;YAChB,cAAc,EAAE,CAAC;YACjB,OAAO,EAAE,EAAE,GAAG,aAAa,CAAC,OAAO,EAAE,aAAa,EAAE,YAAY,EAAE;SACnE,CAAC;QACF,MAAM,eAAe,CAAC,UAAU,EAAE,iBAAiB,CAAC,UAAU,CAAC,CAAC,CAAC;QAEjE,OAAO,aAAa,CAAC;IACvB,CAAC;CACF,CAAC"}

package/dist/core/migrations/rename-procedures-path.d.ts

@@ -0,0 +1,17 @@
+import type { Migration } from './types.js';
+/**
+ * rename-procedures-to-skills (design.md D2): a single-delta migration —
+ * unlike the visibility-field rename, no note frontmatter is touched, since
+ * only the config key's spelling changes, never any store file's location
+ * (DEFAULT_SKILLS_PATH is already DEFAULT_PROCEDURES_PATH's old value).
+ *
+ * Pending-ness is `store.config.schema_version < 3`, NOT the presence or
+ * absence of `store.config.harness.skills_path` — that field is populated
+ * by HarnessSchema's fallback transform even on an unmigrated v2 store (so
+ * every command keeps working before `ctxr migrate` runs), which means its
+ * presence can never distinguish "already migrated" from "not yet
+ * migrated." `schema_version` is the one signal the fallback doesn't mask,
+ * and this migration is the only thing that ever sets it to 3.
+ */
+export declare const renameProceduresPathMigration: Migration;
+//# sourceMappingURL=rename-procedures-path.d.ts.map

package/dist/core/migrations/rename-procedures-path.d.ts.map

@@ -0,0 +1 @@
+{"version":3,"file":"rename-procedures-path.d.ts","sourceRoot":"","sources":["../../../src/core/migrations/rename-procedures-path.ts"],"names":[],"mappings":"AAKA,OAAO,KAAK,EAAE,SAAS,EAAkB,MAAM,YAAY,CAAC;AAO5D;;;;;;;;;;;;;GAaG;AACH,eAAO,MAAM,6BAA6B,EAAE,SAwB3C,CAAC"}

package/dist/core/migrations/rename-procedures-path.js

@@ -0,0 +1,45 @@
+import path from 'node:path';
+import { readConfig } from '../../config/load.js';
+import { renderStoreConfig } from '../../config/render.js';
+import { writeFileAtomic } from '../fs/atomic.js';
+const CONFIG_DELTA = {
+    path: 'contexture.yaml',
+    description: 'rename harness.procedures_path to harness.skills_path and set schema_version to 3',
+};
+/**
+ * rename-procedures-to-skills (design.md D2): a single-delta migration —
+ * unlike the visibility-field rename, no note frontmatter is touched, since
+ * only the config key's spelling changes, never any store file's location
+ * (DEFAULT_SKILLS_PATH is already DEFAULT_PROCEDURES_PATH's old value).
+ *
+ * Pending-ness is `store.config.schema_version < 3`, NOT the presence or
+ * absence of `store.config.harness.skills_path` — that field is populated
+ * by HarnessSchema's fallback transform even on an unmigrated v2 store (so
+ * every command keeps working before `ctxr migrate` runs), which means its
+ * presence can never distinguish "already migrated" from "not yet
+ * migrated." `schema_version` is the one signal the fallback doesn't mask,
+ * and this migration is the only thing that ever sets it to 3.
+ */
+export const renameProceduresPathMigration = {
+    id: '0003-rename-procedures-path-to-skills-path',
+    fromVersion: 2,
+    toVersion: 3,
+    description: 'Rename the harness.procedures_path config key to harness.skills_path, and bump schema_version to 3.',
+    async plan(store) {
+        return store.config.schema_version < 3 ? [CONFIG_DELTA] : [];
+    },
+    async apply(store) {
+        if (store.config.schema_version >= 3)
+            return [];
+        const configPath = path.join(store.root, 'contexture.yaml');
+        // readConfig() already resolves harness.skills_path via HarnessSchema's
+        // fallback (from procedures_path if that's all the file has), so
+        // currentConfig.harness carries no procedures_path key at all —
+        // rendering it below writes only skills_path to disk.
+        const currentConfig = await readConfig(store.root);
+        const nextConfig = { ...currentConfig, schema_version: 3 };
+        await writeFileAtomic(configPath, renderStoreConfig(nextConfig));
+        return [CONFIG_DELTA];
+    },
+};
+//# sourceMappingURL=rename-procedures-path.js.map

package/dist/core/migrations/rename-procedures-path.js.map

@@ -0,0 +1 @@
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package/dist/core/notes/list.js

@@ -6,8 +6,8 @@ import { parseNote } from './parse.js';
 const ALWAYS_SKIP_DIRS = new Set(['.git', '.githooks', '.queue']);
 /**
  * Filenames intrinsic to contexture itself, never user content — same
- * status as ALWAYS_SKIP_DIRS. AGENTS.md is a CLI-generated procedure
- * document (task 4.5), not a note, but only the one `agentsMdPath` ever
+ * status as ALWAYS_SKIP_DIRS. AGENTS.md is a CLI-generated document
+ * (task 4.5), not a note, but only the one `agentsMdPath` ever
  * generates: the store root's own `AGENTS.md` (`agents-doc.ts` hardcodes
  * `path.join(root, 'AGENTS.md')`, never a nested path). A same-named file
  * anywhere else is ordinary content an operator happened to name AGENTS.md
@@ -41,9 +41,9 @@ export function excludedPrefixesFor(config) {
         ...config.derived.paths,
         config.session.worktrees_path,
         config.catalog.path,
-        // Tool-owned instruction docs (skills, conventions) are never notes, wherever they live.
-        config.harness.procedures_path,
-        config.harness.conventions_path,
+        // Tool-owned instruction docs (skills, guidance) are never notes, wherever they live.
+        config.harness.skills_path,
+        config.harness.guidance_path,
     ];
 }
 async function walk(dir, root, excludePrefixes, skipRootFiles, results) {

package/dist/core/notes/list.js.map

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