daftari 1.6.0 → 1.7.1

package/CHANGELOG.md

@@ -7,6 +7,58 @@ and this project adheres to [Semantic Versioning](https://semver.org/spec/v2.0.0
 
 ## [Unreleased]
 
+## [1.7.1] - 2026-05-19
+
+### Fixed
+
+- **MCP server hang at startup** (#35, PR #36). The server no longer re-embeds
+  the entire vault on every launch and no longer waits for indexing to finish
+  before opening the stdio transport. Three compounding bugs are fixed:
+  (1) `main()` always called `reindexVault` even when `.daftari/index.db`
+  already reflected the files on disk — every restart re-embedded the whole
+  vault (~25 minutes on a 3,500-file vault); now a path→mtime manifest is
+  persisted in the SQLite meta table and compared on startup, so an
+  unchanged vault skips the embedding pass entirely. (2) The
+  `StdioServerTransport` opened only after indexing completed, so MCP
+  clients could not answer `initialize` for the whole duration; the
+  transport now opens first and indexing — when required — runs as a
+  background task. (3) Progress was emitted only on TTY stderr, leaving
+  every real (non-TTY) MCP client with zero output during a cold start;
+  progress now streams on stderr in both TTY (\\r-updated) and pipe (full
+  line every ~5%) modes. A new in-process `IndexState`
+  (`ready`/`indexing`/`error` + progress) gates `vault_search`,
+  `vault_search_related`, `vault_reindex`, `vault_write`, `vault_append`,
+  `vault_promote`, and `vault_deprecate` while indexing — those tools
+  return a progress-bearing busy error so clients can retry. Read tools
+  (`vault_read`, `vault_index`, `vault_status`) are unaffected because
+  they go to the filesystem, not the index. `--reindex` remains the one
+  synchronous mode (rebuild, exit).
+
+## [1.7.0] - 2026-05-19
+
+### Added
+
+- **Pre-write transform hooks** (#32). New `pre_write_transform` hook phase
+  runs before `validateFrontmatter` and can derive or override frontmatter
+  fields. Returns `Partial<Frontmatter>`. Refuses via throw. Existing
+  `pre_write` validators continue to run unchanged after validation. Closes
+  the gap where v1.6.0 hooks could observe and reject but could not derive
+  built-in fields. Declared under `hooks.pre_write_transform` in
+  `.daftari/config.yaml`; the runner merges each hook's patch Object.assign
+  style — shallow, last-writer-wins. Phase order is rigid:
+  `pre_write_transform` (declaration order), then `validateFrontmatter`, then
+  `pre_write` (declaration order), regardless of config layout. Fires for
+  `vault_write` and `vault_append`; `vault_promote` and `vault_deprecate`
+  bypass it, matching the `pre_write` bypass.
+
+### Changed
+
+- The existing `pre_write` hook surface continues to half-mutate: a mutation
+  to `rawFrontmatter` inside a `pre_write` hook propagates for extension
+  fields but not for built-in fields. This behavior is preserved for
+  backward compatibility but is now implementation detail — new mutations
+  should use `pre_write_transform`.
+
 ## [1.6.0] - 2026-05-19
 
 ### Added

package/README.md

@@ -320,6 +320,59 @@ validate-only. Returning a non-array, or an array containing malformed issue
 objects, is itself reported as a blocking issue tagged with the hook path —
 hook bugs surface as loud failures, not silent passes.
 
+### Transform hooks
+
+A `pre_write` hook can observe and reject, but it cannot *change* the
+frontmatter a write lands. **Transform hooks** can. A transform hook runs in an
+earlier phase — before built-in schema validation — so it can derive or
+override frontmatter fields the validator would otherwise reject as missing.
+
+Transform hooks are declared under their own key, `pre_write_transform`:
+
+```yaml
+hooks:
+  pre_write_transform:
+    - path: .daftari/hooks/derive-status.mjs
+  pre_write:
+    - path: .daftari/hooks/forbid-status-skip.mjs
+```
+
+The phase order is fixed regardless of how the config lists the blocks: every
+`pre_write_transform` hook runs (in declared order), then built-in schema
+validation, then every `pre_write` validator (in declared order). A transform
+always runs before any validator sees the frontmatter.
+
+A transform hook returns a `Partial<Frontmatter>` patch — *not* a list of
+issues:
+
+```ts
+// .daftari/hooks/derive-status.mjs
+//
+// context = { path: string; operation: 'create' | 'update' | 'append' }
+export default function deriveStatus(frontmatter, context) {
+  if (frontmatter.decision_status === "ACTIVE") {
+    return { status: "canonical" };
+  }
+  return {}; // no change
+}
+```
+
+The runner merges each patch into the candidate frontmatter **`Object.assign`
+style**: shallow, last-writer-wins. A key present in the patch replaces the
+existing value outright — arrays are replaced whole, never appended to or
+merged element-wise. When two transforms target the same field, the
+later-declared one wins. Each transform sees the merged output of every
+transform declared before it.
+
+A transform **refuses by throwing** — it does not return issues. A throw
+becomes a synthetic blocking issue tagged with the hook path, identical to the
+`pre_write` throw mechanism. Returning anything that is not an object (an
+array, a primitive, `null`) is likewise a blocking issue.
+
+Because transforms run before validation, a transform that sets an invalid
+value — a `status` outside the allowed set, say — is caught by the built-in
+validator exactly as a bad user-supplied value would be.
+
 ### Trust model
 
 Hooks are **trusted code**. They run in the same Node process as the daftari
@@ -333,15 +386,18 @@ register hooks in v1.
 
 ### Scope and limits in v1
 
-- **Surfaces:** only `pre_write`. Future surfaces (`pre_read`, `post_write`,
+- **Surfaces:** `pre_write` (validators) and `pre_write_transform`
+  (field-deriving transforms). Future surfaces (`pre_read`, `post_write`,
   etc.) are reserved — unrecognised keys under `hooks:` are a loud config
   error, not a silent skip.
-- **Operations:** hooks fire for `vault_write` (create + update) and
-  `vault_append`. `vault_promote` and `vault_deprecate` deliberately bypass
-  hooks — they're narrow metadata mutations the server controls end-to-end.
-- **Validate-only:** the hook return value is a list of issues. Mutation
-  (a hook that patches frontmatter on the way through) is a deliberate
-  follow-up — see issue #29 for the dialogue.
+- **Operations:** both hook surfaces fire for `vault_write` (create + update)
+  and `vault_append`. `vault_promote` and `vault_deprecate` deliberately
+  bypass hooks — they're narrow metadata mutations the server controls
+  end-to-end.
+- **Two phases:** a `pre_write` hook returns a list of issues and can only
+  reject. A `pre_write_transform` hook returns a `Partial<Frontmatter>` patch
+  and can derive or override fields before validation — see "Transform
+  hooks" above.
 - **Sync:** hook bodies are synchronous functions. The loader is async
   (it has to dynamic-import the module), but each individual hook call is
   not awaited.

package/dist/hooks/loader.d.ts

@@ -1,5 +1,7 @@
 import { type Result } from "../frontmatter/types.js";
-import type { HookDeclaration, LoadedHook } from "./types.js";
+import type { HookDeclaration, LoadedHook, LoadedTransformHook } from "./types.js";
 export declare function loadHook(vaultRoot: string, decl: HookDeclaration): Promise<Result<LoadedHook, Error>>;
+export declare function loadPreWriteTransformHook(vaultRoot: string, decl: HookDeclaration): Promise<Result<LoadedTransformHook, Error>>;
 export declare function loadHooks(vaultRoot: string, declarations: HookDeclaration[]): Promise<Result<LoadedHook[], Error>>;
+export declare function loadPreWriteTransformHooks(vaultRoot: string, declarations: HookDeclaration[]): Promise<Result<LoadedTransformHook[], Error>>;
 //# sourceMappingURL=loader.d.ts.map

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

@@ -1 +1 @@
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package/dist/hooks/loader.js

@@ -26,11 +26,13 @@ function resolveHookPath(vaultRoot, hookPath) {
     }
     return ok(abs);
 }
-// Loads one hook module. The module's default export must be a function;
-// anything else returns Result.err. The function is not validated beyond
-// being callable — TypeScript types are erased at runtime and v1 does not
-// ship a typed helper (see the optional defineHook polish in #29).
-export async function loadHook(vaultRoot, decl) {
+// Imports a hook module and returns its default export, which must be a
+// function — anything else returns Result.err. Shared by both the pre_write
+// and pre_write_transform loaders: the import, path-escape, and
+// default-is-function checks are identical; only the typed cast the caller
+// applies differs. The function is not validated beyond being callable —
+// TypeScript types are erased at runtime.
+async function importHookDefault(vaultRoot, decl) {
     const resolved = resolveHookPath(vaultRoot, decl.path);
     if (!resolved.ok)
         return resolved;
@@ -50,7 +52,24 @@ export async function loadHook(vaultRoot, decl) {
     if (typeof mod.default !== "function") {
         return err(new Error(`hook '${decl.path}' must export a default function, got ${typeof mod.default}`));
     }
-    return ok({ declaration: decl, hook: mod.default });
+    return ok(mod.default);
+}
+// Loads one pre_write hook module. The module's default export must be a
+// function; anything else returns Result.err.
+export async function loadHook(vaultRoot, decl) {
+    const fn = await importHookDefault(vaultRoot, decl);
+    if (!fn.ok)
+        return fn;
+    return ok({ declaration: decl, hook: fn.value });
+}
+// Loads one pre_write_transform hook module. Mirrors loadHook — same import,
+// path-escape, and default-is-function checks — but the loaded function is
+// typed as a transform hook (returns Partial<Frontmatter>, not issues).
+export async function loadPreWriteTransformHook(vaultRoot, decl) {
+    const fn = await importHookDefault(vaultRoot, decl);
+    if (!fn.ok)
+        return fn;
+    return ok({ declaration: decl, hook: fn.value });
 }
 // Loads every declared hook in order. Returns Result.err on the first load
 // failure — a vault with a broken hook declaration refuses to write, same
@@ -65,4 +84,16 @@ export async function loadHooks(vaultRoot, declarations) {
     }
     return ok(loaded);
 }
+// Loads every declared pre_write_transform hook in order. Fails fast on the
+// first bad declaration, identical to loadHooks.
+export async function loadPreWriteTransformHooks(vaultRoot, declarations) {
+    const loaded = [];
+    for (const decl of declarations) {
+        const result = await loadPreWriteTransformHook(vaultRoot, decl);
+        if (!result.ok)
+            return result;
+        loaded.push(result.value);
+    }
+    return ok(loaded);
+}
 //# sourceMappingURL=loader.js.map

package/dist/hooks/loader.js.map

@@ -1 +1 @@
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+{"version":3,"file":"loader.js","sourceRoot":"","sources":["../../src/hooks/loader.ts"],"names":[],"mappings":"AAAA,sEAAsE;AACtE,0EAA0E;AAC1E,2EAA2E;AAC3E,wEAAwE;AACxE,mCAAmC;AAEnC,OAAO,EAAE,UAAU,EAAE,MAAM,SAAS,CAAC;AACrC,OAAO,EAAE,IAAI,EAAE,MAAM,kBAAkB,CAAC;AACxC,OAAO,EAAE,UAAU,EAAE,QAAQ,EAAE,OAAO,EAAE,GAAG,EAAE,MAAM,WAAW,CAAC;AAC/D,OAAO,EAAE,aAAa,EAAE,MAAM,UAAU,CAAC;AACzC,OAAO,EAAE,GAAG,EAAE,EAAE,EAAe,MAAM,yBAAyB,CAAC;AAS/D,sEAAsE;AACtE,yEAAyE;AACzE,uEAAuE;AACvE,gCAAgC;AAChC,SAAS,eAAe,CAAC,SAAiB,EAAE,QAAgB;IAC1D,IAAI,UAAU,CAAC,QAAQ,CAAC,EAAE,CAAC;QACzB,OAAO,GAAG,CAAC,IAAI,KAAK,CAAC,6DAA6D,QAAQ,EAAE,CAAC,CAAC,CAAC;IACjG,CAAC;IACD,MAAM,GAAG,GAAG,OAAO,CAAC,SAAS,EAAE,QAAQ,CAAC,CAAC;IACzC,MAAM,GAAG,GAAG,QAAQ,CAAC,SAAS,EAAE,GAAG,CAAC,CAAC;IACrC,IAAI,GAAG,CAAC,UAAU,CAAC,KAAK,GAAG,EAAE,CAAC,IAAI,GAAG,KAAK,IAAI,IAAI,UAAU,CAAC,GAAG,CAAC,EAAE,CAAC;QAClE,OAAO,GAAG,CAAC,IAAI,KAAK,CAAC,iCAAiC,QAAQ,EAAE,CAAC,CAAC,CAAC;IACrE,CAAC;IACD,IAAI,CAAC,UAAU,CAAC,GAAG,CAAC,EAAE,CAAC;QACrB,OAAO,GAAG,CAAC,IAAI,KAAK,CAAC,wBAAwB,QAAQ,EAAE,CAAC,CAAC,CAAC;IAC5D,CAAC;IACD,OAAO,EAAE,CAAC,GAAG,CAAC,CAAC;AACjB,CAAC;AAED,wEAAwE;AACxE,4EAA4E;AAC5E,gEAAgE;AAChE,2EAA2E;AAC3E,yEAAyE;AACzE,0CAA0C;AAC1C,KAAK,UAAU,iBAAiB,CAC9B,SAAiB,EACjB,IAAqB;IAErB,MAAM,QAAQ,GAAG,eAAe,CAAC,SAAS,EAAE,IAAI,CAAC,IAAI,CAAC,CAAC;IACvD,IAAI,CAAC,QAAQ,CAAC,EAAE;QAAE,OAAO,QAAQ,CAAC;IAElC,IAAI,GAA0B,CAAC;IAC/B,IAAI,CAAC;QACH,MAAM,EAAE,OAAO,EAAE,GAAG,MAAM,IAAI,CAAC,QAAQ,CAAC,KAAK,CAAC,CAAC;QAC/C,yEAAyE;QACzE,2EAA2E;QAC3E,+EAA+E;QAC/E,MAAM,SAAS,GAAG,GAAG,aAAa,CAAC,QAAQ,CAAC,KAAK,CAAC,CAAC,IAAI,MAAM,IAAI,CAAC,KAAK,CAAC,OAAO,CAAC,EAAE,CAAC;QACnF,GAAG,GAAG,CAAC,MAAM,MAAM,CAAC,SAAS,CAAC,CAA0B,CAAC;IAC3D,CAAC;IAAC,OAAO,CAAC,EAAE,CAAC;QACX,MAAM,MAAM,GAAG,CAAC,YAAY,KAAK,CAAC,CAAC,CAAC,CAAC,CAAC,OAAO,CAAC,CAAC,CAAC,MAAM,CAAC,CAAC,CAAC,CAAC;QAC1D,OAAO,GAAG,CAAC,IAAI,KAAK,CAAC,wBAAwB,IAAI,CAAC,IAAI,MAAM,MAAM,EAAE,CAAC,CAAC,CAAC;IACzE,CAAC;IAED,IAAI,OAAO,GAAG,CAAC,OAAO,KAAK,UAAU,EAAE,CAAC;QACtC,OAAO,GAAG,CACR,IAAI,KAAK,CAAC,SAAS,IAAI,CAAC,IAAI,yCAAyC,OAAO,GAAG,CAAC,OAAO,EAAE,CAAC,CAC3F,CAAC;IACJ,CAAC;IAED,OAAO,EAAE,CAAC,GAAG,CAAC,OAA0C,CAAC,CAAC;AAC5D,CAAC;AAED,yEAAyE;AACzE,8CAA8C;AAC9C,MAAM,CAAC,KAAK,UAAU,QAAQ,CAC5B,SAAiB,EACjB,IAAqB;IAErB,MAAM,EAAE,GAAG,MAAM,iBAAiB,CAAC,SAAS,EAAE,IAAI,CAAC,CAAC;IACpD,IAAI,CAAC,EAAE,CAAC,EAAE;QAAE,OAAO,EAAE,CAAC;IACtB,OAAO,EAAE,CAAC,EAAE,WAAW,EAAE,IAAI,EAAE,IAAI,EAAE,EAAE,CAAC,KAAqB,EAAE,CAAC,CAAC;AACnE,CAAC;AAED,6EAA6E;AAC7E,2EAA2E;AAC3E,wEAAwE;AACxE,MAAM,CAAC,KAAK,UAAU,yBAAyB,CAC7C,SAAiB,EACjB,IAAqB;IAErB,MAAM,EAAE,GAAG,MAAM,iBAAiB,CAAC,SAAS,EAAE,IAAI,CAAC,CAAC;IACpD,IAAI,CAAC,EAAE,CAAC,EAAE;QAAE,OAAO,EAAE,CAAC;IACtB,OAAO,EAAE,CAAC,EAAE,WAAW,EAAE,IAAI,EAAE,IAAI,EAAE,EAAE,CAAC,KAA8B,EAAE,CAAC,CAAC;AAC5E,CAAC;AAED,2EAA2E;AAC3E,0EAA0E;AAC1E,yBAAyB;AACzB,MAAM,CAAC,KAAK,UAAU,SAAS,CAC7B,SAAiB,EACjB,YAA+B;IAE/B,MAAM,MAAM,GAAiB,EAAE,CAAC;IAChC,KAAK,MAAM,IAAI,IAAI,YAAY,EAAE,CAAC;QAChC,MAAM,MAAM,GAAG,MAAM,QAAQ,CAAC,SAAS,EAAE,IAAI,CAAC,CAAC;QAC/C,IAAI,CAAC,MAAM,CAAC,EAAE;YAAE,OAAO,MAAM,CAAC;QAC9B,MAAM,CAAC,IAAI,CAAC,MAAM,CAAC,KAAK,CAAC,CAAC;IAC5B,CAAC;IACD,OAAO,EAAE,CAAC,MAAM,CAAC,CAAC;AACpB,CAAC;AAED,4EAA4E;AAC5E,iDAAiD;AACjD,MAAM,CAAC,KAAK,UAAU,0BAA0B,CAC9C,SAAiB,EACjB,YAA+B;IAE/B,MAAM,MAAM,GAA0B,EAAE,CAAC;IACzC,KAAK,MAAM,IAAI,IAAI,YAAY,EAAE,CAAC;QAChC,MAAM,MAAM,GAAG,MAAM,yBAAyB,CAAC,SAAS,EAAE,IAAI,CAAC,CAAC;QAChE,IAAI,CAAC,MAAM,CAAC,EAAE;YAAE,OAAO,MAAM,CAAC;QAC9B,MAAM,CAAC,IAAI,CAAC,MAAM,CAAC,KAAK,CAAC,CAAC;IAC5B,CAAC;IACD,OAAO,EAAE,CAAC,MAAM,CAAC,CAAC;AACpB,CAAC"}

package/dist/hooks/runner.d.ts

@@ -1,4 +1,9 @@
 import type { ValidationIssue } from "../frontmatter/types.js";
-import type { HookContext, LoadedHook } from "./types.js";
+import type { HookContext, LoadedHook, LoadedTransformHook } from "./types.js";
 export declare function runPreWriteHooks(hooks: LoadedHook[], frontmatter: Record<string, unknown>, context: HookContext): ValidationIssue[];
+export interface TransformRunResult {
+    merged: Record<string, unknown>;
+    issues: ValidationIssue[];
+}
+export declare function runPreWriteTransformHooks(hooks: LoadedTransformHook[], frontmatter: Record<string, unknown>, context: HookContext): TransformRunResult;
 //# sourceMappingURL=runner.d.ts.map

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

@@ -1 +1 @@
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+{"version":3,"file":"runner.d.ts","sourceRoot":"","sources":["../../src/hooks/runner.ts"],"names":[],"mappings":"AAMA,OAAO,KAAK,EAAE,eAAe,EAAE,MAAM,yBAAyB,CAAC;AAC/D,OAAO,KAAK,EAAE,WAAW,EAAE,UAAU,EAAE,mBAAmB,EAAE,MAAM,YAAY,CAAC;AAE/E,wBAAgB,gBAAgB,CAC9B,KAAK,EAAE,UAAU,EAAE,EACnB,WAAW,EAAE,MAAM,CAAC,MAAM,EAAE,OAAO,CAAC,EACpC,OAAO,EAAE,WAAW,GACnB,eAAe,EAAE,CAoCnB;AAaD,MAAM,WAAW,kBAAkB;IACjC,MAAM,EAAE,MAAM,CAAC,MAAM,EAAE,OAAO,CAAC,CAAC;IAChC,MAAM,EAAE,eAAe,EAAE,CAAC;CAC3B;AAcD,wBAAgB,yBAAyB,CACvC,KAAK,EAAE,mBAAmB,EAAE,EAC5B,WAAW,EAAE,MAAM,CAAC,MAAM,EAAE,OAAO,CAAC,EACpC,OAAO,EAAE,WAAW,GACnB,kBAAkB,CA2BpB"}

package/dist/hooks/runner.js

@@ -39,4 +39,52 @@ export function runPreWriteHooks(hooks, frontmatter, context) {
     }
     return issues;
 }
+// Describes a transform hook's return value for an error message: "null",
+// "array", or its typeof.
+function describeReturn(v) {
+    if (v === null)
+        return "null";
+    if (Array.isArray(v))
+        return "array";
+    return typeof v;
+}
+// Executes pre_write_transform hooks against a candidate frontmatter. Hooks
+// run in declaration order; each receives a fresh shallow copy of the
+// *current* merged state, so a later transform sees an earlier one's output
+// but cannot mutate the running state in place. A hook's Partial<Frontmatter>
+// return is merged Object.assign-style — shallow, last-writer-wins, arrays
+// replaced whole.
+//
+// A hook that throws becomes a synthetic blocking issue whose field is the
+// hook path and whose message names the underlying error; nothing from a
+// thrown hook is merged. A non-object return (array, primitive, null) is
+// likewise a synthetic blocking issue with no merge. Every hook still runs
+// even after an earlier hook failed — matching the run-all pre_write contract.
+export function runPreWriteTransformHooks(hooks, frontmatter, context) {
+    const issues = [];
+    let merged = { ...frontmatter };
+    for (const { declaration, hook } of hooks) {
+        let partial;
+        try {
+            partial = hook({ ...merged }, context);
+        }
+        catch (e) {
+            const reason = e instanceof Error ? e.message : String(e);
+            issues.push({
+                field: declaration.path,
+                message: `transform hook threw: ${reason}`,
+            });
+            continue;
+        }
+        if (partial === null || typeof partial !== "object" || Array.isArray(partial)) {
+            issues.push({
+                field: declaration.path,
+                message: `transform hook returned non-object (got ${describeReturn(partial)})`,
+            });
+            continue;
+        }
+        merged = { ...merged, ...partial };
+    }
+    return { merged, issues };
+}
 //# sourceMappingURL=runner.js.map

package/dist/hooks/runner.js.map

@@ -1 +1 @@
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package/dist/hooks/types.d.ts

@@ -1,18 +1,24 @@
-import type { ValidationIssue } from "../frontmatter/types.js";
+import type { Frontmatter, ValidationIssue } from "../frontmatter/types.js";
 export type HookOperation = "create" | "update" | "append";
 export interface HookContext {
     path: string;
     operation: HookOperation;
 }
 export type PreWriteHook = (frontmatter: Record<string, unknown>, context: HookContext) => ValidationIssue[];
+export type PreWriteTransformHook = (frontmatter: Record<string, unknown>, context: HookContext) => Partial<Frontmatter>;
 export interface HookDeclaration {
     path: string;
 }
 export interface HookConfig {
     preWrite: HookDeclaration[];
+    preWriteTransform: HookDeclaration[];
 }
 export interface LoadedHook {
     declaration: HookDeclaration;
     hook: PreWriteHook;
 }
+export interface LoadedTransformHook {
+    declaration: HookDeclaration;
+    hook: PreWriteTransformHook;
+}
 //# sourceMappingURL=types.d.ts.map

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

@@ -1 +1 @@
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+{"version":3,"file":"types.d.ts","sourceRoot":"","sources":["../../src/hooks/types.ts"],"names":[],"mappings":"AAKA,OAAO,KAAK,EAAE,WAAW,EAAE,eAAe,EAAE,MAAM,yBAAyB,CAAC;AAO5E,MAAM,MAAM,aAAa,GAAG,QAAQ,GAAG,QAAQ,GAAG,QAAQ,CAAC;AAM3D,MAAM,WAAW,WAAW;IAC1B,IAAI,EAAE,MAAM,CAAC;IACb,SAAS,EAAE,aAAa,CAAC;CAC1B;AAOD,MAAM,MAAM,YAAY,GAAG,CACzB,WAAW,EAAE,MAAM,CAAC,MAAM,EAAE,OAAO,CAAC,EACpC,OAAO,EAAE,WAAW,KACjB,eAAe,EAAE,CAAC;AASvB,MAAM,MAAM,qBAAqB,GAAG,CAClC,WAAW,EAAE,MAAM,CAAC,MAAM,EAAE,OAAO,CAAC,EACpC,OAAO,EAAE,WAAW,KACjB,OAAO,CAAC,WAAW,CAAC,CAAC;AAM1B,MAAM,WAAW,eAAe;IAC9B,IAAI,EAAE,MAAM,CAAC;CACd;AAMD,MAAM,WAAW,UAAU;IACzB,QAAQ,EAAE,eAAe,EAAE,CAAC;IAC5B,iBAAiB,EAAE,eAAe,EAAE,CAAC;CACtC;AAKD,MAAM,WAAW,UAAU;IACzB,WAAW,EAAE,eAAe,CAAC;IAC7B,IAAI,EAAE,YAAY,CAAC;CACpB;AAID,MAAM,WAAW,mBAAmB;IAClC,WAAW,EAAE,eAAe,CAAC;IAC7B,IAAI,EAAE,qBAAqB,CAAC;CAC7B"}

package/dist/index.d.ts.map

@@ -1 +1 @@
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+{"version":3,"file":"index.d.ts","sourceRoot":"","sources":["../src/index.ts"],"names":[],"mappings":"AAgCA,wBAAgB,SAAS,CAAC,IAAI,EAAE,MAAM,EAAE,EAAE,IAAI,EAAE,MAAM,GAAG,MAAM,GAAG,IAAI,CASrE;AAED,wBAAgB,aAAa,CAAC,IAAI,EAAE,MAAM,EAAE,GAAG,MAAM,GAAG,IAAI,CAE3D;AAED,wBAAsB,IAAI,CAAC,IAAI,GAAE,MAAM,EAA0B,GAAG,OAAO,CAAC,IAAI,CAAC,CAuFhF"}

package/dist/index.js

@@ -1,16 +1,24 @@
 // Daftari MCP server entry point.
 //
 // Parses `--vault <path>`, verifies the vault directory exists, loads the RBAC
-// config, builds the search index, then serves the tools over stdio under the
-// access identity given by `--user` / `--role`. Diagnostics go to stderr so
-// they never corrupt the stdio JSON-RPC stream on stdout.
+// config, opens the MCP stdio transport, then — if the index isn't already
+// current — runs a reindex in the background. Diagnostics go to stderr so they
+// never corrupt the stdio JSON-RPC stream on stdout.
 //
-// `--reindex` rebuilds the search index and exits without starting the server.
+// The transport opens before indexing on purpose: a cold reindex on a large
+// vault is minutes long, and a client must be able to answer `initialize` and
+// list tools immediately. Tools that depend on the index consult
+// `getIndexStatus()` and reply "still indexing — N/M chunks" until the
+// background pass finishes.
+//
+// `--reindex` is the one synchronous mode: rebuild the index, exit, do not
+// start the server.
 import { resolve } from "node:path";
 import { pathToFileURL } from "node:url";
 import { StdioServerTransport } from "@modelcontextprotocol/sdk/server/stdio.js";
 import { GUEST_ROLE, resolveAccess } from "./access/rbac.js";
-import { reindexVault } from "./search/reindex.js";
+import { markIndexError, markIndexing, markIndexReady, setIndexProgress, } from "./search/index-state.js";
+import { isIndexFresh, reindexVault } from "./search/reindex.js";
 import { createServer } from "./server.js";
 import { directoryExists } from "./storage/local.js";
 import { loadConfig } from "./utils/config.js";
@@ -58,41 +66,98 @@ export async function main(argv = process.argv.slice(2)) {
     if (access.role === null && roleName !== GUEST_ROLE) {
         process.stderr.write(`daftari: warning: role '${roleName}' not found in config — running as deny-all guest\n`);
     }
-    // Build (or rebuild) the search index. With --reindex this is the whole job.
-    // On an interactive terminal, report embedding progress on a single line so
-    // a large-vault reindex is not silent; in non-TTY contexts (CI, pipes) the
-    // final summary line below is the only output.
-    let progressShown = false;
-    const reindexed = await reindexVault(vaultRoot, {
-        onProgress: process.stderr.isTTY
-            ? (done, total) => {
-                progressShown = true;
-                process.stderr.write(`\rdaftari: embedding ${done}/${total} chunks`);
-            }
-            : undefined,
-    });
-    if (progressShown)
-        process.stderr.write("\n");
-    if (reindexed.ok) {
-        const r = reindexed.value;
-        process.stderr.write(`daftari: indexed ${r.documentCount} docs, ${r.chunkCount} chunks ` +
-            `(vectors ${r.vectorEnabled ? "on" : "off"})\n`);
-    }
-    else {
-        // A failed index is not fatal: lexical search still works and the search
-        // tools retry indexing lazily on first use.
-        process.stderr.write(`daftari: warning: index build failed: ${reindexed.error.message}\n`);
-    }
-    if (argv.includes("--reindex")) {
-        if (!reindexed.ok)
+    // The persisted index is a derived cache: if every file on disk matches the
+    // manifest written by the last reindex, the on-disk index already reflects
+    // the vault and we can skip the embedding pass entirely (~25 min on a
+    // multi-thousand-file vault). --reindex forces a rebuild even when fresh.
+    const forceReindex = argv.includes("--reindex");
+    // --reindex is the one synchronous mode: rebuild and exit. No transport,
+    // no background work. The IndexState is updated for completeness but no
+    // tool runs against it in this mode.
+    if (forceReindex) {
+        markIndexing();
+        const reindexed = await reindexVault(vaultRoot, makeProgressReporter());
+        if (reindexed.ok) {
+            const r = reindexed.value;
+            markIndexReady();
+            process.stderr.write(`daftari: indexed ${r.documentCount} docs, ${r.chunkCount} chunks ` +
+                `(vectors ${r.vectorEnabled ? "on" : "off"})\n`);
+        }
+        else {
+            markIndexError(reindexed.error.message);
+            process.stderr.write(`daftari: warning: index build failed: ${reindexed.error.message}\n`);
             process.exitCode = 1;
+        }
         return;
     }
+    // Open MCP transport first so the client can answer `initialize` and
+    // `tools/list` immediately. Indexing — if needed — runs as a background
+    // task; tools that depend on the index will respond "still indexing" until
+    // it completes.
     const server = createServer(vaultRoot, access);
     const transport = new StdioServerTransport();
     await server.connect(transport);
     process.stderr.write(`daftari: serving vault at ${vaultRoot} (stdio) — ` +
         `user=${access.user} role=${access.roleName}\n`);
+    const fresh = await isIndexFresh(vaultRoot);
+    if (fresh) {
+        process.stderr.write(`daftari: index is up to date — skipping reindex\n`);
+        markIndexReady();
+        return;
+    }
+    // Background reindex. The promise is intentionally not awaited — main()
+    // returns once the transport is up, and the indexing pass runs to
+    // completion alongside the live server.
+    markIndexing();
+    process.stderr.write(`daftari: starting background reindex…\n`);
+    void runBackgroundReindex(vaultRoot);
+}
+async function runBackgroundReindex(vaultRoot) {
+    try {
+        const reindexed = await reindexVault(vaultRoot, makeProgressReporter());
+        if (reindexed.ok) {
+            const r = reindexed.value;
+            markIndexReady();
+            process.stderr.write(`daftari: indexed ${r.documentCount} docs, ${r.chunkCount} chunks ` +
+                `(vectors ${r.vectorEnabled ? "on" : "off"})\n`);
+        }
+        else {
+            markIndexError(reindexed.error.message);
+            process.stderr.write(`daftari: warning: background index build failed: ${reindexed.error.message}\n`);
+        }
+    }
+    catch (e) {
+        const reason = e instanceof Error ? (e.stack ?? e.message) : String(e);
+        markIndexError(reason);
+        process.stderr.write(`daftari: warning: background indexer crashed: ${reason}\n`);
+    }
+}
+// Builds a ReindexOptions whose onProgress streams to both stderr (for
+// operator visibility) and the in-process IndexState (so tools can return
+// progress to MCP clients). TTY stderr gets a \r-updated single line; piped
+// stderr gets a full line every ~5% so MCP-client logs stay readable instead
+// of going silent for tens of minutes.
+function makeProgressReporter() {
+    const PIPE_STEP = 0.05;
+    let nextPipeMark = 0;
+    return {
+        onProgress: (done, total) => {
+            setIndexProgress(done, total);
+            if (total === 0)
+                return;
+            if (process.stderr.isTTY) {
+                process.stderr.write(`\rdaftari: embedding ${done}/${total} chunks`);
+                if (done === total)
+                    process.stderr.write("\n");
+                return;
+            }
+            const ratio = done / total;
+            if (ratio >= nextPipeMark || done === total) {
+                process.stderr.write(`daftari: embedding ${done}/${total} chunks\n`);
+                nextPipeMark = Math.floor(ratio / PIPE_STEP + 1) * PIPE_STEP;
+            }
+        },
+    };
 }
 // Auto-run only when this module is the process entry point (e.g. `tsx
 // src/index.ts`). When imported (by cli.ts or tests) it stays inert.

package/dist/index.js.map

@@ -1 +1 @@
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package/dist/search/index-state.d.ts

@@ -0,0 +1,17 @@
+export type IndexStatus = "ready" | "indexing" | "error";
+export interface IndexSnapshot {
+    status: IndexStatus;
+    done: number;
+    total: number;
+    error: string | null;
+    startedAt: string | null;
+    finishedAt: string | null;
+}
+export declare function getIndexStatus(): IndexSnapshot;
+export declare function markIndexing(): void;
+export declare function setIndexProgress(done: number, total: number): void;
+export declare function markIndexReady(): void;
+export declare function markIndexError(message: string): void;
+export declare function resetIndexState(): void;
+export declare function indexingBusyMessage(snapshot: IndexSnapshot): string;
+//# sourceMappingURL=index-state.d.ts.map

package/dist/search/index-state.d.ts.map

@@ -0,0 +1 @@
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