@neurodock/cli 0.1.0

package/dist/commands/profile.d.ts.map

@@ -0,0 +1 @@
+{"version":3,"file":"profile.d.ts","sourceRoot":"","sources":["../../src/commands/profile.ts"],"names":[],"mappings":"AAIA,OAAO,EAAmB,KAAK,gBAAgB,EAAE,MAAM,yBAAyB,CAAC;AAEjF,MAAM,WAAW,cAAc;IAC7B,QAAQ,CAAC,IAAI,EAAE,MAAM,CAAC;IACtB,QAAQ,CAAC,MAAM,EAAE,gBAAgB,CAAC;IAClC,QAAQ,CAAC,OAAO,EAAE,OAAO,CAAC;CAC3B;AAED,wBAAsB,kBAAkB,IAAI,OAAO,CAAC,cAAc,CAAC,CAalE;AAED,MAAM,WAAW,UAAU;IACzB,QAAQ,CAAC,IAAI,EAAE,MAAM,CAAC;IACtB,QAAQ,CAAC,IAAI,EAAE,MAAM,CAAC;IACtB,QAAQ,CAAC,OAAO,EAAE,OAAO,CAAC;CAC3B;AAED,wBAAsB,cAAc,IAAI,OAAO,CAAC,UAAU,CAAC,CAQ1D"}

package/dist/commands/profile.js

@@ -0,0 +1,29 @@
+import { existsSync } from "node:fs";
+import { readEnv } from "../lib/env.js";
+import { profilePath } from "../lib/paths.js";
+import { loadProfileFromFile, renderResolvedYaml } from "../profile/loader.js";
+import { validateProfile } from "../profile/validator.js";
+export async function runProfileValidate() {
+    const env = readEnv();
+    const p = profilePath(env);
+    if (!existsSync(p)) {
+        return {
+            path: p,
+            missing: true,
+            result: { valid: false, violations: [{ path: "/", message: "profile file does not exist", keyword: "missing" }] },
+        };
+    }
+    const loaded = loadProfileFromFile(p);
+    const result = validateProfile(loaded.raw);
+    return { path: p, missing: false, result };
+}
+export async function runProfileShow() {
+    const env = readEnv();
+    const p = profilePath(env);
+    if (!existsSync(p)) {
+        return { path: p, yaml: "", missing: true };
+    }
+    const loaded = loadProfileFromFile(p);
+    return { path: p, yaml: renderResolvedYaml(loaded.resolved), missing: false };
+}
+//# sourceMappingURL=profile.js.map

package/dist/commands/profile.js.map

@@ -0,0 +1 @@
+{"version":3,"file":"profile.js","sourceRoot":"","sources":["../../src/commands/profile.ts"],"names":[],"mappings":"AAAA,OAAO,EAAE,UAAU,EAAE,MAAM,SAAS,CAAC;AACrC,OAAO,EAAE,OAAO,EAAE,MAAM,eAAe,CAAC;AACxC,OAAO,EAAE,WAAW,EAAE,MAAM,iBAAiB,CAAC;AAC9C,OAAO,EAAE,mBAAmB,EAAE,kBAAkB,EAAE,MAAM,sBAAsB,CAAC;AAC/E,OAAO,EAAE,eAAe,EAAyB,MAAM,yBAAyB,CAAC;AAQjF,MAAM,CAAC,KAAK,UAAU,kBAAkB;IACtC,MAAM,GAAG,GAAG,OAAO,EAAE,CAAC;IACtB,MAAM,CAAC,GAAG,WAAW,CAAC,GAAG,CAAC,CAAC;IAC3B,IAAI,CAAC,UAAU,CAAC,CAAC,CAAC,EAAE,CAAC;QACnB,OAAO;YACL,IAAI,EAAE,CAAC;YACP,OAAO,EAAE,IAAI;YACb,MAAM,EAAE,EAAE,KAAK,EAAE,KAAK,EAAE,UAAU,EAAE,CAAC,EAAE,IAAI,EAAE,GAAG,EAAE,OAAO,EAAE,6BAA6B,EAAE,OAAO,EAAE,SAAS,EAAE,CAAC,EAAE;SAClH,CAAC;IACJ,CAAC;IACD,MAAM,MAAM,GAAG,mBAAmB,CAAC,CAAC,CAAC,CAAC;IACtC,MAAM,MAAM,GAAG,eAAe,CAAC,MAAM,CAAC,GAAG,CAAC,CAAC;IAC3C,OAAO,EAAE,IAAI,EAAE,CAAC,EAAE,OAAO,EAAE,KAAK,EAAE,MAAM,EAAE,CAAC;AAC7C,CAAC;AAQD,MAAM,CAAC,KAAK,UAAU,cAAc;IAClC,MAAM,GAAG,GAAG,OAAO,EAAE,CAAC;IACtB,MAAM,CAAC,GAAG,WAAW,CAAC,GAAG,CAAC,CAAC;IAC3B,IAAI,CAAC,UAAU,CAAC,CAAC,CAAC,EAAE,CAAC;QACnB,OAAO,EAAE,IAAI,EAAE,CAAC,EAAE,IAAI,EAAE,EAAE,EAAE,OAAO,EAAE,IAAI,EAAE,CAAC;IAC9C,CAAC;IACD,MAAM,MAAM,GAAG,mBAAmB,CAAC,CAAC,CAAC,CAAC;IACtC,OAAO,EAAE,IAAI,EAAE,CAAC,EAAE,IAAI,EAAE,kBAAkB,CAAC,MAAM,CAAC,QAAQ,CAAC,EAAE,OAAO,EAAE,KAAK,EAAE,CAAC;AAChF,CAAC"}

package/dist/index.d.ts

@@ -0,0 +1,5 @@
+#!/usr/bin/env node
+import { Command } from "commander";
+export declare const CLI_VERSION = "0.1.0";
+export declare function buildProgram(): Command;
+//# sourceMappingURL=index.d.ts.map

package/dist/index.d.ts.map

@@ -0,0 +1 @@
+{"version":3,"file":"index.d.ts","sourceRoot":"","sources":["../src/index.ts"],"names":[],"mappings":";AACA,OAAO,EAAE,OAAO,EAAE,MAAM,WAAW,CAAC;AAQpC,eAAO,MAAM,WAAW,UAAU,CAAC;AAEnC,wBAAgB,YAAY,IAAI,OAAO,CAwEtC"}

package/dist/index.js

@@ -0,0 +1,117 @@
+#!/usr/bin/env node
+import { Command } from "commander";
+import chalk from "chalk";
+import { runInit } from "./commands/init.js";
+import { runDoctor } from "./commands/doctor.js";
+import { runProfileValidate, runProfileShow } from "./commands/profile.js";
+import { colorEnabled } from "./lib/env.js";
+export const CLI_VERSION = "0.1.0";
+export function buildProgram() {
+    const program = new Command();
+    program
+        .name("neurodock")
+        .description("NeuroDock installer and diagnostic CLI.")
+        .version(CLI_VERSION, "-v, --version", "print the version")
+        .helpOption("-h, --help", "show help");
+    program
+        .command("init")
+        .description("install NeuroDock MCP servers into your MCP-aware clients")
+        .option("--client <id>", "claude-desktop | claude-code | cursor | all", "all")
+        .option("--profile <id>", "minimal | example", "example")
+        .option("--dry-run", "print the diff without writing anything", false)
+        .option("--yes", "answer yes to all prompts (idempotent re-runs, collisions)", false)
+        .action(async (opts) => {
+        const client = validateClient(opts.client);
+        const profile = validateProfile(opts.profile);
+        const result = await runInit({ client, profile, dryRun: opts.dryRun, yes: opts.yes });
+        for (const m of result.messages)
+            print(m);
+        process.exit(0);
+    });
+    program
+        .command("doctor")
+        .description("diagnose your NeuroDock installation")
+        .action(async () => {
+        const r = await runDoctor();
+        print("NeuroDock doctor");
+        print("");
+        for (const c of r.checks)
+            print(formatCheck(c));
+        print("");
+        print(r.ok ? "All checks passed." : "One or more checks failed.");
+        process.exit(r.ok ? 0 : 1);
+    });
+    const profileCmd = program.command("profile").description("profile utilities");
+    profileCmd
+        .command("validate")
+        .description("validate ~/.neurodock/profile.yaml against the schema")
+        .action(async () => {
+        const r = await runProfileValidate();
+        if (r.missing) {
+            print(`No profile at ${r.path}. Run 'neurodock init' to create one.`);
+            process.exit(1);
+        }
+        if (r.result.valid) {
+            print(`Valid: ${r.path}`);
+            process.exit(0);
+        }
+        print(`Invalid: ${r.path}`);
+        for (const v of r.result.violations) {
+            print(`  ${v.path} (${v.keyword}): ${v.message}`);
+        }
+        process.exit(1);
+    });
+    profileCmd
+        .command("show")
+        .description("print the resolved profile (with loader defaults applied)")
+        .action(async () => {
+        const r = await runProfileShow();
+        if (r.missing) {
+            print(`No profile at ${r.path}.`);
+            process.exit(1);
+        }
+        process.stdout.write(r.yaml);
+        process.exit(0);
+    });
+    return program;
+}
+function validateClient(value) {
+    if (value === "all" || value === "claude-desktop" || value === "claude-code" || value === "cursor") {
+        return value;
+    }
+    throw new Error(`Unknown --client value: ${value}`);
+}
+function validateProfile(value) {
+    if (value === "minimal" || value === "example")
+        return value;
+    throw new Error(`Unknown --profile value: ${value}`);
+}
+function print(line) {
+    process.stdout.write(`${line}\n`);
+}
+function formatCheck(c) {
+    const useColor = colorEnabled();
+    const marker = c.status === "PASS"
+        ? useColor
+            ? chalk.green("PASS")
+            : "PASS"
+        : c.status === "FAIL"
+            ? useColor
+                ? chalk.red("FAIL")
+                : "FAIL"
+            : useColor
+                ? chalk.yellow("SKIP")
+                : "SKIP";
+    const detail = c.detail ? ` — ${c.detail}` : "";
+    return `  [${marker}] ${c.name}${detail}`;
+}
+const isMain = process.argv[1] !== undefined &&
+    (process.argv[1].endsWith("index.js") || process.argv[1].endsWith("neurodock"));
+if (isMain) {
+    buildProgram().parseAsync(process.argv).catch((err) => {
+        const message = err instanceof Error ? err.message : String(err);
+        process.stderr.write(`Error: ${message}\n`);
+        process.exit(1);
+    });
+}
+//# sourceMappingURL=index.js.map

package/dist/index.js.map

@@ -0,0 +1 @@
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package/dist/lib/env.d.ts

@@ -0,0 +1,11 @@
+import type { Platform } from "../types.js";
+export interface EnvSnapshot {
+    readonly platform: Platform;
+    readonly home: string;
+    readonly user: string;
+    readonly cwd: string;
+    readonly env: NodeJS.ProcessEnv;
+}
+export declare function readEnv(overrides?: Partial<EnvSnapshot>): EnvSnapshot;
+export declare function colorEnabled(env?: NodeJS.ProcessEnv): boolean;
+//# sourceMappingURL=env.d.ts.map

package/dist/lib/env.d.ts.map

@@ -0,0 +1 @@
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package/dist/lib/env.js

@@ -0,0 +1,37 @@
+import { homedir, platform, userInfo } from "node:os";
+export function readEnv(overrides = {}) {
+    const plat = (overrides.platform ?? platform());
+    const home = overrides.home ?? homedir();
+    const env = overrides.env ?? process.env;
+    const user = overrides.user ?? deriveUser(env);
+    const cwd = overrides.cwd ?? process.cwd();
+    return { platform: plat, home, user, cwd, env };
+}
+function deriveUser(env) {
+    const candidates = [env["USER"], env["USERNAME"], env["LOGNAME"]];
+    for (const c of candidates) {
+        if (c && c.trim().length > 0) {
+            return c.trim();
+        }
+    }
+    try {
+        const info = userInfo();
+        if (info.username && info.username.trim().length > 0) {
+            return info.username.trim();
+        }
+    }
+    catch {
+        // userInfo() can throw on some sandboxes; fall through.
+    }
+    return "neurodock-user";
+}
+export function colorEnabled(env = process.env) {
+    if (env["NO_COLOR"] !== undefined && env["NO_COLOR"] !== "") {
+        return false;
+    }
+    if (env["FORCE_COLOR"] !== undefined && env["FORCE_COLOR"] !== "") {
+        return true;
+    }
+    return process.stdout.isTTY === true;
+}
+//# sourceMappingURL=env.js.map

package/dist/lib/env.js.map

@@ -0,0 +1 @@
+{"version":3,"file":"env.js","sourceRoot":"","sources":["../../src/lib/env.ts"],"names":[],"mappings":"AAAA,OAAO,EAAE,OAAO,EAAE,QAAQ,EAAE,QAAQ,EAAE,MAAM,SAAS,CAAC;AAWtD,MAAM,UAAU,OAAO,CAAC,YAAkC,EAAE;IAC1D,MAAM,IAAI,GAAG,CAAC,SAAS,CAAC,QAAQ,IAAK,QAAQ,EAAe,CAAa,CAAC;IAC1E,MAAM,IAAI,GAAG,SAAS,CAAC,IAAI,IAAI,OAAO,EAAE,CAAC;IACzC,MAAM,GAAG,GAAG,SAAS,CAAC,GAAG,IAAI,OAAO,CAAC,GAAG,CAAC;IACzC,MAAM,IAAI,GAAG,SAAS,CAAC,IAAI,IAAI,UAAU,CAAC,GAAG,CAAC,CAAC;IAC/C,MAAM,GAAG,GAAG,SAAS,CAAC,GAAG,IAAI,OAAO,CAAC,GAAG,EAAE,CAAC;IAC3C,OAAO,EAAE,QAAQ,EAAE,IAAI,EAAE,IAAI,EAAE,IAAI,EAAE,GAAG,EAAE,GAAG,EAAE,CAAC;AAClD,CAAC;AAED,SAAS,UAAU,CAAC,GAAsB;IACxC,MAAM,UAAU,GAAG,CAAC,GAAG,CAAC,MAAM,CAAC,EAAE,GAAG,CAAC,UAAU,CAAC,EAAE,GAAG,CAAC,SAAS,CAAC,CAAC,CAAC;IAClE,KAAK,MAAM,CAAC,IAAI,UAAU,EAAE,CAAC;QAC3B,IAAI,CAAC,IAAI,CAAC,CAAC,IAAI,EAAE,CAAC,MAAM,GAAG,CAAC,EAAE,CAAC;YAC7B,OAAO,CAAC,CAAC,IAAI,EAAE,CAAC;QAClB,CAAC;IACH,CAAC;IACD,IAAI,CAAC;QACH,MAAM,IAAI,GAAG,QAAQ,EAAE,CAAC;QACxB,IAAI,IAAI,CAAC,QAAQ,IAAI,IAAI,CAAC,QAAQ,CAAC,IAAI,EAAE,CAAC,MAAM,GAAG,CAAC,EAAE,CAAC;YACrD,OAAO,IAAI,CAAC,QAAQ,CAAC,IAAI,EAAE,CAAC;QAC9B,CAAC;IACH,CAAC;IAAC,MAAM,CAAC;QACP,wDAAwD;IAC1D,CAAC;IACD,OAAO,gBAAgB,CAAC;AAC1B,CAAC;AAED,MAAM,UAAU,YAAY,CAAC,MAAyB,OAAO,CAAC,GAAG;IAC/D,IAAI,GAAG,CAAC,UAAU,CAAC,KAAK,SAAS,IAAI,GAAG,CAAC,UAAU,CAAC,KAAK,EAAE,EAAE,CAAC;QAC5D,OAAO,KAAK,CAAC;IACf,CAAC;IACD,IAAI,GAAG,CAAC,aAAa,CAAC,KAAK,SAAS,IAAI,GAAG,CAAC,aAAa,CAAC,KAAK,EAAE,EAAE,CAAC;QAClE,OAAO,IAAI,CAAC;IACd,CAAC;IACD,OAAO,OAAO,CAAC,MAAM,CAAC,KAAK,KAAK,IAAI,CAAC;AACvC,CAAC"}

package/dist/lib/json-patch.d.ts

@@ -0,0 +1,22 @@
+import type { McpClientConfig, McpServerEntry } from "../types.js";
+export interface MergeResult {
+    readonly merged: McpClientConfig;
+    readonly added: ReadonlyArray<string>;
+    readonly collisions: ReadonlyArray<string>;
+    readonly unchanged: boolean;
+}
+/**
+ * Deep-merge MCP server entries into a client config, preserving all unknown
+ * top-level keys and never clobbering existing server keys unless `overwrite`
+ * is explicitly true. Existing keys go into `collisions`; the caller decides
+ * whether to overwrite (with `--yes`) or skip.
+ */
+export declare function mergeMcpServers(current: McpClientConfig | null | undefined, desired: Readonly<Record<string, McpServerEntry>>, overwrite: boolean): MergeResult;
+export declare function parseJsonSafely(source: string): {
+    ok: true;
+    value: unknown;
+} | {
+    ok: false;
+    error: string;
+};
+//# sourceMappingURL=json-patch.d.ts.map

package/dist/lib/json-patch.d.ts.map

@@ -0,0 +1 @@
+{"version":3,"file":"json-patch.d.ts","sourceRoot":"","sources":["../../src/lib/json-patch.ts"],"names":[],"mappings":"AAAA,OAAO,KAAK,EAAE,eAAe,EAAE,cAAc,EAAE,MAAM,aAAa,CAAC;AAEnE,MAAM,WAAW,WAAW;IAC1B,QAAQ,CAAC,MAAM,EAAE,eAAe,CAAC;IACjC,QAAQ,CAAC,KAAK,EAAE,aAAa,CAAC,MAAM,CAAC,CAAC;IACtC,QAAQ,CAAC,UAAU,EAAE,aAAa,CAAC,MAAM,CAAC,CAAC;IAC3C,QAAQ,CAAC,SAAS,EAAE,OAAO,CAAC;CAC7B;AAED;;;;;GAKG;AACH,wBAAgB,eAAe,CAC7B,OAAO,EAAE,eAAe,GAAG,IAAI,GAAG,SAAS,EAC3C,OAAO,EAAE,QAAQ,CAAC,MAAM,CAAC,MAAM,EAAE,cAAc,CAAC,CAAC,EACjD,SAAS,EAAE,OAAO,GACjB,WAAW,CA8Bb;AA6BD,wBAAgB,eAAe,CAAC,MAAM,EAAE,MAAM,GAAG;IAAE,EAAE,EAAE,IAAI,CAAC;IAAC,KAAK,EAAE,OAAO,CAAA;CAAE,GAAG;IAAE,EAAE,EAAE,KAAK,CAAC;IAAC,KAAK,EAAE,MAAM,CAAA;CAAE,CAO3G"}

package/dist/lib/json-patch.js

@@ -0,0 +1,76 @@
+/**
+ * Deep-merge MCP server entries into a client config, preserving all unknown
+ * top-level keys and never clobbering existing server keys unless `overwrite`
+ * is explicitly true. Existing keys go into `collisions`; the caller decides
+ * whether to overwrite (with `--yes`) or skip.
+ */
+export function mergeMcpServers(current, desired, overwrite) {
+    const base = current ?? {};
+    const existingServers = (base.mcpServers ?? {});
+    const added = [];
+    const collisions = [];
+    const nextServers = { ...existingServers };
+    for (const [key, entry] of Object.entries(desired)) {
+        const existing = existingServers[key];
+        if (existing === undefined) {
+            nextServers[key] = entry;
+            added.push(key);
+            continue;
+        }
+        if (serverEntriesEqual(existing, entry)) {
+            // no-op
+            continue;
+        }
+        if (overwrite) {
+            nextServers[key] = entry;
+            added.push(key);
+        }
+        else {
+            collisions.push(key);
+        }
+    }
+    const unchanged = added.length === 0 && collisions.length === 0;
+    const merged = { ...base, mcpServers: nextServers };
+    return { merged, added, collisions, unchanged };
+}
+function serverEntriesEqual(a, b) {
+    if (a.command !== b.command)
+        return false;
+    if (a.cwd !== b.cwd)
+        return false;
+    if (a.args.length !== b.args.length)
+        return false;
+    for (let i = 0; i < a.args.length; i += 1) {
+        if (a.args[i] !== b.args[i])
+            return false;
+    }
+    return shallowEnvEqual(a.env, b.env);
+}
+function shallowEnvEqual(a, b) {
+    if (a === b)
+        return true;
+    if (!a || !b)
+        return Object.keys(a ?? {}).length === 0 && Object.keys(b ?? {}).length === 0;
+    const ka = Object.keys(a).sort();
+    const kb = Object.keys(b).sort();
+    if (ka.length !== kb.length)
+        return false;
+    for (let i = 0; i < ka.length; i += 1) {
+        if (ka[i] !== kb[i])
+            return false;
+        const key = ka[i];
+        if (a[key] !== b[key])
+            return false;
+    }
+    return true;
+}
+export function parseJsonSafely(source) {
+    try {
+        return { ok: true, value: JSON.parse(source) };
+    }
+    catch (error) {
+        const message = error instanceof Error ? error.message : String(error);
+        return { ok: false, error: message };
+    }
+}
+//# sourceMappingURL=json-patch.js.map

package/dist/lib/json-patch.js.map

@@ -0,0 +1 @@
+{"version":3,"file":"json-patch.js","sourceRoot":"","sources":["../../src/lib/json-patch.ts"],"names":[],"mappings":"AASA;;;;;GAKG;AACH,MAAM,UAAU,eAAe,CAC7B,OAA2C,EAC3C,OAAiD,EACjD,SAAkB;IAElB,MAAM,IAAI,GAAoB,OAAO,IAAI,EAAE,CAAC;IAC5C,MAAM,eAAe,GAAG,CAAC,IAAI,CAAC,UAAU,IAAI,EAAE,CAAmC,CAAC;IAElF,MAAM,KAAK,GAAa,EAAE,CAAC;IAC3B,MAAM,UAAU,GAAa,EAAE,CAAC;IAChC,MAAM,WAAW,GAAmC,EAAE,GAAG,eAAe,EAAE,CAAC;IAE3E,KAAK,MAAM,CAAC,GAAG,EAAE,KAAK,CAAC,IAAI,MAAM,CAAC,OAAO,CAAC,OAAO,CAAC,EAAE,CAAC;QACnD,MAAM,QAAQ,GAAG,eAAe,CAAC,GAAG,CAAC,CAAC;QACtC,IAAI,QAAQ,KAAK,SAAS,EAAE,CAAC;YAC3B,WAAW,CAAC,GAAG,CAAC,GAAG,KAAK,CAAC;YACzB,KAAK,CAAC,IAAI,CAAC,GAAG,CAAC,CAAC;YAChB,SAAS;QACX,CAAC;QACD,IAAI,kBAAkB,CAAC,QAAQ,EAAE,KAAK,CAAC,EAAE,CAAC;YACxC,QAAQ;YACR,SAAS;QACX,CAAC;QACD,IAAI,SAAS,EAAE,CAAC;YACd,WAAW,CAAC,GAAG,CAAC,GAAG,KAAK,CAAC;YACzB,KAAK,CAAC,IAAI,CAAC,GAAG,CAAC,CAAC;QAClB,CAAC;aAAM,CAAC;YACN,UAAU,CAAC,IAAI,CAAC,GAAG,CAAC,CAAC;QACvB,CAAC;IACH,CAAC;IAED,MAAM,SAAS,GAAG,KAAK,CAAC,MAAM,KAAK,CAAC,IAAI,UAAU,CAAC,MAAM,KAAK,CAAC,CAAC;IAChE,MAAM,MAAM,GAAoB,EAAE,GAAG,IAAI,EAAE,UAAU,EAAE,WAAW,EAAE,CAAC;IACrE,OAAO,EAAE,MAAM,EAAE,KAAK,EAAE,UAAU,EAAE,SAAS,EAAE,CAAC;AAClD,CAAC;AAED,SAAS,kBAAkB,CAAC,CAAiB,EAAE,CAAiB;IAC9D,IAAI,CAAC,CAAC,OAAO,KAAK,CAAC,CAAC,OAAO;QAAE,OAAO,KAAK,CAAC;IAC1C,IAAI,CAAC,CAAC,GAAG,KAAK,CAAC,CAAC,GAAG;QAAE,OAAO,KAAK,CAAC;IAClC,IAAI,CAAC,CAAC,IAAI,CAAC,MAAM,KAAK,CAAC,CAAC,IAAI,CAAC,MAAM;QAAE,OAAO,KAAK,CAAC;IAClD,KAAK,IAAI,CAAC,GAAG,CAAC,EAAE,CAAC,GAAG,CAAC,CAAC,IAAI,CAAC,MAAM,EAAE,CAAC,IAAI,CAAC,EAAE,CAAC;QAC1C,IAAI,CAAC,CAAC,IAAI,CAAC,CAAC,CAAC,KAAK,CAAC,CAAC,IAAI,CAAC,CAAC,CAAC;YAAE,OAAO,KAAK,CAAC;IAC5C,CAAC;IACD,OAAO,eAAe,CAAC,CAAC,CAAC,GAAG,EAAE,CAAC,CAAC,GAAG,CAAC,CAAC;AACvC,CAAC;AAED,SAAS,eAAe,CACtB,CAA+C,EAC/C,CAA+C;IAE/C,IAAI,CAAC,KAAK,CAAC;QAAE,OAAO,IAAI,CAAC;IACzB,IAAI,CAAC,CAAC,IAAI,CAAC,CAAC;QAAE,OAAO,MAAM,CAAC,IAAI,CAAC,CAAC,IAAI,EAAE,CAAC,CAAC,MAAM,KAAK,CAAC,IAAI,MAAM,CAAC,IAAI,CAAC,CAAC,IAAI,EAAE,CAAC,CAAC,MAAM,KAAK,CAAC,CAAC;IAC5F,MAAM,EAAE,GAAG,MAAM,CAAC,IAAI,CAAC,CAAC,CAAC,CAAC,IAAI,EAAE,CAAC;IACjC,MAAM,EAAE,GAAG,MAAM,CAAC,IAAI,CAAC,CAAC,CAAC,CAAC,IAAI,EAAE,CAAC;IACjC,IAAI,EAAE,CAAC,MAAM,KAAK,EAAE,CAAC,MAAM;QAAE,OAAO,KAAK,CAAC;IAC1C,KAAK,IAAI,CAAC,GAAG,CAAC,EAAE,CAAC,GAAG,EAAE,CAAC,MAAM,EAAE,CAAC,IAAI,CAAC,EAAE,CAAC;QACtC,IAAI,EAAE,CAAC,CAAC,CAAC,KAAK,EAAE,CAAC,CAAC,CAAC;YAAE,OAAO,KAAK,CAAC;QAClC,MAAM,GAAG,GAAG,EAAE,CAAC,CAAC,CAAW,CAAC;QAC5B,IAAI,CAAC,CAAC,GAAG,CAAC,KAAK,CAAC,CAAC,GAAG,CAAC;YAAE,OAAO,KAAK,CAAC;IACtC,CAAC;IACD,OAAO,IAAI,CAAC;AACd,CAAC;AAED,MAAM,UAAU,eAAe,CAAC,MAAc;IAC5C,IAAI,CAAC;QACH,OAAO,EAAE,EAAE,EAAE,IAAI,EAAE,KAAK,EAAE,IAAI,CAAC,KAAK,CAAC,MAAM,CAAC,EAAE,CAAC;IACjD,CAAC;IAAC,OAAO,KAAc,EAAE,CAAC;QACxB,MAAM,OAAO,GAAG,KAAK,YAAY,KAAK,CAAC,CAAC,CAAC,KAAK,CAAC,OAAO,CAAC,CAAC,CAAC,MAAM,CAAC,KAAK,CAAC,CAAC;QACvE,OAAO,EAAE,EAAE,EAAE,KAAK,EAAE,KAAK,EAAE,OAAO,EAAE,CAAC;IACvC,CAAC;AACH,CAAC"}

package/dist/lib/mcp-entries.d.ts

@@ -0,0 +1,9 @@
+import type { McpServerEntry } from "../types.js";
+import type { EnvSnapshot } from "./env.js";
+export interface McpEntryContext {
+    /** Set when the user is running from a cloned monorepo; undefined otherwise. */
+    readonly repoRoot?: string;
+}
+export declare function detectRepoRoot(env: EnvSnapshot): string | undefined;
+export declare function buildMcpServers(ctx: McpEntryContext): Record<string, McpServerEntry>;
+//# sourceMappingURL=mcp-entries.d.ts.map

package/dist/lib/mcp-entries.d.ts.map

@@ -0,0 +1 @@
+{"version":3,"file":"mcp-entries.d.ts","sourceRoot":"","sources":["../../src/lib/mcp-entries.ts"],"names":[],"mappings":"AAEA,OAAO,KAAK,EAAE,cAAc,EAAE,MAAM,aAAa,CAAC;AAClD,OAAO,KAAK,EAAE,WAAW,EAAE,MAAM,UAAU,CAAC;AAE5C,MAAM,WAAW,eAAe;IAC9B,gFAAgF;IAChF,QAAQ,CAAC,QAAQ,CAAC,EAAE,MAAM,CAAC;CAC5B;AAED,wBAAgB,cAAc,CAAC,GAAG,EAAE,WAAW,GAAG,MAAM,GAAG,SAAS,CAenE;AAQD,wBAAgB,eAAe,CAAC,GAAG,EAAE,eAAe,GAAG,MAAM,CAAC,MAAM,EAAE,cAAc,CAAC,CAsBpF"}

package/dist/lib/mcp-entries.js

@@ -0,0 +1,56 @@
+import { existsSync, statSync } from "node:fs";
+import { dirname, join, resolve } from "node:path";
+export function detectRepoRoot(env) {
+    let current = env.cwd;
+    // Walk up to 8 levels max — well above any reasonable nested call site.
+    for (let depth = 0; depth < 8; depth += 1) {
+        const marker = join(current, "pnpm-workspace.yaml");
+        if (existsSync(marker)) {
+            return current;
+        }
+        const parent = dirname(current);
+        if (parent === current)
+            break;
+        current = parent;
+    }
+    // Also try the directory containing the running script (when packaged the
+    // user typically runs from elsewhere and there will be no marker).
+    return undefined;
+}
+const NEURODOCK_SERVERS = [
+    { key: "neurodock-chronometric", pkg: "mcp-chronometric", entrypoint: "neurodock-mcp-chronometric" },
+    { key: "neurodock-cognitive-graph", pkg: "mcp-cognitive-graph", entrypoint: "neurodock-mcp-cognitive-graph" },
+    { key: "neurodock-task-fractionator", pkg: "mcp-task-fractionator", entrypoint: "neurodock-mcp-task-fractionator" },
+];
+export function buildMcpServers(ctx) {
+    const out = {};
+    for (const s of NEURODOCK_SERVERS) {
+        if (ctx.repoRoot) {
+            const pkgPath = resolve(ctx.repoRoot, "packages", s.pkg);
+            if (pathIsDir(pkgPath)) {
+                out[s.key] = {
+                    command: "uv",
+                    args: ["run", s.entrypoint],
+                    cwd: pkgPath,
+                };
+                continue;
+            }
+        }
+        // Installed-package fallback. Assumes the user installed the Python
+        // distributions globally via `uv tool install` or `pip install`.
+        out[s.key] = {
+            command: "uv",
+            args: ["run", s.entrypoint],
+        };
+    }
+    return out;
+}
+function pathIsDir(p) {
+    try {
+        return statSync(p).isDirectory();
+    }
+    catch {
+        return false;
+    }
+}
+//# sourceMappingURL=mcp-entries.js.map

package/dist/lib/mcp-entries.js.map

@@ -0,0 +1 @@
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package/dist/lib/paths.d.ts

@@ -0,0 +1,23 @@
+import type { ClientLocation, ClientId } from "../types.js";
+import { type EnvSnapshot } from "./env.js";
+export declare function profilePath(env?: EnvSnapshot): string;
+export declare function profileDir(env?: EnvSnapshot): string;
+export declare function claudeDesktopConfigPath(env?: EnvSnapshot): string;
+export interface ClaudeCodePaths {
+    readonly user: string;
+    readonly project: string;
+}
+export declare function claudeCodeConfigPaths(env?: EnvSnapshot): ClaudeCodePaths;
+export interface CursorPaths {
+    readonly user: string;
+    readonly project: string;
+}
+export declare function cursorConfigPaths(env?: EnvSnapshot): CursorPaths;
+export declare function clientLocations(env?: EnvSnapshot): ReadonlyArray<ClientLocation>;
+export interface DetectionResult extends ClientLocation {
+    readonly exists: boolean;
+}
+export declare function detectClients(env?: EnvSnapshot): ReadonlyArray<DetectionResult>;
+export declare function pickClient(detections: ReadonlyArray<DetectionResult>, requested: ClientId | "all"): ReadonlyArray<DetectionResult>;
+export declare function fileExists(p: string): boolean;
+//# sourceMappingURL=paths.d.ts.map

package/dist/lib/paths.d.ts.map

@@ -0,0 +1 @@
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package/dist/lib/paths.js

@@ -0,0 +1,91 @@
+import { join } from "node:path";
+import { existsSync, statSync } from "node:fs";
+import { readEnv } from "./env.js";
+export function profilePath(env = readEnv()) {
+    // Loader precedence (see profile.schema.json $comment):
+    //   1. $NEURODOCK_PROFILE_PATH
+    //   2. $XDG_CONFIG_HOME/neurodock/profile.yaml
+    //   3. ~/.neurodock/profile.yaml
+    const override = env.env["NEURODOCK_PROFILE_PATH"];
+    if (override && override.trim().length > 0) {
+        return override;
+    }
+    const xdg = env.env["XDG_CONFIG_HOME"];
+    if (xdg && xdg.trim().length > 0) {
+        return join(xdg, "neurodock", "profile.yaml");
+    }
+    return join(env.home, ".neurodock", "profile.yaml");
+}
+export function profileDir(env = readEnv()) {
+    const override = env.env["NEURODOCK_PROFILE_PATH"];
+    if (override && override.trim().length > 0) {
+        return dirOf(override);
+    }
+    const xdg = env.env["XDG_CONFIG_HOME"];
+    if (xdg && xdg.trim().length > 0) {
+        return join(xdg, "neurodock");
+    }
+    return join(env.home, ".neurodock");
+}
+function dirOf(filePath) {
+    const idx = Math.max(filePath.lastIndexOf("/"), filePath.lastIndexOf("\\"));
+    return idx <= 0 ? "." : filePath.slice(0, idx);
+}
+export function claudeDesktopConfigPath(env = readEnv()) {
+    switch (env.platform) {
+        case "darwin":
+            return join(env.home, "Library", "Application Support", "Claude", "claude_desktop_config.json");
+        case "win32": {
+            const appdata = env.env["APPDATA"];
+            const root = appdata && appdata.trim().length > 0 ? appdata : join(env.home, "AppData", "Roaming");
+            return join(root, "Claude", "claude_desktop_config.json");
+        }
+        default:
+            return join(env.home, ".config", "Claude", "claude_desktop_config.json");
+    }
+}
+export function claudeCodeConfigPaths(env = readEnv()) {
+    return {
+        user: join(env.home, ".claude", "settings.json"),
+        project: join(env.cwd, ".claude", "settings.json"),
+    };
+}
+export function cursorConfigPaths(env = readEnv()) {
+    return {
+        user: join(env.home, ".cursor", "mcp.json"),
+        project: join(env.cwd, ".cursor", "mcp.json"),
+    };
+}
+export function clientLocations(env = readEnv()) {
+    const cc = claudeCodeConfigPaths(env);
+    const cu = cursorConfigPaths(env);
+    return [
+        { id: "claude-desktop", path: claudeDesktopConfigPath(env), scope: "user" },
+        { id: "claude-code", path: cc.project, scope: "project" },
+        { id: "claude-code", path: cc.user, scope: "user" },
+        { id: "cursor", path: cu.project, scope: "project" },
+        { id: "cursor", path: cu.user, scope: "user" },
+    ];
+}
+export function detectClients(env = readEnv()) {
+    return clientLocations(env).map((loc) => ({ ...loc, exists: pathExists(loc.path) }));
+}
+export function pickClient(detections, requested) {
+    if (requested === "all") {
+        return detections;
+    }
+    return detections.filter((d) => d.id === requested);
+}
+function pathExists(p) {
+    try {
+        statSync(p);
+        return true;
+    }
+    catch {
+        return false;
+    }
+}
+export function fileExists(p) {
+    return existsSync(p);
+}
+//# sourceMappingURL=paths.js.map

package/dist/lib/paths.js.map

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package/dist/profile/defaults.d.ts

@@ -0,0 +1,29 @@
+export interface ProfileDefaults {
+    readonly preferences: {
+        readonly output_format: string;
+        readonly max_chunk_size: number;
+        readonly reading_font_hint: string;
+        readonly motion: string;
+    };
+    readonly chronometric: {
+        readonly hyperfocus_break_minutes: number;
+        readonly session_overlap_policy: string;
+    };
+    readonly guardrails: {
+        readonly rumination_threshold: number;
+        readonly rumination_window_minutes: number;
+        readonly sycophancy_check: string;
+    };
+    readonly privacy: {
+        readonly embeddings: string;
+        readonly telemetry: string;
+        readonly os_idle_consent: boolean;
+    };
+}
+export declare const PROFILE_DEFAULTS: ProfileDefaults;
+/**
+ * Returns a NEW object — never mutates input. Applies defaults only when a
+ * field is absent. Unknown keys at every level are preserved.
+ */
+export declare function applyDefaults(raw: unknown): Record<string, unknown>;
+//# sourceMappingURL=defaults.d.ts.map

package/dist/profile/defaults.d.ts.map

@@ -0,0 +1 @@
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package/dist/profile/defaults.js

@@ -0,0 +1,50 @@
+// Loader-applied defaults per ADR 0004 §15. The schema declares these as
+// `default` values, but JSON Schema validation does not apply defaults — the
+// loader must. Keep this table in sync with profile.schema.json.
+export const PROFILE_DEFAULTS = {
+    preferences: {
+        output_format: "answer_first",
+        max_chunk_size: 7,
+        reading_font_hint: "atkinson_hyperlegible",
+        motion: "reduced",
+    },
+    chronometric: {
+        hyperfocus_break_minutes: 90,
+        session_overlap_policy: "auto_close",
+    },
+    guardrails: {
+        rumination_threshold: 3,
+        rumination_window_minutes: 90,
+        sycophancy_check: "warn",
+    },
+    privacy: {
+        embeddings: "local",
+        telemetry: "off",
+        os_idle_consent: false,
+    },
+};
+function isObject(x) {
+    return typeof x === "object" && x !== null && !Array.isArray(x);
+}
+/**
+ * Returns a NEW object — never mutates input. Applies defaults only when a
+ * field is absent. Unknown keys at every level are preserved.
+ */
+export function applyDefaults(raw) {
+    const out = isObject(raw) ? { ...raw } : {};
+    out["preferences"] = mergeBlock(out["preferences"], PROFILE_DEFAULTS.preferences);
+    out["chronometric"] = mergeBlock(out["chronometric"], PROFILE_DEFAULTS.chronometric);
+    out["guardrails"] = mergeBlock(out["guardrails"], PROFILE_DEFAULTS.guardrails);
+    out["privacy"] = mergeBlock(out["privacy"], PROFILE_DEFAULTS.privacy);
+    return out;
+}
+function mergeBlock(existing, defaults) {
+    const base = isObject(existing) ? { ...existing } : {};
+    for (const [key, value] of Object.entries(defaults)) {
+        if (!(key in base) || base[key] === undefined || base[key] === null) {
+            base[key] = value;
+        }
+    }
+    return base;
+}
+//# sourceMappingURL=defaults.js.map