@cleocode/core 2026.9.22 → 2026.9.23

package/dist/setup/index.js

@@ -22,11 +22,12 @@ import { createLlmSection } from './sections/llm.js';
 import { createModelsRolesSection } from './sections/models-roles.js';
 import { createProjectConventionsSection } from './sections/project-conventions.js';
 import { createSentientSection } from './sections/sentient.js';
+import { createSystemOneSection } from './sections/system-one.js';
 import { createTelemetrySection } from './sections/telemetry.js';
 import { createVerificationSection } from './sections/verification.js';
 import { WizardRunner } from './wizard.js';
 // Per-section `--config-json` → WizardOptions merger (T9985 / E8-CLI-LAYERING).
-export { mergeConfigJson, WIZARD_SECTION_IDS } from './config-json-merge.js';
+export { mergeConfigJson, SetupConfigJsonError, SYSTEM_ONE_CONFIG_FIX, WIZARD_SECTION_IDS, } from './config-json-merge.js';
 export { createBrainSection } from './sections/brain.js';
 export { createHarnessSection } from './sections/harness.js';
 export { createIdentitySection } from './sections/identity.js';
@@ -35,6 +36,7 @@ export { createLlmSection } from './sections/llm.js';
 export { createModelsRolesSection } from './sections/models-roles.js';
 export { createProjectConventionsSection } from './sections/project-conventions.js';
 export { createSentientSection } from './sections/sentient.js';
+export { createSystemOneSection } from './sections/system-one.js';
 export { createTelemetrySection } from './sections/telemetry.js';
 export { createVerificationSection, } from './sections/verification.js';
 export { printWhoamiSummaryAndOfferTui } from './whoami-summary.js';
@@ -45,15 +47,16 @@ export { StubWizardIO, WizardFatalError, WizardInterruptError, WizardRunner, } f
  * Order matters: `cleo setup` walks the list verbatim. The current
  * order is:
  *   1. `llm`                 — credentials are the prerequisite for everything else
- *   2. `models-roles`        — default model + per-role profiles (T11726)
- *   3. `identity`            — agent name / SOUL.md before any agent dispatch
- *   4. `sentient`            — daemon enablement after credentials exist
- *   5. `project-conventions` — strictness preset before harness/brain layering
- *   6. `harness`             — operator selects Pi vs Claude Code (T9425)
- *   7. `brain`               — BRAIN memory bridge mode (T9425)
- *   8. `integrations`        — SignalDock + Studio + Conduit (T9608)
- *   9. `telemetry`           — anonymous skills-usage telemetry (T9673)
- *  10. `verification`        — read-only health checks (T9594)
+ *   2. `system-one`          — optional typed-decision provider (T12713)
+ *   3. `models-roles`        — default model + per-role profiles (T11726)
+ *   4. `identity`            — agent name / SOUL.md before any agent dispatch
+ *   5. `sentient`            — daemon enablement after credentials exist
+ *   6. `project-conventions` — strictness preset before harness/brain layering
+ *   7. `harness`             — operator selects Pi vs Claude Code (T9425)
+ *   8. `brain`               — BRAIN memory bridge mode (T9425)
+ *   9. `integrations`        — SignalDock + Studio + Conduit (T9608)
+ *  10. `telemetry`           — anonymous skills-usage telemetry (T9673)
+ *  11. `verification`        — read-only health checks (T9594)
  *
  * @param llmDeps - Optional dependencies forwarded to the `llm` section — most
  *   notably the interactive OAuth token acquirer (T11727). The CLI surface
@@ -67,10 +70,12 @@ export { StubWizardIO, WizardFatalError, WizardInterruptError, WizardRunner, } f
  * @task T9673
  * @task T11726
  * @task T11727
+ * @task T12713
  */
 export function createBuiltinSections(llmDeps = {}) {
     return [
         createLlmSection(llmDeps),
+        createSystemOneSection(),
         createModelsRolesSection(),
         createIdentitySection(),
         createSentientSection(),

package/dist/setup/index.js.map

@@ -1 +1 @@
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+{"version":3,"file":"index.js","sourceRoot":"","sources":["../../src/setup/index.ts"],"names":[],"mappings":"AAAA;;;;;;;;;;;;;;;GAeG;AAEH,OAAO,EAAE,kBAAkB,EAAE,MAAM,qBAAqB,CAAC;AACzD,OAAO,EAAE,oBAAoB,EAAE,MAAM,uBAAuB,CAAC;AAC7D,OAAO,EAAE,qBAAqB,EAAE,MAAM,wBAAwB,CAAC;AAC/D,OAAO,EAAE,yBAAyB,EAAE,MAAM,4BAA4B,CAAC;AACvE,OAAO,EAAE,gBAAgB,EAAuB,MAAM,mBAAmB,CAAC;AAC1E,OAAO,EAAE,wBAAwB,EAAE,MAAM,4BAA4B,CAAC;AACtE,OAAO,EAAE,+BAA+B,EAAE,MAAM,mCAAmC,CAAC;AACpF,OAAO,EAAE,qBAAqB,EAAE,MAAM,wBAAwB,CAAC;AAC/D,OAAO,EAAE,sBAAsB,EAAE,MAAM,0BAA0B,CAAC;AAClE,OAAO,EAAE,sBAAsB,EAAE,MAAM,yBAAyB,CAAC;AACjE,OAAO,EAAE,yBAAyB,EAAE,MAAM,4BAA4B,CAAC;AACvE,OAAO,EAAE,YAAY,EAA4B,MAAM,aAAa,CAAC;AAErE,gFAAgF;AAChF,OAAO,EACL,eAAe,EACf,oBAAoB,EACpB,qBAAqB,EACrB,kBAAkB,GACnB,MAAM,wBAAwB,CAAC;AAChC,OAAO,EAAE,kBAAkB,EAAE,MAAM,qBAAqB,CAAC;AACzD,OAAO,EAAE,oBAAoB,EAAE,MAAM,uBAAuB,CAAC;AAC7D,OAAO,EAAE,qBAAqB,EAAE,MAAM,wBAAwB,CAAC;AAC/D,OAAO,EAAE,yBAAyB,EAAE,MAAM,4BAA4B,CAAC;AACvE,OAAO,EAAE,gBAAgB,EAAuB,MAAM,mBAAmB,CAAC;AAC1E,OAAO,EAAE,wBAAwB,EAAE,MAAM,4BAA4B,CAAC;AACtE,OAAO,EAAE,+BAA+B,EAAE,MAAM,mCAAmC,CAAC;AACpF,OAAO,EAAE,qBAAqB,EAAE,MAAM,wBAAwB,CAAC;AAC/D,OAAO,EAAE,sBAAsB,EAAE,MAAM,0BAA0B,CAAC;AAClE,OAAO,EAAE,sBAAsB,EAAE,MAAM,yBAAyB,CAAC;AACjE,OAAO,EACL,yBAAyB,GAE1B,MAAM,4BAA4B,CAAC;AACpC,OAAO,EAAE,6BAA6B,EAAE,MAAM,qBAAqB,CAAC;AACpE,OAAO,EACL,YAAY,EACZ,gBAAgB,EAChB,oBAAoB,EAGpB,YAAY,GAKb,MAAM,aAAa,CAAC;AAErB;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;GA8BG;AACH,MAAM,UAAU,qBAAqB,CAAC,UAA0B,EAAE;IAChE,OAAO;QACL,gBAAgB,CAAC,OAAO,CAAC;QACzB,sBAAsB,EAAE;QACxB,wBAAwB,EAAE;QAC1B,qBAAqB,EAAE;QACvB,qBAAqB,EAAE;QACvB,+BAA+B,EAAE;QACjC,oBAAoB,EAAE;QACtB,kBAAkB,EAAE;QACpB,yBAAyB,EAAE;QAC3B,sBAAsB,EAAE;QACxB,yBAAyB,EAAE;KAC5B,CAAC;AACJ,CAAC;AAED;;;;;;;;GAQG;AACH,MAAM,UAAU,yBAAyB,CAAC,UAA0B,EAAE;IACpE,OAAO,IAAI,YAAY,CAAC,qBAAqB,CAAC,OAAO,CAAC,CAAC,CAAC;AAC1D,CAAC"}

package/dist/setup/sections/llm.js

@@ -174,7 +174,7 @@ export function createLlmSection(deps = {}) {
             }
             // 4. Interactive API-key entry.
             const label = (await io.prompt('Label for this credential [default: cli-input]:')) || 'cli-input';
-            const rawApiKey = (await io.prompt('API key (input not echoed in production):')).trim();
+            const rawApiKey = (await io.secret('API key (input hidden):')).trim();
             // LLM-4: strip bracketed paste sequences.
             const apiKey = stripBracketedPaste(rawApiKey);
             if (apiKey === '') {

package/dist/setup/sections/llm.js.map

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package/dist/setup/sections/system-one.d.ts

@@ -0,0 +1,28 @@
+/**
+ * `system-one` setup wizard section (T12713).
+ *
+ * Optional: CLEO works without a typed-decision provider (every decision site
+ * falls back to its heuristic). The section asks first, then runs
+ * {@link runDecideWizard} — provider (layahost recommended), URL for `jev`,
+ * the API key through the hidden {@link WizardIO.secret} prompt, a models
+ * probe, the model, and an optional smoke test.
+ *
+ * Non-interactive runs skip the section: the scripted path is
+ * `printf %s "$KEY" | cleo decide config --provider layahost --key-stdin`.
+ *
+ * @task T12713
+ * @epic T12486
+ */
+import { type DecideWizardOptions } from '../../decide/wizard.js';
+import type { WizardSectionRunner } from '../wizard.js';
+/**
+ * Build the `system-one` section runner.
+ *
+ * `isConfigured()` is true when a valid provider URL and key are stored in
+ * the decide credential store (read-only).
+ *
+ * @param deps - Injectable probe `fetch`, deadline and smoke runner (tests).
+ * @returns A {@link WizardSectionRunner} for the System One section.
+ */
+export declare function createSystemOneSection(deps?: DecideWizardOptions): WizardSectionRunner;
+//# sourceMappingURL=system-one.d.ts.map

package/dist/setup/sections/system-one.d.ts.map

@@ -0,0 +1 @@
+{"version":3,"file":"system-one.d.ts","sourceRoot":"","sources":["../../../src/setup/sections/system-one.ts"],"names":[],"mappings":"AAAA;;;;;;;;;;;;;;GAcG;AAGH,OAAO,EAAE,KAAK,mBAAmB,EAAmB,MAAM,wBAAwB,CAAC;AACnF,OAAO,KAAK,EAIV,mBAAmB,EACpB,MAAM,cAAc,CAAC;AAEtB;;;;;;;;GAQG;AACH,wBAAgB,sBAAsB,CAAC,IAAI,GAAE,mBAAwB,GAAG,mBAAmB,CA8B1F"}

package/dist/setup/sections/system-one.js

@@ -0,0 +1,53 @@
+/**
+ * `system-one` setup wizard section (T12713).
+ *
+ * Optional: CLEO works without a typed-decision provider (every decision site
+ * falls back to its heuristic). The section asks first, then runs
+ * {@link runDecideWizard} — provider (layahost recommended), URL for `jev`,
+ * the API key through the hidden {@link WizardIO.secret} prompt, a models
+ * probe, the model, and an optional smoke test.
+ *
+ * Non-interactive runs skip the section: the scripted path is
+ * `printf %s "$KEY" | cleo decide config --provider layahost --key-stdin`.
+ *
+ * @task T12713
+ * @epic T12486
+ */
+import { describeDecideCredentials } from '../../decide/credentials.js';
+import { runDecideWizard } from '../../decide/wizard.js';
+/**
+ * Build the `system-one` section runner.
+ *
+ * `isConfigured()` is true when a valid provider URL and key are stored in
+ * the decide credential store (read-only).
+ *
+ * @param deps - Injectable probe `fetch`, deadline and smoke runner (tests).
+ * @returns A {@link WizardSectionRunner} for the System One section.
+ */
+export function createSystemOneSection(deps = {}) {
+    return {
+        section: 'system-one',
+        title: 'System One typed decisions (optional)',
+        optional: true,
+        async isConfigured() {
+            return describeDecideCredentials().configured;
+        },
+        async run(io, options) {
+            if (options.nonInteractive) {
+                return {
+                    changed: false,
+                    summary: 'skipped (non-interactive; run `cleo decide config --provider layahost --key-stdin`)',
+                };
+            }
+            const wanted = await io.confirm('Set up System One typed decisions now? CLEO works without it (heuristics answer).', false);
+            if (!wanted)
+                return { changed: false, summary: 'skipped (not now)' };
+            const result = await runDecideWizard(io, {
+                ...deps,
+                ...(options.projectRoot ? { projectRoot: options.projectRoot } : {}),
+            });
+            return { changed: result.configured, summary: result.summary };
+        },
+    };
+}
+//# sourceMappingURL=system-one.js.map

package/dist/setup/sections/system-one.js.map

@@ -0,0 +1 @@
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package/dist/setup/wizard.d.ts

@@ -81,7 +81,7 @@ export declare class WizardFatalError extends Error {
  * @task T9420
  * @task T9607
  */
-export type WizardSection = 'llm' | 'models-roles' | 'identity' | 'harness' | 'sentient' | 'project-conventions' | 'brain' | 'integrations' | 'telemetry' | 'verification';
+export type WizardSection = 'llm' | 'system-one' | 'models-roles' | 'identity' | 'harness' | 'sentient' | 'project-conventions' | 'brain' | 'integrations' | 'telemetry' | 'verification';
 /**
  * Outcome of running a single wizard section.
  *
@@ -282,6 +282,13 @@ export interface WizardOptions {
 export interface WizardIO {
     /** Ask a free-form text question; empty string means "no answer". */
     prompt(question: string): Promise<string>;
+    /**
+     * Ask for a secret (an API key). The answer is not echoed: the CLI mutes
+     * its output stream while the operator types. Empty string means "no answer".
+     *
+     * @task T12714
+     */
+    secret(question: string): Promise<string>;
     /** Yes/no question with an optional default. */
     confirm(question: string, defaultValue?: boolean): Promise<boolean>;
     /** Single-choice selection across a finite option list. */
@@ -511,9 +518,16 @@ export declare class StubWizardIO implements WizardIO {
      */
     constructor(queues?: {
         prompts?: string[];
+        /** Answers for {@link StubWizardIO.secret}; when empty, `secret` reads `prompts`. */
+        secrets?: string[];
         confirms?: boolean[];
         selects?: string[];
     });
+    /**
+     * Answer a secret prompt from the `secrets` queue (else the `prompts`
+     * queue). The history records `***`, never the secret.
+     */
+    secret(question: string): Promise<string>;
     prompt(question: string): Promise<string>;
     confirm(question: string, defaultValue?: boolean): Promise<boolean>;
     select<T extends string>(question: string, options: readonly T[]): Promise<T>;

package/dist/setup/wizard.d.ts.map

@@ -1 +1 @@
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package/dist/setup/wizard.js

@@ -302,10 +302,25 @@ export class StubWizardIO {
         this.queues = queues;
         this.queues = {
             prompts: [...(queues.prompts ?? [])],
+            secrets: [...(queues.secrets ?? [])],
             confirms: [...(queues.confirms ?? [])],
             selects: [...(queues.selects ?? [])],
         };
     }
+    /**
+     * Answer a secret prompt from the `secrets` queue (else the `prompts`
+     * queue). The history records `***`, never the secret.
+     */
+    async secret(question) {
+        const secrets = this.queues.secrets ?? [];
+        const queue = secrets.length > 0 ? secrets : (this.queues.prompts ?? []);
+        if (queue.length === 0) {
+            throw new Error(`StubWizardIO: secret queue exhausted on question '${question}'`);
+        }
+        const answer = queue.shift();
+        this.promptHistory.push({ question, answer: '***' });
+        return answer;
+    }
     async prompt(question) {
         const prompts = this.queues.prompts ?? [];
         if (prompts.length === 0) {

package/dist/setup/wizard.js.map

@@ -1 +1 @@
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package/dist/skills/prune-bundled.d.ts

@@ -59,9 +59,14 @@ export interface BundledLedger {
     skills: Record<string, BundledLedgerEntry>;
     /**
      * Names the user restored from quarantine. The user chose to keep them, so
-     * prune never takes them again.
+     * prune never takes them again — until {@link unkeepSkill} hands one back.
      */
     kept?: string[];
+    /**
+     * Per kept name, the hashes of the copy as restored (T12699). Only an
+     * exact match lets {@link unkeepSkill} return the skill to CLEO.
+     */
+    keptFiles?: Record<string, Record<string, string>>;
 }
 /** What happened to one path. */
 export interface BundledSkillPruneAction {
@@ -228,6 +233,33 @@ export declare function restoreQuarantine(opts: {
     restored: string[];
     conflicts: string[];
 }>;
+/** Outcome of {@link unkeepSkill}. */
+export interface UnkeepResult {
+    /** Skill name. */
+    name: string;
+    /** True when the skill left the kept list. */
+    unkept: boolean;
+    /** True when CLEO owns it again (ledger record restored). */
+    reledgered: boolean;
+    /** Why. */
+    reason: string;
+}
+/**
+ * Hand a kept skill back to CLEO (`cleo skills doctor restore --unkeep
+ * <name>`, T12699).
+ *
+ * Restoring from quarantine marks a skill kept, so prune leaves it alone for
+ * good. This reverses that only when CLEO can prove the canonical copy is
+ * byte-for-byte what came out of quarantine: every file hashes to the
+ * `keptFiles` record. A copy the user changed since the restore, or one
+ * restored before hashes were recorded, stays kept. With no canonical copy
+ * left there is nothing to own, so the name simply leaves the kept list.
+ *
+ * @param skillsRoot - Canonical skills root.
+ * @param name - Kept skill name.
+ * @returns What happened.
+ */
+export declare function unkeepSkill(skillsRoot: string, name: string): Promise<UnkeepResult>;
 /**
  * The real registry: CAAMP's lock file and CLEO's skills.db.
  *
@@ -256,6 +288,13 @@ export declare function restoreBundledSkillQuarantine(id?: string): Promise<{
     restored: string[];
     conflicts: string[];
 }>;
+/**
+ * {@link unkeepSkill} against this machine's canonical skills root.
+ *
+ * @param name - Kept skill name.
+ * @returns What happened.
+ */
+export declare function unkeepBundledSkill(name: string): Promise<UnkeepResult>;
 /**
  * Dry-run the prune `initCoreSkills` would perform against the real bundle,
  * canonical root, harnesses and registries.

package/dist/skills/prune-bundled.d.ts.map

@@ -1 +1 @@
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package/dist/skills/prune-bundled.js

@@ -109,6 +109,30 @@ function matchesLedger(dir, files) {
         return false;
     return want.every((f) => actual[f] === files[f]);
 }
+/**
+ * The `keptFiles` map from raw ledger JSON: skill name → relative path →
+ * hex SHA-256. Anything malformed is dropped.
+ *
+ * @param raw - Parsed `keptFiles` value.
+ * @returns The well-formed entries.
+ */
+function readKeptFiles(raw) {
+    const out = {};
+    if (!raw || typeof raw !== 'object' || Array.isArray(raw))
+        return out;
+    for (const [name, files] of Object.entries(raw)) {
+        if (!files || typeof files !== 'object' || Array.isArray(files))
+            continue;
+        const hashes = {};
+        for (const [rel, hash] of Object.entries(files)) {
+            if (typeof hash === 'string')
+                hashes[rel] = hash;
+        }
+        if (Object.keys(hashes).length > 0)
+            out[name] = hashes;
+    }
+    return out;
+}
 /**
  * Read the bundled-install ledger; an absent, unreadable or older-format
  * ledger yields an empty one (nothing is then provably CLEO's).
@@ -123,7 +147,13 @@ export function readBundledLedger(skillsRoot) {
             const kept = Array.isArray(data.kept)
                 ? data.kept.filter((n) => typeof n === 'string')
                 : [];
-            return { version: 2, skills: data.skills, ...(kept.length > 0 ? { kept } : {}) };
+            const keptFiles = readKeptFiles(data.keptFiles);
+            return {
+                version: 2,
+                skills: data.skills,
+                ...(kept.length > 0 ? { kept } : {}),
+                ...(Object.keys(keptFiles).length > 0 ? { keptFiles } : {}),
+            };
         }
     }
     catch {
@@ -415,20 +445,96 @@ export async function restoreQuarantine(opts) {
     }
     // Restoring is the user choosing to keep the skill: mark it kept rather
     // than re-recording CLEO ownership, or the next prune would take it again.
+    // The restored copy's hashes are kept too, so `unkeepSkill` can later
+    // prove it is still exactly what came out of quarantine (T12699).
     const ledger = readBundledLedger(opts.skillsRoot);
     const kept = new Set(ledger.kept ?? []);
+    const keptFiles = { ...(ledger.keptFiles ?? {}) };
     for (const name of new Set(record.moves.map((m) => m.name))) {
         if (conflicted.has(name))
             continue;
         kept.add(name);
         delete ledger.skills[name];
+        const canonical = join(opts.skillsRoot, name);
+        if (restored.includes(canonical)) {
+            const files = hashTree(canonical);
+            if (Object.keys(files).length > 0)
+                keptFiles[name] = files;
+        }
     }
     ledger.kept = [...kept].sort();
+    if (Object.keys(keptFiles).length > 0)
+        ledger.keptFiles = keptFiles;
     await writeLedger(opts.skillsRoot, ledger);
     if (conflicts.length === 0)
         await rm(dir, { recursive: true, force: true });
     return { restored, conflicts };
 }
+/**
+ * Hand a kept skill back to CLEO (`cleo skills doctor restore --unkeep
+ * <name>`, T12699).
+ *
+ * Restoring from quarantine marks a skill kept, so prune leaves it alone for
+ * good. This reverses that only when CLEO can prove the canonical copy is
+ * byte-for-byte what came out of quarantine: every file hashes to the
+ * `keptFiles` record. A copy the user changed since the restore, or one
+ * restored before hashes were recorded, stays kept. With no canonical copy
+ * left there is nothing to own, so the name simply leaves the kept list.
+ *
+ * @param skillsRoot - Canonical skills root.
+ * @param name - Kept skill name.
+ * @returns What happened.
+ */
+export async function unkeepSkill(skillsRoot, name) {
+    const ledger = readBundledLedger(skillsRoot);
+    const kept = new Set(ledger.kept ?? []);
+    if (!kept.has(name)) {
+        return { name, unkept: false, reledgered: false, reason: 'not on the kept list' };
+    }
+    const canonical = join(skillsRoot, name);
+    const recorded = ledger.keptFiles?.[name];
+    const forget = async (reledger) => {
+        kept.delete(name);
+        ledger.kept = [...kept].sort();
+        if (ledger.keptFiles)
+            delete ledger.keptFiles[name];
+        if (reledger)
+            ledger.skills[name] = { installedAt: new Date().toISOString(), files: reledger };
+        await writeLedger(skillsRoot, ledger);
+    };
+    if (!existsSync(canonical)) {
+        await forget(null);
+        return {
+            name,
+            unkept: true,
+            reledgered: false,
+            reason: 'no canonical copy left; removed from the kept list',
+        };
+    }
+    if (!recorded) {
+        return {
+            name,
+            unkept: false,
+            reledgered: false,
+            reason: 'no hashes were recorded when it was restored, so CLEO cannot prove the copy is unchanged; it stays kept',
+        };
+    }
+    if (!matchesLedger(canonical, recorded)) {
+        return {
+            name,
+            unkept: false,
+            reledgered: false,
+            reason: 'the copy changed since it was restored (hashes differ); it stays kept',
+        };
+    }
+    await forget(recorded);
+    return {
+        name,
+        unkept: true,
+        reledgered: true,
+        reason: 'identical to the restored copy; CLEO owns it again, so the next prune may quarantine it',
+    };
+}
 /**
  * The real registry: CAAMP's lock file and CLEO's skills.db.
  *
@@ -519,6 +625,16 @@ export async function restoreBundledSkillQuarantine(id) {
         registry: await defaultPruneRegistry(),
     });
 }
+/**
+ * {@link unkeepSkill} against this machine's canonical skills root.
+ *
+ * @param name - Kept skill name.
+ * @returns What happened.
+ */
+export async function unkeepBundledSkill(name) {
+    const { resolveSkillsRoot } = await import('./skill-root.js');
+    return unkeepSkill(resolveSkillsRoot(), name);
+}
 /**
  * Dry-run the prune `initCoreSkills` would perform against the real bundle,
  * canonical root, harnesses and registries.