@nexus-cortex/cli 4.26.0

package/dist/commands/autoresearch/experiment.js.map

@@ -0,0 +1 @@
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package/dist/commands/autoresearch/fix.d.ts

@@ -0,0 +1,10 @@
+export interface AutoResearchFixOptions {
+    cwd?: string;
+    prompt?: string;
+    promptFile?: string;
+    model?: string;
+    maxIterations?: string;
+    json?: boolean;
+}
+export declare function autoResearchFix(options: AutoResearchFixOptions): Promise<void>;
+//# sourceMappingURL=fix.d.ts.map

package/dist/commands/autoresearch/fix.d.ts.map

@@ -0,0 +1 @@
+{"version":3,"file":"fix.d.ts","sourceRoot":"","sources":["../../../src/commands/autoresearch/fix.ts"],"names":[],"mappings":"AAqBA,MAAM,WAAW,sBAAsB;IACrC,GAAG,CAAC,EAAE,MAAM,CAAC;IACb,MAAM,CAAC,EAAE,MAAM,CAAC;IAChB,UAAU,CAAC,EAAE,MAAM,CAAC;IACpB,KAAK,CAAC,EAAE,MAAM,CAAC;IACf,aAAa,CAAC,EAAE,MAAM,CAAC;IACvB,IAAI,CAAC,EAAE,OAAO,CAAC;CAChB;AAED,wBAAsB,eAAe,CAAC,OAAO,EAAE,sBAAsB,GAAG,OAAO,CAAC,IAAI,CAAC,CAiEpF"}

package/dist/commands/autoresearch/fix.js

@@ -0,0 +1,86 @@
+/**
+ * `cortex autoresearch fix` — headless, autonomous coding-agent edit of a worktree.
+ *
+ * The auto-research swarm's Fixer needs a PRODUCTION way to make a candidate edit
+ * on disk (NOT the Vite dev server, which is dev-only). `cortex message` is just
+ * an HTTP client to a running server; this runs the orchestrator IN-PROCESS with
+ * the real Edit/Write/Bash executors, `permissionMode: 'auto'` (YOLO — no
+ * approval prompts), scoped to `--cwd` (the candidate worktree). It EDITS but
+ * does NOT commit — the caller (the swarm Fixer) does `git add -A` + commit, so
+ * the candidate ref differs from base.
+ *
+ * BOUNDARY: the cortex harness owns this invocation (editing harness code with its own
+ * executors is the harness's domain); the swarm owns WHICH deficiency/strategy
+ * and the commit/FWER orchestration. The prompt is supplied by the caller
+ * (deficiency description + repro + strategy flavor) and MUST NOT contain task
+ * sets — that overfitting trip-wire is the caller's structural guarantee.
+ */
+import { readFileSync } from 'node:fs';
+import { createOrchestrator } from '@nexus-cortex/core';
+import { ThemeManager } from '../../themes/ThemeManager.js';
+export async function autoResearchFix(options) {
+    const theme = ThemeManager.getTheme();
+    const json = !!options.json;
+    const cwd = options.cwd ?? process.cwd();
+    const model = options.model ?? process.env.DEFAULT_MODEL_ID ?? 'deepseek-v4-flash';
+    const prompt = options.promptFile ? readFileSync(options.promptFile, 'utf8') : options.prompt;
+    if (!prompt) {
+        console.error(theme.colors.error('Error: provide --prompt <text> or --prompt-file <path>'));
+        process.exit(1);
+    }
+    // Headless autonomous edit: no MCP overhead, no router auto-record noise.
+    if (options.maxIterations)
+        process.env.MAX_TOOL_ITERATIONS = options.maxIterations;
+    process.env.MCP_AUTO_INJECT = process.env.MCP_AUTO_INJECT ?? 'false';
+    process.env.MODEL_ROUTER_RECORD = 'false';
+    try {
+        const orchestrator = await createOrchestrator({
+            projectPath: cwd,
+            workingDirectory: cwd,
+            defaultModelId: model,
+            permissionMode: 'auto', // YOLO — autonomous, no approval prompts
+        });
+        await orchestrator.createSession(cwd, model);
+        if (!json)
+            console.log(theme.colors.muted(` fixing in ${cwd} with ${model}…`));
+        const response = await orchestrator.sendMessage(prompt, { modelId: model });
+        const toolUses = Array.isArray(response?.toolUses) ? response.toolUses : [];
+        const editTools = toolUses.filter(t => /^(Edit|Write|MultiEdit|ApplyPatch)$/i.test(t?.name ?? ''));
+        const filesEdited = [...new Set(editTools.map(t => t?.input?.file_path ?? t?.input?.path).filter(Boolean))];
+        const iterations = response?.metadata?.toolCallIterations ?? 0;
+        const text = typeof response?.content === 'string'
+            ? response.content
+            : Array.isArray(response?.content)
+                ? response.content.filter((b) => b?.type === 'text' || typeof b?.text === 'string').map((b) => b.text ?? '').join('')
+                : '';
+        const out = {
+            cwd,
+            model: response?.model?.id ?? model,
+            changed: editTools.length > 0,
+            filesEdited,
+            toolCallCount: toolUses.length,
+            iterations,
+            summary: text.slice(0, 2000),
+        };
+        if (json) {
+            console.log(JSON.stringify(out, null, 2));
+        }
+        else {
+            console.log();
+            console.log(` ${theme.colors.highlight('Edited')}     ${out.changed ? theme.colors.success(filesEdited.join(', ') || `${editTools.length} edit(s)`) : theme.colors.muted('no file edits')}`);
+            console.log(` ${theme.colors.highlight('Tools')}      ${out.toolCallCount} call(s) over ${iterations} iteration(s)`);
+            console.log(theme.colors.muted(` (uncommitted — the caller commits to produce the candidate ref)`));
+            console.log();
+        }
+        // Orchestrator may hold timers/handles; exit cleanly after a one-shot edit.
+        process.exit(0);
+    }
+    catch (error) {
+        if (json)
+            console.log(JSON.stringify({ error: error.message }, null, 2));
+        else
+            console.error(theme.colors.error(`Error: ${error.message}`));
+        process.exit(1);
+    }
+}
+//# sourceMappingURL=fix.js.map

package/dist/commands/autoresearch/fix.js.map

@@ -0,0 +1 @@
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package/dist/commands/autoresearch/harnessProcess.d.ts

@@ -0,0 +1,48 @@
+import type { HarnessRunner } from '@nexus-cortex/core';
+/** HarnessRunner that drives a running cortex server's /v1/messages endpoint. */
+export declare function serverRunner(serverUrl: string, model: string | undefined): HarnessRunner;
+/** Ask the OS for a free TCP port. */
+export declare function freePort(): Promise<number>;
+/** Short git SHA of a checkout (the harness version label). 'unknown' off-git. */
+export declare function gitShortSha(dir: string): string;
+/** `npm run build` in a checkout. Rejects on non-zero exit (build.sh exits 0 on
+ *  the expected/suppressed executors Pass-1 errors, so a non-zero here is real). */
+export declare function buildDir(dir: string, log: (m: string) => void): Promise<void>;
+export interface ServerHandle {
+    url: string;
+    stop: () => void;
+}
+/**
+ * Spawn a cortex server from a checkout on a given port and wait for /health.
+ * MODEL_ROUTER_RECORD is forced off so the server's own auto-record (the flat-75
+ * stub) never pollutes the shared experiment store — only the bench's graded
+ * records count.
+ */
+export declare function startServer(dir: string, port: number, log: (m: string) => void, opts?: {
+    healthTimeoutMs?: number;
+}): Promise<ServerHandle>;
+export interface PreparedArm {
+    /** The runner the bench drives for this arm. */
+    runner: HarnessRunner;
+    /** Tear down anything the arm started (server process, etc.). Idempotent. */
+    stop(): void;
+}
+export interface PrepareArmOptions {
+    /** Port reserved for this arm — server targets bind it, command targets ignore it. */
+    port: number;
+    /** Model id for endpoint targets (ignored by command targets). */
+    model?: string;
+    /** Build the checkout before running it. */
+    build: boolean;
+    log: (m: string) => void;
+}
+export interface ExperimentTarget {
+    readonly kind: string;
+    prepare(dir: string, opts: PrepareArmOptions): Promise<PreparedArm>;
+}
+/** Default target: build with `npm run build`, serve the cortex server, drive /v1/messages. */
+export declare class CortexTarget implements ExperimentTarget {
+    readonly kind = "cortex";
+    prepare(dir: string, opts: PrepareArmOptions): Promise<PreparedArm>;
+}
+//# sourceMappingURL=harnessProcess.d.ts.map

package/dist/commands/autoresearch/harnessProcess.d.ts.map

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package/dist/commands/autoresearch/harnessProcess.js

@@ -0,0 +1,140 @@
+/**
+ * harnessProcess — process lifecycle for benching a built harness.
+ *
+ * `cortex autoresearch experiment` needs to run TWO harness builds (base +
+ * candidate) as live servers so the bench can actually exercise different code.
+ * This module owns the subprocess side: build a checkout, start its server on an
+ * isolated port, health-check it, and tear it down. `serverRunner` is the
+ * `HarnessRunner` that POSTs prompts to a running server (shared with
+ * `cortex autoresearch bench`).
+ */
+import { spawn } from 'node:child_process';
+import * as net from 'node:net';
+import * as path from 'node:path';
+import { execFileSync } from 'node:child_process';
+/** HarnessRunner that drives a running cortex server's /v1/messages endpoint. */
+export function serverRunner(serverUrl, model) {
+    return {
+        async run(prompt, opts) {
+            const useModel = opts?.model ?? model;
+            const started = Date.now();
+            const resp = await fetch(`${serverUrl}/v1/messages`, {
+                method: 'POST',
+                headers: { 'Content-Type': 'application/json' },
+                body: JSON.stringify({ model: useModel, messages: [{ role: 'user', content: prompt }] }),
+            });
+            if (!resp.ok)
+                throw new Error(`server ${resp.status}: ${(await resp.text()).slice(0, 200)}`);
+            const data = await resp.json();
+            const content = data.content;
+            const text = typeof content === 'string'
+                ? content
+                : Array.isArray(content)
+                    ? content.filter((b) => b?.type === 'text' || typeof b?.text === 'string').map((b) => b.text ?? '').join('')
+                    : String(content ?? '');
+            // The server returns `model` as an OBJECT ({id, provider}), not a string —
+            // extract the id (fall back to the requested model).
+            const m = data.model;
+            const modelId = typeof m === 'string' ? m
+                : (m && typeof m === 'object' && typeof m.id === 'string') ? m.id
+                    : useModel;
+            return {
+                text,
+                modelId,
+                inputTokens: data.usage?.inputTokens ?? 0,
+                outputTokens: data.usage?.outputTokens ?? 0,
+                toolCallCount: Array.isArray(data.toolUses) ? data.toolUses.length : (data.metadata?.toolCallIterations ?? 0),
+                latencyMs: Date.now() - started,
+            };
+        },
+    };
+}
+const sleep = (ms) => new Promise(r => setTimeout(r, ms));
+/** Ask the OS for a free TCP port. */
+export function freePort() {
+    return new Promise((resolve, reject) => {
+        const srv = net.createServer();
+        srv.once('error', reject);
+        srv.listen(0, () => {
+            const port = srv.address().port;
+            srv.close(() => resolve(port));
+        });
+    });
+}
+/** Short git SHA of a checkout (the harness version label). 'unknown' off-git. */
+export function gitShortSha(dir) {
+    try {
+        return execFileSync('git', ['-C', dir, 'rev-parse', '--short', 'HEAD'], {
+            encoding: 'utf8', timeout: 4000, stdio: ['ignore', 'pipe', 'ignore'],
+        }).trim() || 'unknown';
+    }
+    catch {
+        return 'unknown';
+    }
+}
+/** `npm run build` in a checkout. Rejects on non-zero exit (build.sh exits 0 on
+ *  the expected/suppressed executors Pass-1 errors, so a non-zero here is real). */
+export function buildDir(dir, log) {
+    return new Promise((resolve, reject) => {
+        log(`build ${dir}`);
+        const proc = spawn('npm', ['run', 'build'], { cwd: dir, stdio: ['ignore', 'ignore', 'pipe'] });
+        let err = '';
+        proc.stderr?.on('data', d => { err += String(d); });
+        proc.once('error', reject);
+        proc.once('exit', code => code === 0 ? resolve() : reject(new Error(`build failed in ${dir} (exit ${code}): ${err.slice(-400)}`)));
+    });
+}
+/**
+ * Spawn a cortex server from a checkout on a given port and wait for /health.
+ * MODEL_ROUTER_RECORD is forced off so the server's own auto-record (the flat-75
+ * stub) never pollutes the shared experiment store — only the bench's graded
+ * records count.
+ */
+export async function startServer(dir, port, log, opts = {}) {
+    const entry = path.join(dir, 'packages', 'server', 'dist', 'index.js');
+    log(`serve ${dir} on :${port}`);
+    const proc = spawn('node', [entry], {
+        cwd: dir,
+        // The server resolves the orchestrator's project context from PROJECT_PATH
+        // (falling back to cwd) — NOT PROJECT_ROOT. Set both so the candidate's
+        // .cortex/ (system messages, CORTEX.md, agents) resolves to its own dir
+        // regardless of cwd, so a candidate's project-level config actually takes.
+        env: { ...process.env, PORT: String(port), PROJECT_PATH: dir, PROJECT_ROOT: dir, MODEL_ROUTER_RECORD: 'false' },
+        stdio: ['ignore', 'ignore', 'pipe'],
+    });
+    let stderr = '';
+    proc.stderr?.on('data', d => { stderr += String(d); });
+    let exited = false;
+    proc.once('exit', () => { exited = true; });
+    const url = `http://localhost:${port}`;
+    const stop = () => { try {
+        proc.kill('SIGTERM');
+    }
+    catch { /* */ } };
+    const deadline = Date.now() + (opts.healthTimeoutMs ?? 60_000);
+    while (Date.now() < deadline) {
+        if (exited) {
+            throw new Error(`server (${dir}) exited before ready: ${stderr.slice(-400)}`);
+        }
+        try {
+            const r = await fetch(`${url}/health`, { signal: AbortSignal.timeout(2000) });
+            if (r.ok)
+                return { url, stop };
+        }
+        catch { /* not up yet */ }
+        await sleep(500);
+    }
+    stop();
+    throw new Error(`server (${dir}) did not become healthy within timeout: ${stderr.slice(-400)}`);
+}
+/** Default target: build with `npm run build`, serve the cortex server, drive /v1/messages. */
+export class CortexTarget {
+    kind = 'cortex';
+    async prepare(dir, opts) {
+        if (opts.build)
+            await buildDir(dir, opts.log);
+        const server = await startServer(dir, opts.port, opts.log);
+        return { runner: serverRunner(server.url, opts.model), stop: () => server.stop() };
+    }
+}
+//# sourceMappingURL=harnessProcess.js.map

package/dist/commands/autoresearch/harnessProcess.js.map

@@ -0,0 +1 @@
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package/dist/commands/autoresearch/list.d.ts

@@ -0,0 +1,6 @@
+export interface AutoResearchListOptions {
+    decision?: string;
+    json?: boolean;
+}
+export declare function autoResearchList(options: AutoResearchListOptions): Promise<void>;
+//# sourceMappingURL=list.d.ts.map

package/dist/commands/autoresearch/list.d.ts.map

@@ -0,0 +1 @@
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package/dist/commands/autoresearch/list.js

@@ -0,0 +1,38 @@
+/**
+ * `cortex autoresearch list` — show recorded keep/discard decisions from
+ * `.cortex/experiments.jsonl` (latest snapshot per experimentTag).
+ */
+import { ExperimentLedger } from '@nexus-cortex/core';
+import { ThemeManager } from '../../themes/ThemeManager.js';
+import { findProjectRoot } from '../config/utils.js';
+export async function autoResearchList(options) {
+    const theme = ThemeManager.getTheme();
+    const ledger = new ExperimentLedger(findProjectRoot());
+    const filter = options.decision
+        ? { decision: options.decision }
+        : {};
+    const records = ledger.list(filter);
+    if (options.json) {
+        console.log(JSON.stringify(records, null, 2));
+        return;
+    }
+    if (records.length === 0) {
+        console.log(theme.colors.muted(' No experiments recorded.'));
+        return;
+    }
+    console.log();
+    for (const r of records) {
+        const decColor = r.decision === 'keep' ? theme.colors.success
+            : r.decision === 'discard' ? theme.colors.error
+                : theme.colors.muted;
+        console.log(` ${decColor(r.decision.toUpperCase().padEnd(8))} ${theme.colors.highlight(r.experimentTag.padEnd(16))} ` +
+            `${r.baseRef}→${r.candidateRef}  ` +
+            `p=${r.pValue ?? '—'} CI[${r.ciLow ?? '—'},${r.ciHigh ?? '—'}] ` +
+            `${r.fwerAdjusted ? '' : theme.colors.muted('(unadjusted) ')}` +
+            `${r.results.length} task(s)`);
+    }
+    console.log();
+    console.log(theme.colors.muted(` ${records.length} experiment(s)`));
+    console.log();
+}
+//# sourceMappingURL=list.js.map

package/dist/commands/autoresearch/list.js.map

@@ -0,0 +1 @@
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package/dist/commands/autoresearch/loop.d.ts

@@ -0,0 +1,26 @@
+export interface AutoResearchLoopOptions {
+    repo?: string;
+    taskSet?: string;
+    holdoutSet?: string;
+    runCmd?: string;
+    buildCmd?: string;
+    acceptExit?: string;
+    runs?: string;
+    model?: string;
+    prompt?: string;
+    fixerCmd?: string;
+    maxRounds?: string;
+    maxStale?: string;
+    successMetric?: string;
+    baseRef?: string;
+    branch?: string;
+    cortexDir?: string;
+    keepWorktrees?: boolean;
+    json?: boolean;
+    /** Effectiveness-arm labels passed through to each round's experiment, recorded with
+     *  every scored run so the matrix can rank (model × temperature × strategy). */
+    temperature?: string;
+    strategy?: string;
+}
+export declare function autoResearchLoop(options: AutoResearchLoopOptions): Promise<void>;
+//# sourceMappingURL=loop.d.ts.map

package/dist/commands/autoresearch/loop.d.ts.map

@@ -0,0 +1 @@
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