devworkspace 0.2.0 → 0.2.1

package/dist/services/analysis.js.map

@@ -1 +1 @@
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path from 'node:path';\nimport { randomUUID } from 'node:crypto';\nimport { SCHEMA_VERSION, validateCommands, type AnalysisState, type CommandEntry, type CommandsFile } from '../config/schemas.js';\nimport { TRUST_NOTE } from '../discovery/commands.js';\nimport { detectProject, type DiscoveryReport } from '../discovery/detect.js';\nimport { scanProject } from '../discovery/scan.js';\nimport { getGitState } from '../git/git.js';\nimport { inspectAll, type IntegrationReport } from '../integrations/index.js';\nimport { buildFact, loadFacts, saveFacts, upsertFact, type FactInput } from '../knowledge/facts.js';\nimport { loadProject } from '../core/workspace.js';\nimport { readVersioned, writeVersioned } from '../core/versioned.js';\nimport { packageVersion } from '../core/version.js';\nimport { pathExists, sha256Text, writeJsonIfChanged, writeTextIfChanged } from '../utils/fs.js';\nimport { isSensitiveFile } from '../security/files.js';\nimport { buildOnboardingPrompt } from 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max);\n}\n\n/** Facts derived purely from deterministic detection. They are re-derived on every analyze/refresh. */\nexport function detectorFacts(d: DiscoveryReport): FactInput[] {\n  const out: FactInput[] = [];\n  const add = (key: string, value: string, source: string, sources: string[] = []): void => {\n    out.push({ key, value, source, sourceType: 'detector', sources, confidence: 'HIGH', status: 'DETECTED' });\n  };\n  const manifests = ['package.json', 'pyproject.toml', 'requirements.txt', 'go.mod', 'Cargo.toml', 'pom.xml', 'composer.json'];\n  const present = (f: string): boolean => d.frameworks.some((x) => x.evidence === f) || d.commands.some((c) => c.source?.startsWith(f));\n  if (d.ecosystems.length > 0) {\n    add('stack.ecosystems', d.ecosystems.join(', '), 'repository manifests', manifests.filter(present));\n  }\n  if (d.languages.length > 0) {\n    add('stack.languages', d.languages.slice(0, 6).map((l) => `${l.name} (${l.files} files)`).join(', '), 'file extension counts');\n  }\n  if (d.packageManager) add('stack.package-manager', d.packageManager, 'lockfiles / package manifests');\n  if (d.frameworks.length > 0) {\n    add('stack.frameworks', d.frameworks.map((f) => f.name).join(', '), 'dependency manifests', [...new Set(d.frameworks.map((f) => f.evidence))].slice(0, 10));\n  }\n  if (d.monorepo.tool) {\n    add('repo.monorepo', `${d.monorepo.tool}: ${d.monorepo.packages.map((p) => p.path).slice(0, 30).join(', ') || 'packages not enumerated'}`, 'workspace configuration');\n  }\n  if (d.ci.length > 0) add('repo.ci', d.ci.join(', '), 'CI configuration', existingFiles(d.ci));\n  if (d.docker.length > 0) add('repo.docker', d.docker.join(', '), 'container files', existingFiles(d.docker));\n  if (d.deployment.length > 0) add('repo.deployment-hints', d.deployment.join(', '), 'deployment configuration', existingFiles(d.deployment));\n  if (d.testConfigs.length > 0) add('repo.test-configs', d.testConfigs.join(', '), 'test configuration files', existingFiles(d.testConfigs));\n  if (d.aiInstructions.length > 0) add('repo.ai-instructions', d.aiInstructions.join(', '), 'existing agent instruction files', existingFiles(d.aiInstructions));\n  return out;\n}\n\nexport async function applyDetectorFacts(ws: Ws, d: DiscoveryReport, now: string): Promise<{ written: string[]; skipped: string[]; retired: string[] }> {\n  const facts = await loadFacts(ws);\n  const written: string[] = [];\n  const skipped: string[] = [];\n  const keys = new Set<string>();\n  for (const input of detectorFacts(d)) {\n    keys.add(input.key);\n    const existing = facts.facts.find((f) => f.key === input.key);\n    try {\n      const fact = await buildFact(ws.root, input, now, existing);\n      const action = upsertFact(facts, fact);\n      if (action !== 'unchanged') written.push(input.key);\n    } catch {\n      skipped.push(input.key);\n    }\n  }\n  // Detector facts that no longer apply are dropped: they are derived data, recreated if the evidence returns,\n  // and leaving them as STALE would produce a warning that no human or agent action can clear.\n  const retired = facts.facts.filter((f) => f.sourceType === 'detector' && !keys.has(f.key)).map((f) => f.key);\n  if (retired.length > 0) facts.facts = facts.facts.filter((f) => !retired.includes(f.key));\n  await saveFacts(ws, facts);\n  return { written, skipped, retired };\n}\n\nexport async function writeCommands(ws: Ws, detected: CommandEntry[]): Promise<boolean> {\n  let previous: CommandsFile | null = null;\n  if (await pathExists(ws.commands)) {\n    try {\n      previous = (await readVersioned(ws.commands, 'commands', SCHEMA_VERSION, validateCommands)).data;\n    } catch {\n      previous = null;\n    }\n  }\n  // Entries a human or the agent edited (origin \"user\") are never overwritten by detection.\n  const merged = detected.map((d) => previous?.checks.find((p) => p.id === d.id && p.origin === 'user') ?? d);\n  const file: CommandsFile = { schemaVersion: SCHEMA_VERSION, trustNote: TRUST_NOTE, checks: merged };\n  validateCommands(file);\n  await writeVersioned(ws, ws.commands, file);\n  return true;\n}\n\nexport interface AnalyzeResult {\n  dryRun: boolean;\n  projectName: string;\n  files: { discovery: string; onboardingPrompt: string; commands: string };\n  discovery: DiscoveryReport;\n  facts: { written: string[]; skipped: string[]; retired: string[] };\n  integrations: IntegrationReport[];\n  promptBytes: number;\n  nextSteps: string[];\n}\n\nexport async function analyzeWorkspace(ws: Ws, o: ServiceOptions): Promise<AnalyzeResult> {\n  const project = await loadProject(ws);\n  const now = isoNow(o);\n  const run = await runDiscovery(ws, project.name, project.settings.maxFiles);\n  const integrations = await inspectAll(ws, managerEnv(o, ws.root), { deep: false });\n  const existingAgentFiles = await claudeAdapter.detectExisting(ws.root);\n  const prompt = buildOnboardingPrompt({\n    projectName: project.name,\n    discovery: run.discovery,\n    integrations,\n    git: run.git,\n    existingAgentFiles,\n    cliVersion: packageVersion(),\n  });\n  const rel = (p: string): string => path.relative(ws.root, p).replace(/\\\\/g, '/');\n  const files = { discovery: rel(ws.discovery), onboardingPrompt: rel(ws.onboardingPrompt), commands: rel(ws.commands) };\n  const nextSteps = [\n    `Open ${files.onboardingPrompt}`,\n    'Paste it into Claude Code (or Claude in VS Code) in this project and let it finish onboarding.',\n    'Then run: devworkspace doctor',\n  ];\n  if (o.dryRun) {\n    return { dryRun: true, projectName: project.name, files, discovery: run.discovery, facts: { written: [], skipped: [], retired: [] }, integrations, promptBytes: prompt.length, nextSteps };\n  }\n\n  await writeJsonIfChanged(ws.discovery, run.discovery);\n  await writeCommands(ws, run.discovery.commands);\n  const facts = await applyDetectorFacts(ws, run.discovery, now);\n  await writeTextIfChanged(ws.onboardingPrompt, prompt);\n  const state: AnalysisState = {\n    schemaVersion: SCHEMA_VERSION,\n    analyzedAt: now,\n    refreshedAt: null,\n    gitHead: run.gitHead,\n    fileCount: run.discovery.scan.fileCount,\n    truncated: run.discovery.scan.truncated,\n    discoveryHash: sha256Text(JSON.stringify(run.discovery)),\n  };\n  await writeVersioned(ws, ws.analysisState, state);\n  return { dryRun: false, projectName: project.name, files, discovery: run.discovery, facts, integrations, promptBytes: prompt.length, nextSteps };\n}\n\nexport function newProjectId(): string {\n  return randomUUID();\n}\n"]}
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path from 'node:path';\nimport { randomUUID } from 'node:crypto';\nimport { SCHEMA_VERSION, validateCommands, type AnalysisState, type CommandEntry, type CommandsFile } from '../config/schemas.js';\nimport { TRUST_NOTE, mergeContract } from '../discovery/commands.js';\nimport { detectProject, type DiscoveryReport } from '../discovery/detect.js';\nimport { scanProject } from '../discovery/scan.js';\nimport { getGitState } from '../git/git.js';\nimport { inspectAll, type IntegrationReport } from '../integrations/index.js';\nimport { buildFact, loadFacts, saveFacts, upsertFact, type FactInput } from '../knowledge/facts.js';\nimport { loadProject } from '../core/workspace.js';\nimport { readVersioned, writeVersioned } from '../core/versioned.js';\nimport { packageVersion } from '../core/version.js';\nimport { pathExists, sha256Text, writeJsonIfChanged, writeTextIfChanged } from '../utils/fs.js';\nimport { isSensitiveFile } from '../security/files.js';\nimport { buildOnboardingPrompt } from '../prompts/onboarding.js';\nimport { claudeAdapter } from '../agents/claude/adapter.js';\nimport type { Ws } from '../core/workspace.js';\nimport { isoNow, managerEnv, type ServiceOptions } from './common.js';\n\nexport interface DiscoveryRun {\n  discovery: DiscoveryReport;\n  gitHead: string | null;\n  git: { isRepo: boolean; branch: string | null; dirty: boolean; changedFiles: number };\n}\n\nexport async function runDiscovery(ws: Ws, projectName: string, maxFiles?: number): Promise<DiscoveryRun> {\n  const scan = await scanProject(ws.root, maxFiles ? { maxFiles } : {});\n  const [discovery, git] = await Promise.all([detectProject({ root: ws.root, projectName, scan }), getGitState(ws.root)]);\n  return {\n    discovery,\n    gitHead: git.head,\n    git: { isRepo: git.isRepo, branch: git.branch, dirty: git.dirty, changedFiles: git.entries.length },\n  };\n}\n\nfunction existingFiles(files: string[], max = 10): string[] {\n  return files.filter((f) => !isSensitiveFile(f)).slice(0, max);\n}\n\n/** Facts derived purely from deterministic detection. They are re-derived on every analyze/refresh. */\nexport function detectorFacts(d: DiscoveryReport): FactInput[] {\n  const out: FactInput[] = [];\n  const add = (key: string, value: string, source: string, sources: string[] = []): void => {\n    out.push({ key, value, source, sourceType: 'detector', sources, confidence: 'HIGH', status: 'DETECTED' });\n  };\n  if (d.ecosystems.length > 0) {\n    add('stack.ecosystems', d.ecosystems.join(', '), 'repository manifests', d.manifests.slice(0, 20));\n  }\n  if (d.languages.length > 0) {\n    add('stack.languages', d.languages.slice(0, 6).map((l) => `${l.name} (${l.files} files)`).join(', '), 'file extension counts');\n  }\n  if (d.packageManager) add('stack.package-manager', d.packageManager, 'lockfiles / package manifests');\n  if (d.frameworks.length > 0) {\n    add('stack.frameworks', d.frameworks.map((f) => f.name).join(', '), 'dependency manifests', [...new Set(d.frameworks.map((f) => f.evidence))].slice(0, 10));\n  }\n  if (d.monorepo.packages.length > 0) {\n    add('repo.packages', d.monorepo.packages.slice(0, 40).map((p) => `${p.path} (${p.ecosystem}${p.packageManager ? `, ${p.packageManager}` : ''})`).join(', '), 'package manifests', d.manifests.slice(0, 20));\n  }\n  if (d.monorepo.tool) {\n    add('repo.monorepo', `${d.monorepo.tool}: ${d.monorepo.packages.map((p) => p.path).slice(0, 30).join(', ') || 'packages not enumerated'}`, 'workspace configuration');\n  }\n  if (d.ci.length > 0) add('repo.ci', d.ci.join(', '), 'CI configuration', existingFiles(d.ci));\n  if (d.docker.length > 0) add('repo.docker', d.docker.join(', '), 'container files', existingFiles(d.docker));\n  if (d.deployment.length > 0) add('repo.deployment-hints', d.deployment.join(', '), 'deployment configuration', existingFiles(d.deployment));\n  if (d.testConfigs.length > 0) add('repo.test-configs', d.testConfigs.join(', '), 'test configuration files', existingFiles(d.testConfigs));\n  if (d.aiInstructions.length > 0) add('repo.ai-instructions', d.aiInstructions.join(', '), 'existing agent instruction files', existingFiles(d.aiInstructions));\n  return out;\n}\n\nexport async function applyDetectorFacts(ws: Ws, d: DiscoveryReport, now: string): Promise<{ written: string[]; skipped: string[]; retired: string[] }> {\n  const facts = await loadFacts(ws);\n  const written: string[] = [];\n  const skipped: string[] = [];\n  const keys = new Set<string>();\n  for (const input of detectorFacts(d)) {\n    keys.add(input.key);\n    const existing = facts.facts.find((f) => f.key === input.key);\n    try {\n      const fact = await buildFact(ws.root, input, now, existing);\n      const action = upsertFact(facts, fact);\n      if (action !== 'unchanged') written.push(input.key);\n    } catch {\n      skipped.push(input.key);\n    }\n  }\n  // Detector facts that no longer apply are dropped: they are derived data, recreated if the evidence returns,\n  // and leaving them as STALE would produce a warning that no human or agent action can clear.\n  const retired = facts.facts.filter((f) => f.sourceType === 'detector' && !keys.has(f.key)).map((f) => f.key);\n  if (retired.length > 0) facts.facts = facts.facts.filter((f) => !retired.includes(f.key));\n  await saveFacts(ws, facts);\n  return { written, skipped, retired };\n}\n\nexport interface ContractWrite {\n  preservedUser: number;\n  preservedStale: number;\n  incomplete: boolean;\n}\n\n/**\n * Write the testing contract. Commands a person confirmed (origin \"user\") are never dropped, even when this analysis\n * finds nothing; see mergeContract for the exact rules.\n */\nexport async function writeCommands(ws: Ws, detected: CommandEntry[], opts: { truncated?: boolean } = {}): Promise<ContractWrite> {\n  let previous: CommandsFile | null = null;\n  if (await pathExists(ws.commands)) {\n    previous = (await readVersioned(ws.commands, 'commands', SCHEMA_VERSION, validateCommands)).data;\n  }\n  const merged = mergeContract(previous?.checks ?? null, detected, opts);\n  const file: CommandsFile = { schemaVersion: SCHEMA_VERSION, trustNote: TRUST_NOTE, checks: merged.checks };\n  validateCommands(file);\n  await writeVersioned(ws, ws.commands, file);\n  return { preservedUser: merged.preservedUser, preservedStale: merged.preservedStale, incomplete: merged.incomplete };\n}\n\nexport interface AnalyzeResult {\n  dryRun: boolean;\n  projectName: string;\n  files: { discovery: string; onboardingPrompt: string; commands: string };\n  discovery: DiscoveryReport;\n  facts: { written: string[]; skipped: string[]; retired: string[] };\n  contract: ContractWrite | null;\n  integrations: IntegrationReport[];\n  promptBytes: number;\n  nextSteps: string[];\n}\n\nexport async function analyzeWorkspace(ws: Ws, o: ServiceOptions): Promise<AnalyzeResult> {\n  const project = await loadProject(ws);\n  const now = isoNow(o);\n  const run = await runDiscovery(ws, project.name, project.settings.maxFiles);\n  const integrations = await inspectAll(ws, managerEnv(o, ws.root), { deep: false });\n  const existingAgentFiles = await claudeAdapter.detectExisting(ws.root);\n  const prompt = buildOnboardingPrompt({\n    projectName: project.name,\n    discovery: run.discovery,\n    integrations,\n    git: run.git,\n    existingAgentFiles,\n    cliVersion: packageVersion(),\n  });\n  const rel = (p: string): string => path.relative(ws.root, p).replace(/\\\\/g, '/');\n  const files = { discovery: rel(ws.discovery), onboardingPrompt: rel(ws.onboardingPrompt), commands: rel(ws.commands) };\n  const nextSteps = [\n    `Open ${files.onboardingPrompt}`,\n    'Paste it into Claude Code (or Claude in VS Code) in this project and let it finish onboarding.',\n    'Then run: devworkspace doctor',\n  ];\n  if (o.dryRun) {\n    return { dryRun: true, projectName: project.name, files, discovery: run.discovery, facts: { written: [], skipped: [], retired: [] }, contract: null, integrations, promptBytes: prompt.length, nextSteps };\n  }\n\n  await writeJsonIfChanged(ws.discovery, run.discovery);\n  const contract = await writeCommands(ws, run.discovery.commands, { truncated: run.discovery.scan.truncated });\n  const facts = await applyDetectorFacts(ws, run.discovery, now);\n  await writeTextIfChanged(ws.onboardingPrompt, prompt);\n  const state: AnalysisState = {\n    schemaVersion: SCHEMA_VERSION,\n    analyzedAt: now,\n    refreshedAt: null,\n    gitHead: run.gitHead,\n    fileCount: run.discovery.scan.fileCount,\n    truncated: run.discovery.scan.truncated,\n    discoveryHash: sha256Text(JSON.stringify(run.discovery)),\n  };\n  await writeVersioned(ws, ws.analysisState, state);\n  return { dryRun: false, projectName: project.name, files, discovery: run.discovery, facts, contract, integrations, promptBytes: prompt.length, nextSteps };\n}\n\nexport function newProjectId(): string {\n  return randomUUID();\n}\n"]}

package/dist/services/doctor.js

@@ -11,7 +11,9 @@ import { isSensitiveFile } from '../security/files.js';
 import { findSecrets } from '../security/redact.js';
 import { listDecisions } from '../decisions/decision.js';
 import { listTasks } from '../tasks/task.js';
-import { ensureDir, listFilesRecursive, pathExists, readTextBounded, atomicWriteFile } from '../utils/fs.js';
+import { ensureDir, listFilesRecursive, pathExists, readJsonFile, readTextBounded, atomicWriteFile } from '../utils/fs.js';
+import { ALWAYS_SKIP_DIRS } from '../discovery/scan.js';
+import { isAuxPath } from '../discovery/detect.js';
 import { findAbsolutePaths } from '../utils/paths.js';
 import { instructionsInstalled, knowledgeWritten } from './status.js';
 import { managerEnv } from './common.js';
@@ -48,9 +50,11 @@ export async function runDoctor(o) {
     add('workspace', 'pass', 'Workspace found');
     // Project config and schema compatibility.
     let projectOk = false;
+    let acknowledgedNoVerification = false;
     try {
         const p = await loadProject(ws);
         projectOk = true;
+        acknowledgedNoVerification = p.settings.acknowledgeNoVerification === true;
         add('project', 'pass', `project.json valid (schema v${p.schemaVersion}, id ${p.projectId.slice(0, 8)})`);
     }
     catch (e) {
@@ -113,11 +117,22 @@ export async function runDoctor(o) {
         try {
             const c = (await readVersioned(ws.commands, 'commands', SCHEMA_VERSION, validateCommands)).data;
             add('contract', 'pass', 'Testing contract present');
-            const unit = c.checks.find((x) => x.id === 'unit');
-            if (!unit?.available)
+            if (!c.checks.some((x) => x.id === 'unit' && x.available))
                 add('tests-available', 'warn', 'No unit-test command detected', 'Add a test script or edit .devworkspace/context/commands.json; tasks will not be able to demand tests.');
             if (!c.checks.some((x) => x.id === 'build' && x.available))
                 add('build-available', 'info', 'No build command detected');
+            const configured = c.checks.filter((x) => x.available);
+            if (configured.length > 0) {
+                const ids = [...new Set(configured.map((x) => x.id))];
+                const dirs = [...new Set(configured.map((x) => x.cwd).filter((d) => !!d))];
+                add('verification-commands', 'pass', `${ids.length} verification check(s) configured: ${ids.join(', ')}${dirs.length ? ` (in ${dirs.join(', ')})` : ''}`);
+            }
+            else if (acknowledgedNoVerification) {
+                add('verification-commands', 'info', 'No verification commands; acknowledged in project.json (settings.acknowledgeNoVerification)');
+            }
+            else {
+                add('verification-commands', 'warn', 'No verification commands (tests, lint, typecheck, build) are configured, so tasks cannot require any verification', 'Run: devworkspace analyze. If the project intentionally has none, set "acknowledgeNoVerification": true under settings in .devworkspace/project.json.');
+            }
         }
         catch (e) {
             add('contract', 'fail', e.message.split('\n')[0], 'Fix commands.json or re-run: devworkspace analyze');
@@ -125,6 +140,7 @@ export async function runDoctor(o) {
     }
     else
         add('contract', 'warn', 'Testing contract not generated yet', 'Run: devworkspace analyze');
+    await checkDiscovery(ws, add);
     if (await pathExists(ws.analysisState)) {
         try {
             const a = (await readVersioned(ws.analysisState, 'analysis', SCHEMA_VERSION, validateAnalysisState)).data;
@@ -207,11 +223,69 @@ async function finish(root, checks, fixed, ws, o) {
     for (const c of checks)
         counts[c.status]++;
     let ready = false;
+    const discoveryOk = !checks.some((c) => DISCOVERY_CHECKS.has(c.id) && c.status === 'warn');
     if (ws)
-        ready = counts.fail === 0 && (await instructionsInstalled(ws)) && (await knowledgeWritten(ws));
+        ready = counts.fail === 0 && discoveryOk && (await instructionsInstalled(ws)) && (await knowledgeWritten(ws));
     // Integrations are observed (tools are run), and reported separately: a missing optional tool never makes the core workspace unhealthy.
     const integrations = root && ws ? await inspectAll(ws, managerEnv(o, root), { deep: true }) : [];
     const s = summarize(integrations);
     return { root, checks, counts, healthy: counts.fail === 0, ready, fixed, integrations, integrationSummary: { complete: integrations.length > 0 && s.complete, required: s.required, verified: s.verified } };
 }
+/** Doctor checks that say whether the repository was actually understood, as opposed to the folder merely existing. */
+const DISCOVERY_CHECKS = new Set(['discovery-incomplete', 'discovery-ecosystem', 'verification-commands']);
+/** package.json files near the top of the tree (two levels), found without a full scan. */
+async function findNearbyManifests(root) {
+    const found = [];
+    const skip = (name, rel) => name.startsWith('.') || ALWAYS_SKIP_DIRS.has(name) || isAuxPath(`${rel}/x`);
+    async function dirs(rel) {
+        try {
+            return (await fs.readdir(path.join(root, rel), { withFileTypes: true })).filter((e) => e.isDirectory() && !skip(e.name, rel ? `${rel}/${e.name}` : e.name)).map((e) => (rel ? `${rel}/${e.name}` : e.name));
+        }
+        catch {
+            return [];
+        }
+    }
+    for (const d1 of await dirs('')) {
+        if (await pathExists(path.join(root, d1, 'package.json')))
+            found.push(`${d1}/package.json`);
+        for (const d2 of (await dirs(d1)).slice(0, 100))
+            if (await pathExists(path.join(root, d2, 'package.json')))
+                found.push(`${d2}/package.json`);
+    }
+    return found.sort();
+}
+async function checkDiscovery(ws, add) {
+    if (!(await pathExists(ws.discovery)))
+        return; // "not analyzed yet" is reported by the analysis check
+    let d;
+    try {
+        d = (await readJsonFile(ws.discovery));
+    }
+    catch (e) {
+        add('discovery-ecosystem', 'fail', e.message.split('\n')[0], 'Re-run: devworkspace analyze');
+        return;
+    }
+    const eco = d.ecosystems ?? [];
+    const languages = (d.languages ?? []).map((l) => l.name);
+    // Manifests the analysis recorded. Older reports lack the list, so reconstruct it from the packages they did record.
+    const known = new Set(d.manifests ?? []);
+    for (const p of d.monorepo?.packages ?? [])
+        known.add(`${p.path}/package.json`);
+    if (eco.includes('node'))
+        known.add('package.json');
+    const missed = (await findNearbyManifests(ws.root)).filter((m) => !known.has(m));
+    if (missed.length > 0) {
+        add('discovery-incomplete', 'warn', `The repository has package manifest(s) the last analysis did not record: ${missed.slice(0, 4).join(', ')}${missed.length > 4 ? ', ...' : ''}`, 'Run: devworkspace analyze (current versions detect nested packages). Commands you confirmed earlier are kept.');
+    }
+    else if (eco.length === 0 && languages.length > 0) {
+        add('discovery-ecosystem', 'warn', `No ecosystem was detected although ${d.scan?.fileCount ?? 'several'} files were scanned (${languages.slice(0, 3).join(', ')}), so build and test tooling is unknown`, 'Run: devworkspace analyze. If the project has no package manifest, record its commands by hand in .devworkspace/context/commands.json.');
+    }
+    else if (eco.length > 0) {
+        const n = d.monorepo?.packages?.length ?? 0;
+        add('discovery-ecosystem', 'pass', `Detected ${eco.join(', ')}${n > 0 ? ` (${n} package${n === 1 ? '' : 's'})` : ''}`);
+    }
+    else {
+        add('discovery-ecosystem', 'info', 'No source files or manifests detected');
+    }
+}
 //# sourceMappingURL=doctor.js.map

package/dist/services/doctor.js.map

@@ -1 +1 @@
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ServiceOptions {\n  fix?: boolean;\n  minNodeMajor?: number;\n}\n\nexport const MIN_NODE_MAJOR = 20;\n\nexport async function runDoctor(o: DoctorOptions): Promise<DoctorResult> {\n  const checks: DoctorCheck[] = [];\n  const fixed: string[] = [];\n  const add = (id: string, status: CheckStatus, message: string, remediation?: string): void => {\n    checks.push({ id, status, message, ...(remediation ? { remediation } : {}) });\n  };\n\n  const major = Number(process.versions.node.split('.')[0]);\n  const minNode = o.minNodeMajor ?? MIN_NODE_MAJOR;\n  if (major >= minNode) add('node', 'pass', `Node.js ${process.versions.node}`);\n  else add('node', 'fail', `Node.js ${process.versions.node} is older than the required ${minNode}`, `Install Node.js ${minNode} or newer (https://nodejs.org).`);\n\n  const hasGit = await gitAvailable();\n  if (hasGit) add('git', 'pass', 'Git is available');\n  else add('git', 'warn', 'Git was not found on PATH', 'Install Git; DevWorkspace works without it but cannot protect uncommitted changes.');\n\n  const root = await findWorkspaceRoot(o.cwd);\n  if (!root) {\n    if (await pathExists(path.join(o.cwd, '.devworkspace'))) {\n      add('workspace', 'fail', 'Partial initialization: .devworkspace/ exists but project.json is missing', 'Restore project.json from Git, or run \"devworkspace init\" to complete the setup (existing files are kept).');\n    } else {\n      add('workspace', 'fail', 'No DevWorkspace found in this directory or any parent', 'Run: devworkspace init');\n    }\n    return finish(null, checks, fixed, undefined, o);\n  }\n  const ws = wsPaths(root);\n  add('workspace', 'pass', 'Workspace found');\n\n  // Project config and schema compatibility.\n  let projectOk = false;\n  try {\n    const p = await loadProject(ws);\n    projectOk = true;\n    add('project', 'pass', `project.json valid (schema v${p.schemaVersion}, id ${p.projectId.slice(0, 8)})`);\n  } catch (e) {\n    const code = (e as { code?: string }).code;\n    add('project', 'fail', (e as Error).message.split('\\n')[0]!, code === 'SCHEMA_TOO_NEW' ? 'Upgrade DevWorkspace: npm install -g devworkspace@latest' : 'Restore .devworkspace/project.json from Git, or re-run \"devworkspace init\" after moving the broken file away.');\n  }\n\n  // Layout.\n  const dirs = [ws.contextDir, ws.decisionsDir, ws.tasksActive, ws.tasksCompleted, ws.sessionsDir, ws.analysisDir, ws.stateDir];\n  const missingDirs: string[] = [];\n  for (const d of dirs) if (!(await pathExists(d))) missingDirs.push(d);\n  if (missingDirs.length === 0) add('layout', 'pass', 'Workspace folders present');\n  else if (o.fix && projectOk) {\n    await withLock(ws.dir, async () => {\n      for (const d of missingDirs) await ensureDir(d);\n    });\n    fixed.push(`created ${missingDirs.length} missing folder(s)`);\n    add('layout', 'pass', `Recreated ${missingDirs.length} missing folder(s)`);\n  } else {\n    add('layout', 'warn', `Missing folders: ${missingDirs.map((d) => path.basename(d)).join(', ')}`, 'Run: devworkspace doctor --fix');\n  }\n\n  // Ignore rules.\n  const giOk = await fs.readFile(ws.gitignore, 'utf8').then(\n    (gi) => gi.split(/\\r?\\n/).some((l) => l.trim() === 'local/'),\n    () => false,\n  );\n  if (giOk) add('ignore-local', 'pass', 'Machine-local state is git-ignored');\n  else if (o.fix && projectOk) {\n    await atomicWriteFile(ws.gitignore, LOCAL_GITIGNORE);\n    fixed.push('wrote .devworkspace/.gitignore');\n    add('ignore-local', 'pass', 'Wrote .devworkspace/.gitignore');\n  } else add('ignore-local', 'fail', '.devworkspace/.gitignore does not ignore local/', 'Run: devworkspace doctor --fix');\n\n  try {\n    const rootGi = await fs.readFile(path.join(root, '.gitignore'), 'utf8');\n    if (rootGi.split(/\\r?\\n/).some((l) => /^\\/?\\.devworkspace\\/?\\*?$/.test(l.trim()))) {\n      add('ignore-root', 'warn', 'The root .gitignore ignores all of .devworkspace/, so project knowledge will not be shared', 'Remove that rule; .devworkspace/.gitignore already excludes machine-local files.');\n    }\n  } catch {\n    /* no root .gitignore */\n  }\n\n  // Knowledge and contract.\n  try {\n    const facts = await loadFacts(ws);\n    const stale = facts.facts.filter((f) => f.status === 'STALE');\n    add('facts', 'pass', `${facts.facts.length} fact(s) stored`);\n    if (stale.length > 0) add('staleness', 'warn', `${stale.length} stale fact(s): ${stale.slice(0, 5).map((f) => f.key).join(', ')}`, 'Run: devworkspace refresh');\n    else if (facts.facts.length > 0) add('staleness', 'pass', 'No stale facts recorded');\n  } catch (e) {\n    add('facts', 'fail', (e as Error).message.split('\\n')[0]!, 'Restore .devworkspace/context/facts.json from Git or a backup under .devworkspace/local/backups.');\n  }\n\n  if (await pathExists(ws.commands)) {\n    try {\n      const c = (await readVersioned(ws.commands, 'commands', SCHEMA_VERSION, validateCommands)).data;\n      add('contract', 'pass', 'Testing contract present');\n      const unit = c.checks.find((x) => x.id === 'unit');\n      if (!unit?.available) add('tests-available', 'warn', 'No unit-test command detected', 'Add a test script or edit .devworkspace/context/commands.json; tasks will not be able to demand tests.');\n      if (!c.checks.some((x) => x.id === 'build' && x.available)) add('build-available', 'info', 'No build command detected');\n    } catch (e) {\n      add('contract', 'fail', (e as Error).message.split('\\n')[0]!, 'Fix commands.json or re-run: devworkspace analyze');\n    }\n  } else add('contract', 'warn', 'Testing contract not generated yet', 'Run: devworkspace analyze');\n\n  if (await pathExists(ws.analysisState)) {\n    try {\n      const a = (await readVersioned(ws.analysisState, 'analysis', SCHEMA_VERSION, validateAnalysisState)).data;\n      add('analysis', 'pass', `Last analysis ${a.analyzedAt}${a.truncated ? ' (partial: size limits hit)' : ''}`);\n    } catch (e) {\n      add('analysis', 'fail', (e as Error).message.split('\\n')[0]!, 'Re-run: devworkspace analyze');\n    }\n  } else add('analysis', 'warn', 'Repository has not been analyzed', 'Run: devworkspace analyze');\n\n  // Prompt quality (when present).\n  if (await pathExists(ws.onboardingPrompt)) {\n    const text = (await readTextBounded(ws.onboardingPrompt, 1024 * 1024)) ?? '';\n    const missing = validatePrompt(text, ONBOARDING_REQUIREMENTS);\n    if (missing.length === 0) add('onboarding-prompt', 'pass', 'Onboarding prompt satisfies all behavioural requirements');\n    else add('onboarding-prompt', 'fail', `Onboarding prompt is missing: ${missing.join(', ')}`, 'Re-run: devworkspace analyze');\n  }\n\n  // Agent wiring.\n  if (await instructionsInstalled(ws)) add('agent-instructions', 'pass', 'Claude instructions and skill installed');\n  else add('agent-instructions', 'warn', 'Claude instructions are not installed (or the managed section is missing)', 'Run: devworkspace agent install');\n  if (await knowledgeWritten(ws)) add('onboarding', 'pass', 'Architecture knowledge written');\n  else add('onboarding', 'warn', 'Onboarding is not complete: .devworkspace/context/architecture.md is missing or empty', 'Paste .devworkspace/analysis/onboarding-prompt.md into Claude Code.');\n\n  // Security and portability.\n  const wsFiles = (await listFilesRecursive(ws.dir, 3000)).filter((f) => !f.startsWith(ws.localDir) && !/\\.tmp$/.test(f));\n  const secretHits: string[] = [];\n  const absHits: string[] = [];\n  for (const f of wsFiles) {\n    if (!/\\.(json|md)$/.test(f)) continue;\n    const rel = path.relative(ws.dir, f).replace(/\\\\/g, '/');\n    const text = await readTextBounded(f, 1024 * 1024);\n    if (!text) continue;\n    if (findSecrets(text).length > 0) secretHits.push(rel);\n    if (rel !== 'analysis/onboarding-prompt.md' && rel !== 'analysis/refresh-prompt.md' && findAbsolutePaths(text).length > 0) absHits.push(rel);\n  }\n  if (secretHits.length === 0) add('secrets', 'pass', 'No secret-like values in .devworkspace');\n  else add('secrets', 'fail', `Secret-like values found in: ${secretHits.join(', ')}`, 'Remove the values, rotate the credential if it was real, and re-run doctor.');\n  if (absHits.length === 0) add('portability', 'pass', 'No machine-specific absolute paths in portable knowledge');\n  else add('portability', 'warn', `Absolute paths found in: ${absHits.join(', ')}`, 'Replace them with project-relative paths so the workspace works after the project moves.');\n\n  const git = await getGitState(root);\n  if (git.isRepo) {\n    const tracked = await gitTrackedFiles(root);\n    const bad = (tracked ?? []).filter((f) => isSensitiveFile(f));\n    if (bad.length > 0) add('tracked-secrets', 'warn', `Credential-like files are tracked by Git: ${bad.slice(0, 5).join(', ')}`, 'Remove them from Git history if they hold real secrets (git rm --cached, then rotate).');\n    else add('tracked-secrets', 'pass', 'No credential-like files tracked by Git');\n  }\n\n  const leftovers = wsFiles.filter((f) => f.endsWith('.tmp'));\n  const allTmp = (await listFilesRecursive(ws.dir, 3000)).filter((f) => f.endsWith('.tmp'));\n  if (allTmp.length > 0 || leftovers.length > 0) add('tmp-files', 'warn', `${allTmp.length} leftover temporary file(s) from an interrupted write`, 'They are safe to delete: ' + allTmp.slice(0, 3).map((f) => path.relative(root, f).replace(/\\\\/g, '/')).join(', '));\n\n  // Tasks and decisions.\n  const { tasks, corrupt } = await listTasks(ws, { includeCompleted: true });\n  if (corrupt.length > 0) add('tasks', 'fail', `${corrupt.length} unreadable task file(s): ${corrupt.map((c) => c.file).join(', ')}`, 'Restore them from Git or delete the broken file.');\n  else add('tasks', 'pass', `${tasks.length} task(s) readable`);\n  const dec = await listDecisions(ws);\n  if (dec.unreadable.length > 0) add('decisions', 'warn', `Unreadable decision file(s): ${dec.unreadable.join(', ')}`, 'Check their front matter.');\n\n  return finish(root, checks, fixed, ws, o);\n}\n\nasync function finish(root: string | null, checks: DoctorCheck[], fixed: string[], ws: Ws | undefined, o: DoctorOptions): Promise<DoctorResult> {\n  const counts = { pass: 0, warn: 0, fail: 0, info: 0 };\n  for (const c of checks) counts[c.status]++;\n  let ready = false;\n  if (ws) ready = counts.fail === 0 && (await instructionsInstalled(ws)) && (await knowledgeWritten(ws));\n  // Integrations are observed (tools are run), and reported separately: a missing optional tool never makes the core workspace unhealthy.\n  const integrations = root && ws ? await inspectAll(ws, managerEnv(o, root), { deep: true }) : [];\n  const s = summarize(integrations);\n  return { root, checks, counts, healthy: counts.fail === 0, ready, fixed, integrations, integrationSummary: { complete: integrations.length > 0 && s.complete, required: s.required, verified: s.verified } };\n}\n"]}
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integrationSummary: { complete: boolean; required: number; verified: number };\n}\n\nexport interface DoctorOptions extends ServiceOptions {\n  fix?: boolean;\n  minNodeMajor?: number;\n}\n\nexport const MIN_NODE_MAJOR = 20;\n\nexport async function runDoctor(o: DoctorOptions): Promise<DoctorResult> {\n  const checks: DoctorCheck[] = [];\n  const fixed: string[] = [];\n  const add = (id: string, status: CheckStatus, message: string, remediation?: string): void => {\n    checks.push({ id, status, message, ...(remediation ? { remediation } : {}) });\n  };\n\n  const major = Number(process.versions.node.split('.')[0]);\n  const minNode = o.minNodeMajor ?? MIN_NODE_MAJOR;\n  if (major >= minNode) add('node', 'pass', `Node.js ${process.versions.node}`);\n  else add('node', 'fail', `Node.js ${process.versions.node} is older than the required ${minNode}`, `Install Node.js ${minNode} or newer (https://nodejs.org).`);\n\n  const hasGit = await gitAvailable();\n  if (hasGit) add('git', 'pass', 'Git is available');\n  else add('git', 'warn', 'Git was not found on PATH', 'Install Git; DevWorkspace works without it but cannot protect uncommitted changes.');\n\n  const root = await findWorkspaceRoot(o.cwd);\n  if (!root) {\n    if (await pathExists(path.join(o.cwd, '.devworkspace'))) {\n      add('workspace', 'fail', 'Partial initialization: .devworkspace/ exists but project.json is missing', 'Restore project.json from Git, or run \"devworkspace init\" to complete the setup (existing files are kept).');\n    } else {\n      add('workspace', 'fail', 'No DevWorkspace found in this directory or any parent', 'Run: devworkspace init');\n    }\n    return finish(null, checks, fixed, undefined, o);\n  }\n  const ws = wsPaths(root);\n  add('workspace', 'pass', 'Workspace found');\n\n  // Project config and schema compatibility.\n  let projectOk = false;\n  let acknowledgedNoVerification = false;\n  try {\n    const p = await loadProject(ws);\n    projectOk = true;\n    acknowledgedNoVerification = p.settings.acknowledgeNoVerification === true;\n    add('project', 'pass', `project.json valid (schema v${p.schemaVersion}, id ${p.projectId.slice(0, 8)})`);\n  } catch (e) {\n    const code = (e as { code?: string }).code;\n    add('project', 'fail', (e as Error).message.split('\\n')[0]!, code === 'SCHEMA_TOO_NEW' ? 'Upgrade DevWorkspace: npm install -g devworkspace@latest' : 'Restore .devworkspace/project.json from Git, or re-run \"devworkspace init\" after moving the broken file away.');\n  }\n\n  // Layout.\n  const dirs = [ws.contextDir, ws.decisionsDir, ws.tasksActive, ws.tasksCompleted, ws.sessionsDir, ws.analysisDir, ws.stateDir];\n  const missingDirs: string[] = [];\n  for (const d of dirs) if (!(await pathExists(d))) missingDirs.push(d);\n  if (missingDirs.length === 0) add('layout', 'pass', 'Workspace folders present');\n  else if (o.fix && projectOk) {\n    await withLock(ws.dir, async () => {\n      for (const d of missingDirs) await ensureDir(d);\n    });\n    fixed.push(`created ${missingDirs.length} missing folder(s)`);\n    add('layout', 'pass', `Recreated ${missingDirs.length} missing folder(s)`);\n  } else {\n    add('layout', 'warn', `Missing folders: ${missingDirs.map((d) => path.basename(d)).join(', ')}`, 'Run: devworkspace doctor --fix');\n  }\n\n  // Ignore rules.\n  const giOk = await fs.readFile(ws.gitignore, 'utf8').then(\n    (gi) => gi.split(/\\r?\\n/).some((l) => l.trim() === 'local/'),\n    () => false,\n  );\n  if (giOk) add('ignore-local', 'pass', 'Machine-local state is git-ignored');\n  else if (o.fix && projectOk) {\n    await atomicWriteFile(ws.gitignore, LOCAL_GITIGNORE);\n    fixed.push('wrote .devworkspace/.gitignore');\n    add('ignore-local', 'pass', 'Wrote .devworkspace/.gitignore');\n  } else add('ignore-local', 'fail', '.devworkspace/.gitignore does not ignore local/', 'Run: devworkspace doctor --fix');\n\n  try {\n    const rootGi = await fs.readFile(path.join(root, '.gitignore'), 'utf8');\n    if (rootGi.split(/\\r?\\n/).some((l) => /^\\/?\\.devworkspace\\/?\\*?$/.test(l.trim()))) {\n      add('ignore-root', 'warn', 'The root .gitignore ignores all of .devworkspace/, so project knowledge will not be shared', 'Remove that rule; .devworkspace/.gitignore already excludes machine-local files.');\n    }\n  } catch {\n    /* no root .gitignore */\n  }\n\n  // Knowledge and contract.\n  try {\n    const facts = await loadFacts(ws);\n    const stale = facts.facts.filter((f) => f.status === 'STALE');\n    add('facts', 'pass', `${facts.facts.length} fact(s) stored`);\n    if (stale.length > 0) add('staleness', 'warn', `${stale.length} stale fact(s): ${stale.slice(0, 5).map((f) => f.key).join(', ')}`, 'Run: devworkspace refresh');\n    else if (facts.facts.length > 0) add('staleness', 'pass', 'No stale facts recorded');\n  } catch (e) {\n    add('facts', 'fail', (e as Error).message.split('\\n')[0]!, 'Restore .devworkspace/context/facts.json from Git or a backup under .devworkspace/local/backups.');\n  }\n\n  if (await pathExists(ws.commands)) {\n    try {\n      const c = (await readVersioned(ws.commands, 'commands', SCHEMA_VERSION, validateCommands)).data;\n      add('contract', 'pass', 'Testing contract present');\n      if (!c.checks.some((x) => x.id === 'unit' && x.available)) add('tests-available', 'warn', 'No unit-test command detected', 'Add a test script or edit .devworkspace/context/commands.json; tasks will not be able to demand tests.');\n      if (!c.checks.some((x) => x.id === 'build' && x.available)) add('build-available', 'info', 'No build command detected');\n      const configured = c.checks.filter((x) => x.available);\n      if (configured.length > 0) {\n        const ids = [...new Set(configured.map((x) => x.id))];\n        const dirs = [...new Set(configured.map((x) => x.cwd).filter((d): d is string => !!d))];\n        add('verification-commands', 'pass', `${ids.length} verification check(s) configured: ${ids.join(', ')}${dirs.length ? ` (in ${dirs.join(', ')})` : ''}`);\n      } else if (acknowledgedNoVerification) {\n        add('verification-commands', 'info', 'No verification commands; acknowledged in project.json (settings.acknowledgeNoVerification)');\n      } else {\n        add(\n          'verification-commands',\n          'warn',\n          'No verification commands (tests, lint, typecheck, build) are configured, so tasks cannot require any verification',\n          'Run: devworkspace analyze. If the project intentionally has none, set \"acknowledgeNoVerification\": true under settings in .devworkspace/project.json.',\n        );\n      }\n    } catch (e) {\n      add('contract', 'fail', (e as Error).message.split('\\n')[0]!, 'Fix commands.json or re-run: devworkspace analyze');\n    }\n  } else add('contract', 'warn', 'Testing contract not generated yet', 'Run: devworkspace analyze');\n\n  await checkDiscovery(ws, add);\n\n  if (await pathExists(ws.analysisState)) {\n    try {\n      const a = (await readVersioned(ws.analysisState, 'analysis', SCHEMA_VERSION, validateAnalysisState)).data;\n      add('analysis', 'pass', `Last analysis ${a.analyzedAt}${a.truncated ? ' (partial: size limits hit)' : ''}`);\n    } catch (e) {\n      add('analysis', 'fail', (e as Error).message.split('\\n')[0]!, 'Re-run: devworkspace analyze');\n    }\n  } else add('analysis', 'warn', 'Repository has not been analyzed', 'Run: devworkspace analyze');\n\n  // Prompt quality (when present).\n  if (await pathExists(ws.onboardingPrompt)) {\n    const text = (await readTextBounded(ws.onboardingPrompt, 1024 * 1024)) ?? '';\n    const missing = validatePrompt(text, ONBOARDING_REQUIREMENTS);\n    if (missing.length === 0) add('onboarding-prompt', 'pass', 'Onboarding prompt satisfies all behavioural requirements');\n    else add('onboarding-prompt', 'fail', `Onboarding prompt is missing: ${missing.join(', ')}`, 'Re-run: devworkspace analyze');\n  }\n\n  // Agent wiring.\n  if (await instructionsInstalled(ws)) add('agent-instructions', 'pass', 'Claude instructions and skill installed');\n  else add('agent-instructions', 'warn', 'Claude instructions are not installed (or the managed section is missing)', 'Run: devworkspace agent install');\n  if (await knowledgeWritten(ws)) add('onboarding', 'pass', 'Architecture knowledge written');\n  else add('onboarding', 'warn', 'Onboarding is not complete: .devworkspace/context/architecture.md is missing or empty', 'Paste .devworkspace/analysis/onboarding-prompt.md into Claude Code.');\n\n  // Security and portability.\n  const wsFiles = (await listFilesRecursive(ws.dir, 3000)).filter((f) => !f.startsWith(ws.localDir) && !/\\.tmp$/.test(f));\n  const secretHits: string[] = [];\n  const absHits: string[] = [];\n  for (const f of wsFiles) {\n    if (!/\\.(json|md)$/.test(f)) continue;\n    const rel = path.relative(ws.dir, f).replace(/\\\\/g, '/');\n    const text = await readTextBounded(f, 1024 * 1024);\n    if (!text) continue;\n    if (findSecrets(text).length > 0) secretHits.push(rel);\n    if (rel !== 'analysis/onboarding-prompt.md' && rel !== 'analysis/refresh-prompt.md' && findAbsolutePaths(text).length > 0) absHits.push(rel);\n  }\n  if (secretHits.length === 0) add('secrets', 'pass', 'No secret-like values in .devworkspace');\n  else add('secrets', 'fail', `Secret-like values found in: ${secretHits.join(', ')}`, 'Remove the values, rotate the credential if it was real, and re-run doctor.');\n  if (absHits.length === 0) add('portability', 'pass', 'No machine-specific absolute paths in portable knowledge');\n  else add('portability', 'warn', `Absolute paths found in: ${absHits.join(', ')}`, 'Replace them with project-relative paths so the workspace works after the project moves.');\n\n  const git = await getGitState(root);\n  if (git.isRepo) {\n    const tracked = await gitTrackedFiles(root);\n    const bad = (tracked ?? []).filter((f) => isSensitiveFile(f));\n    if (bad.length > 0) add('tracked-secrets', 'warn', `Credential-like files are tracked by Git: ${bad.slice(0, 5).join(', ')}`, 'Remove them from Git history if they hold real secrets (git rm --cached, then rotate).');\n    else add('tracked-secrets', 'pass', 'No credential-like files tracked by Git');\n  }\n\n  const leftovers = wsFiles.filter((f) => f.endsWith('.tmp'));\n  const allTmp = (await listFilesRecursive(ws.dir, 3000)).filter((f) => f.endsWith('.tmp'));\n  if (allTmp.length > 0 || leftovers.length > 0) add('tmp-files', 'warn', `${allTmp.length} leftover temporary file(s) from an interrupted write`, 'They are safe to delete: ' + allTmp.slice(0, 3).map((f) => path.relative(root, f).replace(/\\\\/g, '/')).join(', '));\n\n  // Tasks and decisions.\n  const { tasks, corrupt } = await listTasks(ws, { includeCompleted: true });\n  if (corrupt.length > 0) add('tasks', 'fail', `${corrupt.length} unreadable task file(s): ${corrupt.map((c) => c.file).join(', ')}`, 'Restore them from Git or delete the broken file.');\n  else add('tasks', 'pass', `${tasks.length} task(s) readable`);\n  const dec = await listDecisions(ws);\n  if (dec.unreadable.length > 0) add('decisions', 'warn', `Unreadable decision file(s): ${dec.unreadable.join(', ')}`, 'Check their front matter.');\n\n  return finish(root, checks, fixed, ws, o);\n}\n\nasync function finish(root: string | null, checks: DoctorCheck[], fixed: string[], ws: Ws | undefined, o: DoctorOptions): Promise<DoctorResult> {\n  const counts = { pass: 0, warn: 0, fail: 0, info: 0 };\n  for (const c of checks) counts[c.status]++;\n  let ready = false;\n  const discoveryOk = !checks.some((c) => DISCOVERY_CHECKS.has(c.id) && c.status === 'warn');\n  if (ws) ready = counts.fail === 0 && discoveryOk && (await instructionsInstalled(ws)) && (await knowledgeWritten(ws));\n  // Integrations are observed (tools are run), and reported separately: a missing optional tool never makes the core workspace unhealthy.\n  const integrations = root && ws ? await inspectAll(ws, managerEnv(o, root), { deep: true }) : [];\n  const s = summarize(integrations);\n  return { root, checks, counts, healthy: counts.fail === 0, ready, fixed, integrations, integrationSummary: { complete: integrations.length > 0 && s.complete, required: s.required, verified: s.verified } };\n}\n\n/** Doctor checks that say whether the repository was actually understood, as opposed to the folder merely existing. */\nconst DISCOVERY_CHECKS = new Set(['discovery-incomplete', 'discovery-ecosystem', 'verification-commands']);\n\n/** package.json files near the top of the tree (two levels), found without a full scan. */\nasync function findNearbyManifests(root: string): Promise<string[]> {\n  const found: string[] = [];\n  const skip = (name: string, rel: string): boolean => name.startsWith('.') || ALWAYS_SKIP_DIRS.has(name) || isAuxPath(`${rel}/x`);\n  async function dirs(rel: string): Promise<string[]> {\n    try {\n      return (await fs.readdir(path.join(root, rel), { withFileTypes: true })).filter((e) => e.isDirectory() && !skip(e.name, rel ? `${rel}/${e.name}` : e.name)).map((e) => (rel ? `${rel}/${e.name}` : e.name));\n    } catch {\n      return [];\n    }\n  }\n  for (const d1 of await dirs('')) {\n    if (await pathExists(path.join(root, d1, 'package.json'))) found.push(`${d1}/package.json`);\n    for (const d2 of (await dirs(d1)).slice(0, 100)) if (await pathExists(path.join(root, d2, 'package.json'))) found.push(`${d2}/package.json`);\n  }\n  return found.sort();\n}\n\nasync function checkDiscovery(ws: Ws, add: (id: string, status: CheckStatus, message: string, remediation?: string) => void): Promise<void> {\n  if (!(await pathExists(ws.discovery))) return; // \"not analyzed yet\" is reported by the analysis check\n  let d: { ecosystems?: string[]; languages?: { name: string; files: number }[]; manifests?: string[]; monorepo?: { packages?: { path: string }[] }; scan?: { fileCount?: number } };\n  try {\n    d = (await readJsonFile(ws.discovery)) as typeof d;\n  } catch (e) {\n    add('discovery-ecosystem', 'fail', (e as Error).message.split('\\n')[0]!, 'Re-run: devworkspace analyze');\n    return;\n  }\n  const eco = d.ecosystems ?? [];\n  const languages = (d.languages ?? []).map((l) => l.name);\n  // Manifests the analysis recorded. Older reports lack the list, so reconstruct it from the packages they did record.\n  const known = new Set<string>(d.manifests ?? []);\n  for (const p of d.monorepo?.packages ?? []) known.add(`${p.path}/package.json`);\n  if (eco.includes('node')) known.add('package.json');\n  const missed = (await findNearbyManifests(ws.root)).filter((m) => !known.has(m));\n  if (missed.length > 0) {\n    add(\n      'discovery-incomplete',\n      'warn',\n      `The repository has package manifest(s) the last analysis did not record: ${missed.slice(0, 4).join(', ')}${missed.length > 4 ? ', ...' : ''}`,\n      'Run: devworkspace analyze (current versions detect nested packages). Commands you confirmed earlier are kept.',\n    );\n  } else if (eco.length === 0 && languages.length > 0) {\n    add(\n      'discovery-ecosystem',\n      'warn',\n      `No ecosystem was detected although ${d.scan?.fileCount ?? 'several'} files were scanned (${languages.slice(0, 3).join(', ')}), so build and test tooling is unknown`,\n      'Run: devworkspace analyze. If the project has no package manifest, record its commands by hand in .devworkspace/context/commands.json.',\n    );\n  } else if (eco.length > 0) {\n    const n = d.monorepo?.packages?.length ?? 0;\n    add('discovery-ecosystem', 'pass', `Detected ${eco.join(', ')}${n > 0 ? ` (${n} package${n === 1 ? '' : 's'})` : ''}`);\n  } else {\n    add('discovery-ecosystem', 'info', 'No source files or manifests detected');\n  }\n}\n"]}

package/dist/services/refresh.js

@@ -37,7 +37,7 @@ export async function refreshWorkspace(o) {
             };
         }
         await writeJsonIfChanged(ws.discovery, run.discovery);
-        await writeCommands(ws, run.discovery.commands);
+        await writeCommands(ws, run.discovery.commands, { truncated: run.discovery.scan.truncated });
         const det = await applyDetectorFacts(ws, run.discovery, now);
         const facts = await loadFacts(ws);
         const rep = await applyStaleness(ws.root, facts, now);

package/dist/services/refresh.js.map

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Deterministic facts are re-derived on the spot; everything else is re-hashed against its cited\n * sources and only the facts whose evidence changed become STALE and enter the (optional) agent refresh prompt.\n */\nexport async function refreshWorkspace(o: ServiceOptions): Promise<RefreshResult> {\n  return mutate(o, async (ws) => {\n    const project = await loadProject(ws);\n    const now = isoNow(o);\n    const run = await runDiscovery(ws, project.name, project.settings.maxFiles);\n    let previous: AnalysisState | null = null;\n    if (await pathExists(ws.analysisState)) {\n      previous = (await readVersioned(ws.analysisState, 'analysis', SCHEMA_VERSION, validateAnalysisState)).data;\n    }\n    const headChanged = !!previous && previous.gitHead !== run.gitHead;\n\n    if (o.dryRun) {\n      const facts = await loadFacts(ws);\n      const probe = structuredClone(facts);\n      const rep = await applyStaleness(ws.root, probe, now);\n      return {\n        dryRun: true,\n        headChanged,\n        autoRefreshed: [],\n        retired: [],\n        stale: rep.newlyStale.map((s) => ({ ...s, value: probe.facts.find((f) => f.key === s.key)?.value ?? '' })),\n        needsReview: rep.needsReview,\n        prompt: null,\n      };\n    }\n\n    await writeJsonIfChanged(ws.discovery, run.discovery);\n    await writeCommands(ws, run.discovery.commands);\n    const det = await applyDetectorFacts(ws, run.discovery, now);\n\n    const facts = await loadFacts(ws);\n    const rep = await applyStaleness(ws.root, facts, now);\n    await saveFacts(ws, facts);\n\n    const stale = facts.facts.filter((f) => f.status === 'STALE' && f.sourceType !== 'detector').map((f) => ({ key: f.key, value: f.value, reason: f.staleReason ?? 'evidence changed' }));\n    let prompt: string | null = null;\n    if (stale.length > 0 || rep.needsReview.length > 0) {\n      await writeTextIfChanged(\n        ws.refreshPrompt,\n        buildRefreshPrompt({ projectName: project.name, stale, needsReview: rep.needsReview, autoRefreshed: det.written, cliVersion: packageVersion() }),\n      );\n      prompt = path.relative(ws.root, ws.refreshPrompt).replace(/\\\\/g, '/');\n    }\n\n    const state: AnalysisState = {\n      schemaVersion: SCHEMA_VERSION,\n      analyzedAt: previous?.analyzedAt ?? now,\n      refreshedAt: now,\n      gitHead: run.gitHead,\n      fileCount: run.discovery.scan.fileCount,\n      truncated: run.discovery.scan.truncated,\n      discoveryHash: sha256Text(JSON.stringify(run.discovery)),\n    };\n    await writeVersioned(ws, ws.analysisState, state);\n    return { dryRun: false, headChanged, autoRefreshed: det.written, retired: det.retired, stale, needsReview: rep.needsReview, prompt };\n  });\n}\n"]}
+{"version":3,"file":"refresh.js","sourceRoot":"","sources":["../../src/services/refresh.ts"],"names":[],"mappings":"AAAA,OAAO,IAAI,MAAM,WAAW,CAAC;AAC7B,OAAO,EAAE,cAAc,EAAE,qBAAqB,EAAsB,MAAM,sBAAsB,CAAC;AACjG,OAAO,EAAE,WAAW,EAAE,MAAM,sBAAsB,CAAC;AACnD,OAAO,EAAE,aAAa,EAAE,cAAc,EAAE,MAAM,sBAAsB,CAAC;AACrE,OAAO,EAAE,cAAc,EAAE,MAAM,oBAAoB,CAAC;AACpD,OAAO,EAAE,cAAc,EAAE,SAAS,EAAE,SAAS,EAAE,MAAM,uBAAuB,CAAC;AAC7E,OAAO,EAAE,kBAAkB,EAAE,MAAM,uBAAuB,CAAC;AAC3D,OAAO,EAAE,UAAU,EAAE,UAAU,EAAE,kBAAkB,EAAE,kBAAkB,EAAE,MAAM,gBAAgB,CAAC;AAChG,OAAO,EAAE,kBAAkB,EAAE,YAAY,EAAE,aAAa,EAAE,MAAM,eAAe,CAAC;AAChF,OAAO,EAAE,MAAM,EAAE,MAAM,EAAuB,MAAM,aAAa,CAAC;AAYlE;;;GAGG;AACH,MAAM,CAAC,KAAK,UAAU,gBAAgB,CAAC,CAAiB;IACtD,OAAO,MAAM,CAAC,CAAC,EAAE,KAAK,EAAE,EAAE,EAAE,EAAE;QAC5B,MAAM,OAAO,GAAG,MAAM,WAAW,CAAC,EAAE,CAAC,CAAC;QACtC,MAAM,GAAG,GAAG,MAAM,CAAC,CAAC,CAAC,CAAC;QACtB,MAAM,GAAG,GAAG,MAAM,YAAY,CAAC,EAAE,EAAE,OAAO,CAAC,IAAI,EAAE,OAAO,CAAC,QAAQ,CAAC,QAAQ,CAAC,CAAC;QAC5E,IAAI,QAAQ,GAAyB,IAAI,CAAC;QAC1C,IAAI,MAAM,UAAU,CAAC,EAAE,CAAC,aAAa,CAAC,EAAE,CAAC;YACvC,QAAQ,GAAG,CAAC,MAAM,aAAa,CAAC,EAAE,CAAC,aAAa,EAAE,UAAU,EAAE,cAAc,EAAE,qBAAqB,CAAC,CAAC,CAAC,IAAI,CAAC;QAC7G,CAAC;QACD,MAAM,WAAW,GAAG,CAAC,CAAC,QAAQ,IAAI,QAAQ,CAAC,OAAO,KAAK,GAAG,CAAC,OAAO,CAAC;QAEnE,IAAI,CAAC,CAAC,MAAM,EAAE,CAAC;YACb,MAAM,KAAK,GAAG,MAAM,SAAS,CAAC,EAAE,CAAC,CAAC;YAClC,MAAM,KAAK,GAAG,eAAe,CAAC,KAAK,CAAC,CAAC;YACrC,MAAM,GAAG,GAAG,MAAM,cAAc,CAAC,EAAE,CAAC,IAAI,EAAE,KAAK,EAAE,GAAG,CAAC,CAAC;YACtD,OAAO;gBACL,MAAM,EAAE,IAAI;gBACZ,WAAW;gBACX,aAAa,EAAE,EAAE;gBACjB,OAAO,EAAE,EAAE;gBACX,KAAK,EAAE,GAAG,CAAC,UAAU,CAAC,GAAG,CAAC,CAAC,CAAC,EAAE,EAAE,CAAC,CAAC,EAAE,GAAG,CAAC,EAAE,KAAK,EAAE,KAAK,CAAC,KAAK,CAAC,IAAI,CAAC,CAAC,CAAC,EAAE,EAAE,CAAC,CAAC,CAAC,GAAG,KAAK,CAAC,CAAC,GAAG,CAAC,EAAE,KAAK,IAAI,EAAE,EAAE,CAAC,CAAC;gBAC1G,WAAW,EAAE,GAAG,CAAC,WAAW;gBAC5B,MAAM,EAAE,IAAI;aACb,CAAC;QACJ,CAAC;QAED,MAAM,kBAAkB,CAAC,EAAE,CAAC,SAAS,EAAE,GAAG,CAAC,SAAS,CAAC,CAAC;QACtD,MAAM,aAAa,CAAC,EAAE,EAAE,GAAG,CAAC,SAAS,CAAC,QAAQ,EAAE,EAAE,SAAS,EAAE,GAAG,CAAC,SAAS,CAAC,IAAI,CAAC,SAAS,EAAE,CAAC,CAAC;QAC7F,MAAM,GAAG,GAAG,MAAM,kBAAkB,CAAC,EAAE,EAAE,GAAG,CAAC,SAAS,EAAE,GAAG,CAAC,CAAC;QAE7D,MAAM,KAAK,GAAG,MAAM,SAAS,CAAC,EAAE,CAAC,CAAC;QAClC,MAAM,GAAG,GAAG,MAAM,cAAc,CAAC,EAAE,CAAC,IAAI,EAAE,KAAK,EAAE,GAAG,CAAC,CAAC;QACtD,MAAM,SAAS,CAAC,EAAE,EAAE,KAAK,CAAC,CAAC;QAE3B,MAAM,KAAK,GAAG,KAAK,CAAC,KAAK,CAAC,MAAM,CAAC,CAAC,CAAC,EAAE,EAAE,CAAC,CAAC,CAAC,MAAM,KAAK,OAAO,IAAI,CAAC,CAAC,UAAU,KAAK,UAAU,CAAC,CAAC,GAAG,CAAC,CAAC,CAAC,EAAE,EAAE,CAAC,CAAC,EAAE,GAAG,EAAE,CAAC,CAAC,GAAG,EAAE,KAAK,EAAE,CAAC,CAAC,KAAK,EAAE,MAAM,EAAE,CAAC,CAAC,WAAW,IAAI,kBAAkB,EAAE,CAAC,CAAC,CAAC;QACvL,IAAI,MAAM,GAAkB,IAAI,CAAC;QACjC,IAAI,KAAK,CAAC,MAAM,GAAG,CAAC,IAAI,GAAG,CAAC,WAAW,CAAC,MAAM,GAAG,CAAC,EAAE,CAAC;YACnD,MAAM,kBAAkB,CACtB,EAAE,CAAC,aAAa,EAChB,kBAAkB,CAAC,EAAE,WAAW,EAAE,OAAO,CAAC,IAAI,EAAE,KAAK,EAAE,WAAW,EAAE,GAAG,CAAC,WAAW,EAAE,aAAa,EAAE,GAAG,CAAC,OAAO,EAAE,UAAU,EAAE,cAAc,EAAE,EAAE,CAAC,CACjJ,CAAC;YACF,MAAM,GAAG,IAAI,CAAC,QAAQ,CAAC,EAAE,CAAC,IAAI,EAAE,EAAE,CAAC,aAAa,CAAC,CAAC,OAAO,CAAC,KAAK,EAAE,GAAG,CAAC,CAAC;QACxE,CAAC;QAED,MAAM,KAAK,GAAkB;YAC3B,aAAa,EAAE,cAAc;YAC7B,UAAU,EAAE,QAAQ,EAAE,UAAU,IAAI,GAAG;YACvC,WAAW,EAAE,GAAG;YAChB,OAAO,EAAE,GAAG,CAAC,OAAO;YACpB,SAAS,EAAE,GAAG,CAAC,SAAS,CAAC,IAAI,CAAC,SAAS;YACvC,SAAS,EAAE,GAAG,CAAC,SAAS,CAAC,IAAI,CAAC,SAAS;YACvC,aAAa,EAAE,UAAU,CAAC,IAAI,CAAC,SAAS,CAAC,GAAG,CAAC,SAAS,CAAC,CAAC;SACzD,CAAC;QACF,MAAM,cAAc,CAAC,EAAE,EAAE,EAAE,CAAC,aAAa,EAAE,KAAK,CAAC,CAAC;QAClD,OAAO,EAAE,MAAM,EAAE,KAAK,EAAE,WAAW,EAAE,aAAa,EAAE,GAAG,CAAC,OAAO,EAAE,OAAO,EAAE,GAAG,CAAC,OAAO,EAAE,KAAK,EAAE,WAAW,EAAE,GAAG,CAAC,WAAW,EAAE,MAAM,EAAE,CAAC;IACvI,CAAC,CAAC,CAAC;AACL,CAAC","sourcesContent":["import path from 'node:path';\nimport { SCHEMA_VERSION, validateAnalysisState, type AnalysisState } from '../config/schemas.js';\nimport { loadProject } from '../core/workspace.js';\nimport { readVersioned, writeVersioned } from '../core/versioned.js';\nimport { packageVersion } from '../core/version.js';\nimport { applyStaleness, loadFacts, saveFacts } from '../knowledge/facts.js';\nimport { buildRefreshPrompt } from '../prompts/refresh.js';\nimport { pathExists, sha256Text, writeJsonIfChanged, writeTextIfChanged } from '../utils/fs.js';\nimport { applyDetectorFacts, runDiscovery, writeCommands } from './analysis.js';\nimport { isoNow, mutate, type ServiceOptions } from './common.js';\n\nexport interface RefreshResult {\n  dryRun: boolean;\n  headChanged: boolean;\n  autoRefreshed: string[];\n  retired: string[];\n  stale: { key: string; value: string; reason: string }[];\n  needsReview: { key: string; reason: string }[];\n  prompt: string | null;\n}\n\n/**\n * Incremental refresh. Deterministic facts are re-derived on the spot; everything else is re-hashed against its cited\n * sources and only the facts whose evidence changed become STALE and enter the (optional) agent refresh prompt.\n */\nexport async function refreshWorkspace(o: ServiceOptions): Promise<RefreshResult> {\n  return mutate(o, async (ws) => {\n    const project = await loadProject(ws);\n    const now = isoNow(o);\n    const run = await runDiscovery(ws, project.name, project.settings.maxFiles);\n    let previous: AnalysisState | null = null;\n    if (await pathExists(ws.analysisState)) {\n      previous = (await readVersioned(ws.analysisState, 'analysis', SCHEMA_VERSION, validateAnalysisState)).data;\n    }\n    const headChanged = !!previous && previous.gitHead !== run.gitHead;\n\n    if (o.dryRun) {\n      const facts = await loadFacts(ws);\n      const probe = structuredClone(facts);\n      const rep = await applyStaleness(ws.root, probe, now);\n      return {\n        dryRun: true,\n        headChanged,\n        autoRefreshed: [],\n        retired: [],\n        stale: rep.newlyStale.map((s) => ({ ...s, value: probe.facts.find((f) => f.key === s.key)?.value ?? '' })),\n        needsReview: rep.needsReview,\n        prompt: null,\n      };\n    }\n\n    await writeJsonIfChanged(ws.discovery, run.discovery);\n    await writeCommands(ws, run.discovery.commands, { truncated: run.discovery.scan.truncated });\n    const det = await applyDetectorFacts(ws, run.discovery, now);\n\n    const facts = await loadFacts(ws);\n    const rep = await applyStaleness(ws.root, facts, now);\n    await saveFacts(ws, facts);\n\n    const stale = facts.facts.filter((f) => f.status === 'STALE' && f.sourceType !== 'detector').map((f) => ({ key: f.key, value: f.value, reason: f.staleReason ?? 'evidence changed' }));\n    let prompt: string | null = null;\n    if (stale.length > 0 || rep.needsReview.length > 0) {\n      await writeTextIfChanged(\n        ws.refreshPrompt,\n        buildRefreshPrompt({ projectName: project.name, stale, needsReview: rep.needsReview, autoRefreshed: det.written, cliVersion: packageVersion() }),\n      );\n      prompt = path.relative(ws.root, ws.refreshPrompt).replace(/\\\\/g, '/');\n    }\n\n    const state: AnalysisState = {\n      schemaVersion: SCHEMA_VERSION,\n      analyzedAt: previous?.analyzedAt ?? now,\n      refreshedAt: now,\n      gitHead: run.gitHead,\n      fileCount: run.discovery.scan.fileCount,\n      truncated: run.discovery.scan.truncated,\n      discoveryHash: sha256Text(JSON.stringify(run.discovery)),\n    };\n    await writeVersioned(ws, ws.analysisState, state);\n    return { dryRun: false, headChanged, autoRefreshed: det.written, retired: det.retired, stale, needsReview: rep.needsReview, prompt };\n  });\n}\n"]}

package/dist/services/status.d.ts

@@ -44,6 +44,7 @@ export interface StatusResult {
         available: boolean;
         command: string | null;
         required: string;
+        cwd?: string;
     }[];
     lastSession: {
         id: string;

package/dist/services/status.js

@@ -87,7 +87,7 @@ export async function getStatus(o) {
     if (await pathExists(ws.commands)) {
         try {
             const commands = (await readVersioned(ws.commands, 'commands', SCHEMA_VERSION, validateCommands)).data;
-            base.verification = commands.checks.map((c) => ({ id: c.id, available: c.available, command: c.command, required: c.required }));
+            base.verification = commands.checks.map((c) => ({ id: c.id, available: c.available, command: c.command, required: c.required, ...(c.cwd ? { cwd: c.cwd } : {}) }));
         }
         catch (e) {
             base.workspace = 'Needs attention';

package/dist/services/status.js.map

@@ -1 +1 @@
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{ promises as fs } from 'node:fs';\nimport path from 'node:path';\nimport { SCHEMA_VERSION, validateAnalysisState, validateCommands, type CommandEntry } from '../config/schemas.js';\nimport { findWorkspaceRoot, loadProject, wsPaths, type Ws } from '../core/workspace.js';\nimport { readVersioned } from '../core/versioned.js';\nimport { getGitState } from '../git/git.js';\nimport { inspectAll, type IntegrationReport } from '../integrations/index.js';\nimport { loadFacts } from '../knowledge/facts.js';\nimport { listSessions } from '../sessions/session.js';\nimport { listTasks, nextRequiredStep, type Task } from '../tasks/task.js';\nimport { pathExists } from '../utils/fs.js';\nimport { SECTION_END } from '../agents/claude/content.js';\nimport { SKILL_PATH } from '../agents/claude/content.js';\nimport { managerEnv, type ServiceOptions } from './common.js';\n\nexport interface TaskBrief {\n  id: string;\n  title: string;\n  type: string;\n  status: string;\n  updatedAt: string;\n  next: string;\n}\n\nexport interface StatusResult {\n  initialized: boolean;\n  root: string | null;\n  project: { name: string; id: string } | null;\n  workspace: 'Healthy' | 'Needs attention' | 'Not initialized' | 'Unreadable';\n  workspaceProblem?: string;\n  git: { available: boolean; isRepo: boolean; branch: string | null; workingTree: 'Clean' | 'Modified' | 'Unknown'; changes: number };\n  knowledge: { state: 'Current' | 'Stale' | 'Empty' | 'Unknown'; facts: number; stale: number; analyzedAt: string | null };\n  onboarding: { instructionsInstalled: boolean; knowledgeWritten: boolean; ready: boolean };\n  /** Shallow observation (files and PATH only; never VERIFIED). Run doctor or `integrations status` to verify. */\n  integrations: IntegrationReport[];\n  activeTasks: TaskBrief[];\n  verification: { id: string; available: boolean; command: string | null; required: string }[];\n  lastSession: { id: string; goal: string; next: string } | null;\n  corruptTasks: number;\n}\n\nconst brief = (t: Task): TaskBrief => ({ id: t.id, title: t.title, type: t.type, status: t.status, updatedAt: t.updatedAt, next: nextRequiredStep(t) });\n\nexport async function instructionsInstalled(ws: Ws): Promise<boolean> {\n  for (const rel of ['CLAUDE.md', '.claude/CLAUDE.md']) {\n    try {\n      const text = await fs.readFile(path.join(ws.root, ...rel.split('/')), 'utf8');\n      if (text.includes('<!-- devworkspace:start') && text.includes(SECTION_END) && (await pathExists(path.join(ws.root, ...SKILL_PATH.split('/'))))) return true;\n    } catch {\n      /* try next */\n    }\n  }\n  return false;\n}\n\nexport async function knowledgeWritten(ws: Ws): Promise<boolean> {\n  try {\n    return (await fs.stat(path.join(ws.contextDir, 'architecture.md'))).size >= 200;\n  } catch {\n    return false;\n  }\n}\n\n/** Cheap overview: reads small workspace files and Git status only. Never hashes or scans source files. */\nexport async function getStatus(o: ServiceOptions): Promise<StatusResult> {\n  const root = await findWorkspaceRoot(o.cwd);\n  const git = await getGitState(root ?? o.cwd);\n  const gitBrief: StatusResult['git'] = {\n    available: git.available,\n    isRepo: git.isRepo,\n    branch: git.branch,\n    workingTree: git.isRepo ? (git.dirty ? 'Modified' : 'Clean') : 'Unknown',\n    changes: git.entries.length,\n  };\n  const base: StatusResult = {\n    initialized: false,\n    root,\n    project: null,\n    workspace: 'Not initialized',\n    git: gitBrief,\n    knowledge: { state: 'Unknown', facts: 0, stale: 0, analyzedAt: null },\n    onboarding: { instructionsInstalled: false, knowledgeWritten: false, ready: false },\n    integrations: [],\n    activeTasks: [],\n    verification: [],\n    lastSession: null,\n    corruptTasks: 0,\n  };\n  if (!root) return base;\n\n  const ws = wsPaths(root);\n  base.initialized = true;\n  try {\n    const project = await loadProject(ws);\n    base.project = { name: project.name, id: project.projectId };\n    base.workspace = 'Healthy';\n  } catch (e) {\n    return { ...base, workspace: 'Unreadable', workspaceProblem: (e as Error).message };\n  }\n\n  try {\n    const facts = await loadFacts(ws);\n    const stale = facts.facts.filter((f) => f.status === 'STALE').length;\n    let analyzedAt: string | null = null;\n    if (await pathExists(ws.analysisState)) {\n      analyzedAt = (await readVersioned(ws.analysisState, 'analysis', SCHEMA_VERSION, validateAnalysisState)).data.analyzedAt;\n    }\n    base.knowledge = { facts: facts.facts.length, stale, analyzedAt, state: facts.facts.length === 0 ? 'Empty' : stale > 0 ? 'Stale' : 'Current' };\n  } catch (e) {\n    base.workspace = 'Needs attention';\n    base.workspaceProblem = (e as Error).message;\n  }\n\n  if (await pathExists(ws.commands)) {\n    try {\n      const commands = (await readVersioned(ws.commands, 'commands', SCHEMA_VERSION, validateCommands)).data;\n      base.verification = commands.checks.map((c: CommandEntry) => ({ id: c.id, available: c.available, command: c.command, required: c.required }));\n    } catch (e) {\n      base.workspace = 'Needs attention';\n      base.workspaceProblem ??= (e as Error).message;\n    }\n  }\n\n  const { tasks, corrupt } = await listTasks(ws);\n  base.activeTasks = tasks.map(brief);\n  base.corruptTasks = corrupt.length;\n  if (corrupt.length > 0) base.workspace = 'Needs attention';\n  const sessions = await listSessions(ws, 1);\n  if (sessions[0]) base.lastSession = { id: sessions[0].id, goal: sessions[0].goal, next: sessions[0].next };\n\n  base.integrations = await inspectAll(ws, managerEnv(o, root), { deep: false });\n  base.onboarding.instructionsInstalled = await instructionsInstalled(ws);\n  base.onboarding.knowledgeWritten = await knowledgeWritten(ws);\n  base.onboarding.ready = base.onboarding.instructionsInstalled && base.onboarding.knowledgeWritten && base.knowledge.state !== 'Empty';\n  return base;\n}\n"]}
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{ promises as fs } from 'node:fs';\nimport path from 'node:path';\nimport { SCHEMA_VERSION, validateAnalysisState, validateCommands, type CommandEntry } from '../config/schemas.js';\nimport { findWorkspaceRoot, loadProject, wsPaths, type Ws } from '../core/workspace.js';\nimport { readVersioned } from '../core/versioned.js';\nimport { getGitState } from '../git/git.js';\nimport { inspectAll, type IntegrationReport } from '../integrations/index.js';\nimport { loadFacts } from '../knowledge/facts.js';\nimport { listSessions } from '../sessions/session.js';\nimport { listTasks, nextRequiredStep, type Task } from '../tasks/task.js';\nimport { pathExists } from '../utils/fs.js';\nimport { SECTION_END } from '../agents/claude/content.js';\nimport { SKILL_PATH } from '../agents/claude/content.js';\nimport { managerEnv, type ServiceOptions } from './common.js';\n\nexport interface TaskBrief {\n  id: string;\n  title: string;\n  type: string;\n  status: string;\n  updatedAt: string;\n  next: string;\n}\n\nexport interface StatusResult {\n  initialized: boolean;\n  root: string | null;\n  project: { name: string; id: string } | null;\n  workspace: 'Healthy' | 'Needs attention' | 'Not initialized' | 'Unreadable';\n  workspaceProblem?: string;\n  git: { available: boolean; isRepo: boolean; branch: string | null; workingTree: 'Clean' | 'Modified' | 'Unknown'; changes: number };\n  knowledge: { state: 'Current' | 'Stale' | 'Empty' | 'Unknown'; facts: number; stale: number; analyzedAt: string | null };\n  onboarding: { instructionsInstalled: boolean; knowledgeWritten: boolean; ready: boolean };\n  /** Shallow observation (files and PATH only; never VERIFIED). Run doctor or `integrations status` to verify. */\n  integrations: IntegrationReport[];\n  activeTasks: TaskBrief[];\n  verification: { id: string; available: boolean; command: string | null; required: string; cwd?: string }[];\n  lastSession: { id: string; goal: string; next: string } | null;\n  corruptTasks: number;\n}\n\nconst brief = (t: Task): TaskBrief => ({ id: t.id, title: t.title, type: t.type, status: t.status, updatedAt: t.updatedAt, next: nextRequiredStep(t) });\n\nexport async function instructionsInstalled(ws: Ws): Promise<boolean> {\n  for (const rel of ['CLAUDE.md', '.claude/CLAUDE.md']) {\n    try {\n      const text = await fs.readFile(path.join(ws.root, ...rel.split('/')), 'utf8');\n      if (text.includes('<!-- devworkspace:start') && text.includes(SECTION_END) && (await pathExists(path.join(ws.root, ...SKILL_PATH.split('/'))))) return true;\n    } catch {\n      /* try next */\n    }\n  }\n  return false;\n}\n\nexport async function knowledgeWritten(ws: Ws): Promise<boolean> {\n  try {\n    return (await fs.stat(path.join(ws.contextDir, 'architecture.md'))).size >= 200;\n  } catch {\n    return false;\n  }\n}\n\n/** Cheap overview: reads small workspace files and Git status only. Never hashes or scans source files. */\nexport async function getStatus(o: ServiceOptions): Promise<StatusResult> {\n  const root = await findWorkspaceRoot(o.cwd);\n  const git = await getGitState(root ?? o.cwd);\n  const gitBrief: StatusResult['git'] = {\n    available: git.available,\n    isRepo: git.isRepo,\n    branch: git.branch,\n    workingTree: git.isRepo ? (git.dirty ? 'Modified' : 'Clean') : 'Unknown',\n    changes: git.entries.length,\n  };\n  const base: StatusResult = {\n    initialized: false,\n    root,\n    project: null,\n    workspace: 'Not initialized',\n    git: gitBrief,\n    knowledge: { state: 'Unknown', facts: 0, stale: 0, analyzedAt: null },\n    onboarding: { instructionsInstalled: false, knowledgeWritten: false, ready: false },\n    integrations: [],\n    activeTasks: [],\n    verification: [],\n    lastSession: null,\n    corruptTasks: 0,\n  };\n  if (!root) return base;\n\n  const ws = wsPaths(root);\n  base.initialized = true;\n  try {\n    const project = await loadProject(ws);\n    base.project = { name: project.name, id: project.projectId };\n    base.workspace = 'Healthy';\n  } catch (e) {\n    return { ...base, workspace: 'Unreadable', workspaceProblem: (e as Error).message };\n  }\n\n  try {\n    const facts = await loadFacts(ws);\n    const stale = facts.facts.filter((f) => f.status === 'STALE').length;\n    let analyzedAt: string | null = null;\n    if (await pathExists(ws.analysisState)) {\n      analyzedAt = (await readVersioned(ws.analysisState, 'analysis', SCHEMA_VERSION, validateAnalysisState)).data.analyzedAt;\n    }\n    base.knowledge = { facts: facts.facts.length, stale, analyzedAt, state: facts.facts.length === 0 ? 'Empty' : stale > 0 ? 'Stale' : 'Current' };\n  } catch (e) {\n    base.workspace = 'Needs attention';\n    base.workspaceProblem = (e as Error).message;\n  }\n\n  if (await pathExists(ws.commands)) {\n    try {\n      const commands = (await readVersioned(ws.commands, 'commands', SCHEMA_VERSION, validateCommands)).data;\n      base.verification = commands.checks.map((c: CommandEntry) => ({ id: c.id, available: c.available, command: c.command, required: c.required, ...(c.cwd ? { cwd: c.cwd } : {}) }));\n    } catch (e) {\n      base.workspace = 'Needs attention';\n      base.workspaceProblem ??= (e as Error).message;\n    }\n  }\n\n  const { tasks, corrupt } = await listTasks(ws);\n  base.activeTasks = tasks.map(brief);\n  base.corruptTasks = corrupt.length;\n  if (corrupt.length > 0) base.workspace = 'Needs attention';\n  const sessions = await listSessions(ws, 1);\n  if (sessions[0]) base.lastSession = { id: sessions[0].id, goal: sessions[0].goal, next: sessions[0].next };\n\n  base.integrations = await inspectAll(ws, managerEnv(o, root), { deep: false });\n  base.onboarding.instructionsInstalled = await instructionsInstalled(ws);\n  base.onboarding.knowledgeWritten = await knowledgeWritten(ws);\n  base.onboarding.ready = base.onboarding.instructionsInstalled && base.onboarding.knowledgeWritten && base.knowledge.state !== 'Empty';\n  return base;\n}\n"]}

package/docs/integrations.md

@@ -61,7 +61,7 @@ Setup is non-interactive. It never prompts, so it cannot hang in CI; when it nee
 1. Reuse an existing `graphify` (PATH, `~/.local/bin`, or where uv/pipx/pip put scripts) after running `graphify --version`.
 2. Otherwise pick an installer: **uv** (`uv tool install graphifyy`), else **pipx** (`pipx install graphifyy`), else the documented **`pip install --user graphifyy`** if a real Python 3.10+ exists. No separate manager is required when Python or uv is present.
 3. Run `graphify install --project` (user scope: `graphify install`).
-4. Verify: executable runs, project skill exists, the skill's recorded version matches the CLI, and, because Graphify's hooks call `graphify` by name, that it is on PATH. If not on PATH the status is `DEGRADED` with the folder to add, instead of a false success.
+4. Verify: executable runs, project skill exists, the skill's recorded version matches the CLI, and, because Graphify's hooks call `graphify` by name, that it is on PATH. If it is not on this process's PATH the status is never a false success, and the advice depends on why: on **Windows**, DevWorkspace reads (never writes) the persistent user and machine PATH from the registry. If the folder is already there, the terminal or VS Code simply started before the change, so the status is `RESTART_REQUIRED` and the fix is to reopen the terminal or restart VS Code (no PATH edit). If it is missing from both, the status is `DEGRADED` with the folder to add. On macOS and Linux, or when the registry cannot be read, the persistent PATH is treated as unknown and the general advice is shown. Quick checks (`devworkspace status`) never query the registry.
 
 Python detection runs `--version` on each candidate (`py -3`, `python3`, `python`). On Windows the Microsoft Store `python` shortcut exists on PATH but is not Python, and is correctly rejected.
 

package/docs/testing.md

@@ -15,6 +15,10 @@
 
 `required` is `yes` (always applies to code changes), `context` (only when relevant to the change) or `no`. Entries you or the agent edit by hand get `origin: "user"` and are never overwritten by later analysis.
 
+Every `package.json` in the repository is read (not only the root; manifests in `fixtures/`, `examples/`, `docs/` and `node_modules` are ignored), and each package's commands are recorded **with the directory to run them in** (`cwd`, relative, POSIX), only for scripts that package actually defines. A backend `npm run test:unit` is never mixed up with a frontend `npm test`. Each package uses the package manager its own lockfile indicates. Commands are never executed by DevWorkspace.
+
+Re-running `analyze` keeps any command with `origin: "user"` (confirmed by a person or by Claude during onboarding) exactly as written, even when a later analysis finds nothing; a user command with no `cwd` covers its whole check, one with a `cwd` covers only that directory. `discovery.json` always holds the pure detection; `commands.json` holds the merged contract.
+
 Sources: `package.json` scripts (matched by common names), plus conventions for Python (pytest/ruff/mypy/black/alembic), Go, Rust, Maven and Gradle. npm's default `"no test specified"` placeholder is ignored.
 
 ### Commands are untrusted input

package/docs/troubleshooting.md

@@ -10,7 +10,8 @@ Start with `devworkspace doctor`. Every warning/failure includes a remediation l
 | **"No DevWorkspace found"** | Run `devworkspace init` in the project root. Commands search upward from the current directory; use `--cwd <dir>` if you are elsewhere. |
 | **`setup --integrations` says approval is needed (exit 2)** | Nothing risky ran. Review with `--dry-run`, then re-run with `--yes`. Machine-level (installing the Graphify tool), user-level and registry-package steps always need it. |
 | **`PREREQUISITES_MISSING` for Graphify** | Install uv (`winget install --id astral-sh.uv`) or Python 3.10+ from python.org. On Windows the Microsoft Store `python` shortcut is not Python. Then re-run setup. |
-| **Graphify `DEGRADED`: not on PATH** | Its Claude Code hooks call `graphify` by name. Add the folder shown in the next step to PATH (or run `uv tool update-shell` / `pipx ensurepath`) and open a new terminal. |
+| **Graphify `RESTART_REQUIRED`: "on your user PATH ... started before that was set"** (Windows) | The folder is already on your persistent PATH; this terminal/VS Code started earlier and still has the old one. Close and reopen the terminal, or restart VS Code (and Claude Code). Do not add it again. |
+| **Graphify `DEGRADED`: not on PATH** | Its Claude Code hooks call `graphify` by name and it is on no PATH (on Windows: not in this terminal and not in your persistent user/machine PATH). Add the folder shown in the next step to PATH (or run `uv tool update-shell` / `pipx ensurepath`) and open a new terminal. |
 | **`RESTART_REQUIRED`** | Restart Claude Code (or run `/reload-plugins`), then `devworkspace integrations status --restarted`. |
 | **Plugin install fails with "Host key verification failed" / "Could not read from remote repository"** | Claude Code cloned the plugin over SSH and you have no GitHub SSH key. Run the documented fix yourself (it edits your global Git config): `git config --global url."https://github.com/".insteadOf git@github.com:`, then re-run setup. |
 | **Plugin or marketplace clone times out** | Slow or blocked access to github.com. Retry later; Claude Code's own timeout can be raised with `CLAUDE_CODE_PLUGIN_GIT_TIMEOUT_MS`. Setup resumes from what is already done. |
@@ -29,6 +30,8 @@ Start with `devworkspace doctor`. Every warning/failure includes a remediation l
 | **Windows: `EPERM` on write** | Editors, antivirus or indexers can briefly lock files; writes retry for ~2 s. If it persists, close the program holding the file. |
 | **Windows: PowerShell blocks `devworkspace.ps1`** | `npm` creates `.cmd` and `.ps1` shims. Run via `devworkspace.cmd`, `npx devworkspace`, or relax the execution policy for your user (`Set-ExecutionPolicy -Scope CurrentUser RemoteSigned`). |
 | **`.devworkspace` not appearing in Git** | The root `.gitignore` ignores it. Remove that rule; `.devworkspace/.gitignore` already excludes the machine-local parts. |
+| **`doctor` warns "package manifest(s) the last analysis did not record"** | The analysis predates nested-package detection. Run `devworkspace analyze`; commands you confirmed earlier are kept. |
+| **`doctor` warns "No ecosystem was detected" or "No verification commands"** | The analyzer found no recognised manifest or scripts. Add them, or write the commands in `.devworkspace/context/commands.json` (`"origin": "user"`, optional `"cwd": "backend"`). If the project intentionally has none, set `"acknowledgeNoVerification": true` under `settings` in `.devworkspace/project.json`. |
 | **Analysis seems incomplete** | `status`/`doctor` says "partial" when file or depth limits were hit. Raise `settings.maxFiles` in `project.json` or add `.devworkspaceignore` entries for generated folders. |
 
 Add `--debug` to any command for stack traces and debug logs (secrets are still redacted).

package/package.json

@@ -1,6 +1,6 @@
 {
   "name": "devworkspace",
-  "version": "0.2.0",
+  "version": "0.2.1",
   "description": "Project-local AI engineering workspace: deterministic repository discovery, portable project knowledge, tasks, decisions and verification gates for AI coding agents.",
   "type": "module",
   "bin": {