memorix 1.2.7 → 1.2.9

package/docs/dev-log/progress.txt

@@ -339,3 +339,28 @@
   isolated Claude Code handoff/continuation smoke. `npm publish --dry-run
   --ignore-scripts` accepted the public 1.2.7 tarball; the full prepublish
   build/test path is covered by the root release gates above.
+
+## 1.2.8 Vector Recovery and Codex Installation Clarity
+- Reworked vector backfill failure handling so transient provider or local
+  index failures leave one durable, diagnosable retry with bounded backoff
+  instead of consuming the maintenance retry budget in each new MCP process.
+  Healthy work clears stale diagnostics, revives an old failed vector job when
+  needed, and resolves superseded historical failure rows once recovery is
+  complete. Provider calls are batched while process-local Orama writes remain
+  serialized.
+- Corrected dashboard and HTTP control-plane vector reporting. A process that
+  does not own a hydrated MCP search index now states that vector status belongs
+  to the active MCP session rather than showing a misleading green `0 / 0`.
+- Corrected Codex install diagnostics: an enabled official Codex plugin owns
+  its `.mcp.json` `memorix serve` endpoint, while first-use hook approval is an
+  explicit host consent step rather than a broken installation. Plugin setup
+  removes only the legacy source-path `memorix` entry after successful plugin
+  installation; custom user-managed MCP entries are preserved.
+- Release verification: focused regression tests (96 assertions), `npm run
+  lint`, production build, and the full root test suite (all passed, 280s).
+  A live OpenRouter `qwen/qwen3-embedding-8b` batch returned two 4096d vectors.
+  An isolated tarball install reported CLI version `1.2.8`; its stdio MCP
+  handshake exposed 44 tools and completed `memorix_project_context`, and its
+  CLI `context --json` path returned a structured Workset. `npm pack --dry-run`
+  and `npm publish --dry-run --ignore-scripts` both accepted the final tarball
+  without manifest normalization warnings.

package/package.json

@@ -1,6 +1,6 @@
 {
   "name": "memorix",
-  "version": "1.2.7",
+  "version": "1.2.9",
   "description": "Local-first shared memory layer for AI coding agents across MCP clients, Git history, reasoning context, and project sessions.",
   "type": "module",
   "sideEffects": false,
@@ -11,8 +11,8 @@
     "packages/memcode"
   ],
   "bin": {
-    "memorix": "./dist/cli/index.js",
-    "memcode": "./dist/cli/memcode.js"
+    "memorix": "dist/cli/index.js",
+    "memcode": "dist/cli/memcode.js"
   },
   "main": "./dist/index.js",
   "types": "./dist/index.d.ts",

package/plugins/claude/memorix/.claude-plugin/plugin.json

@@ -1,7 +1,7 @@
 {
   "$schema": "https://anthropic.com/claude-code/plugin.schema.json",
   "name": "memorix",
-  "version": "1.2.7",
+  "version": "1.2.9",
   "description": "Shared workspace memory for Claude Code and other AI coding agents.",
   "author": {
     "name": "AVIDS2",

package/plugins/codex/memorix/.codex-plugin/plugin.json

@@ -1,6 +1,6 @@
 {
   "name": "memorix",
-  "version": "1.2.7",
+  "version": "1.2.9",
   "description": "Shared workspace memory for Codex and other AI coding agents.",
   "author": {
     "name": "AVIDS2",

package/plugins/copilot/memorix/plugin.json

@@ -1,6 +1,6 @@
 {
   "name": "memorix",
-  "version": "1.2.7",
+  "version": "1.2.9",
   "description": "Shared local workspace memory for GitHub Copilot CLI and other AI coding agents.",
   "author": {
     "name": "AVIDS2",

package/plugins/gemini/memorix/gemini-extension.json

@@ -1,6 +1,6 @@
 {
   "name": "memorix",
-  "version": "1.2.7",
+  "version": "1.2.9",
   "mcpServers": {
     "memorix": {
       "command": "memorix",

package/plugins/omp/memorix/package.json

@@ -1,6 +1,6 @@
 {
   "name": "memorix-omp-package",
-  "version": "1.2.7",
+  "version": "1.2.9",
   "description": "Memorix shared workspace memory package for Oh-my-Pi.",
   "license": "Apache-2.0",
   "keywords": [

package/plugins/openclaw/memorix/.codex-plugin/plugin.json

@@ -1,6 +1,6 @@
 {
   "name": "memorix",
-  "version": "1.2.7",
+  "version": "1.2.9",
   "description": "Shared workspace memory for OpenClaw and other AI coding agents.",
   "author": {
     "name": "AVIDS2",

package/plugins/pi/memorix/package.json

@@ -1,6 +1,6 @@
 {
   "name": "memorix-pi-package",
-  "version": "1.2.7",
+  "version": "1.2.9",
   "description": "Memorix shared workspace memory package for Pi coding agent.",
   "license": "Apache-2.0",
   "keywords": [

package/src/cli/commands/agent-integrations.ts

@@ -26,6 +26,8 @@ export interface AgentMcpCheck {
   exists: boolean;
   status: AgentIntegrationStatus;
   issues: string[];
+  /** This endpoint is supplied by an enabled Codex plugin, not config.toml. */
+  managedByPlugin?: boolean;
   server?: {
     transport: 'stdio' | 'http';
     command?: string;
@@ -229,6 +231,10 @@ function codexPluginPath(): string {
   return `${homedir()}/.codex/plugins/${CODEX_PLUGIN_NAME}`;
 }
 
+function codexPluginMcpPath(): string {
+  return `${codexPluginPath()}/.mcp.json`;
+}
+
 function codexMarketplacePath(): string {
   return `${homedir()}/.agents/plugins/marketplace.json`;
 }
@@ -267,6 +273,7 @@ async function inspectCodexPluginBundle(): Promise<AgentPluginCheck> {
   const pluginPath = codexPluginPath();
   const manifestPath = `${pluginPath}/.codex-plugin/plugin.json`;
   const hooksPath = `${pluginPath}/hooks/hooks.json`;
+  const mcpPath = codexPluginMcpPath();
   if (!existsSync(pluginPath)) {
     return {
       scope: 'global',
@@ -317,6 +324,20 @@ async function inspectCodexPluginBundle(): Promise<AgentPluginCheck> {
   if (version !== getCliVersion()) issues.push('codex-plugin-version-mismatch');
   if (manifest.hooks !== './hooks/hooks.json') issues.push('codex-hook-manifest-missing');
 
+  if (!existsSync(mcpPath)) {
+    issues.push('codex-plugin-mcp-manifest-missing');
+  } else {
+    try {
+      const mcpConfig = asRecord(JSON.parse(await readFile(mcpPath, 'utf-8')));
+      const server = coerceMcpServer('memorix', asRecord(mcpConfig?.mcpServers)?.memorix);
+      if (!server || !isRecommendedStdioServer(server)) {
+        issues.push('codex-plugin-mcp-manifest-invalid');
+      }
+    } catch {
+      issues.push('codex-plugin-mcp-manifest-unreadable');
+    }
+  }
+
   let declared: string[] = [];
   if (!existsSync(hooksPath)) {
     issues.push('codex-hook-manifest-missing');
@@ -479,7 +500,9 @@ async function inspectCodexHookTrust(): Promise<AgentPluginCheck> {
     kind: 'hook-trust',
     path: configPath,
     exists: true,
-    status: issues.length > 0 ? 'repairable' : 'ok',
+    // Codex records hook approval only after the user has reviewed it. Memorix
+    // must not treat an intentional, host-owned consent step as a broken setup.
+    status: issues.length > 0 ? 'skipped' : 'ok',
     issues,
     hookTrust: { trusted, expected: [...CODEX_HOOK_STATE_NAMES] },
   };
@@ -562,7 +585,7 @@ function getClaudeLocalConfigPath(): string {
   return `${homedir()}/.claude.json`;
 }
 
-function coerceClaudeLocalServer(name: string, value: unknown): MCPServerEntry | null {
+function coerceMcpServer(name: string, value: unknown): MCPServerEntry | null {
   const entry = asRecord(value);
   if (!entry) return null;
   const args = Array.isArray(entry.args) ? entry.args.map(String) : [];
@@ -626,7 +649,7 @@ async function inspectClaudeLocalMcp(projectRoot: string): Promise<AgentMcpCheck
   }
 
   const servers = asRecord(localProject.project.mcpServers);
-  const server = coerceClaudeLocalServer('memorix', servers?.memorix);
+  const server = coerceMcpServer('memorix', servers?.memorix);
   if (!server) {
     return {
       scope: 'local',
@@ -683,6 +706,59 @@ async function installClaudeLocalMcpConfig(projectRoot: string): Promise<void> {
   await writeFile(configPath, `${JSON.stringify(config, null, 2)}\n`, 'utf-8');
 }
 
+async function inspectCodexPluginMcp(): Promise<AgentMcpCheck | null> {
+  const runtime = inspectCodexPluginRuntime();
+  if (!runtime.runtime?.installed || !runtime.runtime.enabled) return null;
+
+  const mcpPath = codexPluginMcpPath();
+  if (!existsSync(mcpPath)) {
+    return {
+      scope: 'global',
+      path: mcpPath,
+      exists: false,
+      status: 'repairable',
+      issues: ['codex-plugin-mcp-manifest-missing'],
+      managedByPlugin: true,
+    };
+  }
+
+  try {
+    const config = asRecord(JSON.parse(await readFile(mcpPath, 'utf-8')));
+    const server = coerceMcpServer('memorix', asRecord(config?.mcpServers)?.memorix);
+    if (!server) {
+      return {
+        scope: 'global',
+        path: mcpPath,
+        exists: true,
+        status: 'repairable',
+        issues: ['codex-plugin-mcp-manifest-invalid'],
+        managedByPlugin: true,
+      };
+    }
+    const issues: string[] = [];
+    if (looksLikeStaleMemorixCommand(server)) issues.push('stale-command-path');
+    if (!isRecommendedStdioServer(server)) issues.push('nonstandard-mcp-command');
+    return {
+      scope: 'global',
+      path: mcpPath,
+      exists: true,
+      status: issues.length > 0 ? 'repairable' : 'ok',
+      issues,
+      managedByPlugin: true,
+      server: sanitizeServer(server),
+    };
+  } catch {
+    return {
+      scope: 'global',
+      path: mcpPath,
+      exists: true,
+      status: 'repairable',
+      issues: ['codex-plugin-mcp-manifest-unreadable'],
+      managedByPlugin: true,
+    };
+  }
+}
+
 async function inspectMcp(agent: AgentName, projectRoot: string, scope: AgentIntegrationScope): Promise<AgentIntegrationEntry['mcp']> {
   if (!isMcpConfigAgent(agent)) {
     return { status: 'skipped', issues: ['mcp-managed-by-package'], checks: [] };
@@ -697,6 +773,14 @@ async function inspectMcp(agent: AgentName, projectRoot: string, scope: AgentInt
       continue;
     }
 
+    if (agent === 'codex' && targetScope === 'global') {
+      const pluginCheck = await inspectCodexPluginMcp();
+      if (pluginCheck) {
+        checks.push(pluginCheck);
+        continue;
+      }
+    }
+
     const configPath = adapter.getConfigPath(targetScope === 'project' ? projectRoot : undefined);
     if (targetScope === 'global' && configPath === adapter.getConfigPath(projectRoot)) continue;
 
@@ -872,11 +956,20 @@ export function formatAgentIntegrationReport(report: AgentIntegrationReport): st
     lines.push(`${entry.agent}: ${status}`);
     if (entry.mcp.issues.length > 0) lines.push(`  MCP: ${entry.mcp.issues.join(', ')}`);
     if (entry.guidance.issues.length > 0) lines.push(`  Guidance: ${entry.guidance.issues.join(', ')}`);
-    if (entry.plugin.issues.length > 0) lines.push(`  Plugin: ${entry.plugin.issues.join(', ')}`);
+    const hookTrustPending = entry.plugin.issues.includes('codex-hook-trust-pending');
+    const pluginIssues = entry.plugin.issues.filter((issue) => issue !== 'codex-hook-trust-pending');
+    if (pluginIssues.length > 0) lines.push(`  Plugin: ${pluginIssues.join(', ')}`);
+    if (hookTrustPending) {
+      lines.push('  Hooks: waiting for Codex approval on first use; MCP remains available.');
+    }
   }
 
   lines.push('');
-  lines.push(`Repair: ${report.repairCommand}`);
+  if (report.summary.missing > 0 || report.summary.repairable > 0) {
+    lines.push(`Repair: ${report.repairCommand}`);
+  } else {
+    lines.push('No file repair needed.');
+  }
   return lines.join('\n');
 }
 
@@ -899,6 +992,10 @@ export async function repairAgentIntegrations(options: {
     if (isMcpConfigAgent(entry.agent)) {
       for (const check of entry.mcp.checks) {
         if (check.status === 'ok' || check.status === 'skipped') continue;
+        if (check.managedByPlugin) {
+          skipped.push(`${entry.agent}:mcp:${check.scope}:plugin-managed`);
+          continue;
+        }
         if (check.status === 'missing' && !canInstallMissing) {
           skipped.push(`${entry.agent}:mcp:${check.scope}:missing`);
           continue;

package/src/cli/commands/operator-shared.ts

@@ -110,7 +110,10 @@ export async function getCliProjectContext(options?: CliContextOptions): Promise
   } catch {
     // CLI reads remain available even if optional background maintenance metadata fails.
   }
-  await initObservations(dataDir);
+  await initObservations(dataDir, {
+    embeddingWriteMode: 'deferred',
+    projectRoot: project.rootPath,
+  });
   await initSessionStore(dataDir);
   const teamStore = await initTeamStore(dataDir);
 

package/src/cli/commands/serve-http.ts

@@ -24,6 +24,7 @@ import type { IncomingMessage, ServerResponse } from 'node:http';
 import type { ObservationStore } from '../../store/obs-store.js';
 import { resolveToolProfile } from '../../server/tool-profile.js';
 import { scopeKnowledgeGraphToProject } from '../../memory/graph-scope.js';
+import { projectObservationRetention, summarizeRetentionProjections } from '../../memory/retention.js';
 import { canManageObservation, filterReadableObservations } from '../../memory/visibility.js';
 
 export const DEFAULT_SESSION_TIMEOUT_MS = 30 * 60 * 1000;
@@ -760,20 +761,7 @@ export default defineCommand({
           await initGraphStore(statsDataDir);
           const graph = { entities: getGraphStore().loadEntities(), relations: getGraphStore().loadRelations() };
 
-          const observations = await loadDashboardProjectObservations(statsDataDir, statsProjectId, 'active') as Array<{
-            type?: string;
-            id?: number;
-            title?: string;
-            entityName?: string;
-            createdAt?: string;
-            source?: string;
-            commitHash?: string;
-            filesModified?: string[];
-            relatedEntities?: string[];
-            status?: string;
-            importance?: number;
-            accessCount?: number;
-          }>;
+          const observations = await loadDashboardProjectObservations(statsDataDir, statsProjectId, 'active');
           const statsStore = await getDashboardObservationStore(statsDataDir);
           const nextId = await statsStore.loadIdCounter();
           const typeCounts: Record<string, number> = {};
@@ -811,20 +799,17 @@ export default defineCommand({
             filesModified: o.filesModified,
           }));
 
-          let retentionSummary = { active: 0, stale: 0, archive: 0, immune: 0 };
-          for (const obs of observations) {
-            const age = now - new Date(obs.createdAt || now).getTime();
-            const ageHours = age / (1000 * 60 * 60);
-            const importance = obs.importance ?? 5;
-            const accessCount = obs.accessCount ?? 0;
-            const lambda = 0.01;
-            const score = Math.min(importance * Math.exp(-lambda * ageHours) + Math.min(accessCount * 0.5, 3), 10);
-            const isImmune = importance >= 8 || obs.type === 'gotcha' || obs.type === 'decision';
-            if (isImmune) retentionSummary.immune++;
-            if (score >= 3) retentionSummary.active++;
-            else if (score >= 1) retentionSummary.stale++;
-            else retentionSummary.archive++;
-          }
+          const retention = summarizeRetentionProjections(
+            observations
+              .filter((observation) => observation.type !== 'probe')
+              .map((observation) => projectObservationRetention(observation, { referenceTime: new Date(now) })),
+          );
+          const retentionSummary = {
+            active: retention.active,
+            stale: retention.stale,
+            archive: retention.archiveCandidates,
+            immune: retention.immune,
+          };
 
           const sorted = [...observations].filter(o => o.type !== 'probe').sort((a, b) => (b.id || 0) - (a.id || 0)).slice(0, 10);
 
@@ -839,10 +824,21 @@ export default defineCommand({
             };
           } catch { /* best effort */ }
 
-          let vectorStatus = { total: 0, missing: 0, missingIds: [] as number[], backfillRunning: false };
+          let vectorStatus = {
+            available: false,
+            total: 0,
+            missing: 0,
+            missingIds: [] as number[],
+            backfillRunning: false,
+          };
           try {
-            const { getVectorStatus } = await import('../../memory/observations.js');
-            vectorStatus = getVectorStatus(statsProjectId);
+            const { getSearchIndexStatus, getVectorStatus } = await import('../../memory/observations.js');
+            // The HTTP control plane has a different module graph from stdio MCP.
+            // Only report vector counts when this process actually owns a hydrated
+            // index; an empty singleton must not look like a healthy 0/0 state.
+            if (getSearchIndexStatus(statsProjectId).prepared) {
+              vectorStatus = { available: true, ...getVectorStatus(statsProjectId) };
+            }
           } catch { /* best effort */ }
 
           // Real search mode from the last actual search execution
@@ -948,26 +944,38 @@ export default defineCommand({
 
         if (apiPath === '/retention') {
           const { projectId: retProjectId, dataDir: retDataDir } = await resolveRequestProject(url);
-          const observations = await loadDashboardProjectObservations(retDataDir, retProjectId, 'active') as Array<{ id?: number; title?: string; type?: string; importance?: number; accessCount?: number; lastAccessedAt?: string; createdAt?: string; entityName?: string }>;
-          const now = Date.now();
-          const scored = observations.map(obs => {
-            const age = now - new Date(obs.createdAt || now).getTime();
-            const ageHours = age / (1000 * 60 * 60);
-            const importance = obs.importance ?? 5;
-            const accessCount = obs.accessCount ?? 0;
-            const lambda = 0.01;
-            const decayScore = importance * Math.exp(-lambda * ageHours);
-            const accessBonus = Math.min(accessCount * 0.5, 3);
-            const score = Math.min(decayScore + accessBonus, 10);
-            const isImmune = importance >= 8 || obs.type === 'gotcha' || obs.type === 'decision';
-            return { id: obs.id, title: obs.title, type: obs.type, entityName: obs.entityName, score: Math.round(score * 100) / 100, isImmune, ageHours: Math.round(ageHours * 10) / 10, accessCount };
+          const observations = await loadDashboardProjectObservations(retDataDir, retProjectId, 'active');
+          const referenceTime = new Date();
+          const rows = observations
+            .filter((observation) => observation.type !== 'probe')
+            .map((observation) => ({
+              observation,
+              retention: projectObservationRetention(observation, { referenceTime }),
+            }))
+            .sort((a, b) => b.retention.displayScore - a.retention.displayScore);
+          const summary = summarizeRetentionProjections(rows.map((row) => row.retention));
+          const items = rows.map(({ observation, retention }) => ({
+            id: observation.id,
+            title: observation.title,
+            type: observation.type,
+            entityName: observation.entityName,
+            score: retention.displayScore,
+            isImmune: retention.immune,
+            zone: retention.zone,
+            ageHours: retention.ageHours,
+            accessCount: retention.accessCount,
+            effectiveRetentionDays: retention.effectiveRetentionDays,
+            immunityReason: retention.immunityReason,
+          }));
+          sendJson({
+            summary: {
+              active: summary.active,
+              stale: summary.stale,
+              archive: summary.archiveCandidates,
+              immune: summary.immune,
+            },
+            items,
           });
-          scored.sort((a, b) => b.score - a.score);
-          const activeCount = scored.filter(s => s.score >= 3).length;
-          const staleCount = scored.filter(s => s.score < 3 && s.score >= 1).length;
-          const archiveCount = scored.filter(s => s.score < 1).length;
-          const immuneCount = scored.filter(s => s.isImmune).length;
-          sendJson({ summary: { active: activeCount, stale: staleCount, archive: archiveCount, immune: immuneCount }, items: scored });
           return;
         }
 

package/src/cli/commands/setup.ts

@@ -484,6 +484,40 @@ function mergeTomlMcpConfig(existingContent: string | null, generatedContent: st
   return `${parts.join('\n\n')}\n`;
 }
 
+function isLegacyCodexMemorixNodeServer(server: MCPServerEntry): boolean {
+  if (server.name !== 'memorix' || server.command.trim().toLowerCase() !== 'node') return false;
+  const startsMemorixStdio = server.args.some((arg) => arg.trim().toLowerCase() === 'serve');
+  const sourceEntry = server.args.some((arg) => {
+    const normalized = arg.replace(/\\/g, '/').toLowerCase();
+    return /\/memorix\/dist\/cli\/index\.(?:[cm]?js)$/.test(normalized);
+  });
+  return startsMemorixStdio && sourceEntry;
+}
+
+/**
+ * Codex plugins now own Memorix stdio MCP registration. Remove only the old
+ * source-path form emitted by pre-plugin setup, never a user's custom server.
+ */
+export async function removeLegacyCodexMemorixMcpConfig(
+  configPath = path.join(homedir(), '.codex', 'config.toml'),
+): Promise<{ configPath: string; removed: boolean }> {
+  let existingContent: string;
+  try {
+    existingContent = await readFile(configPath, 'utf-8');
+  } catch {
+    return { configPath, removed: false };
+  }
+
+  const adapter = new CodexMCPAdapter();
+  const legacyServer = adapter.parse(existingContent).find(isLegacyCodexMemorixNodeServer);
+  if (!legacyServer) return { configPath, removed: false };
+
+  let nextContent = removeTomlSection(existingContent, 'mcp_servers.memorix.env');
+  nextContent = removeTomlSection(nextContent, 'mcp_servers.memorix');
+  await writeFile(configPath, nextContent ? `${nextContent}\n` : '', 'utf-8');
+  return { configPath, removed: true };
+}
+
 function mergeYamlMcpConfig(existingContent: string | null, generatedContent: string): string {
   let existing: Record<string, unknown> = {};
   try {
@@ -1091,6 +1125,16 @@ export async function installAgentSetup(agent: AgentName, plan: SetupPlan, globa
       const install = tryInstallCodexPlugin();
       if (install.ok) p.log.success(install.message);
       else p.log.warn(install.message);
+      if (install.ok) {
+        try {
+          const migration = await removeLegacyCodexMemorixMcpConfig();
+          if (migration.removed) {
+            p.log.info(`codex: removed legacy source-path MCP config from ${migration.configPath}`);
+          }
+        } catch {
+          p.log.warn('codex: plugin installed, but the legacy MCP config could not be checked');
+        }
+      }
     } else if (agent === 'claude' && result.marketplaceRoot) {
       const install = tryInstallClaudePlugin(result.marketplaceRoot);
       if (install.ok) p.log.success(install.message);