@neurynae/toolcairn-mcp 0.10.7 → 0.10.9

package/dist/index.js

@@ -4503,14 +4503,37 @@ async function autoInitProject(input) {
     cfg.project.languages = scan.languages;
     cfg.project.frameworks = scan.frameworks;
     cfg.project.subprojects = scan.subprojects;
-    cfg.tools.confirmed = scan.tools;
     cfg.scan_metadata = scan.scan_metadata;
-    const priorByKey = /* @__PURE__ */ new Map();
+    if (!batchResolveFailed) {
+      const priorConfirmedByKey = /* @__PURE__ */ new Map();
+      for (const existing of cfg.tools.confirmed) {
+        const eco = existing.locations?.[0]?.ecosystem ?? "";
+        priorConfirmedByKey.set(`${eco}:${existing.name}`, existing);
+      }
+      cfg.tools.confirmed = scan.tools.map((fresh) => {
+        const eco = fresh.locations?.[0]?.ecosystem ?? "";
+        const prior = priorConfirmedByKey.get(`${eco}:${fresh.name}`);
+        if (!prior)
+          return fresh;
+        return {
+          ...fresh,
+          // Preserve add-time ordinals + user-set fields.
+          chosen_at: prior.chosen_at ?? fresh.chosen_at,
+          confirmed_at: prior.confirmed_at ?? prior.chosen_at ?? fresh.chosen_at,
+          last_verified: now,
+          chosen_reason: prior.chosen_reason && prior.chosen_reason.length > 0 ? prior.chosen_reason : fresh.chosen_reason,
+          alternatives_considered: prior.alternatives_considered && prior.alternatives_considered.length > 0 ? prior.alternatives_considered : fresh.alternatives_considered,
+          query_id: prior.query_id ?? fresh.query_id,
+          notes: prior.notes ?? fresh.notes
+        };
+      });
+    }
+    const priorUnknownByKey = /* @__PURE__ */ new Map();
     for (const existing of cfg.tools.unknown_in_graph ?? []) {
-      priorByKey.set(`${existing.ecosystem}:${existing.name}`, existing);
+      priorUnknownByKey.set(`${existing.ecosystem}:${existing.name}`, existing);
     }
     cfg.tools.unknown_in_graph = unknownFromScan.map((fresh) => {
-      const prior = priorByKey.get(`${fresh.ecosystem}:${fresh.name}`);
+      const prior = priorUnknownByKey.get(`${fresh.ecosystem}:${fresh.name}`);
       if (prior?.suggested) {
         return { ...fresh, suggested: true, suggested_at: prior.suggested_at };
       }
@@ -6082,19 +6105,6 @@ async function main() {
   let server;
   if (authenticated) {
     logger26.info({ user: creds.user_email }, "Authenticated \u2014 starting full server");
-    try {
-      const summary = await runPostAuthInit({ agent: "claude", onlyMissingConfig: true });
-      logger26.info(
-        {
-          roots: summary.roots_discovered.length,
-          provisioned: summary.projects.length,
-          unknown_tools_total: summary.unknown_tools_total
-        },
-        "Startup auto-init complete"
-      );
-    } catch (err) {
-      logger26.warn({ err }, "Startup auto-init failed \u2014 continuing with tool registration");
-    }
     server = await buildProdServer();
   } else {
     let verificationUri = "https://toolcairn.neurynae.com/signup";
@@ -6174,6 +6184,20 @@ After sign-in the server will automatically provision .toolcairn/config.json for
   const transport = createTransport();
   await server.connect(transport);
   logger26.info(authenticated ? "ToolCairn MCP ready" : "ToolCairn MCP ready (awaiting sign-in)");
+  if (authenticated) {
+    void runPostAuthInit({ agent: "claude" }).then((summary) => {
+      logger26.info(
+        {
+          roots: summary.roots_discovered.length,
+          provisioned: summary.projects.length,
+          unknown_tools_total: summary.unknown_tools_total
+        },
+        "Background auto-refresh complete"
+      );
+    }).catch((err) => {
+      logger26.warn({ err }, "Background auto-refresh failed \u2014 config left as-is");
+    });
+  }
 }
 main().catch((error) => {
   (0, import_errors28.createMcpLogger)({ name: "@toolcairn/mcp-server" }).error(