Update manifest structure (#17547)

Move all sync entities in an `entities` key. Rename functions to
logicFunctions

```json
{
  application: {
    ...
  },
  entities: {
    objects: [],
    logicFunctions: [],
    ...
  }
}
```

packages/twenty-server/src/modules/workflow/workflow-executor/services/workflow-execution-context.service.ts

@@ -98,10 +98,10 @@ export class WorkflowExecutionContextService {
 
     // Use the application's role if set, otherwise fall back to admin role
     // In the future we should probably assign the Admin role to the Standard Application
-    let roleId = application.defaultLogicFunctionRoleId;
+    let roleId = application.defaultRoleId;
 
     if (!isDefined(roleId)) {
-      // Fallback: Look up admin role for existing workspaces without defaultLogicFunctionRoleId
+      // Fallback: Look up admin role for existing workspaces without defaultRoleId
       const adminRole = await this.roleService.getRoleByUniversalIdentifier({
         universalIdentifier: ADMIN_ROLE.standardId,
         workspaceId,
@@ -118,7 +118,7 @@ export class WorkflowExecutionContextService {
       workspace,
       application: {
         ...application,
-        defaultLogicFunctionRoleId: roleId,
+        defaultRoleId: roleId,
       },
     });