"System.flush", "Extension.install" don't work with class.api.php

The API includes some operations for manipulating CiviCRM configuration, e.g. "System.flush", "Extension.install", etc. These operations require inspecting some data from the CMS (e.g. getting a list of active CMS modules for reconciliation in CRM_Core_ManagedEntities).

However, when using class.api.php, the CMS isn't bootstrapped, so CMS operations fail.

Possible fixes:

• Modify class.api.php, etal, to bootstrap the CMS (as well as Civi).
• Modify CRM_Utils_System_* to support on-demand bootstrap. (Comparison: Various functions in civicrm.module call civicrm_initialize() to ensure that CiviCRM is bootstrapped. Similarly, various functions in CRM_Utils_System_Drupal could call a helper to ensure that Drupal is bootstrapped.)

See also: https://github.com/totten/civix/issues/9