CacheTool allows you to work with apc, opcache, and the file status cache through the cli. It will connect to a fastcgi server (like php-fpm) and operate it's cache. Note that, unlike APC and Opcache, the file status cache is per-process rather than stored in shared memory. This means that running stat:clear against PHP-FPM will only affect whichever FPM worker responds to the request, not the whole pool. Julien Pauli has written a post with more details on how the file status cache operates.