refactor(cli)!: hard-cut legacy scripts and standardize console runtime

- remove legacy bin/module-*.php and bin/doctor.php entry scripts

- move module/doctor execution into class-based runners under lib/Console

- add stable JSON output for doctor and module:sync

- introduce bin/dev for init/up/down/logs/console/qa workflow

- update DI wiring, phpstan scan config, tests, and docs to new CLI contract

phpstan.neon

@@ -3,15 +3,7 @@ parameters:
     phpVersion: 80499
     scanFiles:
         - web/index.php
-        - bin/cli-bootstrap.php
-        - bin/module-cli-bootstrap.php
-        - bin/module-migrate.php
-        - bin/module-deactivate.php
-        - bin/module-build.php
-        - bin/module-assets-sync.php
-        - bin/module-permissions-sync.php
-        - bin/module-runtime-sync.php
-        - bin/doctor.php
+        - bin/console
     paths:
         - config
         - lib