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

lib/Console/Command.php

@@ -2,6 +2,9 @@
 
 namespace MintyPHP\Console;
 
+use MintyPHP\Console\Support\CliAppBootstrap;
+use MintyPHP\Console\Support\ModuleCliRuntime;
+
 /**
  * Base class for CLI commands.
  *
@@ -40,13 +43,11 @@ abstract class Command
 
     /**
      * Bootstrap the app for non-module CLI commands.
-     * Wraps bin/cli-bootstrap.php with stable path resolution.
+     * Uses the centralized CLI bootstrap runtime.
      */
     protected function bootstrapApp(string $channel = 'cli', ?string $path = null): void
     {
-        require_once $this->projectRoot() . '/bin/cli-bootstrap.php';
-
-        cliBootstrapApp($channel, $path ?? 'bin/console ' . $this->name());
+        CliAppBootstrap::bootstrap($channel, $path ?? 'bin/console ' . $this->name());
     }
 
     /**
@@ -55,17 +56,6 @@ abstract class Command
      */
     protected function bootstrapModuleApp(): void
     {
-        require_once $this->projectRoot() . '/bin/module-cli-bootstrap.php';
-
-        moduleCliBootstrapApp();
-    }
-
-    /**
-     * Require a bin script by name (e.g. 'module-migrate.php').
-     * Resolves the path from projectRoot — no fragile relative paths.
-     */
-    protected function requireBinScript(string $filename): void
-    {
-        require_once $this->projectRoot() . '/bin/' . $filename;
+        ModuleCliRuntime::bootstrap();
     }
 }