chore(framework,medusa): load custom flags before medusa config (#13312)

* chore(framework,medusa): load custom flags before medusa config

* test

* test runner

* changeset

* check manager featureFlags

* discover and register flags

* rm comments

* update changeset

* changeset

* use local cli

* execute from local medusa command

---------

Co-authored-by: Adrien de Peretti <adrien.deperetti@gmail.com>

.changeset/good-meals-watch.md

@@ -0,0 +1,9 @@
+---
+"@medusajs/framework": patch
+"@medusajs/medusa": patch
+"@medusajs/test-utils": patch
+"@medusajs/modules-sdk": patch
+"@medusajs/utils": patch
+---
+
+chore(framework): load custom flags before medusa config