refactor(config): remove legacy config reference handling and streamline YAML management

- Deleted legacy config reference handling functions and related migration scripts to simplify the codebase.
- Updated documentation to reflect the removal of legacy YAML paths and configurations.
- Adjusted existing YAML management processes to ensure compatibility with the new mustache-style syntax.
- Removed tests related to legacy config references, focusing on current functionality and ensuring clarity in the testing suite.

packages/server/migrations/20260830000011_workflow_trash.js

@@ -0,0 +1,28 @@
+/**
+ * @param {import("knex").Knex} knex
+ */
+export async function up(knex) {
+  await knex.schema.createTable("workflow_trash", (t) => {
+    t.text("id").primary();
+    t.text("workflow_id").notNullable();
+    t.text("owner").notNullable();
+    t.text("file").notNullable();
+    t.text("name");
+    t.text("deleted_at").notNullable();
+    t.text("trash_path").notNullable();
+  });
+
+  await knex.schema.raw(
+    "CREATE INDEX workflow_trash_deleted_at_idx ON workflow_trash (deleted_at ASC)",
+  );
+  await knex.schema.raw(
+    "CREATE UNIQUE INDEX workflow_trash_owner_file_idx ON workflow_trash (owner, file)",
+  );
+}
+
+/**
+ * @param {import("knex").Knex} knex
+ */
+export async function down(knex) {
+  await knex.schema.dropTableIfExists("workflow_trash");
+}