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/20260830000003_logs.js

@@ -0,0 +1,29 @@
+/**
+ * @param {import("knex").Knex} knex
+ */
+export async function up(knex) {
+  await knex.schema.createTable("logs", (t) => {
+    t.increments("id").primary();
+    t.text("run_id")
+      .notNullable()
+      .references("id")
+      .inTable("workflow_runs")
+      .onDelete("CASCADE");
+    t.text("step_id");
+    t.text("ts").notNullable();
+    t.integer("level").notNullable();
+    t.text("msg");
+    t.text("payload");
+  });
+
+  await knex.schema.raw(
+    "CREATE INDEX logs_run_id_ts_idx ON logs (run_id, ts)",
+  );
+}
+
+/**
+ * @param {import("knex").Knex} knex
+ */
+export async function down(knex) {
+  await knex.schema.dropTableIfExists("logs");
+}