feat(scout): materialize configured reference repos (#26692)

packages/opencode/src/effect/app-runtime.ts

@@ -43,6 +43,7 @@ import { Format } from "@/format"
 import { InstanceLayer } from "@/project/instance-layer"
 import { Project } from "@/project/project"
 import { Vcs } from "@/project/vcs"
+import { Reference } from "@/reference/reference"
 import { Workspace } from "@/control-plane/workspace"
 import { Worktree } from "@/worktree"
 import { Pty } from "@/pty"
@@ -96,6 +97,7 @@ export const AppLayer = Layer.mergeAll(
   Format.defaultLayer,
   Project.defaultLayer,
   Vcs.defaultLayer,
+  Reference.defaultLayer,
   Workspace.defaultLayer,
   Worktree.appLayer,
   Pty.defaultLayer,