fix(core): soft-delete source connections with deleted_at

Migration 0003 adds source_connections.deleted_at. deleteConnection sets it; listing, lookups,
updates, the scheduler and the sync handler ignore deleted connections, so a paused
credential-less connection stays visible and can be resumed.

Co-Authored-By: Claude Opus 5.5 <[email protected]>

apps/server/src/routes/sources.ts

@@ -4,7 +4,6 @@ import {
   devicePoll,
   deviceStart,
   getConnection,
-  isDeletedConnection,
   listConnections,
   listRuns,
   updateConnection,
@@ -48,7 +47,7 @@ export const sourceRoutes = [
     path: "sources",
     summary: "Your source connections (never includes secrets).",
     auth: "any:read",
-    handler: async ({ deps, user }) => (await listConnections(deps.db, user.id)).filter((c) => !isDeletedConnection(c)),
+    handler: async ({ deps, user }) => listConnections(deps.db, user.id),
   }),
   route({
     method: "POST",