Codemod db pass-through calls: messages + runs + approvals + company (C1 part 2/3)

Rewrite ~376 call sites for messages, runs, approvalsMod, and company
domains and delete the corresponding pass-through methods on
AppDatabase / AppDatabaseBase. Structural type references
(ReturnType<HandlerDeps["db"]["getRun"]>) and SweepStaleReviewsDeps-style
mocks are updated to route through the owning sub-module.

src/main/api-server/routes-tasks.ts

@@ -136,7 +136,7 @@ export function registerTaskRoutes(server: AgentApiServer) {
         });
         const reviewerAgent = db.entityCrud.getAgent(token.agentId);
         const docTitles = docs.map((d) => d.title).join(", ");
-        db.requestApproval({
+        db.approvalsMod.requestApproval({
           companyId: task.companyId,
           relatedTaskId: task.id,
           requestedByAgentId: token.agentId,