fix: job edit schedule format error and refactor services directory

- Fix #25: job update sends schedule as plain string but upstream expects
  { kind, expr, display } object, causing "'str' object has no attribute 'get'"
- Move hermes-cli.ts, hermes.ts, hermes-profile.ts into services/hermes/
  for multi-agent namespacing consistency
- Fix ts-node Set spread compatibility in filesystem.ts

Co-Authored-By: Claude Opus 4.6 <noreply@anthropic.com>

packages/server/src/routes/hermes/logs.ts

@@ -1,5 +1,5 @@
 import Router from '@koa/router'
-import * as hermesCli from '../../services/hermes-cli'
+import * as hermesCli from '../../services/hermes/hermes-cli'
 
 export const logRoutes = new Router()