Feature/add workflow permissions (#1749)

* fix: Call ChromaDB reset before removing storage directory to fix disk I/O errors

* feat: add workflow permissions to stale.yml

* revert rag_storage.py changes

* revert rag_storage.py changes

---------

Co-authored-by: Matt B <mattb@Matts-MacBook-Pro.local>
Co-authored-by: Brandon Hancock (bhancock_ai) <109994880+bhancockio@users.noreply.github.com>

.github/workflows/stale.yml

@@ -1,5 +1,10 @@
 name: Mark stale issues and pull requests
 
+permissions:
+  contents: write
+  issues: write
+  pull-requests: write
+
 on:
   schedule:
     - cron: '10 12 * * *'
@@ -8,9 +13,6 @@ on:
 jobs:
   stale:
     runs-on: ubuntu-latest
-    permissions:
-      issues: write
-      pull-requests: write
     steps:
     - uses: actions/stale@v9
       with: