Add default permissions for create-pull-request

[dsyme]

When `create-pull-request` or `push-to-branch` are configured, these Claude tools are automatically added:

- **Edit**: Allows editing existing files
- **MultiEdit**: Allows making multiple edits to files in a single operation
- **Write**: Allows creating new files or overwriting existing files
- **NotebookEdit**: Allows editing Jupyter notebook files

Along with the file editing tools, these Git commands are also automatically whitelisted:

- `git checkout:*`
- `git branch:*`
- `git switch:*`
- `git add:*`
- `git rm:*`
- `git commit:*`
- `git merge:*`

[pelikhan]

This should moved into the ActionEngine interface to allow this kind of customization on other engines.