The `auto_init: true` option is not working

## Problem Description
We have safe-settings hosted in our GitHub organization using serverless framework. When an empty repo is created it does not inherit the global settings hosted in our admin repo. As a test, I created:

* test-repo-empty
* test-repo-empty-with-readme

Additionally, we also run safe-settings on a [cron lambda](https://github.com/github/safe-settings/issues/313). After a readme was created on `test-repo-empty` the cron lambda picked it up and successfully applied the global settings.

### What is actually happening
The `test-repo-empty` repo was unmodified.
The `test-repo-empty-with-readme` repo inherited the global settings.

### What is the expected behavior
Both repos inherit the global settings.

### Error output, if available
There was no error in the logs.

## Context

### Are you using the hosted instance of probot/settings or running your own?
We are running our own hosted instance using serverless framework.

### If running your own instance, are you using it with github.com or GitHub Enterprise?
We are using it with github.com

#### Version of probot/settings
2.0.7

#### Version of GitHub Enterprise
N/A