add warning flag to note
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				|  | @ -30,7 +30,7 @@ repository](https://github.com/mojombo/mojombo.github.io) has the name | |||
| Content from the `master` branch of your repository will be used to build and | ||||
| publish the GitHub Pages site, so make sure your Jekyll site is stored there. | ||||
| 
 | ||||
| <div class="note info"> | ||||
| <div class="note warning"> | ||||
|   <h5>Custom domains do not affect repository names</h5> | ||||
|   <p> | ||||
|     GitHub Pages are initially configured to live under the | ||||
|  | @ -54,6 +54,14 @@ actual software project for Jekyll, however the Jekyll website (that you’re | |||
| looking at right now) is contained in the [gh-pages | ||||
| branch]({{ site.repository }}/tree/gh-pages) of the same repository. | ||||
| 
 | ||||
| <div class="note"> | ||||
|   <h5>Source Files Must be in the Root Directory</h5> | ||||
|   <p>Github Pages [overrides](https://help.github.com/articles/troubleshooting-github-pages-build-failures#source-setting) the ["Site Source"](http://jekyllrb.com/docs/configuration/#global-configuration) configuration value, so if you locate your files anywhere other than the root directory, your site may not build correctly. | ||||
| 
 | ||||
|   </p> | ||||
| </div> | ||||
| 
 | ||||
| 
 | ||||
| ### Project Page URL Structure | ||||
| 
 | ||||
| Sometimes it's nice to preview your Jekyll site before you push your `gh-pages` | ||||
|  |  | |||
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