First of all, I would like to point out the command error while performing the commit operation.
We don't commit folders, the commands should look like this:
$ git add foldername
$ git commit -m "commit operation"
Now there's one more thing you need to keep in mind, which is to commit the folder you need to be on the same level as, or above, the folder you are trying to add. For instance: App/Download/Files/new.php
If you are trying to add the "Download" file but you have been working inside on the new.php document, then, in that case, you won't be able to add the "Download" file. You have to 'changed directory' (cd ../) back up to the same level, or higher, as the Storage file itself.