What is the protocol for specifying a specific folder on the server for uploading files to rather than the root folder? I've tried various combinations without any luck, they keep going in the root folder.
I tried specifying the path in Site > Manage Sites > edit the site > Remote Info > Host Directory. The folder is called "New_Site" and the root folder is called "webdocs" on the server. ("/webdocs/New_Site/" for example)
If you set your local host directory to "New_Site" and your remote host directory to "webdocs", then it will presume they are the same folder. Everything within those folders will upload to the equivalent path. i.e.:
(home directory) ... /New_Site/images/logo.png
would upload to
public_html (or whatever comes before it) /webdocs/images/logo.png
Is that what you are asking?