Are you using Git?
If so, you need to add your files -> commit -> and finally push to the remote server.
if you are using Source Tree as client, just add the files you want to commit from your working copy. (Select the file in the bottom panel and press the “stage selected” button)
-Then commit them (write a comment an hit commit)
-Once Commited the files still are in your **LOCAL **repository. You need to **PUSH **the files to the server. (just use the push button)