To remove the infection, as documented in the thread referenced, you've two options;
1. Restore the sites files from a backup
2. Download a copy of the files from the server and go through them one by one to both ensure the files are yours (i.e. they've not added a backdoor shell), and remove the infections from the files
I strongly urge you to delete everything on the server (all folders and files) to ensure nothing is left behind (i.e. a backdoor), and restore the originals from a backup.
However, if you do not have a backup, download a copy of everything from the server (ALL files and folders), and go through them to ensure the files/folders present, are the original ones you put there, and go through each file to remove the infection manually.