I wanted to upgrade magento but i didn't want it to disturb my website so i made a clone of my website in cpannel, and ran the upgrade on that which seemed to work perfectly.
standard website: www.mydomain.com clone site: www.mydomain.com/ecommerce
However when i go back to my old website (www.mydomain.com) the home page will load but every time i go to click a link it say:
404 Not found The resource requested could not be found on this server!
for example it will try to go to a link www.mydomain.com/shoes but this doesnt work, however www.mydomain.com/ecommerce/shoes does work. Does anybody know why this is?