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Fix error ‘index.php was not found on this server’ after upgrading ownCloud to version 9

If you just upgraded ownCloud on Ubuntu 15.10 to version 9 (using apt-get dist upgrade), you probably get the error message shown above. Adding /index.php manually still redirects to the ownCloud login screen.

As mentioned here open .htaccess in /var/www/owncloud an comment out
the line

RewriteRule .* index.php [PT,E=PATH_INFO:$1]

and restart apache with

service apache2 restart