The site was developed with kohana framework and was to be hosted on Godaddy Server (Shared Hosting) and I faced a peculiar issue on the server giving me an error

No Input File Specified

which was strange as the site was working fine on test server.

After doing a bit of research I finally managed to find a solution which I am posting here to help.

Just replace the line

RewriteRule ^(.*)$ index.php/$1 [PT,L]

in your htaccess file with

# Rewrite all other URLs to index.php/URL
RewriteRule ^(.+)$ index.php?kohana_uri=$1 [L]

And this should do the trick.

Hope it helps and saves the time I spent on the same issue.