E-file in response to notice u/s 148

An assessee who has filed the return for AY 2009-10 has received notice u/s 148. After due deliberations with the assessing officer, the assessee was asked to file the return again for that same assessment year. Can someone guide on how to proceed with this? I have already prepared the return using the utility from the dept. website. How do I go about filing the return in the website. Should I select upload return and file as we normally do or is there any special option for that?