Notice u/s 139(9) error code 181

I am an engineering consultant with gross receipts under 50 lakhs during F.Y. 2016-17. I filed ITR3 on 20/06/2017 declaring profits higher than 50% of gross receipts. Figures were given under 53(ii) a to d of Part A, P&L. I also showed the same profit figure in item 35 ii of Schedule BP. I have shown NOB under code 0703 - Consultancy services. I have now received a notice u/s 139(9) with error code 181 described as a) The gross receipts is not mentioned in the P&L a/c or b) The profit shown is less than 50 % of the gross receipts. I have rechecked the return as filed, downloaded from the e-filing website, and find that it correctly shows gross receipts at 53(ii)a, and the net profit at 53(ii)d is not less than 50 % of gross receipts. Could it be a software issue because I used version PR2 of the ITR3 excel utility available in June 2017, whereas the current version available on the efiling website is PR8 ? I am seeing several other posts on various websites including this one with the same observation. In such a case is it advisable to formally disagree with the notice as provided on the efiling website, since there is nothing to correct ?