Covered Calls and E*Trade

I've been tracking investments at E*Trade for years now and most of the entries downloaded have been treated correctly. However, with covered calls, the transactions created when the option is assigned are incorrect. The owned stock is sold at the option price. The transaction for the call is designated as sold. I have to change the transaction to Cover Short Sale to get it to post correctly. Is there any possibility that this process could be changed so the transactions are created properly?