Roth IRA withdrawal to avoid excess contributions penalty but I lost money due to the economy

I didn't know I couldn't contribute to a Roth IRA on my current income (a 'taxable grant' because I'm essentially a graduate student). I'm going to withdraw the money instead of pay the fee, since I have zero earnings from the fund to get taxed. I lost about $200 because of the current economy, so right now what I can withdraw is less than my original contribution. How can I avoid paying the penalty that automatically comes up because of the disrespectancy between my contributions and withdrawal