1099-R withdrew only what I contributed, how do I enter that so it's not added as income?

Hi,

I have a 1099-R Distribution code J and a gross distribution of $9,000. I only withdrew the amount I contributed so it is not penalized or taxed; however, it is adding the 9K to my gross income thereby showing I now owe taxes. Is that correct, or should I not enter the 9K on my taxes?

Thank You