Wisconsin and Illinois have a reciprocal agreement: if you live in one state and work in the other, you should have your taxes withheld for the state where you live, not where you work. When this is done, you only have to file a return where you live and not where you work.
However, your company did not withhold Wisconsin taxes but rather Illinois taxes. So you have paid $0 to Wisconsin and owe the full amount of tax. You get a full refund from Illinois, but you will need to use that to pay what you owe Wisconsin.
Ask your employer for the form required so that they withhold Wisconsin tax instead of Illinois tax. This will help things for your return next year.
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