There is a checkbox in TurboTax where you can indicate that your spouse is a Nonresident Alien. When it asks if you want to treat her as a resident for tax purposes say NO. Then ignore the warnings about the missing Tax ID, and file your return electronically. If it rejects you will have to mail it, but you should not have any issues as long as you have checked the nonresident alien box for your spouse in My Info.
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