This week's book giveaway is in the OO, Patterns, UML and Refactoring forum. We're giving away four copies of Refactoring for Software Design Smells: Managing Technical Debt and have Girish Suryanarayana, Ganesh Samarthyam & Tushar Sharma on-line! See this thread for details.
I wonder if hbm2ddl would meet your needs. Even if you aren't using Hibernate, you could download the jar and add the annotations temporarily. Might be faster than writing the script yourself. Or might not - depends on how easy your file is to parse.