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Since you are just starting to use BDB JE, I suspect that you simply need to wipe out the JE environment (delete the contents of the JE home directory, all .jdb files) and start from scratch. Errors such as this occur when you store data, and then change your persistent classes without providing mutations for evolving them properly.
Right that was the issue. I naively wrote to the database with one version of my program then tried to read from an updated version of the same program.