I think this happens sometimes, but not all the time ...

When using the diff bundle, I know there are some minor differences between two files, but diff will mark the entire documents as the difference, even though maybe 90%+ of the lines are the same. FileMerge does the same thing.

However, if I copy one entire file to the clipboard and compare, diff will correctly define only the different lines as the differences.

Is there a preference I need to set or a format change I need to make?

Thanks.