How to count differences between two files on linux?

If using Linux/Unix, what about comm -1 file1 file2 to print lines in file1 that aren't in file2, comm -1 file1 file2 | wc -l to count them, and similarly for comm -2 ...?

Since every output line that differs starts with < or > character, I would suggest this:

diff file1 file2 | grep ^[\>\<] | wc -l

By using only \< or \> in the script line you can count differences only in one of the files.

diff -U 0 file1 file2 | grep -v ^@ | wc -l

That minus 2 for the two file names at the top of the diff listing. Unified format is probably a bit faster than side-by-side format.

If you want to count the number of lines that are different use this:

diff -U 0 file1 file2 | grep ^@ | wc -l

Doesn't John's answer double count the different lines?