I just bought FoCal. It seems to get good results. Hopefully they will improve support for the 5D2 and 5D3. Manual mode is tolerable, but I sometimes felt like fidgeting with the controls and keyboard was undermining the delicate nature of the testing. A few times it told me the target had moved. Um, well... yes, because I'm hitting effing buttons during the test.
Try reading a book or watching TV while the Auto test is running. You might get better results.