This looks like an error in your make.inc file. Check that file, especially at or around line 40, as the error message indicates. If you can't find the error, post your make.inc file here.
Off hand, I don't know any reason it would not compile with cuda 5.5. On the other hand, magma 1.3 is out-of-date. We suggest upgrading to the latest magma 1.4.1.