Well that makes it a bit special ... and you will have to do a bit of debugging:
The directory
/usr/src/nvidia-"your nvidia version"/
should have a file
conftest.sh

Add

set -x

early in conftest.sh and below the line

   select_makefile)

change
            $HOSTCC $CFLAGS -o conftest$$ conftest$$.c > /dev/null 2>&1
to
            $HOSTCC $CFLAGS -o conftest$$ conftest$$.c

Next rerun dkms.

You will have a file "make.log" somewhere below
/var/lib/dkms/nvidia/"your nvidia version"/"your kernel version"

Use that to find out, why conftest.sh fails.

-- 
DKMS couldn't make module for custom kernel
https://bugs.launchpad.net/bugs/502334
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