Yes your parter shouldn't matter, I think you should have acquired PR in your own right providing you have been self employed for a continuous 5 year period (exercising treaty rights).
As the post above says, you need to do sections 5, 9, 16, 17, 18 and 19. Completely ignore the biometric information section as it is for non-EEA only. The form advises only printing pages which you have completed and the cover page (I ended up printing about 25 pages out of the 85).
Make sure you show sufficient evidence of your self employment for a continuous 5 year period ending at least 12 months before the date you apply (if you don't want any delays before you can apply for naturalisation).
There's a progress thread in this forum too (DCPR application timeline thread), keep us updated
