Please describe the problem:
For Fortran files, I use a filter program to convert F77 files to F90 to feed them into doxygen. However, the filter seems to be not called when the crossrefs are generated.


Steps to reproduce:
Fortran file (F77):
!>
!! Subroutine 1.
      subroutine mysub1
C This one is different from mysub2
      return
      end subroutine 
!>
!! Subroutine 2.
      subroutine mysub2
      return
      end subroutine
      
Trivial F77->F90 converter (just replaces the first symbol "C" with a "!" comment), called via Doxyfile "FILTER_PATTERNS":

#!/bin/sh
sed s/^C/\!/ $1


Actual results:
I get a wrong cross reference from mysub1 to mysub2.

Expected results:
No crossref.

Does this happen every time?
The problem disappears if I use "!" instead of "C" as comment identifier.

Other information: