[CMake] CMake 2.4.2 dependency path qualifier bug

[Brandon J. Van Every]

CMake 2.4.2 is dropping directory path qualifiers, seemingly when a 
generated file depends on a generated file.  I have

- ${Chicken_BINARY_DIR}/csc.c, which needs
- ${Chicken_BINARY_DIR}/csc.scm, which needs
- ${Chicken_SOURCE_DIR}/csc.scm.in

but the generated makefile drops the ${Chicken_BINARY_DIR}/csc.scm 
qualifier in the dependency.  This causes something to erroneously look 
for ${Chicken_SOURCE_DIR}/csc.scm and the build fails.  My code:

# csc.c needs its own custom rule because csc.scm is generated.
# Could make macros that distinguish generated vs. non-generated
# arguments, but there aren't many cases of that, so doesn't
# seem worth it.

CONFIGURE_FILE(${Chicken_SOURCE_DIR}/csc.scm.in 
${Chicken_BINARY_DIR}/csc.scm)
ADD_CUSTOM_COMMAND(
  OUTPUT ${Chicken_BINARY_DIR}/csc.c
  MAIN_DEPENDENCY ${Chicken_BINARY_DIR}/csc.scm
  COMMAND ${VALID_CHICKEN} ${Chicken_BINARY_DIR}/csc.scm -output-file 
${Chicken_BINARY_DIR}/csc.c ${CHICKEN_FLAGS}
)

and the output in csc.dir:

csc.c: csc.scm
    @echo "Generating csc.c"
    E:/Program\ Files/Chicken/chicken-static.exe 
E:/devel/msys/chicken1/csc.scm -output-file E:/devel/msys/chicken1/csc.c 
-quiet -no-trace -optimize-level 2 -include-path E:/devel/src/chicken

nsample.c: E:/devel/src/chicken/nsample.scm
    @echo "Generating nsample.c"
    E:/Program\ Files/Chicken/chicken-static.exe 
E:/devel/src/chicken/nsample.scm -output-file 
E:/devel/msys/chicken1/nsample.c nsample nsample -explicit-use -uses 
library -uses eval -quiet -no-trace -optimize-level 2 -include-path 
E:/devel/src/chicken

batch-driver.c: E:/devel/src/chicken/batch-driver.scm
    @echo "Generating batch-driver.c"
    E:/Program\ Files/Chicken/chicken-static.exe 
E:/devel/src/chicken/batch-driver.scm -output-file 
E:/devel/msys/chicken1/batch-driver.c batch-driver batch-driver -quiet 
-no-trace -optimize-level 2 -include-path E:/devel/src/chicken

[etc.]

Note that all my other dependencies have fully qualified pathnames.  
Note further, none of their .scm sources are generated, i.e. they're all 
of the form ${Chicken_SOURCE_DIR}/*.scm.  The error I get with csc.c:

Generating csc.c
make[2]: *** No rule to make target `E:/devel/src/chicken/csc.scm', 
needed by `CMakeFiles/csc.dir/depend.make.mark'.  Stop.
make[1]: *** [CMakeFiles/csc.dir/all] Error 2
make: *** [all] Error 2



Cheers,
Brandon Van Every