set(Source Calignm1.c constants.c defs.c Falign.c fft.c fftFunctions.c Galign11.c genalign11.c genGalign11.c Halignmm.c io.c Lalign11.c Lalignmm.c mltaln9.c MSalign11.c MSalignmm.c mtxutl.c pairlocalalign.c partQalignmm.c partSalignmm.c Qalignmm.c Ralignmm.c rna.c SAalignmm.c Salignmm.c suboptalign11.c tddis.c)
set(PROG pairlocalalign)
set(CPPFLAGS -DLLVM)
set(RUN_OPTIONS -b 62 -g 0.100 -f 2.00 -h 0.100 -L)
set(STDIN_FILENAME ${CMAKE_CURRENT_SOURCE_DIR}/pyruvate_decarboxylase.fasta)
set(LDFLAGS -lm)
set(HASH_PROGRAM_OUTPUT 1)
if("${ARCH}" STREQUAL "XCore")
  set(XCORE_TARGET_NEEDS_MEMORY 256)
  set(RUNTIMELIMIT 10800)
endif()
if("${ARCH}" STREQUAL "Mips")
  set(RUNTIMELIMIT 1500)
endif()
llvm_multisource()