Linking MKL with pgfortran

Accelerated Computing HPC Compilers Legacy PGI Compilers
1

Hello,

I’m trying to work one of the example files in MKL, namely pardiso_sym_f90.f90. I obtained a c makefile from someone else, modified it for Intel fortran compiler. I am able to get this code working with that. To use the pgi compiler, I only changed the ifort command to pgfortran. The current makefile I’m using is:

#-------------------------------------------------------------------#
#Define executable
#-------------------------------------------------------------------#
EXEC := exp


#-------------------------------------------------------------------#
#Define constant
#-------------------------------------------------------------------#
RM := rm -f

#-------------------------------------------------------------------#
#Define directories
#-------------------------------------------------------------------#
SRCDIR := ./
HDRDIR := 
SRCEXT := f90


#-------------------------------------------------------------------#
#Define directories    for object and dependency files
#-------------------------------------------------------------------#
OBJDIR := .o

DEPDIR = .d


#-------------------------------------------------------------------#
#Generate source files list
#-------------------------------------------------------------------#
SRCS := $(wildcard $(SRCDIR)/*.$(SRCEXT))


#-------------------------------------------------------------------#
#Generate object and dependency files
#-------------------------------------------------------------------#
OBJS := $(patsubst %,$(OBJDIR)/%.o,$(basename $(SRCS)))

DEPS := $(patsubst %,$(DEPDIR)/%.d,$(basename $(SRCS)))

$(shell mkdir -p $(dir $(OBJS)) >/dev/null)

$(shell mkdir -p $(dir $(DEPS)) >/dev/null)


#-------------------------------------------------------------------#
#Define compiler and library flags
#-------------------------------------------------------------------#
FC := pgfortran	

LD := pgfortran

FFLAGS := -warn all -O2 -i8 -I${MKLROOT}/include

LDFLAGS := -L${MKLROOT}/lib/intel64

LDLIBS = -lmkl_intel_ilp64 -lmkl_sequential -lmkl_core -lpthread -lm -ldl

#-------------------------------------------------------------------#
#Define dependencies
#-------------------------------------------------------------------#
DEPFLAGS = -MT $@ -MMD -MP -MF $(DEPDIR)/$*.Td


#-------------------------------------------------------------------#
#Define compiling and linking commands
#-------------------------------------------------------------------#
COMPILE.f90 = $(FC) $(DEPFLAGS) $(FFLAGS) $(TARGET_ARCH) -c -o $@

LINK.o = $(LD) $(LDFLAGS) $(TARGET_ARCH) -o $@

POSTCOMPILE = mv -f $(DEPDIR)/$*.Td $(DEPDIR)/$*.d


#-------------------------------------------------------------------#
#Define rules
#-------------------------------------------------------------------#

all: $(EXEC)

.PHONY: clean
clean:
	$(RM) -r $(OBJDIR) $(DEPDIR)

.PHONY: distclean
distclean: clean
	$(RM) $(EXEC)


$(EXEC): $(OBJS)
	#$(LD) $(LDFLAGS) $(TARGET_ARCH) -o $@ $^ $(LDLIBS)
	$(LINK.o) $^ $(LDLIBS)

$(OBJDIR)/%.o: %.f90
$(OBJDIR)/%.o: %.f90 $(DEPDIR)/%.d
	$(COMPILE.f90) $<
	$(POSTCOMPILE)


.PRECIOUS: $(DEPDIR)/%.d
$(DEPDIR)/%.d: ;

-include $(DEPS)

The error I get:

pgfortran -MT .o/.//pardiso_sym_f90.o -MMD -MP -MF .d/.//pardiso_sym_f90.Td -warn all -O2 -i8 -I/home/kaan/intel/compilers_and_libraries_2019.3.199/linux/mkl/include -c -o .o/.//pardiso_sym_f90.o pardiso_sym_f90.f90
pgfortran-Error-Unknown switch: -MT
pgfortran-Error-Unknown switch: -MMD
pgfortran-Error-Unknown switch: -MP
pgfortran-Error-Unknown switch: -MF
pgfortran-Error-Unknown switch: -warn
Makefile:97: recipe for target ‘.o/.//pardiso_sym_f90.o’ failed
make: *** [.o/.//pardiso_sym_f90.o] Error 1

When I close the unknown switches; makefile becomes:

#-------------------------------------------------------------------#
#Define executable
#-------------------------------------------------------------------#
EXEC := exp


#-------------------------------------------------------------------#
#Define constant
#-------------------------------------------------------------------#
RM := rm -f

#-------------------------------------------------------------------#
#Define directories
#-------------------------------------------------------------------#
SRCDIR := ./
HDRDIR := 
SRCEXT := f90


#-------------------------------------------------------------------#
#Define directories    for object and dependency files
#-------------------------------------------------------------------#
OBJDIR := .o

DEPDIR = .d


#-------------------------------------------------------------------#
#Generate source files list
#-------------------------------------------------------------------#
SRCS := $(wildcard $(SRCDIR)/*.$(SRCEXT))


#-------------------------------------------------------------------#
#Generate object and dependency files
#-------------------------------------------------------------------#
OBJS := $(patsubst %,$(OBJDIR)/%.o,$(basename $(SRCS)))

DEPS := $(patsubst %,$(DEPDIR)/%.d,$(basename $(SRCS)))

$(shell mkdir -p $(dir $(OBJS)) >/dev/null)

$(shell mkdir -p $(dir $(DEPS)) >/dev/null)


#-------------------------------------------------------------------#
#Define compiler and library flags
#-------------------------------------------------------------------#
FC := pgfortran	

LD := pgfortran

#FFLAGS := -warn all -O2 -i8 -I${MKLROOT}/include

LDFLAGS := -L${MKLROOT}/lib/intel64

LDLIBS = -lmkl_intel_ilp64 -lmkl_sequential -lmkl_core -lpthread -lm -ldl

#-------------------------------------------------------------------#
#Define dependencies
#-------------------------------------------------------------------#
#DEPFLAGS = -MT $@ -MMD -MP -MF $(DEPDIR)/$*.Td


#-------------------------------------------------------------------#
#Define compiling and linking commands
#-------------------------------------------------------------------#
COMPILE.f90 = $(FC) $(DEPFLAGS) $(FFLAGS) $(TARGET_ARCH) -c -o $@

LINK.o = $(LD) $(LDFLAGS) $(TARGET_ARCH) -o $@

POSTCOMPILE = mv -f $(DEPDIR)/$*.Td $(DEPDIR)/$*.d


#-------------------------------------------------------------------#
#Define rules
#-------------------------------------------------------------------#

all: $(EXEC)

.PHONY: clean
clean:
	$(RM) -r $(OBJDIR) $(DEPDIR)

.PHONY: distclean
distclean: clean
	$(RM) $(EXEC)


$(EXEC): $(OBJS)
	#$(LD) $(LDFLAGS) $(TARGET_ARCH) -o $@ $^ $(LDLIBS)
	$(LINK.o) $^ $(LDLIBS)

$(OBJDIR)/%.o: %.f90
$(OBJDIR)/%.o: %.f90 $(DEPDIR)/%.d
	$(COMPILE.f90) $<
	$(POSTCOMPILE)


.PRECIOUS: $(DEPDIR)/%.d
$(DEPDIR)/%.d: ;

-include $(DEPS)

The error I get:

pgfortran -c -o .o/.//pardiso_sym_f90.o pardiso_sym_f90.f90
PGF90-S-0017-Unable to open include file: mkl_pardiso.f90 (pardiso_sym_f90.f90: 22)
PGF90-F-0004-Unable to open MODULE file mkl_pardiso.mod (pardiso_sym_f90.f90: 24)
PGF90/x86-64 Linux 18.10-1: compilation aborted
Makefile:97: recipe for target ‘.o/.//pardiso_sym_f90.o’ failed
make: *** [.o/.//pardiso_sym_f90.o] Error 2

I’m fairly new to makefile concept, any help with this specific problem or in general is appreciated.

Thank you in advance.

2

Hi kkb,

The problem here is that the compiler doesn’t can’t find the include file.

To fix, update you’re make file with the path to the file.

#FFLAGS := -warn all -O2 -i8 -I${MKLROOT}/include
FFLAGS := -O2 -i8 -I${MKLROOT}/include

Hope this helps,
Mat

3

Thanks Mat.

With your suggestion, I’m able to create the module files mkl_pardio.mod and mkl_pardiso_private.mod. However, now I’m faced with this result.

pgfortran -O2 -i8 -I/home/kaan/intel/compilers_and_libraries_2019.3.199/linux/mkl/include -c -o .o/.//pardiso_sym_f90.o pardiso_sym_f90.f90
PGF90-W-0155-END statement for internal procedure should be END FUNCTION (/home/kaan/intel/compilers_and_libraries_2019.3.199/linux/mkl/include/mkl_pardiso.f90: 485)
PGF90-W-0155-END statement for internal procedure should be END SUBROUTINE (/home/kaan/intel/compilers_and_libraries_2019.3.199/linux/mkl/include/mkl_pardiso.f90: 496)
PGF90-W-0155-END statement for internal procedure should be END SUBROUTINE (/home/kaan/intel/compilers_and_libraries_2019.3.199/linux/mkl/include/mkl_pardiso.f90: 504)
PGF90-W-0155-END statement for internal procedure should be END SUBROUTINE (/home/kaan/intel/compilers_and_libraries_2019.3.199/linux/mkl/include/mkl_pardiso.f90: 518)
PGF90-W-0155-END statement for internal procedure should be END SUBROUTINE (/home/kaan/intel/compilers_and_libraries_2019.3.199/linux/mkl/include/mkl_pardiso.f90: 528)
PGF90-W-0155-END statement for internal procedure should be END SUBROUTINE (/home/kaan/intel/compilers_and_libraries_2019.3.199/linux/mkl/include/mkl_pardiso.f90: 538)
PGF90-W-0155-END statement for internal procedure should be END SUBROUTINE (/home/kaan/intel/compilers_and_libraries_2019.3.199/linux/mkl/include/mkl_pardiso.f90: 548)
0 inform, 7 warnings, 0 severes, 0 fatal for mkl_pardiso
mv -f .d/.//pardiso_sym_f90.Td .d/.//pardiso_sym_f90.d
mv: cannot stat ‘.d/.//pardiso_sym_f90.Td’: No such file or directory
Makefile:98: recipe for target ‘.o/.//pardiso_sym_f90.o’ failed
make: *** [.o/.//pardiso_sym_f90.o] Error 1

I think my mistake is that I’m trying to create the dependencies automatically, but because of the wrong flag options I’m faced with errors. What else can I fix or are there any suggestions?

Thanks in advance.

4

We do have some flags for creating makefile dependencies. If you do pgfortran -help, you will see things like -Mcpp[=m|md|mm…] You should see if those map to what you were using with ifort.