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Old   March 16, 2020, 18:29
Default UDF Compilation Error
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I compiled my UDF function, however, it comes up with the following error. I wonder if anyone understands what is the problem with it. Tried searching online but could not find anything ever relevant. The lines in red supposed to tell the problem, I think, but I do not understand what do they mean.

Thanks.


---- Error Log from Fluent ----

Copied /lustre/home/wacheng50/Flash-B//lustre/home/wacheng50/Flash-B/rkeos.c to libudf/src


Working...
for d in lnamd64/[23]*; do \
( \
cd $d; \
for f in ../../src/*.[ch] ../../src/makefile ../../src/user.udf; do \
if [ ! -f `basename $f` ]; then \
echo "# linking to" $f "in" $d; \
ln -s $f .; \
fi; \
done; \
echo ""; \
echo "# building library in" $d; \
if [ "" = "1" ]; then \
echo "# using gcc64"; \
make ARCHC=gcc64 -k>makelog 2>&1; \
else \
if [ "" = "1" ]; then \
echo "# using gcc"; \
make ARCHC=gcc -k>makelog 2>&1; \
else \
make -k>makelog 2>&1; \
fi; \
fi;\
cat makelog; \
) \
done
# linking to ../../src/rkeos.c in lnamd64/2ddp
# linking to ../../src/makefile in lnamd64/2ddp
# linking to ../../src/user.udf in lnamd64/2ddp

# building library in lnamd64/2ddp
make[1]: Entering directory '/lustre/home/wacheng50/Flash-B/libudf/lnamd64/2ddp'
# Generating udf_names.c because of makefile rkeos.c
make[2]: Entering directory '/lustre/home/wacheng50/Flash-B/libudf/lnamd64/2ddp'
make libudf.so "CFLAGS=-D_lnamd64 -D_GNU_SOURCE -fpic -shared -ansi -Wall -O -DPTR_RESTRICT= " "LDFLAGS=-shared -lm"
make[3]: Entering directory '/lustre/home/wacheng50/Flash-B/libudf/lnamd64/2ddp'
# Compiling udf_names.o because of udf_names.c
cc -D_lnamd64 -D_GNU_SOURCE -fpic -shared -ansi -Wall -O -DPTR_RESTRICT= -I/lustre/sw/xc40ac/ansys/v162/fluent/fluent16.2.0/`expr "\`pwd\`" : '.*/\(.*\)/[23].*'`/`basename "\`pwd\`"` -I/lustre/sw/xc40ac/ansys/v162/fluent/fluent16.2.0/src/main -I/lustre/sw/xc40ac/ansys/v162/fluent/fluent16.2.0/src/addon-wrapper -I/lustre/sw/xc40ac/ansys/v162/fluent/fluent16.2.0/src/io -I/lustre/sw/xc40ac/ansys/v162/fluent/fluent16.2.0/src/species -I/lustre/sw/xc40ac/ansys/v162/fluent/fluent16.2.0/src/pbns -I/lustre/sw/xc40ac/ansys/v162/fluent/fluent16.2.0/src/numerics -I/lustre/sw/xc40ac/ansys/v162/fluent/fluent16.2.0/src/sphysics -I/lustre/sw/xc40ac/ansys/v162/fluent/fluent16.2.0/src/storage -I/lustre/sw/xc40ac/ansys/v162/fluent/fluent16.2.0/src/mphase -I/lustre/sw/xc40ac/ansys/v162/fluent/fluent16.2.0/src/bc -I/lustre/sw/xc40ac/ansys/v162/fluent/fluent16.2.0/src/models -I/lustre/sw/xc40ac/ansys/v162/fluent/fluent16.2.0/src/material -I/lustre/sw/xc40ac/ansys/v162/fluent/fluent16.2.0/src/amg -I/lustre/sw/xc40ac/ansys/v162/fluent/fluent16.2.0/src/util -I/lustre/sw/xc40ac/ansys/v162/fluent/fluent16.2.0/src/mesh -I/lustre/sw/xc40ac/ansys/v162/fluent/fluent16.2.0/src/udf -I/lustre/sw/xc40ac/ansys/v162/fluent/fluent16.2.0/src/ht -I/lustre/sw/xc40ac/ansys/v162/fluent/fluent16.2.0/src/dx -I/lustre/sw/xc40ac/ansys/v162/fluent/fluent16.2.0/src/turbulence -I/lustre/sw/xc40ac/ansys/v162/fluent/fluent16.2.0/src/parallel -I/lustre/sw/xc40ac/ansys/v162/fluent/fluent16.2.0/src/etc -I/lustre/sw/xc40ac/ansys/v162/fluent/fluent16.2.0/src/ue -I/lustre/sw/xc40ac/ansys/v162/fluent/fluent16.2.0/src/dpm -I/lustre/sw/xc40ac/ansys/v162/fluent/fluent16.2.0/src/dbns -I/lustre/sw/xc40ac/ansys/v162/fluent/fluent16.2.0/cortex/src -I/lustre/sw/xc40ac/ansys/v162/fluent/fluent16.2.0/client/src -I/lustre/sw/xc40ac/ansys/v162/fluent/fluent16.2.0/tgrid/src -I/lustre/sw/xc40ac/ansys/v162/fluent/fluent16.2.0/multiport/src -I/lustre/sw/xc40ac/ansys/v162/fluent/fluent16.2.0/multiport/mpi_wrapper/include -I/lustre/sw/xc40ac/ansys/v162/fluent/fluent16.2.0/multiport/mpi_wrapper/src -I. -c udf_names.c
No supported cpu target is set, CRAY_CPU_TARGET=x86-64 will be used.
Load a valid targeting module or set CRAY_CPU_TARGET
CC-2115 craycc: ERROR in command line
"-ansi" is an invalid command-line option.
CC-2119 craycc: ERROR in command line
The phase argument or the comma before the phase argument is missing for the -W option.
makefile:114: recipe for target 'udf_names.o' failed
make[3]: *** [udf_names.o] Error 1
# Compiling rkeos.o because of rkeos.c
cc -D_lnamd64 -D_GNU_SOURCE -fpic -shared -ansi -Wall -O -DPTR_RESTRICT= -I/lustre/sw/xc40ac/ansys/v162/fluent/fluent16.2.0/`expr "\`pwd\`" : '.*/\(.*\)/[23].*'`/`basename "\`pwd\`"` -I/lustre/sw/xc40ac/ansys/v162/fluent/fluent16.2.0/src/main -I/lustre/sw/xc40ac/ansys/v162/fluent/fluent16.2.0/src/addon-wrapper -I/lustre/sw/xc40ac/ansys/v162/flue
You can also see the 'log'-file in
the working directory for this compilation history

Done.
nt/fluent16.2.0/src/io -I/lustre/sw/xc40ac/ansys/v162/fluent/fluent16.2.0/src/species -I/lustre/sw/xc40ac/ansys/v162/fluent/fluent16.2.0/src/pbns -I/lustre/sw/xc40ac/ansys/v162/fluent/fluent16.2.0/src/numerics -I/lustre/sw/xc40ac/ansys/v162/fluent/fluent16.2.0/src/sphysics -I/lustre/sw/xc40ac/ansys/v162/fluent/fluent16.2.0/src/storage -I/lustre/sw/xc40ac/ansys/v162/fluent/fluent16.2.0/src/mphase -I/lustre/sw/xc40ac/ansys/v162/fluent/fluent16.2.0/src/bc -I/lustre/sw/xc40ac/ansys/v162/fluent/fluent16.2.0/src/models -I/lustre/sw/xc40ac/ansys/v162/fluent/fluent16.2.0/src/material -I/lustre/sw/xc40ac/ansys/v162/fluent/fluent16.2.0/src/amg -I/lustre/sw/xc40ac/ansys/v162/fluent/fluent16.2.0/src/util -I/lustre/sw/xc40ac/ansys/v162/fluent/fluent16.2.0/src/mesh -I/lustre/sw/xc40ac/ansys/v162/fluent/fluent16.2.0/src/udf -I/lustre/sw/xc40ac/ansys/v162/fluent/fluent16.2.0/src/ht -I/lustre/sw/xc40ac/ansys/v162/fluent/fluent16.2.0/src/dx -I/lustre/sw/xc40ac/ansys/v162/fluent/fluent16.2.0/src/turbulence -I/lustre/sw/xc40ac/ansys/v162/fluent/fluent16.2.0/src/parallel -I/lustre/sw/xc40ac/ansys/v162/fluent/fluent16.2.0/src/etc -I/lustre/sw/xc40ac/ansys/v162/fluent/fluent16.2.0/src/ue -I/lustre/sw/xc40ac/ansys/v162/fluent/fluent16.2.0/src/dpm -I/lustre/sw/xc40ac/ansys/v162/fluent/fluent16.2.0/src/dbns -I/lustre/sw/xc40ac/ansys/v162/fluent/fluent16.2.0/cortex/src -I/lustre/sw/xc40ac/ansys/v162/fluent/fluent16.2.0/client/src -I/lustre/sw/xc40ac/ansys/v162/fluent/fluent16.2.0/tgrid/src -I/lustre/sw/xc40ac/ansys/v162/fluent/fluent16.2.0/multiport/src -I/lustre/sw/xc40ac/ansys/v162/fluent/fluent16.2.0/multiport/mpi_wrapper/include -I/lustre/sw/xc40ac/ansys/v162/fluent/fluent16.2.0/multiport/mpi_wrapper/src -I. -c rkeos.c
No supported cpu target is set, CRAY_CPU_TARGET=x86-64 will be used.
Load a valid targeting module or set CRAY_CPU_TARGET
CC-2115 craycc: ERROR in command line
"-ansi" is an invalid command-line option.
CC-2119 craycc: ERROR in command line
The phase argument or the comma before the phase argument is missing for the -W option.
makefile:114: recipe for target 'rkeos.o' failed
make[3]: *** [rkeos.o] Error 1
make[3]: Target 'libudf.so' not remade because of errors.
make[3]: Leaving directory '/lustre/home/wacheng50/Flash-B/libudf/lnamd64/2ddp'
makefile:194: recipe for target 'lnamd64' failed
make[2]: *** [lnamd64] Error 2
make[2]: Leaving directory '/lustre/home/wacheng50/Flash-B/libudf/lnamd64/2ddp'
makefile:119: recipe for target 'default' failed
make[1]: *** [default] Error 2
make[1]: Leaving directory '/lustre/home/wacheng50/Flash-B/libudf/lnamd64/2ddp'
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Old   March 17, 2020, 04:17
Default OS
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Which OS and processor architecture are you using? Could you share the snapshot of following command?

uname -a
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Old   March 17, 2020, 11:42
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I ran the uname -a command and it gives the attached screen. It is a LINUX computer cluster running SLES 11.3.
Attached Images
File Type: jpg Uname.jpg (12.4 KB, 4 views)
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Old   March 17, 2020, 12:10
Default The error
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Though it appears to be something related to setting of hardware arch, which it automatically sets to x86_64, the main issue could be related to either MPI or its version. Which MPI is being used? Is it cray or some other interface?

You may try after loading PrgEnv-Intel module and setting the variable FLUENT_USE_CRAY_MPT5 = 1.
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Old   March 17, 2020, 12:29
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Thanks for your reply. The university's system information page states, "The system uses the proprietary Aries dragonfly interconnect". Or is there anywhere I can look up that information?
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Old   March 17, 2020, 12:43
Default Aries Dragonfly
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Aries is Cray. So, I suppose when you submit the job, it might be using -mpi=cray as an option. That can be checked in the log or out file written by Fluent. If that is the case, then the option to set MPT5 should work. Else, you have to check first whether the UDF compiles in serial or not. If it does, then the issue is with MPI. If it does not, then it may require either some extra modules to be loaded or quite possible the gcc version is incompatible, most likely higher than it can work with.
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Old   March 17, 2020, 13:56
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I actually compiled it in the serial version of Fluent. What do you mean by extra modules?

When compiling the code, there is a place asking for a header file. What exactly is it? I do not recall I upload any header files in the past, could that be the problem?
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Old   March 17, 2020, 14:45
Default Modules and Header Files
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The option for header files is for user defined header files. You don't have to provide any until you have some of your own header files.

By modules I mean module required to setup environment or provide variables as I mentioned earlier. To load module you need to issue the following command

module load PrgEnv-Intel

This needs to be done before loading Fluent.
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Old   March 17, 2020, 17:01
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Thank you very much for your help. It actually helped - I did not realized that the compiler is not loaded automatically upon login. I loaded the compiler and then launched Fluent, the code compiles without any problems.
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Old   March 18, 2020, 05:00
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Good that it is working now. So, the issue was due to the unavailability of compiler.
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