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[OpenFOAM.com] Compiling v2006, mpicc -- broken

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Old   July 3, 2020, 06:31
Cool Compiling v2006, mpicc -- broken
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Henrik
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Hi,

Hopyfully this is the right place to ask such a question as a beginner.

I'm trying to compile the source code for v2006 and openmpi on a Ubuntu 20.04 machine, getting this error:

Everything beforehand works just fine, it is this part just at the start of the OpenFOAM compiling process that a problem occurs.

Code:
========================================
Done ThirdParty Allwmake
========================================

========================================
Compile OpenFOAM libraries

    ln: OpenFOAM/lnInclude
    ln: OSspecific/POSIX/lnInclude


...



OpenFOAM/OpenFOAM-v2006/platforms/linux64GccDPInt32OptOPENMPI/lib \
    -L/home/henrik/OpenFOAM/ThirdParty-v2006/platforms/linux64Gcc/openmpi-4.0.3/lib64 -L/home/henrik/OpenFOAM/ThirdParty-v2006/platforms/linux64Gcc/openmpi-4.0.3/lib -lmpi  -o /home/henrik/OpenFOAM/OpenFOAM-v2006/platforms/linux64GccDPInt32Opt/lib/openmpi-4.0.3/libPstream.so
g++: error: /home/henrik/OpenFOAM/OpenFOAM-v2006/build/linux64GccDPInt32OptOPENMPI/src/Pstream/mpi/UOPwrite.o: No such file or directory
g++: error: /home/henrik/OpenFOAM/OpenFOAM-v2006/build/linux64GccDPInt32OptOPENMPI/src/Pstream/mpi/UIPread.o: No such file or directory
g++: error: /home/henrik/OpenFOAM/OpenFOAM-v2006/build/linux64GccDPInt32OptOPENMPI/src/Pstream/mpi/UPstream.o: No such file or directory
g++: error: /home/henrik/OpenFOAM/OpenFOAM-v2006/build/linux64GccDPInt32OptOPENMPI/src/Pstream/mpi/PstreamGlobals.o: No such file or directory
make: *** [/home/henrik/OpenFOAM/OpenFOAM-v2006/wmake/makefiles/general:184: /home/henrik/OpenFOAM/OpenFOAM-v2006/platforms/linux64GccDPInt32Opt/lib/openmpi-4.0.3/libPstream.so] Error 1
Any help or hint on how to proceed would make my day.

Some trouble regarding AIDOS compilation was alleviated by:
Code:
sudo apt install --reinstall #_mpi libraries here_#
perhaps it is related?

Compilation has previously worked fine for OF version 19.06, though since then the ubuntu distro has been upgraded.

Cheers
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Old   July 4, 2020, 14:48
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Fatih Ertinaz
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Hello Henrik,

The problem is the objects under Pstream is not created properly which indicates an MPI related problem.

I recently compiled OF-2006, but I did by installing openmpi manually. New OF is shipped with openmpi-4.0.3, which I believe is not the version installed using the package manager. I assumed that's what you did.

So you got two options here:
  1. Manually install openmpi-4.0.3: You'll have to download and build it by yourself. If you're a beginner this may sound daunting, but I assure you it's not. One thing that you need to be careful with is updating the OS environment variables PATH and LD_LIBRARY_PATH. If you choose to do this, you don't need to change anything in the OF configuration files. But I guess you might have set "MPI_ARCH_PATH" to your MPI installation path.
  2. Use openmpi-4.0.3 that is shipped with ThirdParty: If you want OF to install openmpi for you, then you need to find the following line in the etc/bashrc:
    export WM_MPLIB=SYSTEMOPENMPI
    and change it to
    export WM_MPLIB=OPENMPI
    This is gonna (supposedly, haven't tried myself) find the openmpi-4.0.3 directory under the ThirdParty folder, and build openmpi from scratch. I don't think you need to change anything else if you follow this approach.

Hope this helps
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Old   July 5, 2020, 05:31
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Henrik
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Hi again, and thanks!

I solved the problem by compiling the MPI that comes in ThirdParty. Apparently compiling the package with the flag -k such as below is what's needed for the libraries to be built fully.

Code:
./Allwmake -k
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Old   July 9, 2020, 11:35
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Miguel Castellano
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No that just skips the errors so compilation is not interrupted but you still have to build it again without -k option to make sure everything went fine.
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Old   July 14, 2020, 06:09
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Aaron Endres
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Hi Henrik,



I just had the same issue. In my case, it was caused by the -q flag for Allwmake, which is recommended in the build guide. When omitting the -q flag (just running ./Allwmake -j -s -l), the compilation even worked with the systems openmpi (WM_MPLIB=SYSTEMOPENMPI). This could explain why "./Allwmake -k" resolved the issue in your case.
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