OpenFOAM does not work any more!
 

Dear guys,

I have been using OpenFOAM2.1.0 for a while. But suddenly it does not work after I am trying to compile the utility foamToTecplot360. I think this is the reason which caused OpenFOAM can not work properly....

It gives the error: icoFoam: error while loading shared libraries: libmpi.so.1: cannot open shared object file: No such file or directory

I use "foamInstallationTest " to test, and get:


Checking basic setup...
-------------------------------------------------------------------------------
Shell: bash
Host: tud204501
OS: Linux version 3.0.51-0.7.9-default
-------------------------------------------------------------------------------


Checking main OpenFOAM env variables...
-------------------------------------------------------------------------------
Environment_variable Set_to_file_or_directory Valid Crit
-------------------------------------------------------------------------------
$WM_PROJECT_INST_DIR /opt/apps/openfoam-2.1.0 yes yes
$WM_PROJECT_USER_DIR /home/yzhang13/OpenFOAM/yzhang13-2.1.0 yes no
$WM_THIRD_PARTY_DIR /home/yzhang13/OpenFOAM/ThirdParty-2.1.0 yes yes
-------------------------------------------------------------------------------


Checking the OpenFOAM env variables set on the PATH...
-------------------------------------------------------------------------------
Environment_variable Set_to_file_or_directory Valid Path Crit
-------------------------------------------------------------------------------
$WM_PROJECT_DIR /opt/apps/openfoam-2.1.0/OpenFOAM-2.1.0 yes yes yes

$FOAM_APPBIN ...-2.1.0/platforms/linux64GccDPOpt/bin yes yes yes
$FOAM_SITE_APPBIN .../2.1.0/platforms/linux64GccDPOpt/bin no no
$FOAM_USER_APPBIN ...-2.1.0/platforms/linux64GccDPOpt/bin yes yes no
$WM_DIR .../openfoam-2.1.0/OpenFOAM-2.1.0/wmake yes yes yes
-------------------------------------------------------------------------------


Checking the OpenFOAM env variables set on the LD_LIBRARY_PATH...
-------------------------------------------------------------------------------
Environment_variable Set_to_file_or_directory Valid Path Crit
-------------------------------------------------------------------------------
$FOAM_LIBBIN ...-2.1.0/platforms/linux64GccDPOpt/lib yes yes yes
$FOAM_SITE_LIBBIN .../2.1.0/platforms/linux64GccDPOpt/lib no no
$FOAM_USER_LIBBIN ...-2.1.0/platforms/linux64GccDPOpt/lib yes yes no
$MPI_ARCH_PATH ...0/platforms/linux64Gcc/openmpi-1.5.3 no yes
-------------------------------------------------------------------------------


Third party software
-------------------------------------------------------------------------------
Software Version Location
-------------------------------------------------------------------------------
flex 2.5.35 /usr/bin/flex
gcc 4.3.4 /usr/bin/gcc
gzip 1.3.12 /usr/bin/gzip
tar 1.26 /bin/tar
icoFoam ...0/OpenFOAM-2.1.0/platforms/linux64GccDPOpt/bin/icoFoam
-------------------------------------------------------------------------------


Summary
-------------------------------------------------------------------------------
Base configuration ok.
Critical systems ok.

Done

Can someone guide me to fix the problem?
Thank you in advance!

Best regards,
Ye

Your mpi libraries are not in your ld_library_path.

Did you install openmpi in third party or are you using your system package?

Dear Laurence,

Thank you for your reply.

OpenFOAM works perfectly before I am trying to add utility foamToTecplot360. I added this utility maybe also added ThirdParty package (I can not remember.....). Because I remembered that there is no ThirdParty folder in my user folder before..... but now, there it is.

Hope this gave you some information. Thanks!

Best regards,
Ye

Give the outputs of:

echo $MPI_ARCH_PATH
echo $WM_MPLIB
echo $LD_LIBRARY_PATH | tr -s ' ' '\n'
locate libmpi.so

Dear Laurence,

First of all, thank you so much!
The output looks like:

echo $MPI_ARCH_PATH
/home/yzhang13/OpenFOAM/ThirdParty-2.1.0/platforms/linux64Gcc/openmpi-1.5.3

echo $WM_MPLIB
OPENMPI

echo $LD_LIBRARY_PATH | tr -s ' ' '\n'
/opt/apps/openfoam-2.1.0/OpenFOAM-2.1.0/platforms/linux64GccDPOpt/lib/openmpi-1.5.3:/home/yzhang13/OpenFOAM/ThirdParty-2.1.0/platforms/linux64GccDPOpt/lib/openmpi-1.5.3:/home/yzhang13/OpenFOAM/ThirdParty-2.1.0/platforms/linux64Gcc/openmpi-1.5.3/lib:/home/yzhang13/OpenFOAM/yzhang13-2.1.0/platforms/linux64GccDPOpt/lib:/opt/apps/openfoam-2.1.0/site/2.1.0/platforms/linux64GccDPOpt/lib:/opt/apps/openfoam-2.1.0/OpenFOAM-2.1.0/platforms/linux64GccDPOpt/lib:/home/yzhang13/OpenFOAM/ThirdParty-2.1.0/platforms/linux64GccDPOpt/lib:/opt/apps/openfoam-2.1.0/OpenFOAM-2.1.0/platforms/linux64GccDPOpt/lib/dummy:/usr/lib64/mpi/gcc/openmpi/lib64:/usr/lib64/mpi/gcc/openmpi/lib64/

locate libmpi.so
/usr/lib64/mpi/gcc/openmpi/lib64/libmpi.so.0
/usr/lib64/mpi/gcc/openmpi/lib64/libmpi.so.0.0.3


Best regards,
Ye

It should be picked up then.

Does you $MPI_ARCH_PATH have anything in it? Your WM_MPLIB is OPENMPI so you should have openmpi installed in the ThirdParty folder. If you want to use the system openmpi libraries then change WM_MPLIB to SYSTEMOPENMPI.

Can you then also do:

ldd $(which icoFoam)

Greetings to all!

Just passing by to say that building foamToTecplot360 shouldn't have lead to such a big confusion :(
It would have been as simple as following the instructions provided here: https://github.com/wyldckat/localFoamToTecplot360

Best regards,
Bruno

Dear Laurence,

Sorry for the delay. Thanks! Today I tried to change WM_MPLIB to SYSTEMOPENMPI. But I can not edit /etc/bashrc file due to no permission(I can not change this situation in our faculty). Probably this means the original option is WM_MPLIB, am I right? So maybe this is no the reason result in this problem??

To be mentioned, I have also installed OpenFOAM-1.6-ext version, and it works good. I check /etc/bashrc file, and the option is SYSTEMOPENMPI..... So I am confused.....

By the way, I also check ldd $(which icoFoam) as you said, and it gives:

linux-vdso.so.1 => (0x00007fff75bff000)
libfiniteVolume.so => /opt/apps/openfoam-2.1.0/OpenFOAM-2.1.0/platforms/linux64GccDPOpt/lib/libfiniteVolume.so (0x00007f2d8a209000)
libOpenFOAM.so => /opt/apps/openfoam-2.1.0/OpenFOAM-2.1.0/platforms/linux64GccDPOpt/lib/libOpenFOAM.so (0x00007f2d89ae7000)
libdl.so.2 => /lib64/libdl.so.2 (0x00007f2d8989e000)
libstdc++.so.6 => /usr/lib64/libstdc++.so.6 (0x00007f2d89593000)
libm.so.6 => /lib64/libm.so.6 (0x00007f2d8931a000)
libgcc_s.so.1 => /lib64/libgcc_s.so.1 (0x00007f2d89104000)
libc.so.6 => /lib64/libc.so.6 (0x00007f2d88d8c000)
libPstream.so => /opt/apps/openfoam-2.1.0/OpenFOAM-2.1.0/platforms/linux64GccDPOpt/lib/openmpi-1.5.3/libPstream.so (0x00007f2d88b81000)
libpthread.so.0 => /lib64/libpthread.so.0 (0x00007f2d88964000)
libtriSurface.so => /opt/apps/openfoam-2.1.0/OpenFOAM-2.1.0/platforms/linux64GccDPOpt/lib/libtriSurface.so (0x00007f2d886ef000)
libmeshTools.so => /opt/apps/openfoam-2.1.0/OpenFOAM-2.1.0/platforms/linux64GccDPOpt/lib/libmeshTools.so (0x00007f2d8824d000)
libz.so.1 => /lib64/libz.so.1 (0x00007f2d88037000)
/lib64/ld-linux-x86-64.so.2 (0x00007f2d8b277000)
libmpi.so.1 => not found
libfileFormats.so => /opt/apps/openfoam-2.1.0/OpenFOAM-2.1.0/platforms/linux64GccDPOpt/lib/libfileFormats.so (0x00007f2d87e2e000)

Best regards,
Ye

Dear Bruno,

Thanks for your reply.

I am quite sure that OpenFOAM does not work after I tried to compile this utility as the guideline in this forum. Because of no permission as ordinary user in my office computer, I failed to compile it. After that, OpenFOAM stoped working....

Hope you can help me! Thanks!

Best regards,
Ye

Hi Ye,

If the "WM_THIRD_PARTY_DIR" variable is pointing to the "ThirdParty-2.1.0" folder in your home path, then you clearly modified something critical.

What changes have you made to the file "$HOME/.bashrc"? You can see the path to the file I'm talking about by running:
Or did you add any files to the folder "$HOME/.OpenFOAM"?
Notice that this is a folder named ".OpenFOAM", not "OpenFOAM"!

Best regards,
Bruno

Dear Bruno,

Thanks for your help!

Indeed, there is folder under $HOME/.OpenFOAM which named 2.1.0, and there is a file 'prefs.sh' in it.

The phase in the file is:
export WM_THIRD_PARTY_DIR=/home/yzhang13/OpenFOAM/ThirdParty-2.1.0

Is it the reason which caused OpenFOAM does not work?
Thank you again, Bruno.

Best regards,
Ye

Hi Ye,

Yes, once you remove that file 'prefs.sh' and start a new terminal, OpenFOAM 2.1.0 should work properly once again.

As for foamToTecplot360, when you followed the instructions from here: https://github.com/wyldckat/localFoamToTecplot360 - at which step were you not able to follow?
Did you try the instructions from section "Using Zip or Tar"?

Best regards,
Bruno