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MPI installation error

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Old   January 28, 2024, 14:45
Default MPI installation error
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Hi,

I am trying to compile SU2-8.0.0 on an hpc cluster. For this I am using intel-suite mpi. I am first running the meson.py script with the following configuration:


Code:
./meson.py build --reconfigure -Denable-autodiff=true  -Denable-directdiff=true -Dwith-mpi=enabled -Dcustom-mpi=true  -Dprefix=~/Compiled-SU2-8.0.0-mpi
which runs ok without any errors. However, when running ./ninja -C build install I am getting the following error:

Code:
Found ninja-1.10.0.git at /rds/general/user/jg2219/home/Source/SU2-8.0.0/ninja
ninja: Entering directory `build'
[1/1368] Compiling C object externals/cgns/hdf5/libsu2hdf5.a.p/H5Dtest.c.o
FAILED: externals/cgns/hdf5/libsu2hdf5.a.p/H5Dtest.c.o 
icc -Iexternals/cgns/hdf5/libsu2hdf5.a.p -Iexternals/cgns/hdf5  -I../externals/cgns/hdf5 -std=c99 -O3 -fPIC -D_FILE_OFFSET_BITS=64  -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -D_POSIX_C_SOURCE=200809L  -D_GNU_SOURCE -MD -MQ externals/cgns/hdf5/libsu2hdf5.a.p/H5Dtest.c.o -MF  externals/cgns/hdf5/libsu2hdf5.a.p/H5Dtest.c.o.d -o  externals/cgns/hdf5/libsu2hdf5.a.p/H5Dtest.c.o -c  ../externals/cgns/hdf5/H5Dtest.c
In file included from ../externals/cgns/hdf5/H5private.h(27),
                 from ../externals/cgns/hdf5/H5Dtest.c(30):
../externals/cgns/hdf5/H5public.h(63): catastrophic error: cannot open source file "mpi.h"
  #include <mpi.h>
                  ^

 compilation aborted for ../externals/cgns/hdf5/H5Dtest.c (code 4)
Any idea on how to fix this?

I have read on the forum that setting the following environment variables could help:


Code:
export MPICXX="/apps/mpi/intel/2019.6.166/bin/mpicxx"
export MPICC="/apps/mpi/intel/2019.6.166/bin/mpicc"
export CXX=$MPICXX 
 export CC=$MPICC
However, it doesn't make any difference and still getting the same error. Any ideas on how to solve this are more than welcomed.

Thanks for your help
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Old   January 28, 2024, 17:46
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The compiler cannot find mpi.h. Does compiling with mpi work at all for you?
When this is an institute hpc, it might be that you have to manually load an mpi library first. You can test if mpi works by compiling a simple program for instance:

https://www.codingame.com/playground...ps-hello-world
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Old   January 29, 2024, 13:13
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Quote:
Originally Posted by bigfootedrockmidget View Post
The compiler cannot find mpi.h. Does compiling with mpi work at all for you?
When this is an institute hpc, it might be that you have to manually load an mpi library first. You can test if mpi works by compiling a simple program for instance:

https://www.codingame.com/playground...ps-hello-world
Thanks for your reply.


I have verified I was loading the mpi library, in this case the one available in the hpc cluster is: intel-suit mpi. However, the compiler still encounters difficulties locating mpi.h.


I attempted to compile a simple MPI "hello-world" program, and it compiled successfully. This suggests that the issue might be specific to my current project or configuration.


I would appreciate any suggestions or insights on what might be causing this issue.


Many thanks!
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