Hello, I get the same error when running in a single node. I will try to use the last version. Is there way to check if different versions of open mpi were used in different nodes? Cheers,
El jue., 5 dic. 2019 a las 19:10, Jeff Squyres (jsquyres) (< jsquy...@cisco.com>) escribió: > Are you able to run on a single node? > > Is there any chance you can upgrade your Open MPI? 1.10 is ancient and > isn't really supported any more. 4.0.2 is the current version. > > > On Dec 5, 2019, at 7:15 PM, Guido granda muñoz <guidogra...@gmail.com> > wrote: > > Hello Jeff, > > Thank you for replying. I ran it using PBS like this: > > #!/bin/bash > #PBS -l nodes=2:ppn=32 > #PBS -N cond_0_h3 > #PBS -o cond_0_h3.o > #PBS -e cond_0_h3.e > > > PATH=$PATH:/usr/mpi/intel/openmpi-1.10.3/bin > > LD_LIBRARY_PATH=/share/apps/composerxe-2011.2.137/lib/intel64:$LD_LIBRARY_PATH > cd $PBS_O_WORKDIR > mpirun -np 64 ./flash4 > > Besides that, my .bashrc has the following lines: > # Source global definitions > if [ -f /etc/bashrc ]; then > . /etc/bashrc > fi > #irya.guido.intel > export PATH=$PATH:/home/guido/libraries/compiled_with_intel/hdf5-1.8.20/bin > export > INCLUDE=$INCLUDE:/home/guido/libraries/compiled_with_intel/hdf5-1.8.20/include > export > CPATH=$CPATH:/home/guido/libraries/compiled_with_intel/hdf5-1.8.20/include > export > LIBRARY_PATH=$LIBRARY_PATH:/home/guido/libraries/compiled_with_intel/hdf5-1.8.20/lib > export > LD_LIBRARY_PATH=$LD_LIBRARY_PATH:/home/guido/libraries/compiled_with_intel/hdf5-1.8.20/lib > ###intel open-mpi system### > export PATH=$PATH:/usr/mpi/intel/openmpi-1.10.3/bin > export INCLUDE=$INCLUDE:/usr/mpi/intel/openmpi-1.10.3/include > export CPATH=$CPATH:/usr/mpi/intel/openmpi-1.10.3/include > export LIBRARY_PATH=$LIBRARY_PATH:/usr/mpi/intel/openmpi-1.10.3/lib > export LD_LIBRARY_PATH=$LD_LIBRARY_PATH:/usr/mpi/intel/openmpi-1.10.3/lib > ##anaconda 3 ## > export PATH="$PATH:/home/guido/anaconda3/bin" # commented out by conda > initialize > # Intel > export > PATH=$PATH:/share/apps/composerxe-2011.2.137/composerxe-2011.2.137/bin/intel64/ > export > INCLUDE=$INCLUDE:/share/apps/composerxe-2011.2.137/composerxe-2011.2.137/bin/intel64/ > export > CPATH=$CPATH:/share/apps/composerxe-2011.2.137/composerxe-2011.2.137/bin/intel64/ > export > LIBRARY_PATH=$LIBRARY_PATH:/share/apps/composerxe-2011.2.137/composerxe-2011.2.137/bin/intel64/ > export > LD_LIBRARY_PATH=$LD_LIBRARY_PATH:/share/apps/composerxe-2011.2.137/composerxe-2011.2.137/bin/intel64/ > > How Can I check that what you suggested was the reason for this error? > Cheers, > > El jue., 5 dic. 2019 a las 18:02, Jeff Squyres (jsquyres) (< > jsquy...@cisco.com>) escribió: > >> How did you try to execute your application? >> >> An error message like this can mean that you accidentally mixed versions >> of Open MPI within your run (e.g., used Open MPI va.b.c on node A but used >> Open MPI vx.y.z on node B). >> >> >> > On Dec 5, 2019, at 5:28 PM, Guido granda muñoz via users < >> users@lists.open-mpi.org> wrote: >> > >> > Hello open-mpi users, >> > I'm getting some problem while using openmpi-1.10.3. The executable was >> compiled using : (ldd output) >> > >> > linux-vdso.so.1 => (0x00007fffd9e8b000) >> > libhdf5.so.10 => >> /home/guido/libraries/compiled_with_intel/hdf5-1.8.20/lib/libhdf5.so.10 >> (0x00002ac4313c4000) >> > libhdf5_fortran.so.10 => >> /home/guido/libraries/compiled_with_intel/hdf5-1.8.20/lib/libhdf5_fortran.so.10 >> (0x00002ac4319ca000) >> > libz.so.1 => /lib64/libz.so.1 (0x00002ac431c2d000) >> > libmpi_usempif08.so.11 => >> /usr/mpi/intel/openmpi-1.10.3/lib/libmpi_usempif08.so.11 >> (0x00002ac431e44000) >> > libmpi_usempi_ignore_tkr.so.6 => >> /usr/mpi/intel/openmpi-1.10.3/lib/libmpi_usempi_ignore_tkr.so.6 >> (0x00002ac432077000) >> > libmpi_mpifh.so.12 => >> /usr/mpi/intel/openmpi-1.10.3/lib/libmpi_mpifh.so.12 (0x00002ac432280000) >> > libmpi.so.12 => /usr/mpi/intel/openmpi-1.10.3/lib/libmpi.so.12 >> (0x00002ac4324df000) >> > libm.so.6 => /lib64/libm.so.6 (0x00002ac4327e7000) >> > libpthread.so.0 => /lib64/libpthread.so.0 (0x00002ac432a6b000) >> > libc.so.6 => /lib64/libc.so.6 (0x00002ac432c88000) >> > libgcc_s.so.1 => /lib64/libgcc_s.so.1 (0x00002ac43301d000) >> > libdl.so.2 => /lib64/libdl.so.2 (0x00002ac433233000) >> > libimf.so => >> /share/apps/composerxe-2011.2.137/composerxe-2011.2.137/compiler/lib/intel64/libimf.so >> (0x00002ac433437000) >> > libsvml.so => >> /share/apps/composerxe-2011.2.137/composerxe-2011.2.137/compiler/lib/intel64/libsvml.so >> (0x00002ac43381b000) >> > libintlc.so.5 => >> /share/apps/composerxe-2011.2.137/composerxe-2011.2.137/compiler/lib/intel64/libintlc.so.5 >> (0x00002ac433ec3000) >> > libifport.so.5 => >> /share/apps/composerxe-2011.2.137/composerxe-2011.2.137/compiler/lib/intel64/libifport.so.5 >> (0x00002ac434013000) >> > libifcore.so.5 => >> /share/apps/composerxe-2011.2.137/composerxe-2011.2.137/compiler/lib/intel64/libifcore.so.5 >> (0x00002ac43414c000) >> > libopen-rte.so.12 => >> /usr/mpi/intel/openmpi-1.10.3/lib/libopen-rte.so.12 (0x00002ac4343ad000) >> > libopen-pal.so.13 => >> /usr/mpi/intel/openmpi-1.10.3/lib/libopen-pal.so.13 (0x00002ac43464e000) >> > librt.so.1 => /lib64/librt.so.1 (0x00002ac43496a000) >> > libutil.so.1 => /lib64/libutil.so.1 (0x00002ac434b72000) >> > libifcoremt.so.5 => >> /share/apps/composerxe-2011.2.137/composerxe-2011.2.137/compiler/lib/intel64/libifcoremt.so.5 >> (0x00002ac434d76000) >> > /lib64/ld-linux-x86-64.so.2 (0x00002ac4311a2000) >> > >> > When I run it, I get the following message: >> > >> > [compute-0-34.local:17553] [[5279,0],0] mca_oob_tcp_recv_handler: >> invalid message type: 15 >> > >> -------------------------------------------------------------------------- >> > mpirun noticed that the job aborted, but has no info as to the process >> > that caused that situation. >> > >> > The executable was also compiled using hdf5-1.8.20 >> > I really don't know wht this error means, could please help me? >> > Cheers, >> > -- >> > Guido >> >> >> -- >> Jeff Squyres >> jsquy...@cisco.com >> >> > > -- > Guido > > > > -- > Jeff Squyres > jsquy...@cisco.com > > -- Guido
