[OMPI users] Fwd: mpirun noticed that process rank 5 with PID 0 on node localhost exited on signal 9 (Killed).
Thank you for your response. I attached the results of using :valgrind --tool=memcheck --leak-check=yes -v valgrind --tool=memcheck --leak-check=yes -v mpirun -np 8 -mca btl vader,self,tcp -mca btl_tcp_eager_limit 4095 -x LD_LIBRARY_PATH ./chimere.e في الجمعة، 28 سبتمبر 2018 في 7:03 م تمت كتابة ما يلي بواسطة Ralph H Castain <r...@open-mpi.org>: > Ummm…looks like you have a problem in your input deck to that application. > Not sure what we can say about it… > > > > On Sep 28, 2018, at 9:47 AM, Zeinab Salah wrote: > > > > Hi everyone, > > I use openmpi-3.0.2 and I want to run chimere model with 8 processors, > but in the step of parallel mode, the run stopped with the following error > message, > > Please could you help me? > > Thank you in advance > > Zeinab > > > > +++ CHIMERE RUNNING IN PARALLEL MODE +++ > > MPI SUB-DOMAINS : > > rank izstart izend nzcount imstart imend nmcount i j > > > >1 1 14 14 1 22 22 1 1 > >2 15 27 13 1 22 22 2 1 > >3 28 40 13 1 22 22 3 1 > >4 41 53 13 1 22 22 4 1 > >5 1 14 14 23 43 21 1 2 > >6 15 27 13 23 43 21 2 2 > >7 28 40 13 23 43 21 3 2 > >8 41 53 13 23 43 21 4 2 > > Sub domain dimensions: 14 22 > > > > boundary conditions: > /home/dream/CHIMERE/chimere2017r4/../BIGFILES/OUTPUTS/Test/../INIBOUN.10/BOUN_CONCS.2009030700_2009030900_Test.list > >3 boundary conditions file(s) found > > Opening > /home/dream/CHIMERE/chimere2017r4/../BIGFILES/OUTPUTS/Test/../INIBOUN.10/BOUN_CONCS.2009030700_2009030900_Test.nc-gas > > Opening > /home/dream/CHIMERE/chimere2017r4/../BIGFILES/OUTPUTS/Test/../INIBOUN.10/BOUN_CONCS.2009030700_2009030900_Test.nc-aer > > Opening > /home/dream/CHIMERE/chimere2017r4/../BIGFILES/OUTPUTS/Test/../INIBOUN.10/BOUN_CONCS.2009030700_2009030900_Test.nc-dust > > Opening > /home/dream/CHIMERE/chimere2017r4/../BIGFILES/OUTPUTS/Test/../INIBOUN.10/BOUN_CONCS.2009030700_2009030900_Test.nc-gas > > Opening > /home/dream/CHIMERE/chimere2017r4/../BIGFILES/OUTPUTS/Test/../INIBOUN.10/BOUN_CONCS.2009030700_2009030900_Test.nc-aer > > Opening > /home/dream/CHIMERE/chimere2017r4/../BIGFILES/OUTPUTS/Test/../INIBOUN.10/BOUN_CONCS.2009030700_2009030900_Test.nc-dust > > --- > > Primary job terminated normally, but 1 process returned > > a non-zero exit code. Per user-direction, the job has been aborted. > > --- > > > -- > > mpirun noticed that process rank 5 with PID 0 on node localhost exited > on signal 9 (Killed). > > > -- > > > > real 3m51.733s > > user 0m5.044s > > sys 1m8.617s > > Abnormal termination of step2.sh > > > > ___ > > users mailing list > > users@lists.open-mpi.org > > https://lists.open-mpi.org/mailman/listinfo/users > > ___ > users mailing list > users@lists.open-mpi.org > https://lists.open-mpi.org/mailman/listinfo/users <> ___ users mailing list users@lists.open-mpi.org https://lists.open-mpi.org/mailman/listinfo/users
[OMPI users] mpirun noticed that process rank 5 with PID 0 on node localhost exited on signal 9 (Killed).
Hi everyone, I use openmpi-3.0.2 and I want to run chimere model with 8 processors, but in the step of parallel mode, the run stopped with the following error message, Please could you help me? Thank you in advance Zeinab +++ CHIMERE RUNNING IN PARALLEL MODE +++ MPI SUB-DOMAINS : rank izstart izend nzcount imstart imend nmcount i j 1 1 14 14 1 22 22 1 1 2 15 27 13 1 22 22 2 1 3 28 40 13 1 22 22 3 1 4 41 53 13 1 22 22 4 1 5 1 14 14 23 43 21 1 2 6 15 27 13 23 43 21 2 2 7 28 40 13 23 43 21 3 2 8 41 53 13 23 43 21 4 2 Sub domain dimensions: 14 22 boundary conditions: /home/dream/CHIMERE/chimere2017r4/../BIGFILES/OUTPUTS/Test/../INIBOUN.10/BOUN_CONCS.2009030700_2009030900_Test.list 3 boundary conditions file(s) found Opening /home/dream/CHIMERE/chimere2017r4/../BIGFILES/OUTPUTS/Test/../INIBOUN.10/BOUN_CONCS.2009030700_2009030900_Test.nc-gas Opening /home/dream/CHIMERE/chimere2017r4/../BIGFILES/OUTPUTS/Test/../INIBOUN.10/BOUN_CONCS.2009030700_2009030900_Test.nc-aer Opening /home/dream/CHIMERE/chimere2017r4/../BIGFILES/OUTPUTS/Test/../INIBOUN.10/BOUN_CONCS.2009030700_2009030900_Test.nc-dust Opening /home/dream/CHIMERE/chimere2017r4/../BIGFILES/OUTPUTS/Test/../INIBOUN.10/BOUN_CONCS.2009030700_2009030900_Test.nc-gas Opening /home/dream/CHIMERE/chimere2017r4/../BIGFILES/OUTPUTS/Test/../INIBOUN.10/BOUN_CONCS.2009030700_2009030900_Test.nc-aer Opening /home/dream/CHIMERE/chimere2017r4/../BIGFILES/OUTPUTS/Test/../INIBOUN.10/BOUN_CONCS.2009030700_2009030900_Test.nc-dust --- Primary job terminated normally, but 1 process returned a non-zero exit code. Per user-direction, the job has been aborted. --- -- mpirun noticed that process rank 5 with PID 0 on node localhost exited on signal 9 (Killed). -- real 3m51.733s user 0m5.044s sys 1m8.617s Abnormal termination of step2.sh ___ users mailing list users@lists.open-mpi.org https://lists.open-mpi.org/mailman/listinfo/users
Re: [OMPI users] --with-mpi-f90-size in openmpi-3.0.2
Thank you so much for your detailed answers. I use gfortran 4.8.3, what should I do? or what is the suitable openmpi version for this version? Thanks again Best wishes Zeinab في الخميس، 27 سبتمبر 2018 في 4:21 م تمت كتابة ما يلي بواسطة Jeff Squyres (jsquyres) via users <users@lists.open-mpi.org>: > On Sep 27, 2018, at 12:16 AM, Zeinab Salah wrote: > > > > I have a problem in running an air quality model, maybe because of the > size of calculations, so I tried different versions of openmpi. > > I want to install openmpi-3.0.2 with the option of > "--with-mpi-f90-size=medium", but this option is unrecognized in the new > versions. So, what is the update option for that, or how we can control the > size of the MPI F90 module in the new versions?, > > This option did, indeed, disappear in more recent versions of Open MPI. > > The short version is that if you have a "modern" gfortran (i.e., >= v4.9) > or any other modern fortran compiler, then you will get the full "mpi" > module. > > The "mpi-f90-size" option was only necessary for older gfortran versions > that had limitations that caused us to make the user choose: do you want > small, medium, or large? > > Meaning: if your gfortran is >= v4.9 or you're using a different fortran > compiler, don't worry about this option. > > > also, does this option make the numerical models to deal with lagre data > files? > > No; this option only had to do with how many MPI API interfaces were in > the "mpi" module (i.e., if your application invokes "use mpi" instead of > "include 'mpif.h'"). Even if you chose the "small" size (meaning: many MPI > APIs were not listed in the "mpi" module), all the MPI APIs would compile > and link and work at run-time just fine. The number of interfaces in the > "mpi" module basically just means how much compile-time checking you get > when you are compiling your MPI application. > > Check out this paper ( > https://www.open-mpi.org/papers/euro-pvmmpi-2005-fortran/) if you care > about the reasons why. > > -- > Jeff Squyres > jsquy...@cisco.com > > ___ > users mailing list > users@lists.open-mpi.org > https://lists.open-mpi.org/mailman/listinfo/users > ___ users mailing list users@lists.open-mpi.org https://lists.open-mpi.org/mailman/listinfo/users
[OMPI users] --with-mpi-f90-size in openmpi-3.0.2
Hi everyone, I have a problem in running an air quality model, maybe because of the size of calculations, so I tried different versions of openmpi. I want to install openmpi-3.0.2 with the option of "--with-mpi-f90-size=medium", but this option is unrecognized in the new versions. So, what is the update option for that, or how we can control the size of the MPI F90 module in the new versions?, also, does this option make the numerical models to deal with lagre data files? Thank you in advance. Best regards, Zeinab ___ users mailing list users@lists.open-mpi.org https://lists.open-mpi.org/mailman/listinfo/users
