Very stupid question from me... I see you do a module load su2 Is it necessary to load the module for openmpi? Run 'ldd *SU2_CFD' * and look to see if there are missing libraries.
Apologies if this is a nonsense question. On Tue, 25 Jul 2023 at 18:00, Pritchard Jr., Howard via users < users@lists.open-mpi.org> wrote: > HI Aziz, > > > > Oh I see you referenced the faq. That section of the faq is discussing > how to make the Open MPI 4 series (and older) job launcher “know” about > the batch scheduler you are using. > > The relevant section for launching with srun is covered by this faq - > https://www-lb.open-mpi.org/faq/?category=slurm > > > > Howard > > > > *From: *"Pritchard Jr., Howard" <howa...@lanl.gov> > *Date: *Tuesday, July 25, 2023 at 8:26 AM > *To: *Open MPI Users <users@lists.open-mpi.org> > *Cc: *Aziz Ogutlu <aziz.ogu...@eduline.com.tr> > *Subject: *Re: [EXTERNAL] Re: [OMPI users] MPI_Init_thread error > > > > HI Aziz, > > > > Did you include –with-pmi2 on your Open MPI configure line? > > > > Howard > > > > *From: *users <users-boun...@lists.open-mpi.org> on behalf of Aziz Ogutlu > via users <users@lists.open-mpi.org> > *Organization: *Eduline Bilisim > *Reply-To: *Open MPI Users <users@lists.open-mpi.org> > *Date: *Tuesday, July 25, 2023 at 8:18 AM > *To: *Open MPI Users <users@lists.open-mpi.org> > *Cc: *Aziz Ogutlu <aziz.ogu...@eduline.com.tr> > *Subject: *[EXTERNAL] Re: [OMPI users] MPI_Init_thread error > > > > Hi Gilles, > > Thank you for your response. > > When I run srun --mpi=list, I get only pmi2. > > When I run command with --mpi=pmi2 parameter, I got same error. > > OpenMPI automatically support slurm after 4.x version. > https://www.open-mpi.org/faq/?category=building#build-rte > <https://urldefense.com/v3/__https:/www.open-mpi.org/faq/?category=building*build-rte__;Iw!!Bt8fGhp8LhKGRg!DNaoJu7zrmKRHUF76zzyFXi9n2Bq8K8Ud-yvTEIkUYtxz_1_2DFwrZAKofSbiBD1rhLyttDpQVrl12eaQ2CN$> > > > > On 7/25/23 12:55, Gilles Gouaillardet via users wrote: > > Aziz, > > > > When using direct run (e.g. srun), OpenMPI has to interact with SLURM. > > This is typically achieved via PMI2 or PMIx > > > > You can > > srun --mpi=list > > to list the available options on your system > > > > if PMIx is available, you can > > srun --mpi=pmix ... > > > > if only PMI2 is available, you need to make sure Open MPI was built with > SLURM support (e.g. configure --with-slurm ...) > > and then > > srun --mpi=pmi2 ... > > > > > > Cheers, > > > > Gilles > > > > On Tue, Jul 25, 2023 at 5:07 PM Aziz Ogutlu via users < > users@lists.open-mpi.org> wrote: > > Hi there all, > > We're using Slurm 21.08 on Redhat 7.9 HPC cluster with OpenMPI 4.0.3 + gcc > 8.5.0. > > When we run command below for call SU2, we get an error message: > > > > *$ srun -p defq --nodes=1 --ntasks-per-node=1 --time=01:00:00 --pty bash > -i* > > *$ module load su2/7.5.1* > > *$ SU2_CFD config.cfg* > > > > **** An error occurred in MPI_Init_thread* > > **** on a NULL communicator* > > **** MPI_ERRORS_ARE_FATAL (processes in this communicator will now abort,* > > **** and potentially your MPI job)* > > *[cnode003.hpc:17534] Local abort before MPI_INIT completed completed > successfully, but am not able to aggregate error messages, and not able to > guarantee that all other processes were killed!* > > -- > > Best regards, > > Aziz Öğütlü > > > > Eduline Bilişim Sanayi ve Ticaret Ltd. Şti. www.eduline.com.tr > <https://urldefense.com/v3/__http:/www.eduline.com.tr__;!!Bt8fGhp8LhKGRg!DNaoJu7zrmKRHUF76zzyFXi9n2Bq8K8Ud-yvTEIkUYtxz_1_2DFwrZAKofSbiBD1rhLyttDpQVrl1wUXbUrh$> > > Merkez Mah. Ayazma Cad. No:37 Papirus Plaza > > Kat:6 Ofis No:118 Kağıthane - İstanbul - Türkiye 34406 > > Tel : +90 212 324 60 61 Cep: +90 541 350 40 72 > > -- > > İyi çalışmalar, > > Aziz Öğütlü > > > > Eduline Bilişim Sanayi ve Ticaret Ltd. Şti. www.eduline.com.tr > <https://urldefense.com/v3/__http:/www.eduline.com.tr__;!!Bt8fGhp8LhKGRg!DNaoJu7zrmKRHUF76zzyFXi9n2Bq8K8Ud-yvTEIkUYtxz_1_2DFwrZAKofSbiBD1rhLyttDpQVrl1wUXbUrh$> > > Merkez Mah. Ayazma Cad. No:37 Papirus Plaza > > Kat:6 Ofis No:118 Kağıthane - İstanbul - Türkiye 34406 > > Tel : +90 212 324 60 61 Cep: +90 541 350 40 72 > >
