Hi John,
We're using software on HPC system, because of that I have to compile it
from zero.
On 7/26/23 17:16, John Hearns wrote:
Another idiot question... Is there a Pack or Easy build recipe for
this software?
Should help you get it built.
On Wed, 26 Jul 2023, 10:27 Aziz Ogutlu via users,
<users@lists.open-mpi.org> wrote:
Hi Howard,
I'm using with salloc+mpirun command that explained on faq page
that you send, this time I'm getting error below:
Caught signal 11 (Segmentation fault: address not mapped to object
at address 0x30)
On 7/25/23 19:34, Pritchard Jr., Howard 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>
<mailto:howa...@lanl.gov>
*Date: *Tuesday, July 25, 2023 at 8:26 AM
*To: *Open MPI Users <users@lists.open-mpi.org>
<mailto:users@lists.open-mpi.org>
*Cc: *Aziz Ogutlu <aziz.ogu...@eduline.com.tr>
<mailto: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>
<mailto:users-boun...@lists.open-mpi.org> on behalf of Aziz
Ogutlu via users <users@lists.open-mpi.org>
<mailto:users@lists.open-mpi.org>
*Organization: *Eduline Bilisim
*Reply-To: *Open MPI Users <users@lists.open-mpi.org>
<mailto:users@lists.open-mpi.org>
*Date: *Tuesday, July 25, 2023 at 8:18 AM
*To: *Open MPI Users <users@lists.open-mpi.org>
<mailto:users@lists.open-mpi.org>
*Cc: *Aziz Ogutlu <aziz.ogu...@eduline.com.tr>
<mailto: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
--
İyi çalışmalar,
Aziz Öğütlü
Eduline Bilişim Sanayi ve Ticaret Ltd. Şti.www.eduline.com.tr
<http://www.eduline.com.tr>
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
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
