Thomas, in order to test Open MPI, you can download https://raw.githubusercontent.com/open-mpi/ompi/master/examples/hello_c.c
and build it $ mpicc -o hello_c examples/hello_c.c and then run $ mpiexec --mca btl ^openib -N 5 ./hello_c It should display 5 different lines (rank 0 to 4 of 5). If you see the same line (I am 0 of 1) 5 times, this indicates an issue. Cheers, Gilles On Thu, Feb 11, 2021 at 12:36 AM Thomas Eylenbosch via devel < devel@lists.open-mpi.org> wrote: > Hello > > > > We are trying to run maker(http://www.yandell-lab.org/software/maker.html) > in combination with OpenMPI > > > > But when we are trying to submit a job with the maker and openmpi, > > We see the following error in the log file: > > --Next Contig-- > > #--------------------------------------------------------------------- > > Another instance of maker is processing *this* contig!! > > SeqID: chrA10 > > Length: 17398227 > > #--------------------------------------------------------------------- > > > > According to > > > http://gmod.827538.n3.nabble.com/Does-maker-support-muti-processing-for-a-single-long-fasta-sequence-using-openMPI-td4061342.html > > > > We have to run the following command mpiexec -mca btl ^openib -n 40 > maker -help > > “If you get a single help message then everything is fine. If you get 40 > help messages, then MPI is not communicating correctly.” > > > > We are using the following command to demonstrate what is going wrong: > > mpiexec -mca btl ^openib -N 5 gcc --version > > gcc (GCC) 10.2.0 > > Copyright (C) 2020 Free Software Foundation, Inc. > > This is free software; see the source for copying conditions. There is NO > > warranty; not even for MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. > > > > gcc (GCC) 10.2.0 > > Copyright (C) 2020 Free Software Foundation, Inc. > > This is free software; see the source for copying conditions. There is NO > > warranty; not even for MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. > > > > gcc (GCC) 10.2.0 > > Copyright (C) 2020 Free Software Foundation, Inc. > > This is free software; see the source for copying conditions. There is NO > > warranty; not even for MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. > > > > gcc (GCC) 10.2.0 > > Copyright (C) 2020 Free Software Foundation, Inc. > > This is free software; see the source for copying conditions. There is NO > > warranty; not even for MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. > > > > gcc (GCC) 10.2.0 > > Copyright (C) 2020 Free Software Foundation, Inc. > > This is free software; see the source for copying conditions. There is NO > > warranty; not even for MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. > > > > > > > > So we are getting the message 5 times, which means OpenMPI is not > correctly installed on our cluster? > > We are using EasyBuild to build/install our OpenMPI module. ( with the > default OpenMPI easyblock module) > > > > Best regards / met vriendelijke groeten > * Thomas Eylenbosch* > DevOps Engineer (OnSite), Gluo N.V. > > > > *Currently available at BASF Belgium Coordination Center CommV* > Email: thomas.eylenbo...@partners.basf.com > Postal Address: BASF Belgium Coordination Center CommV, Technologiepark > 101, 9052 Gent Zwijnaarde, Belgium > > > > BASF Belgium Coordination Center CommV > > Scheldelaan 600, 2040 Antwerpen, België > > RPR Antwerpen (afd. Antwerpen) > > BTW BE0862.390.376 > > > > *www.basf.be <http://www.basf.be>* > > > > Deutsche Bank AG > > IBAN: BE43 8262 8044 4801 > > BIC: DEUTBEBE > > > > > > Information on data protection can be found here: > https://www.basf.com/global/en/legal/data-protection-at-basf.html > > > > > > > > >
