[OMPI users] Is there a workaround available to get around fork() where I don't have access to the program's source code?
To Whom It May Concern: I have a program that I am running that has the MPI call fork() and when I run the program, I get the following warning: -- An MPI process has executed an operation involving a call to the "fork()" system call to create a child process. Open MPI is currently operating in a condition that could result in memory corruption or other system errors; your MPI job may hang, crash, or produce silent data corruption. The use of fork() (or system() or other calls that create child processes) is strongly discouraged. The process that invoked fork was: Local host: aes0 (PID 16225) MPI_COMM_WORLD rank: 0 If you are *absolutely sure* that your application will successfully and correctly survive a call to fork(), you may disable this warning by setting the mpi_warn_on_fork MCA parameter to 0. -- I don't have access to the source code for this program and when I run it, I do get a segmentation fault. Is there a way for me to work/get around this if I don't have access to the source code? Thank you. Sincerely, Ewen
Re: [OMPI users] Question about OpenMPI paths
All: Whoops. My apologies to everybody. Accidentally pressed the wrong combination of buttons on the keyboard and sent this email out prematurely. Please disregard. Thank you. Sincerely, Ewen From: users on behalf of Ewen Chan via users Sent: July 25, 2019 10:19 AM To: users@lists.open-mpi.org Cc: Ewen Chan Subject: [OMPI users] Question about OpenMPI paths To Whom It May Concern: I am trying to run Converge CFD by Converge Science using OpenMPI in CentOS 7.6.1810 x86_64 and I am getting the error: bash: orted: command not found I've already read the FAQ: https://www.open-mpi.org/faq/?category=running#adding-ompi-to-path Here's my system setup, environment variables, etc. OpenMPI version 1.10.7 Path to mpirun: /usr/lib64/openmpi/bin Path to openmpi libs: /usr/lib64/openmpi/lib $ cat ~/.bashrc PATH=$PATH export PATH LD_LIBRARY_PATH=$LD_LIBRARY_PATH export LD_LIBRARY_PATH $ cat ~/.bash_profile ... PATH=$PATH export PATH LD_LIBRARY_PATH=$LD_LIBRARY_PATH export LD_LIBRARY_PATH $ cat ~/.profile PATH=$PATH export PATH LD_LIBRARY_PATH=$LD_LIBRARY_PATH export LD_LIBRARY_PATH $ cat /etc/profile ... PATH=$PATH:...:/usr/lib64/openmpi/bin export PATH LD_LIBRARY_PATH=$LD_LIBRARY_PATH:/usr/lib64/openmpi/lib export LD_LIBRARY_PATH $ cat /home/user/cluster/node003_16_node004_16.txt node003 node003 node003 node003 node003 node003 node003 node003 node003 node003 node003 node003 node003 node003 node003 node003 node004 node004 node004 node004 node004 node004 node004 node004 ___ users mailing list users@lists.open-mpi.org https://lists.open-mpi.org/mailman/listinfo/users
[OMPI users] bash: orted: command not found -- ran through the FAQ already
To Whom It May Concern: I'm trying to run Converge CFD by Converge Science using OpenMPI and I am getting the error: bash: orted: command not found I've already read and executed the FAQ about adding OpenMPI to my PATH and LD_LIBRARY_PATH (https://www.open-mpi.org/faq/?category=running#adding-ompi-to-path). Here's my configuration: OS: CentOS 7.6.1810 x86_64 (it's a fresh install. I installed it last night.) OpenMPI version: 1.10.7 (that was the version that was available in the CentOS install repo) path to mpirun: /usr/lib64/openmpi/bin path to lib: /usr/lib64/openmpi/lib $ cat ~/.bashrc PATH=$PATH export PATH LD_LIBRARY_PATH=$LD_LIBRARY_PATH export LD_LIBRARY_PATH $ cat ~/.bash_profile PATH=$PATH export PATH LD_LIBRARY_PATH=$LD_LIBRARY_PATH export LD_LIBRARY_PATH $ cat ~/.profile PATH=$PATH export PATH LD_LIBRARY_PATH=$LD_LIBRARY_PATH export LD_LIBRARY_PATH $ cat /etc/profile ... PATH=$PATH:...:/usr/lib64/openmpi/bin export PATH LD_LIBRARY_PATH=$LD_LIBRARY_PATH:/usr/lib64/openmpi/lib export LD_LIBRARY_PATH SI8_premix_PFI_SAGE$ cat node003_16_node004_16.txt node003 node003 node003 node003 node003 node003 node003 node003 node003 node003 node003 node003 node003 node003 node003 node003 node004 node004 node004 node004 node004 node004 node004 node004 node004 node004 node004 node004 node004 node004 node004 node004 command that I am trying to run that results in the error: SI8_premix_PFI_SAGE$ time -p mpirun -hostfile node003_16_node004_16.txt /opt/converge_2.4.0/l_x86_64/bin/converge...ompi 2>&1 | tee run.log However, if I run where I explicitly give the absolute path to the mpirun, then it works: SI8_premix_PFI_SAGE$ time -p /usr/lib64/openmpi/bin/mpirun -hostfile node003_16_node004_16.txt /opt/converge_2.4.0/l_x86_64/bin/converge...ompi 2>&1 | tee run.log I also tried exporting the PATH and LD_LIBRARY_PATH to the slave node and that didn't seem to work (results in the same error): SI8_premix_PFI_SAGE$ time -p mpirun -x PATH -x LD_LIBRARY_PATH -hostfile node003_16_node004_16.txt /opt/converge_2.4.0/l_x86_64/bin/converge...ompi 2>&1 | tee run.log I think that I'm using bash shell (I think that's the default for CentOS users), but to be sure, I created the .profile anyways. passwordless ssh has been properly configured, so that's not an issue (and I've tested that permutatively). The two nodes can ping each other, back and forth, also permutatively as well. I'm at a loss as to why I need to specify the absolute path to mpirun despite having everything else set up and to me, it looks like that I've set everything else up correctly. Your help is greatly appreciated. Thank you. Sincerely, Ewen Chan ___ users mailing list users@lists.open-mpi.org https://lists.open-mpi.org/mailman/listinfo/users
[OMPI users] Question about OpenMPI paths
To Whom It May Concern: I am trying to run Converge CFD by Converge Science using OpenMPI in CentOS 7.6.1810 x86_64 and I am getting the error: bash: orted: command not found I've already read the FAQ: https://www.open-mpi.org/faq/?category=running#adding-ompi-to-path Here's my system setup, environment variables, etc. OpenMPI version 1.10.7 Path to mpirun: /usr/lib64/openmpi/bin Path to openmpi libs: /usr/lib64/openmpi/lib $ cat ~/.bashrc PATH=$PATH export PATH LD_LIBRARY_PATH=$LD_LIBRARY_PATH export LD_LIBRARY_PATH $ cat ~/.bash_profile ... PATH=$PATH export PATH LD_LIBRARY_PATH=$LD_LIBRARY_PATH export LD_LIBRARY_PATH $ cat ~/.profile PATH=$PATH export PATH LD_LIBRARY_PATH=$LD_LIBRARY_PATH export LD_LIBRARY_PATH $ cat /etc/profile ... PATH=$PATH:...:/usr/lib64/openmpi/bin export PATH LD_LIBRARY_PATH=$LD_LIBRARY_PATH:/usr/lib64/openmpi/lib export LD_LIBRARY_PATH $ cat /home/user/cluster/node003_16_node004_16.txt node003 node003 node003 node003 node003 node003 node003 node003 node003 node003 node003 node003 node003 node003 node003 node003 node004 node004 node004 node004 node004 node004 node004 node004 ___ users mailing list users@lists.open-mpi.org https://lists.open-mpi.org/mailman/listinfo/users
