Re: compile question for pbdMPI, please
Ostrouchov, George
Hi Erin,
Would setting the OPAL_PREFIX environment variable as they do in https://forums.developer.nvidia.com/t/error-running-simple-mpi-code-with-openmpi-from-pgi-installe/135895 help?
I copy to https://groups.google.com/forum/?fromgroups#!forum/rbigdataprogramming so others can benefit or help if this does not solve it.
George
From: Erin Hodgess <erinm....@gmail.com>
Date: Monday, June 29, 2020 at 5:56 PM
To: George Ostrouchov <geor...@gmail.com>
Subject: compile question for pbdMPI, please
Hi Dr. Ostrouchov:
I am using WSL on Windows as Ubuntu 20.04. I am trying to install the pbdMPI package into R-4.0.2.
The MPI functions and libraries are in /opt/pgi/
When I try to install, the wrong prefix is appearing in the files:
Sorry! You were supposed to get help about: orte_init:startup:internal-failure But I couldn't open the help file: /proj/pgi/linux86-64-llvm/2019/mpi/openmpi-3.1.3/share/openmpi/help-orte-runtime: No such file or directory.
/proj should be /opt
I looked through the configure script but I'm not seeing where it would update to proj.
Any help would be appreciated.
Sincerely
Erin
Erin Hodgess, PhD
mailto: erinm....@gmail.com
Ostrouchov, George
we don't work much with Windows environments and this is likely a WSL related issue. I ran it by Drew too - see below. I am not sure if PGI would necessarily give you better performance. Maybe bringing Docker (https://hub.docker.com/_/r-base and https://hub.docker.com/u/rbigdata/ ) into the mix would be helpful? Apparently WSL also supports Docker https://docs.docker.com/docker-for-windows/wsl/
George
-----Original Message-----
From: "Schmidt, Drew" <schm...@ornl.gov>
Date: Tuesday, June 30, 2020 at 11:57 AM
To: George Ostrouchov <geor...@gmail.com>
Subject: Re: compile question for pbdMPI, please
No clue. My guess is it's some kind of mounting problem with WSL, but I don't have the ability to test that.
NVIDIA bought PGI a few years ago.
________________________________________
From: Ostrouchov, George <geor...@gmail.com>
Sent: Tuesday, June 30, 2020 11:11 AM
To: Schmidt, Drew
Subject: [EXTERNAL] FW: compile question for pbdMPI, please
Any opinion?
Is PGI an NVIDIA thing?
From: Erin Hodgess <erinm....@gmail.com>
Date: Monday, June 29, 2020 at 7:20 PM
To: George Ostrouchov <geor...@gmail.com>
Here is an opinion question please. Have you seen good results with the bundled OpenMPI compiler from PGI, or are things better with regular OpenMPI, please?
Thanks,
Erin
On Mon, Jun 29, 2020 at 4:15 PM Ostrouchov, George <geor...@gmail.com<mailto:geor...@gmail.com>> wrote:
Hi Erin,
Would setting the OPAL_PREFIX environment variable as they do in https://forums.developer.nvidia.com/t/error-running-simple-mpi-code-with-openmpi-from-pgi-installe/135895 help?
I copy to https://groups.google.com/forum/?fromgroups#!forum/rbigdataprogramming so others can benefit or help if this does not solve it.
George
Date: Monday, June 29, 2020 at 5:56 PM
To: George Ostrouchov <geor...@gmail.com<mailto:geor...@gmail.com>>
Subject: compile question for pbdMPI, please
Hi Dr. Ostrouchov:
I am using WSL on Windows as Ubuntu 20.04. I am trying to install the pbdMPI package into R-4.0.2.
The MPI functions and libraries are in /opt/pgi/
When I try to install, the wrong prefix is appearing in the files:
Sorry! You were supposed to get help about: orte_init:startup:internal-failure But I couldn't open the help file: /proj/pgi/linux86-64-llvm/2019/mpi/openmpi-3.1.3/share/openmpi/help-orte-runtime: No such file or directory.
/proj should be /opt
I looked through the configure script but I'm not seeing where it would update to proj.
Any help would be appreciated.
Sincerely
Erin
Erin Hodgess, PhD
--
Erin Hodgess, PhD
mailto: erinm....@gmail.com<mailto:erinm....@gmail.com>